Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 316 of 343
Found at i:102226888 original size:3 final size:3
Alignment explanation
Indices: 102226872--102226941 Score: 65
Period size: 3 Copynumber: 24.0 Consensus size: 3
102226862 TCCTCCTCCC
* * *
102226872 CTT CTT TTT CCTT CTT CTT CTT C-T CTT CTT -TC CTT CTT CTC CTT
1 CTT CTT CTT -CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
* *
102226916 CTT -TT CTT TTT CTT CTT CTC CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT
102226942 TGTTCCCGAA
Statistics
Matches: 53, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
2 5 0.09
3 46 0.87
4 2 0.04
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:102226906 original size:22 final size:22
Alignment explanation
Indices: 102226874--102226942 Score: 85
Period size: 22 Copynumber: 3.4 Consensus size: 22
102226864 CTCCTCCCCT
102226874 TCTT-TTTCCTTCTTCTTCTTC
1 TCTTCTTTCCTTCTTCTTCTTC
*
102226895 TCTTCTTTCCTTCTTCTCCTTC
1 TCTTCTTTCCTTCTTCTTCTTC
*
102226917 TTTTCTTT--TTCTTCTTC-TC
1 TCTTCTTTCCTTCTTCTTCTTC
102226936 -CTTCTTT
1 TCTTCTTT
102226943 GTTCCCGAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
18 6 0.14
19 2 0.05
20 8 0.19
21 4 0.09
22 23 0.53
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (22 bp):
TCTTCTTTCCTTCTTCTTCTTC
Found at i:102227133 original size:17 final size:18
Alignment explanation
Indices: 102227111--102227145 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
102227101 TCACCTATTT
102227111 TTTTTA-TTTTTTTTTCG
1 TTTTTACTTTTTTTTTCG
102227128 TTTTTAGCTTTTTTTTTC
1 TTTTTA-CTTTTTTTTTC
102227146 ACTGTTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
19 10 0.62
ACGTcount: A:0.06, C:0.09, G:0.06, T:0.80
Consensus pattern (18 bp):
TTTTTACTTTTTTTTTCG
Found at i:102229071 original size:13 final size:13
Alignment explanation
Indices: 102229053--102229080 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
102229043 TATTACTATA
102229053 TTTATAGTTAATT
1 TTTATAGTTAATT
102229066 TTTATAGTTAATT
1 TTTATAGTTAATT
102229079 TT
1 TT
102229081 AATCATATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (13 bp):
TTTATAGTTAATT
Found at i:102236065 original size:118 final size:118
Alignment explanation
Indices: 102235905--102236135 Score: 381
Period size: 118 Copynumber: 2.0 Consensus size: 118
102235895 TATTTCCAGT
102235905 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
1 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
* *
102235970 CCTACCCCGGTTACTCAGCCAGTCACGATTTGAGCCATACTCATAACCTCGGC
66 CCTACCCCGGTTACTCAGCCAGTCACGATCTAAGCCATACTCATAACCTCGGC
****
102236023 TAGCGGAGTTTTACTTGTCACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
1 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
* **
102236088 CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCTGTACTCATAACC
66 CCTACCCCGGTTACTCAGCCAGTCACGATCTAAGCCATACTCATAACC
102236136 ATGGAAAACA
Statistics
Matches: 104, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
118 104 1.00
ACGTcount: A:0.29, C:0.32, G:0.18, T:0.22
Consensus pattern (118 bp):
TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
CCTACCCCGGTTACTCAGCCAGTCACGATCTAAGCCATACTCATAACCTCGGC
Found at i:102246205 original size:22 final size:22
Alignment explanation
Indices: 102246180--102246226 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
102246170 GAAAAGAGCA
102246180 AAACGAAAGCAAGGGAAAGGAG
1 AAACGAAAGCAAGGGAAAGGAG
**
102246202 AAACGGCAGCAAGGGAAAGGAG
1 AAACGAAAGCAAGGGAAAGGAG
102246224 AAA
1 AAA
102246227 AAAACGATAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.53, C:0.11, G:0.36, T:0.00
Consensus pattern (22 bp):
AAACGAAAGCAAGGGAAAGGAG
Found at i:102248022 original size:30 final size:31
Alignment explanation
Indices: 102247988--102248049 Score: 74
Period size: 30 Copynumber: 2.0 Consensus size: 31
102247978 TGACTCCATA
*
102247988 TTTTA-AACTAAGATATTTTATATATT-TCTT
1 TTTTAGAAATAAGAT-TTTTATATATTCTCTT
* *
102248018 TTTTAGAAATATGATTTTTATTTATTCTCTT
1 TTTTAGAAATAAGATTTTTATATATTCTCTT
102248049 T
1 T
102248050 ATCATTTCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
30 15 0.56
31 12 0.44
ACGTcount: A:0.29, C:0.06, G:0.05, T:0.60
Consensus pattern (31 bp):
TTTTAGAAATAAGATTTTTATATATTCTCTT
Found at i:102250855 original size:23 final size:23
Alignment explanation
Indices: 102250825--102250872 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
102250815 TCAAGAAAAC
102250825 ACAATATTTATATATCATCATTT
1 ACAATATTTATATATCATCATTT
102250848 ACAATATTTATATATCATCATTT
1 ACAATATTTATATATCATCATTT
102250871 AC
1 AC
102250873 CATTCTCTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.40, C:0.15, G:0.00, T:0.46
Consensus pattern (23 bp):
ACAATATTTATATATCATCATTT
Found at i:102252607 original size:13 final size:13
Alignment explanation
Indices: 102252589--102252616 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
102252579 TTATCATATA
102252589 TTTATAGTTAATT
1 TTTATAGTTAATT
102252602 TTTATAGTTAATT
1 TTTATAGTTAATT
102252615 TT
1 TT
102252617 AATCATATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (13 bp):
TTTATAGTTAATT
Found at i:102252710 original size:13 final size:13
Alignment explanation
Indices: 102252692--102252719 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
102252682 TATTACTATA
102252692 TTTATAGTTAATT
1 TTTATAGTTAATT
102252705 TTTATAGTTAATT
1 TTTATAGTTAATT
102252718 TT
1 TT
102252720 AATCATAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (13 bp):
TTTATAGTTAATT
Found at i:102253929 original size:16 final size:16
Alignment explanation
Indices: 102253897--102253930 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
102253887 TACACAAATC
*
102253897 AAAGAATTATTAGAAA
1 AAAGAATTAATAGAAA
102253913 AAAG-ATTAATAGAAA
1 AAAGAATTAATAGAAA
102253928 AAA
1 AAA
102253931 CTAATAGTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.68, C:0.00, G:0.12, T:0.21
Consensus pattern (16 bp):
AAAGAATTAATAGAAA
Found at i:102259501 original size:24 final size:24
Alignment explanation
Indices: 102259469--102259520 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
102259459 TGTCTATCTC
102259469 TCTTACTGCCTCAAATCTCTTCCA
1 TCTTACTGCCTCAAATCTCTTCCA
102259493 TCTTACTGCCTCAAATCTCTTCCA
1 TCTTACTGCCTCAAATCTCTTCCA
102259517 TCTT
1 TCTT
102259521 GGTTTCTTGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.19, C:0.37, G:0.04, T:0.40
Consensus pattern (24 bp):
TCTTACTGCCTCAAATCTCTTCCA
Found at i:102262202 original size:15 final size:15
Alignment explanation
Indices: 102262182--102262211 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
102262172 ATCCTAAAAA
*
102262182 TTCTATTTCTGTTTT
1 TTCTATTTCTATTTT
102262197 TTCTATTTCTATTTT
1 TTCTATTTCTATTTT
102262212 CTTAGGACTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.13, G:0.03, T:0.73
Consensus pattern (15 bp):
TTCTATTTCTATTTT
Found at i:102268489 original size:28 final size:29
Alignment explanation
Indices: 102268453--102268507 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
102268443 ATTTATTAGA
102268453 GTTAAGTGG-ATGATTT-AGGGTTTAAATG
1 GTTAAGTGGAATGATTTCA-GGTTTAAATG
*
102268481 GTTAGGTGGAATGATTTCAGGTTTAAA
1 GTTAAGTGGAATGATTTCAGGTTTAAA
102268508 ATAAATGATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 8 0.33
29 15 0.62
30 1 0.04
ACGTcount: A:0.29, C:0.02, G:0.31, T:0.38
Consensus pattern (29 bp):
GTTAAGTGGAATGATTTCAGGTTTAAATG
Found at i:102269055 original size:29 final size:29
Alignment explanation
Indices: 102269003--102269069 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
102268993 AGGTGGTTTT
* *
102269003 GGGTTTTAATGATTAGGTAAGATGGCTCG
1 GGGTTTAAATGATTAGGAAAGATGGCTCG
* *
102269032 GGGTTTAAATGATTA-GAAAGGATGGTTTG
1 GGGTTTAAATGATTAGGAAA-GATGGCTCG
102269061 GGGTTTAAA
1 GGGTTTAAA
102269070 ATTAAATGAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.03, G:0.34, T:0.34
Consensus pattern (29 bp):
GGGTTTAAATGATTAGGAAAGATGGCTCG
Found at i:102271661 original size:19 final size:17
Alignment explanation
Indices: 102271637--102271671 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
102271627 AGTAAAATAT
102271637 AAATTACAAACATAAAAAA
1 AAATTA-AAACA-AAAAAA
102271656 AAATTAAAACAAAAAA
1 AAATTAAAACAAAAAA
102271672 CTCCAACACA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 5 0.31
19 6 0.38
ACGTcount: A:0.77, C:0.09, G:0.00, T:0.14
Consensus pattern (17 bp):
AAATTAAAACAAAAAAA
Found at i:102271908 original size:26 final size:25
Alignment explanation
Indices: 102271878--102271937 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 25
102271868 TACAAAACAA
*
102271878 AAAATATAATC-ATAAATATTAAATAT
1 AAAATATAA-CAAT-AATATAAAATAT
*
102271904 AAAATATAACAATAATGTAAAATAT
1 AAAATATAACAATAATATAAAATAT
102271929 AAACATATA
1 AAA-ATATA
102271938 TTTAATATAC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 14 0.47
26 16 0.53
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.30
