Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 233 of 311
Found at i:78746250 original size:13 final size:13
Alignment explanation
Indices: 78746234--78746267 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
78746224 TATTTTTATC
78746234 TTTATCTTTTTAA
1 TTTATCTTTTTAA
*
78746247 TTTA-CTTTTTAT
1 TTTATCTTTTTAA
78746259 TTTATCTTT
1 TTTATCTTT
78746268 AATACTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.18, C:0.09, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTATCTTTTTAA
Found at i:78746278 original size:23 final size:22
Alignment explanation
Indices: 78746224--78746291 Score: 64
Period size: 23 Copynumber: 2.9 Consensus size: 22
78746214 AAGATATTTT
*
78746224 TATTTTTATCTTTATCTTTTTAATT
1 TATTTTTAT-TTTATC-T-TTAATC
78746249 TACTTTTTATTTTATCTTTAATAC
1 TA-TTTTTATTTTATCTTTAAT-C
* *
78746273 TATTTTTACTTTATTTTTA
1 TATTTTTATTTTATCTTTA
78746292 GGTTTTATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
23 20 0.53
24 3 0.08
25 8 0.21
26 7 0.18
ACGTcount: A:0.22, C:0.09, G:0.00, T:0.69
Consensus pattern (22 bp):
TATTTTTATTTTATCTTTAATC
Found at i:78748521 original size:37 final size:39
Alignment explanation
Indices: 78748434--78748530 Score: 119
Period size: 40 Copynumber: 2.5 Consensus size: 39
78748424 CACACCAGAA
*
78748434 TGGCGACCAACGCCTCATCGGATAGTTCGAAGCAAATAAG
1 TGGCGACCAACGCCTCATCGGATAGTCCGAAGC-AATAAG
* * *
78748474 TGACGACCAACGTCTCATCGGCTAAG-CCGAAGC-A-AAG
1 TGGCGACCAACGCCTCATCGGAT-AGTCCGAAGCAATAAG
78748511 TGGCGACCAACGCCTCATCG
1 TGGCGACCAACGCCTCATCG
78748531 AATCTATTCG
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
37 21 0.42
38 1 0.02
40 26 0.52
41 2 0.04
ACGTcount: A:0.30, C:0.30, G:0.25, T:0.15
Consensus pattern (39 bp):
TGGCGACCAACGCCTCATCGGATAGTCCGAAGCAATAAG
Found at i:78749505 original size:19 final size:18
Alignment explanation
Indices: 78749471--78749519 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
78749461 AATTTTCCCT
* *
78749471 TTTTCTTTTTCTTTTC-T
1 TTTTCTTTCTCTTTTCAC
78749488 TCTTTCTTTCTCTCTTTCAC
1 T-TTTCTTTCTCT-TTTCAC
78749508 TTTTCTTTCTCT
1 TTTTCTTTCTCT
78749520 GTAACTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 1 0.04
18 10 0.37
19 15 0.56
20 1 0.04
ACGTcount: A:0.02, C:0.27, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTCTTTCTCTTTTCAC
Found at i:78755765 original size:20 final size:20
Alignment explanation
Indices: 78755733--78755770 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
78755723 TGTTTCACAT
78755733 TCATATAACTAATATTTATA
1 TCATATAACTAATATTTATA
*
78755753 TCAT-TAACATAATTTTTA
1 TCATATAAC-TAATATTTA
78755771 ACTTAATAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (20 bp):
TCATATAACTAATATTTATA
Found at i:78756281 original size:18 final size:18
Alignment explanation
Indices: 78756258--78756296 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
78756248 TACTTTTCTC
78756258 TTTCTA-TCACAATTCCAA
1 TTTCTATTCACAATT-CAA
*
78756276 TTTCTATTCATAATTCAA
1 TTTCTATTCACAATTCAA
78756294 TTT
1 TTT
78756297 TTTTTTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.31, C:0.21, G:0.00, T:0.49
Consensus pattern (18 bp):
TTTCTATTCACAATTCAA
Found at i:78756667 original size:24 final size:25
Alignment explanation
Indices: 78756614--78756667 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 25
78756604 AGGGTATTCA
* *
78756614 ATTCAATTTCTCAATTCTATATCAC
1 ATTCAATTTCACAATTCTAAATCAC
*
78756639 TTTCAA-TTCACAATTC-AAATCACC
1 ATTCAATTTCACAATTCTAAATCA-C
78756663 ATTCA
1 ATTCA
78756668 TTTTTCAATC
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
23 5 0.21
24 14 0.58
25 5 0.21
ACGTcount: A:0.35, C:0.26, G:0.00, T:0.39
Consensus pattern (25 bp):
ATTCAATTTCACAATTCTAAATCAC
Found at i:78757445 original size:12 final size:12
Alignment explanation
Indices: 78757430--78757460 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
78757420 TTCTCTTTTA
78757430 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
78757442 TTTTTCTTTCTC
1 TTTTTCTTTCCC
78757454 TTTTTCT
1 TTTTTCT
78757461 CCCGTGCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:78758235 original size:9 final size:9
Alignment explanation
Indices: 78758221--78758255 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
78758211 GACTAAGTAA
78758221 AATTAAATT
1 AATTAAATT
78758230 AATTAAATT
1 AATTAAATT
*
78758239 AATTAAAAT
1 AATTAAATT
*
78758248 AAATAAAT
1 AATTAAAT
78758256 GTTTTTAGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (9 bp):
AATTAAATT
Found at i:78758694 original size:22 final size:20
Alignment explanation
Indices: 78758655--78758713 Score: 64
Period size: 22 Copynumber: 2.8 Consensus size: 20
78758645 ATTTCAAAAA
78758655 TAATATTATTTTAATAAATT
1 TAATATTATTTTAATAAATT
* *
78758675 TTATATTATATTATATTAAATT
1 TAATATTAT-TT-TAATAAATT
*
78758697 TAATATTTATCTTAATA
1 TAATA-TTATTTTAATA
78758714 GTATTTTATT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
20 8 0.26
21 6 0.19
22 13 0.42
23 4 0.13
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (20 bp):
TAATATTATTTTAATAAATT
Found at i:78771549 original size:29 final size:28
Alignment explanation
Indices: 78771510--78771593 Score: 114
Period size: 28 Copynumber: 3.0 Consensus size: 28
78771500 CACTTTGTGC
*
78771510 TATTCTGGTGTGTTTTAGATGGATTATAT
1 TATTCTGGTGTGTTTTGGA-GGATTATAT
*
78771539 TATTCTGGTGTGTTTGGGAGGATTATAT
1 TATTCTGGTGTGTTTTGGAGGATTATAT
* **
78771567 GAGACTGGTGTGTTTTGGAGGATTATA
1 TATTCTGGTGTGTTTTGGAGGATTATA
78771594 CTGGTGTGTT
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
28 32 0.65
29 17 0.35
ACGTcount: A:0.20, C:0.04, G:0.31, T:0.45
Consensus pattern (28 bp):
TATTCTGGTGTGTTTTGGAGGATTATAT
Found at i:78771605 original size:23 final size:23
Alignment explanation
Indices: 78771537--78771607 Score: 79
Period size: 28 Copynumber: 2.9 Consensus size: 23
78771527 GATGGATTAT
* *
78771537 ATTATTCTGGTGTGTTTGGGAGG
1 ATTATACTGGTGTGTTTTGGAGG
78771560 ATTATATGAGACTGGTGTGTTTTGGAGG
1 A-T-TAT---ACTGGTGTGTTTTGGAGG
78771588 ATTATACTGGTGTGTTTTGG
1 ATTATACTGGTGTGTTTTGG
78771608 TTGGACATTT
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
23 16 0.39
24 1 0.02
25 3 0.07
26 3 0.07
27 1 0.02
28 17 0.41
ACGTcount: A:0.17, C:0.04, G:0.35, T:0.44
Consensus pattern (23 bp):
ATTATACTGGTGTGTTTTGGAGG
Found at i:78771824 original size:23 final size:23
Alignment explanation
Indices: 78771798--78771870 Score: 91
Period size: 21 Copynumber: 3.3 Consensus size: 23
78771788 GCTATATTGA
* *
78771798 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTTGTGTGTCGTATT
78771821 TCAGGCACCTTGTGTGTCGTA--
1 TCAGGCACCTTGTGTGTCGTATT
*
78771842 TCAGGCACCTCGTGTGTC--ATT
1 TCAGGCACCTTGTGTGTCGTATT
78771863 TCAGGCAC
1 TCAGGCAC
78771871 AATGTGCCGT
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
19 1 0.02
21 25 0.56
23 19 0.42
ACGTcount: A:0.16, C:0.25, G:0.25, T:0.34
Consensus pattern (23 bp):
TCAGGCACCTTGTGTGTCGTATT
Found at i:78773077 original size:46 final size:48
Alignment explanation
Indices: 78772919--78773105 Score: 163
Period size: 46 Copynumber: 3.9 Consensus size: 48
78772909 TGGTTGGACC
78772919 ATGGCATCA-A-TGTGATATGTGA-TCTGTGTAAGACCATAGCTGGGCT
1 ATGGCATCAGAGTGTGATATGTGATTC-GTGTAAGACCATAGCTGGGCT
* * * * *
78772965 ATGGCATCAGAGATATGTGATTACGTGCTTCCGTATAAGACCATATCTGGGAT
1 ATGGCATCAGAG---TGTGA-TATGTGATT-CGTGTAAGACCATAGCTGGGCT
*
78773018 ATGGCATC--AGTGTGATATGTGATTCGTGTAAGACCATGGCTGGGCT
1 ATGGCATCAGAGTGTGATATGTGATTCGTGTAAGACCATAGCTGGGCT
* * *
78773064 ATGGC-TACGGTGTGTGATATGTGACTAT-GTGCAAGACCATAG
1 ATGGCAT-CAGAGTGTGATATGTGA-T-TCGTGTAAGACCATAG
78773106 TTTTACTATG
Statistics
Matches: 114, Mismatches: 14, Indels: 23
0.75 0.09 0.15
Matches are distributed among these distances:
45 1 0.01
46 33 0.29
47 8 0.07
48 18 0.16
49 13 0.11
50 1 0.01
51 7 0.06
52 5 0.04
53 27 0.24
54 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.30
Consensus pattern (48 bp):
ATGGCATCAGAGTGTGATATGTGATTCGTGTAAGACCATAGCTGGGCT
Found at i:78780835 original size:44 final size:44
Alignment explanation
Indices: 78780787--78781160 Score: 337
Period size: 44 Copynumber: 8.5 Consensus size: 44
78780777 AAATTTCATA
* *
78780787 TCCCTGAAGTTGCAATGGATC-GAATTAAAGATACAAATATTATC
1 TCCCTGAAGTTGCAGTGGATCAG-ATTAAAGATACAAATCTTATC
* **
78780831 TCCCTAAAGTTGCAGTGGAGT-AGATTAAAGCCACAAATCTTATC
1 TCCCTGAAGTTGCAGTGGA-TCAGATTAAAGATACAAATCTTATC
** * * * * *
78780875 TCTTTAAAGTTACAATGGATCAGATTGAA-ATAAAAAATCTTATC
1 TCCCTGAAGTTGCAGTGGATCAGATTAAAGAT-ACAAATCTTATC
* * *
78780919 TCCCTAAAGTTGCAGTGGAGCAGATTAAA-ACAACAAATCTTATC
1 TCCCTGAAGTTGCAGTGGATCAGATTAAAGA-TACAAATCTTATC
* * * **
78780963 TCCTTGAAGTTGTAGTGGAACAGATTGAAAGCCACAAATCTTATC
1 TCCCTGAAGTTGCAGTGGATCAGATT-AAAGATACAAATCTTATC
* * *
78781008 TCCCTGAAGTTGCAGTGGAACAAATTAAAGCTACAAATCTTATC
1 TCCCTGAAGTTGCAGTGGATCAGATTAAAGATACAAATCTTATC
** * *
78781052 TCCCTGAAGTTATAGTGGAGT-AGATTGAAGATA-ATGAATCTTGTC
1 TCCCTGAAGTTGCAGTGGA-TCAGATTAAAGATACA--AATCTTATC
* * * * *
78781097 TCCCTGAAGTTGTAGTGGAACAGATTGAAGCTACAAATCTTATT
1 TCCCTGAAGTTGCAGTGGATCAGATTAAAGATACAAATCTTATC
*
78781141 TCGCTGAAGTTGCAGTGGAT
1 TCCCTGAAGTTGCAGTGGAT
78781161 GCATATTGAA
Statistics
Matches: 272, Mismatches: 46, Indels: 24
0.80 0.13 0.07
Matches are distributed among these distances:
43 2 0.01
44 192 0.71
45 77 0.28
46 1 0.00
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.30
Consensus pattern (44 bp):
TCCCTGAAGTTGCAGTGGATCAGATTAAAGATACAAATCTTATC
Found at i:78781035 original size:89 final size:89
Alignment explanation
Indices: 78780813--78781159 Score: 376
Period size: 89 Copynumber: 3.9 Consensus size: 89
78780803 GGATCGAATT
* * ** * *
78780813 AAAGATACAAATATTATCTCCCTAAAGTTGCAGTGGAGTAGATTAAAGCCACAAATCTTATCTCT
1 AAAGAAACAAATCTTATCTCCCTAAAGTTGCAGTGGAACAGATTAAAGCTACAAATCTTATCTCC
* * *
78780878 TTAAAGTTACAATGGATCAGATTG
66 TTGAAGTTACAGTGGAACAGATTG
* * * *
78780902 AAATAAA-AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAACAACAAATCTTATCTCC
1 AAAGAAACAAATCTTATCTCCCTAAAGTTGCAGTGGAACAGATTAAAGCTACAAATCTTATCTCC
**
78780966 TTGAAGTTGTAGTGGAACAGATTG
66 TTGAAGTTACAGTGGAACAGATTG
** * *
78780990 AAAGCCACAAATCTTATCTCCCTGAAGTTGCAGTGGAACAAATTAAAGCTACAAATCTTATCTCC
1 AAAGAAACAAATCTTATCTCCCTAAAGTTGCAGTGGAACAGATTAAAGCTACAAATCTTATCTCC
* * **
78781055 CTGAAGTTATAGTGGAGTAGATTG
66 TTGAAGTTACAGTGGAACAGATTG
** * * * * *
78781079 -AAGATAATGAATCTTGTCTCCCTGAAGTTGTAGTGGAACAGATTGAAGCTACAAATCTTATTTC
1 AAAGA-AACAAATCTTATCTCCCTAAAGTTGCAGTGGAACAGATTAAAGCTACAAATCTTATCTC
*
78781143 GC-TGAAGTTGCAGTGGA
65 -CTTGAAGTTACAGTGGA
78781160 TGCATATTGA
Statistics
Matches: 220, Mismatches: 35, Indels: 6
0.84 0.13 0.02
Matches are distributed among these distances:
88 78 0.35
89 141 0.64
90 1 0.00
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.29
Consensus pattern (89 bp):
AAAGAAACAAATCTTATCTCCCTAAAGTTGCAGTGGAACAGATTAAAGCTACAAATCTTATCTCC
TTGAAGTTACAGTGGAACAGATTG
Found at i:78781062 original size:133 final size:132
Alignment explanation
Indices: 78780787--78781159 Score: 396
Period size: 133 Copynumber: 2.8 Consensus size: 132
