Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 61 of 438
Found at i:15936705 original size:54 final size:55
Alignment explanation
Indices: 15936616--15936755 Score: 176
Period size: 54 Copynumber: 2.6 Consensus size: 55
15936606 GAGGAAGCGT
* * * * *
15936616 TCTGGTGGCTATGCCACAAATATATGATCTAGTGGCTCTGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* *
15936670 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* * *
15936725 TCTAGTGACTCTGTCACAT-TATCTGTTCTGG
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGG
15936756 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
54 58 0.77
55 17 0.23
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.35
Consensus pattern (55 bp):
TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
Found at i:15938645 original size:50 final size:52
Alignment explanation
Indices: 15938550--15938650 Score: 125
Period size: 50 Copynumber: 2.0 Consensus size: 52
15938540 AGGATAATGC
*
15938550 AATAATATAATAGTAATAATAACAATATAAAAATAGCAATGATAGTAATAAAA
1 AATAATATAATAG-AATAATAACAATATAAAAATAGCAATAATAGTAATAAAA
* * ***
15938603 AATAATATATTA-AATAATAGCAA-ATAAAAATAGTGCTAATAGTAATAA
1 AATAATATAATAGAATAATAACAATATAAAAATAGCAATAATAGTAATAA
15938651 TAGTGATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
50 21 0.50
51 10 0.24
53 11 0.26
ACGTcount: A:0.60, C:0.04, G:0.08, T:0.28
Consensus pattern (52 bp):
AATAATATAATAGAATAATAACAATATAAAAATAGCAATAATAGTAATAAAA
Found at i:15938654 original size:18 final size:18
Alignment explanation
Indices: 15938625--15938667 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
15938615 AATAATAGCA
* *
15938625 AATAAAAATAGTGCTAAT
1 AATAATAATAGTGATAAT
*
15938643 AGTAATAATAGTGATAAT
1 AATAATAATAGTGATAAT
15938661 AATAATA
1 AATAATA
15938668 GTATGAAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.56, C:0.02, G:0.12, T:0.30
Consensus pattern (18 bp):
AATAATAATAGTGATAAT
Found at i:15938779 original size:17 final size:18
Alignment explanation
Indices: 15938736--15938781 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
15938726 TATAATATCT
15938736 AAAATAT-AATAATAATG
1 AAAATATAAATAATAATG
15938753 AAAATATAAATACATAA-G
1 AAAATATAAATA-ATAATG
15938771 -AAATATAAATA
1 AAAATATAAATA
15938782 GATGAGTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 18 0.67
18 5 0.19
19 4 0.15
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.26
Consensus pattern (18 bp):
AAAATATAAATAATAATG
Found at i:15938985 original size:26 final size:25
Alignment explanation
Indices: 15938924--15938986 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 25
15938914 ATGATATATT
15938924 AAATAACAAATAATATAATAGTAAAA
1 AAATAA-AAATAATATAATAGTAAAA
* *
15938950 ATAGTTAAAA-AATGATAATAGTAATAA
1 A-AATAAAAATAAT-ATAATAGTAA-AA
15938977 AAATAAAAAT
1 AAATAAAAAT
15938987 GATGTTGATA
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
25 3 0.10
26 20 0.69
27 6 0.21
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.25
Consensus pattern (25 bp):
AAATAAAAATAATATAATAGTAAAA
Found at i:15939334 original size:3 final size:3
Alignment explanation
Indices: 15939328--15939377 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
15939318 AAAAGAAGAT
15939328 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
15939376 AT
1 AT
15939378 GTGAGTAGAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:15941374 original size:19 final size:19
Alignment explanation
Indices: 15941335--15941374 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
15941325 AAATACTCTT
*
15941335 AACTATTTATACAAATGTA
1 AACTATTTATACAAATATA
* *
15941354 AACTATTTATATATATATA
1 AACTATTTATACAAATATA
15941373 AA
1 AA
15941375 TCTTCAAGTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.50, C:0.07, G:0.03, T:0.40
Consensus pattern (19 bp):
AACTATTTATACAAATATA
Found at i:15944104 original size:17 final size:17
Alignment explanation
Indices: 15944082--15944138 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 17
15944072 TTTTTTTACT
15944082 TTATTTTTATATTATTA
1 TTATTTTTATATTATTA
* * **
15944099 TTATTTTTTTTTTAGCA
1 TTATTTTTATATTATTA
* *
15944116 TTATTTTAACTGTTATTA
1 TTATTTTTA-TATTATTA
15944134 TTATT
1 TTATT
15944139 ATCATATTTA
Statistics
Matches: 30, Mismatches: 9, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
17 20 0.67
18 10 0.33
ACGTcount: A:0.25, C:0.04, G:0.04, T:0.68
Consensus pattern (17 bp):
TTATTTTTATATTATTA
Found at i:15944132 original size:35 final size:33
Alignment explanation
Indices: 15944072--15944138 Score: 89
Period size: 35 Copynumber: 2.0 Consensus size: 33
15944062 TTTTTTTTTA
* *
15944072 TTTTTTTACTTTATTTTTATATTATTATTATTT
1 TTTTTTTACATTATTTTAATATTATTATTATTT
*
15944105 TTTTTTTAGCATTATTTTAACTGTTATTATTATT
1 TTTTTTTA-CATTATTTTAA-TATTATTATTATT
15944139 ATCATATTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 8 0.28
34 9 0.31
35 12 0.41
ACGTcount: A:0.22, C:0.04, G:0.03, T:0.70
Consensus pattern (33 bp):
TTTTTTTACATTATTTTAATATTATTATTATTT
Found at i:15945091 original size:12 final size:12
Alignment explanation
Indices: 15945056--15945093 Score: 67
Period size: 12 Copynumber: 3.2 Consensus size: 12
15945046 TACATTATTA
*
15945056 TTTTCGTTTTCA
1 TTTTCGTTTTCG
15945068 TTTTCGTTTTCG
1 TTTTCGTTTTCG
15945080 TTTTCGTTTTCG
1 TTTTCGTTTTCG
15945092 TT
1 TT
15945094 ATCATTGTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.03, C:0.16, G:0.13, T:0.68
Consensus pattern (12 bp):
TTTTCGTTTTCG
Found at i:15945091 original size:18 final size:18
Alignment explanation
Indices: 15945056--15945093 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
15945046 TACATTATTA
15945056 TTTTCGTTTTCATTTTCG
1 TTTTCGTTTTCATTTTCG
*
15945074 TTTTCGTTTTCGTTTTCG
1 TTTTCGTTTTCATTTTCG
15945092 TT
1 TT
15945094 ATCATTGTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.03, C:0.16, G:0.13, T:0.68
Consensus pattern (18 bp):
TTTTCGTTTTCATTTTCG
Found at i:15957268 original size:44 final size:43
Alignment explanation
Indices: 15957220--15957315 Score: 102
Period size: 43 Copynumber: 2.2 Consensus size: 43
15957210 CGAATGCAGT
*
15957220 GAAGCAGATTCAAACCACCAAGCCTTAACCCCCTAAGCAGTAGG
1 GAAGCAGATTCAAACCA-CAAACCTTAACCCCCTAAGCAGTAGG
* * *** * *
15957264 GAAGCAGACTGAATTTATAAATCTTAACCCCCTAAGCAGTAGG
1 GAAGCAGATTCAAACCACAAACCTTAACCCCCTAAGCAGTAGG
*
15957307 GAAACAGAT
1 GAAGCAGAT
15957316 CGAAGATGAT
Statistics
Matches: 42, Mismatches: 10, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
43 30 0.71
44 12 0.29
ACGTcount: A:0.39, C:0.25, G:0.19, T:0.18
Consensus pattern (43 bp):
GAAGCAGATTCAAACCACAAACCTTAACCCCCTAAGCAGTAGG
Found at i:15957293 original size:43 final size:43
Alignment explanation
Indices: 15957243--15957531 Score: 182
Period size: 43 Copynumber: 6.7 Consensus size: 43
15957233 ACCACCAAGC
* * *
15957243 CTTAACCCCCTAAGCAGTAGGGAAGCAGACTGAA-TTTATAAAT
1 CTTAACCCCCTAAGCAGTAGGGAA-CAGACTGAAGATTACAGAT
* * **
15957286 CTTAACCCCCTAAGCAGTAGGGAAACAGA-TCGAAGATGA-TGGG
1 CTTAACCCCCTAAGCAGTAGGG-AACAGACT-GAAGATTACAGAT
* * *
15957329 CTTAACCCCCTAAGCAATAGGGTAACA-AGC-CAA-ATTTACAGAC
1 CTTAACCCCCTAAGCAGTAGGG-AACAGA-CTGAAGA-TTACAGAT
* * *
15957372 CTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTCCAGAT
1 CTTAACCCCCTAAGCAGTAGGG-AACAGACTGAAGATTACAGAT
* * * *
15957416 CCTAACCCCCTAAGCAGTAGGGAAACAGA-TCAAAGATGA-AGGGT
1 CTTAACCCCCTAAGCAGTAGGG-AACAGACT-GAAGATTACA-GAT
* * * * *
15957460 CTTAAACCTCTAAGTAGTAGGGTAACAGACCGAA-TTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGG-AACAGACTGAAGATTACAGAT
* * *
15957503 CTTATCTCCCTAAGCAGTAGTGGAGCAGA
1 CTTAACCCCCTAAGCAGTAG-GGAACAGA
15957532 TCAAAGACGA
Statistics
Matches: 188, Mismatches: 43, Indels: 30
0.72 0.16 0.11
Matches are distributed among these distances:
41 1 0.01
42 6 0.03
43 107 0.57
44 73 0.39
45 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.20
Consensus pattern (43 bp):
CTTAACCCCCTAAGCAGTAGGGAACAGACTGAAGATTACAGAT
Found at i:15957514 original size:87 final size:88
Alignment explanation
Indices: 15957372--15957538 Score: 221
Period size: 87 Copynumber: 1.9 Consensus size: 88
15957362 ATTTACAGAC
* * *
15957372 CTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTCCAGATCCTAACCCCCTAAGCAGTAG-
1 CTTAAACCCCTAAGCAGTAGGGTAACAGACCGAAGATTACAGATCCTAACCCCCTAAGCAGTAGT
15957436 GGAAACAGATCAAAGATGAAGGGT
66 GG-AACAGATCAAAGATGAAGGGT
* * * * * *
15957460 CTTAAACCTCTAAGTAGTAGGGTAACAGACCGAA-TTTACAGATCTTATCTCCCTAAGCAGTAGT
1 CTTAAACCCCTAAGCAGTAGGGTAACAGACCGAAGATTACAGATCCTAACCCCCTAAGCAGTAGT
*
15957524 GGAGCAGATCAAAGA
66 GGAACAGATCAAAGA
15957539 CGATTAGCCT
Statistics
Matches: 68, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
87 36 0.53
88 32 0.47
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (88 bp):
CTTAAACCCCTAAGCAGTAGGGTAACAGACCGAAGATTACAGATCCTAACCCCCTAAGCAGTAGT
GGAACAGATCAAAGATGAAGGGT
Found at i:15957695 original size:68 final size:68
Alignment explanation
Indices: 15957586--15957788 Score: 271
Period size: 68 Copynumber: 3.0 Consensus size: 68
15957576 TGAATCACCA
* * * *
15957586 ATCTCTTCTCCCTAAAATGGCGTTGGAGCGGTTAAAAGCCACAGCAGATCTCCTTGAAGTTTCGG
1 ATCTCTTCTCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGTAGATCTCCTTGAAGTTTCAG
**
15957651 TGG
66 CAG
*
15957654 ATCTCTTATCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGTAGATCTCCTTGAAGTTTCAG
1 ATCTCTTCTCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGTAGATCTCCTTGAAGTTTCAG
15957719 CAG
66 CAG
* * * ** * *
15957722 ATCTCTTCTTCCTGAAATGGCATTGGAACAACTAAAAAGTCACAGTAGATTTCCTTGAAGTTTCA
1 ATCTCTTCTCCCTGAAATGGCGTTGGAGCGGCT-AAAAGCCACAGTAGATCTCCTTGAAGTTTCA
15957787 GC
65 GC
15957789 GGAAGAAGGT
Statistics
Matches: 119, Mismatches: 15, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
68 88 0.74
69 31 0.26
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (68 bp):
ATCTCTTCTCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGTAGATCTCCTTGAAGTTTCAG
CAG
Found at i:15957857 original size:44 final size:44
Alignment explanation
Indices: 15957809--15958422 Score: 349
Period size: 44 Copynumber: 13.6 Consensus size: 44
15957799 CAAAACAAAC
*
15957809 CTTATCTCTCTGAAGTTGCAGTGGAGCAGGTTGGAGTAACAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGGAGTAACAAGT
* ** * *
15957853 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAAGATAGCAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGGAG-TAACAAGT
* * * *
15957898 CTGATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATGAATAA-ACAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTG--G--A-G--TAACA-AG-T
* * * * * **
15957950 CTTATC-CATCTGAAGTTGCAGTAGAGCA-GAT-CA-AAACAAAC
1 CTTATCTC-CCTGAAGTTGCAGTGGAGCAGGTTGGAGTAACAAGT
* **
15957991 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGGAGTTACAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGGAGTAACAAGT
15958035 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGGAGTAACAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGGAGTAACAAGT
* ** * *
