Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 48 of 444
Found at i:11557793 original size:94 final size:94
Alignment explanation
Indices: 11557695--11557912 Score: 332
Period size: 94 Copynumber: 2.3 Consensus size: 94
11557685 GAGTATGATG
* * * *
11557695 ATGACAAAGGCGACAACAACAGTTATTATTAGTGAAGATACAAGTATAAACCTTAAGTCTTATAA
1 ATGACAAAGACGACAACAACAATTATTATTAGTGAAGATACAAGTACAAACCTTAAGACTTATAA
11557760 CAACAAGAAAGGTCTATAAGAGTAGAACC
66 CAACAAGAAAGGTCTATAAGAGTAGAACC
* *
11557789 ATGACAAAGACGACAACAACAATTATTATTATTGAAGATACAAGTACAAACCTTAAGAGTTATAA
1 ATGACAAAGACGACAACAACAATTATTATTAGTGAAGATACAAGTACAAACCTTAAGACTTATAA
* *
11557854 CAAGAAGAAAGGTCTATAAGAGTAGGACC
66 CAACAAGAAAGGTCTATAAGAGTAGAACC
*
11557883 ATGACAACA-AC-ACAACAACAATTCTTATTA
1 ATGACAA-AGACGACAACAACAATTATTATTA
11557913 TAGGAATAGG
Statistics
Matches: 114, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
93 18 0.16
94 95 0.83
95 1 0.01
ACGTcount: A:0.47, C:0.16, G:0.15, T:0.22
Consensus pattern (94 bp):
ATGACAAAGACGACAACAACAATTATTATTAGTGAAGATACAAGTACAAACCTTAAGACTTATAA
CAACAAGAAAGGTCTATAAGAGTAGAACC
Found at i:11560517 original size:6 final size:6
Alignment explanation
Indices: 11560508--11560536 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
11560498 AGTACAATAT
11560508 ATATAA ATATAA ATATAA ATATAA ATATA
1 ATATAA ATATAA ATATAA ATATAA ATATA
11560537 TGCTCGTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (6 bp):
ATATAA
Found at i:11561901 original size:42 final size:42
Alignment explanation
Indices: 11561717--11562023 Score: 517
Period size: 43 Copynumber: 7.2 Consensus size: 42
11561707 GGAAAAAAAT
*
11561717 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGC
1 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGT-GGTAAAGC
11561760 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGTAGAAGC
1 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGTA-AAGC
11561803 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGTAGAAGC
1 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGTA-AAGC
11561846 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGTAAAGC
1 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGTAAAGC
*
11561888 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGC
1 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGT-GGTAAAGC
11561931 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGTAAAGC
1 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGTAAAGC
** *
11561973 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGCTTT-TTTTAAAAC
1 GCCGCTAAAGGTCAAGGCTTTTAGCGGCG-TTTGTGGTAAAGC
11562015 GCCGCTAAA
1 GCCGCTAAA
11562024 TTTGGCAGAT
Statistics
Matches: 255, Mismatches: 6, Indels: 7
0.95 0.02 0.03
Matches are distributed among these distances:
42 92 0.36
43 163 0.64
ACGTcount: A:0.22, C:0.20, G:0.33, T:0.25
Consensus pattern (42 bp):
GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGTAAAGC
Found at i:11561931 original size:85 final size:85
Alignment explanation
Indices: 11561717--11562001 Score: 543
Period size: 85 Copynumber: 3.3 Consensus size: 85
11561707 GGAAAAAAAT
11561717 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTT
1 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTT
11561782 AGCGGCGTTTGTGGTAGAAGC
66 AGCGGCGTTTGTGGTA-AAGC
* *
11561803 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGTAGAAGCGCCGCTAAAGGTCAAGGCTTTT
1 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTT
11561868 AGCGGCGTTTGTGGTAAAGC
66 AGCGGCGTTTGTGGTAAAGC
11561888 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTT
1 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTT
11561953 AGCGGCGTTTGTGGTAAAGC
66 AGCGGCGTTTGTGGTAAAGC
11561973 GCCGCTAAAGGTCAAGGCTTTTAGCGGCG
1 GCCGCTAAAGGTCAAGGCTTTTAGCGGCG
11562002 CTTTTTTTAA
Statistics
Matches: 195, Mismatches: 4, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
85 116 0.59
86 79 0.41
ACGTcount: A:0.22, C:0.19, G:0.34, T:0.25
Consensus pattern (85 bp):
GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTT
AGCGGCGTTTGTGGTAAAGC
Found at i:11562109 original size:31 final size:31
Alignment explanation
Indices: 11562074--11562140 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
11562064 CTTCCTGCAT
* *
11562074 TAAAATCCAACCAAATACAACAAATATAATA
1 TAAAATCCAACCAAAAACAACAAATATAACA
* * * *
11562105 TAAAATGCAGCCAAAAACAGCAAATTTAACA
1 TAAAATCCAACCAAAAACAACAAATATAACA
11562136 TAAAA
1 TAAAA
11562141 AATACAACCA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.60, C:0.18, G:0.04, T:0.18
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAACAAATATAACA
Found at i:11562152 original size:33 final size:31
Alignment explanation
Indices: 11562075--11562153 Score: 77
Period size: 31 Copynumber: 2.5 Consensus size: 31
11562065 TTCCTGCATT
* * *
11562075 AAAATCCAACCAAATACAACAAATATAATAT
1 AAAATACAACCAAAAACAACAAATATAATAA
* * * *
11562106 AAAATGCAGCCAAAAACAGCAAATTTAACATAA
1 AAAATACAACCAAAAACAACAAATAT-A-ATAA
11562139 AAAATACAACCAAAA
1 AAAATACAACCAAAA
11562154 TATTAATTCT
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
31 21 0.55
32 1 0.03
33 16 0.42
ACGTcount: A:0.62, C:0.19, G:0.04, T:0.15
Consensus pattern (31 bp):
AAAATACAACCAAAAACAACAAATATAATAA
Found at i:11562421 original size:21 final size:21
Alignment explanation
Indices: 11562397--11562442 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
11562387 GCTCGTGCCT
*
11562397 CTGCCTCTCTCGCTGCAGCCG
1 CTGCCTCCCTCGCTGCAGCCG
* * *
11562418 CTGCCTCCCTCTCTGCTGCCT
1 CTGCCTCCCTCGCTGCAGCCG
11562439 CTGC
1 CTGC
11562443 TCTAAGTTGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.02, C:0.50, G:0.20, T:0.28
Consensus pattern (21 bp):
CTGCCTCCCTCGCTGCAGCCG
Found at i:11568100 original size:9 final size:9
Alignment explanation
Indices: 11568086--11568292 Score: 116
Period size: 9 Copynumber: 22.6 Consensus size: 9
11568076 TATTTAAGTA
11568086 TTATGTAAG
1 TTATGTAAG
*
11568095 TTATGTAAT
1 TTATGTAAG
*
11568104 TTATGATATG
1 TTATG-TAAG
* * *
11568114 ATATAT-AT
1 TTATGTAAG
*
11568122 TTATGTAAA
1 TTATGTAAG
* *
11568131 TTATAT-AT
1 TTATGTAAG
*
11568139 TTATCTAAG
1 TTATGTAAG
11568148 TTATGTAAG
1 TTATGTAAG
*
11568157 TTATGTAAA
1 TTATGTAAG
*
11568166 TTATGATATAAAA
1 TTATG---T-AAG
*
11568179 TATATTTAAG
1 T-TATGTAAG
11568189 TATTATGTAAG
1 --TTATGTAAG
11568200 TTATGTAAG
1 TTATGTAAG
* *
11568209 TTATAT-AT
1 TTATGTAAG
*
11568217 TTATCTAAG
1 TTATGTAAG
*
11568226 TTATATAAG
1 TTATGTAAG
*
11568235 TTATGTATG
1 TTATGTAAG
*
11568244 TTATATAAG
1 TTATGTAAG
11568253 TTATGTAAG
1 TTATGTAAG
* *
11568262 TTATATATG
1 TTATGTAAG
*
11568271 TTATATAAG
1 TTATGTAAG
*
11568280 -TATGTAAA
1 TTATGTAAG
11568288 TTATG
1 TTATG
11568293 ATATCAAATA
Statistics
Matches: 152, Mismatches: 34, Indels: 24
0.72 0.16 0.11
Matches are distributed among these distances:
8 22 0.14
9 106 0.70
10 7 0.05
11 8 0.05
12 2 0.01
13 4 0.03
14 3 0.02
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:11568157 original size:62 final size:63
Alignment explanation
Indices: 11568086--11568323 Score: 222
Period size: 62 Copynumber: 3.9 Consensus size: 63
11568076 TATTTAAGTA
* * * * * *
11568086 TTATGTAAGTTATGTAATTTATGATATGATATATATTTATGTAAATTATAT-ATTTATCTAAG
1 TTATATAAGTTATGTAAATTATGATATGAAATATATTTATGTAAATTATGTAAGTTATATAAG
* * * *
11568148 TTATGTAAGTTATGTAAATTATGATATAAAATATATTTAAGT--ATTATGTAAGTTATGTAAG
1 TTATATAAGTTATGTAAATTATGATATGAAATATATTTATGTAAATTATGTAAGTTATATAAG
* * * * ** * * * *
11568209 TTATAT-ATTTATCTAAGTTAT-ATAAGTTATGTATGTTATATAAGTTATGTAAGTTATATATG
1 TTATATAAGTTATGTAAATTATGATATGAAATATAT-TTATGTAAATTATGTAAGTTATATAAG
*
11568271 TTATATAAG-TATGTAAATTATGATATCAAATATATTTATGT--ATTATGTAAGTT
1 TTATATAAGTTATGTAAATTATGATATGAAATATATTTATGTAAATTATGTAAGTT
11568324 TTTTATTTCA
Statistics
Matches: 139, Mismatches: 31, Indels: 14
0.76 0.17 0.08
Matches are distributed among these distances:
59 8 0.06
60 33 0.24
61 14 0.10
62 75 0.54
63 9 0.06
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.48
Consensus pattern (63 bp):
TTATATAAGTTATGTAAATTATGATATGAAATATATTTATGTAAATTATGTAAGTTATATAAG
Found at i:11568207 original size:105 final size:105
Alignment explanation
Indices: 11568062--11568265 Score: 286
Period size: 105 Copynumber: 1.9 Consensus size: 105
11568052 ACTAGTTATG
* * * *
11568062 TATGATATGATATATATTTAAGTATTATGTAAGTTATGTAATTTATGATATGATATAT-ATTTAT
1 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTAT-ATAT-ATATATAAGTTAT
* *
11568126 GTAAATTATATAT-TTATCTAAGTTATGTAAGTTATGTAAAT
64 ATAAATTATATATGTTATATAAGTTATGTAAGTTATGTAAAT
* *
11568167 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATATATTTATCTAAGTTATAT
1 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATATATATATATAAGTTATAT
* *
11568232 AAGTTATGTATGTTATATAAGTTATGTAAGTTAT
66 AAATTATATATGTTATATAAGTTATGTAAGTTAT
11568266 ATATGTTATA
Statistics
Matches: 87, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
103 4 0.05
104 19 0.22
105 64 0.74
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.48
Consensus pattern (105 bp):
TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATATATATATATAAGTTATAT
AAATTATATATGTTATATAAGTTATGTAAGTTATGTAAAT
Found at i:11568255 original size:27 final size:27
Alignment explanation
Indices: 11568086--11568296 Score: 143
Period size: 26 Copynumber: 8.0 Consensus size: 27
11568076 TATTTAAGTA
* *
11568086 TTATGTAAGTTATGTAATTTATGATATG
1 TTATATAAGTTATGTAAGTTAT-ATATG
* * *
11568114 ATATAT-ATTTATGTAAATTATATAT-
1 TTATATAAGTTATGTAAGTTATATATG
* * **
11568139 TTATCTAAGTTATGTAAGTTATGTAAA
1 TTATATAAGTTATGTAAGTTATATATG
* ** *
11568166 TTATGAT-A-TAAAATATA-TT-TA-AGTA
1 TTAT-ATAAGTTATGTA-AGTTATATA-TG
* *
11568191 TTATGTAAGTTATGTAAGTTATATATT
1 TTATATAAGTTATGTAAGTTATATATG
* * *
11568218 -TATCTAAGTTATATAAGTTATGTATG
1 TTATATAAGTTATGTAAGTTATATATG
11568244 TTATATAAGTTATGTAAGTTATATATG
1 TTATATAAGTTATGTAAGTTATATATG
*
11568271 TTATATAAG-TATGTAAATTATGATAT
1 TTATATAAGTTATGTAAGTTAT-ATAT
11568297 CAAATATATT
Statistics
Matches: 142, Mismatches: 29, Indels: 25
0.72 0.15 0.13
Matches are distributed among these distances:
24 2 0.01
25 12 0.08
26 64 0.45
27 58 0.41
28 6 0.04
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.48
Consensus pattern (27 bp):
TTATATAAGTTATGTAAGTTATATATG
Found at i:11568292 original size:53 final size:52
Alignment explanation
Indices: 11568191--11568292 Score: 143
Period size: 53 Copynumber: 1.9 Consensus size: 52
11568181 TATTTAAGTA
* *
11568191 TTATGTAAGTTATGTAAGTTATATAT-TTATCTAAGTTATATAAGTTATGTAT
1 TTATGTAAGTTATGTAAGTTATATATGTTATATAAG-TATATAAATTATGTAT
* *
11568243 GTTATATAAGTTATGTAAGTTATATATGTTATATAAGTATGTAAATTATG
1 -TTATGTAAGTTATGTAAGTTATATATGTTATATAAGTATATAAATTATG
11568293 ATATCAAATA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
53 36 0.82
54 8 0.18
ACGTcount: A:0.36, C:0.01, G:0.15, T:0.48
Consensus pattern (52 bp):
TTATGTAAGTTATGTAAGTTATATATGTTATATAAGTATATAAATTATGTAT
Found at i:11568303 original size:27 final size:27
Alignment explanation
Indices: 11568196--11568312 Score: 69
Period size: 27 Copynumber: 4.4 Consensus size: 27
11568186 AAGTATTATG
* ** *
11568196 TAAGTTATGTAAGTTATATAT-TTATC
1 TAAGTTATGTAAATTATATATCAAATA
* * * ***
11568222 TAAGTTATATAAGTTATGTATGTTATA
1 TAAGTTATGTAAATTATATATCAAATA
* ***
11568249 TAAGTTATGTAAGTTATATATGTTATA
1 TAAGTTATGTAAATTATATATCAAATA
11568276 TAAG-TATGTAAATTATGATATCAAATA
1 TAAGTTATGTAAATTAT-ATATCAAATA
*
11568303 T-ATTTATGTA
1 TAAGTTATGTA
11568313 TTATGTAAGT
Statistics
Matches: 78, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
26 31 0.40
27 47 0.60
ACGTcount: A:0.38, C:0.02, G:0.13, T:0.47
Consensus pattern (27 bp):
TAAGTTATGTAAATTATATATCAAATA
Found at i:11568417 original size:15 final size:15
Alignment explanation
Indices: 11568397--11568452 Score: 73
Period size: 15 Copynumber: 3.8 Consensus size: 15
11568387 AAGTAGCGGG
11568397 ATTAAATAATATTTA