78780777 AAATTTCATA
* * * * * * *
78780787 TCCCTGAAGTTGCAATGGATC-GAATTAAAGATACAAATATTATCTCCCTAAAGTTGCAGTGGAG
1 TCCCTGAAGTTGCAGTGGAGCAG-ATTAAA-AAACAAATCTTATCTCCCTGAAGTTGTAGTGGAA
* ** * * * * *
78780851 TAGATT-AAAGCCACAAATCTTATCTCTTTAAAGTTACAATGGATCAGATTGAAATAAAAAATCT
64 CAGATTGAAAGCCACAAATCTTATCTCCCTGAAGTTGCAGTGGAACAAATTGAAATAAAAAATCT
78780915 TATC
129 TATC
* *
78780919 TCCCTAAAGTTGCAGTGGAGCAGATTAAAACAACAAATCTTATCTCCTTGAAGTTGTAGTGGAAC
1 TCCCTGAAGTTGCAGTGGAGCAGATTAAAA-AACAAATCTTATCTCCCTGAAGTTGTAGTGGAAC
*
78780984 AGATTGAAAGCCACAAATCTTATCTCCCTGAAGTTGCAGTGGAACAAATT-AAAGCT-ACAAATC
65 AGATTGAAAGCCACAAATCTTATCTCCCTGAAGTTGCAGTGGAACAAATTGAAA--TAAAAAATC
78781047 TTATC
128 TTATC
** * * ** *
78781052 TCCCTGAAGTTATAGTGGAGTAGATTGAAGATAATGAATCTTGTCTCCCTGAAGTTGTAGTGGAA
1 TCCCTGAAGTTGCAGTGGAGCAGATT-AA-AAAACAAATCTTATCTCCCTGAAGTTGTAGTGGAA
* * *
78781117 CAGATTG-AAGCTACAAATCTTATTTCGCTGAAGTTGCAGTGGA
64 CAGATTGAAAGCCACAAATCTTATCTCCCTGAAGTTGCAGTGGA
78781160 TGCATATTGA
Statistics
Matches: 204, Mismatches: 30, Indels: 13
0.83 0.12 0.05
Matches are distributed among these distances:
131 1 0.00
132 59 0.29
133 104 0.51
134 39 0.19
135 1 0.00
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (132 bp):
TCCCTGAAGTTGCAGTGGAGCAGATTAAAAAACAAATCTTATCTCCCTGAAGTTGTAGTGGAACA
GATTGAAAGCCACAAATCTTATCTCCCTGAAGTTGCAGTGGAACAAATTGAAATAAAAAATCTTA
TC
Found at i:78781196 original size:45 final size:44
Alignment explanation
Indices: 78780834--78781201 Score: 104
Period size: 44 Copynumber: 8.3 Consensus size: 44
78780824 TATTATCTCC
** * * * *
78780834 CTAAAGTTGCAGTGGAGTAGATTAAAGCCACAAATCTTAT-CTCT
1 CTAAAGTTGCAGTGGAACAGATTGAAGCGACAAATCCTATAC-CG
* * * * *** * * *
78780878 TTAAAGTTACAATGGATCAGATTGAAATAAAAAATCTTAT-CTCC
1 CTAAAGTTGCAGTGGAACAGATTGAAGCGACAAATCCTATAC-CG
* * * * *
78780922 CTAAAGTTGCAGTGGAGCAGATTAAAACAACAAATCTTAT-CTC-
1 CTAAAGTTGCAGTGGAACAGATTGAAGCGACAAATCCTATAC-CG
* * * * *
78780965 CTTGAAGTTGTAGTGGAACAGATTGAAAGCCACAAATCTTAT-CTCC
1 C-TAAAGTTGCAGTGGAACAGATTG-AAGCGACAAATCCTATAC-CG
* * * * * *
78781011 CTGAAGTTGCAGTGGAACAAATTAAAGCTACAAATCTTAT-CTCC
1 CTAAAGTTGCAGTGGAACAGATTGAAGCGACAAATCCTATAC-CG
* ** ** ** * * *
78781055 CTGAAGTTATAGTGGAGTAGATTGAAGATA-ATGAATCTTGT-CTCC
1 CTAAAGTTGCAGTGGAACAGATTGAAGCGACA--AATCCTATAC-CG
* * * * **
78781100 CTGAAGTTGTAGTGGAACAGATTGAAGCTACAAATCTTATTTCG
1 CTAAAGTTGCAGTGGAACAGATTGAAGCGACAAATCCTATACCG
* * * *
78781144 CTGAAGTTGCAGTGGATGCATATTGAAGCGACAAATCCTATACCT
1 CTAAAGTTGCAGTGGA-ACAGATTGAAGCGACAAATCCTATACCG
*
78781189 CTAAAGTTACAGT
1 CTAAAGTTGCAGT
78781202 AGGTTGGATT
Statistics
Matches: 263, Mismatches: 53, Indels: 15
0.79 0.16 0.05
Matches are distributed among these distances:
43 2 0.01
44 153 0.58
45 106 0.40
46 2 0.01
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (44 bp):
CTAAAGTTGCAGTGGAACAGATTGAAGCGACAAATCCTATACCG
Found at i:78781196 original size:134 final size:134
Alignment explanation
Indices: 78780826--78781197 Score: 376
Period size: 133 Copynumber: 2.8 Consensus size: 134
78780816 GATACAAATA
* * ** ** * * *
78780826 TTATCTCCCTAAAGTTGCAGTGGAGTAGATT-AAAGCCACAAATCTTATCTCTTTAAAGTTACAA
1 TTATCTCCCTGAAGTTGTAGTGGAACAGATTGAAAGCCACAAATCTTATCTCCCTGAAGTTGCAG
* * ** * * ** * * * *
78780890 TGGATCAGATTGAAA-TAAAAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATT-AAAACAAC
66 TGGAACAAATT-AAAGCGACAAATCCTATCTCCCTAAAGTTATAGTGGAGTAGATTGAAGATAAT
*
78780953 AAATC
130 GAATC
*
78780958 TTATCTCCTTGAAGTTGTAGTGGAACAGATTGAAAGCCACAAATCTTATCTCCCTGAAGTTGCAG
1 TTATCTCCCTGAAGTTGTAGTGGAACAGATTGAAAGCCACAAATCTTATCTCCCTGAAGTTGCAG
* * *
78781023 TGGAACAAATTAAAGCTACAAATCTTATCTCCCTGAAGTTATAGTGGAGTAGATTGAAGATAATG
66 TGGAACAAATTAAAGCGACAAATCCTATCTCCCTAAAGTTATAGTGGAGTAGATTGAAGATAATG
78781088 AATC
131 AATC
* * * *
78781092 TTGTCTCCCTGAAGTTGTAGTGGAACAGATTG-AAGCTACAAATCTTATTTCGCTGAAGTTGCAG
1 TTATCTCCCTGAAGTTGTAGTGGAACAGATTGAAAGCCACAAATCTTATCTCCCTGAAGTTGCAG
* * * *
78781156 TGGATGCATATTGAAGCGACAAATCCTATAC-CTCTAAAGTTA
66 TGGA-ACAAATTAAAGCGACAAATCCTAT-CTCCCTAAAGTTA
78781198 CAGTAGGTTG
Statistics
Matches: 200, Mismatches: 35, Indels: 8
0.82 0.14 0.03
Matches are distributed among these distances:
132 29 0.14
133 103 0.51
134 67 0.34
135 1 0.00
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (134 bp):
TTATCTCCCTGAAGTTGTAGTGGAACAGATTGAAAGCCACAAATCTTATCTCCCTGAAGTTGCAG
TGGAACAAATTAAAGCGACAAATCCTATCTCCCTAAAGTTATAGTGGAGTAGATTGAAGATAATG
AATC
Found at i:78781348 original size:44 final size:44
Alignment explanation
Indices: 78781273--78781392 Score: 116
Period size: 44 Copynumber: 2.7 Consensus size: 44
78781263 AAGCTACAAC
* * **
78781273 TTACAAATCTTCTCTCTCTAAAGTTGTAGTGGAGCAGATTAAAA
1 TTACAAATCTTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAA
* * * *
78781317 TTACAAGTCTTATCTCCCTGAAGTTACAGTGGAGTAGATTGAAA
1 TTACAAATCTTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAA
* * **
78781361 CTA-AAATTCCTATAACCCTAAAGTTACAGTGG
1 TTACAAA-TCTTATCTCCCTAAAGTTACAGTGG
78781393 GTTAATAAGA
Statistics
Matches: 61, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
43 2 0.03
44 59 0.97
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (44 bp):
TTACAAATCTTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAA
Found at i:78782924 original size:21 final size:20
Alignment explanation
Indices: 78782899--78782994 Score: 50
Period size: 21 Copynumber: 4.2 Consensus size: 20
78782889 GTATTTAAAA
78782899 TTTATGTTACTTATATTTTCT
1 TTTATGTTACTTATATTTT-T
* *
78782920 TTTATTTATACATTTTATTTTT
1 TTTATGT-TAC-TTATATTTTT
*
78782942 ATGATTATTCTTGTTA-TTATTATTTTA
1 -T--TTA---T-GTTACTTA-TATTTTT
78782969 TTTATGTTACTTATATTTTCT
1 TTTATGTTACTTATATTTT-T
78782990 TTTAT
1 TTTAT
78782995 TTATACATTT
Statistics
Matches: 57, Mismatches: 6, Indels: 24
0.66 0.07 0.28
Matches are distributed among these distances:
20 10 0.18
21 15 0.26
22 4 0.07
23 9 0.16
24 3 0.05
25 3 0.05
26 3 0.05
27 6 0.11
28 3 0.05
29 1 0.02
ACGTcount: A:0.22, C:0.06, G:0.04, T:0.68
Consensus pattern (20 bp):
TTTATGTTACTTATATTTTT
Found at i:78782937 original size:25 final size:26
Alignment explanation
Indices: 78782909--78783011 Score: 57
Period size: 25 Copynumber: 4.3 Consensus size: 26
78782899 TTTATGTTAC
78782909 TTATATTTTCTTTTATTTATACA-T-
1 TTATATTTTCTTTTATTTATACATTA
* * * *
78782933 TT-TATTTT-TATGA-TTATTC-TTG
1 TTATATTTTCTTTTATTTATACATTA
* * *
78782955 TTAT-TATTATTTTATTTAT--GTTA
1 TTATATTTTCTTTTATTTATACATTA
78782978 CTTATATTTTCTTTTATTTATACATT-
1 -TTATATTTTCTTTTATTTATACATTA
78783004 TTAT-TTTT
1 TTATATTTT
78783012 ATGATTATTC
Statistics
Matches: 59, Mismatches: 10, Indels: 20
0.66 0.11 0.22
Matches are distributed among these distances:
21 6 0.10
22 8 0.14
23 12 0.20
24 14 0.24
25 17 0.29
27 2 0.03
ACGTcount: A:0.22, C:0.06, G:0.03, T:0.69
Consensus pattern (26 bp):
TTATATTTTCTTTTATTTATACATTA
Found at i:78782940 original size:18 final size:17
Alignment explanation
Indices: 78782899--78783010 Score: 56
Period size: 16 Copynumber: 6.5 Consensus size: 17
78782889 GTATTTAAAA
* *
78782899 TTTATGTTACTTAT-AT
1 TTTATTTTATTTATCAT
*
78782915 TTTCTTTTATTTATACAT
1 TTTATTTTATTTAT-CAT
78782933 TTTATTTTTATGATTATTC-T
1 TTTA-TTTTAT--TTA-TCAT
78782953 TGTTATTATTATTT-T-A-
1 T-TTATT-TTATTTATCAT
* *
78782969 TTTATGTTACTTAT-AT
1 TTTATTTTATTTATCAT
*
78782985 TTTCTTTTATTTATACAT
1 TTTATTTTATTTAT-CAT
78783003 TTTATTTT
1 TTTATTTT
78783011 TATGATTATT
Statistics
Matches: 73, Mismatches: 10, Indels: 24
0.68 0.09 0.22
Matches are distributed among these distances:
14 5 0.07
15 6 0.08
16 23 0.32
17 1 0.01
18 14 0.19
19 8 0.11
20 4 0.05
21 11 0.15
22 1 0.01
ACGTcount: A:0.22, C:0.06, G:0.04, T:0.68
Consensus pattern (17 bp):
TTTATTTTATTTATCAT
Found at i:78782980 original size:70 final size:70
Alignment explanation
Indices: 78782898--78783042 Score: 290
Period size: 70 Copynumber: 2.1 Consensus size: 70
78782888 AGTATTTAAA
78782898 ATTTATGTTACTTATATTTTCTTTTATTTATACATTTTATTTTTATGATTATTCTTGTTATTATT
1 ATTTATGTTACTTATATTTTCTTTTATTTATACATTTTATTTTTATGATTATTCTTGTTATTATT
78782963 ATTTT
66 ATTTT
78782968 ATTTATGTTACTTATATTTTCTTTTATTTATACATTTTATTTTTATGATTATTCTTGTTATTATT
1 ATTTATGTTACTTATATTTTCTTTTATTTATACATTTTATTTTTATGATTATTCTTGTTATTATT
78783033 ATTTT
66 ATTTT
78783038 ATTTA
1 ATTTA
78783043 CTCATATTAT
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 75 1.00
ACGTcount: A:0.23, C:0.06, G:0.04, T:0.67
Consensus pattern (70 bp):
ATTTATGTTACTTATATTTTCTTTTATTTATACATTTTATTTTTATGATTATTCTTGTTATTATT
ATTTT
Found at i:78783184 original size:20 final size:19
Alignment explanation
Indices: 78783154--78783207 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 19
78783144 AACATGTTTC
78783154 TTTTATTTTATTTTTTAAT
1 TTTTATTTTATTTTTTAAT
78783173 TTTTATTTTTATTTTTTAATT
1 TTTTA-TTTTATTTTTTAA-T
*
78783194 TTTTAATTTATTTT
1 TTTTATTTTATTTT
78783208 ATTTCATTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
19 5 0.16
20 21 0.66
21 6 0.19
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (19 bp):
TTTTATTTTATTTTTTAAT
Found at i:78783202 original size:8 final size:7
Alignment explanation
Indices: 78783159--78783198 Score: 55
Period size: 7 Copynumber: 5.7 Consensus size: 7
78783149 GTTTCTTTTA
78783159 TTTTATT
1 TTTTATT
*
78783166 TTTTAAT
1 TTTTATT
78783173 TTTTA-T
1 TTTTATT
78783179 TTTTATT
1 TTTTATT
78783186 TTTTAATT
1 TTTT-ATT
78783194 TTTTA
1 TTTTA
78783199 ATTTATTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
6 6 0.20
7 17 0.57
8 7 0.23
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (7 bp):
TTTTATT
Found at i:78783203 original size:13 final size:13
Alignment explanation
Indices: 78783154--78783207 Score: 51
Period size: 13 Copynumber: 4.2 Consensus size: 13
78783144 AACATGTTTC
78783154 TTTT-ATTTTATT
1 TTTTAATTTTATT
78783166 TTTTAATTTT-TAT
1 TTTTAATTTTAT-T
*
78783179 TTTTATTTTTTAATT
1 TTTTA-ATTTT-ATT
78783194 TTTTAA-TTTATT
1 TTTTAATTTTATT
78783206 TT
1 TT
78783208 ATTTCATTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
12 10 0.29
13 14 0.40
14 4 0.11
15 6 0.17
16 1 0.03
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTAATTTTATT
Found at i:78787864 original size:21 final size:21
Alignment explanation
Indices: 78787832--78787872 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
78787822 AGGCTCGAGG
78787832 GGCCTGTTTTAGGCC-ATACAA
1 GGCCTGTTTTA-GCCTATACAA
78787853 GGCCT-TTCTTAGCCTATACA
1 GGCCTGTT-TTAGCCTATACA
78787873 CCAATTGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (21 bp):
GGCCTGTTTTAGCCTATACAA
Found at i:78793996 original size:29 final size:30
Alignment explanation
Indices: 78793938--78793996 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
78793928 TTATTCATCA
*
78793938 TTTTAAAGGATTAAATATAATTTTTTTTAT
1 TTTTAAAGGATTAAATATAATTTTTATTAT
78793968 TTTTAAA-GATTAAAATATAA-TTTTATTAT
1 TTTTAAAGGATT-AAATATAATTTTTATTAT
78793997 AAATTAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 12 0.44
30 15 0.56
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (30 bp):