15958079 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAAGATAGCAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGGAG-TAACAAGT
* * * *
15958124 CTGATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATGAATAA-ACAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTG--G--A-G--TAACA-AG-T
** * * * * **
15958176 CTTATCTATCTGAAGTTGCAGTAGAGCA-GAT-CA-AAACAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGGAGTAACAAGT
* *
15958217 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAG-
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGGAGTAACAAGT
* * *
15958260 CTTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATGAATAA-ACAGAT
1 C-TTATCTCCCTGAAGTTGCAGTGGAGCAGGTTG--G--A-G--TAACA-AG-T
** * * * * **
15958313 CTTATCTATCTGAAGTTGCAGTAGAGCA-GAT-CA-AAACAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGGAGTAACAAGT
* * *
15958354 CTTATCTCCCTGAAGTTGCAGTGGAGCAAGTTGAAGTTACAAG-
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGGAGTAACAAGT
*
15958397 CTTTATTTCCCTGAAGTTGCAGTGGA
1 C-TTATCTCCCTGAAGTTGCAGTGGA
15958423 ACAGATTGAA
Statistics
Matches: 432, Mismatches: 94, Indels: 88
0.70 0.15 0.14
Matches are distributed among these distances:
41 74 0.17
42 16 0.04
43 8 0.02
44 172 0.40
45 66 0.15
46 3 0.01
48 1 0.00
49 3 0.01
50 5 0.01
51 16 0.04
52 67 0.16
53 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGGAGTAACAAGT
Found at i:15958113 original size:226 final size:226
Alignment explanation
Indices: 15957803--15958285 Score: 912
Period size: 226 Copynumber: 2.1 Consensus size: 226
15957793 GAAGGTCAAA
*
15957803 ACAAACCTTATCTCTCTGAAGTTGCAGTGGAGCAGGTTGGAGTAACAAGTCTTATCTCCCTGAAG
1 ACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGGAGTAACAAGTCTTATCTCCCTGAAG
15957868 TTGCAGTGGAGCAGGCTAAAGATAGCAAATCTGATTTCCCTGAAGTTGCAGTGGAACAGATTGAA
66 TTGCAGTGGAGCAGGCTAAAGATAGCAAATCTGATTTCCCTGAAGTTGCAGTGGAACAGATTGAA
15957933 GCTATGAATAAACAGATCTTATCCATCTGAAGTTGCAGTAGAGCAGATCAAAACAAACCTTATCT
131 GCTATGAATAAACAGATCTTATCCATCTGAAGTTGCAGTAGAGCAGATCAAAACAAACCTTATCT
*
15957998 CCCTGAAGTTGCAGTGGAGCAGGTTGGAGTT
196 CCCTGAAGTTGCAGTGGAGCAGGTTGAAGTT
15958029 ACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGGAGTAACAAGTCTTATCTCCCTGAAG
1 ACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGGAGTAACAAGTCTTATCTCCCTGAAG
15958094 TTGCAGTGGAGCAGGCTAAAGATAGCAAATCTGATTTCCCTGAAGTTGCAGTGGAACAGATTGAA
66 TTGCAGTGGAGCAGGCTAAAGATAGCAAATCTGATTTCCCTGAAGTTGCAGTGGAACAGATTGAA
*
15958159 GCTATGAATAAACAGATCTTATCTATCTGAAGTTGCAGTAGAGCAGATCAAAACAAACCTTATCT
131 GCTATGAATAAACAGATCTTATCCATCTGAAGTTGCAGTAGAGCAGATCAAAACAAACCTTATCT
15958224 CCCTGAAGTTGCAGTGGAGCAGGTTGAAGTT
196 CCCTGAAGTTGCAGTGGAGCAGGTTGAAGTT
* * *
15958255 ACAAGCTTTATTTCCCTGAAGTTGCAGTGGA
1 ACAAACCTTATCTCCCTGAAGTTGCAGTGGA
15958286 ACAGATTGAA
Statistics
Matches: 251, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
226 251 1.00
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.27
Consensus pattern (226 bp):
ACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGGAGTAACAAGTCTTATCTCCCTGAAG
TTGCAGTGGAGCAGGCTAAAGATAGCAAATCTGATTTCCCTGAAGTTGCAGTGGAACAGATTGAA
GCTATGAATAAACAGATCTTATCCATCTGAAGTTGCAGTAGAGCAGATCAAAACAAACCTTATCT
CCCTGAAGTTGCAGTGGAGCAGGTTGAAGTT
Found at i:15958298 original size:137 final size:137
Alignment explanation
Indices: 15958079--15958522 Score: 692
Period size: 137 Copynumber: 3.2 Consensus size: 137
15958069 AGTAACAAGT
* * * * *
15958079 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAAGATAGCAA-ATCTGATTTCCCTGAAGTTGC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTA-CAAGCT-TTATTTCCCTGAAGTTGC
15958143 AGTGGAACAGATTGAAGCTATGAATAAACAGATCTTATCTATCTGAAGTTGCAGTAGAGCAGATC
64 AGTGGAACAGATTGAAGCTATGAATAAACAGATCTTATCTATCTGAAGTTGCAGTAGAGCAGATC
15958208 AAAACAAAC
129 AAAACAAAC
15958217 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGCTTTATTTCCCTGAAGTTGCAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGCTTTATTTCCCTGAAGTTGCAG
15958282 TGGAACAGATTGAAGCTATGAATAAACAGATCTTATCTATCTGAAGTTGCAGTAGAGCAGATCAA
66 TGGAACAGATTGAAGCTATGAATAAACAGATCTTATCTATCTGAAGTTGCAGTAGAGCAGATCAA
15958347 AACAAAC
131 AACAAAC
*
15958354 CTTATCTCCCTGAAGTTGCAGTGGAGCAAGTTGAAGTTACAAGCTTTATTTCCCTGAAGTTGCAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGCTTTATTTCCCTGAAGTTGCAG
** * * *
15958419 TGGAACAGATTGAAGCTATGAATAAACAGATCTTATCTCCCTGAAGTTGCAGTGGGGCAGACTAA
66 TGGAACAGATTGAAGCTATGAATAAACAGATCTTATCTATCTGAAGTTGCAGTAGAGCAGA-TCA
*
15958484 AGATAGCAAAT
130 A-A-A-CAAAC
* * *
15958495 CTTATTTCCCTGAAGTTGTAATGGAGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCA
15958523 CATTGAAGAT
Statistics
Matches: 286, Mismatches: 15, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
137 215 0.75
138 40 0.14
139 1 0.00
140 1 0.00
141 29 0.10
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.27
Consensus pattern (137 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGCTTTATTTCCCTGAAGTTGCAG
TGGAACAGATTGAAGCTATGAATAAACAGATCTTATCTATCTGAAGTTGCAGTAGAGCAGATCAA
AACAAAC
Found at i:15959783 original size:14 final size:12
Alignment explanation
Indices: 15959759--15959880 Score: 50
Period size: 12 Copynumber: 9.5 Consensus size: 12
15959749 ATTTAATCTA
15959759 ATTTTT-TTATT
1 ATTTTTATTATT
15959770 ATTTTTACTCTATT
1 ATTTTTA-T-TATT
*
15959784 -TTTATATTATT
1 ATTTTTATTATT
*
15959795 ATTTTTTTATTTTTT
1 A--TTTTTA-TTATT
**
15959810 ATTTTTAGCATT
1 ATTTTTATTATT
*
15959822 ATTTTAACTGTTATT
1 ATTTT---TATTATT
* *
15959837 ATTATTATTATC
1 ATTTTTATTATT
* *
15959849 ATATTTATTAACAT
1 ATTTTTATT-A-TT
*
15959863 ATTATTATTATT
1 ATTTTTATTATT
15959875 ATTTTT
1 ATTTTT
15959881 GCTATACTAT
Statistics
Matches: 79, Mismatches: 20, Indels: 23
0.65 0.16 0.19
Matches are distributed among these distances:
11 10 0.13
12 26 0.33
13 14 0.18
14 16 0.20
15 13 0.16
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (12 bp):
ATTTTTATTATT
Found at i:15959791 original size:22 final size:23
Alignment explanation
Indices: 15959750--15959794 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
15959740 TTCTTTGAGA
*
15959750 TTTAATCTAATTTTTTTATTATT
1 TTTAATCTAATTTTTATATTATT
*
15959773 TTTACTCT-ATTTTTATATTATT
1 TTTAATCTAATTTTTATATTATT
15959795 ATTTTTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.69
Consensus pattern (23 bp):
TTTAATCTAATTTTTATATTATT
Found at i:15959805 original size:22 final size:23
Alignment explanation
Indices: 15959754--15959812 Score: 70
Period size: 25 Copynumber: 2.6 Consensus size: 23
15959744 TTGAGATTTA
*
15959754 ATCTAATTTTT-TTATTATTTTT
1 ATCTATTTTTTATTATTATTTTT
15959776 ACTCTATTTTTATATTATTATTTTT
1 A-TCTATTTTT-TATTATTATTTTT
15959801 -T-TATTTTTTATT
1 ATCTATTTTTTATT
15959813 TTTAGCATTA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
21 4 0.12
22 8 0.24
23 9 0.27
24 1 0.03
25 11 0.33
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.73
Consensus pattern (23 bp):
ATCTATTTTTTATTATTATTTTT
Found at i:15959891 original size:26 final size:26
Alignment explanation
Indices: 15959836--15959904 Score: 77
Period size: 26 Copynumber: 2.7 Consensus size: 26
15959826 TAACTGTTAT
* *
15959836 TATTATTATTATCATATTTATTAACA
1 TATTATTATTATTATATTTACTAACA
* *
15959862 TATTATTATTATTATTTTTGCTATAC-
1 TATTATTATTATTATATTTACTA-ACA
*
15959888 TATTGTTATTATTATAT
1 TATTATTATTATTATAT
15959905 ATATACATAC
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
26 34 0.94
27 2 0.06
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.59
Consensus pattern (26 bp):
TATTATTATTATTATATTTACTAACA
Found at i:15960257 original size:23 final size:23
Alignment explanation
Indices: 15960231--15960284 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
15960221 TTTGTATTTC
15960231 TATTATAATTACATA-GTAGTATG
1 TATTATAATTACATATGTA-TATG
* * *
15960254 TATTTTCATTATATATGTATATG
1 TATTATAATTACATATGTATATG
15960277 TATATATA
1 TAT-TATA
15960285 TGTTATATAG
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
23 19 0.79
24 5 0.21
ACGTcount: A:0.37, C:0.04, G:0.09, T:0.50
Consensus pattern (23 bp):
TATTATAATTACATATGTATATG
Found at i:15960426 original size:24 final size:25
Alignment explanation
Indices: 15960381--15960433 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
15960371 TTATATTCTC
*
15960381 TATTACGCACATATCTTAATAT-TA
1 TATTACGCACATATCATAATATATA
*
15960405 TATTACGTACATA-CATACATATATA
1 TATTACGCACATATCATA-ATATATA
15960430 TATT
1 TATT
15960434 TTATGTATAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 3 0.12
24 16 0.64
25 6 0.24
ACGTcount: A:0.40, C:0.15, G:0.04, T:0.42
Consensus pattern (25 bp):
TATTACGCACATATCATAATATATA
Found at i:15960627 original size:18 final size:18
Alignment explanation
Indices: 15960594--15960629 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
15960584 TTATATATCG
* *
15960594 TTATTATTAGTCTTTTTA
1 TTATTATTACTATTTTTA
15960612 TTATTATTACTATTTTTA
1 TTATTATTACTATTTTTA
15960630 ATAAATATTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.25, C:0.06, G:0.03, T:0.67
Consensus pattern (18 bp):
TTATTATTACTATTTTTA
Found at i:15960779 original size:6 final size:6
Alignment explanation
Indices: 15960763--15960810 Score: 60
Period size: 6 Copynumber: 8.0 Consensus size: 6
15960753 TTACATTATT
* * * *
15960763 ATTTTC GTTTTC ATTTTC ATTTTC ATTTTT GTTTTC GTTTTC ATTTTC
1 ATTTTC ATTTTC ATTTTC ATTTTC ATTTTC ATTTTC ATTTTC ATTTTC
15960811 GTTATCACTG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.10, C:0.15, G:0.06, T:0.69
Consensus pattern (6 bp):
ATTTTC
Found at i:15964815 original size:15 final size:15
Alignment explanation
Indices: 15964795--15964828 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
15964785 TACCAAAAAG
15964795 GTATTTACAACAATT
1 GTATTTACAACAATT
**
15964810 GTATTTACGCCAATT
1 GTATTTACAACAATT
15964825 GTAT
1 GTAT
15964829 ATTCAAATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (15 bp):
GTATTTACAACAATT
Found at i:15970264 original size:19 final size:19
Alignment explanation
Indices: 15970240--15970337 Score: 164
Period size: 19 Copynumber: 5.2 Consensus size: 19
15970230 AATCTTTAAG
15970240 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
15970259 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
15970278 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
15970295 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
15970314 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
15970335 GAT
1 GAT
15970338 CTTGTAATCT
Statistics
Matches: 75, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
17 17 0.23
19 49 0.65
21 9 0.12
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:15970270 original size:36 final size:35
Alignment explanation
Indices: 15970230--15970337 Score: 112
Period size: 36 Copynumber: 2.9 Consensus size: 35
15970220 ATGGAAATAT
15970230 AATCTTTAAGGATATGCAATCTTAGATATGATATGC
1 AATCTTTAA-GATATGCAATCTTAGATATGATATGC
15970266 AATC-TT-AGATATGATACAATCTTAGATATGATATGC
1 AATCTTTAAGATATG---CAATCTTAGATATGATATGC
*