1 ATTAAATAATATTTA
11568412 ATTAAATAATATTT-
1 ATTAAATAATATTTA
11568426 A-TAAA-AATTATTTTA
1 ATTAAATAA-TA-TTTA
11568441 ATTAAATAATAT
1 ATTAAATAATAT
11568453 ACATGTCGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
12 2 0.06
13 6 0.17
14 4 0.11
15 16 0.44
16 6 0.17
17 2 0.06
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
ATTAAATAATATTTA
Found at i:11568660 original size:24 final size:23
Alignment explanation
Indices: 11568628--11568677 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 23
11568618 ACTTAAATGG
*
11568628 TAAAACGGACGATAATATTTCTAA
1 TAAAACGGACGAGAATATTTC-AA
11568652 TAAAACGGACGAGAATATTTCAA
1 TAAAACGGACGAGAATATTTCAA
11568675 TAA
1 TAA
11568678 TAATTTAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 5 0.20
24 20 0.80
ACGTcount: A:0.48, C:0.12, G:0.14, T:0.26
Consensus pattern (23 bp):
TAAAACGGACGAGAATATTTCAA
Found at i:11569986 original size:370 final size:371
Alignment explanation
Indices: 11568759--11570039 Score: 2530
Period size: 370 Copynumber: 3.5 Consensus size: 371
11568749 AATTGAAACA
11568759 TTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTG
1 TTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTG
11568824 CAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAA
66 CAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAA
11568889 AATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTGATAAAAAGTATTATAACTTTTAAAG
131 AATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTGATAAAAAGTATTATAACTTTTAAAG
11568954 AAATTTAAAAATATTAAATATTAAAATAAAACATTATTAATAT-AAAAAATAGTAATTTGAATAT
196 AAATTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAAATAGTAATTTGAATAT
11569018 AATAATATAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATAT
261 AATAATATAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATAT
11569083 AAATATTCAATAGTAAATGAGCTCGATACAACTTTTTTCAAGTCTT
326 AAATATTCAATAGTAAATGAGCTCGATACAACTTTTTTCAAGTCTT
11569129 TTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTG
1 TTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTG
11569194 CAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAA
66 CAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAA
11569259 AATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTGATAAAAAGTAATTATAACTTTTAAA
131 AATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTGATAAAAAGT-ATTATAACTTTTAAA
11569324 GAAATTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAAATAGTAATTTGAATA
195 GAAATTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAAATAGTAATTTGAATA
11569389 TAATAATATAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATA
260 TAATAATATAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATA
11569454 TAAATATTCAATAGTAAATGAGCTCGATACAACTTTTTTCAAGTCTT
325 TAAATATTCAATAGTAAATGAGCTCGATACAACTTTTTTCAAGTCTT
11569501 TTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTG
1 TTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTG
11569566 CAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAA
66 CAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAA
11569631 AATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTGAT-AAAAGTATTATAACTTTTAAAG
131 AATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTGATAAAAAGTATTATAACTTTTAAAG
11569695 AAATTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAAATAGTAATTTGAATAT
196 AAATTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAAATAGTAATTTGAATAT
11569760 AATAATATAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATAT
261 AATAATATAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATAT
11569825 AAATATTCAATAGTAAATGAGCTCGATACAACTTTTTTCAAGTCTT
326 AAATATTCAATAGTAAATGAGCTCGATACAACTTTTTTCAAGTCTT
11569871 TTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTG
1 TTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTG
11569936 CAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAA
66 CAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAA
*
11570001 AATAAGGTTGGAGAGAAAGTCAGCTATTGTTGTAATTTT
131 AATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTT
11570040 AATGGACAAG
Statistics
Matches: 908, Mismatches: 1, Indels: 4
0.99 0.00 0.00
Matches are distributed among these distances:
370 539 0.59
371 65 0.07
372 304 0.33
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.36
Consensus pattern (371 bp):
TTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTG
CAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAA
AATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTGATAAAAAGTATTATAACTTTTAAAG
AAATTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAAATAGTAATTTGAATAT
AATAATATAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATAT
AAATATTCAATAGTAAATGAGCTCGATACAACTTTTTTCAAGTCTT
Found at i:11571094 original size:21 final size:21
Alignment explanation
Indices: 11571068--11571107 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
11571058 ACACTAATTC
*
11571068 ATACTTAAGTTGAATCAAATA
1 ATACTTAAGTTGAACCAAATA
11571089 ATACTTAAGTTGAACCAAA
1 ATACTTAAGTTGAACCAAA
11571108 ACATAAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.12, G:0.10, T:0.30
Consensus pattern (21 bp):
ATACTTAAGTTGAACCAAATA
Found at i:11574981 original size:131 final size:131
Alignment explanation
Indices: 11574748--11575058 Score: 383
Period size: 131 Copynumber: 2.4 Consensus size: 131
11574738 GTAAAACCGA
* * * * * *
11574748 AACCCAGCACAGTAGGGCACGATTCCTCGAATTTCTAAACATCAAGCATTGCCTTGTTTTTAGAA
1 AACCCAGCACAATAGGGCACGATTCCCCGAATTGCCAAACATCAAACATTACCTTGTTTTTAGAA
* * *
11574813 TTTTTAAGAAACATGAGTGAAATTCTAAAGGGGATATTCGATTATTTTGAACCAACAGGAAATCG
66 TCTTTAAGAAACATGAGTGAAATTCCAAAGGGAATATTCGATTATTTTGAACCAACAGGAAATCG
11574878 C
131 C
11574879 AACCCAGCACAATAGGGCACGATTCCCCGAATTGCCAAACATCAAACATTACCTTCGTTTTATAG
1 AACCCAGCACAATAGGGCACGATTCCCCGAATTGCCAAACATCAAACATTACCTT-GTTTT-TAG
* * * * ** *
11574944 AATCTTTAA-AGACATGGGTGAAATTCCATA-GGAATATTCGATTGTTTTGAAGGAACGGGAAAT
64 AATCTTTAAGAAACATGAGTGAAATTCCAAAGGGAATATTCGATTATTTTGAACCAACAGGAAAT
11575007 CGC
129 CGC
* * * * * * *
11575010 AACCTAGCACGATAGGGTACGATTTCGCGAATTGCCAAATATCGAACAT
1 AACCCAGCACAATAGGGCACGATTCCCCGAATTGCCAAACATCAAACAT
11575059 CGCCTTCACT
Statistics
Matches: 155, Mismatches: 23, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
131 122 0.79
132 22 0.14
133 11 0.07
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (131 bp):
AACCCAGCACAATAGGGCACGATTCCCCGAATTGCCAAACATCAAACATTACCTTGTTTTTAGAA
TCTTTAAGAAACATGAGTGAAATTCCAAAGGGAATATTCGATTATTTTGAACCAACAGGAAATCG
C
Found at i:11576339 original size:64 final size:64
Alignment explanation
Indices: 11576266--11576476 Score: 151
Period size: 64 Copynumber: 3.2 Consensus size: 64
11576256 CTGGGCCAGA
*
11576266 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
* * * *** * ** *
11576330 GCCCATTTCAAAATAC-ATGCAACATCAGTAAACATATGCAAGCCC--ATTTGGGTAACAGTGGT
1 GCCCATTTCAGATTACAAT--AA-A-CTG-GGCCTTA-GC---CCCTTATTCAGATAACA---GT
* *
11576392 ACTGGGCCAGA-
54 A-TGGCCCATAG
*
11576403 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
11576467 GCCCATTTCA
1 GCCCATTTCA
11576477 AAATACATGC
Statistics
Matches: 103, Mismatches: 27, Indels: 34
0.63 0.16 0.21
Matches are distributed among these distances:
63 9 0.09
64 25 0.24
65 5 0.05
66 1 0.01
67 11 0.11
68 5 0.05
69 5 0.05
70 11 0.11
71 1 0.01
72 5 0.05
73 16 0.16
74 9 0.09
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (64 bp):
GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
Found at i:11576478 original size:137 final size:137
Alignment explanation
Indices: 11576232--11576518 Score: 556
Period size: 137 Copynumber: 2.1 Consensus size: 137
11576222 TATTGGGCCT
**
11576232 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
11576297 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
11576362 CATATGC
131 CATATGC
11576369 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
11576434 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
11576499 CATATGC
131 CATATGC
11576506 AAGCCCATTTGGG
1 AAGCCCATTTGGG
11576519 GAGACTACTC
Statistics
Matches: 148, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
137 148 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.24
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:11576802 original size:25 final size:26
Alignment explanation
Indices: 11576765--11576816 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
11576755 TCAAACATGC
11576765 ATTTAGGTCAATTTA-ACCCTAGGGGT
1 ATTTAGGTCAATTTACA-CCTAGGGGT
* *
11576791 ATTTCGGT-AATTTTCACCTAGGGGT
1 ATTTAGGTCAATTTACACCTAGGGGT
11576816 A
1 A
11576817 AACGTAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 15 0.65
26 8 0.35
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.37
Consensus pattern (26 bp):
ATTTAGGTCAATTTACACCTAGGGGT
Found at i:11578315 original size:26 final size:26
Alignment explanation
Indices: 11578279--11578414 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
11578269 ACATGAATTC
11578279 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
11578305 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
11578331 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
11578357 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
11578383 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
11578409 TTATCA
1 TTATCA
11578415 ATTTGTATCA
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:11582235 original size:26 final size:27
Alignment explanation
Indices: 11582199--11582253 Score: 94
Period size: 26 Copynumber: 2.1 Consensus size: 27
11582189 ATTAAAGAAG
*
11582199 TCAGAAGTGATGTCATGTC-AACTTTA
1 TCAGAAGTGATGTCATCTCAAACTTTA
11582225 TCAGAAGTGATGTCATCTCAAACTTTA
1 TCAGAAGTGATGTCATCTCAAACTTTA
11582252 TC
1 TC
11582254 GTTTTTAGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
26 18 0.67
27 9 0.33
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (27 bp):
TCAGAAGTGATGTCATCTCAAACTTTA
Found at i:11582770 original size:23 final size:24
Alignment explanation
Indices: 11582744--11582789 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
11582734 GTTGTAGCAA
11582744 TCAAACATTGATAA-TAAATTATG
1 TCAAACATTGATAACTAAATTATG
*
11582767 TCAAACATTGATAACTAACTTAT
1 TCAAACATTGATAACTAAATTAT
11582790 TGCTCACATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 14 0.67
24 7 0.33
ACGTcount: A:0.46, C:0.13, G:0.07, T:0.35
Consensus pattern (24 bp):
TCAAACATTGATAACTAAATTATG
Found at i:11586553 original size:32 final size:32
Alignment explanation
Indices: 11586517--11586581 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
11586507 TGTATGCATT
11586517 TTAGCATTTTAATAGTTAATGAATGATGGGCA
1 TTAGCATTTTAATAGTTAATGAATGATGGGCA
*
11586549 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGAATGATGGGCA
11586581 T
1 T
11586582 GATAAGCATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.32, C:0.06, G:0.23, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGAATGATGGGCA
Found at i:11588609 original size:137 final size:137
Alignment explanation
Indices: 11588363--11588649 Score: 547
Period size: 137 Copynumber: 2.1 Consensus size: 137
11588353 GAGTAGTCTC
11588363 CCCAAATGGGCTTGCATATGTTTACTAATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTAATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
11588428 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTAGCCCAGTACC
11588493 ACTGTTA
131 ACTGTTA
*
11588500 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTAATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
11588565 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTAGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTAGCCCAGTACC
11588630 ACTGTTA
131 ACTGTTA
*
11588637 CCTAAATGGGCTT
1 CCCAAATGGGCTT
11588650 AGGCCCAATG
Statistics
Matches: 147, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
137 147 1.00