TTTTAAAGGATTAAATATAATTTTTATTAT
Found at i:78794806 original size:15 final size:15
Alignment explanation
Indices: 78794782--78794831 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
78794772 GATAATTAAG
* *
78794782 ATTAAGGTTTGGTTA
1 ATTAAAGTTTGATTA
*
78794797 ATTAAAGTTTAATTA
1 ATTAAAGTTTGATTA
*
78794812 ATT-AATTTTGATTA
1 ATTAAAGTTTGATTA
78794826 ATTAAA
1 ATTAAA
78794832 TTTAGTCAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
14 12 0.41
15 17 0.59
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (15 bp):
ATTAAAGTTTGATTA
Found at i:78794827 original size:14 final size:14
Alignment explanation
Indices: 78794782--78794830 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
78794772 GATAATTAAG
*
78794782 ATTAAGGTTTGGTTA
1 ATTAA-GTTTGATTA
*
78794797 ATTAAAGTTTAATTA
1 ATT-AAGTTTGATTA
*
78794812 ATTAATTTTGATTA
1 ATTAAGTTTGATTA
78794826 ATTAA
1 ATTAA
78794831 ATTTAGTCAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
14 14 0.48
15 13 0.45
16 2 0.07
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.49
Consensus pattern (14 bp):
ATTAAGTTTGATTA
Found at i:78794833 original size:15 final size:15
Alignment explanation
Indices: 78794789--78794834 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
78794779 AAGATTAAGG
* *
78794789 TTTGGTTAATTAAAG
1 TTTGATTAATTAAAT
*
78794804 TTTAATTAATT-AAT
1 TTTGATTAATTAAAT
78794818 TTTGATTAATTAAAT
1 TTTGATTAATTAAAT
78794833 TT
1 TT
78794835 AGTCAAAAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
14 12 0.46
15 14 0.54
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.54
Consensus pattern (15 bp):
TTTGATTAATTAAAT
Found at i:78800785 original size:16 final size:16
Alignment explanation
Indices: 78800758--78800798 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
78800748 TTTTTTCTTT
78800758 TTTTATTA-TATTTAG
1 TTTTATTATTATTTAG
78800773 TTTTATTATTATTTAG
1 TTTTATTATTATTTAG
*
78800789 TATTATTATT
1 TTTTATTATT
78800799 GTCATACCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 8 0.33
16 16 0.67
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (16 bp):
TTTTATTATTATTTAG
Found at i:78800890 original size:16 final size:17
Alignment explanation
Indices: 78800871--78800905 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
78800861 AATTTAATAG
78800871 TTAG-TTGTTTTATTAT
1 TTAGTTTGTTTTATTAT
*
78800887 TTAGTTTTTTTTATTAT
1 TTAGTTTGTTTTATTAT
78800904 TT
1 TT
78800906 TATTTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.17, C:0.00, G:0.09, T:0.74
Consensus pattern (17 bp):
TTAGTTTGTTTTATTAT
Found at i:78800900 original size:17 final size:17
Alignment explanation
Indices: 78800878--78800916 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
78800868 TAGTTAGTTG
78800878 TTTTATTA-TTTAGTTTT
1 TTTTATTATTTTA-TTTT
78800895 TTTTATTATTTTATTTT
1 TTTTATTATTTTATTTT
78800912 TTTTA
1 TTTTA
78800917 CTTTAGTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (17 bp):
TTTTATTATTTTATTTT
Found at i:78800926 original size:17 final size:17
Alignment explanation
Indices: 78800878--78800926 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
78800868 TAGTTAGTTG
*
78800878 TTTTATTATTTAGTTTT
1 TTTTATTATTTAGTATT
78800895 TTTTATTATTT--TATT
1 TTTTATTATTTAGTATT
78800910 TTTT-TTACTTTAGTATT
1 TTTTATTA-TTTAGTATT
78800927 AGTTTTGGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
14 3 0.11
15 10 0.36
17 15 0.54
ACGTcount: A:0.18, C:0.02, G:0.04, T:0.76
Consensus pattern (17 bp):
TTTTATTATTTAGTATT
Found at i:78806285 original size:3 final size:3
Alignment explanation
Indices: 78806277--78806312 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
78806267 CATTTTTCTC
78806277 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
78806313 CATTTTCCGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:78808575 original size:13 final size:14
Alignment explanation
Indices: 78808545--78808577 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
78808535 TAAATTATAT
*
78808545 AAAAATTGATGTTA
1 AAAAATTGATGTAA
78808559 AAAAATT-ATGTAA
1 AAAAATTGATGTAA
78808572 AAAAAT
1 AAAAAT
78808578 ATATTTATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.61, C:0.00, G:0.09, T:0.30
Consensus pattern (14 bp):
AAAAATTGATGTAA
Found at i:78814183 original size:14 final size:14
Alignment explanation
Indices: 78814166--78814196 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
78814156 TAAGTTAAAT
*
78814166 AAAATATATAAAAC
1 AAAATAAATAAAAC
78814180 AAAATAAATAAAAC
1 AAAATAAATAAAAC
78814194 AAA
1 AAA
78814197 TGAAGTGGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.77, C:0.06, G:0.00, T:0.16
Consensus pattern (14 bp):
AAAATAAATAAAAC
Found at i:78822647 original size:20 final size:20
Alignment explanation
Indices: 78822579--78822648 Score: 61
Period size: 20 Copynumber: 3.5 Consensus size: 20
78822569 AAAAAAAAGT
* *
78822579 TATACCAA-ATTTTGTAAGGT
1 TATACCAATATTTT-TAACGA
* * * * *
78822599 TATATCAAAATTTCTAATGC
1 TATACCAATATTTTTAACGA
78822619 TATACCAATATTTTTAACGA
1 TATACCAATATTTTTAACGA
78822639 TATACCAATA
1 TATACCAATA
78822649 CTAAAATTTC
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
20 36 0.90
21 4 0.10
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.39
Consensus pattern (20 bp):
TATACCAATATTTTTAACGA
Found at i:78822649 original size:26 final size:26
Alignment explanation
Indices: 78822620--78822698 Score: 97
Period size: 26 Copynumber: 3.0 Consensus size: 26
78822610 TTCTAATGCT
*
78822620 ATACCAATATTTTTAACGATATACCA
1 ATACCAATATTTCTAACGATATACCA
* * *
78822646 ATACTAAAATTTCTAACGACATACCA
1 ATACCAATATTTCTAACGATATACCA
*
78822672 ATACCATTATTTCTAAC-ACTATACCA
1 ATACCAATATTTCTAACGA-TATACCA
78822698 A
1 A
78822699 AATTTTTATC
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
25 1 0.02
26 43 0.98
ACGTcount: A:0.43, C:0.23, G:0.03, T:0.32
Consensus pattern (26 bp):
ATACCAATATTTCTAACGATATACCA
Found at i:78822703 original size:20 final size:20
Alignment explanation
Indices: 78822680--78822727 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
78822670 CAATACCATT
78822680 ATTTCTAACACTATACCAAA
1 ATTTCTAACACTATACCAAA
* * * *
78822700 ATTTTTATCACTTTATCAAA
1 ATTTCTAACACTATACCAAA
*
78822720 ATATCTAA
1 ATTTCTAA
78822728 TGGATGAAAA
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.00, T:0.40
Consensus pattern (20 bp):
ATTTCTAACACTATACCAAA
Found at i:78823324 original size:43 final size:42
Alignment explanation
Indices: 78823272--78823383 Score: 138
Period size: 42 Copynumber: 2.6 Consensus size: 42
78823262 TTTGTGGGGA
*
78823272 AAACGCCGCTAAAAGTCATAACCTTTAGCGGCACTTTTCCTAC
1 AAACGCCGCTAAAAG-CATAACCTTTAGCGGCACTTTTCCCAC
* *
78823315 AAACACCGCTATAAA--ATGGACCTTTAGCGGCACTTTTCCCAC
1 AAACGCCGCTA-AAAGCAT-AACCTTTAGCGGCACTTTTCCCAC
*
78823357 AAACGCCGCTAAAGAACATAACCTTTA
1 AAACGCCGCTAAA-AGCATAACCTTTA
78823384 AAAAAAATTA
Statistics
Matches: 59, Mismatches: 5, Indels: 10
0.80 0.07 0.14
Matches are distributed among these distances:
41 4 0.07
42 33 0.56
43 17 0.29
44 5 0.08
ACGTcount: A:0.34, C:0.29, G:0.13, T:0.23
Consensus pattern (42 bp):
AAACGCCGCTAAAAGCATAACCTTTAGCGGCACTTTTCCCAC
Found at i:78824144 original size:23 final size:23
Alignment explanation
Indices: 78824113--78825209 Score: 884
Period size: 23 Copynumber: 47.9 Consensus size: 23
78824103 AAATAAGTAC
* *
78824113 TTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTACAGCAT
* *
78824136 TTAAGCACTTCAATTTATAGCAT
1 TTAAACACTTCAATTTACAGCAT
*
78824159 TTAAACACTTCAATTTGCAGCAT
1 TTAAACACTTCAATTTACAGCAT
* *
78824182 TCAAACACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTACAGCA-T
78824206 TT-AACACTTCAATTTACAGCACT
1 TTAAACACTTCAATTTACAGCA-T
*
78824229 TT-AACACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTACAGCA-T
* *
78824252 TT-AACA-TCTCAATTAACAACAT
1 TTAAACACT-TCAATTTACAGCAT
* *
78824274 TTATACACCTCAA-TTACAGCGA-
1 TTAAACACTTCAATTTACAGC-AT
* * * * *
78824296 TAAAACA-TCTCAATGTCCAACAA
1 TTAAACACT-TCAATTTACAGCAT
* * *
78824319 CTAAACACTTCAATTTGCAGTAT
1 TTAAACACTTCAATTTACAGCAT
* *
78824342 TTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTACAGCAT
*
78824365 TTAAGCACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTACAGCAT
*
78824388 TTAAACACTTCAATTTGCAGCAT
1 TTAAACACTTCAATTTACAGCAT
* *
78824411 TCAAACACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTACAGCA-T
78824435 TT-AACACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTACAGCAT
* *
78824457 TTAAGCACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTACAGCA-T
* *
78824481 TT-AACA-TCTCAATTAACAACAT
1 TTAAACACT-TCAATTTACAGCAT
* *
78824503 TTATACACCTCAA-TTACAGCGA-
1 TTAAACACTTCAATTTACAGC-AT
* * * * *
78824525 TAAAACA-TCTCAATGTCCAACAA
1 TTAAACACT-TCAATTTACAGCAT
* * *
78824548 CTAAACACTTCAATTTGCAGTAT
1 TTAAACACTTCAATTTACAGCAT
* *
78824571 TTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTACAGCAT
* *
78824594 TTAAGCACTTCAATTTACATCAT
1 TTAAACACTTCAATTTACAGCAT
*
78824617 TTAAACACTTCAATTTACAGAAT
1 TTAAACACTTCAATTTACAGCAT
* *
78824640 TCAAACACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTACAGCA-T
*
78824664 TT-AACACTTCAATTTATAGCAT
1 TTAAACACTTCAATTTACAGCAT
* *
78824686 TTAAGCACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTACAGCA-T
* *
78824710 TT-AACA-TCTCAATTAACAACAT
1 TTAAACACT-TCAATTTACAGCAT
* *
78824732 TTATACACCTCAA-TTACAGCGA-
1 TTAAACACTTCAATTTACAGC-AT
* * * * *
78824754 TAAAACA-TCTCAATGTCCAACAA
1 TTAAACACT-TCAATTTACAGCAT
* * *
78824777 CTAAACACTTCAATTTGCAGTAT
1 TTAAACACTTCAATTTACAGCAT
* *
78824800 TTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTACAGCAT
*
78824823 TTAAGCACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTACAGCAT
78824846 TTAAACACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTACAGCAT
* *
78824869 TCAAACACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTACAGCA-T
*
78824893 TT-AACACTTCAATTTATAGCAT
1 TTAAACACTTCAATTTACAGCAT
* *
78824915 TTAAGCACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTACAGCA-T
* *
78824939 TT-AACA-TCTCAATTAACAACAT
1 TTAAACACT-TCAATTTACAGCAT
* * *
78824961 TTATACACCTCAA-TCACAGCGA-
1 TTAAACACTTCAATTTACAGC-AT
* * *
78824983 TAAAACA-TCTCAATGT-CTAGCAA
1 TTAAACACT-TCAATTTAC-AGCAT
* * * * *
78825006 CTAAATACTTCAATTTTCAGTAC
1 TTAAACACTTCAATTTACAGCAT
* *
78825029 TTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTACAGCAT
* *
78825052 TTAAGCACTTCAATTTACAGTAT
1 TTAAACACTTCAATTTACAGCAT
78825075 TTAAACACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTACAGCAT
* *
78825098 TCAAACACTTCAATTTGCAGCAGT
1 TTAAACACTTCAATTTACAGCA-T
*
78825122 TT-AACACTTCAATTTACAGTAT
1 TTAAACACTTCAATTTACAGCAT
* * *
78825144 TAAAACACTTCAATTTGCAACACT
1 TTAAACACTTCAATTTACAGCA-T
* * * *
78825168 TT-AACATTTCAATTAACAACAC
1 TTAAACACTTCAATTTACAGCAT
* *
78825190 TTATACACCTCAA-TTACAGC
1 TTAAACACTTCAATTTACAGC
78825210 TGTCGAAACC
Statistics
Matches: 857, Mismatches: 169, Indels: 97
0.76 0.15 0.09
Matches are distributed among these distances:
22 95 0.11
23 736 0.86
24 26 0.03