15970302 AATCTTAGATATGATATGCAATCTTGAAGATATGAT
1 AATCTT---TAAGATATGCAATCTT--AGATATGAT
15970338 CTTGTAATCT
Statistics
Matches: 61, Mismatches: 1, Indels: 16
0.78 0.01 0.21
Matches are distributed among these distances:
33 6 0.10
34 1 0.02
35 2 0.03
36 28 0.46
37 1 0.02
38 7 0.11
40 10 0.16
41 6 0.10
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (35 bp):
AATCTTTAAGATATGCAATCTTAGATATGATATGC
Found at i:15975987 original size:8 final size:8
Alignment explanation
Indices: 15975970--15976041 Score: 69
Period size: 8 Copynumber: 9.1 Consensus size: 8
15975960 CTTCTATTTC
15975970 AAAA-AAA
1 AAAAGAAA
15975977 AAAAGAAAA
1 AAAAG-AAA
15975986 AAAAGAAA
1 AAAAGAAA
15975994 AAAAGAAA
1 AAAAGAAA
* *
15976002 AAGACAATA
1 AAAAGAA-A
15976011 AAAAGAAA
1 AAAAGAAA
*
15976019 AAGAG-AA
1 AAAAGAAA
*
15976026 AAATGAAA
1 AAAAGAAA
15976034 AAAA-AAA
1 AAAAGAAA
15976041 A
1 A
15976042 TGGAGTGACC
Statistics
Matches: 53, Mismatches: 8, Indels: 8
0.77 0.12 0.12
Matches are distributed among these distances:
7 13 0.25
8 26 0.49
9 14 0.26
ACGTcount: A:0.85, C:0.01, G:0.11, T:0.03
Consensus pattern (8 bp):
AAAAGAAA
Found at i:15975996 original size:17 final size:16
Alignment explanation
Indices: 15975970--15976041 Score: 74
Period size: 17 Copynumber: 4.4 Consensus size: 16
15975960 CTTCTATTTC
15975970 AAAAAAAAAAAGAAAA
1 AAAAAAAAAAAGAAAA
15975986 AAAAGAAAAAAAGAAAA
1 AAAA-AAAAAAAGAAAA
* *
15976003 AGACAATAAAAAG-AAA
1 A-AAAAAAAAAAGAAAA
* * *
15976019 AAGAGAAAAATGAAAA
1 AAAAAAAAAAAGAAAA
15976035 AAAAAAA
1 AAAAAAA
15976042 TGGAGTGACC
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
15 7 0.16
16 16 0.36
17 20 0.44
18 2 0.04
ACGTcount: A:0.85, C:0.01, G:0.11, T:0.03
Consensus pattern (16 bp):
AAAAAAAAAAAGAAAA
Found at i:15976013 original size:25 final size:23
Alignment explanation
Indices: 15975970--15976038 Score: 95
Period size: 25 Copynumber: 2.9 Consensus size: 23
15975960 CTTCTATTTC
15975970 AAAAAA-AAAAAGAAAAAAAAGA
1 AAAAAAGAAAAAGAAAAAAAAGA
15975992 AAAAAAGAAAAAGACAATAAAAAGA
1 AAAAAAGAAAAAGA-AA-AAAAAGA
*
15976017 AAAAGAGAAAAATGAAAAAAAA
1 AAAAAAGAAAAA-GAAAAAAAA
15976039 AAATGGAGTG
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
22 6 0.14
23 7 0.17
24 7 0.17
25 20 0.48
26 2 0.05
ACGTcount: A:0.84, C:0.01, G:0.12, T:0.03
Consensus pattern (23 bp):
AAAAAAGAAAAAGAAAAAAAAGA
Found at i:15977036 original size:44 final size:44
Alignment explanation
Indices: 15976895--15977200 Score: 237
Period size: 44 Copynumber: 7.0 Consensus size: 44
15976885 CAAAGAAACA
* *
15976895 AGATTTGGCATCCCTGTATTTATAGGGAACAAATCGAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
* * * * * * * **
15976939 AGATCTGACATTCCTATGCTTACAGTGAA-ACAGATCGAAGATTTC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACA-AG-TCGAAGATAGC
* *
15976984 AGCA--TGGCATCCCTGTGTTTATAGTGAACAAGTTGAAGATAGC
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
*
15977027 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
* ** * * * * * **
15977071 AGATCTAACATTCCTGTGCTTACAGCGAATC-AGATCTAAGATTTC
1 AGATTTGGCATCCCTGTGTTTATAGGGAA-CAAG-TCGAAGATAGC
* *
15977116 AGCA--TGGCATCCCTGTGTCTATAGGGAACAAGTTGAAGATAGC
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
* * * * *
15977159 AGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGATA
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATA
15977201 TAGCTGATTC
Statistics
Matches: 199, Mismatches: 51, Indels: 24
0.73 0.19 0.09
Matches are distributed among these distances:
42 2 0.01
43 21 0.11
44 151 0.76
45 23 0.12
46 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.27
Consensus pattern (44 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
Found at i:15977132 original size:132 final size:132
Alignment explanation
Indices: 15976895--15977200 Score: 504
Period size: 132 Copynumber: 2.3 Consensus size: 132
15976885 CAAAGAAACA
* *
15976895 AGATTTGGCATCCCTGTATTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTATGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTAACATTCCTATGCTT
* * *
15976960 ACAGTGAAACAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGTGAACAAGTTGAAGATA
66 ACAGCGAAACAGATCGAAGATTTCAGCATGGCATCCCTGTGTCTATAGGGAACAAGTTGAAGATA
15977025 GC
131 GC
*
15977027 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTAACATTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTAACATTCCTATGCTT
* *
15977092 ACAGCGAATCAGATCTAAGATTTCAGCATGGCATCCCTGTGTCTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAACAGATCGAAGATTTCAGCATGGCATCCCTGTGTCTATAGGGAACAAGTTGAAGATA
15977157 GC
131 GC
* * * *
15977159 AGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGATA
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATA
15977201 TAGCTGATTC
Statistics
Matches: 162, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
132 162 1.00
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.27
Consensus pattern (132 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTAACATTCCTATGCTT
ACAGCGAAACAGATCGAAGATTTCAGCATGGCATCCCTGTGTCTATAGGGAACAAGTTGAAGATA
GC
Found at i:15977517 original size:206 final size:206
Alignment explanation
Indices: 15977160--15978094 Score: 1500
Period size: 206 Copynumber: 4.5 Consensus size: 206
15977150 GAAGATAGCA
* * * *
15977160 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGATATAGCTGATTCGGCTTTCACG-GTT
1 GATTTGGCATCTTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
*
15977224 TAC-ACTGAAGAAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTG
66 TACGA-TGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTG
* ** *
15977288 GCGTCTCCATATTCAATAGAGAGCAGACACATAGCAGATCTGGCCTTCATATGTTTATACTGAAG
130 GCGTCTCCATATTCAACAGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAG
*
15977353 CAGATCCAAGGT
195 CAGATCCAAGAT
15977365 GATTTGGCATCTTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
1 GATTTGGCATCTTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
*
15977430 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATTGAAGTTTGG
66 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
* * *
15977495 TGTCTCCATATTCGACAGAGAGCAGACACATAGCAAATCTAACCTTCAGATGTTTATACTGAAGC
131 CGTCTCCATATTCAACAGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGC
15977560 AGATCCAAGAT
196 AGATCCAAGAT
*
15977571 GATTTGGCAT-TCTTGTGCTTACAAGGAACAAATCAAAGACATAGCTGATTTGGCTTTCACGTGC
1 GATTTGGCATCT-TTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGC
* *
15977635 TTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATAGTTAGAGAACAAATCGAAGTTTG
65 TTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTG
* * *
15977700 GCGTCTCCATATTCAACGGACAGCAGACACATAGTAGATCTAACCTTCAGATGTTTATACTGAAG
130 GCGTCTCCATATTCAACAGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAG
15977765 CAGATCCAAGAT
195 CAGATCCAAGAT
*
15977777 GATTTGGCAT-TCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACCTGC
1 GATTTGGCATCT-TTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGC
* *
15977841 TTACGATGAAGCAAATCTAAGATGATTTGGTATCTCTGTATTGTCAGAGAACAAATCGTAGTTTG
65 TTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTG
* * * * *
15977906 GCGTCTCCATATTCGACGGAGGGCAGACACATAGCAGATCTAACCTTCAGATGATTAGACTGAAG
130 GCGTCTCCATATTCAACAGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAG
15977971 CAGATCCAAGAT
195 CAGATCCAAGAT
* * * * * * *
15977983 GGTTTGGTATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGTTGATTTGGTTTTCGCGTGCT
1 GATTTGGCATCTTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
15978048 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
66 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
15978095 AAATAGATCG
Statistics
Matches: 681, Mismatches: 45, Indels: 7
0.93 0.06 0.01
Matches are distributed among these distances:
205 59 0.09
206 621 0.91
207 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (206 bp):
GATTTGGCATCTTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
CGTCTCCATATTCAACAGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGC
AGATCCAAGAT
Found at i:15983370 original size:19 final size:19
Alignment explanation
Indices: 15983324--15983401 Score: 124
Period size: 19 Copynumber: 4.1 Consensus size: 19
15983314 ATTTTTCACA
15983324 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
15983343 ATA--CAATCTTAGATATG
1 ATATGCAATCTTAGATATG
15983360 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
15983379 ATATGCAATCTTGAAGATATG
1 ATATGCAATCTT--AGATATG
15983400 AT
1 AT
15983402 CTTGTAATCT
Statistics
Matches: 55, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.31
19 29 0.53
21 9 0.16
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.36
Consensus pattern (19 bp):
ATATGCAATCTTAGATATG
Found at i:15983371 original size:36 final size:38
Alignment explanation
Indices: 15983324--15983401 Score: 124
Period size: 36 Copynumber: 2.1 Consensus size: 38
15983314 ATTTTTCACA
15983324 ATATGCAATCTTAGATATGATA-CAATCTT-AGATATG
1 ATATGCAATCTTAGATATGATAGCAATCTTAAGATATG
15983360 ATATGCAATCTTAGATATGATATGCAATCTTGAAGATATG
1 ATATGCAATCTTAGATATGATA-GCAATCTT-AAGATATG
15983400 AT
1 AT
15983402 CTTGTAATCT
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
36 22 0.58
38 7 0.18
40 9 0.24
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.36
Consensus pattern (38 bp):
ATATGCAATCTTAGATATGATAGCAATCTTAAGATATG
Found at i:15983378 original size:14 final size:15
Alignment explanation
Indices: 15983324--15983379 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 15
15983314 ATTTTTCACA
15983324 ATATG-CAATCTTAG
1 ATATGACAATCTTAG
15983338 ATATGATACAATCTTAG
1 ATATG--ACAATCTTAG
15983355 ATATGATATGCAATCTTAG
1 ATATG--A--CAATCTTAG
15983374 ATATGA
1 ATATGA
15983380 TATGCAATCT
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.14
17 18 0.49
19 14 0.38
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (15 bp):
ATATGACAATCTTAG
Found at i:15992664 original size:17 final size:16
Alignment explanation
Indices: 15992623--15992668 Score: 53
Period size: 17 Copynumber: 3.0 Consensus size: 16
15992613 TTTCCCAAAT
*
15992623 GCACACGGCCGTGT-G
1 GCACACGCCCGTGTGG
15992638 G-ACA-GCCCGTGTGCG
1 GCACACGCCCGTGTG-G
15992653 GCACACGCCCGTGTGG
1 GCACACGCCCGTGTGG
15992669 CCACTGGAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
13 7 0.27
14 3 0.12
15 3 0.12
16 4 0.15
17 9 0.35
ACGTcount: A:0.13, C:0.35, G:0.39, T:0.13
Consensus pattern (16 bp):
GCACACGCCCGTGTGG
Found at i:16001311 original size:27 final size:29
Alignment explanation
Indices: 16001266--16001334 Score: 79
Period size: 27 Copynumber: 2.4 Consensus size: 29
16001256 ATCTCTTTCT
* *
16001266 TAGATTGTCCTTAGCGGACTTCCACACT-
1 TAGATAGTCCTAAGCGGACTTCCACACTC
* * *
16001294 T-GATAGTCCTAAGTGGACTTCCCCGCTC
1 TAGATAGTCCTAAGCGGACTTCCACACTC
16001322 TAGATAGTCCTAA
1 TAGATAGTCCTAA
16001335 CAGATATCCA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
27 21 0.62
28 2 0.06
29 11 0.32
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (29 bp):