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.31
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTAATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTAGCCCAGTACC
ACTGTTA
Found at i:11591206 original size:19 final size:22
Alignment explanation
Indices: 11591167--11591206 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
11591157 AGAAACCCAA
11591167 CCATATCCAACCGTATACACCC
1 CCATATCCAACCGTATACACCC
11591189 CCATA-CCAACC-T-TACACC
1 CCATATCCAACCGTATACACC
11591207 GTGTGGGGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.33, C:0.47, G:0.03, T:0.17
Consensus pattern (22 bp):
CCATATCCAACCGTATACACCC
Found at i:11591305 original size:27 final size:26
Alignment explanation
Indices: 11591268--11591382 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 26
11591258 AGCATGGCTG
* *
11591268 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
11591294 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
11591322 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
11591349 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
11591376 CCAGAAC
1 CCAGAAC
11591383 GCTTCCTCCA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
26 5 0.06
27 58 0.73
28 17 0.21
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:11591327 original size:54 final size:54
Alignment explanation
Indices: 11591268--11591382 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
11591258 AGCATGGCTG
*
11591268 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
11591322 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
11591376 CCAGAAC
1 CCAGAAC
11591383 GCTTCCTCCA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:11593027 original size:26 final size:26
Alignment explanation
Indices: 11592991--11593100 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
11592981 CATGAAATTC
11592991 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
11593017 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
11593043 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
11593069 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
11593095 TTATCA
1 TTATCA
11593101 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:11596942 original size:19 final size:22
Alignment explanation
Indices: 11596903--11596942 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
11596893 AGAAACCCAA
11596903 CCATATCCAACCGTATACACCC
1 CCATATCCAACCGTATACACCC
11596925 CCATA-CCAACC-T-TACACC
1 CCATATCCAACCGTATACACC
11596943 GTGTGGGGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.33, C:0.47, G:0.03, T:0.17
Consensus pattern (22 bp):
CCATATCCAACCGTATACACCC
Found at i:11597041 original size:27 final size:26
Alignment explanation
Indices: 11597004--11597118 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 26
11596994 AGCATGGCTG
* *
11597004 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
11597030 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
11597058 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
11597085 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
11597112 CCAGAAC
1 CCAGAAC
11597119 GCTTCCTCCA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
26 5 0.06
27 58 0.73
28 17 0.21
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:11597063 original size:54 final size:54
Alignment explanation
Indices: 11597004--11597118 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
11596994 AGCATGGCTG
*
11597004 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
11597058 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
11597112 CCAGAAC
1 CCAGAAC
11597119 GCTTCCTCCA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:11598762 original size:26 final size:26
Alignment explanation
Indices: 11598726--11598835 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
11598716 CATGAAATTC
11598726 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
11598752 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
11598778 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
11598804 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
11598830 TTATCA
1 TTATCA
11598836 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:11600502 original size:27 final size:26
Alignment explanation
Indices: 11600467--11600528 Score: 61
Period size: 26 Copynumber: 2.3 Consensus size: 26
11600457 TTTTATTAAA
* * *
11600467 ATACGCCTAAGTATGAAAATTATCGTT
1 ATACCCCTAAGTAT-AAAATGACCGTT
* * *
11600494 TTACCCCTAGGTGTAAAATGACCGTT
1 ATACCCCTAAGTATAAAATGACCGTT
11600520 ATACCCCTA
1 ATACCCCTA
11600529 GGGTTAATTT
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
26 18 0.64
27 10 0.36
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.31
Consensus pattern (26 bp):
ATACCCCTAAGTATAAAATGACCGTT
Found at i:11605828 original size:59 final size:59
Alignment explanation
Indices: 11605762--11605898 Score: 147
Period size: 58 Copynumber: 2.3 Consensus size: 59
11605752 CCAACTGTGT
11605762 TGATATGGGCAAGGCCCAATATA-TCTCG-ACTTGTAATAGGGCTACGGCCCAGATT-ATAC
1 TGATATGGGCAAGGCCCAATATACTCT-GTAC-TGTAA-AGGGCTACGGCCCAGATTAATAC
* * * * * *
11605821 TGATAT-GGCTAGGCCCAGTATACTCTGTTACTGTAAGGGGTTATGGCCCAGATTAATAT
1 TGATATGGGCAAGGCCCAATATACTCTG-TACTGTAAAGGGCTACGGCCCAGATTAATAC
11605880 TGATATGGGCTAAGGCCCA
1 TGATATGGGC-AAGGCCCA
11605899 GTTAACACTA
Statistics
Matches: 65, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
58 30 0.46
59 23 0.35
60 5 0.08
61 7 0.11
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.28
Consensus pattern (59 bp):
TGATATGGGCAAGGCCCAATATACTCTGTACTGTAAAGGGCTACGGCCCAGATTAATAC
Found at i:11607373 original size:26 final size:26
Alignment explanation
Indices: 11607344--11607451 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
11607334 TGGTACAAAT
11607344 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
11607370 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
11607396 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
11607422 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
11607448 TGAT
1 TGAT
11607452 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:11612012 original size:16 final size:16
Alignment explanation
Indices: 11611976--11612022 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
11611966 AGAATTTTTA
11611976 TTTAGCTTTGT-ATTCAG
1 TTTAGCTTT-TCATT-AG
*
11611993 TTTAGTTTTTCATTAG
1 TTTAGCTTTTCATTAG
11612009 TTTAGCTTTTCATT
1 TTTAGCTTTTCATT
11612023 TTATTTCGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
16 16 0.59
17 11 0.41
ACGTcount: A:0.17, C:0.11, G:0.13, T:0.60
Consensus pattern (16 bp):
TTTAGCTTTTCATTAG
Found at i:11613168 original size:22 final size:22
Alignment explanation
Indices: 11613142--11613186 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
11613132 ATTATGTGTA
11613142 TTAATTCATAATATAA-TTAATT
1 TTAATT-ATAATATAATTTAATT
* *
11613164 TTAATTTTAATCTAATTTAATT
1 TTAATTATAATATAATTTAATT
11613186 T
1 T
11613187 GGGTTAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (22 bp):
TTAATTATAATATAATTTAATT
Found at i:11614902 original size:23 final size:23
Alignment explanation
Indices: 11614874--11614941 Score: 111
Period size: 23 Copynumber: 3.0 Consensus size: 23
11614864 AAATTAAATA
*
11614874 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTGCAAAATCATATCT
11614897 TCTAAGATTGCAAAATCATATCT
1 TCTAAGATTGCAAAATCATATCT
*
11614920 TCTAAGATTGC-ATATCATATCT
1 TCTAAGATTGCAAAATCATATCT
11614942 AAGATTGTAA
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
22 10 0.23
23 33 0.77
ACGTcount: A:0.38, C:0.18, G:0.07, T:0.37
Consensus pattern (23 bp):
TCTAAGATTGCAAAATCATATCT
Found at i:11614935 original size:17 final size:19
Alignment explanation
Indices: 11614897--11615042 Score: 196
Period size: 19 Copynumber: 7.8 Consensus size: 19
11614887 AATCATATCT
*
11614897 TCTAAGATTGCAAAATCATA
1 TCTAAGATTGC-ATATCATA
11614917 TCTTCTAAGATTGCATATCATA
1 ---TCTAAGATTGCATATCATA
*
11614939 TCTAAGATTGTA-ATCATA
1 TCTAAGATTGCATATCATA
11614957 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
11614974 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
11614993 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
11615011 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
11615028 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
11615043 TGAAGATTAT
Statistics
Matches: 115, Mismatches: 2, Indels: 16
0.86 0.02 0.12
Matches are distributed among these distances:
17 32 0.28
18 32 0.28
19 33 0.29
22 7 0.06
23 11 0.10
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:11614989 original size:14 final size:15
Alignment explanation
Indices: 11614934--11615042 Score: 85
Period size: 17 Copynumber: 6.4 Consensus size: 15
11614924 AGATTGCATA
11614934 TCATATCTAAGATTG
1 TCATATCTAAGATTG
11614949 TAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
11614967 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
11614984 CATATCATATCTAAGATTG
1 ----TCATATCTAAGATTG
11615003 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
11615021 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
11615038 -CATAT
1 TCATAT
11615043 TGAAGATTAT
Statistics
Matches: 85, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
14 5 0.06
17 32 0.38
18 31 0.36
19 17 0.20
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.39
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:11614996 original size:54 final size:54
Alignment explanation
Indices: 11614920--11615042 Score: 237
Period size: 54 Copynumber: 2.3 Consensus size: 54
11614910 AATCATATCT
*
11614920 TCTAAGATTGCATATCATATCTAAGATTGTAATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
11614974 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
11615028 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
11615043 TGAAGATTAT
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
54 68 1.00
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (54 bp):
TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
Found at i:11615039 original size:35 final size:35
Alignment explanation
Indices: 11614920--11615039 Score: 188
Period size: 35 Copynumber: 3.3 Consensus size: 35
11614910 AATCATATCT
11614920 TCTAAGATTGCATATCATATCTAAGATTGTAATCATA
1 TCTAAGATTGCA-ATCATATCTAAGATTGT-ATCATA
*
11614957 TCTAAGATTG-TATCATATCTAAGATTGCATATCATA
1 TCTAAGATTGCAATCATATCTAAGATTG--TATCATA
11614993 TCTAAGATTGCAATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCAATCATATCTAAGATTGTATCATA
11615028 TCTAAGATTGCA
1 TCTAAGATTGCA
11615040 TATTGAAGAT
Statistics
Matches: 78, Mismatches: 2, Indels: 8
0.89 0.02 0.09
Matches are distributed among these distances:
35 35 0.45
36 16 0.21
37 27 0.35
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.38
Consensus pattern (35 bp):
TCTAAGATTGCAATCATATCTAAGATTGTATCATA
Found at i:11615654 original size:41 final size:41
Alignment explanation
Indices: 11615609--11615740 Score: 119
Period size: 41 Copynumber: 3.1 Consensus size: 41
11615599 CGGAGACGCT
11615609 AAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAGCC
1 AAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAGCC
* ** * *
11615650 AAATCAGCTGTCTTCA-ATTTGC-TC-CCTGCCAATAC-AGAAACGCC
1 AAATCA----TCTT-AGATTTGCTTCAAC-GTAAACACGTGAAA-GCC
*
11615694 AAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAACC
1 AAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAGCC
11615735 AAATCA
1 AAATCA
11615741 GCTATGTCCT
Statistics
Matches: 69, Mismatches: 11, Indels: 22
0.68 0.11 0.22
Matches are distributed among these distances:
39 1 0.01
40 10 0.14
41 21 0.30
42 5 0.07
43 5 0.07
44 16 0.23
45 10 0.14
46 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.13, T:0.26
Consensus pattern (41 bp):
AAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAGCC
Found at i:11615808 original size:87 final size:87