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.33
Consensus pattern (23 bp):
TTAAACACTTCAATTTACAGCAT
Found at i:78824514 original size:229 final size:229
Alignment explanation
Indices: 78824108--78825209 Score: 1990
Period size: 229 Copynumber: 4.8 Consensus size: 229
78824098 ACCCAAAATA
* *
78824108 AGTACTTAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTATAGCATTTAAACACTTCAAT
1 AGTATTTAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATTTAAACACTTCAAT
*
78824173 TTGCAGCATTCAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCACTTTAA-CACT
66 TTACAGCATTCAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCA-TTTAAGCACT
78824237 TCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAAC
130 TCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAAC
78824302 ATCTCAATGTCCAACAACTAAACACTTCAATTTGC
195 ATCTCAATGTCCAACAACTAAACACTTCAATTTGC
78824337 AGTATTTAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATTTAAACACTTCAAT
1 AGTATTTAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATTTAAACACTTCAAT
*
78824402 TTGCAGCATTCAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCATTTAAGCACTT
66 TTACAGCATTCAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCATTTAAGCACTT
78824467 CAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACA
131 CAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACA
78824532 TCTCAATGTCCAACAACTAAACACTTCAATTTGC
196 TCTCAATGTCCAACAACTAAACACTTCAATTTGC
*
78824566 AGTATTTAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACATCATTTAAACACTTCAAT
1 AGTATTTAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATTTAAACACTTCAAT
* *
78824631 TTACAGAATTCAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTATAGCATTTAAGCACTT
66 TTACAGCATTCAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCATTTAAGCACTT
78824696 CAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACA
131 CAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACA
78824761 TCTCAATGTCCAACAACTAAACACTTCAATTTGC
196 TCTCAATGTCCAACAACTAAACACTTCAATTTGC
78824795 AGTATTTAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATTTAAACACTTCAAT
1 AGTATTTAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATTTAAACACTTCAAT
*
78824860 TTACAGCATTCAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTATAGCATTTAAGCACTT
66 TTACAGCATTCAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCATTTAAGCACTT
*
78824925 CAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATCACAGCGATAAAACA
131 CAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACA
* * * *
78824990 TCTCAATGTCTAGCAACTAAATACTTCAATTTTC
196 TCTCAATGTCCAACAACTAAACACTTCAATTTGC
* *
78825024 AGTACTTAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGTATTTAAACACTTCAAT
1 AGTATTTAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATTTAAACACTTCAAT
* * * *
78825089 TTACAGCATTCAAACACTTCAATTTGCAGCAGTTTAACACTTCAATTTACAGTATTAAAACACTT
66 TTACAGCATTCAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCATTTAAGCACTT
* * *
78825154 CAATTTGCAACACTTTAACATTTCAATTAACAACACTTATACACCTCAATTACAGC
131 CAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTACAGC
78825210 TGTCGAAACC
Statistics
Matches: 848, Mismatches: 24, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
228 5 0.01
229 843 0.99
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.33
Consensus pattern (229 bp):
AGTATTTAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATTTAAACACTTCAAT
TTACAGCATTCAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCATTTAAGCACTT
CAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACA
TCTCAATGTCCAACAACTAAACACTTCAATTTGC
Found at i:78826032 original size:33 final size:33
Alignment explanation
Indices: 78825995--78826063 Score: 138
Period size: 33 Copynumber: 2.1 Consensus size: 33
78825985 CAAACATACG
78825995 AAGTAATAATTAAATAATGCATGATATACAAAA
1 AAGTAATAATTAAATAATGCATGATATACAAAA
78826028 AAGTAATAATTAAATAATGCATGATATACAAAA
1 AAGTAATAATTAAATAATGCATGATATACAAAA
78826061 AAG
1 AAG
78826064 AGTAATACAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.58, C:0.06, G:0.10, T:0.26
Consensus pattern (33 bp):
AAGTAATAATTAAATAATGCATGATATACAAAA
Found at i:78826273 original size:22 final size:24
Alignment explanation
Indices: 78826248--78826292 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
78826238 TTTGCTATAC
*
78826248 AATA-TATAAAA-CATAATAACAA
1 AATATTATAAAAGAATAATAACAA
78826270 AATATTTATAAAAGAATAATAAC
1 AATA-TTATAAAAGAATAATAAC
78826293 TATATATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 4 0.21
24 7 0.37
25 8 0.42
ACGTcount: A:0.64, C:0.07, G:0.02, T:0.27
Consensus pattern (24 bp):
AATATTATAAAAGAATAATAACAA
Found at i:78826411 original size:19 final size:19
Alignment explanation
Indices: 78826352--78826415 Score: 55
Period size: 18 Copynumber: 3.5 Consensus size: 19
78826342 AAAAGAATTT
* *
78826352 ATAAAATAACACATAATAT
1 ATAAAATAATACATAATAA
**
78826371 A-AAAAT-AT-CATTTTAA
1 ATAAAATAATACATAATAA
78826387 AGTAAAATAATACATAATAA
1 A-TAAAATAATACATAATAA
78826407 AT-AAATAAT
1 ATAAAATAAT
78826416 TAATAATTTA
Statistics
Matches: 35, Mismatches: 6, Indels: 9
0.70 0.12 0.18
Matches are distributed among these distances:
16 6 0.17
17 1 0.03
18 17 0.49
19 4 0.11
20 7 0.20
ACGTcount: A:0.62, C:0.06, G:0.02, T:0.30
Consensus pattern (19 bp):
ATAAAATAATACATAATAA
Found at i:78826721 original size:17 final size:17
Alignment explanation
Indices: 78826701--78826748 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
78826691 ATAAATAATT
* *
78826701 AATAAATATATAATACA
1 AATAAAAATATAATAAA
78826718 AATAAAAATATAATAAA
1 AATAAAAATATAATAAA
78826735 AATATAAAA-ATAAT
1 AATA-AAAATATAAT
78826749 GATGTAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 24 0.86
18 4 0.14
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (17 bp):
AATAAAAATATAATAAA
Found at i:78826726 original size:19 final size:19
Alignment explanation
Indices: 78826684--78826746 Score: 60
Period size: 19 Copynumber: 3.2 Consensus size: 19
78826674 ATGTAAAAAC
78826684 AATATATATAAATAAT-TAATA
1 AATATA-ATAAA-AATATAA-A
78826705 AATAT-ATAATACAA-ATAAA
1 AATATAATAA-A-AATATAAA
78826724 AATATAATAAAAATATAAA
1 AATATAATAAAAATATAAA
78826743 AATA
1 AATA
78826747 ATGATGTAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
18 2 0.05
19 20 0.54
20 10 0.27
21 5 0.14
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (19 bp):
AATATAATAAAAATATAAA
Found at i:78828827 original size:205 final size:205
Alignment explanation
Indices: 78828475--78828984 Score: 815
Period size: 205 Copynumber: 2.5 Consensus size: 205
78828465 AAATCTGCTT
* *
78828475 CTTCGATTTGTTCTCT-AACAATACAGAGATGACAAATCATCTTATATTTGCTTCAGCGTAAACA
1 CTTCGATTTGTTCTCTGAA-AATACAGAGATGACAAATCATCTTAGATTTGCTTCAACGTAAACA
* * *
78828539 CGTGAAAGCCAAATCAGCTACGTCTTCGATTTGTTCCCTGTAAGTACAAGGATACCAAACCATCT
65 CGTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCCTGTAAGCACAAGGATACCAAACCATCT
*
78828604 TGGATCTGCTTCAGTATAAACATCTGAAGGTTGGATCTACTATGTGTTTGCCCTCCGTCGAAGTG
130 TGGATCTACTTCAGTATAAACATCTGAAGGTTGGATCTACTATGTGTTTGCCCTCCGTCGAAGTG
78828669 GAGATGCCAGA
195 GAGATGCCAGA
* * *
78828680 CTTCGATTTGTTCTCTGAAAATACAGAGATGTCAAATCATCTTAGATTTGCATCAACGTAAGCAC
1 CTTCGATTTGTTCTCTGAAAATACAGAGATGACAAATCATCTTAGATTTGCTTCAACGTAAACAC
* * *
78828745 GTGAAAGCCAAATCAGCTATGTCTTTGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCCTGTAAGCACAAGGATACCAAACCATCTT
* * **
78828810 GGATCTACTTCAGTATAAACATCTGAAGTTTGGATTTACTATGTGTTTGCCCTTTGTCGAAGTGG
131 GGATCTACTTCAGTATAAACATCTGAAGGTTGGATCTACTATGTGTTTGCCCTCCGTCGAAGTGG
78828875 AGATGCCAGA
196 AGATGCCAGA
* * *
78828885 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAATAC
1 CTTCGATTTGTTCTCTGAAAATACAGAGATGACAAATCATCTTAGATTTGCTTCAACGTAAACAC
* *
78828950 GTGAAAGCCAAATTAGCTATGTCTTCGATCTGCTC
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTC
78828985 TCCGCCAATA
Statistics
Matches: 280, Mismatches: 24, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
205 278 0.99
206 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.32
Consensus pattern (205 bp):
CTTCGATTTGTTCTCTGAAAATACAGAGATGACAAATCATCTTAGATTTGCTTCAACGTAAACAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCCTGTAAGCACAAGGATACCAAACCATCTT
GGATCTACTTCAGTATAAACATCTGAAGGTTGGATCTACTATGTGTTTGCCCTCCGTCGAAGTGG
AGATGCCAGA
Found at i:78828960 original size:41 final size:41
Alignment explanation
Indices: 78828915--78829051 Score: 127
Period size: 41 Copynumber: 3.2 Consensus size: 41
78828905 ATACAGAGAT
78828915 GCCAAATCATCTTAGATTTGCTTCAACGTAAATACGTGAAA
1 GCCAAATCATCTTAGATTTGCTTCAACGTAAATACGTGAAA
* * ** *
78828956 GCCAAATTAGCTATGTCTTCGATCTGCTCTC--CGCCAATAC-AGAAA
1 GCCAAA-T--C-A--TCTTAGATTTGCT-TCAACGTAAATACGTGAAA
*
78829001 TGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAA
1 -GCCAAATCATCTTAGATTTGCTTCAACGTAAATACGTGAAA
78829043 GCCAAATCA
1 GCCAAATCA
78829052 GCTACGTCTT
Statistics
Matches: 74, Mismatches: 11, Indels: 22
0.69 0.10 0.21
Matches are distributed among these distances:
39 2 0.03
40 11 0.15
41 21 0.28
42 6 0.08
43 1 0.01
44 1 0.01
45 6 0.08
46 13 0.18
47 11 0.15
48 2 0.03
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.27
Consensus pattern (41 bp):
GCCAAATCATCTTAGATTTGCTTCAACGTAAATACGTGAAA
Found at i:78829113 original size:87 final size:86
Alignment explanation
Indices: 78828885--78829073 Score: 290
Period size: 87 Copynumber: 2.2 Consensus size: 86
78828875 AGATGCCAGA
*
78828885 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAATAC
1 CTTCGATTTGTTC-CTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACAC
* *
78828950 GTGAAAGCCAAATTAGCTATGT
65 GTGAAAGCCAAATCAGCTACGT
* * *
78828972 CTTCGATCTGCTCTCC-GCCAATACAGAAATGCCAAATCATCTTAGATTTGCTTCAACGTAAACA
1 CTTCGATTTG-T-TCCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACA
78829036 CGTGAAAGCCAAATCAGCTACGT
64 CGTGAAAGCCAAATCAGCTACGT
78829059 CTTCGATTTGTTCCT
1 CTTCGATTTGTTCCT
78829074 TATAAGTACA
Statistics
Matches: 92, Mismatches: 7, Indels: 7
0.87 0.07 0.07
Matches are distributed among these distances:
85 3 0.03
86 1 0.01
87 84 0.91
88 2 0.02
89 2 0.02
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (86 bp):
CTTCGATTTGTTCCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACACG
TGAAAGCCAAATCAGCTACGT
Found at i:78829354 original size:44 final size:44
Alignment explanation
Indices: 78829300--78829493 Score: 178
Period size: 44 Copynumber: 4.4 Consensus size: 44
78829290 TGAGTGTTAG
* *
78829300 ATCTGTTATCTTTGATCTGTTCCCTATAAACATAGGGATGCCAA
1 ATCTGCTATCTTTGATCTGTTCCCTATAAACACAGGGATGCCAA
* *
78829344 ATCTGCTATC-TTCAACTTGTTCCCTATAAACACAGGGATGCC-A
1 ATCTGCTATCTTTGATC-TGTTCCCTATAAACACAGGGATGCCAA
* ** * * * * * * *
78829387 AGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAG
1 ATCTGCTATCTTTGATCTG-TTCCCTATAAACACAGGGATGCCAA
* * *
78829432 ATCTACTATCTTCGATCTGTTCCCTATAAACACAAGGATGCCAA
1 ATCTGCTATCTTTGATCTGTTCCCTATAAACACAGGGATGCCAA
*
78829476 ATCTTG-TTTCTTTGATCT
1 ATC-TGCTATCTTTGATCT
78829494 ACATTGTCCC
Statistics