Consensus pattern (25 bp):
AAAATATAACAATAATATAAAATAT
Found at i:102273299 original size:20 final size:20
Alignment explanation
Indices: 102273276--102273321 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
102273266 AGAGGCACAG
*
102273276 AAGTGTAAACAAGAGCACCA
1 AAGTGCAAACAAGAGCACCA
* * *
102273296 AAGTGCAAACAGGGGCACCG
1 AAGTGCAAACAAGAGCACCA
102273316 AAGTGC
1 AAGTGC
102273322 GAACTTGTAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.41, C:0.22, G:0.28, T:0.09
Consensus pattern (20 bp):
AAGTGCAAACAAGAGCACCA
Found at i:102275462 original size:13 final size:13
Alignment explanation
Indices: 102275444--102275469 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
102275434 AATGGCATAT
102275444 TATTCAACCTCAA
1 TATTCAACCTCAA
102275457 TATTCAACCTCAA
1 TATTCAACCTCAA
102275470 GAAGAAAGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.31, G:0.00, T:0.31
Consensus pattern (13 bp):
TATTCAACCTCAA
Found at i:102279203 original size:26 final size:26
Alignment explanation
Indices: 102279152--102279203 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
102279142 TCATAAGTAT
*
102279152 TTTAAATTTCTATTTTGTTTCCTTAA
1 TTTAAATTTCTATTTTGTTTCATTAA
*
102279178 TTTAAATATTCTATTTT-TTTTATTAA
1 TTTAAAT-TTCTATTTTGTTTCATTAA
102279204 CTCTAGTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 14 0.61
27 9 0.39
ACGTcount: A:0.27, C:0.08, G:0.02, T:0.63
Consensus pattern (26 bp):
TTTAAATTTCTATTTTGTTTCATTAA
Found at i:102279337 original size:13 final size:13
Alignment explanation
Indices: 102279319--102279344 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
102279309 AATGACATAT
102279319 TATTCAAGCTCAA
1 TATTCAAGCTCAA
102279332 TATTCAAGCTCAA
1 TATTCAAGCTCAA
102279345 GAGGAAACTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.31
Consensus pattern (13 bp):
TATTCAAGCTCAA
Found at i:102288765 original size:16 final size:16
Alignment explanation
Indices: 102288744--102288775 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
102288734 ATAAATGCTA
102288744 AGCTTCAATCTCTTCT
1 AGCTTCAATCTCTTCT
102288760 AGCTTCAATCTCTTCT
1 AGCTTCAATCTCTTCT
102288776 CAATTAGGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.31, G:0.06, T:0.44
Consensus pattern (16 bp):
AGCTTCAATCTCTTCT
Found at i:102294993 original size:73 final size:73
Alignment explanation
Indices: 102294896--102295414 Score: 767
Period size: 73 Copynumber: 7.1 Consensus size: 73
102294886 TGATGTTTTT
* * ** * * *
102294896 ATTTCTATTT-TCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 ATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGG
102294960 TAATTTCA
66 TAATTTCA
*
102294968 ATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGG
1 ATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGG
102295033 TAATTTCA
66 TAATTTCA
*
102295041 ATTTCTGTTTGTCAAAACA-CAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAG
1 ATTTCTGTTTGTCAAAA-ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAG
102295105 GTAATTTCA
65 GTAATTTCA
102295114 ATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGG
1 ATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGG
102295179 TAATTTCA
66 TAATTTCA
* * *
102295187 ATTTCTGTTTGTC-AAAATACAGCTCATATTGTGAGAGGTGAGTTGAGCCTCAAGGCACGCTGAG
1 ATTTCTGTTTGTCAAAAAT-CAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAG
102295251 GTAATTTCA
65 GTAATTTCA
*
102295260 ATTTCTGTTTGTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGG
1 ATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGG
**
102295325 TGCTTTTCA
66 T-AATTTCA
* * * * *
102295334 AGTTCTGCTTT-TCAAAAAAATCATCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACATGCTG
1 ATTTCTG-TTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTG
*
102295398 AGGTATTTTCA
63 AGGTAATTTCA
102295409 ATTTCT
1 ATTTCT
102295415 ATTTTTTTCA
Statistics
Matches: 412, Mismatches: 26, Indels: 15
0.91 0.06 0.03
Matches are distributed among these distances:
72 15 0.04
73 316 0.77
74 19 0.05
75 14 0.03
76 48 0.12
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (73 bp):
ATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGG
TAATTTCA
Found at i:102295424 original size:16 final size:16
Alignment explanation
Indices: 102295403--102295436 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
102295393 TGCTGAGGTA
*
102295403 TTTTCAATTTCTATTT
1 TTTTCAATTTATATTT
102295419 TTTTCAATTTATATTT
1 TTTTCAATTTATATTT
102295435 TT
1 TT
102295437 CAAAAATCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.21, C:0.09, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTCAATTTATATTT
Found at i:102295435 original size:14 final size:16
Alignment explanation
Indices: 102295403--102295439 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
102295393 TGCTGAGGTA
*
102295403 TTTTCAATTTCTATTT
1 TTTTCAATTTCTATAT
102295419 TTTTCAA-TT-TATAT
1 TTTTCAATTTCTATAT
102295433 TTTTCAA
1 TTTTCAA
102295440 AAATCAACTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 11 0.55
15 2 0.10
16 7 0.35
ACGTcount: A:0.24, C:0.11, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTTCAATTTCTATAT
Found at i:102295515 original size:18 final size:18
Alignment explanation
Indices: 102295492--102295526 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
102295482 CGCTGAGCTA
*
102295492 TTTTCAATTTCTATTTTT
1 TTTTCAATTTATATTTTT
102295510 TTTTCAATTTATATTTT
1 TTTTCAATTTATATTTT
102295527 CAAAAATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.09, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTCAATTTATATTTTT
Found at i:102295557 original size:90 final size:89
Alignment explanation
Indices: 102295349--102295565 Score: 321
Period size: 89 Copynumber: 2.4 Consensus size: 89
102295339 TGCTTTTCAA
* * * *
102295349 AAAAATCATCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGCTGAGCTATTTTCAATTTC
102295414 TATTTTTTTCAATTTATATTTTTC
66 TATTTTTTTCAATTTATATTTTTC
* *
102295438 AAAAATCAACTCATATTGCGAGA-AGTGAGTTTAGCCTCAGGACACGCTGAGCTATTTTCAATTT
1 AAAAATCAACTCATATTGCGAGAGA-TGAGTTGAGCCTCAAGACACGCTGAGCTATTTTCAATTT
102295502 CTATTTTTTTTTCAATTTATA-TTTTC
65 CTA--TTTTTTTCAATTTATATTTTTC
* *
102295528 AAAAATTAATTCATATTGCGAGAGATGAGTTGAGCCTC
1 AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTC
102295566 GGGGCACATG
Statistics
Matches: 115, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
89 60 0.52
90 38 0.33
91 17 0.15
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.39
Consensus pattern (89 bp):
AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGCTGAGCTATTTTCAATTTC
TATTTTTTTCAATTTATATTTTTC
Found at i:102296429 original size:30 final size:30
Alignment explanation
Indices: 102296393--102296491 Score: 180
Period size: 30 Copynumber: 3.3 Consensus size: 30
102296383 CTAGCCTTTG
102296393 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
102296423 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
* *
102296453 CCACTACCTACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
102296483 CCACCACCA
1 CCACCACCA
102296492 CTTGTACCTA
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 65 1.00
ACGTcount: A:0.26, C:0.51, G:0.06, T:0.17
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:102299110 original size:15 final size:15
Alignment explanation
Indices: 102299072--102299124 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
102299062 GTACATGAAA
*
102299072 TAATTTTATA-ATTA
1 TAATTTTATATATTT
*
102299086 TATATATTATAT-TTT
1 TA-ATTTTATATATTT
102299101 TAGATTTTATATATTT
1 TA-ATTTTATATATTT
102299117 TAATTTTA
1 TAATTTTA
102299125 AAATGATAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
14 2 0.06
15 25 0.78
16 5 0.16
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (15 bp):
TAATTTTATATATTT
Found at i:102301880 original size:48 final size:48
Alignment explanation
Indices: 102301809--102301904 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
102301799 TCTAACGATG
102301809 TCGAAAATAGTGGTTCTATGAACTCGTAGATTATATTATTTAATATTT
1 TCGAAAATAGTGGTTCTATGAACTCGTAGATTATATTATTTAATATTT
102301857 TCGAAAATAGTGGTTCTATGAACTCGTAGATTATATTATTTAATATTT
1 TCGAAAATAGTGGTTCTATGAACTCGTAGATTATATTATTTAATATTT
102301905 ACGAGCTAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.33, C:0.08, G:0.15, T:0.44
Consensus pattern (48 bp):
TCGAAAATAGTGGTTCTATGAACTCGTAGATTATATTATTTAATATTT
Found at i:102304249 original size:46 final size:46
Alignment explanation
Indices: 102304197--102304510 Score: 423
Period size: 46 Copynumber: 6.8 Consensus size: 46
102304187 AGTGTACTCT
* *
102304197 CTGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
102304243 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
102304289 GTGATATGAAATGTGTAAGACCATGGTTAAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
102304335 GTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
102304381 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** * *