Alignment explanation
Indices: 11615580--11615958 Score: 566
Period size: 87 Copynumber: 4.4 Consensus size: 87
11615570 TGTTATCTTT
* * * * * *
11615580 GATCTGTTCTCTGACAATACGGAGACGCTAAATCATCTTAGATTTGCTTCAACGTAAACACGTGA
1 GATCTGCTCCCTGCCAATACAGAGACACCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGA
* *
11615645 AAGCCAAATCAGC--TGTCTTC
66 AAACCAAATCAGCTATGTCCTC
* * * *
11615665 AATTTGCTCCCTGCCAATACAGAAACGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGA
1 GATCTGCTCCCTGCCAATACAGAGACACCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGA
11615730 AAACCAAATCAGCTATGTCCTC
66 AAACCAAATCAGCTATGTCCTC
11615752 GATCTGCTCCCTGCCAATACAGAGACACCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGA
1 GATCTGCTCCCTGCCAATACAGAGACACCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGA
* * *
11615817 AAGCGAAATCAGCTATGTCTTC
66 AAACCAAATCAGCTATGTCCTC
* *
11615839 GATCTGCTCCCTGCCAATACAGAGACTCCAAATAATCTTAGATTTGCTTCAACGTAAACACGTGA
1 GATCTGCTCCCTGCCAATACAGAGACACCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGA
*
11615904 AAACCAACTCAGCTATGTCCTC
66 AAACCAAATCAGCTATGTCCTC
*
11615926 GATCTGCTCCTTGCCAATACAGAG-CACCAAATC
1 GATCTGCTCCCTGCCAATACAGAGACACCAAATC
11615959 TGATGTCTTC
Statistics
Matches: 266, Mismatches: 26, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
85 69 0.26
86 7 0.03
87 190 0.71
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.26
Consensus pattern (87 bp):
GATCTGCTCCCTGCCAATACAGAGACACCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGA
AAACCAAATCAGCTATGTCCTC
Found at i:11616014 original size:174 final size:174
Alignment explanation
Indices: 11615580--11616045 Score: 554
Period size: 174 Copynumber: 2.7 Consensus size: 174
11615570 TGTTATCTTT
* * * * * * * * *
11615580 GATCTGTTCTCTGACAATACGGAGACGCTAAATCATCTTAGATTTGCTTCAACGTAAACACGTGA
1 GATCTGCTCCCTGCCAATACAGAGACACCAAATCATCTTAGATCTGCTTCAACGCAAACACGAGA
* * * * *
11615645 AAGCCAAATCAGC--TGTCTTCAATTTGCTCCCTGCCAATACAGAAACGCCAAATCATCTTAGAT
66 AAGCCAAATCAGCTATATCTTCGATTTGCTCCCTGCCAATACAGAGACTCCAAATAATCTTAGAT
11615708 TTGCTTCAACGTAAACACGTGAAAACCAAATCAGCTATGTCCTC
131 TTGCTTCAACGTAAACACGTGAAAACCAAATCAGCTATGTCCTC
* * *
11615752 GATCTGCTCCCTGCCAATACAGAGACACCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGA
1 GATCTGCTCCCTGCCAATACAGAGACACCAAATCATCTTAGATCTGCTTCAACGCAAACACGAGA
* * *
11615817 AAGCGAAATCAGCTATGTCTTCGATCTGCTCCCTGCCAATACAGAGACTCCAAATAATCTTAGAT
66 AAGCCAAATCAGCTATATCTTCGATTTGCTCCCTGCCAATACAGAGACTCCAAATAATCTTAGAT
*
11615882 TTGCTTCAACGTAAACACGTGAAAACCAACTCAGCTATGTCCTC
131 TTGCTTCAACGTAAACACGTGAAAACCAAATCAGCTATGTCCTC
* * **
11615926 GATCTGCTCCTTGCCAATACAGAG-CACCAAATCTGATGTCTTCGATCTGCTCTCTGC-CAATAC
1 GATCTGCTCCCTGCCAATACAGAGACACCAAATC--A--TCTTAGATCTGCT-TCAACGCAA-AC
* * *
11615989 A-GAG-ATGCCAAATCTG-T-TATCTTCGATTTGCTCTCTGCCAATACAGAGA-TGCCAAAT
60 ACGAGAAAGCCAAATCAGCTATATCTTCGATTTGCTCCCTGCCAATACAGAGACT-CCAAAT
11616046 CTGTTATCTT
Statistics
Matches: 259, Mismatches: 26, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
172 71 0.27
173 10 0.04
174 146 0.56
175 2 0.01
176 9 0.03
177 15 0.06
178 6 0.02
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (174 bp):
GATCTGCTCCCTGCCAATACAGAGACACCAAATCATCTTAGATCTGCTTCAACGCAAACACGAGA
AAGCCAAATCAGCTATATCTTCGATTTGCTCCCTGCCAATACAGAGACTCCAAATAATCTTAGAT
TTGCTTCAACGTAAACACGTGAAAACCAAATCAGCTATGTCCTC
Found at i:11616015 original size:44 final size:44
Alignment explanation
Indices: 11615924--11616265 Score: 378
Period size: 44 Copynumber: 7.8 Consensus size: 44
11615914 AGCTATGTCC
* *
11615924 TCGATCTGCTC-CTTGCCAATACAGAGCA--CCAAATCTGATGTCT
1 TCGATCTGCTCTC-TGCCAATACAGAG-ATGCCAAATCTGTTATCT
11615967 TCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGTTATCT
1 TCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGTTATCT
*
11616011 TCGATTTGCTCTCTGCCAATACAGAGATGCCAAATCTGTTATCT
1 TCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGTTATCT
* * ***
11616055 TCGATCTGCTTTCTGACAATACAGAGACATCAAATC----ATCT
1 TCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGTTATCT
* * ** * * * *
11616095 TGGATTTGCT-TCAACGTAA-ACACGTGAAAGCCAAATCAGTTATGTCT
1 TCGATCTGCTCTCTGC-CAATACA-GAG-ATGCCAAATCTGTTA--TCT
*
11616142 TCGATCTGCTCCCTGCCAATACAGAGATGCCAAATCTGTTATCT
1 TCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGTTATCT
*
11616186 TCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGTCATCT
1 TCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGTTATCT
* *
11616230 TCGATCTGCTCCCTGACAATACAGAGATGCCAAATC
1 TCGATCTGCTCTCTGCCAATACAGAGATGCCAAATC
11616266 ATCTTGGATC
Statistics
Matches: 253, Mismatches: 32, Indels: 27
0.81 0.10 0.09
Matches are distributed among these distances:
39 5 0.02
40 16 0.06
41 7 0.03
42 1 0.00
43 24 0.09
44 166 0.66
45 1 0.00
46 13 0.05
47 15 0.06
48 5 0.02
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.30
Consensus pattern (44 bp):
TCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGTTATCT
Found at i:11616148 original size:218 final size:218
Alignment explanation
Indices: 11615834--11616265 Score: 679
Period size: 218 Copynumber: 2.0 Consensus size: 218
11615824 ATCAGCTATG
*
11615834 TCTTCGATCTGCTCCCTGCCAATACAGAGACTCCAAATAATCTTAGATTTGCTTCAACGTAAACA
1 TCTTCGATCTGCTCCCTGACAATACAGAGACTCCAAATAATCTTAGATTTGCTTCAACGTAAACA
* *
11615899 CGTGAAAACCAACTCAGCTATGTCCTCGATCTGCTCCTTGCCAATACAGAGCA-CCAAATCTGAT
66 CGTGAAAACCAAATCAGCTATGTCCTCGATCTGCTCCCTGCCAATACAGAG-AGCCAAATCTGAT
* * * * *
11615963 GTCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGTTATCTTCGATTTGCTCTCTGCC
130 ATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGTCATCTTCGATCTGCTCCCTGAC
11616028 AATACAGAGATGCCAAATCTGTTA
195 AATACAGAGATGCCAAATCTGTTA
** * *
11616052 TCTTCGATCTGCTTTCTGACAATACAGAGACAT-CAAATCATCTTGGATTTGCTTCAACGTAAAC
1 TCTTCGATCTGCTCCCTGACAATACAGAGAC-TCCAAATAATCTTAGATTTGCTTCAACGTAAAC
* * * *
11616116 ACGTGAAAGCCAAATCAGTTATGTCTTCGATCTGCTCCCTGCCAATACAGAGATGCCAAATCTGT
65 ACGTGAAAACCAAATCAGCTATGTCCTCGATCTGCTCCCTGCCAATACAGAGA-GCCAAATCTGA
11616181 TATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGTCATCTTCGATCTGCTCCCTGA
129 TATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGTCATCTTCGATCTGCTCCCTGA
11616246 CAATACAGAGATGCCAAATC
194 CAATACAGAGATGCCAAATC
11616266 ATCTTGGATC
Statistics
Matches: 195, Mismatches: 16, Indels: 5
0.90 0.07 0.02
Matches are distributed among these distances:
217 1 0.01
218 104 0.53
219 90 0.46
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (218 bp):
TCTTCGATCTGCTCCCTGACAATACAGAGACTCCAAATAATCTTAGATTTGCTTCAACGTAAACA
CGTGAAAACCAAATCAGCTATGTCCTCGATCTGCTCCCTGCCAATACAGAGAGCCAAATCTGATA
TCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGTCATCTTCGATCTGCTCCCTGACA
ATACAGAGATGCCAAATCTGTTA
Found at i:11617284 original size:20 final size:19
Alignment explanation
Indices: 11617233--11617273 Score: 73
Period size: 20 Copynumber: 2.1 Consensus size: 19
11617223 GGCCTCTCCA
11617233 TTTTTTCTTTTTCTTTTTT
1 TTTTTTCTTTTTCTTTTTT
11617252 TTTTTCTCTTTTTCTTTTTT
1 TTTTT-TCTTTTTCTTTTTT
11617272 TT
1 TT
11617274 CCTTTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (19 bp):
TTTTTTCTTTTTCTTTTTT
Found at i:11624069 original size:22 final size:21
Alignment explanation
Indices: 11624034--11624109 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
11624024 AAAAGGTATC
* *
11624034 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
11624055 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
11624078 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
11624097 TGC-AATCATATCT
1 TACAAATCATATCT
11624110 AAGATTGTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:11624085 original size:17 final size:19
Alignment explanation
Indices: 11624070--11624192 Score: 195
Period size: 19 Copynumber: 6.8 Consensus size: 19
11624060 AATCATATCT
11624070 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
11624089 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
11624107 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
11624124 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
11624143 TCTAAGGTTGCA-ATCATA
1 TCTAAGATTGCATATCATA
11624161 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
11624178 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
11624193 TGAAGACTAT
Statistics
Matches: 96, Mismatches: 2, Indels: 12
0.87 0.02 0.11
Matches are distributed among these distances:
17 32 0.33
18 31 0.32
19 33 0.34
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:11624138 original size:54 final size:54
Alignment explanation
Indices: 11624070--11624192 Score: 237
Period size: 54 Copynumber: 2.3 Consensus size: 54
11624060 AATCATATCT
11624070 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
*
11624124 TCTAAGATTGCATATCATATCTAAGGTTGCAATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
11624178 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
11624193 TGAAGACTAT
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
54 68 1.00
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (54 bp):
TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
Found at i:11624139 original size:14 final size:15
Alignment explanation
Indices: 11624084--11624192 Score: 76
Period size: 17 Copynumber: 6.4 Consensus size: 15
11624074 AGATTGCATA
11624084 TCATATCTAAGATTG
1 TCATATCTAAGATTG
11624099 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
11624117 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
*
11624134 CATATCATATCTAAGGTTG
1 ----TCATATCTAAGATTG
11624153 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
11624171 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
11624188 -CATAT
1 TCATAT
11624193 TGAAGACTAT
Statistics
Matches: 83, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
14 5 0.06
17 32 0.39
18 30 0.36
19 16 0.19
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:11624189 original size:35 final size:36
Alignment explanation
Indices: 11624070--11624189 Score: 181
Period size: 35 Copynumber: 3.3 Consensus size: 36
11624060 AATCATATCT
*
11624070 TCTAAGATTGCATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGCA-ATCATATCTAAGATTGCTATCATA
*
11624107 TCTAAGATTG-TATCATATCTAAGATTGCATATCATA
1 TCTAAGATTGCAATCATATCTAAGATTGC-TATCATA
*
11624143 TCTAAGGTTGCAATCATATCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATATCTAAGATTGCTATCATA
11624178 TCTAAGATTGCA
1 TCTAAGATTGCA
11624190 TATTGAAGAC
Statistics
Matches: 76, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
35 35 0.46
36 15 0.20
37 26 0.34
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (36 bp):
TCTAAGATTGCAATCATATCTAAGATTGCTATCATA
Found at i:11629483 original size:27 final size:28
Alignment explanation
Indices: 11629445--11629498 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 28
11629435 GAATTACTTG
11629445 CTATTGTGTTTGC-TTTAACAAGTTTTA
1 CTATTGTGTTTGCTTTTAACAAGTTTTA
*
11629472 CTATTGTGTTTGCTTTTGACAAGTTTT
1 CTATTGTGTTTGCTTTTAACAAGTTTT
11629499 GATCTTATCT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 13 0.52
28 12 0.48
ACGTcount: A:0.19, C:0.11, G:0.17, T:0.54
Consensus pattern (28 bp):
CTATTGTGTTTGCTTTTAACAAGTTTTA
Found at i:11631118 original size:23 final size:23
Alignment explanation
Indices: 11631092--11631162 Score: 133
Period size: 23 Copynumber: 3.1 Consensus size: 23
11631082 TGATTTAGGG
11631092 TATATTTTCGAGATTAGTATGTT
1 TATATTTTCGAGATTAGTATGTT
*
11631115 TATATTTTCGGGATTAGTATGTT
1 TATATTTTCGAGATTAGTATGTT
11631138 TATATTTTCGAGATTAGTATGTT
1 TATATTTTCGAGATTAGTATGTT
11631161 TA
1 TA
11631163 AATAAATTCT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.25, C:0.04, G:0.18, T:0.52
Consensus pattern (23 bp):
TATATTTTCGAGATTAGTATGTT
Found at i:11633704 original size:25 final size:25
Alignment explanation
Indices: 11633675--11633722 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