Matches: 115, Mismatches: 30, Indels: 10
0.74 0.19 0.06
Matches are distributed among these distances:
43 14 0.12
44 85 0.74
45 16 0.14
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (44 bp):
ATCTGCTATCTTTGATCTGTTCCCTATAAACACAGGGATGCCAA
Found at i:78829434 original size:132 final size:132
Alignment explanation
Indices: 78829199--78829479 Score: 427
Period size: 132 Copynumber: 2.1 Consensus size: 132
78829189 CTCTGACAAT
* *
78829199 ATAGAGATGCCAAATCTGCTATATTCAACTTGTTCCCTATAAACACAGGGATACCATGCTGAAAT
1 ATAGGGATGCCAAATCTGCTATATTCAACTTGTTCCCTATAAACACAGGGATACCAAGCTGAAAT
* * * * ** *
78829264 CCTCAATCTGCTTCGCTGTAAGCACATGAGTGTTAGATCTGTTATCTTTGATCTGTTCCCTATAA
66 CCTCAATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTACTATCTTCGATCTGTTCCCTATAA
78829329 AC
131 AC
* *
78829331 ATAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCAAGCTGAAAT
1 ATAGGGATGCCAAATCTGCTATATTCAACTTGTTCCCTATAAACACAGGGATACCAAGCTGAAAT
* *
78829396 CTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTACTATCTTCGATCTGTTCCCTATAA
66 CCTCAATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTACTATCTTCGATCTGTTCCCTATAA
78829461 AC
131 AC
* *
78829463 ACAAGGATGCCAAATCT
1 ATAGGGATGCCAAATCT
78829480 TGTTTCTTTG
Statistics
Matches: 134, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
132 134 1.00
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (132 bp):
ATAGGGATGCCAAATCTGCTATATTCAACTTGTTCCCTATAAACACAGGGATACCAAGCTGAAAT
CCTCAATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTACTATCTTCGATCTGTTCCCTATAA
AC
Found at i:78831075 original size:28 final size:28
Alignment explanation
Indices: 78831035--78831091 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
78831025 TTTGTTAGAT
*
78831035 ATGATCTTCTCAGGCATTCCATACCGAC
1 ATGATATTCTCAGGCATTCCATACCGAC
78831063 ATGATATTCTCAGGCATTCCATACCGAC
1 ATGATATTCTCAGGCATTCCATACCGAC
78831091 A
1 A
78831092 AATGATCTCC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.28, C:0.30, G:0.14, T:0.28
Consensus pattern (28 bp):
ATGATATTCTCAGGCATTCCATACCGAC
Found at i:78841572 original size:24 final size:22
Alignment explanation
Indices: 78841518--78841573 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 22
78841508 TAGAATAAAA
*
78841518 ATAAAAATATAATAAATGTTAT
1 ATAAAAATATAATAAATGATAT
78841540 ATAATAAATATAATTTAAAT-ATAT
1 ATAA-AAATATAA--TAAATGATAT
78841564 ATAGAAAATA
1 ATA-AAAATA
78841574 AGAAATATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
22 4 0.14
23 8 0.28
24 11 0.38
25 6 0.21
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.36
Consensus pattern (22 bp):
ATAAAAATATAATAAATGATAT
Found at i:78841664 original size:19 final size:19
Alignment explanation
Indices: 78841624--78841667 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
78841614 ATGTAAAAAC
* *
78841624 AATATATAAATAATTAATA
1 AATATATAAACAAGTAATA
78841643 AATATATAACACAAGTAA-A
1 AATATATAA-ACAAGTAATA
78841662 AATATA
1 AATATA
78841668 ATAATAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.30
Consensus pattern (19 bp):
AATATATAAACAAGTAATA
Found at i:78864525 original size:15 final size:16
Alignment explanation
Indices: 78864505--78864546 Score: 59
Period size: 15 Copynumber: 2.6 Consensus size: 16
78864495 ATAAAATTAC
78864505 ATAAATATATG-GAAA
1 ATAAATATATGAGAAA
*
78864520 ATAAATATATGATAAA
1 ATAAATATATGAGAAA
78864536 ATCAAATATAT
1 AT-AAATATAT
78864547 ATACATAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 11 0.46
16 5 0.21
17 8 0.33
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.31
Consensus pattern (16 bp):
ATAAATATATGAGAAA
Found at i:78873255 original size:25 final size:25
Alignment explanation
Indices: 78873202--78873283 Score: 89
Period size: 25 Copynumber: 3.3 Consensus size: 25
78873192 ATTTGCTCAT
* *
78873202 ACGAGCTATAAATCGATATA-CTCTC
1 ACGAGCTATGAATCGGTA-AGCTCTC
*
78873227 ACGAGCTATGAATTGGTAAGCTCAT-
1 ACGAGCTATGAATCGGTAAGCTC-TC
78873252 ACGAGCTGA-GAATCGGTAAGCTCTC
1 ACGAGCT-ATGAATCGGTAAGCTCTC
78873277 ACGAGCT
1 ACGAGCT
78873284 GCAAATCTGG
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
24 2 0.04
25 45 0.92
26 2 0.04
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.24
Consensus pattern (25 bp):
ACGAGCTATGAATCGGTAAGCTCTC
Found at i:78873305 original size:25 final size:25
Alignment explanation
Indices: 78873227--78873306 Score: 78
Period size: 25 Copynumber: 3.2 Consensus size: 25
78873217 ATATACTCTC
*
78873227 ACGAGCT-ATGAATTGGTAAGCTCAT
1 ACGAGCTGA-GAATCGGTAAGCTCAT
78873252 ACGAGCTGAGAATCGGTAAGCTC-T
1 ACGAGCTGAGAATCGGTAAGCTCAT
*
78873276 CACGAGCTGCA-AATCTGG-AAGTTCAT
1 -ACGAGCTG-AGAATC-GGTAAGCTCAT
78873302 ACGAG
1 ACGAG
78873307 TTGTGGTGTG
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
24 1 0.02
25 42 0.88
26 5 0.10
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.23
Consensus pattern (25 bp):
ACGAGCTGAGAATCGGTAAGCTCAT
Found at i:78884857 original size:26 final size:26
Alignment explanation
Indices: 78884828--78884883 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
78884818 TGATACAAAT
78884828 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
78884854 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
78884880 TGAT
1 TGAT
78884884 GGGAATTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:78886536 original size:38 final size:38
Alignment explanation
Indices: 78886485--78886563 Score: 140
Period size: 38 Copynumber: 2.1 Consensus size: 38
78886475 TCCTGGTGGC
78886485 TATGCCACAATTATCTGATCTAGTGGCTCTGCCACAAA
1 TATGCCACAATTATCTGATCTAGTGGCTCTGCCACAAA
* *
78886523 TATGCCACAATTATCTGATCTGGTGGCTCTGCCACATA
1 TATGCCACAATTATCTGATCTAGTGGCTCTGCCACAAA
78886561 TAT
1 TAT
78886564 CTGTTCTGGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (38 bp):
TATGCCACAATTATCTGATCTAGTGGCTCTGCCACAAA
Found at i:78886610 original size:27 final size:27
Alignment explanation
Indices: 78886528--78886619 Score: 118
Period size: 27 Copynumber: 3.4 Consensus size: 27
78886518 ACAAATATGC
*
78886528 CACAATTATCTG-ATCTGGTGGCTCTGC
1 CACAA-TATCTGTATCTGGTGGCTCTGT
78886555 CACATATATCTGT-TCTGGTGGCTCTGT
1 CACA-ATATCTGTATCTGGTGGCTCTGT
*
78886582 CACAATATCTGTATCTGGTGACT-TCGT
1 CACAATATCTGTATCTGGTGGCTCT-GT
78886609 CACAATATCTG
1 CACAATATCTG
78886620 GCAGCCTCGC
Statistics
Matches: 59, Mismatches: 2, Indels: 8
0.86 0.03 0.12
Matches are distributed among these distances:
26 9 0.15
27 49 0.83
28 1 0.02
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.36
Consensus pattern (27 bp):
CACAATATCTGTATCTGGTGGCTCTGT
Found at i:78896154 original size:20 final size:21
Alignment explanation
Indices: 78896109--78896154 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
78896099 CCCAAACTAT
*
78896109 TTTTAGGGCCCTGTAAGCTTA
1 TTTTAAGGCCCTGTAAGCTTA
* *
78896130 GTTTAAGGCCC-GTAAGTTTA
1 TTTTAAGGCCCTGTAAGCTTA
78896150 TTTTA
1 TTTTA
78896155 CCCTGATTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.22, C:0.15, G:0.22, T:0.41
Consensus pattern (21 bp):
TTTTAAGGCCCTGTAAGCTTA
Found at i:78903797 original size:44 final size:44
Alignment explanation
Indices: 78903731--78903819 Score: 160
Period size: 44 Copynumber: 2.0 Consensus size: 44
78903721 CTTACATTAC
*
78903731 TAAACAAGTAATGAATGATAAGTATCGAATATCAAAGAGAAGTT
1 TAAACAAGTAATGAATGATAAGTAACGAATATCAAAGAGAAGTT
*
78903775 TAAACAAGTAATGAATGTTAAGTAACGAATATCAAAGAGAAGTT
1 TAAACAAGTAATGAATGATAAGTAACGAATATCAAAGAGAAGTT
78903819 T
1 T
78903820 TACATTGAAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.49, C:0.07, G:0.18, T:0.26
Consensus pattern (44 bp):
TAAACAAGTAATGAATGATAAGTAACGAATATCAAAGAGAAGTT
Found at i:78904850 original size:10 final size:10
Alignment explanation
Indices: 78904823--78904882 Score: 70
Period size: 10 Copynumber: 6.0 Consensus size: 10
78904813 TTAAATTCTA
78904823 AAAGATAAAT
1 AAAGATAAAT
78904833 ACAA-ATAAAT
1 A-AAGATAAAT
*
78904843 AAAGATAATT
1 AAAGATAAAT
*
78904853 AAAGATAATT
1 AAAGATAAAT
78904863 AAAGATAAAT
1 AAAGATAAAT
78904873 GAAA-ATAAAT
1 -AAAGATAAAT
78904883 CCTAAAATTA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
9 2 0.04
10 38 0.84
11 5 0.11
ACGTcount: A:0.67, C:0.02, G:0.08, T:0.23
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:78906975 original size:96 final size:97
Alignment explanation
Indices: 78906845--78907026 Score: 258
Period size: 96 Copynumber: 1.9 Consensus size: 97
78906835 TATTTATTTA
* ** * ** * * **
78906845 TTTATTCTTGCTTAAGATTATATTGAACCTTTTGACGTGAAGAGAGATGACAGTCAAGCTCCTCA
1 TTTATTCTTCCTTAAGAACATATCGAACCTTTTGACGCAAAAAGAGATGACAGCCAAGCAACTCA
78906910 CCCCGGTTACTCAGCCCAACATACTCCTAATT
66 CCCCGGTTACTCAGCCCAACATACTCCTAATT
78906942 TTTATT-TTCCTTAAGAACATATCGAACCTTTTGACGCAAAAAGAGATGACAGCCAAGCAACTCA
1 TTTATTCTTCCTTAAGAACATATCGAACCTTTTGACGCAAAAAGAGATGACAGCCAAGCAACTCA
*
78907006 CCTCGGTTACTCAGCCCAACA
66 CCCCGGTTACTCAGCCCAACA
78907027 CATTCTTAAA
Statistics
Matches: 74, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
96 68 0.92
97 6 0.08
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.29
Consensus pattern (97 bp):
TTTATTCTTCCTTAAGAACATATCGAACCTTTTGACGCAAAAAGAGATGACAGCCAAGCAACTCA
CCCCGGTTACTCAGCCCAACATACTCCTAATT
Found at i:78909677 original size:30 final size:29
Alignment explanation
Indices: 78909643--78909715 Score: 100
Period size: 26 Copynumber: 2.6 Consensus size: 29
78909633 CAACGTCAAA
78909643 AAAATAAAATAATAAATAATAAAATTAAGT
1 AAAAT-AAATAATAAATAATAAAATTAAGT
78909673 AAAATAAA-AAT-AA-AATAAAATTAAGT
1 AAAATAAATAATAAATAATAAAATTAAGT
*
78909699 AAAAGAAATAA-AAATAA
1 AAAATAAATAATAAATAA
78909716 AAATTGGGTT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
26 20 0.51
27 6 0.15
28 5 0.13
29 3 0.08
30 5 0.13
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (29 bp):
AAAATAAATAATAAATAATAAAATTAAGT
Found at i:78909678 original size:15 final size:13
Alignment explanation
Indices: 78909643--78909693 Score: 52
Period size: 15 Copynumber: 3.8 Consensus size: 13
78909633 CAACGTCAAA
78909643 AAAATAAAATAAT
1 AAAATAAAATAAT
78909656 AAATAATAAAATTAAGT
1 -AA-AATAAAA-TAA-T
78909673 AAAAT-AAA-AAT
1 AAAATAAAATAAT
78909684 AAAATAAAAT
1 AAAATAAAAT
78909694 TAAGTAAAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
11 6 0.19
12 5 0.16
14 5 0.16
15 10 0.31
16 5 0.16
17 1 0.03
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.24
Consensus pattern (13 bp):
AAAATAAAATAAT
Found at i:78909702 original size:36 final size:36
Alignment explanation
Indices: 78909642--78909719 Score: 97
Period size: 36 Copynumber: 2.2 Consensus size: 36
78909632 TCAACGTCAA
* *
78909642 AAAAATAAAATAATAAATAATAAAATTAAGT-AAAAT
1 AAAAATAAAATAATAAATAATAAAA-GAAATAAAAAT
*
78909678 AAAAATAAAATAA-AATTAAGTAAAAGAAATAAAAAT
1 AAAAATAAAATAATAAATAA-TAAAAGAAATAAAAAT
78909714 AAAAAT
1 AAAAAT
78909720 TGGGTTATCT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
35 8 0.22
36 29 0.78
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (36 bp):
AAAAATAAAATAATAAATAATAAAAGAAATAAAAAT
Found at i:78915268 original size:10 final size:10
Alignment explanation