102304427 ATGACGGGAAAATGAATAAGACAATGGTTGAAAGATACCATGGCAAC
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
102304474 ATGACA-GAAAACGAGTAAAACCATAGTTGAAAGATAC
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATAC
102304511 TATGACATCA
Statistics
Matches: 247, Mismatches: 20, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
46 206 0.83
47 41 0.17
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:102311098 original size:18 final size:18
Alignment explanation
Indices: 102311075--102311111 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
102311065 TACCTAGCTT
*
102311075 TCAATATCAATACCAAAA
1 TCAATATCAACACCAAAA
*
102311093 TCAATATCGACACCAAAA
1 TCAATATCAACACCAAAA
102311111 T
1 T
102311112 TGAAACACCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.24, G:0.03, T:0.22
Consensus pattern (18 bp):
TCAATATCAACACCAAAA
Found at i:102316059 original size:49 final size:49
Alignment explanation
Indices: 102316002--102316098 Score: 176
Period size: 49 Copynumber: 2.0 Consensus size: 49
102315992 TGAAATATGT
* *
102316002 ATTGATTAATGGAATCTGGAATCAGACCAAATAATGATTCATGAATAAA
1 ATTGATTAATGGAATCTAGAATCAGACCAAAGAATGATTCATGAATAAA
102316051 ATTGATTAATGGAATCTAGAATCAGACCAAAGAATGATTCATGAATAA
1 ATTGATTAATGGAATCTAGAATCAGACCAAAGAATGATTCATGAATAA
102316099 GTCAACTAAG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.45, C:0.10, G:0.16, T:0.28
Consensus pattern (49 bp):
ATTGATTAATGGAATCTAGAATCAGACCAAAGAATGATTCATGAATAAA
Found at i:102316831 original size:16 final size:17
Alignment explanation
Indices: 102316801--102316836 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
102316791 TCAGAAAACT
102316801 AAAAGTCTTCCAGTTTC
1 AAAAGTCTTCCAGTTTC
*
102316818 AAAA-TCTTCTAGTTTC
1 AAAAGTCTTCCAGTTTC
102316834 AAA
1 AAA
102316837 GTCCAAGAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.36, C:0.19, G:0.08, T:0.36
Consensus pattern (17 bp):
AAAAGTCTTCCAGTTTC
Found at i:102320736 original size:14 final size:14
Alignment explanation
Indices: 102320717--102320746 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
102320707 CATTTGCTCA
102320717 TTCTTTTCTTTCTT
1 TTCTTTTCTTTCTT
*
102320731 TTCTTTTCTTTGTT
1 TTCTTTTCTTTCTT
102320745 TT
1 TT
102320747 GTTTGGCTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.00, C:0.17, G:0.03, T:0.80
Consensus pattern (14 bp):
TTCTTTTCTTTCTT
Found at i:102325658 original size:18 final size:20
Alignment explanation
Indices: 102325632--102325677 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
102325622 TTATTTTTAA
102325632 ATAAA-TTTAAT-AT-TTTT
1 ATAAATTTTAATAATATTTT
102325649 ATAAATTTTAATAATATTTT
1 ATAAATTTTAATAATATTTT
102325669 A-AAATTTTA
1 ATAAATTTTA
102325678 TAAAAATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.19
18 6 0.23
19 10 0.38
20 5 0.19
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
ATAAATTTTAATAATATTTT
Found at i:102325663 original size:21 final size:22
Alignment explanation
Indices: 102325639--102325694 Score: 73
Period size: 21 Copynumber: 2.6 Consensus size: 22
102325629 TAAATAAATT
102325639 TAATATTTTTATAAA-TTT-TAA
1 TAATATTTTTA-AAATTTTATAA
102325660 TAATA-TTTTAAAATTTTATAA
1 TAATATTTTTAAAATTTTATAA
*
102325681 AAATATTTTTAAAA
1 TAATATTTTTAAAA
102325695 AATATTTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
19 3 0.10
20 8 0.26
21 12 0.39
22 8 0.26
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TAATATTTTTAAAATTTTATAA
Found at i:102325669 original size:11 final size:11
Alignment explanation
Indices: 102325639--102325689 Score: 54
Period size: 10 Copynumber: 4.8 Consensus size: 11
102325629 TAAATAAATT
*
102325639 TAATATTTTTA
1 TAATATTTTAA
102325650 TAA-ATTTTAA
1 TAATATTTTAA
102325660 TAATATTTTAA
1 TAATATTTTAA
102325671 -AAT-TTTATAA
1 TAATATTT-TAA
*
102325681 AAATATTTT
1 TAATATTTT
102325690 TAAAAAATAT
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
9 3 0.09
10 15 0.43
11 14 0.40
12 3 0.09
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
TAATATTTTAA
Found at i:102325695 original size:13 final size:14
Alignment explanation
Indices: 102325673--102325703 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
102325663 TATTTTAAAA
102325673 TTTTATAAAAATAT
1 TTTTATAAAAATAT
102325687 TTTTA-AAAAATAT
1 TTTTATAAAAATAT
102325700 TTTT
1 TTTT
102325704 TTAATTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TTTTATAAAAATAT
Found at i:102327449 original size:22 final size:23
Alignment explanation
Indices: 102327403--102327448 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
102327393 TTAGATTATA
*
102327403 TATTTTTCTATTTTTAAATATTT
1 TATTTTTCAATTTTTAAATATTT
102327426 TATTTTT-AATTTTATAAATATTT
1 TATTTTTCAATTTT-TAAATATTT
102327449 AAAGTTTATG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (23 bp):
TATTTTTCAATTTTTAAATATTT
Found at i:102327456 original size:23 final size:22
Alignment explanation
Indices: 102327412--102327456 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
102327402 ATATTTTTCT
* **
102327412 ATTTTTAAATATTTTATTTTTA
1 ATTTTTAAATATTTAAAGTTTA
102327434 ATTTTATAAATATTTAAAGTTTA
1 ATTTT-TAAATATTTAAAGTTTA
102327457 TGTATAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (22 bp):
ATTTTTAAATATTTAAAGTTTA
Found at i:102328563 original size:17 final size:17
Alignment explanation
Indices: 102328537--102328573 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
102328527 ACATGTAATT
*
102328537 TAAAAATTTTAAAAATA
1 TAAAAATTTTAAAAAAA
*
102328554 TAAAATTTTTAAAAAAA
1 TAAAAATTTTAAAAAAA
102328571 TAA
1 TAA
102328574 TGAAAAGTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
TAAAAATTTTAAAAAAA
Found at i:102331731 original size:2 final size:2
Alignment explanation
Indices: 102331724--102331750 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
102331714 TTTATTGGCT
102331724 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
102331751 TTCTATCTTT
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:102340125 original size:28 final size:27
Alignment explanation
Indices: 102340073--102340128 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
102340063 AAATTCGACT
*
102340073 TTTTAAAAAATAAAATACAATAAAATA
1 TTTTAAAAAATAAAATACAAAAAAATA
* *
102340100 TTTTAAAAAATAAATTGATAAAAAAATA
1 TTTTAAAAAATAAAAT-ACAAAAAAATA
102340128 T
1 T
102340129 AAATATTCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 15 0.60
28 10 0.40
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (27 bp):
TTTTAAAAAATAAAATACAAAAAAATA
Found at i:102346036 original size:26 final size:26
Alignment explanation
Indices: 102346007--102346061 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
102345997 TCTTTCTAAA
102346007 AAATGATA-ATTAACATTTCCAACGCC
1 AAAT-ATATATTAACATTTCCAACGCC
* *
102346033 AAATTTATATTAACATTTCCAATGCC
1 AAATATATATTAACATTTCCAACGCC
102346059 AAA
1 AAA
102346062 CTTTGATATG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 2 0.08
26 24 0.92
ACGTcount: A:0.44, C:0.20, G:0.05, T:0.31
Consensus pattern (26 bp):
AAATATATATTAACATTTCCAACGCC
Found at i:102346078 original size:26 final size:26
Alignment explanation
Indices: 102346015--102346070 Score: 85
Period size: 26 Copynumber: 2.1 Consensus size: 26
102346005 AAAAATGATA
102346015 ATTAACATTTCCAACGCCAAATTTAT
1 ATTAACATTTCCAACGCCAAATTTAT
*
102346041 ATTAACATTTCCAATGCCAAACTTTGAT
1 ATTAACATTTCCAACGCCAAA-TTT-AT
102346069 AT
1 AT
102346071 GCATTTCCCC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 20 0.74
27 3 0.11
28 4 0.15
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.36
Consensus pattern (26 bp):
ATTAACATTTCCAACGCCAAATTTAT
Found at i:102349387 original size:14 final size:14
Alignment explanation
Indices: 102349368--102349396 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
102349358 TAAAGCTCTG
102349368 TTTGGTTGCGGCGT
1 TTTGGTTGCGGCGT
102349382 TTTGGTTGCGGCGT
1 TTTGGTTGCGGCGT
102349396 T
1 T
102349397 CGCTACTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.00, C:0.14, G:0.41, T:0.45
Consensus pattern (14 bp):
TTTGGTTGCGGCGT
Found at i:102355928 original size:34 final size:34
Alignment explanation
Indices: 102355885--102355953 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
102355875 GGGCCCCTCC
*
102355885 ACCTATTACCAAGCGGTTTTAGGTTTGATGCTTA
1 ACCTATTACCAAGCGGTATTAGGTTTGATGCTTA
*
102355919 ACCTATTACCAAGTGGTATTAGGTTTGATGCTTA
1 ACCTATTACCAAGCGGTATTAGGTTTGATGCTTA
102355953 A
1 A
102355954 TAACAAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.38
Consensus pattern (34 bp):
ACCTATTACCAAGCGGTATTAGGTTTGATGCTTA
Found at i:102362014 original size:25 final size:25
Alignment explanation
Indices: 102361986--102362035 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
102361976 TAACAAAAAA
102361986 TATTTCTTGCTTAGCCTAGTTTAAC
1 TATTTCTTGCTTAGCCTAGTTTAAC
102362011 TATTTCTTGCTTAGCCTAGTTTAAC
1 TATTTCTTGCTTAGCCTAGTTTAAC
102362036 CCGTCTAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.20, C:0.20, G:0.12, T:0.48
