Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167871.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_14, whole genome shotgun sequence
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: 22631831
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 114000 characters in sequence are not A, C, G, or T
File 86 of 125
Found at i:16969436 original size:18 final size:17
Alignment explanation
Indices: 16969394--16969442 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
16969384 TATACGACGT
*
16969394 TTTTGCATGAATTT-TTA
1 TTTTGCATG-ATTTAATA
*
16969411 TTTTGCATGTTTTAATA
1 TTTTGCATGATTTAATA
16969428 TTATTGCATGATTTA
1 TT-TTGCATGATTTA
16969443 GTTATGATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 3 0.11
17 13 0.48
18 11 0.41
ACGTcount: A:0.24, C:0.06, G:0.12, T:0.57
Consensus pattern (17 bp):
TTTTGCATGATTTAATA
Found at i:16970082 original size:17 final size:17
Alignment explanation
Indices: 16970032--16970082 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
16970022 TCATATGCTA
* *
16970032 AAAAATAGAAAAAAAAAC
1 AAAAATA-ACAAAAAATC
* *
16970050 AAAAATTACATAAAATC
1 AAAAATAACAAAAAATC
16970067 AAAAATAACAAAAAAT
1 AAAAATAACAAAAAAT
16970083 TAGAAAGGAA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
17 21 0.78
18 6 0.22
ACGTcount: A:0.76, C:0.08, G:0.02, T:0.14
Consensus pattern (17 bp):
AAAAATAACAAAAAATC
Found at i:16972932 original size:36 final size:36
Alignment explanation
Indices: 16972863--16972956 Score: 109
Period size: 36 Copynumber: 2.6 Consensus size: 36
16972853 ATCTTTTAAG
* * * *
16972863 GACTAAGAT-GTCAACCTCTCACTCCCTATCTTTCTA
1 GACTAAGATAG-CAACCTCTAATTTCCTACCTTTCTA
* *
16972899 GGCTAAGATAGCAATCTCTAATTTCCTACCTTTCTA
1 GACTAAGATAGCAACCTCTAATTTCCTACCTTTCTA
*
16972935 GACTAAGGTAGCAACCTCTAAT
1 GACTAAGATAGCAACCTCTAAT
16972957 CTCACTAAAC
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
36 47 0.98
37 1 0.02
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.32
Consensus pattern (36 bp):
GACTAAGATAGCAACCTCTAATTTCCTACCTTTCTA
Found at i:16975145 original size:18 final size:18
Alignment explanation
Indices: 16975122--16975161 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 18
16975112 TTTGTTATTT
16975122 TTTTAAAA-TTTTTCTATA
1 TTTTAAAATTTTTTCTA-A
16975140 TTTTAAAATTTTTTCTAA
1 TTTTAAAATTTTTTCTAA
16975158 TTTT
1 TTTT
16975162 TATTATTGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTTAAAATTTTTTCTAA
Found at i:16975162 original size:19 final size:17
Alignment explanation
Indices: 16975121--16975163 Score: 59
Period size: 19 Copynumber: 2.4 Consensus size: 17
16975111 CTTTGTTATT
16975121 TTTTTAAAATTTTTCTA
1 TTTTTAAAATTTTTCTA
16975138 TATTTTAAAATTTTTTCTAA
1 T-TTTTAAAA-TTTTTCT-A
16975158 TTTTTA
1 TTTTTA
16975164 TTATTGTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 1 0.04
18 8 0.35
19 12 0.52
20 2 0.09
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTTAAAATTTTTCTA
Found at i:16977267 original size:15 final size:15
Alignment explanation
Indices: 16977249--16977326 Score: 88
Period size: 15 Copynumber: 5.1 Consensus size: 15
16977239 ATTATTCATT
16977249 TAATTATATATATTA
1 TAATTATATATATTA
16977264 TAA-T-TATATATTA
1 TAATTATATATATTA
*
16977277 TAATTATATGTATTA
1 TAATTATATATATTA
16977292 TAATAATATATATGTATTA
1 TAAT--TATATA--TATTA
*
16977311 TAATTATATGTATTA
1 TAATTATATATATTA
16977326 T
1 T
16977327 GATAATAAAA
Statistics
Matches: 54, Mismatches: 3, Indels: 12
0.78 0.04 0.17
Matches are distributed among these distances:
13 12 0.22
14 2 0.04
15 21 0.39
17 10 0.19
19 9 0.17
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.53
Consensus pattern (15 bp):
TAATTATATATATTA
Found at i:16977271 original size:6 final size:7
Alignment explanation
Indices: 16977255--16977319 Score: 59
Period size: 6 Copynumber: 9.7 Consensus size: 7
16977245 CATTTAATTA
16977255 TATATAT
1 TATATAT
16977262 TATA-AT
1 TATATAT
16977268 TATATAT
1 TATATAT
16977275 TATA-AT
1 TATATAT
16977281 TATATGTAT
1 TATA--TAT
16977290 TATA-AT
1 TATATAT
*
16977296 AATATA-
1 TATATAT
*
16977302 TATGTAT
1 TATATAT
16977309 TATA-AT
1 TATATAT
16977315 TATAT
1 TATAT
16977320 GTATTATGAT
Statistics
Matches: 47, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
6 27 0.57
7 14 0.30
9 6 0.13
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (7 bp):
TATATAT
Found at i:16977273 original size:13 final size:13
Alignment explanation
Indices: 16977255--16977302 Score: 69
Period size: 13 Copynumber: 3.5 Consensus size: 13
16977245 CATTTAATTA
16977255 TATATATTATAAT
1 TATATATTATAAT
16977268 TATATATTATAAT
1 TATATATTATAAT
16977281 TATATGTATTATAAT
1 TATA--TATTATAAT
*
16977296 AATATAT
1 TATATAT
16977303 ATGTATTATA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
13 20 0.62
15 12 0.38
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (13 bp):
TATATATTATAAT
Found at i:16977280 original size:28 final size:27
Alignment explanation
Indices: 16977228--16977302 Score: 91
Period size: 28 Copynumber: 2.8 Consensus size: 27
16977218 TTATATATAA
*
16977228 ATATATATT-TTATTAT-TCATTTAATT
1 ATATATATTATAATTATAT-ATTTAATT
16977254 ATATATATTATAATTATATATTATAATT
1 ATATATATTATAATTATATATT-TAATT
* *
16977282 ATATGTATTATAATAATATAT
1 ATATATATTATAATTATATAT
16977303 ATGTATTATA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
26 9 0.21
27 9 0.21
28 25 0.58
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (27 bp):
ATATATATTATAATTATATATTTAATT
Found at i:16977284 original size:19 final size:17
Alignment explanation
Indices: 16977212--16977342 Score: 76
Period size: 18 Copynumber: 7.5 Consensus size: 17
16977202 TGTTTCATCC
* *
16977212 ATATGATTATATATAAAT
1 ATATTATTAT-TATAATT
*
16977230 ATA-TATT-TTATTATT
1 ATATTATTATTATAATT
16977245 CAT-TTAATTA-TATATATT
1 -ATATT-ATTATTATA-ATT
16977263 ATAATTATATATTATAATT
1 AT-ATTAT-TATTATAATT
*
16977282 ATATGTATTATAATAA-T
1 ATAT-TATTATTATAATT
16977299 ATA-TATGTATTATAATT
1 ATATTAT-TATTATAATT
* *
16977316 ATATGTATTATGATAATA
1 ATAT-TATTATTATAATT
*
16977334 AAATTATTA
1 ATATTATTA
16977343 GTTAATACCT
Statistics
Matches: 90, Mismatches: 9, Indels: 29
0.70 0.07 0.23
Matches are distributed among these distances:
15 8 0.09
16 11 0.12
17 24 0.27
18 28 0.31
19 15 0.17
20 4 0.04
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (17 bp):
ATATTATTATTATAATT
Found at i:16977687 original size:25 final size:25
Alignment explanation
Indices: 16977646--16977735 Score: 66
Period size: 24 Copynumber: 3.6 Consensus size: 25
16977636 ATATATATGA
*
16977646 ATTTATATTTTAATTATTTATT-TT
1 ATTTATATTTTAATTATGTATTATT
16977670 ATTT-TATTTTATAGTTATGTATTATT
1 ATTTATATTTTA-A-TTATGTATTATT
*
16977696 ATATTA-A--TAAAGTTAT-TATTTATT
1 AT-TTATATTTTAA-TTATGTA-TTATT
16977720 ATTTATTATTTTAATT
1 ATTTA-TATTTTAATT
16977736 TAATAAAAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 18
0.72 0.04 0.24
Matches are distributed among these distances:
23 12 0.23
24 18 0.34
25 11 0.21
26 6 0.11
27 6 0.11
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.64
Consensus pattern (25 bp):
ATTTATATTTTAATTATGTATTATT
Found at i:16979048 original size:21 final size:19
Alignment explanation
Indices: 16979003--16979055 Score: 61
Period size: 21 Copynumber: 2.6 Consensus size: 19
16978993 CGACTTCAGG
*
16979003 TATTTTTATTTTATTTTTT
1 TATTTTTATTTTATTTTTA
16979022 TCATTTTTACTTTTATTTTATA
1 T-ATTTTTA-TTTTATTTT-TA
16979044 TATTTTTTATTT
1 TA-TTTTTATTT
16979056 ATTCGTTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
19 1 0.03
20 7 0.24
21 13 0.45
22 8 0.28
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.77
Consensus pattern (19 bp):
TATTTTTATTTTATTTTTA
Found at i:16979056 original size:26 final size:25
Alignment explanation
Indices: 16979006--16979056 Score: 59
Period size: 26 Copynumber: 2.0 Consensus size: 25
16978996 CTTCAGGTAT
*
16979006 TTTTATTTTATTTTTTTCATTTTTAC
1 TTTTATTTTATTTTTTT-ATATTTAC
16979032 TTTTATTTTATATATTTTT-TATTTA
1 TTTTATTTTAT-T-TTTTTATATTTA
16979057 TTCGTTTTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
26 16 0.73
27 1 0.05
28 5 0.23
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (25 bp):
TTTTATTTTATTTTTTTATATTTAC
Found at i:16988004 original size:98 final size:98
Alignment explanation
Indices: 16987881--16988058 Score: 257
Period size: 98 Copynumber: 1.8 Consensus size: 98
16987871 TACACTAACC
*
16987881 CTTAAAAATCCATTAGTATAACACAATAAACCATATACCTACGATCAAAATATGTAATCCAATAA
1 CTTAAAAATCCATTAATATAACACAATAAACCATATACCTACGATCAAAATATGTAATCCAATAA
16987946 ATTTTTAACCATATGCATATACCATCAGTAAAA
66 ATTTTTAACCATATGCATATACCATCAGTAAAA
* ** * * * * * *
16987979 CTTAAAAATCCATTAATTTGGCACAATAAACCCTATACCTACGGTCAAAATGTGTATTTCGATAA
1 CTTAAAAATCCATTAATATAACACAATAAACCATATACCTACGATCAAAATATGTAATCCAATAA
*
16988044 ATTTTTAACCGTATG
66 ATTTTTAACCATATG