TAGATAGTCCTAAGCGGACTTCCACACTC
Found at i:16001417 original size:28 final size:28
Alignment explanation
Indices: 16001376--16001430 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
16001366 AAACATTCCA
* * *
16001376 CTTAAGATATTCCTTGGCAGATTTCCCT
1 CTTAAGAGAGTCCTTGGCAGACTTCCCT
16001404 CTTAAGAGAGTCCTTGGCAGACTTCCC
1 CTTAAGAGAGTCCTTGGCAGACTTCCC
16001431 CTATTTTCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.22, C:0.27, G:0.18, T:0.33
Consensus pattern (28 bp):
CTTAAGAGAGTCCTTGGCAGACTTCCCT
Found at i:16001991 original size:35 final size:35
Alignment explanation
Indices: 16001925--16001991 Score: 80
Period size: 35 Copynumber: 1.9 Consensus size: 35
16001915 GGTGTTTTCC
* ** *
16001925 CGAATGACCTATACAACATTTGCACAGTGTCGTCT
1 CGAAGGACCTATACAACATTTAAACAATGTCGTCT
* *
16001960 CGAAGGACCTATATACCATTTAAACAATGTCG
1 CGAAGGACCTATACAACATTTAAACAATGTCG
16001992 CCTCCAAGAA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
35 26 1.00
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (35 bp):
CGAAGGACCTATACAACATTTAAACAATGTCGTCT
Found at i:16003709 original size:44 final size:46
Alignment explanation
Indices: 16003624--16003713 Score: 130
Period size: 44 Copynumber: 2.0 Consensus size: 46
16003614 GACTATAATT
*
16003624 GAATAGAGCTGTAATAAGTAATTCAACTGTTTGGTTGAATGGAATG
1 GAATAGAACTGTAATAAGTAATTCAACTGTTTGGTTGAATGGAATG
***
16003670 GAATAGAACTGTAAT-AGT-ATTCTTGTGTTTGGTTGAATGGAATG
1 GAATAGAACTGTAATAAGTAATTCAACTGTTTGGTTGAATGGAATG
16003714 ATGCTGTAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 23 0.57
45 3 0.08
46 14 0.35
ACGTcount: A:0.32, C:0.06, G:0.27, T:0.36
Consensus pattern (46 bp):
GAATAGAACTGTAATAAGTAATTCAACTGTTTGGTTGAATGGAATG
Found at i:16003905 original size:17 final size:17
Alignment explanation
Indices: 16003883--16003915 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
16003873 AATTATTATT
16003883 AAATATAACTTAATAAA
1 AAATATAACTTAATAAA
*
16003900 AAATATAATTTAATAA
1 AAATATAACTTAATAA
16003916 CATTCTTGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (17 bp):
AAATATAACTTAATAAA
Found at i:16005576 original size:26 final size:26
Alignment explanation
Indices: 16005540--16005701 Score: 279
Period size: 26 Copynumber: 6.2 Consensus size: 26
16005530 TGATACAAAT
*
16005540 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
16005566 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
16005592 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
16005618 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
16005644 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
16005670 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
16005696 TGATAA
1 TGATAA
16005702 GAATTTCATG
Statistics
Matches: 133, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 133 1.00
ACGTcount: A:0.34, C:0.06, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:16011421 original size:26 final size:26
Alignment explanation
Indices: 16011385--16011546 Score: 254
Period size: 26 Copynumber: 6.2 Consensus size: 26
16011375 TGATACAAAT
*
16011385 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
16011411 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
16011437 TAATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
16011463 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* * *
16011489 TGATAAT-GATTTTGGTAAATGTTTCA
1 TGATAATAG-GTTAGGTAAATGTTCCA
*
16011515 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
16011541 TGATAA
1 TGATAA
16011547 GAATTTCATG
Statistics
Matches: 126, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
25 1 0.01
26 124 0.98
27 1 0.01
ACGTcount: A:0.35, C:0.06, G:0.22, T:0.38
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:16014947 original size:9 final size:9
Alignment explanation
Indices: 16014935--16014960 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
16014925 CATATATTTT
16014935 TTTTGTTTG
1 TTTTGTTTG
16014944 TTTTGTTTG
1 TTTTGTTTG
16014953 TTTTGTTT
1 TTTTGTTT
16014961 CTATTATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.19, T:0.81
Consensus pattern (9 bp):
TTTTGTTTG
Found at i:16018588 original size:24 final size:22
Alignment explanation
Indices: 16018549--16018592 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
16018539 GACACGTTAT
*
16018549 TTTTTGTTTTGTTTCTTCTTGG
1 TTTTTGTTTTGGTTCTTCTTGG
16018571 TTTTTGTTCTTGCGTTCTTCTT
1 TTTTTGTT-TTG-GTTCTTCTT
16018593 TTTGCTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 8 0.42
23 3 0.16
24 8 0.42
ACGTcount: A:0.00, C:0.14, G:0.16, T:0.70
Consensus pattern (22 bp):
TTTTTGTTTTGGTTCTTCTTGG
Found at i:16019321 original size:21 final size:21
Alignment explanation
Indices: 16019261--16019322 Score: 65
Period size: 21 Copynumber: 2.9 Consensus size: 21
16019251 CTTACACAGC
16019261 CTGATCACACGGCC-GTGCCT
1 CTGATCACACGGCCTGTGCCT
* *
16019281 CTGCACCACACGGGCATGTGCCT
1 CTG-ATCACAC-GGCCTGTGCCT
16019304 CTG-TCACACGGCCGTGTGC
1 CTGATCACACGGCC-TGTGC
16019323 TACCCTTCAC
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
20 6 0.18
21 16 0.47
22 3 0.09
23 9 0.26
ACGTcount: A:0.15, C:0.39, G:0.27, T:0.19
Consensus pattern (21 bp):
CTGATCACACGGCCTGTGCCT
Found at i:16021603 original size:25 final size:25
Alignment explanation
Indices: 16021575--16021644 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
16021565 CTCTTTTAAT
*
16021575 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
16021600 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
16021625 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
16021645 AGCACTTCCT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:16022489 original size:27 final size:26
Alignment explanation
Indices: 16022454--16022531 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 26
16022444 GGGCATATTC
16022454 GTCATTTTACCATATAGGGGTATTACG
1 GTCATTTTACC-TATAGGGGTATTACG
* *
16022481 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTA-CCTATAGGGG-TATTACG
*
16022508 GTCTTTTTACCTATTAGGGGTATT
1 GTCATTTTACCTA-TAGGGGTATT
16022532 TAGTCATTTC
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
26 5 0.12
27 34 0.81
28 3 0.07
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.38
Consensus pattern (26 bp):
GTCATTTTACCTATAGGGGTATTACG
Found at i:16022601 original size:27 final size:27
Alignment explanation
Indices: 16022571--16022800 Score: 103
Period size: 27 Copynumber: 8.4 Consensus size: 27
16022561 GTAAATCTAC
16022571 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
*
16022598 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTTC-AGTAATTTTGT
* * *
16022624 AGAAAGTCAAGGGCATTTCTGTAATTTTGT
1 --AAA-CCAAGGGTATTTCAGTAATTTTGT
* ** **
16022654 AAATC-AGGTGTATTTTGGTAATTTTAC
1 AAACCAAGG-GTATTTCAGTAATTTTGT
*** ***
16022681 AAATTGAGGGTATTTC-GATAATTTCAC
1 AAACCAAGGGTATTTCAG-TAATTTTGT
** **
16022708 AAACC-AGTGGTATTTTGGTAATTTTAC
1 AAACCAAG-GGTATTTCAGTAATTTTGT
* **
16022735 AAA-CTAGAGGTATTTTGGTAATTTTGT
1 AAACCAAG-GGTATTTCAGTAATTTTGT
** *
16022762 AAACCAAAAGTATTTTAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
* *
16022789 AAATCGAGGGTA
1 AAACCAAGGGTA
16022801 AAACGATAAT
Statistics
Matches: 162, Mismatches: 28, Indels: 26
0.75 0.13 0.12
Matches are distributed among these distances:
26 8 0.05
27 123 0.76
28 13 0.08
29 17 0.10
30 1 0.01
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.40
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:16022766 original size:54 final size:54
Alignment explanation
Indices: 16022556--16022786 Score: 198
Period size: 54 Copynumber: 4.2 Consensus size: 54
16022546 TACAAGGGTG
* * * *
16022556 TTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAATGGTA
1 TTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTTGTAAACCAATGGTA
* * * * * * *
16022610 TTTCT-ATAATTTTTAGAAAGTCAAGGGCATTTCTGTAATTTTGTAAATC-AGGTGTA
1 TTT-TGGTAA-TTTTACAAACT-AAGGGTATTTCGGTAATTTTGTAAACCAATG-GTA
* * * *** *
16022666 TTTTGGTAATTTTACAAATTGAGGGTATTTCGATAATTTCACAAACCAGTGGTA
1 TTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTTGTAAACCAATGGTA
* **
16022720 TTTTGGTAATTTTACAAACT-AGAGGTATTTTGGTAATTTTGTAAACCAAAAGTA
1 TTTTGGTAATTTTACAAACTAAG-GGTATTTCGGTAATTTTGTAAACCAATGGTA
*
16022774 TTTTAGTAATTTT
1 TTTTGGTAATTTT
16022787 GTAAATCGAG
Statistics
Matches: 137, Mismatches: 33, Indels: 14
0.74 0.18 0.08
Matches are distributed among these distances:
53 2 0.01
54 82 0.60
55 20 0.15
56 33 0.24
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.41
Consensus pattern (54 bp):
TTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTTGTAAACCAATGGTA
Found at i:16022838 original size:54 final size:54
Alignment explanation
Indices: 16022778--16022935 Score: 228
Period size: 54 Copynumber: 2.9 Consensus size: 54
16022768 AAAGTATTTT
* *
16022778 AGTAATTTTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAAC
* * * * * *
16022832 -GATAATTCTATAAATTGAGGGTAAAATGGTACTTTTATAAATCGAGGGTAAAAC
1 AG-TAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAAC
16022886 AGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTA
1 AGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTA
16022936 CTTTGGTAAT
Statistics
Matches: 88, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
53 1 0.01
54 86 0.98
55 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.30
Consensus pattern (54 bp):
AGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAAC
Found at i:16022838 original size:81 final size:81
Alignment explanation
Indices: 16022761--16022926 Score: 199
Period size: 81 Copynumber: 2.0 Consensus size: 81
16022751 GGTAATTTTG
*** *
16022761 TAAACCAAAAGTATTTTAGTAATTTTGTAAATCGAGGGTAAAAC-GATAATTCTGTAAATCGAGG
1 TAAACCAAAAGTAAAATAGTAATTTTATAAATCGAGGGTAAAACAG-TAATTCTGTAAATCGAGG
16022825 GTAAAACGATAATTCTA
65 GTAAAACGATAATTCTA
*** ** * * *
16022842 TAAATTGAGGGTAAAATGGTACTTTTATAAATCGAGGGTAAAACAGTAATTTTGTAAATCGAGGG
1 TAAACCAAAAGTAAAATAGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGG
*
16022907 TAAAACGGTAATTCTA
66 TAAAACGATAATTCTA
16022923 TAAA
1 TAAA
16022927 TCGAGGGTAC
Statistics
Matches: 71, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
81 70 0.99
82 1 0.01
ACGTcount: A:0.42, C:0.08, G:0.19, T:0.31
Consensus pattern (81 bp):
TAAACCAAAAGTAAAATAGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGG
TAAAACGATAATTCTA
Found at i:16022943 original size:81 final size:81
Alignment explanation
Indices: 16022779--16022959 Score: 256
Period size: 81 Copynumber: 2.2 Consensus size: 81
16022769 AAGTATTTTA
*
16022779 GTAATTTTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAACGATAATTCTATA
1 GTAATTTTATAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAACGATAATTCTATA
*
16022844 AATTGAGGGTAAAATG
66 AATCGAGGGTAAAATG
* * *
16022860 GTACTTTTATAAATCGAGGGTAAAAC-AGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTAT
1 GTAATTTTATAAATCGAGGGTAAAACGA-TAATTCTGTAAATCGAGGGTAAAACGATAATTCTAT
***
16022924 AAATCGAGGGTACTTTG
65 AAATCGAGGGTAAAATG