Consensus pattern (25 bp):
TATTTCTTGCTTAGCCTAGTTTAAC
Found at i:102370157 original size:3 final size:3
Alignment explanation
Indices: 102370151--102370190 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
102370141 GAGGAGGAGG
102370151 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
102370191 AGAGAAGAGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:102370203 original size:12 final size:12
Alignment explanation
Indices: 102370157--102370203 Score: 53
Period size: 12 Copynumber: 3.9 Consensus size: 12
102370147 GAGGAGAAGA
102370157 AGAAGAAG-AAG
1 AGAAGAAGAAAG
102370168 AAGAAGAAG-AAG
1 -AGAAGAAGAAAG
102370180 AAGAAGAAGAAAG
1 -AGAAGAAGAAAG
*
102370193 AGAAGAGGAAA
1 AGAAGAAGAAA
102370204 AATGGAGATG
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
12 30 0.91
13 3 0.09
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (12 bp):
AGAAGAAGAAAG
Found at i:102371332 original size:21 final size:21
Alignment explanation
Indices: 102371283--102371333 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
102371273 GGCAGCTTAT
*
102371283 TGAGTTGGGGTATTCTCTTGC
1 TGAGTTGGGGTACTCTCTTGC
*
102371304 T-AGTTTGGGGTAGCT-TGTTGC
1 TGAG-TTGGGGTA-CTCTCTTGC
102371325 TGAGTTGGG
1 TGAGTTGGG
102371334 ACACCAACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
20 2 0.08
21 20 0.80
22 3 0.12
ACGTcount: A:0.10, C:0.10, G:0.39, T:0.41
Consensus pattern (21 bp):
TGAGTTGGGGTACTCTCTTGC
Found at i:102372182 original size:89 final size:89
Alignment explanation
Indices: 102372073--102372251 Score: 250
Period size: 89 Copynumber: 2.0 Consensus size: 89
102372063 GGTAAATAAA
* * ** *
102372073 AAATTTTGATTTTACCACATACAATATAGCAGCTTGGATACAAACAATGACAGATATACGTAGCA
1 AAATTTTGATTTTACCACATACAATATAGCAGCTGGGATACAAACAATGACAGACATACACAACA
*
102372138 AACATCAATTTGATAATGGCATTC
66 AACATCAATTTGATAATGACATTC
* * * *
102372162 AAATTTTGATTTTGCTACATACAATATAGCAGCTGGGATACAAACAATGGCAGGCATACACAACA
1 AAATTTTGATTTTACCACATACAATATAGCAGCTGGGATACAAACAATGACAGACATACACAACA
* *
102372227 AATATCAGTTTGATAATGACATTC
66 AACATCAATTTGATAATGACATTC
102372251 A
1 A
102372252 TACAATGACA
Statistics
Matches: 78, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
89 78 1.00
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.28
Consensus pattern (89 bp):
AAATTTTGATTTTACCACATACAATATAGCAGCTGGGATACAAACAATGACAGACATACACAACA
AACATCAATTTGATAATGACATTC
Found at i:102372460 original size:6 final size:6
Alignment explanation
Indices: 102372369--102372444 Score: 91
Period size: 6 Copynumber: 12.7 Consensus size: 6
102372359 TTCAAAATTG
*
102372369 AAATCA AAATCG AAAT-A GAAATCA AAATCA AAATCA AAATCA AAATCA
1 AAATCA AAATCA AAATCA -AAATCA AAATCA AAATCA AAATCA AAATCA
* * * *
102372417 GAATCG AAATCA AAATTA AAATCG AAAT
1 AAATCA AAATCA AAATCA AAATCA AAAT
102372445 AACCCTAAAT
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
6 58 0.98
7 1 0.02
ACGTcount: A:0.62, C:0.13, G:0.07, T:0.18
Consensus pattern (6 bp):
AAATCA
Found at i:102372896 original size:21 final size:21
Alignment explanation
Indices: 102372870--102372909 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
102372860 AACGCGGCAA
102372870 GTTAACTTGCCACATCAGCAG
1 GTTAACTTGCCACATCAGCAG
*
102372891 GTTAACTTGCCACGTCAGC
1 GTTAACTTGCCACATCAGC
102372910 GGTCCCATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (21 bp):
GTTAACTTGCCACATCAGCAG
Found at i:102373011 original size:30 final size:31
Alignment explanation
Indices: 102372952--102373012 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
102372942 TCAGTGACCA
* *
102372952 TTTTGTCACTTTTTCATAACGTTAGTGACTG
1 TTTTGTAACTTTTTCATAAAGTTAGTGACTG
102372983 TTTTGTAACTTTTT-A-AAAGTTGAGTGACTG
1 TTTTGTAACTTTTTCATAAAGTT-AGTGACTG
102373013 AAATGAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 5 0.19
30 9 0.33
31 13 0.48
ACGTcount: A:0.23, C:0.11, G:0.18, T:0.48
Consensus pattern (31 bp):
TTTTGTAACTTTTTCATAAAGTTAGTGACTG
Found at i:102380658 original size:12 final size:12
Alignment explanation
Indices: 102380638--102380669 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
102380628 TGGAACCTGC
*
102380638 TAGTGCCTACCA
1 TAGTACCTACCA
102380650 TAGTACCTACCA
1 TAGTACCTACCA
102380662 TAGTACCT
1 TAGTACCT
102380670 TGTAGGTAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.28, C:0.31, G:0.12, T:0.28
Consensus pattern (12 bp):
TAGTACCTACCA
Found at i:102389277 original size:17 final size:17
Alignment explanation
Indices: 102389246--102389279 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
102389236 CATGGTAAAT
* *
102389246 AATAAAAAGTCAACAAA
1 AATAAAAAATAAACAAA
102389263 AATAAAAAATAAACAAA
1 AATAAAAAATAAACAAA
102389280 TAAGAATAAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.76, C:0.09, G:0.03, T:0.12
Consensus pattern (17 bp):
AATAAAAAATAAACAAA
Found at i:102389737 original size:24 final size:24
Alignment explanation
Indices: 102389707--102389752 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
102389697 ATAATTTTAG
* *
102389707 ACATATATATTATAGTATATAAGC
1 ACATATATATAATAATATATAAGC
102389731 ACATATATATAATAATATATAA
1 ACATATATATAATAATATATAA
102389753 TAATAAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.52, C:0.07, G:0.04, T:0.37
Consensus pattern (24 bp):
ACATATATATAATAATATATAAGC
Found at i:102406354 original size:17 final size:17
Alignment explanation
Indices: 102406323--102406356 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
102406313 CATGGTAAAT
* *
102406323 AATAAAAAGTCAACAAA
1 AATAAAAAATAAACAAA
102406340 AATAAAAAATAAACAAA
1 AATAAAAAATAAACAAA
102406357 TAAGAATAAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.76, C:0.09, G:0.03, T:0.12
Consensus pattern (17 bp):
AATAAAAAATAAACAAA
Found at i:102406833 original size:24 final size:24
Alignment explanation
Indices: 102406788--102406833 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
102406778 ATAATTTTAG
* *
102406788 ACATATATATTATAGTATATAAGC
1 ACATATATATAATAATATATAAGC
102406812 ACATATATATAAATAATA-ATAA
1 ACATATATAT-AATAATATATAA
102406834 TAATAATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 14 0.74
25 5 0.26
ACGTcount: A:0.54, C:0.07, G:0.04, T:0.35
Consensus pattern (24 bp):
ACATATATATAATAATATATAAGC
Found at i:102413493 original size:12 final size:12
Alignment explanation
Indices: 102413478--102413518 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
102413468 TTTTAAAATT
102413478 TTTAAAATTAAA
1 TTTAAAATTAAA
**
102413490 TTTAATGTTAAA
1 TTTAAAATTAAA
102413502 TTTAAAATTAAA
1 TTTAAAATTAAA
102413514 TTTAA
1 TTTAA
102413519 TGTTAAATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (12 bp):
TTTAAAATTAAA
Found at i:102413494 original size:6 final size:6
Alignment explanation
Indices: 102413478--102413527 Score: 50
Period size: 6 Copynumber: 8.3 Consensus size: 6
102413468 TTTTAAAATT
* *
102413478 TTTAAA ATTAAA TTT-AA TGTTAAA TTTAAA ATTAAA TTT-AA TGTTAAA
1 TTTAAA TTTAAA TTTAAA T-TTAAA TTTAAA TTTAAA TTTAAA T-TTAAA
102413526 TT
1 TT
102413528 AACTCGTAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
5 6 0.17
6 24 0.67
7 6 0.17
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (6 bp):
TTTAAA
Found at i:102413510 original size:24 final size:24
Alignment explanation
Indices: 102413478--102413527 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
102413468 TTTTAAAATT
102413478 TTTAAAATTAAATTTAATGTTAAA
1 TTTAAAATTAAATTTAATGTTAAA
102413502 TTTAAAATTAAATTTAATGTTAAA
1 TTTAAAATTAAATTTAATGTTAAA
102413526 TT
1 TT
102413528 AACTCGTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (24 bp):
TTTAAAATTAAATTTAATGTTAAA
Found at i:102413524 original size:12 final size:12
Alignment explanation
Indices: 102413485--102413527 Score: 68
Period size: 12 Copynumber: 3.6 Consensus size: 12
102413475 ATTTTTAAAA
102413485 TTAAATTTAATG
1 TTAAATTTAATG
**
102413497 TTAAATTTAAAA
1 TTAAATTTAATG
102413509 TTAAATTTAATG
1 TTAAATTTAATG
102413521 TTAAATT
1 TTAAATT
102413528 AACTCGTAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.49
Consensus pattern (12 bp):
TTAAATTTAATG
Found at i:102416853 original size:10 final size:10
Alignment explanation
Indices: 102416833--102416862 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
102416823 GGTTTCTGTG
102416833 AAAAATAAAA
1 AAAAATAAAA
102416843 AAAAGATAAAA
1 AAAA-ATAAAA
102416854 AAAAATAAA
1 AAAAATAAA
102416863 GAACACACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.87, C:0.00, G:0.03, T:0.10
Consensus pattern (10 bp):
AAAAATAAAA
Found at i:102421661 original size:27 final size:26
Alignment explanation
Indices: 102421621--102421675 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
102421611 ATTCTAACAG
*
102421621 TTTCATTTTTTCTCTTATTTTCAACTTT
1 TTTCATTTTATCTCTTATTTT-AA-TTT
*
102421649 TTTC-TTTTATCTCTTCTTTTAATTT
1 TTTCATTTTATCTCTTATTTTAATTT
102421674 TT
1 TT
102421676 AATTATTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 5 0.20