Indices: 78915239--78915283 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
78915229 AATTAAATTC
*
78915239 TAAAAGATAAA
1 TAAAA-ATAAT
*
78915250 TACAAATAAT
1 TAAAAATAAT
*
78915260 TAAATATAAT
1 TAAAAATAAT
78915270 TAAAAATAAT
1 TAAAAATAAT
78915280 TAAA
1 TAAA
78915284 GATATATGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
10 25 0.86
11 4 0.14
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (10 bp):
TAAAAATAAT
Found at i:78915268 original size:20 final size:20
Alignment explanation
Indices: 78915245--78915298 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
78915235 ATTCTAAAAG
*
78915245 ATAAATACAAATAATTAAAT
1 ATAAATAAAAATAATTAAAT
* *
78915265 ATAATTAAAAATAATTAAAG
1 ATAAATAAAAATAATTAAAT
* *
78915285 ATATATGAAAATAA
1 ATAAATAAAAATAA
78915299 ATCCTAAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.30
Consensus pattern (20 bp):
ATAAATAAAAATAATTAAAT
Found at i:78915935 original size:4 final size:4
Alignment explanation
Indices: 78915926--78915955 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
78915916 ACATCTCCTT
78915926 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
78915956 CTTGCTTAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:78916125 original size:96 final size:96
Alignment explanation
Indices: 78915977--78916220 Score: 416
Period size: 96 Copynumber: 2.5 Consensus size: 96
78915967 ATATATTGAT
* * *
78915977 CCTTTTGATGCGAAGAGAGATGACAGTCAAGCACCTCAACCCGGTTACTCAGCCCAACATACTCC
1 CCTTTTGATGCAAAGAGAGATGACAGCCAAGCACCTCACCCCGGTTACTCAGCCCAACATACTCC
**
78916042 TAATTTTTATTTTGTTTAAGAACGTATCGAA
66 TAATTTTTATTTTCCTTAAGAACGTATCGAA
* *
78916073 CCTTTTGACGCAAAGAGAGATGACAACCAAGCACCTCACCCCGGTTACTCAGCCCAACATACTCC
1 CCTTTTGATGCAAAGAGAGATGACAGCCAAGCACCTCACCCCGGTTACTCAGCCCAACATACTCC
78916138 TAATTTTTATTTTCCTTAAGAACGTATCGAA
66 TAATTTTTATTTTCCTTAAGAACGTATCGAA
*
78916169 CCTTTTGATGCAAAGAGAGATGACAGCCAAGCACCTCACCCTGGTTACTCAG
1 CCTTTTGATGCAAAGAGAGATGACAGCCAAGCACCTCACCCCGGTTACTCAG
78916221 TCAAACACAT
Statistics
Matches: 138, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
96 138 1.00
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.26
Consensus pattern (96 bp):
CCTTTTGATGCAAAGAGAGATGACAGCCAAGCACCTCACCCCGGTTACTCAGCCCAACATACTCC
TAATTTTTATTTTCCTTAAGAACGTATCGAA
Found at i:78918852 original size:5 final size:5
Alignment explanation
Indices: 78918842--78918905 Score: 76
Period size: 5 Copynumber: 12.4 Consensus size: 5
78918832 TCAACATCTA
* *
78918842 AAAAT AAAAT AATAA- ATAAT AAAAT AAAGT AAAAT AAAAAT AAAAT AAAAT
1 AAAAT AAAAT AA-AAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAAAT AAAAT
78918893 AAAAT AAAGAT AA
1 AAAAT AAA-AT AA
78918906 TTAAATAAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
4 2 0.04
5 38 0.75
6 11 0.22
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:78918883 original size:16 final size:15
Alignment explanation
Indices: 78918842--78918914 Score: 71
Period size: 15 Copynumber: 4.9 Consensus size: 15
78918832 TCAACATCTA
78918842 AAAATAAAAT-AA-T
1 AAAATAAAATAAAGT
78918855 AAATAATAAAATAAAGT
1 -AA-AATAAAATAAAGT
*
78918872 AAAATAAAAATAAAAT
1 AAAAT-AAAATAAAGT
78918888 AAAATAAAATAAAG-
1 AAAATAAAATAAAGT
* *
78918902 ATAATTAAATAAA
1 AAAATAAAATAAA
78918915 AACAAAAATT
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
14 13 0.25
15 19 0.37
16 18 0.35
17 1 0.02
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (15 bp):
AAAATAAAATAAAGT
Found at i:78918895 original size:21 final size:21
Alignment explanation
Indices: 78918842--78918905 Score: 87
Period size: 21 Copynumber: 3.1 Consensus size: 21
78918832 TCAACATCTA
78918842 AAAATAAAAT--AATAAATAAT
1 AAAATAAAATAAAATAAA-AAT
*
78918862 AAAATAAAGTAAAATAAAAAT
1 AAAATAAAATAAAATAAAAAT
*
78918883 AAAATAAAATAAAATAAAGAT
1 AAAATAAAATAAAATAAAAAT
78918904 AA
1 AA
78918906 TTAAATAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
20 9 0.23
21 24 0.62
22 6 0.15
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (21 bp):
AAAATAAAATAAAATAAAAAT
Found at i:78924516 original size:41 final size:41
Alignment explanation
Indices: 78924449--78924529 Score: 128
Period size: 41 Copynumber: 2.0 Consensus size: 41
78924439 TGCGTACCTG
*
78924449 GGAAAAAAAGTTAAAATAAAATAGAATTAAAAGTTTTGATCT
1 GGAAAAAAAG-TAAAATAAAACAGAATTAAAAGTTTTGATCT
78924491 GGAAAAAAA-TAAAATAGAAACAGAATTAAAAGTTTTGAT
1 GGAAAAAAAGTAAAATA-AAACAGAATTAAAAGTTTTGAT
78924530 TGAAATTCTG
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
40 7 0.19
41 21 0.57
42 9 0.24
ACGTcount: A:0.57, C:0.02, G:0.15, T:0.26
Consensus pattern (41 bp):
GGAAAAAAAGTAAAATAAAACAGAATTAAAAGTTTTGATCT
Found at i:78925131 original size:21 final size:21
Alignment explanation
Indices: 78925107--78925154 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
78925097 TAAATATAAT
78925107 GAAAATGGAATTTTTGTTGAA
1 GAAAATGGAATTTTTGTTGAA
78925128 GAAAATGGAATTTTTGTTGAA
1 GAAAATGGAATTTTTGTTGAA
78925149 GAAAAT
1 GAAAAT
78925155 ATGGAAAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (21 bp):
GAAAATGGAATTTTTGTTGAA
Found at i:78925302 original size:10 final size:10
Alignment explanation
Indices: 78925283--78925332 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
78925273 TTAATTTCTA
78925283 AAAGATAAAT
1 AAAGATAAAT
78925293 ATAA-ATAAAT
1 A-AAGATAAAT
*
78925303 AAAGATAATT
1 AAAGATAAAT
78925313 AAAGATAAAT
1 AAAGATAAAT
78925323 GAAA-ATAAAT
1 -AAAGATAAAT
78925333 CCTAAAATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:78928018 original size:19 final size:21
Alignment explanation
Indices: 78927983--78928033 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 21
78927973 TTTGTTGTTG
78927983 TGTTTTGCTA-TGTTTTC-AC
1 TGTTTTGCTATTGTTTTCTAC
*
78928002 TGTTTTGCTATTG-TTTCTAT
1 TGTTTTGCTATTGTTTTCTAC
*
78928022 TGTTTTGTTATT
1 TGTTTTGCTATT
78928034 ACTTTGCCGT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.10, C:0.10, G:0.16, T:0.65
Consensus pattern (21 bp):
TGTTTTGCTATTGTTTTCTAC
Found at i:78929495 original size:22 final size:22
Alignment explanation
Indices: 78929468--78929509 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
78929458 TAAGTCAGAA
78929468 AAGCCTTGAGGTTTTTCATCAG
1 AAGCCTTGAGGTTTTTCATCAG
78929490 AAGCCTTGAGGTTTTTCATC
1 AAGCCTTGAGGTTTTTCATC
78929510 CATTTTCAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.38
Consensus pattern (22 bp):
AAGCCTTGAGGTTTTTCATCAG
Found at i:78936390 original size:40 final size:39
Alignment explanation
Indices: 78936346--78936444 Score: 112
Period size: 40 Copynumber: 2.5 Consensus size: 39
78936336 GTTAGATATT
*
78936346 TTGATTAATTCATATAAATGTTGGTAAGTCC-ATAGAAATA
1 TTGATAAATTCATATAAATGTTGGTAA-TCCTA-AGAAATA
* * *
78936386 TTGATAAAATTTC-TAGATATTTTGGTAATCCTAAGAAATA
1 TTGAT-AAA-TTCATATAAATGTTGGTAATCCTAAGAAATA
78936426 TTGATAAATTCATATAAAT
1 TTGATAAATTCATATAAAT
78936445 TTTGCTAAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
38 3 0.06
39 8 0.16
40 20 0.41
41 15 0.31
42 3 0.06
ACGTcount: A:0.41, C:0.07, G:0.12, T:0.39
Consensus pattern (39 bp):
TTGATAAATTCATATAAATGTTGGTAATCCTAAGAAATA
Found at i:78936465 original size:21 final size:20
Alignment explanation
Indices: 78936322--78936469 Score: 61
Period size: 20 Copynumber: 7.3 Consensus size: 20
78936312 TAGTTTTAAG
* **
78936322 AATTTTGGTAAAATGTTAGA
1 AATTTTGATAAAATCATAGA
* * * *
78936342 TATTTTGATTAATTCATATA
1 AATTTTGATAAAATCATAGA
* * *
78936362 AATGTTGGT-AAGTCCATAGA
1 AATTTTGATAAAAT-CATAGA
*
78936382 AATATTGATAAAATTTC-TAGA
1 AATTTTGATAAAA--TCATAGA
* * *
78936403 TATTTTGGT--AATCCTAAGA
1 AATTTTGATAAAATCAT-AGA
* * *
78936422 AATATTGATAAATTCATATA
1 AATTTTGATAAAATCATAGA
*
78936442 AATTTTGCTAAAATCATTAGA
1 AATTTTGATAAAATCA-TAGA
78936463 AATTTTG
1 AATTTTG
78936470 GTGAAGTTAA
Statistics
Matches: 91, Mismatches: 28, Indels: 17
0.67 0.21 0.12
Matches are distributed among these distances:
17 2 0.02
18 1 0.01
19 14 0.15
20 46 0.51
21 26 0.29
22 1 0.01
23 1 0.01
ACGTcount: A:0.40, C:0.06, G:0.13, T:0.41
Consensus pattern (20 bp):
AATTTTGATAAAATCATAGA
Found at i:78936554 original size:20 final size:19
Alignment explanation
Indices: 78936526--78936600 Score: 69
Period size: 20 Copynumber: 3.8 Consensus size: 19
78936516 GAAATTTTGG
78936526 AAATATTGGTAATATCTTAT
1 AAATATTGGTAA-ATCTTAT
* *
78936546 AAATTTTGGTAAAGTCTCAT
1 AAATATTGGTAAA-TCTTAT
* * *
78936566 AAATATTGATAAATCGATAG
1 AAATATTGGTAAATC-TTAT
*
78936586 AAATTTTGGTAAATC
1 AAATATTGGTAAATC
78936601 GTTAGATATT
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
19 3 0.07
20 41 0.93
ACGTcount: A:0.41, C:0.07, G:0.13, T:0.39
Consensus pattern (19 bp):
AAATATTGGTAAATCTTAT
Found at i:78936679 original size:20 final size:20
Alignment explanation
Indices: 78936575--78936776 Score: 95
Period size: 20 Copynumber: 10.1 Consensus size: 20
78936565 TAAATATTGA
* * *
78936575 TAAATCGATAGAAATTTTGG
1 TAAATCGTTAGATATTTTAG
78936595 TAAATCGTTAGATATTTTAG
1 TAAATCGTTAGATATTTTAG
** ** *
78936615 TAAATAATTAGATACATTGG
1 TAAATCGTTAGATATTTTAG
* * * *
78936635 TAAATCTTTGGAAATATTAG
1 TAAATCGTTAGATATTTTAG
* *
78936655 AAAATCGTTAGATATTTTAC
1 TAAATCGTTAGATATTTTAG
* *
78936675 TAAATTC-TTAAAAATTTT-G
1 TAAA-TCGTTAGATATTTTAG
* ** *
78936694 ATAAACCGTTAGATACATTAA
1 -TAAATCGTTAGATATTTTAG
* * * *
78936715 TAAATCATTAAATATATTAA
1 TAAATCGTTAGATATTTTAG
* * *
78936735 TAAGTCCTTAGATATTTTGG
1 TAAATCGTTAGATATTTTAG
* *
78936755 TAAAGTC-ATAGAAATTTTAG
1 TAAA-TCGTTAGATATTTTAG
78936775 TA
1 TA
78936777 GTTTTTAAGA
Statistics
Matches: 133, Mismatches: 44, Indels: 10
0.71 0.24 0.05
Matches are distributed among these distances:
19 1 0.01
20 128 0.96
21 4 0.03
ACGTcount: A:0.42, C:0.07, G:0.12, T:0.39
Consensus pattern (20 bp):
TAAATCGTTAGATATTTTAG
Found at i:78936832 original size:20 final size:20
Alignment explanation
Indices: 78936804--78936845 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
78936794 TAAGGTTTAG
*
78936804 AAAATTTGGAAATATTT-GTA
1 AAAACTTGGAAAT-TTTGGTA
78936824 AAAACTTGGAAATTTTGGTA
1 AAAACTTGGAAATTTTGGTA
78936844 AA
1 AA
78936846 GTCTCATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 3 0.15
20 17 0.85
ACGTcount: A:0.45, C:0.02, G:0.17, T:0.36
Consensus pattern (20 bp):
AAAACTTGGAAATTTTGGTA
Found at i:78936893 original size:20 final size:20
Alignment explanation
Indices: 78936870--78937205 Score: 105
Period size: 20 Copynumber: 16.8 Consensus size: 20
78936860 GGTAAATTGA
*
78936870 TAGAAATTTTAGTAAAACAT
1 TAGAAATTTTGGTAAAACAT
* *
78936890 TAGAAATTTTGATAAATCAT
1 TAGAAATTTTGGTAAAACAT
* * *
78936910 TTGATATTTCGGT-AAACAT
1 TAGAAATTTTGGTAAAACAT
***
78936929 TAGAAATTTTGGTAAATTGT
1 TAGAAATTTTGGTAAAACAT
* * * * *
78936949 TAGATATCTTGATAAATCTT
1 TAGAAATTTTGGTAAAACAT
***
78936969 TAGAAATTTTGGTAAATTGT
1 TAGAAATTTTGGTAAAACAT
* ** * *
78936989 TAGATATTTTTATAAATCCTT
1 TAGAAATTTTGGTAAA-ACAT
* * *
78937010 TA-AAATATTGGTAAACCGT
1 TAGAAATTTTGGTAAAACAT
* * *
78937029 TAGATATATATTGTTAAATCAT
1 TAGA-A-ATTTTGGTAAAACAT
* *
78937051 TAGATATTTTGGTAAACCGA-
1 TAGAAATTTTGGTAAAAC-AT
* *