16988059 TCTATCTCCT
Statistics
Matches: 69, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
98 69 1.00
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (98 bp):
CTTAAAAATCCATTAATATAACACAATAAACCATATACCTACGATCAAAATATGTAATCCAATAA
ATTTTTAACCATATGCATATACCATCAGTAAAA
Found at i:16988264 original size:33 final size:33
Alignment explanation
Indices: 16988227--16988292 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
16988217 CCAACAATAT
*
16988227 AAACTTATATGTTTTAATTTTTCTTACCTATAC
1 AAACTTATATGTTTTAATTTTTCTTACATATAC
16988260 AAACTTATATGTTTTAATTTTTCTTACATATAC
1 AAACTTATATGTTTTAATTTTTCTTACATATAC
16988293 CAACAATTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.32, C:0.14, G:0.03, T:0.52
Consensus pattern (33 bp):
AAACTTATATGTTTTAATTTTTCTTACATATAC
Found at i:16988497 original size:22 final size:24
Alignment explanation
Indices: 16988446--16988503 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
16988436 AAGATTTTTT
* *
16988446 TTAATTATATTTTTAATTATTAATA
1 TTAATT-TATTTATAATCATTAATA
16988471 TTAATTTATTTATAATCA-TAATA
1 TTAATTTATTTATAATCATTAATA
*
16988494 -TAATATATTT
1 TTAATTTATTT
16988504 TCATATAAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
22 9 0.30
23 5 0.17
24 10 0.33
25 6 0.20
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (24 bp):
TTAATTTATTTATAATCATTAATA
Found at i:16992182 original size:28 final size:30
Alignment explanation
Indices: 16992129--16992194 Score: 100
Period size: 28 Copynumber: 2.2 Consensus size: 30
16992119 TTTTGAGAAT
*
16992129 TTTTATTTGAGAAAAATATTATGAATTAATA
1 TTTT-TTTGAGAAAAATATTAAGAATTAATA
16992160 TTTTTTTGA-AAAAA-ATTAAGAATTAATA
1 TTTTTTTGAGAAAAATATTAAGAATTAATA
16992188 TTTTTTT
1 TTTTTTT
16992195 AAGTTTATAC
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
28 20 0.59
29 5 0.15
30 5 0.15
31 4 0.12
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (30 bp):
TTTTTTTGAGAAAAATATTAAGAATTAATA
Found at i:16995568 original size:43 final size:43
Alignment explanation
Indices: 16995510--16995642 Score: 160
Period size: 43 Copynumber: 3.1 Consensus size: 43
16995500 AGAGAAAAGT
* * * *
16995510 CATTTCTTATTTTAAATTTGTTTAGGCTCTGTATAGAGAAGCC
1 CATTTCTTATATTAAAGTTATTTAGCCTCTGTATAGAGAAGCC
* * *
16995553 CATTTCCTATATTAAAGTTATTTAGCCTCTATATAAAGAAGCC
1 CATTTCTTATATTAAAGTTATTTAGCCTCTGTATAGAGAAGCC
* * * *
16995596 AATATCTTATTTTAAAGTTATTTAGCCTCTGTATAGAGGAG-C
1 CATTTCTTATATTAAAGTTATTTAGCCTCTGTATAGAGAAGCC
16995638 CATTT
1 CATTT
16995643 TTTTATATAA
Statistics
Matches: 74, Mismatches: 16, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
42 4 0.05
43 70 0.95
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.41
Consensus pattern (43 bp):
CATTTCTTATATTAAAGTTATTTAGCCTCTGTATAGAGAAGCC
Found at i:16995650 original size:86 final size:84
Alignment explanation
Indices: 16995514--16995671 Score: 201
Period size: 86 Copynumber: 1.9 Consensus size: 84
16995504 AAAAGTCATT
* * *
16995514 TCTTATTTTAAATTTGTTTAGGCTCTGTATAGAGAAGCCCATTTCCTATATTAAAGTTATTTAGC
1 TCTTATTTTAAAGTTATTTAGCCTCTGTATAGAGAAGCCCATTTCCTATA-TAAAGTTATTT-GC
16995579 CTCTATATAAAGAAGCCAATA
64 CTCTATATAAAGAAGCCAATA
* ** * * *
16995600 TCTTATTTTAAAGTTATTTAGCCTCTGTATAGAGGAG-CCATTTTTTTATATAAATTTGTTTGCT
1 TCTTATTTTAAAGTTATTTAGCCTCTGTATAGAGAAGCCCA-TTTCCTATATAAAGTTATTTGCC
16995664 TCTATATA
65 TCTATATA
16995672 GAGGAGTTTA
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
84 10 0.16
85 12 0.19
86 40 0.65
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.44
Consensus pattern (84 bp):
TCTTATTTTAAAGTTATTTAGCCTCTGTATAGAGAAGCCCATTTCCTATATAAAGTTATTTGCCT
CTATATAAAGAAGCCAATA
Found at i:16997021 original size:7 final size:6
Alignment explanation
Indices: 16997003--16997067 Score: 53
Period size: 6 Copynumber: 10.8 Consensus size: 6
16996993 CGACTTCAGG
* * * *
16997003 TATTTT TATTTT TATTTT T-TTTT CATTTTT TACTTT CATTTT ATATGTT
1 TATTTT TATTTT TATTTT TATTTT TA-TTTT TATTTT TATTTT -TATTTT
*
16997052 TATTTC T-TTTT TATTT
1 TATTTT TATTTT TATTT
16997068 ATTCATTTTA
Statistics
Matches: 45, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
5 8 0.18
6 28 0.62
7 9 0.20
ACGTcount: A:0.15, C:0.06, G:0.02, T:0.77
Consensus pattern (6 bp):
TATTTT
Found at i:16997070 original size:4 final size:4
Alignment explanation
Indices: 16997050--16997108 Score: 59
Period size: 4 Copynumber: 15.0 Consensus size: 4
16997040 ATTTTATATG
* * * *
16997050 TTTA TTTC TTT- TTTA TTTA TTCA TTTTA CTTA TTTA TTTA TTTA TCTA
1 TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTTA TTTA TTTA TTTA
16997098 -TTA TTTA TTTA
1 TTTA TTTA TTTA
16997109 AAATAGACTT
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
3 5 0.11
4 37 0.82
5 3 0.07
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:16997370 original size:21 final size:21
Alignment explanation
Indices: 16997328--16997370 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
16997318 GCTTTTTACT
*
16997328 TTTTTTTAAAAAAAGATCAAA
1 TTTTTTTAAAAAAAGATAAAA
16997349 TTTTTTTAAAATAAA-ATAAAA
1 TTTTTTTAAAA-AAAGATAAAA
16997370 T
1 T
16997371 AATATTTCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (21 bp):
TTTTTTTAAAAAAAGATAAAA
Found at i:16997984 original size:18 final size:18
Alignment explanation
Indices: 16997961--16997995 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
16997951 TTATGTATTT
16997961 TTTTTTTTTACTTTTTTC
1 TTTTTTTTTACTTTTTTC
*
16997979 TTTTTTTTTCCTTTTTT
1 TTTTTTTTTACTTTTTT
16997996 GTCAATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.03, C:0.11, G:0.00, T:0.86
Consensus pattern (18 bp):
TTTTTTTTTACTTTTTTC
Found at i:16998695 original size:20 final size:19
Alignment explanation
Indices: 16998660--16998697 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
16998650 TTTTCCCTTT
*
16998660 TTTCTTTTTTTGTTTATTC
1 TTTCTTTTTTTATTTATTC
16998679 TTTCTTTTTATTATTTATT
1 TTTCTTTTT-TTATTTATT
16998698 ATTATTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.11, C:0.08, G:0.03, T:0.79
Consensus pattern (19 bp):
TTTCTTTTTTTATTTATTC
Found at i:17000738 original size:12 final size:12
Alignment explanation
Indices: 17000708--17000798 Score: 56
Period size: 12 Copynumber: 7.1 Consensus size: 12
17000698 AGGATATAGA
* *
17000708 GTTTCACTTAAA
1 GTTTCATTTAAG
17000720 GTTTCATTTAAG
1 GTTTCATTTAAG
*
17000732 GTTTCATTTAGG
1 GTTTCATTTAAG
** *
17000744 GTTTTGTTTTAAAA
1 G-TTTCATTT-AAG
*
17000758 GTTTCATTTTAGG
1 GTTTCA-TTTAAG
*
17000771 GTTTTAGTTTTAAG
1 GTTTCA--TTTAAG
17000785 GTTTCACTTTAAG
1 GTTTCA-TTTAAG
17000798 G
1 G
17000799 GTTTTAGGTT
Statistics
Matches: 60, Mismatches: 15, Indels: 7
0.73 0.18 0.09
Matches are distributed among these distances:
12 22 0.37
13 22 0.37
14 16 0.27
ACGTcount: A:0.23, C:0.08, G:0.19, T:0.51
Consensus pattern (12 bp):
GTTTCATTTAAG
Found at i:17000773 original size:27 final size:28
Alignment explanation
Indices: 17000726--17000832 Score: 134
Period size: 27 Copynumber: 4.0 Consensus size: 28
17000716 TAAAGTTTCA
*
17000726 TTTAAGGTTTCA-TTT-AGGGTTTT-GT
1 TTTAAAGTTTCACTTTAAGGGTTTTAGT
*
17000751 TTTAAAAGTTTCA-TTTTAGGGTTTTAGT
1 TTT-AAAGTTTCACTTTAAGGGTTTTAGT
*
17000779 TTTAAGGTTTCACTTTAAGGGTTTTAG-
1 TTTAAAGTTTCACTTTAAGGGTTTTAGT
*
17000806 GTTAAAGTTTCACTTTAAGGGTTTTAG
1 TTTAAAGTTTCACTTTAAGGGTTTTAG
17000833 GTTAGGTTTT
Statistics
Matches: 73, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
25 3 0.04
26 11 0.15
27 41 0.56
28 18 0.25
ACGTcount: A:0.22, C:0.06, G:0.21, T:0.50
Consensus pattern (28 bp):
TTTAAAGTTTCACTTTAAGGGTTTTAGT
Found at i:17000797 original size:13 final size:13
Alignment explanation
Indices: 17000708--17000825 Score: 62
Period size: 14 Copynumber: 9.1 Consensus size: 13
17000698 AGGATATAGA
*
17000708 GTTTCAC-TTAAA
1 GTTTCACTTTAAG
17000720 GTTTCA-TTTAAG
1 GTTTCACTTTAAG
*
17000732 GTTTCA-TTTAGG
1 GTTTCACTTTAAG
*** *
17000744 GTTTTGTTTTAAAA
1 GTTTCACTTT-AAG
* *
17000758 GTTTCATTTTAGG
1 GTTTCACTTTAAG
* *
17000771 GTTTTAGTTTTAAG
1 GTTTCA-CTTTAAG
17000785 GTTTCACTTTAAGG
1 GTTTCACTTTAA-G
* ** *
17000799 GTTTTAGGTTAAA
1 GTTTCACTTTAAG
17000812 GTTTCACTTTAAG
1 GTTTCACTTTAAG
17000825 G
1 G
17000826 GTTTTAGGTT
Statistics
Matches: 79, Mismatches: 22, Indels: 9
0.72 0.20 0.08
Matches are distributed among these distances:
12 25 0.32
13 24 0.30
14 30 0.38
ACGTcount: A:0.24, C:0.08, G:0.19, T:0.49
Consensus pattern (13 bp):
GTTTCACTTTAAG
Found at i:17000843 original size:27 final size:26
Alignment explanation
Indices: 17000727--17000855 Score: 129
Period size: 27 Copynumber: 4.8 Consensus size: 26
17000717 AAAGTTTCAT
*
17000727 TTAAGGTTTCATTT-AGGGTTTT-GTT
1 TTAAGGTTTCATTTAAGGGTTTTAG-G
* * *
17000752 TTAAAAGTTTCATTTTAGGGTTTTAGTT
1 TT-AAGGTTTCATTTAAGGGTTTTAG-G
17000780 TTAAGGTTTCACTTTAAGGGTTTTAGG
1 TTAAGGTTTCA-TTTAAGGGTTTTAGG
*
17000807 TTAAAGTTTCACTTTAAGGGTTTTAGG