26 2 0.08
27 14 0.56
28 4 0.16
ACGTcount: A:0.13, C:0.16, G:0.00, T:0.71
Consensus pattern (26 bp):
TTTCATTTTATCTCTTATTTTAATTT
Found at i:102424603 original size:31 final size:31
Alignment explanation
Indices: 102424568--102424640 Score: 92
Period size: 31 Copynumber: 2.4 Consensus size: 31
102424558 CATTCAAGTC
*
102424568 ATTAAATTATTCAAAAATTTTCATTTAGGTT
1 ATTAAACTATTCAAAAATTTTCATTTAGGTT
* **
102424599 ATTAAACTCTTTGAAAATTTTCATTTAGGTT
1 ATTAAACTATTCAAAAATTTTCATTTAGGTT
* *
102424630 GTTGAACTATT
1 ATTAAACTATT
102424641 TGAGAGTTTT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.34, C:0.08, G:0.10, T:0.48
Consensus pattern (31 bp):
ATTAAACTATTCAAAAATTTTCATTTAGGTT
Found at i:102424643 original size:31 final size:31
Alignment explanation
Indices: 102424581--102424643 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
102424571 AAATTATTCA
*
102424581 AAAATTTTCATTTAGGTTATTAAACTCTTTG
1 AAAATTTTCATTTAGGTTATTAAACTATTTG
* *
102424612 AAAATTTTCATTTAGGTTGTTGAACTATTTG
1 AAAATTTTCATTTAGGTTATTAAACTATTTG
102424643 A
1 A
102424644 GAGTTTTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.32, C:0.08, G:0.13, T:0.48
Consensus pattern (31 bp):
AAAATTTTCATTTAGGTTATTAAACTATTTG
Found at i:102425666 original size:20 final size:20
Alignment explanation
Indices: 102425641--102425686 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
102425631 TTATAATCCA
102425641 TTATATAATCTAATATGAGT
1 TTATATAATCTAATATGAGT
102425661 TTATATAATCTAATATGAGT
1 TTATATAATCTAATATGAGT
102425681 TTATAT
1 TTATAT
102425687 GAGCTTATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.39, C:0.04, G:0.09, T:0.48
Consensus pattern (20 bp):
TTATATAATCTAATATGAGT
Found at i:102429124 original size:23 final size:24
Alignment explanation
Indices: 102429073--102429134 Score: 63
Period size: 23 Copynumber: 2.5 Consensus size: 24
102429063 ATATTTACAC
* *
102429073 TAATTTATTATTTAAATTATAAAATT
1 TAATTTA--ATTTAAATTACAAAACT
102429099 TAATTTAATTTAAATT-CAAAACT
1 TAATTTAATTTAAATTACAAAACT
* *
102429122 TAAATTAAATTAA
1 TAATTTAATTTAA
102429135 CCCAAATAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
23 16 0.50
24 9 0.28
26 7 0.22
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (24 bp):
TAATTTAATTTAAATTACAAAACT
Found at i:102429127 original size:24 final size:24
Alignment explanation
Indices: 102429082--102429132 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
102429072 CTAATTTATT
* *
102429082 ATTTAAATTATAAAATTTAATTTA
1 ATTTAAATTATAAAATTAAATTAA
*
102429106 ATTTAAATTCA-AAACTTAAATTAA
1 ATTTAAATT-ATAAAATTAAATTAA
102429130 ATT
1 ATT
102429133 AACCCAAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 22 0.96
25 1 0.04
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (24 bp):
ATTTAAATTATAAAATTAAATTAA
Found at i:102431069 original size:31 final size:31
Alignment explanation
Indices: 102431019--102431180 Score: 162
Period size: 31 Copynumber: 5.2 Consensus size: 31
102431009 TACAAAATGA
* *
102431019 TCACTGAACTCTTCGAAAGTTTTCATTTAAG
1 TCACTGAACTATTCAAAAGTTTTCATTTAAG
* * *
102431050 TCACCGAACTATTCAAAAGTTTTTATTTAAA
1 TCACTGAACTATTCAAAAGTTTTCATTTAAG
* * * *
102431081 TTACTGAACTATTTAAAAGTTCTCATTTAGG
1 TCACTGAACTATTCAAAAGTTTTCATTTAAG
* * * * *
102431112 TTATTGAACTATTTAAAAGTTCTCATTTAGG
1 TCACTGAACTATTCAAAAGTTTTCATTTAAG
* * * *
102431143 TTATTGAACTATTCAAAAGTTTTTATTTAAA
1 TCACTGAACTATTCAAAAGTTTTCATTTAAG
102431174 TCACTGA
1 TCACTGA
102431181 GTTGTTAAGT
Statistics
Matches: 111, Mismatches: 20, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 111 1.00
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.42
Consensus pattern (31 bp):
TCACTGAACTATTCAAAAGTTTTCATTTAAG
Found at i:102432520 original size:121 final size:121
Alignment explanation
Indices: 102432306--102432550 Score: 445
Period size: 121 Copynumber: 2.0 Consensus size: 121
102432296 CGGAACAACA
*
102432306 ATGCTAAACTAAGCTTCAGTGTCGAGTGGACTGTAATATATTTTTAGCAGATTCCAAGACACGTA
1 ATGCTAAACTAAGCTTCAGTGTCGAGTGGACTGTAATATAGTTTTAGCAGATTCCAAGACACGTA
*
102432371 TAATATCAGCTTCCCCAAGACTGATTTCAAGGCTAGTGAAGAACCTCAAGTCCGCC
66 TAATATCAGCTTCCCCAAGACTGATTTCAAGGCTAGTGAAGAACCTCAAGTCCACC
* *
102432427 ATGCTAAACTCAGCTTCAGTGTCGAGTGGACTGTAATATAGTTTTAGCAGATTCCAAGACGCGTA
1 ATGCTAAACTAAGCTTCAGTGTCGAGTGGACTGTAATATAGTTTTAGCAGATTCCAAGACACGTA
*
102432492 TAATATCAGCTTCCCCTAGACTGATTTCAAGGCTAGTGAAGAACCTCAAGTCCACC
66 TAATATCAGCTTCCCCAAGACTGATTTCAAGGCTAGTGAAGAACCTCAAGTCCACC
102432548 ATG
1 ATG
102432551 TTCGATGTTG
Statistics
Matches: 119, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
121 119 1.00
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (121 bp):
ATGCTAAACTAAGCTTCAGTGTCGAGTGGACTGTAATATAGTTTTAGCAGATTCCAAGACACGTA
TAATATCAGCTTCCCCAAGACTGATTTCAAGGCTAGTGAAGAACCTCAAGTCCACC
Found at i:102435433 original size:17 final size:18
Alignment explanation
Indices: 102435413--102435452 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
102435403 GCAAAACTTG
102435413 ATAAAAA-TAAAAAATAA
1 ATAAAAATTAAAAAATAA
*
102435430 ATAAAAATTATAAAATAA
1 ATAAAAATTAAAAAATAA
*
102435448 TTAAA
1 ATAAA
102435453 TTTTAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (18 bp):
ATAAAAATTAAAAAATAA
Found at i:102435468 original size:30 final size:31
Alignment explanation
Indices: 102435432--102435505 Score: 82
Period size: 31 Copynumber: 2.4 Consensus size: 31
102435422 AAAAATAAAT
*
102435432 AAAAATTATAAAA-TAATTAAATTTTA-ATAA
1 AAAAATTATAAAATTAATTAAA-ATTAGATAA
*
102435462 AAAAATTA-AATAATTATTTAAAATTAGATAA
1 AAAAATTATAA-AATTAATTAAAATTAGATAA
*
102435493 AAGAATTATAAAA
1 AAAAATTATAAAA
102435506 ATCGTAAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
29 2 0.05
30 13 0.35
31 20 0.54
32 2 0.05
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.34
Consensus pattern (31 bp):
AAAAATTATAAAATTAATTAAAATTAGATAA
Found at i:102435602 original size:20 final size:20
Alignment explanation
Indices: 102435574--102435628 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 20
102435564 TTATAGAGTC
*
102435574 GTAAGAAAATTATAAAAAAT
1 GTAAAAAAATTATAAAAAAT
* *
102435594 GTAAAAAAAATAT-AAAATT
1 GTAAAAAAATTATAAAAAAT
* *
102435613 CTTAAAAAATTATAAA
1 GTAAAAAAATTATAAA
102435629 TTTATATTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.27
Consensus pattern (20 bp):
GTAAAAAAATTATAAAAAAT
Found at i:102441087 original size:23 final size:23
Alignment explanation
Indices: 102441060--102441103 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
102441050 TTTTTGGTTA
102441060 TTACTAATGTT-CCACTTATTATT
1 TTACTAATGTTACCA-TTATTATT
*
102441083 TTACTATTGTTACCATTATTA
1 TTACTAATGTTACCATTATTA
102441104 AATAGTATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.27, C:0.16, G:0.05, T:0.52
Consensus pattern (23 bp):
TTACTAATGTTACCATTATTATT
Found at i:102445809 original size:12 final size:12
Alignment explanation
Indices: 102445791--102445820 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
102445781 GGTAATGCAA
102445791 AGTGTTGGTGTT
1 AGTGTTGGTGTT
*
102445803 GGTGTTGGTGTT
1 AGTGTTGGTGTT
102445815 AGTGTT
1 AGTGTT
102445821 AGTGGGTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.00, G:0.43, T:0.50
Consensus pattern (12 bp):
AGTGTTGGTGTT
Found at i:102448120 original size:20 final size:20
Alignment explanation
Indices: 102448095--102448165 Score: 62
Period size: 22 Copynumber: 3.6 Consensus size: 20
102448085 AAAAAAAATT
102448095 AATTATAAAAATATTCAAAA
1 AATTATAAAAATATTCAAAA
102448115 AATTATAATAAAATAATTC-AAA
1 AATTAT-A-AAAAT-ATTCAAAA
*
102448137 AA-TA-AAAAA-ATTGATAAA
1 AATTATAAAAATATTCA-AAA
102448155 AATT-TAAAAAT
1 AATTATAAAAAT
102448166 TAGTATGAAG
Statistics
Matches: 42, Mismatches: 1, Indels: 16
0.71 0.02 0.27
Matches are distributed among these distances:
16 3 0.07
18 9 0.21
19 7 0.17
20 6 0.14
21 3 0.07
22 10 0.24
23 4 0.10
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.30
Consensus pattern (20 bp):
AATTATAAAAATATTCAAAA
Found at i:102448139 original size:22 final size:24
Alignment explanation
Indices: 102448087--102448138 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 24
102448077 GCTATGTTAA
*
102448087 AAAAAATTAATTATAAAAATATTC
1 AAAAAATTAATAATAAAAATATTC
102448111 AAAAAATT-ATAAT-AAAATAATTC
1 AAAAAATTAATAATAAAAAT-ATTC
102448134 AAAAA
1 AAAAA
102448139 TAAAAAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 5 0.19
23 13 0.50
24 8 0.31
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (24 bp):
AAAAAATTAATAATAAAAATATTC
Found at i:102458740 original size:63 final size:63
Alignment explanation
Indices: 102458641--102458763 Score: 228
Period size: 63 Copynumber: 2.0 Consensus size: 63
102458631 ACAAGTTTCG
*
102458641 ATCTTATCTTGTAGGTACCAAAGTAACTGTCTATACAGACCACTCGGCAATTAAGTACTTACT
1 ATCTTATCTTGTAGGTACCAAAGTAACTGTCTATACAGACCACTCAGCAATTAAGTACTTACT
*
102458704 ATCTTATCTTGTAGGTACCAAAGTAACTGTCTATACAGACCACTCAGTAATTAAGTACTT