78937071 TAG--ATTTACTCG-AAAA-TT
1 TAGAAATTT--TGGTAAAACAT
* * * *
78937089 GATAGATATTTTGATAAATCCT
1 --TAGAAATTTTGGTAAAACAT
* * * **
78937111 TAGAAATGTTAGCAAGTCAT
1 TAGAAATTTTGGTAAAACAT
* * *
78937131 TAGATATATTGGTAAATCAT
1 TAGAAATTTTGGTAAAACAT
*
78937151 TAGAAATTTTGGTAAATCAT
1 TAGAAATTTTGGTAAAACAT
*
78937171 T-GAATATTTTGGTAAAGTCA-
1 TAGAA-ATTTTGGTAAA-ACAT
78937191 TAGAAATTTTGGTAA
1 TAGAAATTTTGGTAA
78937206 TTGTTAAGAC
Statistics
Matches: 235, Mismatches: 63, Indels: 36
0.70 0.19 0.11
Matches are distributed among these distances:
18 4 0.02
19 26 0.11
20 170 0.72
21 14 0.06
22 21 0.09
ACGTcount: A:0.38, C:0.07, G:0.15, T:0.40
Consensus pattern (20 bp):
TAGAAATTTTGGTAAAACAT
Found at i:78936944 original size:59 final size:59
Alignment explanation
Indices: 78936870--78936984 Score: 142
Period size: 59 Copynumber: 1.9 Consensus size: 59
78936860 GGTAAATTGA
* *
78936870 TAGAAATTTTAGTAAAACATTAGAAATTTTGATAAATCATTT-GATATTTCGGTAAACAT
1 TAGAAATTTTAGTAAAACATTAGAAATCTTGATAAATC-TTTAGAAATTTCGGTAAACAT
* *** * *
78936929 TAGAAATTTTGGTAAATTGTTAGATATCTTGATAAATCTTTAGAAATTTTGGTAAA
1 TAGAAATTTTAGTAAAACATTAGAAATCTTGATAAATCTTTAGAAATTTCGGTAAA
78936985 TTGTTAGATA
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
58 3 0.06
59 44 0.94
ACGTcount: A:0.40, C:0.05, G:0.14, T:0.41
Consensus pattern (59 bp):
TAGAAATTTTAGTAAAACATTAGAAATCTTGATAAATCTTTAGAAATTTCGGTAAACAT
Found at i:78937039 original size:22 final size:22
Alignment explanation
Indices: 78937014--78937075 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
78937004 ATCCTTTAAA
78937014 ATATTGGTAAACCGTTAGATAT
1 ATATTGGTAAACCGTTAGATAT
* * *
78937036 ATATTGTTAAATCATTAGATAT
1 ATATTGGTAAACCGTTAGATAT
*
78937058 -T-TTGGTAAACCGATAGAT
1 ATATTGGTAAACCGTTAGAT
78937076 TTACTCGAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
20 13 0.39
21 1 0.03
22 19 0.58
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.39
Consensus pattern (22 bp):
ATATTGGTAAACCGTTAGATAT
Found at i:78937095 original size:102 final size:100
Alignment explanation
Indices: 78936982--78937166 Score: 246
Period size: 102 Copynumber: 1.8 Consensus size: 100
78936972 AAATTTTGGT
* * * * * *
78936982 AAATTGTTAGATATTTTTATAAATCCTTTA-AAATATTGGTAAACCGTTAGATATATATTGTTAA
1 AAATTGATAGATATTTTGATAAATCC-TTAGAAATATTAGCAAACCATTAG--ATATATTGGTAA
*
78937046 ATCATTAGATATTTTGGTAAACCGATAGATTTACTCGA
63 ATCATTAGAAATTTTGGTAAACCGATAGATTTACTCGA
* **
78937084 AAATTGATAGATATTTTGATAAATCCTTAGAAATGTTAGCAAGTCATTAGATATATTGGTAAATC
1 AAATTGATAGATATTTTGATAAATCCTTAGAAATATTAGCAAACCATTAGATATATTGGTAAATC
78937149 ATTAGAAATTTTGGTAAA
66 ATTAGAAATTTTGGTAAA
78937167 TCATTGAATA
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
100 31 0.43
101 3 0.04
102 38 0.53
ACGTcount: A:0.39, C:0.08, G:0.14, T:0.39
Consensus pattern (100 bp):
AAATTGATAGATATTTTGATAAATCCTTAGAAATATTAGCAAACCATTAGATATATTGGTAAATC
ATTAGAAATTTTGGTAAACCGATAGATTTACTCGA
Found at i:78937171 original size:40 final size:40
Alignment explanation
Indices: 78936870--78937205 Score: 202
Period size: 40 Copynumber: 8.4 Consensus size: 40
78936860 GGTAAATTGA
* * *
78936870 TAGAAATTTTAGTAAAACATTAGAAATTTTGATAAATCAT
1 TAGAAATTTTGGTAAATCATTAGAAATTTTGGTAAATCAT
* * * **
78936910 TTGATATTTCGGTAAA-CATTAGAAATTTTGGTAAATTGT
1 TAGAAATTTTGGTAAATCATTAGAAATTTTGGTAAATCAT
* * * * **
78936949 TAGATATCTTGATAAATCTTTAGAAATTTTGGTAAATTGT
1 TAGAAATTTTGGTAAATCATTAGAAATTTTGGTAAATCAT
* ** * * * *
78936989 TAGATATTTTTATAAATCCTTTA-AAATATTGGTAAACCGT
1 TAGAAATTTTGGTAAAT-CATTAGAAATTTTGGTAAATCAT
* * * *
78937029 TAGATATATATTGTTAAATCATTAGATATTTTGGTAAACCGA-
1 TAGA-A-ATTTTGGTAAATCATTAGAAATTTTGGTAAATC-AT
* * * * * *
78937071 TAG--ATTTACTCGAAAATTGA-TAGATATTTTGATAAATCCT
1 TAGAAATTT--TGGTAAA-TCATTAGAAATTTTGGTAAATCAT
* * * * * *
78937111 TAGAAATGTTAGCAAGTCATTAGATATATTGGTAAATCAT
1 TAGAAATTTTGGTAAATCATTAGAAATTTTGGTAAATCAT
78937151 TAGAAATTTTGGTAAATCATT-GAATATTTTGGTAAAGTCA-
1 TAGAAATTTTGGTAAATCATTAGAA-ATTTTGGTAAA-TCAT
78937191 TAGAAATTTTGGTAA
1 TAGAAATTTTGGTAA
78937206 TTGTTAAGAC
Statistics
Matches: 234, Mismatches: 47, Indels: 30
0.75 0.15 0.10
Matches are distributed among these distances:
38 3 0.01
39 36 0.15
40 153 0.65
41 14 0.06
42 28 0.12
ACGTcount: A:0.38, C:0.07, G:0.15, T:0.40
Consensus pattern (40 bp):
TAGAAATTTTGGTAAATCATTAGAAATTTTGGTAAATCAT
Found at i:78937292 original size:20 final size:20
Alignment explanation
Indices: 78937241--78937292 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
78937231 GAAATTTTGA
* *
78937241 AAATATTGGTAAAATCTTAT
1 AAATATTGGTAAAATCATAG
* *
78937261 AAATATTAGTAAAATGATAG
1 AAATATTGGTAAAATCATAG
*
78937281 AAATTTTGGTAA
1 AAATATTGGTAA
78937293 CTCATCAGAC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.48, C:0.02, G:0.13, T:0.37
Consensus pattern (20 bp):
AAATATTGGTAAAATCATAG
Found at i:78937742 original size:15 final size:15
Alignment explanation
Indices: 78937722--78937753 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
78937712 AAATCTAATT
78937722 TTATATTTTATTAAA
1 TTATATTTTATTAAA
78937737 TTATATTTTATTAAA
1 TTATATTTTATTAAA
78937752 TT
1 TT
78937754 TTAATTATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TTATATTTTATTAAA
Found at i:78938195 original size:16 final size:16
Alignment explanation
Indices: 78938156--78938195 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
78938146 CAACTCTTCC
78938156 CTTAAAGTTAACTTGA
1 CTTAAAGTTAACTTGA
*
78938172 GTTAAAGTTAACTTGA
1 CTTAAAGTTAACTTGA
*
78938188 CTTCAAGT
1 CTTAAAGT
78938196 CAAAAAGTGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (16 bp):
CTTAAAGTTAACTTGA
Found at i:78941044 original size:23 final size:23
Alignment explanation
Indices: 78941011--78941077 Score: 75
Period size: 23 Copynumber: 2.9 Consensus size: 23
78941001 TTCCCATTAC
*
78941011 ATGGCTCTTTGTGAGCTTCCTA-
1 ATGGCTTTTTGTGAGCTTCCTAT
78941033 ATAGGCTTTTTGTGAGCTTTCCTAT
1 AT-GGCTTTTTGTGAGC-TTCCTAT
*
78941058 ATGG-TTCTTTGTGAACTTCC
1 ATGGCTT-TTTGTGAGCTTCC
78941078 CGATTATGGC
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
22 2 0.05
23 19 0.49
24 16 0.41
25 2 0.05
ACGTcount: A:0.15, C:0.19, G:0.21, T:0.45
Consensus pattern (23 bp):
ATGGCTTTTTGTGAGCTTCCTAT
Found at i:78951606 original size:29 final size:29
Alignment explanation
Indices: 78951564--78951639 Score: 143
Period size: 29 Copynumber: 2.6 Consensus size: 29
78951554 GAAATCAAAA
*
78951564 ACTTAGTGCTCGATAGTTTTACTTCGCAC
1 ACTTAGTGCTCGATAATTTTACTTCGCAC
78951593 ACTTAGTGCTCGATAATTTTACTTCGCAC
1 ACTTAGTGCTCGATAATTTTACTTCGCAC
78951622 ACTTAGTGCTCGATAATT
1 ACTTAGTGCTCGATAATT
78951640 CATATATATA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 46 1.00
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (29 bp):
ACTTAGTGCTCGATAATTTTACTTCGCAC
Found at i:78968431 original size:48 final size:48
Alignment explanation
Indices: 78968356--78968672 Score: 325
Period size: 48 Copynumber: 6.6 Consensus size: 48
78968346 ATGGTAAATT
* *
78968356 GCCGATGCCATGTCCCTGACATGGTCTTACACTGGCTCACATATCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGAG
* * * * * *
78968404 GCCAATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTTTCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGAG
* *
78968452 GCCGATGCCATGTCCGAGACATGGTCTTACACTGGCTCTCATAAT-GCG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-ATCGAG
* * * * ** *
78968500 GCCGATGCCATGTCCGAGACATGGTTTTACACTAG-TGCACATATTAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-CTCATATCGAG
* * * * *
78968548 ACCGATGCCATGTCCCAGACATGGTCTTACACTGCCTCTCAAAAC-ATT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGA-G
* * * *
78968596 GCCGATGCCATGTTCCAAACGTGGTCTTACACTGGCTCTCATATCGTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGAG
* * *
78968644 GCCGACGCCATGTCCCAAATATGGTCTTA
1 GCCGATGCCATGTCCCAGACATGGTCTTA
78968673 TATTAGCACA
Statistics
Matches: 219, Mismatches: 44, Indels: 12
0.80 0.16 0.04
Matches are distributed among these distances:
47 4 0.02
48 213 0.97
49 2 0.01
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.27
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGAG
Found at i:78968621 original size:144 final size:144
Alignment explanation
Indices: 78968356--78968689 Score: 397
Period size: 144 Copynumber: 2.3 Consensus size: 144
78968346 ATGGTAAATT
* * * *
78968356 GCCGATGCCATGTCCCTGACATGGTCTTACACTGGCTCACATATCGAGGCCAATGCCATGTCCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAGACCAATGCCATGTCCCA
**** *
78968421 GACATGGTCTTACACTAGCTCTCGTTTCAATGCCGATGCCATGTCCGAGACATGGTCTTACACTG
66 GACATGGTCTTACACTAGCTCTCAAAACAATGCCGATGCCATGTCCGAAACATGGTCTTACACTG
78968486 GCTCTCATAAT-GCG
131 GCTCTCAT-ATCGCG
* * * * *
78968500 GCCGATGCCATGTCCGAGACATGGTTTTACACTAG-TGCACATATTAATACCGATGCCATGTCCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCT-CACATATCAAGACCAATGCCATGTCCC
* *
78968564 AGACATGGTCTTACACT-GCCTCTCAAAACATTGCCGATGCCATGTTCC-AAACGTGGTCTTACA
65 AGACATGGTCTTACACTAG-CTCTCAAAACAATGCCGATGCCATG-TCCGAAACATGGTCTTACA
*
78968627 CTGGCTCTCATATCGTG
128 CTGGCTCTCATATCGCG
* * * * * *
78968644 GCCGACGCCATGTCCCAAATATGGTCTTATATTAGCACACATATCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCA
78968690 CCCAAATGTC
Statistics
Matches: 159, Mismatches: 26, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
143 4 0.03
144 152 0.96
145 3 0.02
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (144 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAGACCAATGCCATGTCCCA
GACATGGTCTTACACTAGCTCTCAAAACAATGCCGATGCCATGTCCGAAACATGGTCTTACACTG
GCTCTCATATCGCG
Found at i:78976116 original size:5 final size:5
Alignment explanation
Indices: 78976106--78976131 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
78976096 TAACTTGTTC
78976106 TAAAA TAAAA TAAAA TAAAA TAAAA T
1 TAAAA TAAAA TAAAA TAAAA TAAAA T
78976132 GTATACATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (5 bp):
TAAAA
Found at i:78980472 original size:31 final size:31
Alignment explanation
Indices: 78980431--78980495 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
78980421 GACCAATCAT
*
78980431 ATGTGAGGGATCAGATCTATATCGGTGCAAC
1 ATGTGAGGGATCAGATCTATATCGGCGCAAC
* *
78980462 ATGTGTGGGATCAGATCTATATCGGCGTAAC
1 ATGTGAGGGATCAGATCTATATCGGCGCAAC
78980493 ATG
1 ATG
78980496 GACACGTGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (31 bp):
ATGTGAGGGATCAGATCTATATCGGCGCAAC
Found at i:78982735 original size:17 final size:17
Alignment explanation
Indices: 78982715--78982754 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
78982705 GTTGACCCAT
78982715 TTTTTCCGTTTTTAGTC
1 TTTTTCCGTTTTTAGTC
*
78982732 TTTTTCTGTTTTTAGTC
1 TTTTTCCGTTTTTAGTC
*
78982749 TGTTTC
1 TTTTTC
78982755 TCGCTCTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.05, C:0.15, G:0.12, T:0.68
Consensus pattern (17 bp):
TTTTTCCGTTTTTAGTC
Found at i:78994475 original size:17 final size:17
Alignment explanation
Indices: 78994449--78994489 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
78994439 AATAAACAAT
78994449 TAAA-TAAATT-GGAAA
1 TAAATTAAATTGGGAAA