11633665 CTATAACATG
* * *
11633675 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
11633700 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
11633723 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:11633806 original size:11 final size:11
Alignment explanation
Indices: 11633770--11633825 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
11633760 CATGGTATGT
11633770 ATGATATGCAC
1 ATGATATGCAC
* *
11633781 ATGACATG--T
1 ATGATATGCAC
11633790 ATGATATGCAC
1 ATGATATGCAC
*
11633801 ATGATATG--T
1 ATGATATGCAC
11633810 ATGATATGCAC
1 ATGATATGCAC
11633821 ATGAT
1 ATGAT
11633826 GTAATCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:11633825 original size:20 final size:20
Alignment explanation
Indices: 11633759--11633825 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
11633749 ATTTTGATAA
*
11633759 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
11633779 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
11633799 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
11633819 ACATGAT
1 ACATGAT
11633826 GTAATCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:11633905 original size:23 final size:23
Alignment explanation
Indices: 11633875--11633994 Score: 168
Period size: 24 Copynumber: 5.1 Consensus size: 23
11633865 AGGAAGTGAA
*
11633875 AAAGGGCTTATGCCCTAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
11633898 AAAGGGCTTATGCCTCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
11633922 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
11633946 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
11633969 AAAGGGCTTTTTCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
11633992 AAA
1 AAA
11633995 AGAGGCTAGG
Statistics
Matches: 89, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
23 44 0.49
24 45 0.51
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:11633996 original size:47 final size:48
Alignment explanation
Indices: 11633874--11634001 Score: 179
Period size: 47 Copynumber: 2.7 Consensus size: 48
11633864 GAGGAAGTGA
* *
11633874 AAAAGGGCTTATGCCCTAGTTATT-AAAGGGCTTATGCCTCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATC
*
11633921 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATC
* * *
11633968 TAAAGGGCTTTTTCCCCAGTTATTAAAAGAGGCT
1 AAAAGGGCTTATGCCCCAGTTATTAAAAG-GGCT
11634002 AGGCCTCCAG
Statistics
Matches: 72, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
47 47 0.65
48 25 0.35
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATC
Found at i:11634243 original size:31 final size:31
Alignment explanation
Indices: 11634208--11634268 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
11634198 CGTTTACAGT
11634208 AAAGGCTTCGGCCCAGTAATATGAAATATGG
1 AAAGGCTTCGGCCCAGTAATATGAAATATGG
**
11634239 AAAGGCTTCGGCCCAGTGTTATGAAATATG
1 AAAGGCTTCGGCCCAGTAATATGAAATATG
11634269 AAATATGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGG
Found at i:11644616 original size:6 final size:6
Alignment explanation
Indices: 11644598--11644691 Score: 68
Period size: 6 Copynumber: 15.3 Consensus size: 6
11644588 AAGAAACATT
*
11644598 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGGTA A-CATA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA
* * * * *
11644647 ATCAAA ATCAGA ACCAGT ATTAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
11644692 GTGAATGCAA
Statistics
Matches: 69, Mismatches: 11, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
5 5 0.07
6 55 0.80
7 6 0.09
8 3 0.04
ACGTcount: A:0.50, C:0.16, G:0.15, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:11644656 original size:31 final size:31
Alignment explanation
Indices: 11644612--11644691 Score: 115
Period size: 31 Copynumber: 2.6 Consensus size: 31
11644602 GAACTAGAAT
*
11644612 CAGAATCAGAATCAGAATCAGAATCAGGTAA
1 CAGAATCAAAATCAGAATCAGAATCAGGTAA
* * * *
11644643 CATAATCAAAATCAGAACCAGTATTAGGTAA
1 CAGAATCAAAATCAGAATCAGAATCAGGTAA
11644674 CAGAATCAAAATCAGAAT
1 CAGAATCAAAATCAGAAT
11644692 GTGAATGCAA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.50, C:0.16, G:0.15, T:0.19
Consensus pattern (31 bp):
CAGAATCAAAATCAGAATCAGAATCAGGTAA
Found at i:11644850 original size:27 final size:26
Alignment explanation
Indices: 11644812--11644917 Score: 140
Period size: 27 Copynumber: 4.0 Consensus size: 26
11644802 GCATGGCTGT
* *
11644812 CAGAACAGATATTGTGACAGAGTCAC
1 CAGAACAGATATTGTGGCAGAGCCAC
*
11644838 CAGATACAAATATTGTGGCAGAGCCAC
1 CAGA-ACAGATATTGTGGCAGAGCCAC
*
11644865 CAGAACAGATATTGTGGCATAGCCAC
1 CAGAACAGATATTGTGGCAGAGCCAC
* *
11644891 CAGAAACAGATAATGTGGCAAAGCCAC
1 CAG-AACAGATATTGTGGCAGAGCCAC
11644918 TTAACAGAAT
Statistics
Matches: 71, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
26 27 0.38
27 44 0.62
ACGTcount: A:0.39, C:0.22, G:0.23, T:0.17
Consensus pattern (26 bp):
CAGAACAGATATTGTGGCAGAGCCAC
Found at i:11644875 original size:53 final size:53
Alignment explanation
Indices: 11644812--11644917 Score: 149
Period size: 53 Copynumber: 2.0 Consensus size: 53
11644802 GCATGGCTGT
* * * *
11644812 CAGAACAGATATTGTGACAGAGTCACCAGATACAAATATTGTGGCAGAGCCAC
1 CAGAACAGATATTGTGACAGAGCCACCAGAAACAAATAATGTGGCAAAGCCAC
* * *
11644865 CAGAACAGATATTGTGGCATAGCCACCAGAAACAGATAATGTGGCAAAGCCAC
1 CAGAACAGATATTGTGACAGAGCCACCAGAAACAAATAATGTGGCAAAGCCAC
11644918 TTAACAGAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
53 46 1.00
ACGTcount: A:0.39, C:0.22, G:0.23, T:0.17
Consensus pattern (53 bp):
CAGAACAGATATTGTGACAGAGCCACCAGAAACAAATAATGTGGCAAAGCCAC
Found at i:11645104 original size:22 final size:22
Alignment explanation
Indices: 11645076--11645139 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
11645066 GCAAATACGT
*
11645076 TTGGCACATAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
11645098 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
* *
11645120 TTGGCGCAAAGCTATAATCA
1 TTGGCACAAAGCCATAATCA
11645140 AAATAATTGG
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
21 2 0.06
22 30 0.88
23 2 0.06
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.23
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:11646137 original size:27 final size:27
Alignment explanation
Indices: 11645528--11646130 Score: 760
Period size: 27 Copynumber: 22.3 Consensus size: 27
11645518 TATCCCACAA
*
11645528 GGGTATCTCGGTAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
* *
11645555 GGGTATTTCAGTAATTCTACCCTACAA
1 GGGTATTTCGGTAATTCTACCCTACAG
* *
11645582 GGGTATTTCGGTATTTCTACCCTACAA
1 GGGTATTTCGGTAATTCTACCCTACAG
* * * *
11645609 GGGTATATAGATAATTCTACCCTATAG
1 GGGTATTTCGGTAATTCTACCCTACAG
**
11645636 GGGTATTTTAGTAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
*
11645663 GGGTATTTCGGTAATTCTACCGTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
* *
11645690 GGGTATTTCGGTAATTCTACCGTATAG
1 GGGTATTTCGGTAATTCTACCCTACAG
*
11645717 GGGTATTTCGATAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
11645744 GGGTATTTCGGTAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
* *
11645771 GGGTATTCCGGTAATTCTACCCTATAG
1 GGGTATTTCGGTAATTCTACCCTACAG
*
11645798 GGGTA-TTCTGGTAATTCTACCCTACAA
1 GGGTATTTC-GGTAATTCTACCCTACAG
* * *
11645825 GGATA-TTCTGGTAATTTTACCTTACAG
1 GGGTATTTC-GGTAATTCTACCCTACAG
* *
11645852 GGGTATTCCGGTAATTCTACCCTATAG
1 GGGTATTTCGGTAATTCTACCCTACAG
* *
11645879 GGGTATTTCTGTAATTCTACCCTATAG
1 GGGTATTTCGGTAATTCTACCCTACAG
* * *
11645906 GGGTATTCCGGTAATTTTACCCTATAG
1 GGGTATTTCGGTAATTCTACCCTACAG
* * *
11645933 GGGTATTCCGGTAATTTTACCCTATAG
1 GGGTATTTCGGTAATTCTACCCTACAG
*
11645960 GGGTATTTCGGTAATTCTACCCTATAG
1 GGGTATTTCGGTAATTCTACCCTACAG
* * *
11645987 GTGTATTTCGATAATTTTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
* *
11646014 GGGTCTTTCGGTAATTCTATCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
* * *
11646041 GGGTATTTCAGTATTTCTACCCTACAA
1 GGGTATTTCGGTAATTCTACCCTACAG
* * * *
11646068 GGGTATTTCAGTATTTCTACCATACAA
1 GGGTATTTCGGTAATTCTACCCTACAG
* *
11646095 GGGTATTTCGATAATTCTACCCTATAG
1 GGGTATTTCGGTAATTCTACCCTACAG
11646122 GGGTATTTC
1 GGGTATTTC
11646131 AATAATTTTG
Statistics
Matches: 508, Mismatches: 66, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
26 2 0.00
27 504 0.99
28 2 0.00
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (27 bp):
GGGTATTTCGGTAATTCTACCCTACAG
Found at i:11646206 original size:27 final size:27
Alignment explanation
Indices: 11646169--11646433 Score: 252
Period size: 27 Copynumber: 9.9 Consensus size: 27
11646159 GTAATTCTGT
* * *
11646169 AAATCGGGGGTACTTTGGTAACTTTAC
1 AAATCGAGGGTATTTTGGTAATTTTAC
* *
11646196 AAGTCGAGGGTATTTTAGTAATTTTAC
1 AAATCGAGGGTATTTTGGTAATTTTAC
* *
11646223 AAATCAAGGGTATTTTGGTAATTTTGC
1 AAATCGAGGGTATTTTGGTAATTTTAC
* *
11646250 AAA-CTGAGGGTATTTCGATAATTTTAC
1 AAATC-GAGGGTATTTTGGTAATTTTAC
*
11646277 AAATCGAGGGTATTTTAGTAATTTTAC
1 AAATCGAGGGTATTTTGGTAATTTTAC
* * *
11646304 AAATC-AGGGCATTTTGGTGATTTTAT
1 AAATCGAGGGTATTTTGGTAATTTTAC
* * * *
11646330 AAACCAAGGGTA-TCTAGTAATTTTAC
1 AAATCGAGGGTATTTTGGTAATTTTAC
* **
11646356 AAA-CCAGGGGTATTTTGGTAATTTTGT
1 AAATCGA-GGGTATTTTGGTAATTTTAC
* *
11646383 AAACCAAGGGTATTTTGGTAATTTTAC
1 AAATCGAGGGTATTTTGGTAATTTTAC
* *
11646410 AAA-CTAGGGGTATTTTGGTGATTT
1 AAATCGA-GGGTATTTTGGTAATTT
11646434 GGTAAACTAA
Statistics
Matches: 195, Mismatches: 36, Indels: 14
0.80 0.15 0.06
Matches are distributed among these distances:
25 2 0.01
26 42 0.22
27 148 0.76
28 3 0.02
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.38
Consensus pattern (27 bp):
AAATCGAGGGTATTTTGGTAATTTTAC
Found at i:11648421 original size:6 final size:6
Alignment explanation
Indices: 11648383--11648476 Score: 59
Period size: 6 Copynumber: 15.3 Consensus size: 6
11648373 AAGAAACATT
* *
11648383 ATCAGA A-CTAGA ATTAGA ATTAGA ATCAGA ATCAGA ATCAGGTA A-CAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA
* * * * *
11648432 ATCAAA ATCAGA ACCAGT ATTAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
11648477 GTGAATGCAA
Statistics
Matches: 68, Mismatches: 12, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
5 5 0.07
6 55 0.81
7 5 0.07
8 3 0.04
ACGTcount: A:0.50, C:0.14, G:0.16, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:11648441 original size:31 final size:31
Alignment explanation
Indices: 11648406--11648476 Score: 115
Period size: 31 Copynumber: 2.3 Consensus size: 31
11648396 TTAGAATTAG
11648406 AATCAGAATCAGAATCAGGTAACAGAATCAA
1 AATCAGAATCAGAATCAGGTAACAGAATCAA
* * *
11648437 AATCAGAACCAGTATTAGGTAACAGAATCAA
1 AATCAGAATCAGAATCAGGTAACAGAATCAA
11648468 AATCAGAAT
1 AATCAGAAT
11648477 GTGAATGCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.51, C:0.15, G:0.15, T:0.18
Consensus pattern (31 bp):
AATCAGAATCAGAATCAGGTAACAGAATCAA
Found at i:11648637 original size:27 final size:26
Alignment explanation
Indices: 11648596--11648703 Score: 108
Period size: 27 Copynumber: 4.0 Consensus size: 26
11648586 AGCATGGCTG
* * * *
11648596 CCAGAATAGATATTGTGACAGAGTCA
1 CCAGAACAAATATTGTGGCAGAGCCA
11648622 CCAGATACAAATATTGTGGCAGAGCCA
1 CCAGA-ACAAATATTGTGGCAGAGCCA
* *
11648649 CCAGAACAGATATTTGTGGCATAGCCA
1 CCAGAACAAATA-TTGTGGCAGAGCCA
* * *
11648676 CCAGAAACAGATAATGTGGCAAAGCCA
1 CCAG-AACAAATATTGTGGCAGAGCCA
11648703 C
1 C
11648704 TTAACAGAAT
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
26 11 0.15
27 52 0.73
28 8 0.11
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.19
Consensus pattern (26 bp):
CCAGAACAAATATTGTGGCAGAGCCA
Found at i:11648694 original size:54 final size:53
Alignment explanation
Indices: 11648596--11648703 Score: 135
Period size: 54 Copynumber: 2.0 Consensus size: 53
11648586 AGCATGGCTG
* * * * *
11648596 CCAGAATAGATATTGTGACAGAGTCACCAGATACAAATATTGTGGCAGAGCCA
1 CCAGAACAGATATTGTGACAGAGCCACCAGAAACAAATAATGTGGCAAAGCCA
* * *
11648649 CCAGAACAGATATTTGTGGCATAGCCACCAGAAACAGATAATGTGGCAAAGCCA