1 ATCTTATCTTGTAGGTACCAAAGTAACTGTCTATACAGACCACTCAGCAATTAAGTACTT
102458764 GCCGAGAAAG
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 58 1.00
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.33
Consensus pattern (63 bp):
ATCTTATCTTGTAGGTACCAAAGTAACTGTCTATACAGACCACTCAGCAATTAAGTACTTACT
Found at i:102465218 original size:20 final size:20
Alignment explanation
Indices: 102465175--102465220 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
102465165 ACTATTTTGT
102465175 TATGGGCCAACTGTATTGAA
1 TATGGGCCAACTGTATTGAA
*
102465195 -ATGGGTCCAACTGTGTT-AA
1 TATGGG-CCAACTGTATTGAA
102465214 TATGGGC
1 TATGGGC
102465221 AAGGCCCAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (20 bp):
TATGGGCCAACTGTATTGAA
Found at i:102467650 original size:29 final size:29
Alignment explanation
Indices: 102467612--102467681 Score: 115
Period size: 29 Copynumber: 2.4 Consensus size: 29
102467602 TAAAAAGGGA
*
102467612 ACACAGTCATGTGGGGCCTGTGTTGGGCC
1 ACACAGTCATGTGGGGCCCGTGTTGGGCC
102467641 ACAC-GATCATGTGGGGCCCGTGTTGGGCC
1 ACACAG-TCATGTGGGGCCCGTGTTGGGCC
102467670 ACACAGTCATGT
1 ACACAGTCATGT
102467682 CACACACCCA
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
28 1 0.03
29 36 0.95
30 1 0.03
ACGTcount: A:0.17, C:0.26, G:0.34, T:0.23
Consensus pattern (29 bp):
ACACAGTCATGTGGGGCCCGTGTTGGGCC
Found at i:102476744 original size:36 final size:36
Alignment explanation
Indices: 102476697--102476769 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
102476687 GTAACCATAT
102476697 ATTGAAAATTCAACTGAAAGAACATCAAAGTTTCAA
1 ATTGAAAATTCAACTGAAAGAACATCAAAGTTTCAA
102476733 ATTGAAAATTCAACTGAAAGAACATCAAAGTTTCAA
1 ATTGAAAATTCAACTGAAAGAACATCAAAGTTTCAA
102476769 A
1 A
102476770 CATTCCAAGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.51, C:0.14, G:0.11, T:0.25
Consensus pattern (36 bp):
ATTGAAAATTCAACTGAAAGAACATCAAAGTTTCAA
Found at i:102488013 original size:30 final size:30
Alignment explanation
Indices: 102487978--102488035 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
102487968 CACGGCCATG
*
102487978 ACACACGGGTATGTGG-TCTACCCGTGTGTC
1 ACACACAGGTATGTGGATC-ACCCGTGTGTC
*
102488008 ACACACAGGTGTGTGGATCACCCGTGTG
1 ACACACAGGTATGTGGATCACCCGTGTG
102488036 GAAGTGCCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 23 0.92
31 2 0.08
ACGTcount: A:0.19, C:0.26, G:0.31, T:0.24
Consensus pattern (30 bp):
ACACACAGGTATGTGGATCACCCGTGTGTC
Found at i:102489848 original size:25 final size:25
Alignment explanation
Indices: 102489801--102489849 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
102489791 TAATTTTTTC
*
102489801 TTAATTTTTAATTTTATTCAATTAG
1 TTAATTTTTAATTTCATTCAATTAG
*
102489826 TTAATTTTTCAA-TTCATTGAATTA
1 TTAATTTTT-AATTTCATTCAATTA
102489850 TTTTTATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 19 0.90
26 2 0.10
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.57
Consensus pattern (25 bp):
TTAATTTTTAATTTCATTCAATTAG
Found at i:102504138 original size:26 final size:26
Alignment explanation
Indices: 102504109--102504216 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
102504099 TGGTACAAAT
102504109 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
102504135 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
102504161 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
* *
102504187 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
102504213 TGAT
1 TGAT
102504217 GGGAATTTCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATATTCCA
Found at i:102505410 original size:8 final size:8
Alignment explanation
Indices: 102505397--102505426 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
102505387 AGATCGGCAC
102505397 AAGCCGAA
1 AAGCCGAA
102505405 AAGCCGAA
1 AAGCCGAA
*
102505413 ATGCCGAA
1 AAGCCGAA
102505421 AAGCCG
1 AAGCCG
102505427 GTATTTTGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.43, C:0.27, G:0.27, T:0.03
Consensus pattern (8 bp):
AAGCCGAA
Found at i:102505865 original size:27 final size:27
Alignment explanation
Indices: 102505816--102505983 Score: 200
Period size: 27 Copynumber: 6.2 Consensus size: 27
102505806 AGGAAGCATC
*
102505816 CTGGTGGCTATGCCACA-ATTATCTGAT
1 CTGGTGGCTCTGCCACATA-TATCTGAT
*
102505843 CTGGTGGCTCTGCTACATATATCTG-T
1 CTGGTGGCTCTGCCACATATATCTGAT
*
102505869 CCTGGTGGCTATGCCACA-ATTATCTGAT
1 -CTGGTGGCTCTGCCACATA-TATCTGAT
*
102505897 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGAT
*
102505924 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGAT
* * *
102505951 CTGGTGGCTCTACCA-AAATATCTATAT
1 CTGGTGGCTCTGCCACATATATCT-GAT
102505978 CTGGTG
1 CTGGTG
102505984 ACTTCATCAC
Statistics
Matches: 125, Mismatches: 10, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
26 9 0.07
27 113 0.90
28 3 0.02
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATATATCTGAT
Found at i:102505896 original size:54 final size:54
Alignment explanation
Indices: 102505814--102505961 Score: 244
Period size: 54 Copynumber: 2.7 Consensus size: 54
102505804 AGAGGAAGCA
*
102505814 TCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCTACATATATCTG
1 TCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTG
102505868 TCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTG
1 TCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTG
* * *
102505922 TTCTGGTGGCTCTGCCAC-ATATATCTGTTCTGGTGGCTCT
1 TCCTGGTGGCTATGCCACAAT-TATCTGATCTGGTGGCTCT
102505962 ACCAAAATAT
Statistics
Matches: 89, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
53 2 0.02
54 87 0.98
ACGTcount: A:0.16, C:0.25, G:0.23, T:0.36
Consensus pattern (54 bp):
TCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTG
Found at i:102505980 original size:81 final size:81
Alignment explanation
Indices: 102505816--102505983 Score: 232
Period size: 81 Copynumber: 2.1 Consensus size: 81
102505806 AGGAAGCATC
*
102505816 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCTACATATATCTGTCCTGGTGGCTAT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGGCTAT
* *
102505881 GCCACAATTATCTGAT
66 ACCACAAATATCTGAT
* * * *
102505897 CTGGTGGCTCTGCCAC-ATATATCTGTTCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTC
1 CTGGTGGCTATGCCACAAT-TATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGGCTA
*
102505961 TACCA-AAATATCTATAT
65 TACCACAAATATCT-GAT
102505978 CTGGTG
1 CTGGTG
102505984 ACTTCATCAC
Statistics
Matches: 77, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
80 9 0.12
81 68 0.88
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (81 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGGCTAT
ACCACAAATATCTGAT
Found at i:102505981 original size:54 final size:54
Alignment explanation
Indices: 102505816--102505983 Score: 241
Period size: 54 Copynumber: 3.1 Consensus size: 54
102505806 AGGAAGCATC
* *
102505816 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCTACATATATCTGTC
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
102505870 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* * * * *
102505924 CTGGTGGCTCTGCCAC-ATATATCTGTTCTGGTGGCTCTACCA-AAATATCTATAT
1 CTGGTGGCTATGCCACAAT-TATCTGATCTGGTGGCTCTGCCACATATATCTGT-T
102505978 CTGGTG
1 CTGGTG
102505984 ACTTCATCAC
Statistics
Matches: 105, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
53 10 0.10
54 95 0.90
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:102507956 original size:24 final size:27
Alignment explanation
Indices: 102507929--102507977 Score: 77
Period size: 24 Copynumber: 1.9 Consensus size: 27
102507919 TTTAGAAATA
102507929 AAATAAAAA-AAT-AAAAA-AAGGATT
1 AAATAAAAAGAATCAAAAATAAGGATT
102507953 AAATAAAAAGAATCAAAAATAAGGA
1 AAATAAAAAGAATCAAAAATAAGGA
102507978 AGGACTGCAG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 9 0.41
25 3 0.14
26 5 0.23
27 5 0.23
ACGTcount: A:0.73, C:0.02, G:0.10, T:0.14
Consensus pattern (27 bp):
AAATAAAAAGAATCAAAAATAAGGATT
Found at i:102509326 original size:44 final size:44
Alignment explanation
Indices: 102509171--102509840 Score: 199
Period size: 44 Copynumber: 14.6 Consensus size: 44
102509161 GAAATTAGTG
* * * * * *
102509171 CTTCATTCTACTCCACTGTAACTTCAGAGAGGCT-AGACTTGTAG
1 CTTCAATCTGCTCCACTGCAACTTCAG-GAAGATAAGACTTGTAA
* * * *
102509215 CTTTAATCTGTTCCACTACAACTTCAGTGAA-ATAAGA-TTCGCTAT
1 CTTCAATCTGCTCCACTGCAACTTCAG-GAAGATAAGACTT-G-TAA
* * * *
102509260 CTTCAGTTTGCCCCACTACAACTTCAGGAAGATAAGACTTGTAA
1 CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGACTTGTAA
* * * * *
102509304 CTTCAACCTGCTCCACTGCAACTTCAGGGAGACAAGGTTAATGGTAA
1 CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAA-G--ACTTGTAA
* ** * * * **
102509351 CTTTAATCTGCTCTGCTACAACTTCAGGGAGATAAGA-TTAATGG
1 CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGACTT-GTAA
* *
102509395 CTTCAATATGCTCCACTGCAACTTCA-GAGAGATAAGATTCACCATGATAGA
1 CTTCAATCTGCTCCACTGCAACTTCAGGA-AGATAAG----A-CTTG-TA-A
** * * * * *
102509446 -TTTGATCCGATCTACTGCAACTTCA-GAGGTATAGGACTTGTAA