1 TTAAGGTTTCA-TTTAAGGGTTTTAGG
*
17000834 TT-AGGTTTTCATTTTAGGGTTT
1 TTAAGG-TTTCATTTAAGGGTTT
17000856 CAAAAATTTA
Statistics
Matches: 92, Mismatches: 7, Indels: 9
0.85 0.06 0.08
Matches are distributed among these distances:
25 2 0.02
26 23 0.25
27 49 0.53
28 18 0.20
ACGTcount: A:0.21, C:0.05, G:0.22, T:0.51
Consensus pattern (26 bp):
TTAAGGTTTCATTTAAGGGTTTTAGG
Found at i:17000856 original size:13 final size:13
Alignment explanation
Indices: 17000720--17000857 Score: 64
Period size: 14 Copynumber: 10.5 Consensus size: 13
17000710 TTCACTTAAA
*
17000720 GTTTCA-TTTAAG
1 GTTTCATTTTAGG
17000732 GTTTCA-TTTAGG
1 GTTTCATTTTAGG
** **
17000744 GTTTTGTTTTAAAA
1 GTTTCATTTT-AGG
17000758 GTTTCATTTTAGG
1 GTTTCATTTTAGG
* *
17000771 GTTTTAGTTTTAAG
1 GTTTCA-TTTTAGG
*
17000785 GTTTCACTTTAAGG
1 GTTTCA-TTTTAGG
* ** **
17000799 GTTTTAGGTTAAA
1 GTTTCATTTTAGG
*
17000812 GTTTCACTTTAAGG
1 GTTTCA-TTTTAGG
* **
17000826 GTTTTAGGTTAGG
1 GTTTCATTTTAGG
*
17000839 TTTTCATTTTAGG
1 GTTTCATTTTAGG
17000852 GTTTCA
1 GTTTCA
17000858 AAAATTTATG
Statistics
Matches: 86, Mismatches: 36, Indels: 7
0.67 0.28 0.05
Matches are distributed among these distances:
12 15 0.17
13 34 0.40
14 37 0.43
ACGTcount: A:0.21, C:0.07, G:0.22, T:0.51
Consensus pattern (13 bp):
GTTTCATTTTAGG
Found at i:17001123 original size:3 final size:3
Alignment explanation
Indices: 17001115--17001153 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
17001105 CAAAATCATT
17001115 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
17001154 GGTTCACACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:17001907 original size:22 final size:22
Alignment explanation
Indices: 17001877--17001921 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
17001867 TTTTTTATTC
*
17001877 TCTTATTTTTTCTATTAGTTTT
1 TCTTATTTTTTCCATTAGTTTT
* *
17001899 TCTTTTTTTTTCCATTGGTTTT
1 TCTTATTTTTTCCATTAGTTTT
17001921 T
1 T
17001922 TTTCCTACTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.09, C:0.11, G:0.07, T:0.73
Consensus pattern (22 bp):
TCTTATTTTTTCCATTAGTTTT
Found at i:17002671 original size:13 final size:14
Alignment explanation
Indices: 17002630--17002687 Score: 59
Period size: 13 Copynumber: 4.2 Consensus size: 14
17002620 AATTTTTAAT
17002630 TTTATTATTA-TTA
1 TTTATTATTATTTA
* *
17002643 TTAGTAATAGTATTTA
1 TT--TATTATTATTTA
17002659 TTTATTA-TATTTA
1 TTTATTATTATTTA
17002672 -TTATTATTATTTA
1 TTTATTATTATTTA
17002685 TTT
1 TTT
17002688 GGTTTTTTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
12 6 0.16
13 14 0.38
14 6 0.16
15 6 0.16
16 5 0.14
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (14 bp):
TTTATTATTATTTA
Found at i:17003069 original size:23 final size:22
Alignment explanation
Indices: 17003038--17003080 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
17003028 CTAATGAGAG
*
17003038 TTTACATTTTTGTATTGTTTTGT
1 TTTAAATTTTT-TATTGTTTTGT
*
17003061 TTTAAATTTTTTATTTTTTT
1 TTTAAATTTTTTATTGTTTT
17003081 ATTGTTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.16, C:0.02, G:0.07, T:0.74
Consensus pattern (22 bp):
TTTAAATTTTTTATTGTTTTGT
Found at i:17003228 original size:31 final size:31
Alignment explanation
Indices: 17003190--17003249 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
17003180 TAATGACTAA
17003190 GATTGAATCGCAAG-TCATATAAGGTGACCGC
1 GATTGAATCGCAAGTTCA-ATAAGGTGACCGC
* *
17003221 GATTGAATCGCTAGTTGAATAAGGTGACC
1 GATTGAATCGCAAGTTCAATAAGGTGACC
17003250 AGGACTAAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 24 0.92
32 2 0.08
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.25
Consensus pattern (31 bp):
GATTGAATCGCAAGTTCAATAAGGTGACCGC
Found at i:17003501 original size:32 final size:32
Alignment explanation
Indices: 17003451--17003621 Score: 141
Period size: 32 Copynumber: 5.3 Consensus size: 32
17003441 TTAGTAAAAC
* * *
17003451 TGGGCTTAAATTTCCATAAATGCCACCTAATT
1 TGGGCTTAAATTTTCATAAATGCCAACTAAAT
*
17003483 TGGGTTTAAATTTTCATAAATGCCAACTAAAT
1 TGGGCTTAAATTTTCATAAATGCCAACTAAAT
* * * ** *
17003515 TGGGCTTAATTTTTTCATTAGTGTTAACTAAAC
1 TGGGCTTAA-ATTTTCATAAATGCCAACTAAAT
17003548 TGGGCTTAAATTTTCATAAAT-CTC-A-TATAAT
1 TGGGCTTAAATTTTCATAAATGC-CAACTA-AAT
* * * * * *
17003579 CTGAGCTTAAATTTTTATGAGTGCTAGCTAAAT
1 -TGGGCTTAAATTTTCATAAATGCCAACTAAAT
17003612 TGGGCTTAAA
1 TGGGCTTAAA
17003622 ACCTAAGTGT
Statistics
Matches: 108, Mismatches: 24, Indels: 14
0.74 0.16 0.10
Matches are distributed among these distances:
30 2 0.02
31 3 0.03
32 71 0.66
33 30 0.28
34 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.39
Consensus pattern (32 bp):
TGGGCTTAAATTTTCATAAATGCCAACTAAAT
Found at i:17003594 original size:65 final size:64
Alignment explanation
Indices: 17003483--17003621 Score: 158
Period size: 65 Copynumber: 2.2 Consensus size: 64
17003473 CCACCTAATT
* * * * *
17003483 TGGGTTTAAATTTTCATAAATGCCAACTAAATTGGGCTTAATTTTTTCATTAGTGTTAACTAAAC
1 TGGGCTTAAATTTTCATAAATGCCAACTAAATTGAGCTTAAATTTTT-ATGAGTGCTAACTAAAC
*
17003548 TGGGCTTAAATTTTCATAAAT-CTC-A-TATAATCTGAGCTTAAATTTTTATGAGTGCTAGCTAA
1 TGGGCTTAAATTTTCATAAATGC-CAACTA-AAT-TGAGCTTAAATTTTTATGAGTGCTAACTAA
*
17003610 AT
63 AC
17003612 TGGGCTTAAA
1 TGGGCTTAAA
17003622 ACCTAAGTGT
Statistics
Matches: 64, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
63 2 0.03
64 28 0.44
65 34 0.53
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.40
Consensus pattern (64 bp):
TGGGCTTAAATTTTCATAAATGCCAACTAAATTGAGCTTAAATTTTTATGAGTGCTAACTAAAC
Found at i:17004554 original size:16 final size:15
Alignment explanation
Indices: 17004525--17004564 Score: 55
Period size: 14 Copynumber: 2.6 Consensus size: 15
17004515 TTCTTTTATA
17004525 CTTTTTTTCACTTTTT
1 CTTTTTTTCAC-TTTT
17004541 CATTTTTTTC-CTTTT
1 C-TTTTTTTCACTTTT
17004556 CTTTTTTTC
1 CTTTTTTTC
17004565 TCCACCTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 8 0.35
15 5 0.22
16 2 0.09
17 8 0.35
ACGTcount: A:0.05, C:0.20, G:0.00, T:0.75
Consensus pattern (15 bp):
CTTTTTTTCACTTTT
Found at i:17004589 original size:34 final size:32
Alignment explanation
Indices: 17004503--17004589 Score: 79
Period size: 34 Copynumber: 2.6 Consensus size: 32
17004493 CTTTTCCTTA
*
17004503 TTTTCTTTTTCTTTCTTTTATACTTTTTTTCACT
1 TTTTCTTTTTC-TTCTTTTATA-TTTTTTTCACC
*
17004537 TTTTCATTTTT-TTCCTTTTCT-TTTTTTCTCCACC
1 TTTTC-TTTTTCTT-CTTTTATATTTTTT-T-CACC
17004571 TTTTCTTTTTCATTCTTTT
1 TTTTCTTTTTC-TTCTTTT
17004590 TCCTTCTTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 12
0.76 0.03 0.20
Matches are distributed among these distances:
32 6 0.13
33 8 0.18
34 24 0.53
35 7 0.16
ACGTcount: A:0.07, C:0.21, G:0.00, T:0.72
Consensus pattern (32 bp):
TTTTCTTTTTCTTCTTTTATATTTTTTTCACC
Found at i:17005156 original size:31 final size:32
Alignment explanation
Indices: 17005107--17005166 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 32
17005097 GTCCTTTTTC
17005107 TTTCCCTTTTTTTCATCTTTTTTGTTGTTGCT
1 TTTCCCTTTTTTTCATCTTTTTTGTTGTTGCT
* *
17005139 TTTCTCTTTTTTT-ATCTTTTTTTTTGTT
1 TTTCCCTTTTTTTCATCTTTTTTGTTGTT
17005167 TTGTTTTGTC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 14 0.54
32 12 0.46
ACGTcount: A:0.03, C:0.15, G:0.07, T:0.75
Consensus pattern (32 bp):
TTTCCCTTTTTTTCATCTTTTTTGTTGTTGCT
Found at i:17005869 original size:10 final size:9
Alignment explanation
Indices: 17005844--17005868 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
17005834 GACTATTTTC
17005844 TTTTTTTAT
1 TTTTTTTAT
17005853 TTTTTTTAT
1 TTTTTTTAT
17005862 TTTTTTT
1 TTTTTTT
17005869 TGTTCTCTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (9 bp):
TTTTTTTAT
Found at i:17009635 original size:13 final size:13
Alignment explanation
Indices: 17009580--17009654 Score: 64
Period size: 14 Copynumber: 5.8 Consensus size: 13
17009570 TCACTCAAGG
*
17009580 TTTAGGGTTCCA-
1 TTTAGGGTTTCAT
**
17009592 TTTAAAGTTTCA-
1 TTTAGGGTTTCAT
* *
17009604 TTTAAGATTTCATT
1 TTTAGGGTTTCA-T
17009618 TTTAGGGTTTCAT
1 TTTAGGGTTTCAT
17009631 TTTAGGGTTTCACT
1 TTTAGGGTTTCA-T
*
17009645 TTAAGGGTTT
1 TTTAGGGTTT
17009655 TGGGTTACAG
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
12 19 0.37
13 13 0.25
14 20 0.38
ACGTcount: A:0.21, C:0.09, G:0.19, T:0.51
Consensus pattern (13 bp):
TTTAGGGTTTCAT
Found at i:17009642 original size:27 final size:26
Alignment explanation
Indices: 17009598--17009654 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 26
17009588 TCCATTTAAA
* *
17009598 GTTTCATTTAAGATTTCATTTTTAGG
1 GTTTCATTTAAGATTTCACTTTAAGG
* *
17009624 GTTTCATTTTAGGGTTTCACTTTAAGG
1 GTTTCA-TTTAAGATTTCACTTTAAGG
17009651 GTTT
1 GTTT
17009655 TGGGTTACAG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 6 0.23
27 20 0.77
ACGTcount: A:0.19, C:0.09, G:0.19, T:0.53
Consensus pattern (26 bp):
GTTTCATTTAAGATTTCACTTTAAGG
Found at i:17009972 original size:3 final size:3