1 CCAGAACAGATA-TTGTGACAGAGCCACCAGAAACAAATAATGTGGCAAAGCCA
11648703 C
1 C
11648704 TTAACAGAAT
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
53 11 0.24
54 35 0.76
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.19
Consensus pattern (53 bp):
CCAGAACAGATATTGTGACAGAGCCACCAGAAACAAATAATGTGGCAAAGCCA
Found at i:11648890 original size:22 final size:22
Alignment explanation
Indices: 11648862--11648925 Score: 76
Period size: 22 Copynumber: 2.9 Consensus size: 22
11648852 GCAAATACGT
*
11648862 TTGGCACATAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
11648884 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
11648906 TTGGCGCAAAGCCATAATCA
1 TTGGCACAAAGCCATAATCA
11648926 AAATAATTGG
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 31 0.89
23 2 0.06
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:11649752 original size:27 final size:27
Alignment explanation
Indices: 11649316--11649745 Score: 518
Period size: 27 Copynumber: 15.9 Consensus size: 27
11649306 GTCAAAATAA
* * * *
11649316 TAATTTTACCCCACAAGGGTATCTCGG
1 TAATTCTACCCTACAGGGGTATTTCGG
* *
11649343 TAATTCTATCCTACAGGGGTATTTCAG
1 TAATTCTACCCTACAGGGGTATTTCGG
* *
11649370 TAATTCTAACCTACAAGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGG
* * ** * * * *
11649397 TATTTCTACCCTATAAAGGCATATAGA
1 TAATTCTACCCTACAGGGGTATTTCGG
* *
11649424 TAATTCTACCCTATAGGGGTATTTCAG
1 TAATTCTACCCTACAGGGGTATTTCGG
*
11649451 TAATTCTACCCTACAGGGGTATTTTGG
1 TAATTCTACCCTACAGGGGTATTTCGG
* *
11649478 TAATTCTACCTTACAGGGGTATTTCGA
1 TAATTCTACCCTACAGGGGTATTTCGG
11649505 TAATTCTACCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGG
* *
11649532 TAATTCTACCGTACAGGGGTATTTCAG
1 TAATTCTACCCTACAGGGGTATTTCGG
*
11649559 TAATTCTACCCTACAGGGGTATTCCGG
1 TAATTCTACCCTACAGGGGTATTTCGG
* *
11649586 TAATTCTACCCTATAGGGGTATTCCGG
1 TAATTCTACCCTACAGGGGTATTTCGG
* **
11649613 TAATTCAACCCTACAGGGGTATTTTAG
1 TAATTCTACCCTACAGGGGTATTTCGG
*
11649640 TAATTCTACCTTACAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGG
* * * *
11649667 TAATTCTATCCTATAAGGGTATTTCAG
1 TAATTCTACCCTACAGGGGTATTTCGG
* * * *
11649694 TATTTCTACCTTACAAGGGTATTTCGA
1 TAATTCTACCCTACAGGGGTATTTCGG
11649721 TAATTCTACCCTACAGGGGTATTTC
1 TAATTCTACCCTACAGGGGTATTTC
11649746 AATAATTTTG
Statistics
Matches: 341, Mismatches: 62, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 341 1.00
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (27 bp):
TAATTCTACCCTACAGGGGTATTTCGG
Found at i:11649767 original size:27 final size:27
Alignment explanation
Indices: 11649737--11650027 Score: 182
Period size: 27 Copynumber: 10.9 Consensus size: 27
11649727 TACCCTACAG
** **
11649737 GGGTATTTCAATAATTTTGTAAATCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
*** * **
11649764 GGGTAAAACGGTAATTCTGTAAATCG-
1 GGGTATTTCGGTAATTTTACAAATCGA
*
11649790 GGGTACTTT-GGTAATTTTACAAGTCGA
1 GGGTA-TTTCGGTAATTTTACAAATCGA
* *
11649817 GAGTAGTTT-AGTAATTTTACAAATCGA
1 GGGTA-TTTCGGTAATTTTACAAATCGA
* * *
11649844 GGATATTTCGGTAATTTTGCAAA-CTAA
1 GGGTATTTCGGTAATTTTACAAATC-GA
*
11649871 GGGTATTTCGATAATTTTACAAATCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
** *
11649898 GGGTATTTTAGTAATTTTACAAATTG-
1 GGGTATTTCGGTAATTTTACAAATCGA
* * * * *
11649924 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTCGGTAATTTTACAAATCGA
* *
11649951 GGGTA-TTCTAGTAATTTTACAAA-CCA
1 GGGTATTTC-GGTAATTTTACAAATCGA
* * ** * *
11649977 GGGGTATTTTGATAATTTTGTAAACCAA
1 -GGGTATTTCGGTAATTTTACAAATCGA
*
11650005 GGGTATTTTGGTAATTTTACAAA
1 GGGTATTTCGGTAATTTTACAAA
11650028 CCAGGGGTAT
Statistics
Matches: 204, Mismatches: 50, Indels: 20
0.74 0.18 0.07
Matches are distributed among these distances:
26 46 0.23
27 153 0.75
28 5 0.02
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTACAAATCGA
Found at i:11649886 original size:107 final size:106
Alignment explanation
Indices: 11649775--11650027 Score: 265
Period size: 107 Copynumber: 2.4 Consensus size: 106
11649765 GGTAAAACGG
* * *
11649775 TAATTCTGTAAATCGGGGTACTTTGGTAATTTTACAAGTCGAGAGTAGTTTAGTAATTTTACAAA
1 TAATTTTGTAAATCGGGGTATTTTGGTAATTTTACAAATCG-GAGTAGTTTAGTAATTTTACAAA
* * * * *
11649840 TCGAGGATATT-TCGGTAATTTTGCAAACTAAGGGTATTTCGA
65 CCAAGGATATTCT-AGTAATTTTACAAACCAAGGGTATTTCGA
** * * * * * * *
11649882 TAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAAATTGGGGTATTTTGGTGATTTTATAAA
1 TAATTTTGTAAATCG-GGGTATTTTGGTAATTTTACAAATCGGAGTAGTTTAGTAATTTTACAAA
* * *
11649947 CCAAGGGTATTCTAGTAATTTTACAAACCAGGGGTATTTTGA
65 CCAAGGATATTCTAGTAATTTTACAAACCAAGGGTATTTCGA
* *
11649989 TAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAA
1 TAATTTTGTAAATC-GGGGTATTTTGGTAATTTTACAAA
11650028 CCAGGGGTAT
Statistics
Matches: 118, Mismatches: 25, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
107 95 0.81
108 23 0.19
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (106 bp):
TAATTTTGTAAATCGGGGTATTTTGGTAATTTTACAAATCGGAGTAGTTTAGTAATTTTACAAAC
CAAGGATATTCTAGTAATTTTACAAACCAAGGGTATTTCGA
Found at i:11649908 original size:81 final size:82
Alignment explanation
Indices: 11649800--11650039 Score: 274
Period size: 81 Copynumber: 3.0 Consensus size: 82
11649790 GGGTACTTTG
* * * * * *
11649800 GTAATTTTACAAGTCGAGAGTAGTTTAGTAATTTTACAAATCGAGGATATTTCGGTAATTTTGCA
1 GTAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACA
*
11649865 AACTAAGGGTATTTCGA
66 AACCAAGGGTATTTCGA
* * *
11649882 -TAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAAATTG-GGGTATTTTGGTGATTTTATA
1 GTAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACA
*
11649945 AACCAAGGGTA-TTCTA
66 AACCAAGGGTATTTCGA
* ** * *
11649961 GTAATTTTACAAA-CCAGGGGTATTTT-GATAATTTTGTAAACCAAGGGTATTTTGGTAATTTTA
1 GTAATTTTACAAATCGA-GGGTATTTTAG-TAATTTTACAAATCGAGGGTATTTTGGTAATTTTA
*
11650024 CAAACCAGGGGTATTT
64 CAAACCAAGGGTATTT
11650040 TGGTGATTTG
Statistics
Matches: 133, Mismatches: 20, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
79 7 0.05
80 57 0.43
81 67 0.50
82 2 0.02
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (82 bp):
GTAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACA
AACCAAGGGTATTTCGA
Found at i:11649912 original size:134 final size:134
Alignment explanation
Indices: 11649737--11650040 Score: 308
Period size: 134 Copynumber: 2.3 Consensus size: 134
11649727 TACCCTACAG
* ** ***** **
11649737 GGGTATTTCAATAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGGGGTACTTTGGT
1 GGGTATTTCGATAATTTTACAAATCGAGGGTATTTTAGTAATTCTACAAATCGGGGTACTTTGGT
** * * *
11649802 AATTTTACAAGTCGAGAGTAGTT-TAGTAATTTTACAAATC-GAGGATATTTCGGTAATTTTGCA
66 AATTTTACAAACCAAGAGTA-TTCTAGTAATTTTACAAACCAG-GGATATTTCGATAATTTTGCA
*
11649865 AACTAA
129 AACCAA
* * *
11649871 GGGTATTTCGATAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAAATTGGGGTATTTTGGT
1 GGGTATTTCGATAATTTTACAAATCGAGGGTATTTTAGTAATTCTACAAATCGGGGTACTTTGGT
* * * * * *
11649936 GATTTTATAAACCAAGGGTATTCTAGTAATTTTACAAACCAGGGGTATTTTGATAATTTTGTAAA
66 AATTTTACAAACCAAGAGTATTCTAGTAATTTTACAAACCAGGGATATTTCGATAATTTTGCAAA
11650001 CCAA
131 CCAA
* * *
11650005 GGGTATTTTGGTAATTTTACAAA-CCAGGGGTATTTT
1 GGGTATTTCGATAATTTTACAAATCGA-GGGTATTTT
11650041 GGTGATTTGG
Statistics
Matches: 139, Mismatches: 28, Indels: 6
0.80 0.16 0.03
Matches are distributed among these distances:
133 4 0.03
134 134 0.96
135 1 0.01
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (134 bp):
GGGTATTTCGATAATTTTACAAATCGAGGGTATTTTAGTAATTCTACAAATCGGGGTACTTTGGT
AATTTTACAAACCAAGAGTATTCTAGTAATTTTACAAACCAGGGATATTTCGATAATTTTGCAAA
CCAA
Found at i:11650028 original size:27 final size:27
Alignment explanation
Indices: 11649790--11650048 Score: 232
Period size: 27 Copynumber: 9.6 Consensus size: 27
11649780 CTGTAAATCG
* ** *
11649790 GGGTACTTTGGTAATTTTACAAGTCGA
1 GGGTATTTTGGTAATTTTACAAACCAA
* * * * *
11649817 GAGTAGTTTAGTAATTTTACAAATCGA
1 GGGTATTTTGGTAATTTTACAAACCAA
* * * *
11649844 GGATATTTCGGTAATTTTGCAAACTAA
1 GGGTATTTTGGTAATTTTACAAACCAA
* * * *
11649871 GGGTATTTCGATAATTTTACAAATCGA
1 GGGTATTTTGGTAATTTTACAAACCAA
* ***
11649898 GGGTATTTTAGTAATTTTACAAA-TTG
1 GGGTATTTTGGTAATTTTACAAACCAA
* *
11649924 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
* * *
11649951 GGGTATTCTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAA
* **
11649978 GGGTATTTTGATAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
*
11650005 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAA
*
11650032 GGGTATTTTGGTGATTT
1 GGGTATTTTGGTAATTT
11650049 GGTAAACTAA
Statistics
Matches: 184, Mismatches: 47, Indels: 2
0.79 0.20 0.01
Matches are distributed among these distances:
26 20 0.11
27 164 0.89
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAA
Found at i:11650064 original size:107 final size:107
Alignment explanation
Indices: 11649854--11650067 Score: 277
Period size: 107 Copynumber: 2.0 Consensus size: 107
11649844 GGATATTTCG
* * * *
11649854 GTAATTTTGCAAACTAAGGGTATTTCGATAATTTTACAAATCGAGGGTATTTTAGTAATTTTACA
1 GTAATTTTACAAACCAAGGGTATTTCGATAATTTTACAAACCAAGGGTATTTTAGTAATTTTACA
** * *
11649919 AATTGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTCTA
66 AACAGGGGTATTTTGGTGATTTGATAAACCAAGAGTATTCTA
* * ** *
11649961 GTAATTTTACAAACCAGGGGTATTTTGATAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACA
1 GTAATTTTACAAACCAAGGGTATTTCGATAATTTTACAAACCAAGGGTATTTTAGTAATTTTACA
* *
11650026 AACCAGGGGTATTTTGGTGATTTGGTAAACTAA-AGTATTCTA
66 AA-CAGGGGTATTTTGGTGATTTGATAAACCAAGAGTATTCTA
11650068 AACAGGGATA
Statistics
Matches: 91, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
107 66 0.73
108 25 0.27
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (107 bp):
GTAATTTTACAAACCAAGGGTATTTCGATAATTTTACAAACCAAGGGTATTTTAGTAATTTTACA
AACAGGGGTATTTTGGTGATTTGATAAACCAAGAGTATTCTA
Found at i:11650973 original size:22 final size:22
Alignment explanation
Indices: 11650945--11650988 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
11650935 AATTATTAAC
11650945 ATAATAAAATTTAG-TTAATTTT
1 ATAAT-AAATTTAGATTAATTTT
*
11650967 ATAATAAATTTTGATTAATTTT
1 ATAATAAATTTAGATTAATTTT
11650989 GATCAATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (22 bp):
ATAATAAATTTAGATTAATTTT
Found at i:11656981 original size:12 final size:12
Alignment explanation
Indices: 11656966--11656998 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
11656956 GCCATGTGTC
*
11656966 AGGCTGTGTGCT
1 AGGCCGTGTGCT
11656978 AGGCCGTGTGCT
1 AGGCCGTGTGCT
11656990 AGGCCGTGT
1 AGGCCGTGT
11656999 AACTCACTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.09, C:0.21, G:0.42, T:0.27
Consensus pattern (12 bp):
AGGCCGTGTGCT
Found at i:11664208 original size:31 final size:30
Alignment explanation
Indices: 11664158--11664258 Score: 103
Period size: 31 Copynumber: 3.3 Consensus size: 30
11664148 TACACGAGTG
** *
11664158 TGTGGGCCCATACGGGCAAGCTACACGGGA
1 TGTGGGCCCACGCGGGCAAGCCACACGGGA
* *
11664188 TTGTGGGCCCACGCGAGCAAGCCACATGGGCA
1 -TGTGGGCCCACGCGGGCAAGCCACACGGG-A
* * *
11664220 TGTGGGCTCACGTGGGCAAGCCACACTGGA
1 TGTGGGCCCACGCGGGCAAGCCACACGGGA
11664250 GTGTGGGCC
1 -TGTGGGCC
11664259 TATTTATCTA
Statistics
Matches: 57, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
30 1 0.02
31 55 0.96
32 1 0.02
ACGTcount: A:0.20, C:0.28, G:0.38, T:0.15
Consensus pattern (30 bp):
TGTGGGCCCACGCGGGCAAGCCACACGGGA
Found at i:11669815 original size:136 final size:136
Alignment explanation
Indices: 11669548--11669831 Score: 518
Period size: 136 Copynumber: 2.1 Consensus size: 136
11669538 CATTGGGCCT
**
11669548 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
11669613 AGCCCCTTATTCAGATAACAGTATGGCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCATAGGCCCATTTCAAAATACATGCAACATCAATAAAC
11669678 ATATGC
131 ATATGC
11669684 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
11669749 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AA
66 AGCCCCTTATTCAGATAACAGTATGG-CCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