78994464 TACAATTAAATTGGGAAA
1 TA-AATTAAATTGGGAAA
78994482 TAAATTAA
1 TAAATTAA
78994490 GATTTTGTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 2 0.09
16 2 0.09
17 12 0.52
18 7 0.30
ACGTcount: A:0.56, C:0.02, G:0.12, T:0.29
Consensus pattern (17 bp):
TAAATTAAATTGGGAAA
Found at i:78996594 original size:154 final size:154
Alignment explanation
Indices: 78996386--78996698 Score: 599
Period size: 154 Copynumber: 2.0 Consensus size: 154
78996376 TTTCAAATTT
*
78996386 AAATTAAATCAAATGTGTTCTTTTGCCCAATATTTTTGAATTTCAACCTCAACCACACAGTAATT
1 AAATTAAATCAAATGTGTTCTTTTGCCCAATATTTTCGAATTTCAACCTCAACCACACAGTAATT
78996451 CATACCCAATTAGCAAGTAACAATATCAGCATAATTCAAATCATAGATCATAAATTTCAAATCTA
66 CATACCCAATTAGCAAGTAACAATATCAGCATAATTCAAATCATAGATCATAAATTTCAAATCTA
78996516 AAAGTGCCAAGTATACCATATGAA
131 AAAGTGCCAAGTATACCATATGAA
*
78996540 AAATTAAATCAAATGTGTTCTTTTGCCCAATATTTTCGACTTTCAACCTCAACCACACAGTAATT
1 AAATTAAATCAAATGTGTTCTTTTGCCCAATATTTTCGAATTTCAACCTCAACCACACAGTAATT
*
78996605 CATACCCAATTAGCAAGTAACAATATCAGCATAATTCAAATCATAGATCATAAATTTTAAATCTA
66 CATACCCAATTAGCAAGTAACAATATCAGCATAATTCAAATCATAGATCATAAATTTCAAATCTA
78996670 AAAGTGCCAAGTATACCATATGAA
131 AAAGTGCCAAGTATACCATATGAA
78996694 AAATT
1 AAATT
78996699 GATTATTTAT
Statistics
Matches: 156, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
154 156 1.00
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (154 bp):
AAATTAAATCAAATGTGTTCTTTTGCCCAATATTTTCGAATTTCAACCTCAACCACACAGTAATT
CATACCCAATTAGCAAGTAACAATATCAGCATAATTCAAATCATAGATCATAAATTTCAAATCTA
AAAGTGCCAAGTATACCATATGAA
Found at i:78997170 original size:27 final size:26
Alignment explanation
Indices: 78997136--78997197 Score: 76
Period size: 23 Copynumber: 2.5 Consensus size: 26
78997126 TTAAAATCAC
78997136 CATTCATTTGCAAATTGGAATCACCAA
1 CATTCATTTGC-AATTGGAATCACCAA
* *
78997163 CATTCATTT---TTTGGAATCCCCAA
1 CATTCATTTGCAATTGGAATCACCAA
78997186 CATTCATTTGCA
1 CATTCATTTGCA
78997198 TTGCAAAATC
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
23 21 0.70
27 9 0.30
ACGTcount: A:0.31, C:0.24, G:0.10, T:0.35
Consensus pattern (26 bp):
CATTCATTTGCAATTGGAATCACCAA
Found at i:78997176 original size:23 final size:23
Alignment explanation
Indices: 78997150--78997194 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
78997140 CATTTGCAAA
78997150 TTGGAATCACCAACATTCATTTT
1 TTGGAATCACCAACATTCATTTT
*
78997173 TTGGAATCCCCAACATTCATTT
1 TTGGAATCACCAACATTCATTT
78997195 GCATTGCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.29, C:0.24, G:0.09, T:0.38
Consensus pattern (23 bp):
TTGGAATCACCAACATTCATTTT
Found at i:78997575 original size:26 final size:27
Alignment explanation
Indices: 78997546--78997623 Score: 117
Period size: 26 Copynumber: 3.0 Consensus size: 27
78997536 AGTTTTCATA
78997546 TATATTAAATAATAAAAAAAT-TATTT
1 TATATTAAATAATAAAAAAATATATTT
78997572 TATATTAAATAAT-AAAAAATATATTT
1 TATATTAAATAATAAAAAAATATATTT
*
78997598 TATATTAAATAA-ATAAAATATATATT
1 TATATTAAATAATA-AAAAAATATATT
78997624 AATTTTGCAT
Statistics
Matches: 48, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
25 7 0.15
26 30 0.62
27 11 0.23
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (27 bp):
TATATTAAATAATAAAAAAATATATTT
Found at i:79000436 original size:11 final size:12
Alignment explanation
Indices: 79000420--79000449 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
79000410 TAAAGTTTCA
79000420 AAAAAAATT-TG
1 AAAAAAATTCTG
79000431 AAAAAAATTCTG
1 AAAAAAATTCTG
79000443 AAAAAAA
1 AAAAAAA
79000450 AAAGTTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 9 0.50
12 9 0.50
ACGTcount: A:0.70, C:0.03, G:0.07, T:0.20
Consensus pattern (12 bp):
AAAAAAATTCTG
Found at i:79000436 original size:12 final size:12
Alignment explanation
Indices: 79000402--79000450 Score: 55
Period size: 13 Copynumber: 3.9 Consensus size: 12
79000392 TTCATTTCTA
79000402 TTGAAAAATAAAGT
1 TTGAAAAA-AAA-T
*
79000416 TTCAAAAAAAAT
1 TTGAAAAAAAAT
79000428 TTG-AAAAAAAT
1 TTGAAAAAAAAT
79000439 TCTGAAAAAAAA
1 T-TGAAAAAAAA
79000451 AAGTTAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
11 9 0.29
12 5 0.16
13 10 0.32
14 7 0.23
ACGTcount: A:0.63, C:0.04, G:0.08, T:0.24
Consensus pattern (12 bp):
TTGAAAAAAAAT
Found at i:79013454 original size:49 final size:48
Alignment explanation
Indices: 79013351--79013455 Score: 126
Period size: 48 Copynumber: 2.2 Consensus size: 48
79013341 ACACAGGTAG
* *
79013351 ACCACACGCCCGTGTCTATTTAATAGATTATAACACTGCCTAAGCCAC
1 ACCACACGACCGTGTCTATTTAACAGATTATAACACTGCCTAAGCCAC
*
79013399 ACCACACGACCGTGTCTATTTAGCAGACTCTA-AACAC-GACCTAAGCCAC
1 ACCACACGACCGTGTCTATTTAACAGA-T-TATAACACTG-CCTAAGCCAC
79013448 -CTCACACG
1 AC-CACACG
79013456 GGCGTGTCCC
Statistics
Matches: 50, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
48 26 0.52
49 22 0.44
50 2 0.04
ACGTcount: A:0.31, C:0.34, G:0.13, T:0.21
Consensus pattern (48 bp):
ACCACACGACCGTGTCTATTTAACAGATTATAACACTGCCTAAGCCAC
Found at i:79014955 original size:37 final size:37
Alignment explanation
Indices: 79014898--79014982 Score: 109
Period size: 37 Copynumber: 2.3 Consensus size: 37
79014888 TGTGAGTATG
* * *
79014898 TGTAAGACCACAGTTGGGCTATGGCATCGTAATGA-CA
1 TGTAAGACCATAGCTAGGCTATGGCATCGTAAT-ACCA
* *
79014935 TGTAAGACCATAGCTAGGCTATGGCATTGTGATACCA
1 TGTAAGACCATAGCTAGGCTATGGCATCGTAATACCA
79014972 TGTAAGACCAT
1 TGTAAGACCAT
79014983 GTCTGGCATT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
36 1 0.02
37 41 0.98
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.26
Consensus pattern (37 bp):
TGTAAGACCATAGCTAGGCTATGGCATCGTAATACCA
Found at i:79015057 original size:48 final size:48
Alignment explanation
Indices: 79014986--79015183 Score: 290
Period size: 48 Copynumber: 4.1 Consensus size: 48
79014976 AGACCATGTC
* *
79014986 TGGCATTGCCATCAATATGTGATCCCATGTAAGACCAAGTCTGGGACA
1 TGGCATTGGCATCGATATGTGATCCCATGTAAGACCAAGTCTGGGACA
*
79015034 TGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCTGGGACA
1 TGGCATTGGCATCGATATGTGATCCCATGTAAGACCAAGTCTGGGACA
* *
79015082 TGGCATTGGCATCGATATGTGATCCCATGTAAGACCATA-TCTAGGATA
1 TGGCATTGGCATCGATATGTGATCCCATGTAAGACCA-AGTCTGGGACA
* * ** *
79015130 CGGAATTGGCATCGATATGTGATTTCATGTAAGACCATGTCTGGGACA
1 TGGCATTGGCATCGATATGTGATCCCATGTAAGACCAAGTCTGGGACA
79015178 TGGCAT
1 TGGCAT
79015184 CGATATGAGA
Statistics
Matches: 133, Mismatches: 15, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
48 133 1.00
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (48 bp):
TGGCATTGGCATCGATATGTGATCCCATGTAAGACCAAGTCTGGGACA
Found at i:79015203 original size:42 final size:42
Alignment explanation
Indices: 79015136--79015226 Score: 121
Period size: 42 Copynumber: 2.2 Consensus size: 42
79015126 GATACGGAAT
* * *
79015136 TGGCATCGATATGTGATTTCATGTAAGACCATGTCTGGGAC-A
1 TGGCATCGATATGAGACTTCATGTAAGACCATAT-TGGGACTA
* *
79015178 TGGCATCGATATGAGACTTCGTGTAAGACCATATTTGGACTA
1 TGGCATCGATATGAGACTTCATGTAAGACCATATTGGGACTA
79015220 TGGCATC
1 TGGCATC
79015227 AAGTAAACGA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
41 5 0.12
42 38 0.88
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (42 bp):
TGGCATCGATATGAGACTTCATGTAAGACCATATTGGGACTA
Found at i:79021296 original size:6 final size:6
Alignment explanation
Indices: 79021285--79021389 Score: 81
Period size: 6 Copynumber: 17.0 Consensus size: 6
79021275 AACTTTGTGA
*
79021285 CAGAAT CAGAAT CA-AGT GACAGAAT CAGAAT CAGAAT CAGAAT CAGAAT
1 CAGAAT CAGAAT CAGAAT --CAGAAT CAGAAT CAGAAT CAGAAT CAGAAT
* * * * *
79021334 CAG-GT GACAGAAT TAGAAT CAAAAT CAGTAT CAGGTAA- CAGAAT CAAAAT
1 CAGAAT --CAGAAT CAGAAT CAGAAT CAGAAT CA-G-AAT CAGAAT CAGAAT
79021384 CAGAAT
1 CAGAAT
79021390 GTGAATGCAA
Statistics
Matches: 78, Mismatches: 12, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
5 5 0.06
6 61 0.78
7 8 0.10
8 4 0.05
ACGTcount: A:0.49, C:0.15, G:0.18, T:0.18
Consensus pattern (6 bp):
CAGAAT
Found at i:79021305 original size:19 final size:19
Alignment explanation
Indices: 79021281--79021355 Score: 100
Period size: 19 Copynumber: 4.0 Consensus size: 19
79021271 TAACAACTTT
79021281 GTGACAGAATCAGAATCAA
1 GTGACAGAATCAGAATCAA
79021300 GTGACAGAATCAGAATC-A
1 GTGACAGAATCAGAATCAA
* *
79021318 G-AATCAGAATCAGAATCAG
1 GTGA-CAGAATCAGAATCAA
*
79021337 GTGACAGAATTAGAATCAA
1 GTGACAGAATCAGAATCAA
79021356 AATCAGTATC
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
17 1 0.02
18 15 0.31
19 31 0.65
20 1 0.02
ACGTcount: A:0.47, C:0.15, G:0.21, T:0.17
Consensus pattern (19 bp):
GTGACAGAATCAGAATCAA
Found at i:79021335 original size:37 final size:37
Alignment explanation
Indices: 79021285--79021367 Score: 130
Period size: 37 Copynumber: 2.2 Consensus size: 37
79021275 AACTTTGTGA
*
79021285 CAGAATCAGAATCAAGTGACAGAATCAGAATCAGAAT
1 CAGAATCAGAATCAAGTGACAGAATCAGAATCAAAAT
* *
79021322 CAGAATCAGAATCAGGTGACAGAATTAGAATCAAAAT
1 CAGAATCAGAATCAAGTGACAGAATCAGAATCAAAAT
*
79021359 CAGTATCAG
1 CAGAATCAG
79021368 GTAACAGAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.47, C:0.16, G:0.19, T:0.18
Consensus pattern (37 bp):
CAGAATCAGAATCAAGTGACAGAATCAGAATCAAAAT
Found at i:79021389 original size:37 final size:36
Alignment explanation
Indices: 79021288--79021389 Score: 115
Period size: 31 Copynumber: 2.9 Consensus size: 36
79021278 TTTGTGACAG
* *
79021288 AATCAGAATCAAGTGACAGAATCAGAATCAGAATCAG
1 AATCAGAATCAGGTGACAGAATCA-AATCAGAATCAA
79021325 AATCAGAATCAGGTGACAGAAT----T-AGAATCAA
1 AATCAGAATCAGGTGACAGAATCAAATCAGAATCAA
* *
79021356 AATCAGTATCAGGTAACAGAATCAAAATCAGAAT
1 AATCAGAATCAGGTGACAGAATC-AAATCAGAAT
79021390 GTGAATGCAA
Statistics
Matches: 55, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
31 27 0.49
32 1 0.02
36 1 0.02
37 26 0.47
ACGTcount: A:0.49, C:0.15, G:0.18, T:0.19
Consensus pattern (36 bp):
AATCAGAATCAGGTGACAGAATCAAATCAGAATCAA
Found at i:79021556 original size:27 final size:26
Alignment explanation
Indices: 79021508--79021567 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
79021498 GCGAGGCTGC
*
79021508 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
79021535 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
79021561 CAGATAT
1 CAGATAT
79021568 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:79021612 original size:71 final size:67
Alignment explanation
Indices: 79021535--79021676 Score: 194
Period size: 67 Copynumber: 2.1 Consensus size: 67
79021525 TCACCAGATA
* * * *
79021535 CAGATATTGTGGCTAGGCCACCAGAACAGATATATATATGTGGCGAAGCCACCAGATTGCAGCGA
1 CAGATATTGTGACGAAGCCACCAGAACAG----ATATATGTGGCGAAGCCACCAGATTGCAACGA
79021600 GGCTGC
62 GGCTGC
* *
79021606 CAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAGGCCACCAGATTGCAACGAGGCT
1 CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTGCAACGAGGCT
79021671 GC
66 GC
79021673 CAGA
1 CAGA
79021677 ACGCTTCCCC
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
67 40 0.62
71 25 0.38
ACGTcount: A:0.31, C:0.23, G:0.28, T:0.18
Consensus pattern (67 bp):
CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTGCAACGAGGCT
GC
Done.