Alignment explanation
Indices: 17009964--17009994 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
17009954 GGTTTTCAAA
17009964 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
17009995 ACCCAGCATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:17010802 original size:34 final size:34
Alignment explanation
Indices: 17010762--17010829 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
17010752 AAAAGGCTAA
17010762 GGACGTTTCATGTTTTCGCTAATCTTTTTTGGTT
1 GGACGTTTCATGTTTTCGCTAATCTTTTTTGGTT
17010796 GGACGTTTCATGTTTTCGCTAATCTTTTTTGGTT
1 GGACGTTTCATGTTTTCGCTAATCTTTTTTGGTT
17010830 TTTCTTTGCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.12, C:0.15, G:0.21, T:0.53
Consensus pattern (34 bp):
GGACGTTTCATGTTTTCGCTAATCTTTTTTGGTT
Found at i:17011643 original size:3 final size:3
Alignment explanation
Indices: 17011637--17011711 Score: 60
Period size: 3 Copynumber: 24.0 Consensus size: 3
17011627 GTTTTTTTTA
* * * * * *
17011637 ATT ATT ATA AGT ATT AGT ATT AGT ATT AGT ATT AGT ATTT ATTT ATTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT A-TT A-TT
*
17011685 ATT TTT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
17011712 TATTTTGTTT
Statistics
Matches: 57, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
3 47 0.82
4 10 0.18
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:17015577 original size:3 final size:3
Alignment explanation
Indices: 17015564--17015608 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
17015554 CATTCATTCA
*
17015564 TTC TCC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
17015609 CCACATACTA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
TTC
Found at i:17022703 original size:19 final size:19
Alignment explanation
Indices: 17022679--17022717 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
17022669 GATTTGACTG
17022679 TGGCTTGGTATTTATCATA
1 TGGCTTGGTATTTATCATA
* *
17022698 TGGCTTGTTTTTTATCATA
1 TGGCTTGGTATTTATCATA
17022717 T
1 T
17022718 CTTATACCTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.18, C:0.10, G:0.18, T:0.54
Consensus pattern (19 bp):
TGGCTTGGTATTTATCATA
Found at i:17022954 original size:2 final size:2
Alignment explanation
Indices: 17022947--17022981 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
17022937 CCACTATGGA
17022947 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
17022982 AGTGCTTTGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:17023864 original size:6 final size:6
Alignment explanation
Indices: 17023845--17023887 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
17023835 AAAATATATC
* *
17023845 TATCTA T-T-TA TATCTA TATCTA TATCTA TATATA TATATA TAT
1 TATCTA TATCTA TATCTA TATCTA TATCTA TATCTA TATCTA TAT
17023888 AAATGTGAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
4 3 0.09
5 2 0.06
6 29 0.85
ACGTcount: A:0.37, C:0.09, G:0.00, T:0.53
Consensus pattern (6 bp):
TATCTA
Found at i:17027294 original size:31 final size:31
Alignment explanation
Indices: 17027259--17027321 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
17027249 ATGCATTACA
** *
17027259 AAGTGAATTTGATGATGCCATCTCATTAATG
1 AAGTGAATTAAATGATACCATCTCATTAATG
*
17027290 AAGTGAATTAAATGATACTATCTCATTAATG
1 AAGTGAATTAAATGATACCATCTCATTAATG
17027321 A
1 A
17027322 GTAAGTTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (31 bp):
AAGTGAATTAAATGATACCATCTCATTAATG
Found at i:17027882 original size:22 final size:22
Alignment explanation
Indices: 17027857--17027917 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
17027847 AATTTAGTAA
17027857 TAAATTAGTAATAACTTAATAG
1 TAAATTAGTAATAACTTAATAG
* * * *
17027879 TAAATGAATGATAATTTAATAG
1 TAAATTAGTAATAACTTAATAG
*
17027901 TCAA-TAGTAGATAACTT
1 TAAATTAGTA-ATAACTT
17027918 CTTAGCAAAT
Statistics
Matches: 29, Mismatches: 9, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
21 2 0.07
22 27 0.93
ACGTcount: A:0.48, C:0.05, G:0.11, T:0.36
Consensus pattern (22 bp):
TAAATTAGTAATAACTTAATAG
Found at i:17028194 original size:22 final size:22
Alignment explanation
Indices: 17028159--17028216 Score: 55
Period size: 22 Copynumber: 2.6 Consensus size: 22
17028149 TTGATAGTAG
** * *
17028159 TAAATAATAAATAACTTAACAG
1 TAAATAATTGATAAATTAACAA
*
17028181 TAAATCAATT-ATAAATTAATAA
1 TAAAT-AATTGATAAATTAACAA
17028203 TAAATAATTGATAA
1 TAAATAATTGATAA
17028217 TTTATTAGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
21 4 0.13
22 23 0.77
23 3 0.10
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (22 bp):
TAAATAATTGATAAATTAACAA
Found at i:17028290 original size:22 final size:22
Alignment explanation
Indices: 17028169--17028336 Score: 128
Period size: 22 Copynumber: 7.7 Consensus size: 22
17028159 TAAATAATAA
*
17028169 ATAACTTAACAGTAAATCAATT-
1 ATAACTTAATAGTAAATC-ATTG
* * *
17028191 ATAAATTAATAATAAATAATTG
1 ATAACTTAATAGTAAATCATTG
* * * * *
17028213 ATAATTTATTAGTTATTAATTG
1 ATAACTTAATAGTAAATCATTG
* *
17028235 AAAACTTAAAAGTAAAT--TTG
1 ATAACTTAATAGTAAATCATTG
*
17028255 CATAACTTAGTAGTAAATCATTG
1 -ATAACTTAATAGTAAATCATTG
* * * *
17028278 ATAACATAATAGTTAATTATTA
1 ATAACTTAATAGTAAATCATTG
*
17028300 ATAACTTAATAGTAAATCATTC
1 ATAACTTAATAGTAAATCATTG
*
17028322 ATAATTTAATA-TAAA
1 ATAACTTAATAGTAAA
17028337 ATAGTAATAA
Statistics
Matches: 114, Mismatches: 28, Indels: 9
0.75 0.19 0.06
Matches are distributed among these distances:
20 3 0.03
21 21 0.18
22 87 0.76
23 3 0.03
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.38
Consensus pattern (22 bp):
ATAACTTAATAGTAAATCATTG
Found at i:17028442 original size:22 final size:22
Alignment explanation
Indices: 17028417--17028477 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
17028407 AAAAATTAAG
17028417 TAATAAATCAATGATAACATAA
1 TAATAAATCAATGATAACATAA
* * *
17028439 TAATAAAT-ATATAAAAATATAA
1 TAATAAATCA-ATGATAACATAA
* *
17028461 TAGTAAATCATTGATAA
1 TAATAAATCAATGATAA
17028478 TTTGTAGTAA
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
21 1 0.03
22 28 0.93
23 1 0.03
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.31
Consensus pattern (22 bp):
TAATAAATCAATGATAACATAA
Found at i:17028716 original size:22 final size:22
Alignment explanation
Indices: 17028691--17028738 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
17028681 ATAATGGCAC
17028691 ATCATTAATAAATTAGTA-TCAT
1 ATCATTAATAAATTAGTAGT-AT
*
17028713 ATCATTTATAAATTAGTAGTAT
1 ATCATTAATAAATTAGTAGTAT
17028735 ATCA
1 ATCA
17028739 ATGATAGCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 23 0.96
23 1 0.04
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.42
Consensus pattern (22 bp):
ATCATTAATAAATTAGTAGTAT
Found at i:17029114 original size:44 final size:44
Alignment explanation
Indices: 17029063--17029146 Score: 114
Period size: 44 Copynumber: 1.9 Consensus size: 44
17029053 AAATTAAGTG
* * * *
17029063 ATAATTTAGTAGTTAATAATTGAGAACTTGATAATAAATCGATA
1 ATAATTTAATAGTAAATAAGTGAGAACTTAATAATAAATCGATA
* *
17029107 ATAATTTAATAGTAAATTAGTGAGAACTTAATAGTAAATC
1 ATAATTTAATAGTAAATAAGTGAGAACTTAATAATAAATC
17029147 AATTTCAATT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 34 1.00
ACGTcount: A:0.46, C:0.05, G:0.13, T:0.36
Consensus pattern (44 bp):
ATAATTTAATAGTAAATAAGTGAGAACTTAATAATAAATCGATA
Found at i:17029157 original size:44 final size:44
Alignment explanation
Indices: 17029046--17029149 Score: 111
Period size: 44 Copynumber: 2.4 Consensus size: 44
17029036 CAATGATAGG
* * * * *
17029046 TTAATAA-AAATTAAGTGATAATTTAGTAGTTAATAATTGAGAAC
1 TTAATAATAAATCAA-TAATAATTTAATAGTAAATAAGTGAGAAC
* * *
17029090 TTGATAATAAATCGATAATAATTTAATAGTAAATTAGTGAGAAC
1 TTAATAATAAATCAATAATAATTTAATAGTAAATAAGTGAGAAC
*
17029134 TTAATAGTAAATCAAT
1 TTAATAATAAATCAAT
17029150 TTCAATTTTA
Statistics
Matches: 48, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
44 43 0.90
45 5 0.10
ACGTcount: A:0.48, C:0.04, G:0.12, T:0.36
Consensus pattern (44 bp):
TTAATAATAAATCAATAATAATTTAATAGTAAATAAGTGAGAAC
Found at i:17029456 original size:22 final size:22
Alignment explanation
Indices: 17029431--17029562 Score: 79
Period size: 22 Copynumber: 6.0 Consensus size: 22
17029421 AAATTAAGTT
*
17029431 GTAAATCAATGATAATATAATA
1 GTAAATCAATGATAATTTAATA
** * *** *
17029453 GTAAATGTATGTTAACACACTA
1 GTAAATCAATGATAATTTAATA
* *
17029475 GTTAATCATTGATAATTTAGAT-
1 GTAAATCAATGATAATTTA-ATA
* * *
17029497 GTAAATTATTGATAACTTAATA
1 GTAAATCAATGATAATTTAATA
* * * *
17029519 GTAAATCATTAATAATTTAGTT
1 GTAAATCAATGATAATTTAATA
17029541 GTAAAT-AAGTGATAATTTAATA
1 GTAAATCAA-TGATAATTTAATA
17029563 ACAAATTAGT
Statistics
Matches: 80, Mismatches: 27, Indels: 6
0.71 0.24 0.05
Matches are distributed among these distances:
21 3 0.04
22 76 0.95
23 1 0.01
ACGTcount: A:0.45, C:0.05, G:0.11, T:0.39
Consensus pattern (22 bp):
GTAAATCAATGATAATTTAATA
Found at i:17029501 original size:44 final size:44