11669813 CATATGC
130 CATATGC
11669820 AA-CCCATTTGGG
1 AAGCCCATTTGGG
11669832 GAGACTACTC
Statistics
Matches: 144, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
135 10 0.07
136 100 0.69
137 34 0.24
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCATAGGCCCATTTCAAAATACATGCAACATCAATAAAC
ATATGC
Found at i:11671678 original size:26 final size:26
Alignment explanation
Indices: 11671609--11671743 Score: 218
Period size: 26 Copynumber: 5.2 Consensus size: 26
11671599 CATGATATTC
* *
11671609 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
*
11671635 TTATCAT-GAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
11671660 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
11671686 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
* *
11671712 TTATCATGAAATATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
11671738 TTATCA
1 TTATCA
11671744 ATTTGTATCA
Statistics
Matches: 104, Mismatches: 4, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
25 24 0.23
26 80 0.77
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:11673310 original size:40 final size:40
Alignment explanation
Indices: 11673265--11673431 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
11673255 CGGAATATAA
11673265 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
11673305 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
11673345 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
11673385 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
11673424 CCGGATAT
1 CCGGATAT
11673432 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:11673415 original size:80 final size:79
Alignment explanation
Indices: 11673281--11673431 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
11673271 ATAATCACGT
*
11673281 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
11673346 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
11673361 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
11673424 CCGGATAT
64 CCGGATAT
11673432 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:11674687 original size:54 final size:53
Alignment explanation
Indices: 11674621--11674729 Score: 132
Period size: 54 Copynumber: 2.0 Consensus size: 53
11674611 ATCCTCCCCC
11674621 TTTTCCCTTAGTA-ATTTCGGCCAAGAAGAT-GAGAAAGGATGAACAAATTTTTTT
1 TTTTCCCTTAGTACA-TTCGGCCAAGAAGATGGAG-AAGGATG-ACAAATTTTTTT
* *** *
11674675 TTTTTCCTTAGTACATTCGGCCAAGCCTATGGAGAAGGATGACACATTTTTTT
1 TTTTCCCTTAGTACATTCGGCCAAGAAGATGGAGAAGGATGACAAATTTTTTT
11674728 TT
1 TT
11674730 CTTTTTTTTT
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
53 13 0.27
54 31 0.65
55 4 0.08
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (53 bp):
TTTTCCCTTAGTACATTCGGCCAAGAAGATGGAGAAGGATGACAAATTTTTTT
Found at i:11681383 original size:39 final size:37
Alignment explanation
Indices: 11681255--11681384 Score: 116
Period size: 40 Copynumber: 3.3 Consensus size: 37
11681245 CGGAATATAA
*
11681255 CCGGATATAATCCACGTGCACAAATGCCTTCGGGTCTATAG
1 CCGGATATAA-CCAC-TGCAC-AATGCCTTCGGGTCTA-AC
* ** * *
11681296 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAACCACT-GCAC-AATGCCTTCGGGTC-TAAC
*
11681336 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTAAC
1 CCGGATATAACCACT-GCACAA-TGCCTTCGGGTCTAAC
11681375 CCGGATATAA
1 CCGGATATAA
11681385 TTTCCAGCAT
Statistics
Matches: 71, Mismatches: 15, Indels: 8
0.76 0.16 0.09
Matches are distributed among these distances:
39 15 0.21
40 45 0.63
41 11 0.15
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.22
Consensus pattern (37 bp):
CCGGATATAACCACTGCACAATGCCTTCGGGTCTAAC
Found at i:11687354 original size:25 final size:27
Alignment explanation
Indices: 11687317--11687369 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
11687307 TCAAACATGC
11687317 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
11687343 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
11687369 A
1 A
11687370 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:11688883 original size:26 final size:26
Alignment explanation
Indices: 11688847--11688956 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
11688837 CATGAAATTC
11688847 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
11688873 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
11688899 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
11688925 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
11688951 TTATCA
1 TTATCA
11688957 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:11694656 original size:30 final size:26
Alignment explanation
Indices: 11694571--11694684 Score: 156
Period size: 26 Copynumber: 4.2 Consensus size: 26
11694561 CATGAAATTC
11694571 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
11694597 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
11694623 TTATCATGGAACATTTACCTATATAACCTA
1 TTATCATGAAACATTTACC----TAACCCA
* *
11694653 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
11694679 TTATCA
1 TTATCA
11694685 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 8
0.89 0.02 0.09
Matches are distributed among these distances:
26 57 0.70
30 25 0.30
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:11694667 original size:56 final size:52
Alignment explanation
Indices: 11694571--11694684 Score: 156
Period size: 56 Copynumber: 2.1 Consensus size: 52
11694561 CATGAAATTC
11694571 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCA
* * * *
11694623 TTATCATGGAACATTTACCTATATAACCTATTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACC----TAACCCATTATCATGAAACATTTACCTAACCCA
11694679 TTATCA
1 TTATCA
11694685 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
52 18 0.33
56 36 0.67
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (52 bp):
TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCA
Found at i:11697187 original size:19 final size:18
Alignment explanation
Indices: 11697159--11697208 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 18
11697149 GGATTTTTTT
11697159 AATATTAATATAATTA-A
1 AATATTAATATAATTATA
*
11697176 AATTATTTAATATTATTATA
1 AA-TA-TTAATATAATTATA
11697196 AATATTAATATAA
1 AATATTAATATAA
11697209 AATTTCAGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
17 2 0.07
18 10 0.36
19 13 0.46
20 3 0.11
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
AATATTAATATAATTATA
Found at i:11705559 original size:2 final size:2
Alignment explanation
Indices: 11705552--11705587 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
11705542 ATCACATTAA
11705552 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11705588 GAAAAAAGAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11706174 original size:5 final size:6
Alignment explanation
Indices: 11706159--11706206 Score: 51
Period size: 6 Copynumber: 7.7 Consensus size: 6
11706149 TACGTACTTC
* * *
11706159 AAAAAT AAAAAT AAAAAT AAAAAGT ATTAAAT TAAATT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAA-T A-AAAAT AAAAAT AAAAAT AAAA
11706207 CAACTAATTT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
6 28 0.82
7 3 0.09
8 3 0.09
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (6 bp):
AAAAAT
Found at i:11709518 original size:24 final size:24
Alignment explanation
Indices: 11709486--11709535 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
11709476 TTTTGTTAAG
11709486 TAAATGCAAGACAGGTCACTCAAC
1 TAAATGCAAGACAGGTCACTCAAC
11709510 TAAATGCAAGACAGGTCACTCAAC
1 TAAATGCAAGACAGGTCACTCAAC
11709534 TA
1 TA
11709536 TGGTTGGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.42, C:0.24, G:0.16, T:0.18
Consensus pattern (24 bp):
TAAATGCAAGACAGGTCACTCAAC
Found at i:11714107 original size:9 final size:9
Alignment explanation
Indices: 11714088--11714118 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
11714078 TTATGTGTTC
11714088 TTTATTTTTA
1 TTTA-TTTTA
11714098 TTTATTTTA
1 TTTATTTTA
11714107 TTTATTTTA
1 TTTATTTTA
11714116 TTT
1 TTT
11714119 TTCACAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 17 0.81
10 4 0.19
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:11722714 original size:19 final size:19
Alignment explanation
Indices: 11722690--11722730 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
11722680 GATGCCTCCT
*
11722690 TTACATT-CATGCATTTGCA
1 TTACATTACAT-CATATGCA
11722709 TTACATTACATCATATGCA
1 TTACATTACATCATATGCA
11722728 TTA
1 TTA
11722731 AAGGTCATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 17 0.85
20 3 0.15
ACGTcount: A:0.32, C:0.20, G:0.07, T:0.41
Consensus pattern (19 bp):
TTACATTACATCATATGCA
Found at i:11731341 original size:45 final size:45
Alignment explanation
Indices: 11731193--11731343 Score: 135
Period size: 45 Copynumber: 3.4 Consensus size: 45
11731183 TTAAGTCATC
* * * * *
11731193 ATAGCAAACCTTATCTCTCTGAAGTTGTAGTAGAGTAGGTTGAAG
1 ATAGCAAACCTTATCTCCCTGAAGTTGTAGTGGAATAGATCGAAG
* ** * *
11731238 -TACCAAGTCTTATCTCCTTGAAGTTGTAGTGGAACAGA-CTGAAG
1 ATAGCAAACCTTATCTCCCTGAAGTTGTAGTGGAATAGATC-GAAG
** * ** *
11731282 ATAATAGATTTTATCTCCCTGAAGTTGCAGTGGAATAGATCGAAG
1 ATAGCAAACCTTATCTCCCTGAAGTTGTAGTGGAATAGATCGAAG
11731327 ATAGCAAACCTTATCTC
1 ATAGCAAACCTTATCTC
11731344 TTTAAAGTAG
Statistics
Matches: 80, Mismatches: 23, Indels: 6
0.73 0.21 0.06
Matches are distributed among these distances:
44 33 0.41
45 46 0.57
46 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (45 bp):
ATAGCAAACCTTATCTCCCTGAAGTTGTAGTGGAATAGATCGAAG
Found at i:11731400 original size:43 final size:44
Alignment explanation
Indices: 11731245--11731452 Score: 145
Period size: 45 Copynumber: 4.7 Consensus size: 44
11731235 AAGTACCAAG
* * * *
11731245 TCTTATCTCCTTGAAGTTGTAGTGGAACAGACTGAAGATA-ATAGA
1 TCTTATCTCCTTGAAGTAGCAGTGGAGCAGACT-AAAATAGA-AGA
* * * ** * *
11731290 TTTTATCTCCCTGAAGTTGCAGTGGAATAGATCGAAGATAGCAA-A
1 TCTTATCTCCTTGAAGTAGCAGTGGAGCAGA-CTAAAATAG-AAGA
* * * **
11731335 CCTTATCTCTTTAAAGTAGCAGTGGAGCAGGTTAAAATTA-AAG-
1 TCTTATCTCCTTGAAGTAGCAGTGGAGCAGACTAAAA-TAGAAGA
* *
11731378 TCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTAAAATAGCAGA
1 TCTTATCTCCTTGAAGTAGCAGTGGAGCAGACTAAAATAGAAGA
* * * *
11731422 TTTTGTCCCCTTGAAGTCGCAGTGGAGCAGA
1 TCTTATCTCCTTGAAGTAGCAGTGGAGCAGA
11731453 TCGGAGCCAC
Statistics
Matches: 128, Mismatches: 28, Indels: 15
0.75 0.16 0.09
Matches are distributed among these distances:
42 2 0.02
43 35 0.27
44 30 0.23
45 58 0.45
46 2 0.02
47 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.29
Consensus pattern (44 bp):
TCTTATCTCCTTGAAGTAGCAGTGGAGCAGACTAAAATAGAAGA
Found at i:11735616 original size:51 final size:51
Alignment explanation
Indices: 11735556--11735660 Score: 210
Period size: 51 Copynumber: 2.1 Consensus size: 51
11735546 CTAATAAGGG
11735556 TATACTAAACCTTTTCCGACCTCTACACACCACATTGAGTAATGGTAGACC
1 TATACTAAACCTTTTCCGACCTCTACACACCACATTGAGTAATGGTAGACC
11735607 TATACTAAACCTTTTCCGACCTCTACACACCACATTGAGTAATGGTAGACC
1 TATACTAAACCTTTTCCGACCTCTACACACCACATTGAGTAATGGTAGACC
11735658 TAT
1 TAT
11735661 CCATCCAATT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.31, C:0.29, G:0.11, T:0.29
Consensus pattern (51 bp):
TATACTAAACCTTTTCCGACCTCTACACACCACATTGAGTAATGGTAGACC
Found at i:11736072 original size:2 final size:2
Alignment explanation
Indices: 11736065--11736090 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
11736055 AATCATATGA
11736065 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
11736091 TAACAATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11736426 original size:22 final size:23
Alignment explanation
Indices: 11736400--11736444 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
11736390 AATGACATGT
*
11736400 CCGTGTAACTGAA-AGCACACGA
1 CCGTGTAACTGAAGAACACACGA
*
11736422 CCGTGTGACTGAAGAACACACGA
1 CCGTGTAACTGAAGAACACACGA
11736445 GTGTGCGCTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.36, C:0.27, G:0.24, T:0.13