* *
16022941 GTAATTTTACAAATTGAGG
1 GTAATTTTATAAATCGAGG
16022960 ACATTTTAGT
Statistics
Matches: 88, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
80 1 0.01
81 87 0.99
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.31
Consensus pattern (81 bp):
GTAATTTTATAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAACGATAATTCTATA
AATCGAGGGTAAAATG
Found at i:16022946 original size:27 final size:27
Alignment explanation
Indices: 16022779--16022935 Score: 206
Period size: 27 Copynumber: 5.8 Consensus size: 27
16022769 AAGTATTTTA
* *
16022779 GTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
16022806 ATAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* * *
16022833 ATAATTCTATAAATTGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
* * *
16022860 GTACTTTTATAAATCGAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
16022887 GTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
16022914 GTAATTCTATAAATCGAGGGTA
1 GTAATTCTATAAATCGAGGGTA
16022936 CTTTGGTAAT
Statistics
Matches: 114, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 114 1.00
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.30
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAACG
Found at i:16022980 original size:81 final size:81
Alignment explanation
Indices: 16022779--16022980 Score: 201
Period size: 81 Copynumber: 2.5 Consensus size: 81
16022769 AAGTATTTTA
** **
16022779 GTAATTTTGTAAATCGAGGGTAAAAC-GATAATTCT-GTAAATCGAGGGTAAAACGATAATTCTA
1 GTAATTTTACAAATCGAGGACAAAACAG-TAATT-TGGTAAATCGAGGGTAAAACGATAATTCTA
*
16022842 TAAATTGAGGGTAAAATG
64 TAAATCGAGGGTAAAATG
* * ** * *
16022860 GTACTTTTATAAATCGAGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATA
1 GTAATTTTACAAATCGAGGACAAAACAGTAATTTGGTAAATCGAGGGTAAAACGATAATTCTATA
***
16022925 AATCGAGGGTACTTTG
66 AATCGAGGGTAAAATG
* ****
16022941 GTAATTTTACAAATTGAGGACATTTTAGTAATTTGGTAAA
1 GTAATTTTACAAATCGAGGACAAAACAGTAATTTGGTAAA
16022981 CTAAAGTATT
Statistics
Matches: 102, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
80 1 0.01
81 100 0.98
82 1 0.01
ACGTcount: A:0.38, C:0.08, G:0.21, T:0.33
Consensus pattern (81 bp):
GTAATTTTACAAATCGAGGACAAAACAGTAATTTGGTAAATCGAGGGTAAAACGATAATTCTATA
AATCGAGGGTAAAATG
Found at i:16027008 original size:40 final size:39
Alignment explanation
Indices: 16026897--16027010 Score: 138
Period size: 40 Copynumber: 2.8 Consensus size: 39
16026887 TTAATCACGT
* * *
16026897 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* * *
16026937 GCACGAATGCCTTCGGGCCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
*
16026977 GCACAATTGCCTTCGGGTCTTAACCCGGATATAA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAA
16027011 TTTCCAGCAT
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
39 2 0.03
40 61 0.97
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
Found at i:16035020 original size:40 final size:39
Alignment explanation
Indices: 16034909--16035059 Score: 142
Period size: 40 Copynumber: 3.8 Consensus size: 39
16034899 TTAATCACGT
* * *
16034909 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* * *
16034949 GCACGAATGCCTTCGGGCCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *** *
16034989 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *
16035029 GCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAT
16035060 CATTCAATTT
Statistics
Matches: 93, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
39 15 0.16
40 78 0.84
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
Found at i:16035043 original size:80 final size:79
Alignment explanation
Indices: 16034909--16035059 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
16034899 TTAATCACGT
*
16034909 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
16034974 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
16034989 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
16035052 CCGGATAT
64 CCGGATAT
16035060 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:16037639 original size:31 final size:31
Alignment explanation
Indices: 16037601--16037663 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
16037591 TTGCAATTTG
*
16037601 TTTTATATTTGCCTTGGCCTTTACATCTATC
1 TTTTATATTTCCCTTGGCCTTTACATCTATC
16037632 TTTTATATTTCCCTTGGCCTTTACATCTATC
1 TTTTATATTTCCCTTGGCCTTTACATCTATC
16037663 T
1 T
16037664 CATCATCTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.16, C:0.24, G:0.08, T:0.52
Consensus pattern (31 bp):
TTTTATATTTCCCTTGGCCTTTACATCTATC
Found at i:16039069 original size:41 final size:41
Alignment explanation
Indices: 16039015--16039375 Score: 326
Period size: 41 Copynumber: 8.9 Consensus size: 41
16039005 CGTTTACTTA
* * *
16039015 AAAACG-CAGTAAAAAATGAGAAATAGCGACGTTTTTATCT
1 AAAACGCCACTAAAAACTGAGAAATAGCGGCGTTTTTATCT
* ** *
16039055 AAAACGCCACTAAAAACAGATCAATAGCGGCGTTTTTGTCT
1 AAAACGCCACTAAAAACTGAGAAATAGCGGCGTTTTTATCT
* * ** * *
16039096 AAAACACCACTAAAAACAGATCAATAGCAGTGTTTTTATCT
1 AAAACGCCACTAAAAACTGAGAAATAGCGGCGTTTTTATCT
* * *
16039137 -AAACGCCACTAAAAACTGAGGAAATAGTGGCATTTTTGTCCT
1 AAAACGCCACTAAAAACTGA-GAAATAGCGGCGTTTTTAT-CT
* * ** *
16039179 -AAATGCCACT-AAAACTAATCAATAGCGGTGTTTTTATCT
1 AAAACGCCACTAAAAACTGAGAAATAGCGGCGTTTTTATCT
*
16039218 AAAATGCCACT-AAAACTAGAGAAATAGCGGCGTTTTT-TCT
1 AAAACGCCACTAAAAACT-GAGAAATAGCGGCGTTTTTATCT
** *
16039258 -AAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTATCC
1 AAAACGCCACTAAAAACTGAGAAATAGCGGCGTTTTTATCT
* * * *
16039298 AAAATGCCACTAAAAACTGGAGAAATAGTGGTGTTTTTGTC-
1 AAAACGCCACTAAAAACT-GAGAAATAGCGGCGTTTTTATCT
* ** *
16039339 CAAACGCCACT-AAAACTGATCAACAGCGGCGTTTTTA
1 AAAACGCCACTAAAAACTGAGAAATAGCGGCGTTTTTA
16039376 AGCCCAAACG
Statistics
Matches: 262, Mismatches: 50, Indels: 19
0.79 0.15 0.06
Matches are distributed among these distances:
39 42 0.16
40 69 0.26
41 123 0.47
42 28 0.11
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.27
Consensus pattern (41 bp):
AAAACGCCACTAAAAACTGAGAAATAGCGGCGTTTTTATCT
Found at i:16039203 original size:81 final size:83
Alignment explanation
Indices: 16039036--16039375 Score: 405
Period size: 81 Copynumber: 4.2 Consensus size: 83
16039026 AAAAATGAGA
* **
16039036 AATAGCGACGTTTTTATCTAAAACGCCACTAAAAAC--AGATCAATAGCGGCGTTTTTGTCTAAA
1 AATAGCGGCGTTTTTATCTAAAACGCCACTAAAAACTGAGAGAAATAGCGGCGTTTTTGTCT-AA
*
16039099 ACACCACTAAAAAC-AGATC
65 ACGCCACTAAAAACTA-ATC
* * * *
16039118 AATAGCAGTGTTTTTATCT-AAACGCCACTAAAAACTGAG-GAAATAGTGGCATTTTTGTCCTAA
1 AATAGCGGCGTTTTTATCTAAAACGCCACTAAAAACTGAGAGAAATAGCGGCGTTTTTGT-CTAA
*
16039181 ATGCCACT-AAAACTAATC
65 ACGCCACTAAAAACTAATC
* *
16039199 AATAGCGGTGTTTTTATCTAAAATGCCACT-AAAACT-AGAGAAATAGCGGCGTTTTT-TCTAAA
1 AATAGCGGCGTTTTTATCTAAAACGCCACTAAAAACTGAGAGAAATAGCGGCGTTTTTGTCTAAA
*
16039261 CGCCACTAAAAACTGATC
66 CGCCACTAAAAACTAATC
* * * * *
16039279 AATAGCGGCGTTTTTATCCAAAATGCCACTAAAAACTG-GAGAAATAGTGGTGTTTTTGTCCAAA
1 AATAGCGGCGTTTTTATCTAAAACGCCACTAAAAACTGAGAGAAATAGCGGCGTTTTTGTCTAAA
*
16039343 CGCCACT-AAAACTGATC
66 CGCCACTAAAAACTAATC
*
16039360 AACAGCGGCGTTTTTA
1 AATAGCGGCGTTTTTA
16039376 AGCCCAAACG
Statistics
Matches: 227, Mismatches: 21, Indels: 21
0.84 0.08 0.08
Matches are distributed among these distances:
79 11 0.05
80 40 0.18
81 111 0.49
82 61 0.27
83 4 0.02
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (83 bp):
AATAGCGGCGTTTTTATCTAAAACGCCACTAAAAACTGAGAGAAATAGCGGCGTTTTTGTCTAAA
CGCCACTAAAAACTAATC
Found at i:16039992 original size:15 final size:15
Alignment explanation
Indices: 16039969--16040028 Score: 68
Period size: 15 Copynumber: 3.9 Consensus size: 15
16039959 TTTAAAGTGT
16039969 TTAGGGTTTAGGGTA
1 TTAGGGTTTAGGGTA
* * *
16039984 TTAGTGTTTAAGGTT
1 TTAGGGTTTAGGGTA
16039999 TTAAGGG-TTAGGGTA
1 TT-AGGGTTTAGGGTA
16040014 TTAGGGTTTAAGGGT
1 TTAGGGTTT-AGGGT
16040029 TAGTTGATTA
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
14 4 0.11
15 24 0.67
16 8 0.22
ACGTcount: A:0.22, C:0.00, G:0.37, T:0.42
Consensus pattern (15 bp):
TTAGGGTTTAGGGTA
Found at i:16040009 original size:22 final size:22
Alignment explanation
Indices: 16039964--16040032 Score: 72
Period size: 22 Copynumber: 3.1 Consensus size: 22
16039954 GATGTTTTAA
16039964 AGTGT-TTAGGGTTT-AGGGTATT
1 AGTGTATTAGGGTTTAAGGG--TT
*
16039986 AGTGT-TTAAGGTTTTAAGGGTT
1 AGTGTATT-AGGGTTTAAGGGTT
*
16040008 AGGGTATTAGGGTTTAAGGGTT
1 AGTGTATTAGGGTTTAAGGGTT
16040030 AGT
1 AGT
16040033 TGATTAAATG
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
22 28 0.70
23 8 0.20
24 4 0.10
ACGTcount: A:0.22, C:0.00, G:0.36, T:0.42
Consensus pattern (22 bp):
AGTGTATTAGGGTTTAAGGGTT
Found at i:16040017 original size:8 final size:7
Alignment explanation
Indices: 16039967--16040029 Score: 56
Period size: 8 Copynumber: 8.4 Consensus size: 7
16039957 GTTTTAAAGT
16039967 GTTTAGG
1 GTTTAGG
16039974 GTTTAGG
1 GTTTAGG
*
16039981 GTATTAGT
1 GT-TTAGG
16039989 GTTTAAGG
1 GTTT-AGG
*
16039997 TTTTAAGG
1 GTTT-AGG
16040005 G-TTAGG
1 GTTTAGG
16040011 GTATTAGG
1 GT-TTAGG
16040019 GTTTAAGG
1 GTTT-AGG
16040027 GTT
1 GTT
16040030 AGTTGATTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
6 4 0.09
7 15 0.32
8 28 0.60
ACGTcount: A:0.21, C:0.00, G:0.37, T:0.43
Consensus pattern (7 bp):
GTTTAGG
Found at i:16042501 original size:25 final size:27
Alignment explanation
Indices: 16042464--16042516 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
16042454 TCAAACATGC
16042464 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
16042490 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
16042516 A
1 A
16042517 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:16044060 original size:26 final size:26
Alignment explanation
Indices: 16044002--16044110 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
16043992 CATGAAATTC
16044002 TTATCATGAAACATTTACCTAA-CCA
1 TTATCATGAAACATTTACCTAACCCA
16044027 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
16044053 TTATCATGGAATATTTACCTAATCCA
1 TTATCATGAAACATTTACCTAACCCA
*
16044079 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
16044105 TTATCA
1 TTATCA
16044111 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
25 22 0.28
26 56 0.72
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:16044683 original size:27 final size:27
Alignment explanation
Indices: 16044653--16044807 Score: 217
Period size: 27 Copynumber: 5.7 Consensus size: 27
16044643 GTGACGAAGT
16044653 CACCAGATACAGAT-ATTGTGGCAGAGC
1 CACCAGA-ACAGATAATTGTGGCAGAGC
16044680 CACCAGAACAGAT-ATATGTGGCAGAGC
1 CACCAGAACAGATAAT-TGTGGCAGAGC
* * *
16044707 CACCAGATCAGATAATCGTGGCATAGC
1 CACCAGAACAGATAATTGTGGCAGAGC
*
16044734 CACCAGAACAGATAATTGTGGCATAGC
1 CACCAGAACAGATAATTGTGGCAGAGC
16044761 CACCAGAACAGAT-ATATGTGGCAGAGC
1 CACCAGAACAGATAAT-TGTGGCAGAGC
*
16044788 CACCAGATCAGATAATTGTG
1 CACCAGAACAGATAATTGTG
16044808 TTATAGCCAC
Statistics
Matches: 117, Mismatches: 7, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
26 10 0.09
27 103 0.88
28 4 0.03