Alignment explanation
Indices: 17029431--17029555 Score: 119
Period size: 44 Copynumber: 2.8 Consensus size: 44
17029421 AAATTAAGTT
* * * *
17029431 GTAAATCAATGATAATATA-ATAGTAAATGTA-TGTTAACACACTA
1 GTAAATCATTGATAATTTAGAT-GTAAAT-TATTGATAACACAATA
* **
17029475 GTTAATCATTGATAATTTAGATGTAAATTATTGATAACTTAATA
1 GTAAATCATTGATAATTTAGATGTAAATTATTGATAACACAATA
* * * *
17029519 GTAAATCATTAATAATTTAGTTGTAAATAAGTGATAA
1 GTAAATCATTGATAATTTAGATGTAAATTATTGATAA
17029556 TTTAATAACA
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
43 2 0.03
44 63 0.94
45 2 0.03
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.38
Consensus pattern (44 bp):
GTAAATCATTGATAATTTAGATGTAAATTATTGATAACACAATA
Found at i:17029561 original size:44 final size:44
Alignment explanation
Indices: 17029473--17029562 Score: 126
Period size: 44 Copynumber: 2.0 Consensus size: 44
17029463 GTTAACACAC
* * * *
17029473 TAGTTAATCATTGATAATTTAGATGTAAATTATTGATAACTTAA
1 TAGTAAATCATTAATAATTTAGATGTAAATAAGTGATAACTTAA
* *
17029517 TAGTAAATCATTAATAATTTAGTTGTAAATAAGTGATAATTTAA
1 TAGTAAATCATTAATAATTTAGATGTAAATAAGTGATAACTTAA
17029561 TA
1 TA
17029563 ACAAATTAGT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.43, C:0.03, G:0.11, T:0.42
Consensus pattern (44 bp):
TAGTAAATCATTAATAATTTAGATGTAAATAAGTGATAACTTAA
Found at i:17029598 original size:11 final size:11
Alignment explanation
Indices: 17029582--17029620 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
17029572 TTAATCATTG
17029582 ATAAATTAATA
1 ATAAATTAATA
*
17029593 ATAAATTAATT
1 ATAAATTAATA
* *
17029604 ATAACTTTATA
1 ATAAATTAATA
17029615 ATAAAT
1 ATAAAT
17029621 GATTAGTAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (11 bp):
ATAAATTAATA
Found at i:17029654 original size:96 final size:96
Alignment explanation
Indices: 17029473--17029664 Score: 226
Period size: 96 Copynumber: 2.0 Consensus size: 96
17029463 GTTAACACAC
* * *
17029473 TAGTTAATCATTGATAATTTAGATGTAAATTATTGATAACTTAATAGTAAATCATTAATAATTTA
1 TAGTTAATCATTGATAAATTAGATATAAATTATTGATAACTTAATAATAAATCATTAATAATTTA
* * *
17029538 GTTGTAAATAAGTGATAATTTAATAACAAAT
66 GTAGTAAATAAGTAACAATTTAATAACAAAT
* * *
17029569 TAGTTAATCATTGATAAATTA-ATAATAAATTAATT-ATAACTTTATAATAAATGATTAGTAATT
1 TAGTTAATCATTGATAAATTAGAT-ATAAATT-ATTGATAACTTAATAATAAATCATTAATAATT
* * * * *
17029632 TTGTAGTAAATTATTAACAATTTAGTAATAAAT
64 TAGTAGTAAATAAGTAACAATTTAATAACAAAT
17029665 CAGATATAAT
Statistics
Matches: 80, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
95 2 0.03
96 75 0.94
97 3 0.04
ACGTcount: A:0.46, C:0.04, G:0.09, T:0.42
Consensus pattern (96 bp):
TAGTTAATCATTGATAAATTAGATATAAATTATTGATAACTTAATAATAAATCATTAATAATTTA
GTAGTAAATAAGTAACAATTTAATAACAAAT
Found at i:17029661 original size:44 final size:43
Alignment explanation
Indices: 17029594--17029775 Score: 138
Period size: 44 Copynumber: 4.1 Consensus size: 43
17029584 AAATTAATAA
*
17029594 TAAATTAATT-ATAACTTTA-TAATAAATGATTAGTAATTTTGTAG
1 TAAATT-ATTAATAA-TTTAGTAATAAATGATTA-TAATTTAGTAG
* *
17029638 TAAATTATTAACAATTTAGTAATAAATCAGA-TATAATTTAATAG
1 TAAATTATTAATAATTTAGTAATAAAT--GATTATAATTTAGTAG
** * * * * *
17029682 TAAACCATTCATAAATTAATAGTAAAT-CTATATTAATTTAGTAG
1 TAAATTATTAATAATTTAGTAATAAATGAT-TA-TAATTTAGTAG
* * **
17029726 TAAATTATTAATAATTTAGTAATATATCATTGATAGCTTAGTAG
1 TAAATTATTAATAATTTAGTAATAAATGATT-ATAATTTAGTAG
17029770 TAAATT
1 TAAATT
17029776 GCTAATAACA
Statistics
Matches: 107, Mismatches: 22, Indels: 18
0.73 0.15 0.12
Matches are distributed among these distances:
43 9 0.08
44 92 0.86
45 4 0.04
46 2 0.02
ACGTcount: A:0.45, C:0.05, G:0.08, T:0.42
Consensus pattern (43 bp):
TAAATTATTAATAATTTAGTAATAAATGATTATAATTTAGTAG
Found at i:17029740 original size:22 final size:22
Alignment explanation
Indices: 17029594--17029798 Score: 112
Period size: 22 Copynumber: 9.3 Consensus size: 22
17029584 AAATTAATAA
*
17029594 TAAATTAATT-ATAACTTTA-TAA
1 TAAATT-ATTAATAA-TTTAGTAG
* * *
17029616 TAAATGATTAGTAATTTTGTAG
1 TAAATTATTAATAATTTAGTAG
* *
17029638 TAAATTATTAACAATTTAGTAA
1 TAAATTATTAATAATTTAGTAG
* * *
17029660 TAAATCA-GATATAATTTAATAG
1 TAAATTATTA-ATAATTTAGTAG
** * * *
17029682 TAAACCATTCATAAATTAATAG
1 TAAATTATTAATAATTTAGTAG
*
17029704 TAAATCTA-TATTAATTTAGTAG
1 TAAAT-TATTAATAATTTAGTAG
*
17029726 TAAATTATTAATAATTTAGTAA
1 TAAATTATTAATAATTTAGTAG
* * * **
17029748 TATATCATTGATAGCTTAGTAG
1 TAAATTATTAATAATTTAGTAG
** ** *
17029770 TAAATTGCTAATAACATAATAG
1 TAAATTATTAATAATTTAGTAG
17029792 TAAATTA
1 TAAATTA
17029799 ATGATAACTA
Statistics
Matches: 136, Mismatches: 41, Indels: 12
0.72 0.22 0.06
Matches are distributed among these distances:
21 9 0.07
22 126 0.93
23 1 0.01
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.40
Consensus pattern (22 bp):
TAAATTATTAATAATTTAGTAG
Found at i:17030107 original size:21 final size:20
Alignment explanation
Indices: 17030068--17030127 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 20
17030058 CTGATGACAT
17030068 AAAATTTATTAATAATTATC
1 AAAATTTATTAATAATTATC
17030088 AAAATTATATT-ATAAGTTATC
1 AAAATT-TATTAATAA-TTATC
*
17030109 AAAAGATTATTAA-AATTAT
1 AAAA-TTTATTAATAATTAT
17030128 ATCAAGAAGT
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
20 14 0.40
21 19 0.54
22 2 0.06
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (20 bp):
AAAATTTATTAATAATTATC
Found at i:17030140 original size:22 final size:22
Alignment explanation
Indices: 17030105--17030193 Score: 76
Period size: 21 Copynumber: 4.1 Consensus size: 22
17030095 TATTATAAGT
17030105 TATCAAAAGATTATTAAAATTA
1 TATCAAAAGATTATTAAAATTA
*
17030127 TATCAAGAAG-TTATTAAAATTT
1 TATCAA-AAGATTATTAAAATTA
* ** *
17030149 TAT-AAAAAATTACCAAAATTG
1 TATCAAAAGATTATTAAAATTA
* **
17030170 TATC-AATGATTACCAAAATTA
1 TATCAAAAGATTATTAAAATTA
17030191 TAT
1 TAT
17030194 TATAAGTTAT
Statistics
Matches: 56, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
20 2 0.04
21 31 0.55
22 20 0.36
23 3 0.05
ACGTcount: A:0.51, C:0.08, G:0.06, T:0.36
Consensus pattern (22 bp):
TATCAAAAGATTATTAAAATTA
Found at i:17032917 original size:2 final size:2
Alignment explanation
Indices: 17032910--17032938 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
17032900 GTCAAAAATA
17032910 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
17032939 TGCTTGTTGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:17034715 original size:14 final size:12
Alignment explanation
Indices: 17034684--17034708 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17034674 GGAAGAAATC
17034684 AAGAAATAAAAG
1 AAGAAATAAAAG
17034696 AAGAAATAAAAG
1 AAGAAATAAAAG
17034708 A
1 A
17034709 GAAGAAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (12 bp):
AAGAAATAAAAG
Found at i:17037750 original size:129 final size:129
Alignment explanation
Indices: 17037515--17037775 Score: 477
Period size: 129 Copynumber: 2.0 Consensus size: 129
17037505 GATAGTGACA
* *
17037515 TCAGCCCCACGAAAGCCTGGAACCTGGTTGAGGCCGCTGCTTCCATAGGGATTGGTAATTGGTGG
1 TCAGCCCCACGAAAGCCCGGAACCTGGTTGAGGCCGCTGCTTCCATAGGGATTGGGAATTGGTGG
17037580 CAAACGGTCCATGGTTGAGGTTGCAGTAAGAGACGGAGTTGGCTTCGTCTCAGTGACATCGGCC
66 CAAACGGTCCATGGTTGAGGTTGCAGTAAGAGACGGAGTTGGCTTCGTCTCAGTGACATCGGCC
* *
17037644 TCAGCCCCATGAAAGCCCGGAACCTGGTTGAGGCTGCTGCTTCCATAGGGATTGGGAATTGGTGG
1 TCAGCCCCACGAAAGCCCGGAACCTGGTTGAGGCCGCTGCTTCCATAGGGATTGGGAATTGGTGG
*
17037709 CAAACGGTCCATGGTTGAGGTTGCAGTAAGAGACGGGGTTGGCTTCGTCTCAGTGACATCGGCC
66 CAAACGGTCCATGGTTGAGGTTGCAGTAAGAGACGGAGTTGGCTTCGTCTCAGTGACATCGGCC
17037773 TCA
1 TCA
17037776 TGAAAGCCTG
Statistics
Matches: 127, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
129 127 1.00
ACGTcount: A:0.21, C:0.23, G:0.33, T:0.23
Consensus pattern (129 bp):
TCAGCCCCACGAAAGCCCGGAACCTGGTTGAGGCCGCTGCTTCCATAGGGATTGGGAATTGGTGG
CAAACGGTCCATGGTTGAGGTTGCAGTAAGAGACGGAGTTGGCTTCGTCTCAGTGACATCGGCC
Found at i:17040342 original size:15 final size:15
Alignment explanation
Indices: 17040322--17040351 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
17040312 AGCAAACCTA
*
17040322 TTTATTTTTTATTTT
1 TTTATTTTTGATTTT
17040337 TTTATTTTTGATTTT
1 TTTATTTTTGATTTT
17040352 AATTTTATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.00, G:0.03, T:0.83
Consensus pattern (15 bp):
TTTATTTTTGATTTT
Found at i:17041481 original size:30 final size:30
Alignment explanation
Indices: 17041408--17041481 Score: 78
Period size: 30 Copynumber: 2.5 Consensus size: 30
17041398 AATATATAAT
* * * *
17041408 TTTATTTCTTTCATTTTATTTATTTATTTA
1 TTTATTTATTTAATATTATTTATTCATTTA
* *
17041438 TTTGA-TAAATTAATATTATTTATTCATTTA
1 TTT-ATTTATTTAATATTATTTATTCATTTA
17041468 TTTATTTATTTAAT
1 TTTATTTATTTAAT
17041482 TTAAAATAAG
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
29 1 0.03
30 32 0.94
31 1 0.03
ACGTcount: A:0.28, C:0.04, G:0.01, T:0.66
Consensus pattern (30 bp):