Consensus pattern (23 bp):
CCGTGTAACTGAAGAACACACGA
Found at i:11736448 original size:21 final size:21
Alignment explanation
Indices: 11736401--11736449 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
11736391 ATGACATGTC
* *
11736401 CGTGTAACTGAAAGCACACGA
1 CGTGTGACTGAAAACACACGA
11736422 CCGTGTGACTGAAGAACACACGA
1 -CGTGTGACTGAA-AACACACGA
11736445 -GTGTG
1 CGTGTG
11736450 CGCTCAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 5 0.21
22 11 0.46
23 8 0.33
ACGTcount: A:0.33, C:0.22, G:0.29, T:0.16
Consensus pattern (21 bp):
CGTGTGACTGAAAACACACGA
Found at i:11737686 original size:16 final size:17
Alignment explanation
Indices: 11737657--11737690 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
11737647 AAAAAATTTA
11737657 ATTTTTTACTTAATATT
1 ATTTTTTACTTAATATT
*
11737674 ATTTTTTGC-TAATATT
1 ATTTTTTACTTAATATT
11737690 A
1 A
11737691 ATTATAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.62
Consensus pattern (17 bp):
ATTTTTTACTTAATATT
Found at i:11739543 original size:43 final size:44
Alignment explanation
Indices: 11739456--11739568 Score: 117
Period size: 43 Copynumber: 2.6 Consensus size: 44
11739446 ATTTTTCACA
*
11739456 TATATTATATATTTATTAATTATATATATATTTACATGTTATTT
1 TATATTATATATTTATTAATTATATATATATTTACATGTCATTT
* * *
11739500 TATATTATATCTATTA-TAATTCT-TATATATTTATAT-TACATTT
1 TATATTATATAT-TTATTAATTATATATATATTTACATGT-CATTT
* * *
11739543 TATAATATTTATTTATT-TTTATATAT
1 TATATTATATATTTATTAATTATATAT
11739569 GTTATGTATA
Statistics
Matches: 56, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
42 7 0.12
43 29 0.52
44 17 0.30
45 3 0.05
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.60
Consensus pattern (44 bp):
TATATTATATATTTATTAATTATATATATATTTACATGTCATTT
Found at i:11739573 original size:19 final size:20
Alignment explanation
Indices: 11739522--11739573 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
11739512 ATTATAATTC
11739522 TTATATATTTATATTACATT
1 TTATATATTTATATTACATT
*
11739542 TTATAATATTTAT-TTA-TTT
1 TTAT-ATATTTATATTACATT
11739561 TTATATATGTTAT
1 TTATATAT-TTAT
11739574 GTATATCATG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 4 0.14
19 10 0.34
20 7 0.24
21 8 0.28
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (20 bp):
TTATATATTTATATTACATT
Found at i:11745372 original size:90 final size:89
Alignment explanation
Indices: 11745232--11745401 Score: 243
Period size: 90 Copynumber: 1.9 Consensus size: 89
11745222 GTTGTGGATA
** * * *
11745232 AACCACAATGTTGCAGGTTAATACGTTGCCAGATGGTTGTGAATACACAACAT-ATATGCAGATG
1 AACCACAATGTTGCAGGTTAATACACTACCAGATGGTTGTAAATACACAACATAAT-TGCAGATA
11745296 AAAGCTACCAGATAATGGATGTACG
65 AAAGCTACCAGATAATGGATGTACG
* * *
11745321 AACCACTAATGTTGTAGGTTAATACACTATCAGATGGTTGTAAATATACAACATAATTGCAGATA
1 AACCAC-AATGTTGCAGGTTAATACACTACCAGATGGTTGTAAATACACAACATAATTGCAGATA
11745386 AAAGCTACCAGATAAT
65 AAAGCTACCAGATAAT
11745402 ATGTGGATGA
Statistics
Matches: 71, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
89 6 0.08
90 63 0.89
91 2 0.03
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.26
Consensus pattern (89 bp):
AACCACAATGTTGCAGGTTAATACACTACCAGATGGTTGTAAATACACAACATAATTGCAGATAA
AAGCTACCAGATAATGGATGTACG
Found at i:11745414 original size:90 final size:90
Alignment explanation
Indices: 11745224--11745416 Score: 241
Period size: 90 Copynumber: 2.2 Consensus size: 90
11745214 CAGATTGAGT
* ** * *
11745224 TGTGGATAAACCACAATGTTGCAGGTTAATACGTTGCCAGATGGTTGTGAATACACAACATATAT
1 TGTGGATGAACCACAATGTTGCAGGTTAATACACTACCAGATGGTTGTAAATACACAACATATAT
*
11745289 GCAGATGAAAGCTACCAGATAATGGA
66 GCAGATAAAAGCTACCAGATAAT-GA
* * * *
11745315 TGT--ACGAACCACTAATGTTGTAGGTTAATACACTATCAGATGGTTGTAAATATACAACATA-A
1 TGTGGATGAACCAC-AATGTTGCAGGTTAATACACTACCAGATGGTTGTAAATACACAACATATA
11745377 TTGCAGATAAAAGCTACCAGATAAT-A
65 -TGCAGATAAAAGCTACCAGATAATGA
11745403 TGTGGATGAACCAC
1 TGTGGATGAACCAC
11745417 CAGAATTGCA
Statistics
Matches: 87, Mismatches: 11, Indels: 9
0.81 0.10 0.08
Matches are distributed among these distances:
88 4 0.05
89 8 0.09
90 72 0.83
91 3 0.03
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.26
Consensus pattern (90 bp):
TGTGGATGAACCACAATGTTGCAGGTTAATACACTACCAGATGGTTGTAAATACACAACATATAT
GCAGATAAAAGCTACCAGATAATGA
Found at i:11748521 original size:17 final size:18
Alignment explanation
Indices: 11748482--11748524 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
11748472 TAAGGAAAAT
*
11748482 AATATATATAATAAGTAAT
1 AATA-ATATAATAAGTAAA
*
11748501 AATAATAT-ATAATTAAA
1 AATAATATAATAAGTAAA
11748518 AATAATA
1 AATAATA
11748525 CTCATAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 14 0.64
18 4 0.18
19 4 0.18
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (18 bp):
AATAATATAATAAGTAAA
Found at i:11748521 original size:20 final size:19
Alignment explanation
Indices: 11748460--11748524 Score: 64
Period size: 20 Copynumber: 3.5 Consensus size: 19
11748450 AAAAAGATGT
**
11748460 AAAATAATAAT-T-TAAGG
1 AAAATAATAATATATAATA
11748477 AAAATAAT-ATATATAATA
1 AAAATAATAATATATAATA
*
11748495 AGTAATAATAATATATAATTA
1 A-AAATAATAATATATAA-TA
11748516 AAAATAATA
1 AAAATAATA
11748525 CTCATAATAA
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
16 2 0.05
17 9 0.23
18 4 0.10
19 6 0.15
20 15 0.38
21 3 0.08
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (19 bp):
AAAATAATAATATATAATA
Found at i:11752551 original size:19 final size:19
Alignment explanation
Indices: 11752527--11752572 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
11752517 CTCTCCTTTT
11752527 TTTGCATT-CATTCCACGCA
1 TTTGCATTGCATTCCA-GCA
* *
11752546 TTTGCATTGCATTGCATCA
1 TTTGCATTGCATTCCAGCA
11752565 TTTGCATT
1 TTTGCATT
11752573 AGATTTTCCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.20, C:0.24, G:0.13, T:0.43
Consensus pattern (19 bp):
TTTGCATTGCATTCCAGCA
Found at i:11756497 original size:64 final size:64
Alignment explanation
Indices: 11756423--11756546 Score: 187
Period size: 64 Copynumber: 1.9 Consensus size: 64
11756413 ACTTTCATAA
*
11756423 CACATCTAGTTAGAAGCATTT-GATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGGAT
1 CACATCTAGTTAGAAGCATTTAG-TTCATTTCGATCATAGCATCCTAATCATTTGACATAAGGAT
* * * *
11756487 CACATCTAGTTAGGAGCATTTAGTTCATTTTGATCATAGCATCCTAGTCATTTGGCATAA
1 CACATCTAGTTAGAAGCATTTAGTTCATTTCGATCATAGCATCCTAATCATTTGACATAA
11756547 ACATAGGCAT
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
64 53 0.98
65 1 0.02
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (64 bp):
CACATCTAGTTAGAAGCATTTAGTTCATTTCGATCATAGCATCCTAATCATTTGACATAAGGAT
Found at i:11756756 original size:89 final size:87
Alignment explanation
Indices: 11756634--11756971 Score: 351
Period size: 89 Copynumber: 3.9 Consensus size: 87
11756624 GTAGTGGAGC
* * * * * *
11756634 AGATAAAAGAAGGAAGACTTAGCCCCCTAAGTAGTAGGGTAACAGACTGAAGATCGCAGATCTTG
1 AGATCAAAGAAGCAAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAGATTGCAGATCTTG
11756699 TCTCCCTGAAGTTGCAGTGGAAA
66 TCTCCCT-AAGTTGCAGTGGAAA
* * * *
11756722 AGATCAAAGAAAGCAAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTAAAGATTGTAAATCCT
1 AGATCAAAG-AAGCAAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAGATTGCAGATCTT
* * * * *
11756787 GTCTCCCTAAATAGTAGTAGAGCA
65 GTCTCCCTAAGTTGCAGTGGA-AA
*
11756811 A-ATCAAAGAAGCAAGCATTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAGATTGC-GAATCTT
1 AGATCAAAGAAGCAAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAGATTGCAG-ATCTT
*
11756874 GTCTCCCTAAAGTTGCAGTGGAAC
65 GTCTCCCT-AAGTTGCAGTGGAAA
* ** * ** * * * *
11756898 AGATCAAAGATGGTGAGCCTTGACCCTTTAAGCAGTAGGGTAACAAGC-CAA-ATTACAGATCTT
1 AGATCAAAGA-AGCAAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAGATTGCAGATCTT
11756961 GTCTCCCTAAG
65 GTCTCCCTAAG
11756972 CAGTAGTGGA
Statistics
Matches: 206, Mismatches: 37, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
86 3 0.01
87 75 0.36
88 44 0.21
89 84 0.41
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (87 bp):
AGATCAAAGAAGCAAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAGATTGCAGATCTTG
TCTCCCTAAGTTGCAGTGGAAA
Found at i:11756856 original size:87 final size:87
Alignment explanation
Indices: 11756614--11756983 Score: 334
Period size: 87 Copynumber: 4.2 Consensus size: 87
11756604 ATAGATCTTA
* * * * *
11756614 TCCCTAAACAGTAGTGGAGCAGATAAAAGAAGGAAG-ACTTAGCCCCCTAAGTAGTAGGGTAACA
1 TCCCTAAATAGTAGTGGAGCAAATCAAAGAAGCAAGCA-TTAACCCCCTAAGTAGTAGGGTAACA
* * *
11756678 GACTGAAGATCGCAGATCTTGTC
65 GGCTGAAGATTGCAAATCTTGTC
* * * * *
11756701 TCCCTGAAGTTGCAGTGGA-AAAGATCAAAGAAAGCAAGCCTTAACCCCCTAAGTAGTAGGGTAA
1 TCCCT-AAATAGTAGTGGAGCAA-ATCAAAG-AAGCAAGCATTAACCCCCTAAGTAGTAGGGTAA
* * *
11756765 CAGGCTAAAGATTGTAAATCCTGTC
63 CAGGCTGAAGATTGCAAATCTTGTC
*
11756790 TCCCTAAATAGTAGTAGAGCAAATCAAAGAAGCAAGCATTAACCCCCTAAGTAGTAGGGTAACAG
1 TCCCTAAATAGTAGTGGAGCAAATCAAAGAAGCAAGCATTAACCCCCTAAGTAGTAGGGTAACAG
*
11756855 GCTGAAGATTGCGAATCTTGTC
66 GCTGAAGATTGCAAATCTTGTC
* * * * * ** * * ** *
11756877 TCCCTAAAGTTGCAGTGGAACAGATCAAAGATGGTGAGCCTTGACCCTTTAAGCAGTAGGGTAAC
1 TCCCTAAA-TAGTAGTGGAGCAAATCAAAGA-AGCAAGCATTAACCCCCTAAGTAGTAGGGTAAC
* * * *
11756942 AAGC-CAA-ATTACAGATCTTGTC
64 AGGCTGAAGATTGCAAATCTTGTC
**
11756964 TCCCTAAGCAGTAGTGGAGC
1 TCCCTAAATAGTAGTGGAGC
11756984 CGGTGAGCCT
Statistics
Matches: 227, Mismatches: 49, Indels: 15
0.78 0.17 0.05
Matches are distributed among these distances:
86 8 0.04
87 86 0.38
88 50 0.22
89 83 0.37
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.22
Consensus pattern (87 bp):
TCCCTAAATAGTAGTGGAGCAAATCAAAGAAGCAAGCATTAACCCCCTAAGTAGTAGGGTAACAG
GCTGAAGATTGCAAATCTTGTC
Found at i:11756937 original size:176 final size:176
Alignment explanation
Indices: 11756614--11756942 Score: 464
Period size: 176 Copynumber: 1.9 Consensus size: 176
11756604 ATAGATCTTA
* * * *
11756614 TCCCTAAACAGTAGTGGAGCAGATAAAAGAAGGAAGACTTAGCCCCCTAAGTAGTAGGGTAACAG
1 TCCCTAAACAGTAGTAGAGCAAATAAAAGAAGCAAGACTTAACCCCCTAAGTAGTAGGGTAACAG
*
11756679 ACTGAAGATCGCAGATCTTGTCTCCCTGAAGTTGCAGTGGAAAAGATCAAAGAAAGCAAGCCTTA
66 ACTGAAGATCGCAGATCTTGTCTCCCTAAAGTTGCAGTGGAAAAGATCAAAGAAAGCAAGCCTTA
*
11756744 ACCCCCTAAGTAGTAGGGTAACAGGCTAAAGATTGTAAATCCTGTC
131 ACCCCCTAAGCAGTAGGGTAACAGGCTAAAGATTGTAAATCCTGTC
* *
11756790 TCCCTAAATAGTAGTAGAGCAAATCAAAGAAGCAAG-CATTAACCCCCTAAGTAGTAGGGTAACA
1 TCCCTAAACAGTAGTAGAGCAAATAAAAGAAGCAAGAC-TTAACCCCCTAAGTAGTAGGGTAACA
* * * ** **
11756854 GGCTGAAGATTGC-GAATCTTGTCTCCCTAAAGTTGCAGTGGAACAGATCAAAGATGGTGAGCCT
65 GACTGAAGATCGCAG-ATCTTGTCTCCCTAAAGTTGCAGTGGAAAAGATCAAAGAAAGCAAGCCT
* **
11756918 TGACCCTTTAAGCAGTAGGGTAACA
129 TAACCCCCTAAGCAGTAGGGTAACA
11756943 AGCCAAATTA
Statistics
Matches: 133, Mismatches: 18, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
175 2 0.02
176 131 0.98
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.21
Consensus pattern (176 bp):
TCCCTAAACAGTAGTAGAGCAAATAAAAGAAGCAAGACTTAACCCCCTAAGTAGTAGGGTAACAG
ACTGAAGATCGCAGATCTTGTCTCCCTAAAGTTGCAGTGGAAAAGATCAAAGAAAGCAAGCCTTA
ACCCCCTAAGCAGTAGGGTAACAGGCTAAAGATTGTAAATCCTGTC
Found at i:11757036 original size:76 final size:76
Alignment explanation
Indices: 11756909--11757059 Score: 212
Period size: 76 Copynumber: 2.0 Consensus size: 76
11756899 GATCAAAGAT
* ** * * *
11756909 GGTGAGCCTTGACCCTTTAAGCAGTAGGGTAACAAGCCAAATTACAGATCTTGTCTCCCTAAGCA
1 GGTGAGCCTTAACCCCCTAAGCAGTAGGATAACAAGCCAAATTACAAATCTTATCTCCCTAAGCA
11756974 GTAGTGGAGCC
66 GTAGTGGAGCC
* * * *
11756985 GGTGAGCCTTAACCCCCTGAGCAGTAGGATAATAGGCCGAATTACAAATCTTATCTCCCTAAGCA
1 GGTGAGCCTTAACCCCCTAAGCAGTAGGATAACAAGCCAAATTACAAATCTTATCTCCCTAAGCA
11757050 GTAGTGGAGC
66 GTAGTGGAGC
11757060 AGATCAAAGA
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
76 65 1.00
ACGTcount: A:0.28, C:0.24, G:0.25, T:0.23
Consensus pattern (76 bp):
GGTGAGCCTTAACCCCCTAAGCAGTAGGATAACAAGCCAAATTACAAATCTTATCTCCCTAAGCA
GTAGTGGAGCC
Done.