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (27 bp):
CACCAGAACAGATAATTGTGGCAGAGC
Found at i:16044752 original size:81 final size:81
Alignment explanation
Indices: 16044653--16044820 Score: 284
Period size: 81 Copynumber: 2.1 Consensus size: 81
16044643 GTGACGAAGT
16044653 CACCAGATACAGATATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAG
1 CACCAGATACAGATATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAG
16044718 ATAATCGTGGCATAGC
66 ATAATCGTGGCATAGC
*
16044734 CACCAGA-ACAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCA
1 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCA
* **
16044798 GATAATTGTGTTATAGC
65 GATAATCGTGGCATAGC
16044815 CACCAG
1 CACCAG
16044821 GACGCTTCCT
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
80 6 0.07
81 76 0.93
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.18
Consensus pattern (81 bp):
CACCAGATACAGATATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAG
ATAATCGTGGCATAGC
Found at i:16046413 original size:26 final size:26
Alignment explanation
Indices: 16046383--16046490 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
16046373 TGAAATTCCC
16046383 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
16046409 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
16046435 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
16046461 ATCATGGAACATTTACTTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
16046487 ATCA
1 ATCA
16046491 ATTTGTATCA
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:0.36, C:0.25, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:16047010 original size:41 final size:39
Alignment explanation
Indices: 16046953--16047070 Score: 155
Period size: 41 Copynumber: 2.9 Consensus size: 39
16046943 GTCTCCAAGG
*
16046953 GAATTAGTGGCGTTTTTAAAAATATCGCCGCTAAAAATAGA
1 GAATTAGCGGCGTTTTTAAAAA-A-CGCCGCTAAAAATAGA
*
16046994 GAATTAGCGGCGTTTTTAAAAAAAGCACTGCTAAAAATAGA
1 GAATTAGCGGCGTTTTTAAAAAACGC-C-GCTAAAAATAGA
*
16047035 GAATTAGCGGCGCTTTTTTTAAAAACGCCGCTAAAA
1 GAATTAGCGGCG--TTTTTAAAAAACGCCGCTAAAA
16047071 GCTTAATTAA
Statistics
Matches: 69, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
39 2 0.03
40 2 0.03
41 52 0.75
42 1 0.01
43 12 0.17
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.27
Consensus pattern (39 bp):
GAATTAGCGGCGTTTTTAAAAAACGCCGCTAAAAATAGA
Found at i:16047410 original size:17 final size:17
Alignment explanation
Indices: 16047388--16047420 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
16047378 AAGCTCCTTG
16047388 TTTCATTTCGATTTCAT
1 TTTCATTTCGATTTCAT
16047405 TTTCATTTCGATTTCA
1 TTTCATTTCGATTTCA
16047421 CTTCTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.18, G:0.06, T:0.58
Consensus pattern (17 bp):
TTTCATTTCGATTTCAT
Found at i:16049077 original size:9 final size:9
Alignment explanation
Indices: 16049063--16049344 Score: 120
Period size: 9 Copynumber: 31.2 Consensus size: 9
16049053 TATTATTTAA
16049063 TACATAACT
1 TACATAACT
16049072 TACATAACT
1 TACATAACT
*
16049081 TATATAA--
1 TACATAACT
16049088 TACATAACT
1 TACATAACT
16049097 TACATAA--
1 TACATAACT
16049104 TACATAACT
1 TACATAACT
*
16049113 TACATAATT
1 TACATAACT
* *
16049122 TAAAGATCAAAT
1 T--ACAT-AACT
**
16049134 TTTATAACT
1 TACATAACT
* *
16049143 TATATAATT
1 TACATAACT
16049152 TACATAACT
1 TACATAACT
16049161 TACATAA--
1 TACATAACT
* *
16049168 TACATGAGT
1 TACATAACT
*
16049177 TACATAATT
1 TACATAACT
* *
16049186 TAAAGATCAAAAT
1 T--ACAT--AACT
* *
16049199 TTCAAAACT
1 TACATAACT
*
16049208 TGCATAA--
1 TACATAACT
16049215 TACATAACT
1 TACATAACT
*
16049224 TACATAATT
1 TACATAACT
* *
16049233 TAAAGATCAAAT
1 T--ACAT-AACT
*
16049245 TTCATAACT
1 TACATAACT
16049254 TACATAA--
1 TACATAACT
16049261 TACATAACT
1 TACATAACT
*
16049270 TACATAATT
1 TACATAACT
* *
16049279 TAAAGATCAAAT
1 T--ACAT-AACT
*
16049291 TTCATAACT
1 TACATAACT
*
16049300 TACATAATT
1 TACATAACT
*
16049309 TAAATAACT
1 TACATAACT
16049318 TACATAA--
1 TACATAACT
*
16049325 TACATGACT
1 TACATAACT
16049334 TACATAACT
1 TACATAACT
16049343 TA
1 TA
16049345 ATTATACTTA
Statistics
Matches: 204, Mismatches: 44, Indels: 50
0.68 0.15 0.17
Matches are distributed among these distances:
7 38 0.19
9 131 0.64
10 6 0.03
11 13 0.06
12 12 0.06
13 4 0.02
ACGTcount: A:0.47, C:0.15, G:0.03, T:0.35
Consensus pattern (9 bp):
TACATAACT
Found at i:16049083 original size:25 final size:25
Alignment explanation
Indices: 16049055--16049276 Score: 106
Period size: 25 Copynumber: 9.0 Consensus size: 25
16049045 TTTTTAAATA
*
16049055 TTATTTAATACATAACTTACATAAC
1 TTATATAATACATAACTTACATAAC
16049080 TTATATAATACATAACTTACATAA-
1 TTATATAATACATAACTTACATAAC
* * * *
16049104 -TACATAACTTACATAATTTAAAGATCAAA
1 TTATATAA--TACATAACTT--ACAT-AAC
* * *
16049133 TTTTATAACTTATATAATTTACATAAC
1 TTATATAA--TACATAACTTACATAAC
* * *
16049160 TTACATAATACATGAGTTACATAA-
1 TTATATAATACATAACTTACATAAC
* * * *
16049184 TT-TA-AAGATCA-AAATTTCAAAAC
1 TTATATAATA-CATAACTTACATAAC
**
16049207 TTGCATAATACATAACTTACATAA-
1 TTATATAATACATAACTTACATAAC
* *
16049231 TT-TA-AAGATCA-AA-TTTCATAAC
1 TTATATAATA-CATAACTTACATAAC
*
16049253 TTACATAATACATAACTTACATAA
1 TTATATAATACATAACTTACATAA
16049277 TTTAAAGATC
Statistics
Matches: 148, Mismatches: 31, Indels: 36
0.69 0.14 0.17
Matches are distributed among these distances:
21 7 0.05
22 17 0.11
23 17 0.11
24 12 0.08
25 63 0.43
27 11 0.07
28 5 0.03
30 16 0.11
ACGTcount: A:0.47, C:0.14, G:0.03, T:0.36
Consensus pattern (25 bp):
TTATATAATACATAACTTACATAAC
Found at i:16049093 original size:16 final size:16
Alignment explanation
Indices: 16049072--16049340 Score: 119
Period size: 16 Copynumber: 17.0 Consensus size: 16
16049062 ATACATAACT
*
16049072 TACATAACTTATATAA
1 TACATAACTTACATAA
16049088 TACATAACTTACATAA
1 TACATAACTTACATAA
16049104 TACATAACTTACATAA
1 TACATAACTTACATAA
** **
16049120 TTTA-AAGAT-CA-AA
1 TACATAACTTACATAA
** *
16049133 TTTTATAACTTATATAA
1 -TACATAACTTACATAA
16049150 TTTACATAACTTACATAA
1 --TACATAACTTACATAA
* *
16049168 TACATGAGTTACATAA
1 TACATAACTTACATAA
** ** *
16049184 TTTA-AAGAT-CAAAA
1 TACATAACTTACATAA
* * *
16049198 TTTCAAAACTTGCATAA
1 -TACATAACTTACATAA
16049215 TACATAACTTACATAA
1 TACATAACTTACATAA
** **
16049231 TTTA-AAGAT-CA-AA
1 TACATAACTTACATAA
*
16049244 TTTCATAACTTACATAA
1 -TACATAACTTACATAA
16049261 TACATAACTTACATAA
1 TACATAACTTACATAA
** **
16049277 TTTA-AAGAT-CA-AA
1 TACATAACTTACATAA
*
16049290 TTTCATAACTTACATAA
1 -TACATAACTTACATAA
*
16049307 TTTAAATAACTTACATAA
1 --TACATAACTTACATAA
*
16049325 TACATGACTTACATAA
1 TACATAACTTACATAA
16049341 CTTAATTATA
Statistics
Matches: 192, Mismatches: 44, Indels: 34
0.71 0.16 0.13
Matches are distributed among these distances:
13 6 0.03
14 20 0.10
15 24 0.12
16 103 0.54
17 10 0.05
18 29 0.15
ACGTcount: A:0.48, C:0.14, G:0.03, T:0.35
Consensus pattern (16 bp):
TACATAACTTACATAA
Found at i:16049171 original size:64 final size:63
Alignment explanation
Indices: 16049074--16049231 Score: 237
Period size: 64 Copynumber: 2.5 Consensus size: 63
16049064 ACATAACTTA
16049074 CATAACTTATATAATACATAACTTACATAATACATAACTTACATAATTTAAAGATC-AAATTT
1 CATAACTTATATAATACATAACTTACATAATACATAACTTACATAATTTAAAGATCAAAATTT
* * *
16049136 TATAACTTATATAATTTACATAACTTACATAATACATGAGTTACATAATTTAAAGATCAAAATTT
1 CATAACTTATATAA--TACATAACTTACATAATACATAACTTACATAATTTAAAGATCAAAATTT
* **
16049201 CAAAACTTGCATAATACATAACTTACATAAT
1 CATAACTTATATAATACATAACTTACATAAT
16049232 TTAAAGATCA
Statistics
Matches: 86, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
62 13 0.15
63 17 0.20
64 40 0.47
65 16 0.19
ACGTcount: A:0.47, C:0.14, G:0.03, T:0.35
Consensus pattern (63 bp):
CATAACTTATATAATACATAACTTACATAATACATAACTTACATAATTTAAAGATCAAAATTT
Found at i:16049258 original size:93 final size:94
Alignment explanation
Indices: 16049148--16049325 Score: 279
Period size: 93 Copynumber: 1.9 Consensus size: 94
16049138 TAACTTATAT
* * *
16049148 AATTTACATAACTTACATAATACATGAGTTACATAATTTAAAGATCAAAATTTCAAAACTTGCAT
1 AATTTACATAACTTACATAATACATAACTTACATAATTTAAAGATC-AAATTTCAAAACTTACAT
*
16049213 AA-TACATAACTTACATAATTTAAAGATCA
65 AATTAAATAACTTACATAATTTAAAGATCA
*
16049242 AATTT-CATAACTTACATAATACATAACTTACATAATTTAAAGATCAAATTTCATAACTTACATA
1 AATTTACATAACTTACATAATACATAACTTACATAATTTAAAGATCAAATTTCAAAACTTACATA
16049306 ATTTAAATAACTTACATAAT
66 A-TTAAATAACTTACATAAT
16049326 ACATGACTTA
Statistics
Matches: 77, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
92 18 0.23
93 38 0.49
94 21 0.27
ACGTcount: A:0.48, C:0.14, G:0.03, T:0.35
Consensus pattern (94 bp):
AATTTACATAACTTACATAATACATAACTTACATAATTTAAAGATCAAATTTCAAAACTTACATA
ATTAAATAACTTACATAATTTAAAGATCA
Found at i:16049262 original size:46 final size:46
Alignment explanation
Indices: 16049148--16049325 Score: 275
Period size: 46 Copynumber: 3.8 Consensus size: 46
16049138 TAACTTATAT
* *
16049148 AATTTACATAACTTACATAATACATGAGTTACATAATTTAAAGATCAA
1 AATTT-CATAACTTACATAATACATAACTTACATAATTTAAAGATC-A
* *
16049196 AATTTCAAAACTTGCATAATACATAACTTACATAATTTAAAGATCA
1 AATTTCATAACTTACATAATACATAACTTACATAATTTAAAGATCA
16049242 AATTTCATAACTTACATAATACATAACTTACATAATTTAAAGATCA
1 AATTTCATAACTTACATAATACATAACTTACATAATTTAAAGATCA
*
16049288 AATTTCATAACTTACATAATTTAAATAACTTACATAAT
1 AATTTCATAACTTACATAA--TACATAACTTACATAAT
16049326 ACATGACTTA
Statistics
Matches: 121, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
46 64 0.53
47 36 0.30
48 21 0.17
ACGTcount: A:0.48, C:0.14, G:0.03, T:0.35
Consensus pattern (46 bp):
AATTTCATAACTTACATAATACATAACTTACATAATTTAAAGATCA
Found at i:16049369 original size:34 final size:34
Alignment explanation
Indices: 16049296--16049370 Score: 80
Period size: 34 Copynumber: 2.2 Consensus size: 34
16049286 CAAATTTCAT
* * *
16049296 AACTTACATAATTTAAATAACTTACATAATACAT
1 AACTTACATAACTTAAATAACTTACATAATAAAC
* * *
16049330 GACTTACATAACTTAATTATACTTATA-AATAAAC
1 AACTTACATAACTTAAATA-ACTTACATAATAAAC
16049364 AACTTAC
1 AACTTAC
16049371 CCGTGTAATT
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
34 27 0.82
35 6 0.18
ACGTcount: A:0.48, C:0.16, G:0.01, T:0.35
Consensus pattern (34 bp):
AACTTACATAACTTAAATAACTTACATAATAAAC
Found at i:16053617 original size:13 final size:14
Alignment explanation
Indices: 16053601--16053629 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
16053591 TTATAAATAT
16053601 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
16053614 TTATAATGGTTTAA
1 TTATAATGGTTTAA
16053628 TT
1 TT
16053630 CATGTTAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:16054048 original size:21 final size:21
Alignment explanation
Indices: 16054022--16054061 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
16054012 TAGAGCGGAG
*
16054022 GCAGCAGATAGGGAGGCAGCA
1 GCAGCAGAGAGGGAGGCAGCA
*
16054043 GCAGCAGCGAGGGAGGCAG
1 GCAGCAGAGAGGGAGGCAG
16054062 AGGCGAGCAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.20, G:0.47, T:0.03
Consensus pattern (21 bp):
GCAGCAGAGAGGGAGGCAGCA
Found at i:16057947 original size:26 final size:26
Alignment explanation