TTTATTTATTTAATATTATTTATTCATTTA
Found at i:17041485 original size:5 final size:4
Alignment explanation
Indices: 17041408--17041484 Score: 64
Period size: 4 Copynumber: 18.0 Consensus size: 4
17041398 AATATATAAT
* ** *
17041408 TTTA TTTC TTTCA TTTTA TTTA TTTA TTTA TTTGA TAAA TTAA TATTA
1 TTTA TTTA TTT-A -TTTA TTTA TTTA TTTA TTT-A TTTA TTTA T-TTA
*
17041456 TTTA TTCA TTTA TTTA TTTA TTTAA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTT-A TTTA
17041485 AAATAAGTTT
Statistics
Matches: 60, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
4 47 0.78
5 10 0.17
6 3 0.05
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.66
Consensus pattern (4 bp):
TTTA
Found at i:17041667 original size:57 final size:58
Alignment explanation
Indices: 17041601--17041793 Score: 171
Period size: 57 Copynumber: 3.3 Consensus size: 58
17041591 AAATTTCAAG
* * *
17041601 AAAATTTGAAGTATTAATTTTTCCTTAAATAAAAAATATATTTTAAAAAATTAAT-GA
1 AAAACTTGAAGTATCAATTTTTCCTTAAATAAAAAATATATTTAAAAAAATTAATAGA
* * * * * **
17041658 CATACTTGAAATATCAATTTTTCTTTTAAA-AAAAAATAT-TTCAAAAAAATGTTTTGAGA
1 AAAACTTGAAGTATCAATTTTTC-CTTAAATAAAAAATATATTTAAAAAAAT-TAAT-AGA
* * **
17041717 AAAAGTTGAAGTATCAATTTTT-CTTAAATAAAAAA-ATATTTCAAAAAATTTTTGAGA
1 AAAACTTGAAGTATCAATTTTTCCTTAAATAAAAAATATATTTAAAAAAATTAAT-AGA
* *
17041774 AAAAATTGAAGTATCGATTT
1 AAAACTTGAAGTATCAATTT
17041794 AAGTTGAAGT
Statistics
Matches: 111, Mismatches: 19, Indels: 12
0.78 0.13 0.08
Matches are distributed among these distances:
56 9 0.08
57 62 0.56
58 20 0.18
59 20 0.18
ACGTcount: A:0.48, C:0.06, G:0.08, T:0.38
Consensus pattern (58 bp):
AAAACTTGAAGTATCAATTTTTCCTTAAATAAAAAATATATTTAAAAAAATTAATAGA
Found at i:17041855 original size:126 final size:128
Alignment explanation
Indices: 17041688--17041919 Score: 355
Period size: 126 Copynumber: 1.8 Consensus size: 128
17041678 TTCTTTTAAA
* *
17041688 AAAAAATATTTCAAAAAAATGTTTTGAGAAAAAGTTGAAGTATCAATTTTTCTTAAATAAAAAAA
1 AAAAAATATTTCAAAAAAATGTTTTGAGAAAAAGTTAAAGTATCAATTTTCCTTAAATAAAAAAA
** *
17041753 TATTTCAAAAAAT-TTTTG-AGAAAAAATTGAAGTATCGATTTAAGTTGAAGTTCGATTTTTCTT
66 T-TTGAAAAAAATGTTTTGAAG-AAAAATTGAAGTATCAATTTAAGTTGAAGTTCGATTTTTCTT
*
17041816 AAAAAA-ATTTC-AAAAAATGTTTTGAGAAAAAGTTAAAGTATCAATTTTCCTTAAATAAAAAGA
1 AAAAAATATTTCAAAAAAATGTTTTGAGAAAAAGTTAAAGTATCAATTTTCCTTAAATAAAAAAA
*
17041879 TTTGAAAAAAATGTTTTGAAGAAAAGTTGAAGTATCAATTT
66 TTTGAAAAAAATGTTTTGAAGAAAAATTGAAGTATCAATTT
17041920 TTCTTAAATA
Statistics
Matches: 95, Mismatches: 7, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
125 9 0.09
126 73 0.77
127 7 0.07
128 6 0.06
ACGTcount: A:0.47, C:0.05, G:0.12, T:0.35
Consensus pattern (128 bp):
AAAAAATATTTCAAAAAAATGTTTTGAGAAAAAGTTAAAGTATCAATTTTCCTTAAATAAAAAAA
TTTGAAAAAAATGTTTTGAAGAAAAATTGAAGTATCAATTTAAGTTGAAGTTCGATTTTTCTT
Found at i:17041895 original size:57 final size:55
Alignment explanation
Indices: 17041794--17041989 Score: 192
Period size: 57 Copynumber: 3.6 Consensus size: 55
17041784 GTATCGATTT
* *
17041794 AAGTTGAAGT-TCGATTTTTCTT--A-AAAAAAT-TTCAAAAAATGTTTTGAGAAA
1 AAGTTAAAGTATCAATTTTTCTTAAATAAAAAATATT-AAAAAATGTTTTGAGAAA
*
17041845 AAGTTAAAGTATCAATTTTCCTTAAATAAAAAGAT-TTGAAAAAAATGTTTTGA-AGAA
1 AAGTTAAAGTATCAATTTTTCTTAAATAAAAA-ATATT--AAAAAATGTTTTGAGA-AA
* **
17041902 AAGTTGAAGTATCAATTTTTCTTAAATAAAAAATATTTCAAAA-GTATTTGAGGAAA
1 AAGTTAAAGTATCAATTTTTCTTAAATAAAAAATATTAAAAAATGT-TTTGA-GAAA
* *
17041958 AAGTAGAAAGCATCAATTTTTCTTAAATAAAA
1 AAGT-TAAAGTATCAATTTTTCTTAAATAAAA
17041990 CATTAATTTT
Statistics
Matches: 122, Mismatches: 11, Indels: 18
0.81 0.07 0.12
Matches are distributed among these distances:
51 9 0.07
52 10 0.08
54 3 0.02
55 14 0.11
56 13 0.11
57 73 0.60
ACGTcount: A:0.47, C:0.06, G:0.12, T:0.35
Consensus pattern (55 bp):
AAGTTAAAGTATCAATTTTTCTTAAATAAAAAATATTAAAAAATGTTTTGAGAAA
Found at i:17045990 original size:8 final size:8
Alignment explanation
Indices: 17045971--17046024 Score: 58
Period size: 7 Copynumber: 6.8 Consensus size: 8
17045961 AGATGAAGTG
17045971 AAAAAATT
1 AAAAAATT
17045979 -AAAAATT
1 AAAAAATT
*
17045986 AAAAAATG
1 AAAAAATT
*
17045994 AAAAAATGA
1 AAAAAAT-T
17046003 AAAAAATAT
1 AAAAAAT-T
17046012 AAAAAA-T
1 AAAAAATT
17046019 AAAAAA
1 AAAAAA
17046025 AGAGAGAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
7 14 0.35
8 13 0.32
9 13 0.32
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.17
Consensus pattern (8 bp):
AAAAAATT
Found at i:17046015 original size:18 final size:18
Alignment explanation
Indices: 17045993--17046041 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 18
17045983 ATTAAAAAAT
*
17045993 GAAAAAATGAAAAAAATA
1 GAAAAAATGAAAAAAAGA
*
17046011 TAAAAAAT-AAAAAAAGA
1 GAAAAAATGAAAAAAAGA
*
17046028 GAGAAAATGAAAAA
1 GAAAAAATGAAAAA
17046042 TCAAATTGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
17 14 0.54
18 12 0.46
ACGTcount: A:0.78, C:0.00, G:0.12, T:0.10
Consensus pattern (18 bp):
GAAAAAATGAAAAAAAGA
Found at i:17046025 original size:8 final size:8
Alignment explanation
Indices: 17045979--17046025 Score: 58
Period size: 8 Copynumber: 5.6 Consensus size: 8
17045969 TGAAAAAATT
*
17045979 AAAAATTA
1 AAAAATAA
*
17045987 AAAAATGA
1 AAAAATAA
17045995 AAAAATGAA
1 AAAAAT-AA
17046004 AAAAATATA
1 AAAAATA-A
17046013 AAAAATAA
1 AAAAATAA
17046021 AAAAA
1 AAAAA
17046026 GAGAGAAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
8 20 0.57
9 15 0.43
ACGTcount: A:0.81, C:0.00, G:0.04, T:0.15
Consensus pattern (8 bp):
AAAAATAA
Found at i:17047255 original size:18 final size:18
Alignment explanation
Indices: 17047218--17047310 Score: 82
Period size: 18 Copynumber: 5.3 Consensus size: 18
17047208 GAATTCTTCC
* *
17047218 TTCTTACGAAACT-GAAA
1 TTCTTACAAAACTAAAAA
*
17047235 TTCTTATAAAACTAAAAA
1 TTCTTACAAAACTAAAAA
** *
17047253 TTCTTATGAATCTAAAAA
1 TTCTTACAAAACTAAAAA
* *
17047271 TTCTTGCAAAA-TTAAAA
1 TTCTTACAAAACTAAAAA
* *
17047288 TTTTTACGAAACTAAAAA
1 TTCTTACAAAACTAAAAA
17047306 TTCTT
1 TTCTT
17047311 GTGAATCTGA
Statistics
Matches: 59, Mismatches: 15, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
17 24 0.41
18 35 0.59
ACGTcount: A:0.45, C:0.13, G:0.05, T:0.37
Consensus pattern (18 bp):
TTCTTACAAAACTAAAAA
Found at i:17047311 original size:35 final size:36
Alignment explanation
Indices: 17047218--17047311 Score: 111
Period size: 35 Copynumber: 2.7 Consensus size: 36
17047208 GAATTCTTCC
* **
17047218 TTCTTACGAAACT-GAAATTCTTATAAAACTAAAAA
1 TTCTTACGAAACTAAAAATTCTTGCAAAACTAAAAA
* * *
17047253 TTCTTATGAATCTAAAAATTCTTGCAAAA-TTAAAA
1 TTCTTACGAAACTAAAAATTCTTGCAAAACTAAAAA
*
17047288 TTTTTACGAAACTAAAAATTCTTG
1 TTCTTACGAAACTAAAAATTCTTG
17047312 TGAATCTGAA
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
35 37 0.76
36 12 0.24
ACGTcount: A:0.45, C:0.13, G:0.06, T:0.36
Consensus pattern (36 bp):
TTCTTACGAAACTAAAAATTCTTGCAAAACTAAAAA
Found at i:17047323 original size:18 final size:18
Alignment explanation
Indices: 17047232--17047334 Score: 88
Period size: 18 Copynumber: 5.8 Consensus size: 18
17047222 TACGAAACTG
* *
17047232 AAATTCTTATAAAACTAA
1 AAATTCTTATGAATCTAA
17047250 AAATTCTTATGAATCTAA
1 AAATTCTTATGAATCTAA
*
17047268 AAATTCTTGCA-AAAT-T-A
1 AAATTCTT--ATGAATCTAA
* * *
17047285 AAATTTTTACGAAACTAA
1 AAATTCTTATGAATCTAA
*
17047303 AAATTCTTGTGAATCTGAA
1 AAATTCTTATGAATCT-AA
17047322 AAA-TCTTATGAAT
1 AAATTCTTATGAAT
17047335 TTAAGTCCTT
Statistics
Matches: 68, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
15 1 0.01
16 2 0.03
17 9 0.13
18 47 0.69
19 8 0.12
20 1 0.01
ACGTcount: A:0.47, C:0.11, G:0.07, T:0.36
Consensus pattern (18 bp):
AAATTCTTATGAATCTAA
Found at i:17047365 original size:16 final size:16
Alignment explanation
Indices: 17047325--17047368 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
17047315 ATCTGAAAAA
17047325 TCTTATGAATTTAAGT
1 TCTTATGAATTTAAGT
* *
17047341 CCTTGTGAATCTTAA-T
1 TCTTATGAAT-TTAAGT
17047357 TCTTATGAATTT
1 TCTTATGAATTT
17047369 GAAAATCTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
15 2 0.09
16 17 0.74
17 4 0.17
ACGTcount: A:0.27, C:0.11, G:0.11, T:0.50
Consensus pattern (16 bp):
TCTTATGAATTTAAGT
Found at i:17047567 original size:33 final size:34
Alignment explanation
Indices: 17047506--17047569 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 34
17047496 AATTATTGTG
* * *
17047506 AATCTGTAGTTTTTGTAAATATGAAATTCTTACT
1 AATCTGTAGTTCTTGCAAATATAAAATTCTTACT
*
17047540 AATCTG-AGTTCTTGCAAATGTAAAATTCTT
1 AATCTGTAGTTCTTGCAAATATAAAATTCTT
17047570 GCGAATATGA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
33 20 0.77
34 6 0.23
ACGTcount: A:0.33, C:0.11, G:0.12, T:0.44
Consensus pattern (34 bp):
AATCTGTAGTTCTTGCAAATATAAAATTCTTACT
Found at i:17047618 original size:15 final size:15
Alignment explanation
Indices: 17047600--17047631 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