1 CTTCAATCTGCTCCACTGCAACTTCAGGAAG-ATAAGACTTGTAA
** * * * *
102509489 CTCCTAGCTTTAATCTATTCCATTGCAACTTCAGGGAA-ATGAGATTTGCTAT
1 CT--T--C---AATCTGCTCCACTGCAACTTCA-GGAAGATAAGACTTG-TAA
* *
102509541 CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAA
1 CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGACTTGTAA
* * * * * * * *
102509585 CTTCAACCTGTTCAACTGTAATTTCATGG-AGATAAG-GTTCATGA
1 CTTCAATCTGCTCCACTGCAACTTCA-GGAAGATAAGACTT-GTAA
* * * * * * * *
102509629 CTTTAATTTGTTCCACTGTAACTTTAGGGAGATAAGATTTGTTTA
1 CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGACTTG-TAA
* * * * * ** * *
102509674 TTTCTTTACCTGCTCCACTGCAACTTTAGGGAGATAAGGTTTATAG
1 CTTC--AATCTGCTCCACTGCAACTTCAGGAAGATAAGACTTGTAA
* ** * *
102509720 CTTTAATCTGCTTTACTGCAACTTCAGGGAGATAAGATTTTCCATGATAA
1 CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGA-----CTTG-TAA
* * * * * * **
102509770 CTTCGATATACTCCACTGCAACTTTAGGAAGATAAAATTTGTGG
1 CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGACTTGTAA
102509814 CTTCAATCTGCTCCACTGCAACTTCAG
1 CTTCAATCTGCTCCACTGCAACTTCAG
102509841 AGAGACAAGA
Statistics
Matches: 450, Mismatches: 132, Indels: 88
0.67 0.20 0.13
Matches are distributed among these distances:
43 10 0.02
44 205 0.46
45 71 0.16
46 8 0.02
47 65 0.14
48 2 0.00
49 2 0.00
50 58 0.13
51 23 0.05
52 4 0.01
53 2 0.00
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.32
Consensus pattern (44 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGACTTGTAA
Found at i:102509822 original size:94 final size:93
Alignment explanation
Indices: 102509686--102509920 Score: 308
Period size: 94 Copynumber: 2.5 Consensus size: 93
102509676 TCTTTACCTG
* * * * *
102509686 CTCCACTGCAACTTTAGGGAGATAAGGTTTATAGCTTTAATCTGCTTTACTGCAACTTCAGGGAG
1 CTCCACTGCAACTTTA-GGAGATAAGATTTATGGCTTCAATCTGCTTCACTGCAACTTCAGAGAG
* **
102509751 ATAAGATTTTCCATGATAACTTCGATATA
65 ACAAGATTCGCCATGATAACTTCGATATA
* * *
102509780 CTCCACTGCAACTTTAGGAAGATAAAATTTGTGGCTTCAATCTGCTCCACTGCAACTTCAGAGAG
1 CTCCACTGCAACTTTAGG-AGATAAGATTTATGGCTTCAATCTGCTTCACTGCAACTTCAGAGAG
* *
102509845 ACAAGATTCGCCCTGGTAACTTCGATATA
65 ACAAGATTCGCCATGATAACTTCGATATA
* *
102509874 CTCCACTGCAACTTCAAGGAGATAAGATTAATGGCTTCAATCTGCTT
1 CTCCACTGCAACTT-TAGGAGATAAGATTTATGGCTTCAATCTGCTT
102509921 AAGATTCGCC
Statistics
Matches: 121, Mismatches: 18, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
93 2 0.02
94 116 0.96
95 3 0.02
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.31
Consensus pattern (93 bp):
CTCCACTGCAACTTTAGGAGATAAGATTTATGGCTTCAATCTGCTTCACTGCAACTTCAGAGAGA
CAAGATTCGCCATGATAACTTCGATATA
Found at i:102509883 original size:50 final size:49
Alignment explanation
Indices: 102509734--102509902 Score: 163
Period size: 50 Copynumber: 3.5 Consensus size: 49
102509724 AATCTGCTTT
* * *
102509734 ACTGCAACTTCAGGGAGATAAGATTTTCCATGATAACTTCGATATACTCC
1 ACTGCAACTTCAGAGAGATAAGATTTGCC-TGGTAACTTCGATATACTCC
* * * * *
102509784 ACTGCAACTTTAG-GAAGATAAAATTTG--TGG---CTTCAATCTGCTCC
1 ACTGCAACTTCAGAG-AGATAAGATTTGCCTGGTAACTTCGATATACTCC
* *
102509828 ACTGCAACTTCAGAGAGACAAGATTCGCCCTGGTAACTTCGATATACTCC
1 ACTGCAACTTCAGAGAGATAAGATTTG-CCTGGTAACTTCGATATACTCC
102509878 ACTGCAACTTCA-AGGAGATAAGATT
1 ACTGCAACTTCAGA-GAGATAAGATT
102509903 AATGGCTTCA
Statistics
Matches: 95, Mismatches: 15, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
44 32 0.34
45 1 0.01
47 5 0.05
49 2 0.02
50 55 0.58
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (49 bp):
ACTGCAACTTCAGAGAGATAAGATTTGCCTGGTAACTTCGATATACTCC
Found at i:102510034 original size:46 final size:45
Alignment explanation
Indices: 102509984--102510072 Score: 117
Period size: 46 Copynumber: 1.9 Consensus size: 45
102509974 ATTTGTGATT
* * *
102509984 TCTTCCATCCATCCCACT-AATACTCATGGGTATAGGATTTGTACCA
1 TCTTCAATCCATCCCACTCAA-A-TCAGGGGTATAAGATTTGTACCA
102510030 TCTTCAATCCATCCCACTGCAAATCAGGGGTATAAGATTTGTA
1 TCTTCAATCCATCCCACT-CAAATCAGGGGTATAAGATTTGTA
102510073 TCATTGATCT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
46 35 0.92
47 1 0.03
48 2 0.05
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (45 bp):
TCTTCAATCCATCCCACTCAAATCAGGGGTATAAGATTTGTACCA
Found at i:102514644 original size:12 final size:13
Alignment explanation
Indices: 102514627--102514655 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
102514617 TTATTTTATT
102514627 TAAAAATAAAAA-
1 TAAAAATAAAAAC
102514639 TAAAAATAAAAAC
1 TAAAAATAAAAAC
102514652 TAAA
1 TAAA
102514656 TCCTTCTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.17
Consensus pattern (13 bp):
TAAAAATAAAAAC
Found at i:102518022 original size:31 final size:29
Alignment explanation
Indices: 102517958--102518024 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 29
102517948 AGTGATTTAC
*
102517958 TATAA-ATATAAATTTATATAATTATTAT
1 TATAACATATAAATTAATATAATTATTAT
102517986 T-TAACATATATAATTAATATAA-TATTATT
1 TATAACATATA-AATTAATATAATTATTA-T
102518015 TCATAACATA
1 T-ATAACATA
102518025 ATATTCTGAG
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
27 3 0.09
28 11 0.33
29 12 0.36
31 7 0.21
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.46
Consensus pattern (29 bp):
TATAACATATAAATTAATATAATTATTAT
Found at i:102518296 original size:17 final size:18
Alignment explanation
Indices: 102518276--102518310 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
102518266 TTCATAAAAG
102518276 TATTTATTTT-ATAATTT
1 TATTTATTTTGATAATTT
*
102518293 TATTTGTTTTGATAATTT
1 TATTTATTTTGATAATTT
102518311 AAAACAACAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.69
Consensus pattern (18 bp):
TATTTATTTTGATAATTT
Found at i:102518737 original size:48 final size:48
Alignment explanation
Indices: 102518666--102518761 Score: 174
Period size: 48 Copynumber: 2.0 Consensus size: 48
102518656 ATGTGGATAA
*
102518666 ATCATTGTTTATGTTTTATTTTGGCTGTACCGTCACCAGACTTGCAAC
1 ATCATTGTTTATGTTTTATTTTGGCTGTACCATCACCAGACTTGCAAC
*
102518714 ATCATTGTTTATGTTTTATTTTGGCTGTACCATCACCAGGCTTGCAAC
1 ATCATTGTTTATGTTTTATTTTGGCTGTACCATCACCAGACTTGCAAC
102518762 TAAAATAGTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.21, C:0.21, G:0.17, T:0.42
Consensus pattern (48 bp):
ATCATTGTTTATGTTTTATTTTGGCTGTACCATCACCAGACTTGCAAC
Found at i:102523398 original size:21 final size:22
Alignment explanation
Indices: 102523372--102523412 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
102523362 CTAAGTTCAC
102523372 TTTGGAT-TTTCTT-TTTTATGT
1 TTTGGATATTT-TTCTTTTATGT
102523393 TTTGGATATTTTTCTTTTAT
1 TTTGGATATTTTTCTTTTAT
102523413 TTCAATTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.12, C:0.05, G:0.12, T:0.71
Consensus pattern (22 bp):
TTTGGATATTTTTCTTTTATGT
Found at i:102524386 original size:20 final size:18
Alignment explanation
Indices: 102524361--102524397 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
102524351 ATTGCTAAGT
102524361 TGTAAAATGAGTTGTAAATG
1 TGTAAAAT-AGTTG-AAATG
102524381 TGTAAAATAGTTGAAAT
1 TGTAAAATAGTTGAAAT
102524398 TATGAGTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.35
Consensus pattern (18 bp):
TGTAAAATAGTTGAAATG
Found at i:102525008 original size:46 final size:46
Alignment explanation
Indices: 102524954--102525129 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
102524944 TGGTTGAGCA
*
102524954 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * * * *
102525000 TTCAAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
102525047 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
102525093 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
102525130 GCGGGTTACT
Statistics
Matches: 105, Mismatches: 18, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 63 0.60
47 25 0.24
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:102525110 original size:93 final size:93
Alignment explanation
Indices: 102524951--102525121 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
102524941 GGATGGTTGA
* **
102524951 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTTCAAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCAAACTCGTTGAGT
*
102525016 TGAGTCTGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
102525044 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCAAACTCGTTGAGT
102525109 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
102525122 ACTTATGGGC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCAAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:102530394 original size:20 final size:20
Alignment explanation
Indices: 102530324--102530384 Score: 65
Period size: 20 Copynumber: 3.2 Consensus size: 20
102530314 TTTGTTTCTT
* *
102530324 TATTAATTTAAAT-T-ATTA
1 TATTAATATAAATATAATAA
*
102530342 TACTAATAT-AATATAATAA
1 TATTAATATAAATATAATAA
*
102530361 TATTAATATAAATATAATAC
1 TATTAATATAAATATAATAA
102530381 TATT
1 TATT
102530385 TACTTAAATA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
17 3 0.09
18 8 0.23