Indices: 16057911--16058020 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
16057901 TGATACAAAT
16057911 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
16057937 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
16057963 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
16057989 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
16058015 TGATAA
1 TGATAA
16058021 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:16059688 original size:27 final size:26
Alignment explanation
Indices: 16059639--16059751 Score: 118
Period size: 27 Copynumber: 4.2 Consensus size: 26
16059629 GAGGAAGCGT
* * *
16059639 TCTGGTAGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCAC-ATTATCTGA
* *
16059666 TCTAGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAT-TATCTGA
16059693 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCAC-ATTATCTG-A
* * *
16059721 TCTGGTGACTCTGTCACATTATCTGT
1 TCTGGTGGCTCTGCCACATTATCTGA
16059747 TCTGG
1 TCTGG
16059752 CAGCCATGCT
Statistics
Matches: 73, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
26 6 0.08
27 50 0.68
28 17 0.23
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (26 bp):
TCTGGTGGCTCTGCCACATTATCTGA
Found at i:16059744 original size:54 final size:54
Alignment explanation
Indices: 16059637--16059760 Score: 151
Period size: 54 Copynumber: 2.3 Consensus size: 54
16059627 TGGAGGAAGC
*
16059637 GTTCTGGTAGCTATGCCACAAATATCTGATCTAGTGGCTCTGCCACATATATCT
1 GTTCTGGTAGCTATGCCACAAATATCTGATCTAGTGACTCTGCCACATATATCT
* * * * * *
16059691 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCT
1 GTTCTGGTAGCTATGCCACAAATATCTG-ATCTAGTGACTCTGCCACATATATCT
* *
16059745 GTTCTGGCAGCCATGC
1 GTTCTGGTAGCTATGC
16059761 TGCAAATTCT
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
54 41 0.71
55 17 0.29
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.35
Consensus pattern (54 bp):
GTTCTGGTAGCTATGCCACAAATATCTGATCTAGTGACTCTGCCACATATATCT
Found at i:16061496 original size:15 final size:15
Alignment explanation
Indices: 16061476--16061505 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
16061466 ATTCTGTTAT
*
16061476 CTGTTTGTGTGCATG
1 CTGTTTGTGGGCATG
16061491 CTGTTTGTGGGCATG
1 CTGTTTGTGGGCATG
16061506 TACACACTGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.13, G:0.37, T:0.43
Consensus pattern (15 bp):
CTGTTTGTGGGCATG
Found at i:16076416 original size:26 final size:26
Alignment explanation
Indices: 16076387--16076494 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
16076377 TGATACAAAT
*
16076387 TGATAATGGGTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
16076413 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
16076439 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
16076465 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
16076491 TGAT
1 TGAT
16076495 GGGAATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:16081683 original size:20 final size:20
Alignment explanation
Indices: 16081658--16081695 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
16081648 CATCTGTTAC
16081658 TTTAGACTTTTACTTTTAGT
1 TTTAGACTTTTACTTTTAGT
* *
16081678 TTTAGATTTTTATTTTTA
1 TTTAGACTTTTACTTTTA
16081696 TTTATTAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.05, G:0.08, T:0.66
Consensus pattern (20 bp):
TTTAGACTTTTACTTTTAGT
Found at i:16081745 original size:18 final size:18
Alignment explanation
Indices: 16081722--16081761 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
16081712 TAATTTTTAT
16081722 GGTTGGGTTGGGTAATTG
1 GGTTGGGTTGGGTAATTG
*
16081740 GGTTGGGTTGGGTACTTG
1 GGTTGGGTTGGGTAATTG
16081758 GGTT
1 GGTT
16081762 TATACATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.07, C:0.03, G:0.50, T:0.40
Consensus pattern (18 bp):
GGTTGGGTTGGGTAATTG
Found at i:16082052 original size:26 final size:27
Alignment explanation
Indices: 16082023--16082074 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
16082013 TTTTATACAC
*
16082023 CTCTA-CTACAGGGTACGTTTTCACTG
1 CTCTATCTACAGGGCACGTTTTCACTG
**
16082049 CTCTATCTGTAGGGCACGTTTTCACT
1 CTCTATCTACAGGGCACGTTTTCACT
16082075 TAGGTGAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 5 0.23
27 17 0.77
ACGTcount: A:0.17, C:0.27, G:0.19, T:0.37
Consensus pattern (27 bp):
CTCTATCTACAGGGCACGTTTTCACTG
Found at i:16083894 original size:23 final size:23
Alignment explanation
Indices: 16083860--16083918 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
16083850 ACCCCACATG
* * *
16083860 GTGTGTAGGGATACTCGGAGATA
1 GTGTGTAAGGATACTCGAAAATA
*
16083883 GTGTGTAAGGATAGTCGAAAATA
1 GTGTGTAAGGATACTCGAAAATA
*
16083906 GTATGTAGAGGAT
1 GTGTGTA-AGGAT
16083919 GGTGGGTAAG
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 25 0.83
24 5 0.17
ACGTcount: A:0.32, C:0.05, G:0.36, T:0.27
Consensus pattern (23 bp):
GTGTGTAAGGATACTCGAAAATA
Found at i:16088695 original size:15 final size:15
Alignment explanation
Indices: 16088663--16088700 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
16088653 AAACATAGAA
*
16088663 AAGTTTTAATTTAATT
1 AAGTTTT-ATTAAATT
16088679 AAGTTTTATTAAATT
1 AAGTTTTATTAAATT
16088694 AA-TTTTA
1 AAGTTTTA
16088701 ATATAAAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 5 0.24
15 9 0.43
16 7 0.33
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.55
Consensus pattern (15 bp):
AAGTTTTATTAAATT
Found at i:16089047 original size:45 final size:42
Alignment explanation
Indices: 16088975--16089062 Score: 104
Period size: 45 Copynumber: 2.0 Consensus size: 42
16088965 AAATTTCCAA
*
16088975 TGAATTATCTCAATGGAAAATTCCTTTTGATGGATTGTTATT
1 TGAATTATCTCAATGGAAAATTCCTTTTGATGGATTGATATT
* * **
16089017 TGAATTATCTCTAAAATGGGAAATTTCTTTTTTTGGATTGATATT
1 TGAATTATCTC---AATGGAAAATTCCTTTTGATGGATTGATATT
16089062 T
1 T
16089063 AAAAGGAAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
42 11 0.29
45 27 0.71
ACGTcount: A:0.28, C:0.08, G:0.16, T:0.48
Consensus pattern (42 bp):
TGAATTATCTCAATGGAAAATTCCTTTTGATGGATTGATATT
Found at i:16089953 original size:16 final size:16
Alignment explanation
Indices: 16089932--16089968 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
16089922 TTTCTGTGCT
16089932 AGAGACAGAGAGAGAG
1 AGAGACAGAGAGAGAG
* *
16089948 AGAGACAGAGGGGGAG
1 AGAGACAGAGAGAGAG
16089964 AGAGA
1 AGAGA
16089969 GAGGGGTGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.46, C:0.05, G:0.49, T:0.00
Consensus pattern (16 bp):
AGAGACAGAGAGAGAG
Found at i:16095622 original size:24 final size:24
Alignment explanation
Indices: 16095578--16095623 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
16095568 TTGCTTTTCC
* *
16095578 TTGCTTTTTTTTACTTTTTTTTTT
1 TTGCTTTTTCTTACTTATTTTTTT
16095602 TTGCTATTTTCTTA-TTATTTTT
1 TTGCT-TTTTCTTACTTATTTTT
16095624 CACTATTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 12 0.63
25 7 0.37
ACGTcount: A:0.09, C:0.09, G:0.04, T:0.78
Consensus pattern (24 bp):
TTGCTTTTTCTTACTTATTTTTTT
Found at i:16106299 original size:26 final size:26
Alignment explanation
Indices: 16106263--16106372 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
16106253 TGATACAAAT
16106263 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
16106289 TGATAATAGGTTACGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
16106315 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
16106341 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
16106367 TGATAA
1 TGATAA
16106373 GAATTTCATG
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.34, C:0.06, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:16107921 original size:54 final size:54
Alignment explanation
Indices: 16107837--16108004 Score: 234
Period size: 54 Copynumber: 3.1 Consensus size: 54
16107827 AGGAAGCGTC
** *
16107837 CTGGTGGCTATAACACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGTTCTGGTGGCTCTGCCACATATATCTGTT
* *
16107891 CTGGTGGCTATGCCACAATTATCTGTTCTGGTGGCTATGCCACGAT-TATCTGAT
1 CTGGTGGCTATGCCACAATTATCTGTTCTGGTGGCTCTGCCAC-ATATATCTGTT
*
16107945 CTGGTGGCTCTGCCAC-ATATATCTGTTCTGGTGGCTCTGCCACA-ATATCTGTAT
1 CTGGTGGCTATGCCACAAT-TATCTGTTCTGGTGGCTCTGCCACATATATCTGT-T
16107999 CTGGTG
1 CTGGTG
16108005 ACTTCGTCAC
Statistics
Matches: 102, Mismatches: 8, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
53 9 0.09
54 91 0.89
55 2 0.02
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.35
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGTTCTGGTGGCTCTGCCACATATATCTGTT
Found at i:16107972 original size:81 final size:81
Alignment explanation
Indices: 16107837--16108004 Score: 284
Period size: 81 Copynumber: 2.1 Consensus size: 81
16107827 AGGAAGCGTC
16107837 CTGGTGGCTATAACACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTAT
1 CTGGTGGCTATAACACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTAT
16107902 GCCACAATTATCTGT-T
66 GCCACAA-TATCTGTAT
** * *
16107918 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCT
1 CTGGTGGCTATAACACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTAT
16107983 GCCACAATATCTGTAT
66 GCCACAATATCTGTAT
16107999 CTGGTG
1 CTGGTG
16108005 ACTTCGTCAC
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
80 7 0.09
81 75 0.91
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.35
Consensus pattern (81 bp):
CTGGTGGCTATAACACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTAT
GCCACAATATCTGTAT
Found at i:16108019 original size:27 final size:26
Alignment explanation
Indices: 16107850--16108004 Score: 211
Period size: 27 Copynumber: 5.7 Consensus size: 26
16107840 GTGGCTATAA
*
16107850 CACAATTATCTGATCTGGTGGCTCTGC
1 CACAA-TATCTGTTCTGGTGGCTCTGC
*
16107877 CACATATATCTGTTCTGGTGGCTATGC
1 CACA-ATATCTGTTCTGGTGGCTCTGC
*
16107904 CACAATTATCTGTTCTGGTGGCTATGC
1 CACAA-TATCTGTTCTGGTGGCTCTGC
* *
16107931 CACGATTATCTGATCTGGTGGCTCTGC
1 CAC-AATATCTGTTCTGGTGGCTCTGC
16107958 CACATATATCTGTTCTGGTGGCTCTGC
1 CACA-ATATCTGTTCTGGTGGCTCTGC
16107985 CACAATATCTGTATCTGGTG
1 CACAATATCTGT-TCTGGTG
16108005 ACTTCGTCAC
Statistics
Matches: 116, Mismatches: 7, Indels: 10
0.87 0.05 0.08
Matches are distributed among these distances:
26 10 0.09
27 104 0.90
28 2 0.02
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (26 bp):
CACAATATCTGTTCTGGTGGCTCTGC
Found at i:16108638 original size:25 final size:25
Alignment explanation
Indices: 16108545--16108652 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 25
16108535 TGATACAAAT
16108545 TGATAATGGTTAGGTAAATGTTCCA
1 TGATAATGGTTAGGTAAATGTTCCA
*
16108570 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGG-TTAGGTAAATGTTCCA
*
16108596 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAAT-GGTTAGGTAAATGTTCCA
*
16108622 TGATAATGGTTAGGTAAATGTTTCA
1 TGATAATGGTTAGGTAAATGTTCCA
16108647 TGATAA
1 TGATAA
16108653 GAATTTCATG
Statistics
Matches: 78, Mismatches: 3, Indels: 4
0.92 0.04 0.05
Matches are distributed among these distances:
25 33 0.42
26 43 0.55
27 2 0.03
ACGTcount: A:0.34, C:0.06, G:0.23, T:0.37
Consensus pattern (25 bp):