17047590 AATTTAAATT
*
17047600 TTGTGAATCTTTGAA
1 TTGTGAATCTTTAAA
17047615 TTGTGAATCTTTAAA
1 TTGTGAATCTTTAAA
17047630 TT
1 TT
17047632 TCAAAACCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.06, G:0.16, T:0.50
Consensus pattern (15 bp):
TTGTGAATCTTTAAA
Found at i:17048008 original size:19 final size:19
Alignment explanation
Indices: 17047979--17048016 Score: 60
Period size: 18 Copynumber: 2.0 Consensus size: 19
17047969 TAAGTCCATT
17047979 TTTTTATTTATTTATTTTTA
1 TTTTTATTTA-TTATTTTTA
17047999 TTTTTA-TTATTATTTTTA
1 TTTTTATTTATTATTTTTA
17048017 AAAATAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 9 0.50
19 3 0.17
20 6 0.33
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTTTATTTATTATTTTTA
Found at i:17058690 original size:19 final size:20
Alignment explanation
Indices: 17058666--17058711 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
17058656 TTATGCTTAT
17058666 AAAAAAGAAAAAAAAAG-AG
1 AAAAAAGAAAAAAAAAGTAG
* *
17058685 AAAAAAGAAAAAGAAAGTAT
1 AAAAAAGAAAAAAAAAGTAG
17058705 AAAAAAG
1 AAAAAAG
17058712 GAATACCTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.04
Consensus pattern (20 bp):
AAAAAAGAAAAAAAAAGTAG
Found at i:17059465 original size:33 final size:33
Alignment explanation
Indices: 17059423--17059492 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
17059413 ATTGACATTG
** *
17059423 GCATAGCATGCATTGCATTTCTGAATGTTTAGT
1 GCATAGCATGCATTGCATTTAAGAAGGTTTAGT
17059456 GCATAGCATGCATTGCATTTAAGAAGGTTTAGT
1 GCATAGCATGCATTGCATTTAAGAAGGTTTAGT
17059489 GCAT
1 GCAT
17059493 GAATTTAAGA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (33 bp):
GCATAGCATGCATTGCATTTAAGAAGGTTTAGT
Found at i:17059792 original size:43 final size:43
Alignment explanation
Indices: 17059727--17060067 Score: 326
Period size: 43 Copynumber: 7.9 Consensus size: 43
17059717 GTCAAGAAAC
** * * * *
17059727 TTTATTTTTTCAAAGTTGTTGAGCCTTTGTTTAGAGGAACCTTA
1 TTTA-TTTTTCAAAGTCATTGAGCCTCTATTTAGAGGAGCTTTA
* * **
17059771 TTTATTTTTCCAAGTCATTGAGTCTCTGCTTAGAGGAGCTTTA
1 TTTATTTTTCAAAGTCATTGAGCCTCTATTTAGAGGAGCTTTA
* ** * * *
17059814 TTTATTTTTCCAAGTTGTTGAGCCTCTATTTAGATGAACTTTG
1 TTTATTTTTCAAAGTCATTGAGCCTCTATTTAGAGGAGCTTTA
* ** * * **
17059857 TTTATTTTCCAAAGTTGTTAAGCCTTTGCTTAGAGGAGCTTTA
1 TTTATTTTTCAAAGTCATTGAGCCTCTATTTAGAGGAGCTTTA
*
17059900 TTTATTTTTCAAAGT-AGTTGAGCCTTTATTTAGAGGAGCTTTA
1 TTTATTTTTCAAAGTCA-TTGAGCCTCTATTTAGAGGAGCTTTA
* * * *
17059943 TTTATTTTTCAAAGTCGTTGAGCCTCTATTTAAATGAGCTTTG
1 TTTATTTTTCAAAGTCATTGAGCCTCTATTTAGAGGAGCTTTA
* ** * *
17059986 TTTAGTTTAT-AAAGTCATTGATACTCTATTTAAAGAAGCTTTA
1 TTTA-TTTTTCAAAGTCATTGAGCCTCTATTTAGAGGAGCTTTA
*
17060029 TTTATTTTTCTAAAGTCATTGAGCCTCTGTTTAGAGGAG
1 TTTATTTTTC-AAAGTCATTGAGCCTCTATTTAGAGGAG
17060068 TTTTTATGAA
Statistics
Matches: 244, Mismatches: 48, Indels: 10
0.81 0.16 0.03
Matches are distributed among these distances:
42 4 0.02
43 209 0.86
44 31 0.13
ACGTcount: A:0.24, C:0.13, G:0.17, T:0.46
Consensus pattern (43 bp):
TTTATTTTTCAAAGTCATTGAGCCTCTATTTAGAGGAGCTTTA
Found at i:17059901 original size:129 final size:129
Alignment explanation
Indices: 17059727--17060067 Score: 423
Period size: 129 Copynumber: 2.6 Consensus size: 129
17059717 GTCAAGAAAC
* * * *
17059727 TTTATTTTTTCAAAGTTGTTGAGCCTTTGTTTAGAGGAACCTTATTTATTTTTCCAAGTCATTGA
1 TTTA-TTTTACAAAGTTGTTGAGCCTTTGTTTAGAGGAGCTTTATTTATTTTTCAAAGTCATTGA
* * * * *
17059792 GTCTCTGCTTAGAGGAGCTTTATTTATTTTTCCAAGTTGTTGAGCCTCTATTTAGATGAACTTTG
65 GCCTCTGTTTAGAGGAGCTTTATTTATTTTTCAAAGTCGTTGAGCCTCTATTTAAATGAACTTTG
* * *
17059857 TTTATTTTCCAAAGTTGTTAAGCCTTTGCTTAGAGGAGCTTTATTTATTTTTCAAAGT-AGTTGA
1 TTTATTTTACAAAGTTGTTGAGCCTTTGTTTAGAGGAGCTTTATTTATTTTTCAAAGTCA-TTGA
* * *
17059921 GCCTTTATTTAGAGGAGCTTTATTTATTTTTCAAAGTCGTTGAGCCTCTATTTAAATGAGCTTTG
65 GCCTCTGTTTAGAGGAGCTTTATTTATTTTTCAAAGTCGTTGAGCCTCTATTTAAATGAACTTTG
* * ** ** * * * *
17059986 TTTAGTTTATAAAGTCATTGATACTCTATTTAAAGAAGCTTTATTTATTTTTCTAAAGTCATTGA
1 TTTATTTTACAAAGTTGTTGAGCCTTTGTTTAGAGGAGCTTTATTTATTTTTC-AAAGTCATTGA
17060051 GCCTCTGTTTAGAGGAG
65 GCCTCTGTTTAGAGGAG
17060068 TTTTTATGAA
Statistics
Matches: 179, Mismatches: 29, Indels: 6
0.84 0.14 0.03
Matches are distributed among these distances:
128 1 0.01
129 149 0.83
130 28 0.16
131 1 0.01
ACGTcount: A:0.24, C:0.13, G:0.17, T:0.46
Consensus pattern (129 bp):
TTTATTTTACAAAGTTGTTGAGCCTTTGTTTAGAGGAGCTTTATTTATTTTTCAAAGTCATTGAG
CCTCTGTTTAGAGGAGCTTTATTTATTTTTCAAAGTCGTTGAGCCTCTATTTAAATGAACTTTG
Found at i:17061330 original size:2 final size:2
Alignment explanation
Indices: 17061323--17061351 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
17061313 CGAGGAGTTT
17061323 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
17061352 AAATGGACAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:17061890 original size:593 final size:590
Alignment explanation
Indices: 17060198--17062498 Score: 3356
Period size: 593 Copynumber: 4.0 Consensus size: 590
17060188 AAAGAGAGAT
* * *
17060198 AGCTATAGACAGGTTCTACTCAATTTGGTTTTCGTTAATTGAAAAAATAAATAATAAAAGTGGAA
1 AGCTATAGACAGGTTCTACTCAATTTGGTTTTTGTTAATTAAAAAAATAAATAATAAAAATGGAA
* *
17060263 AAAATGGAAAGAAAAAACTCTGGCAGGTTGAGTTTGTATGGGATTGTGTGTGAGGAGTTTAAATT
66 AAAATGGAAAGAAAAAACTCTGGCAGGTTGAGTTTGTATAGGATTATGTGTGAGGAGTTTAAATT
* * * * * *
17060328 AGACTTAAAATCTAAACTTAAAATTAAAAGGGAATTGAATTATTTTTTGGTATAGGGTTTTTTTT
131 GGACTTAAAATCTAAAGTTAAAATTAAAAGGGAATTGAATTCTTTTCTGGTATAGGGTTCTTTTG
* *
17060393 ATCAGAACCCTATAAATACAAACCTTAAGCAGGCATTAAAAAACACGCATAGAGGGAAATACATC
196 ATCAGAACCCTATAAATACAAACCTTAAGCAGGCATTAAAAAACACACACAGAGGGAAATACATC
* * *
17060458 AACACAGATACAAAAAAGTAGAAAAAAACACCTAC-AAAATAATCAAAAGTTTGTAGATTTTTTT
261 AACACAGATACAAAAAAGCAAAAAAAAACACCCACAAAAATAATCAAAAGTTTGTAGATTTTTTT
* * *
17060522 TTGTTTGAAAAAATTTTTGGCAGTTTTTTTTTTTGGAAAATTTTTAGAAAATTTCTAGATTCCAA
326 TGGTTTGAAAAAATTTTTGGTAG--TTTTTTTTTGGAAAA-TTTTGGAAAATTTCTAGATTCCAA
* *
17060587 TGAAATTTTCCAACGACTTTCTAAGATCCCCAGTTTCTGATGAGGTTCCCAGTTTTCGGCATCCA
388 TGAAATTTTCCAACGACTTTCTAAGATCCCCAGTTTCTGGTGAGGTTCCCAATTTTCGGCATCCA
* * *
17060652 TTTTTCAAAAATTGGTGAACATTTGGCTAAATTTTGGTGAACCAACCCAGATTCCAGCAAAAATC
453 TTTTTCAAAATTTGGTGAACATTTGGCTAAATTCTGGTGAACCAACCCAGATTCTAGCAAAAATC
* *
17060717 TCAGAATCCAATAAAGATTTAACTATGTTTTCGGGGAGTTT-----AGAGA-A-ACAGAGAGAGA
518 TCAGAATCCAATAAAGATTCAACTATGTTTTCGGGGAGTTTAGAAAAGAGAGAGAGAGAGAGAGA
17060775 AAA--GAC
583 AAATGGAC
* *
17060781 AGCCATAGACAGGTTCTACTCAATTTGGTTTTTGTTAATTAAAAATATAAATAATAAAAATGGAA
1 AGCTATAGACAGGTTCTACTCAATTTGGTTTTTGTTAATTAAAAAAATAAATAATAAAAATGGAA
*
17060846 AAAATGGAAAGAAAAAACTCTGGCAGGTTGAGTTTGTATAGGATTATGTGTAAGGAGTTTAAATT
66 AAAATGGAAAGAAAAAACTCTGGCAGGTTGAGTTTGTATAGGATTATGTGTGAGGAGTTTAAATT
* *
17060911 GGACTTAAAATCTAAAGTTAAAATTAAAAGGAAATTGAATTCTTTTCTGGTATAAGGTTCTTTTG
131 GGACTTAAAATCTAAAGTTAAAATTAAAAGGGAATTGAATTCTTTTCTGGTATAGGGTTCTTTTG
* * * * * *
17060976 ATCAGAGCCTTATAAATTCAAACCTTAAGTAGGCCTTAAAAAACACACACA-AAGG---------
196 ATCAGAACCCTATAAATACAAACCTTAAGCAGGCATTAAAAAACACACACAGAGGGAAATACATC
* * *
17061031 ------G-TACAAAAAAGCAAAAAAATACACCCACAAAAATAATCAAAAGTTTGTACATTTGTTT
261 AACACAGATACAAAAAAGCAAAAAAAAACACCCACAAAAATAATCAAAAGTTTGTAGATTTTTTT
*
17061089 TGGTTTGAAAAAATTTTTGGTAGTTTTTTTTTGGAAAATTTCTGGAAAATTTTTAGATTCCAATG
326 TGGTTTGAAAAAATTTTTGGTAGTTTTTTTTTGGAAAATTT-TGGAAAATTTCTAGATTCCAATG
* * * *
17061154 AAAATTTCCAGCGACCTTCTAAGATCCACAGTTTCTGGTGAGGTTCCCAATTTTCGGCATCCATT
390 AAATTTTCCAACGACTTTCTAAGATCCCCAGTTTCTGGTGAGGTTCCCAATTTTCGGCATCCATT
* * *
17061219 TTTCAAAATTTGGTGAACATTTGGCTAAATTCTGATGAACCAACCTAGATTCTAACAAAAATCTC
455 TTTCAAAATTTGGTGAACATTTGGCTAAATTCTGGTGAACCAACCCAGATTCTAGCAAAAATCTC
* *
17061284 AGAATCCAATAAAGATTCAACTATGATTTCGAGGAGTTTAGAGAGAGAGAGAGAGAGAGAGAGAG
520 AGAATCCAATAAAGATTCAACTATGTTTTCGGGGAGTTT--AGA-A-A-AGAGAGAGAGAGAGAG
17061349 AGAAAATGGAC
580 AGAAAATGGAC
17061360 AGCTATAGACAGGTTCTACTCAAATTT-GTTTTTGTTAATTAAAAAAATAAATAATAAAAATGGA
1 AGCTATAGACAGGTTCTACTC-AATTTGGTTTTTGTTAATTAAAAAAATAAATAATAAAAATGGA
* * * *
17061424 AAAAATGGAAAGAAAAAACTCTGACAGGTTGAGTTTTTATGGGATTGTGTGTGAGGAGTTTAAAT
65 AAAAATGGAAAGAAAAAACTCTGGCAGGTTGAGTTTGTATAGGATTATGTGTGAGGAGTTTAAAT
*
17061489 TGGACGTAAAATCTAAAGTTAAAATTAAAAGGGAATTGAATTCTTTTCTGGTATAGGGTT-TTTT
130 TGGACTTAAAATCTAAAGTTAAAATTAAAAGGGAATTGAATTCTTTTCTGGTATAGGGTTCTTTT
* *
17061553 TATCAGAACCCTATAAATACAAACCTTAAGTAGGCATTAAAAAACACACA-A-AGGGAAATACAT
195 GATCAGAACCCTATAAATACAAACCTTAAGCAGGCATTAAAAAACACACACAGAGGGAAATACAT
* *
17061616 TAACACATATACAAAAAAGCAAAAAAAAACACCCACAAAAATAATCAAAAGTTTGTAGATTTTTT
260 CAACACAGATACAAAAAAGCAAAAAAAAACACCCACAAAAATAATCAAAAGTTTGTAGATTTTTT
* *
17061681 TTGGTTTGAAAAAATTTTTGGTAGTCTTTTTTTGAAAAACTTTTGGAAAATTTCTAGATTCCAAT
325 TTGGTTTGAAAAAATTTTTGGTAGTTTTTTTTTGGAAAA-TTTTGGAAAATTTCTAGATTCCAAT
* * * * *
17061746 GAAACTTTCCAATGACTTTCTAAGATCCCTAATTTCTGGTGAGGTTCCCAATTTTCGACATCCAT