19 11 0.31
20 13 0.37
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (20 bp):
TATTAATATAAATATAATAA
Found at i:102530954 original size:34 final size:35
Alignment explanation
Indices: 102530871--102530955 Score: 88
Period size: 34 Copynumber: 2.5 Consensus size: 35
102530861 TGTTATTTAA
102530871 ATAT-ATATATTTTTAATTTATTTTTAATTTGTTG
1 ATATAATATATTTTTAATTTATTTTTAATTTGTTG
** * *
102530905 GGA-AATATTTATTTTAA-TTA-TTTTAATATTTTTG
1 ATATAATATAT-TTTTAATTTATTTTTAAT-TTGTTG
102530939 ATATAATATATTTTTAA
1 ATATAATATATTTTTAA
102530956 AAATAATATA
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
33 7 0.17
34 21 0.52
35 12 0.30
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (35 bp):
ATATAATATATTTTTAATTTATTTTTAATTTGTTG
Found at i:102537195 original size:17 final size:17
Alignment explanation
Indices: 102537173--102537206 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
102537163 TTTAAATTTT
102537173 ATAAAAGAAAATAAAAA
1 ATAAAAGAAAATAAAAA
*
102537190 ATAAAATAAAATAAAAA
1 ATAAAAGAAAATAAAAA
102537207 GTTTATACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (17 bp):
ATAAAAGAAAATAAAAA
Found at i:102538771 original size:21 final size:21
Alignment explanation
Indices: 102538711--102538771 Score: 52
Period size: 24 Copynumber: 2.7 Consensus size: 21
102538701 TAATACATCA
*
102538711 AAAATATTAAAAAAATTAAAAT
1 AAAAT-TTCAAAAAATTAAAAT
*
102538733 AAATATTTTCCAACAAATTGAAAAT
1 AAA-A-TTT-CAAAAAATT-AAAAT
102538758 AAAATTT-AAAAAAT
1 AAAATTTCAAAAAAT
102538772 ATGTAGACTT
Statistics
Matches: 32, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
21 6 0.19
22 3 0.09
23 6 0.19
24 9 0.28
25 8 0.25
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.30
Consensus pattern (21 bp):
AAAATTTCAAAAAATTAAAAT
Found at i:102540152 original size:94 final size:92
Alignment explanation
Indices: 102539799--102540234 Score: 333
Period size: 94 Copynumber: 4.7 Consensus size: 92
102539789 AAGTAGTTTC
* * * * *
102539799 TTTATAACTTTATAAAATTTAGTTAAGTGCCTTAAGAGGCTAGAAGCAATTCATCTATTAAATTC
1 TTTATAACTTTATAAAATTTAGCTAAGTGTCTTAAGAGGCTAGAAG-TATTCTTCTATTAAACTC
* ** ** * *
102539864 AGCAAGTTATTTATTCTTGGAGTGTCTAT
65 AGCGAGCAATTTCCTCTAGG-GTGTTTAT
* * * * * * *
102539893 TTTATAATTTTATAAAATTTAGTTAAGTGTCTTTAGAGACTAGAAGCAGTCTTTCTATTAGACTC
1 TTTATAACTTTATAAAATTTAGCTAAGTGTCTTAAGAGGCTAGAAGTATTC-TTCTATTAAACTC
* * * * *
102539958 AACGAGTAGTTTCCTTTCAGGGTGTTTGT
65 AGCGAGCAATTTCCTCT-AGGGTGTTTAT
* * * * *
102539987 TTTATAACTTTGTAAAA-TT---TAACTGTCTTAAGTGGCTAGAAGTAATCATTCTATTAAACTT
1 TTTATAACTTTATAAAATTTAGCTAAGTGTCTTAAGAGGCTAGAAGTATTC-TTCTATTAAACTC
* *
102540048 AGTGAGCAATTTCCTCCTAGGGTGTTTGT
65 AGCGAGCAATTTCCT-CTAGGGTGTTTAT
* * * * * *
102540077 TTTATAACTTTACAAAATTTAGCTAAGTGTCTTATGAGGTTAGAAGTGATTCTTTTATTAAATTT
1 TTTATAACTTTATAAAATTTAGCTAAGTGTCTTAAGAGGCTAGAAGT-ATTCTTCTATTAAACTC
* * *
102540142 AGCGAGCAATTTCCTATCGAGGT-TTCTAC
65 AGCGAGCAATTTCCTCTAG-GGTGTT-TAT
* * * * * *
102540171 TTTAAAACTTTATAAAATGTAGCTAAGTGTCTTAAAAGGCTAGCAGTTTTTCTGCTATTAAACT
1 TTTATAACTTTATAAAATTTAGCTAAGTGTCTTAAGAGGCTAGAAG-TATTCTTCTATTAAACT
102540235 TAGTGGGCCT
Statistics
Matches: 271, Mismatches: 60, Indels: 22
0.77 0.17 0.06
Matches are distributed among these distances:
90 70 0.26
91 3 0.01
93 9 0.03
94 183 0.68
95 6 0.02
ACGTcount: A:0.31, C:0.12, G:0.16, T:0.41
Consensus pattern (92 bp):
TTTATAACTTTATAAAATTTAGCTAAGTGTCTTAAGAGGCTAGAAGTATTCTTCTATTAAACTCA
GCGAGCAATTTCCTCTAGGGTGTTTAT
Found at i:102540898 original size:137 final size:131
Alignment explanation
Indices: 102540656--102540901 Score: 298
Period size: 137 Copynumber: 1.8 Consensus size: 131
102540646 GGAAATATAT
* *
102540656 CAATATTTTTTTTACAATAAAATATATATTTACCTCTTGAGGTGTGCCTAAAAAGGCTAGGATGT
1 CAATATTTTTTTTACAAAAAAATATATATTTACCTCTTGAAGTGTGCCTAAAAAGGCTAGGATGT
* *
102540721 GCTCACTTATTTACCAACCAGATACACATGGCACGGCATTTATTCATGCGTGACTCAAAAAAATA
66 GCTCACTTATTTACCAACAAGATACACATGGCACGACATTTATTCATGCGTGACTCAAAAAAATA
102540786 G
131 G
* * *
102540787 CAATATTTTTTTTACTACAAAAAATATATATATTACCTCTAATCGAAGTGTGCTTGAAAAGGTTA
1 CAATATTTTTTTTAC-A-AAAAAATATATAT-TTACCTCT--T-GAAGTGTGCCTAAAAAGGCTA
* ** **
102540852 GGATGTGCTC-GTCTATTTACCGGCAA-AGTACACATGGTGCGACATTTATT
60 GGATGTGCTCACT-TATTTACCAACAAGA-TACACATGGCACGACATTTATT
102540902 TTGTTACTTG
Statistics
Matches: 95, Mismatches: 12, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
131 15 0.16
132 1 0.01
133 12 0.13
134 8 0.08
136 3 0.03
137 56 0.59
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (131 bp):
CAATATTTTTTTTACAAAAAAATATATATTTACCTCTTGAAGTGTGCCTAAAAAGGCTAGGATGT
GCTCACTTATTTACCAACAAGATACACATGGCACGACATTTATTCATGCGTGACTCAAAAAAATA
G
Found at i:102550032 original size:18 final size:18
Alignment explanation
Indices: 102550011--102550050 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
102550001 AAAAACTATA
102550011 AAAAAAAAAACCCAAAAG
1 AAAAAAAAAACCCAAAAG
* * *
102550029 AAAAAAAGAATCGAAAAG
1 AAAAAAAAAACCCAAAAG
102550047 AAAA
1 AAAA
102550051 TCAAGATAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.78, C:0.10, G:0.10, T:0.03
Consensus pattern (18 bp):
AAAAAAAAAACCCAAAAG
Found at i:102551385 original size:20 final size:20
Alignment explanation
Indices: 102551360--102551399 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
102551350 ATGTATGGAT
102551360 CTAAAATGAGCTTGGATTAA
1 CTAAAATGAGCTTGGATTAA
102551380 CTAAAATGAGCTTGGATTAA
1 CTAAAATGAGCTTGGATTAA
102551400 TCTTTTACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.10, G:0.20, T:0.30
Consensus pattern (20 bp):
CTAAAATGAGCTTGGATTAA
Found at i:102553690 original size:33 final size:33
Alignment explanation
Indices: 102553644--102553755 Score: 118
Period size: 33 Copynumber: 3.4 Consensus size: 33
102553634 GGACCTTTCC
* * * *
102553644 TTTCTAGTTGTACACCCGAAGTGCACATTCCCT
1 TTTCAAGTGGTACACACGAAGTGCACATACCCT
* * *
102553677 TTTGAAGTGGTACACACGAAGTGTATATACCCT
1 TTTCAAGTGGTACACACGAAGTGCACATACCCT
* * * *
102553710 TTTCAATTTGTACACACGAAGTGCACGTAACCT
1 TTTCAAGTGGTACACACGAAGTGCACATACCCT
102553743 TTTCAAGT-GTACA
1 TTTCAAGTGGTACA
102553756 AATATAGTGT
Statistics
Matches: 64, Mismatches: 15, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
32 5 0.08
33 59 0.92
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (33 bp):
TTTCAAGTGGTACACACGAAGTGCACATACCCT
Found at i:102553814 original size:33 final size:33
Alignment explanation
Indices: 102553769--102553885 Score: 189
Period size: 33 Copynumber: 3.5 Consensus size: 33
102553759 ATAGTGTTCT
* *
102553769 TTTCTTTTTCAAGTAGTATACACAGAGTATACC
1 TTTCCTTTTCAAGTGGTATACACAGAGTATACC
*
102553802 TTTCCTTTTCAAGTGGTATACACAGAGTATCCC
1 TTTCCTTTTCAAGTGGTATACACAGAGTATACC
* *
102553835 TTTCCTTTTCAAGTGGTATACACAAAGTATGCC
1 TTTCCTTTTCAAGTGGTATACACAGAGTATACC
102553868 TTTCCTTTTCAAGTGGTA
1 TTTCCTTTTCAAGTGGTA
102553886 CATTCCTTTT
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 79 1.00
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.39
Consensus pattern (33 bp):
TTTCCTTTTCAAGTGGTATACACAGAGTATACC
Found at i:102554560 original size:20 final size:22
Alignment explanation
Indices: 102554520--102554560 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
102554510 TGTAAAAGTG
*
102554520 ATTTCTCTATCAATAACCTTTC
1 ATTTCTCTATCAATAAACTTTC
102554542 ATTTC-CTATC-ATAAACTTT
1 ATTTCTCTATCAATAAACTTT
102554561 AAATTTACAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
21 5 0.28
22 5 0.28
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (22 bp):
ATTTCTCTATCAATAAACTTTC
Found at i:102554622 original size:31 final size:31
Alignment explanation
Indices: 102554587--102554652 Score: 132
Period size: 31 Copynumber: 2.1 Consensus size: 31
102554577 CATCAATGGG
102554587 TAATTCTCTAAACTTTGATTTTCTTTCAATT
1 TAATTCTCTAAACTTTGATTTTCTTTCAATT
102554618 TAATTCTCTAAACTTTGATTTTCTTTCAATT
1 TAATTCTCTAAACTTTGATTTTCTTTCAATT
102554649 TAAT
1 TAAT
102554653 CACCAAAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.27, C:0.15, G:0.03, T:0.55
Consensus pattern (31 bp):
TAATTCTCTAAACTTTGATTTTCTTTCAATT
Found at i:102554977 original size:16 final size:16
Alignment explanation
Indices: 102554953--102554991 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 16
102554943 AGGACTTCTC
102554953 ACTTTTAATTC-TATA
1 ACTTTTAATTCTTATA
102554968 ACTATTTAATTCTTATA
1 ACT-TTTAATTCTTATA
102554985 ACTTTTA
1 ACTTTTA
102554992 GAATTTAGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 3 0.14
16 12 0.55
17 7 0.32
ACGTcount: A:0.33, C:0.13, G:0.00, T:0.54
Consensus pattern (16 bp):
ACTTTTAATTCTTATA
Found at i:102555067 original size:13 final size:13
Alignment explanation
Indices: 102555049--102555074 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
102555039 ACACATAATT
102555049 GATAAAAATTTTC
1 GATAAAAATTTTC
102555062 GATAAAAATTTTC
1 GATAAAAATTTTC
102555075 ATGCAATATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (13 bp):
GATAAAAATTTTC
Done.