TGATAATGGTTAGGTAAATGTTCCA
Found at i:16110162 original size:26 final size:26
Alignment explanation
Indices: 16110133--16110185 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
16110123 TTTACAGTTT
16110133 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
16110159 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
16110185 T
1 T
16110186 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:16115023 original size:3 final size:3
Alignment explanation
Indices: 16115017--16115049 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
16115007 GGTTGTTTTT
16115017 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
16115050 AAGAAGCTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:16116380 original size:25 final size:27
Alignment explanation
Indices: 16116343--16116396 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
16116333 TCAAACATGC
16116343 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
* **
16116369 ATTTCGGT-AATTTTGCACCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
16116395 AT
1 AT
16116397 AACAGTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACACCTAGGGGT
Found at i:16117913 original size:26 final size:26
Alignment explanation
Indices: 16117877--16117986 Score: 193
Period size: 26 Copynumber: 4.2 Consensus size: 26
16117867 CATGAAATTC
16117877 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
16117903 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
16117929 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
16117955 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
16117981 TTATCA
1 TTATCA
16117987 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:16118630 original size:26 final size:26
Alignment explanation
Indices: 16118595--16118726 Score: 218
Period size: 25 Copynumber: 5.2 Consensus size: 26
16118585 TGATACAAAT
16118595 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
16118621 TAATAATAGGTTAGGTAAATG-TTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
16118646 T-ATAATAGGTTAGGT-AATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
16118670 TGATAATAGGTTAGGTAAATG-TTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
16118695 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
16118721 TGATAA
1 TGATAA
16118727 GAATTTCATG
Statistics
Matches: 99, Mismatches: 3, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
23 4 0.04
24 18 0.18
25 43 0.43
26 34 0.34
ACGTcount: A:0.36, C:0.05, G:0.22, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:16122026 original size:12 final size:12
Alignment explanation
Indices: 16122009--16122039 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
16121999 ACTCGGGGAA
16122009 GAGGCCGTGGTC
1 GAGGCCGTGGTC
16122021 GAGGCCGTGGTC
1 GAGGCCGTGGTC
16122033 GAGGCCG
1 GAGGCCG
16122040 AGGTAGTACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.10, C:0.26, G:0.52, T:0.13
Consensus pattern (12 bp):
GAGGCCGTGGTC
Found at i:16126946 original size:25 final size:25
Alignment explanation
Indices: 16126913--16127043 Score: 196
Period size: 25 Copynumber: 5.2 Consensus size: 25
16126903 TGATACAAAT
16126913 TGATAATAGGTTAGGTAAATGTTCA
1 TGATAATAGGTTAGGTAAATGTTCA
*
16126938 TAATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATG-TTCA
16126964 T-ATAATAGGTTAGGT-AATGTTCCA
1 TGATAATAGGTTAGGTAAATGTT-CA
*
16126988 TGATAATGGGTTAGGTAAATGTTCA
1 TGATAATAGGTTAGGTAAATGTTCA
16127013 TGATAAT-GGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATG-TTCA
16127038 TGATAA
1 TGATAA
16127044 GAATTTCATG
Statistics
Matches: 99, Mismatches: 2, Indels: 10
0.89 0.02 0.09
Matches are distributed among these distances:
23 2 0.02
24 20 0.20
25 66 0.67
26 11 0.11
ACGTcount: A:0.35, C:0.05, G:0.23, T:0.37
Consensus pattern (25 bp):
TGATAATAGGTTAGGTAAATGTTCA
Found at i:16137328 original size:12 final size:12
Alignment explanation
Indices: 16137308--16137343 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
16137298 TGGGATATGC
*
16137308 AATGTATGAATG
1 AATGCATGAATG
16137320 AATGCATGAATG
1 AATGCATGAATG
16137332 AATGCATGAATG
1 AATGCATGAATG
16137344 TCAAATGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.42, C:0.06, G:0.25, T:0.28
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:16138933 original size:16 final size:15
Alignment explanation
Indices: 16138912--16138959 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
16138902 GATGTGAATA
16138912 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
16138928 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
16138943 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
16138959 A
1 A
16138960 ATAATAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:16138935 original size:24 final size:24
Alignment explanation
Indices: 16138908--16138963 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
16138898 TAATGATGTG
*
16138908 AATAATAAAATATATAAAATA-TAA
1 AATAATAAAATAT-CAAAATATTAA
* *
16138932 AATATTAAAATATCAAAATATTAG
1 AATAATAAAATATCAAAATATTAA
16138956 AATAATAA
1 AATAATAA
16138964 TAATTAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (24 bp):
AATAATAAAATATCAAAATATTAA
Found at i:16138942 original size:8 final size:8
Alignment explanation
Indices: 16138908--16138959 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
16138898 TAATGATGTG
*
16138908 AATAATAA
1 AATATTAA
16138916 AATATATAA
1 AATAT-TAA
16138925 AATA-TAA
1 AATATTAA
16138932 AATATTAA
1 AATATTAA
*
16138940 AATATCAA
1 AATATTAA
*
16138948 AATATTAG
1 AATATTAA
16138956 AATA
1 AATA
16138960 ATAATAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 24 0.63
9 7 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:16139156 original size:16 final size:15
Alignment explanation
Indices: 16139132--16139179 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
16139122 TAATTATTAT
*
16139132 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
16139148 TATTTTAATATTTTA
1 TATTTTAATATTTTA
16139163 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
16139179 T
1 T
16139180 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:16139167 original size:7 final size:8
Alignment explanation
Indices: 16139132--16139183 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
16139122 TAATTATTAT
*
16139132 TATTCTAA
1 TATTTTAA
*
16139140 TATTTTGA
1 TATTTTAA
16139148 TATTTTAA
1 TATTTTAA
16139156 TATTTT-A
1 TATTTTAA
16139163 TATTTTATA
1 TATTTTA-A
*
16139172 TATTTTAT
1 TATTTTAA
16139180 TATT
1 TATT
16139184 CACATCATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:16140625 original size:3 final size:3
Alignment explanation
Indices: 16140617--16140706 Score: 128
Period size: 3 Copynumber: 30.0 Consensus size: 3
16140607 CCATTATTTA
*
16140617 TAT TAT TAT TAC TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
16140665 TAT TAT TAT TAT TAT TAA TAT TAG TA- TAT GTTT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT
16140707 GTATATATTT
Statistics
Matches: 78, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
2 2 0.03
3 74 0.95
4 2 0.03
ACGTcount: A:0.33, C:0.01, G:0.02, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:16140735 original size:12 final size:12
Alignment explanation
Indices: 16140617--16140735 Score: 97
Period size: 12 Copynumber: 10.1 Consensus size: 12
16140607 CCATTATTTA
*
16140617 TATTATTATTAC
1 TATTATTATTAG
*
16140629 TATTATTATTAT
1 TATTATTATTAG
*
16140641 TATTATTATTAT
1 TATTATTATTAG
*
16140653 TATTATTATTAT
1 TATTATTATTAG
*
16140665 TATTATTATTAT
1 TATTATTATTAG
*
16140677 TATTAATATTAG
1 TATTATTATTAG
16140689 TA-TATGT-TT--
1 TATTAT-TATTAG
16140698 TATTATTA-T-G
1 TATTATTATTAG
*
16140708 TATATATTTGTGTAG
1 TAT-TA-TTAT-TAG
16140723 TATTATTATTAG
1 TATTATTATTAG
16140735 T
1 T
16140736 CGTTTTTATT
Statistics
Matches: 92, Mismatches: 6, Indels: 18
0.79 0.05 0.16
Matches are distributed among these distances:
9 4 0.04
10 6 0.07
11 6 0.07
12 66 0.72
13 3 0.03
14 3 0.03
15 4 0.04
ACGTcount: A:0.32, C:0.01, G:0.06, T:0.61
Consensus pattern (12 bp):
TATTATTATTAG
Found at i:16141025 original size:24 final size:25
Alignment explanation
Indices: 16140993--16141173 Score: 103
Period size: 24 Copynumber: 7.3 Consensus size: 25
16140983 TATAAATAGT
16140993 TTTTTATATTATTATCAT-T-TATA
1 TTTTTATATTATTATCATGTATATA
16141016 TGTTTTATA-TA-TATCATGTATATA
1 T-TTTTATATTATTATCATGTATATA
*
16141040 TTTTTA-A-TATTATTA-GTTATATA
1 TTTTTATATTATTATCATG-TATATA
* * *
16141063 TTTCTTATACTATT-CCATGTACATA
1 TTT-TTATATTATTATCATGTATATA
* *
16141088 TTTTTATATCA-TCTCATGTATATA
1 TTTTTATATTATTATCATGTATATA
* *
16141112 TTCTTAAATACTATATTATATATGTATATA
1 TT-TT-TATA-T-TATTAT-CATGTATATA
** *
16141142 TTTTTAGTACCA-TATTATGTATATA
1 TTTTTA-TATTATTATCATGTATATA
*
16141167 TTATTAT
1 TTTTTAT
16141174 TACATTTATT
Statistics
Matches: 125, Mismatches: 16, Indels: 33
0.72 0.09 0.19
Matches are distributed among these distances:
22 10 0.08
23 23 0.18
24 33 0.26
25 27 0.22
26 11 0.09
27 2 0.02
28 2 0.02
29 6 0.05
30 11 0.09
ACGTcount: A:0.33, C:0.08, G:0.04, T:0.55
Consensus pattern (25 bp):
TTTTTATATTATTATCATGTATATA
Found at i:16141333 original size:13 final size:14
Alignment explanation
Indices: 16141250--16141340 Score: 60
Period size: 16 Copynumber: 6.1 Consensus size: 14
16141240 TATATATACT
*
16141250 TTTTATATAGTATTA
1 TTTTA-ATATTATTA
*
16141265 TTTTCATATATCATTA
1 TTTT-A-ATATTATTA
16141281 TATTTATTATACTTATTA
1 T-TTTA--ATA-TTATTA
*
16141299 TTTTAACTATTGTTA
1 TTTTAA-TATTATTA
*
16141314 -TTCAATATT-TTA
1 TTTTAATATTATTA
16141326 TTTTAATATTATTA
1 TTTTAATATTATTA
16141340 T
1 T
16141341 GCATTATTTG
Statistics
Matches: 63, Mismatches: 6, Indels: 15
0.75 0.07 0.18
Matches are distributed among these distances:
12 3 0.05
13 12 0.19
14 8 0.13
15 10 0.16
16 13 0.21
17 11 0.17
18 6 0.10
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.60
Consensus pattern (14 bp):
TTTTAATATTATTA
Found at i:16141348 original size:26 final size:27
Alignment explanation
Indices: 16141296--16141349 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
16141286 ATTATACTTA
* *
16141296 TTATTTTAACTATTGTTATTCAATATT
1 TTATTTTAACTATTATTATGCAATATT
*
16141323 TTATTTTAA-TATTATTATGCATTATT
1 TTATTTTAACTATTATTATGCAATATT
16141349 T
1 T
16141350 GGTATACATG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 15 0.62
27 9 0.38
ACGTcount: A:0.30, C:0.06, G:0.04, T:0.61
Consensus pattern (27 bp):
TTATTTTAACTATTATTATGCAATATT
Found at i:16146244 original size:19 final size:18
Alignment explanation
Indices: 16146220--16146265 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
16146210 GTCTTTTTAT
*
16146220 TTTGCATTCATCTCATACA
1 TTTGCATTCATCGCAT-CA
16146239 TTTGCATTTCATCGCATCA
1 TTTGCA-TTCATCGCATCA
*
16146258 TGTGCATT
1 TTTGCATT
16146266 AAATTTTACA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 2 0.08
19 13 0.54
20 9 0.38
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.43
Consensus pattern (18 bp):
TTTGCATTCATCGCATCA
Done.