389 GAAATTTTCCAACGACTTTCTAAGATCCCCAGTTTCTGGTGAGGTTCCCAATTTTCGGCATCCAT
*
17061811 TTTTCAAATTTTGGTGAACATTTGGCTAAATTCTGGTGAACCAACCCAGATTCTAGCAAAAATCT
454 TTTTCAAAATTTGGTGAACATTTGGCTAAATTCTGGTGAACCAACCCAGATTCTAGCAAAAATCT
* * *
17061876 CAAAATCAAATAAAGATTCAACTATGTTTTTGGGGAGTTTAGAAAA-AGAGAGAGAGAGAGAGAA
519 CAGAATCCAATAAAGATTCAACTATGTTTTCGGGGAGTTTAGAAAAGAGAGAGAGAGAGAGAGAA
17061940 AATGGAC
584 AATGGAC
* * * * *
17061947 AACTATAGATAGGTTTTACTAAATTTGGTTTTTATTAATTAAAAAAATAAATAATAAAAATGGAA
1 AGCTATAGACAGGTTCTACTCAATTTGGTTTTTGTTAATTAAAAAAATAAATAATAAAAATGGAA
* *
17062012 AAAATGGAAAGAAAAAACTCTGGCAGGTTGAGTTTGTATAGGATTATTTGTGAAGAGTTTAAATT
66 AAAATGGAAAGAAAAAACTCTGGCAGGTTGAGTTTGTATAGGATTATGTGTGAGGAGTTTAAATT
*
17062077 GGACTTAAAATCTAAAGTTAAAATTAAAAGGGAATTGAATTCTTTTTTGGTATAGGGGTTCTTTT
131 GGACTTAAAATCTAAAGTTAAAATTAAAAGGGAATTGAATTCTTTTCTGGTATA-GGGTTCTTTT
* * *
17062142 GATCAGAACCCTATAAATACAAACCTTATGCAGGCTTTAAAAAACACACACAGAGGGAAATACAG
195 GATCAGAACCCTATAAATACAAACCTTAAGCAGGCATTAAAAAACACACACAGAGGGAAATACAT
*
17062207 CAACAC-GATACAAAAAA--AAAGAAAAAACACCCACAAAAATAATCAAAAGTTTGTAGATTTTC
260 CAACACAGATACAAAAAAGCAAA-AAAAAACACCCACAAAAATAATCAAAAGTTTGTAGATTTTT
* * *
17062269 TTTGGTTCGAAAAATTTTTTGGTAG--TTTTTTT------TTTTGAAAAATTTCTAGATTCCAAT
324 TTTGGTTTGAAAAAATTTTTGGTAGTTTTTTTTTGGAAAATTTTGGAAAATTTCTAGATTCCAAT
* * * *
17062326 GAAATTTTCTAGCGACTTTCTAAGATCCCCAGTTTCTGGTGAGGTTCCCAGTTTTTGGCATCCAT
389 GAAATTTTCCAACGACTTTCTAAGATCCCCAGTTTCTGGTGAGGTTCCCAATTTTCGGCATCCAT
*
17062391 TTTTCAAAATTTGGTGAACATTTGGCTAAATTCTGGTGAACCAACCCTGATTCTAGCAAAAATCT
454 TTTTCAAAATTTGGTGAACATTTGGCTAAATTCTGGTGAACCAACCCAGATTCTAGCAAAAATCT
* *
17062456 CAGAATCTAATAAAGATTCAACTATGTTCTCGGGGAGTTTAGA
519 CAGAATCCAATAAAGATTCAACTATGTTTTCGGGGAGTTTAGA
17062499 GTGAGGAAGA
Statistics
Matches: 1549, Mismatches: 129, Indels: 83
0.88 0.07 0.05
Matches are distributed among these distances:
564 3 0.00
565 190 0.12
566 23 0.01
567 49 0.03
575 5 0.00
576 1 0.00
577 17 0.01
578 49 0.03
579 176 0.11
580 187 0.12
582 3 0.00
583 223 0.14
586 5 0.00
587 197 0.13
588 9 0.01
589 114 0.07
590 12 0.01
591 19 0.01
593 264 0.17
594 3 0.00
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.32
Consensus pattern (590 bp):
AGCTATAGACAGGTTCTACTCAATTTGGTTTTTGTTAATTAAAAAAATAAATAATAAAAATGGAA
AAAATGGAAAGAAAAAACTCTGGCAGGTTGAGTTTGTATAGGATTATGTGTGAGGAGTTTAAATT
GGACTTAAAATCTAAAGTTAAAATTAAAAGGGAATTGAATTCTTTTCTGGTATAGGGTTCTTTTG
ATCAGAACCCTATAAATACAAACCTTAAGCAGGCATTAAAAAACACACACAGAGGGAAATACATC
AACACAGATACAAAAAAGCAAAAAAAAACACCCACAAAAATAATCAAAAGTTTGTAGATTTTTTT
TGGTTTGAAAAAATTTTTGGTAGTTTTTTTTTGGAAAATTTTGGAAAATTTCTAGATTCCAATGA
AATTTTCCAACGACTTTCTAAGATCCCCAGTTTCTGGTGAGGTTCCCAATTTTCGGCATCCATTT
TTCAAAATTTGGTGAACATTTGGCTAAATTCTGGTGAACCAACCCAGATTCTAGCAAAAATCTCA
GAATCCAATAAAGATTCAACTATGTTTTCGGGGAGTTTAGAAAAGAGAGAGAGAGAGAGAGAAAA
TGGAC
Found at i:17064433 original size:57 final size:55
Alignment explanation
Indices: 17064276--17064626 Score: 262
Period size: 57 Copynumber: 6.3 Consensus size: 55
17064266 TTTAGGAAAG
* * *
17064276 TTAATTTTT-TTAAAATAAAAAACTTTTTC-AAAAAA--TAAGGAAAAAGTTAAAATA
1 TTAATTTTTCTT-AAATAAAAAA-TATTTCAAAAAAATTTGAGG-AAAAGTTAAAGTA
* * * *
17064330 TTAATTTTTCCCTAAGAT---AAA-ATTTCAAGAAAATTTGAGAAAAAAGTTGAAGTA
1 TTAATTTTT-CTTAA-ATAAAAAATATTTCAAAAAAATTTGAG-GAAAAGTTAAAGTA
** * *
17064384 TTAATTGTTTCTTAAATAAAAAATATATTTTAAAAAA-TTGAGGAAAAAGTTGAACTA
1 TTAATT-TTTCTTAAATAAAAAATAT-TTCAAAAAAATTTGAGG-AAAAGTTAAAGTA
*
17064441 TTAATTTTTCCTTGAA-AAAAAA-ATTTCAAAAAAAGTTTTGAGGAAAAGTTAAAGTA
1 TTAATTTTT-CTTAAATAAAAAATATTTCAAAAAAA--TTTGAGGAAAAGTTAAAGTA
* * * *
17064497 TCAA-TTTGCGTTAAATAAAAAATATTTCAAAAAATTATTTGTGGAAAAGTTAAAATA
1 TTAATTTTTC-TTAAATAAAAAATATTTCAAAAAA--ATTTGAGGAAAAGTTAAAGTA
* *
17064554 TTAATTTTTCTTAAA-AAAAAA-ATTTCAAAAAAATGTTTTAAGGAAAAGTTGAAGTA
1 TTAATTTTTCTTAAATAAAAAATATTTCAAAAAAA---TTTGAGGAAAAGTTAAAGTA
*
17064610 TCAATTTTTCCTTAAAT
1 TTAATTTTT-CTTAAAT
17064627 GATGCATTAA
Statistics
Matches: 238, Mismatches: 30, Indels: 54
0.74 0.09 0.17
Matches are distributed among these distances:
51 4 0.02
52 5 0.02
53 6 0.03
54 42 0.18
55 25 0.11
56 65 0.27
57 79 0.33
58 11 0.05
59 1 0.00
ACGTcount: A:0.49, C:0.05, G:0.10, T:0.36
Consensus pattern (55 bp):
TTAATTTTTCTTAAATAAAAAATATTTCAAAAAAATTTGAGGAAAAGTTAAAGTA
Found at i:17064503 original size:56 final size:55
Alignment explanation
Indices: 17064317--17064625 Score: 272
Period size: 57 Copynumber: 5.5 Consensus size: 55
17064307 AAAATAAGGA
* * * * * *
17064317 AAAAGTTAAAATATTAATTTTTCCCT-AAGATAAAATTTCAAGAAAA-TTTGAGAA
1 AAAAGTTAAAGTATTAATTTTTCCTTAAAAAAAAAATTTCAAAAAAATTTTGAG-G
* **
17064371 AAAAGTTGAAGTATTAATTGTTT-CTTAAATAAAAAATATATTTTAAAAAA--TTGAGG
1 AAAAGTTAAAGTATTAATT-TTTCCTTAAA-AAAAAA-AT-TTCAAAAAAATTTTGAGG
* * *
17064427 AAAAAGTTGAACTATTAATTTTTCCTTGAAAAAAAAATTTCAAAAAAAGTTTTGAGG
1 -AAAAGTTAAAGTATTAATTTTTCCTTAAAAAAAAAATTTCAAAAAAA-TTTTGAGG
* * * * *
17064484 AAAAGTTAAAGTATCAA-TTTGCGTTAAATAAAAAATATTTCAAAAAATTATTTGTGG
1 AAAAGTTAAAGTATTAATTTTTCCTTAAA-AAAAAA-ATTTCAAAAAAAT-TTTGAGG
* *
17064541 AAAAGTTAAAATATTAATTTTT-CTTAAAAAAAAAATTTCAAAAAAATGTTTTAAGG
1 AAAAGTTAAAGTATTAATTTTTCCTTAAAAAAAAAATTTCAAAAAAA--TTTTGAGG
* *
17064597 AAAAGTTGAAGTATCAATTTTTCCTTAAA
1 AAAAGTTAAAGTATTAATTTTTCCTTAAA
17064626 TGATGCATTA
Statistics
Matches: 207, Mismatches: 31, Indels: 31
0.77 0.12 0.12
Matches are distributed among these distances:
54 27 0.13
55 26 0.13
56 64 0.31
57 80 0.39
58 10 0.05
ACGTcount: A:0.49, C:0.06, G:0.11, T:0.35
Consensus pattern (55 bp):
AAAAGTTAAAGTATTAATTTTTCCTTAAAAAAAAAATTTCAAAAAAATTTTGAGG
Found at i:17064547 original size:113 final size:110
Alignment explanation
Indices: 17064288--17064616 Score: 359
Period size: 113 Copynumber: 3.0 Consensus size: 110
17064278 AATTTTTTTA
* * * * *
17064288 AAATAAAAAACT-TTTTC-AAAAAA-TAAGGAAAAAGTTAAAATATTAATTTTTCCCTAAGATAA
1 AAATAAAAAA-TATATTCAAAAAAATTGAGGAAAAAGTTAAAATATTAATTTTTCCTTAAAAAAA
* * * *
17064350 AATTTCAAGAAAA--TTTGAGAAAAAAGTTGAAGTATTAATTGTTTCTT
65 AATTTCAAAAAAAGTTTTGAG-GAAAAGTTGAAGTATCAA-T-TTGCTT
** * *
17064397 AAATAAAAAATATATTTTAAAAAATTGAGGAAAAAGTTGAACTATTAATTTTTCCTTGAAAAAAA
1 AAATAAAAAATATATTCAAAAAAATTGAGGAAAAAGTTAAAATATTAATTTTTCCTT-AAAAAAA
*
17064462 AATTTCAAAAAAAGTTTTGAGGAAAAGTTAAAGTATCAATTTGCGTT
65 AATTTCAAAAAAAGTTTTGAGGAAAAGTTGAAGTATCAATTTGC-TT
*
17064509 AAATAAAAAATAT-TTCAAAAAATTATTTGTGG-AAAAGTTAAAATATTAATTTTT-CTTAAAAA
1 AAATAAAAAATATATTCAAAAAA--A-TTGAGGAAAAAGTTAAAATATTAATTTTTCCTT-AAAA
*
17064571 AAAAATTTCAAAAAAATGTTTTAAGGAAAAGTTGAAGTATCAATTT
62 AAAAATTTCAAAAAAA-GTTTTGAGGAAAAGTTGAAGTATCAATTT
17064617 TTCCTTAAAT
Statistics
Matches: 188, Mismatches: 21, Indels: 18
0.83 0.09 0.08
Matches are distributed among these distances:
108 1 0.01
109 13 0.07
110 6 0.03
111 38 0.20
112 56 0.30
113 63 0.34
114 11 0.06
ACGTcount: A:0.50, C:0.05, G:0.11, T:0.34
Consensus pattern (110 bp):
AAATAAAAAATATATTCAAAAAAATTGAGGAAAAAGTTAAAATATTAATTTTTCCTTAAAAAAAA
ATTTCAAAAAAAGTTTTGAGGAAAAGTTGAAGTATCAATTTGCTT
Found at i:17067440 original size:3 final size:3
Alignment explanation
Indices: 17067434--17067464 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
17067424 ATCCTTTTTT
*
17067434 TAA TAA TAA TAA TAA TTA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
17067465 TATTATTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:17067456 original size:15 final size:15
Alignment explanation
Indices: 17067436--17067467 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
17067426 CCTTTTTTTA
17067436 ATAATAATAATAATT
1 ATAATAATAATAATT
17067451 ATAATAATAATAATT
1 ATAATAATAATAATT
17067466 AT
1 AT
17067468 TATTATTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
ATAATAATAATAATT
Found at i:17069778 original size:59 final size:59
Alignment explanation
Indices: 17069706--17070417 Score: 705
Period size: 59 Copynumber: 11.7 Consensus size: 59
17069696 TTTTTTAGAA
* *
17069706 AAAATTGATACTTTCAACTTTTCCCCAAAAATA-ATTTTTGGAAATTTCGATTTTC-AAGG
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTT--ATTTTCTAAGG
** *
17069765 AAAATTGATACTTTCAACTTTT-CCTCAAAAACCCTTTTTTTGAAAATTTA-TTTCTAAGG
1 AAAATTGATACTTTCAACTTTTCCCT-AAAAA-TATTTTTTTGGAAATTTATTTTCTAAGG
*
17069824 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTT-GAAATTTTGATTTTC-AAGG
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAA-TTT-ATTTTCTAAGG
*
17069883 AAAATTGATACTTTCAACTTTTCCCCAAAAATACTTTTTTTGGAAATTTATTTTTCTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTTGGAAATTTA-TTTTC---TAAGG
* *
17069947 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTTGAAATTTA-TTTCTGAGG
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATA--TTTTTTTGGAAATTTATTTTCTAAGG
*
17070007 AAAATTGATACTTTCAACTTTT-CCTCAAAAATA-TTTTTTGGAAATTTA-TTTCTAAGA
1 AAAATTGATACTTTCAACTTTTCCCT-AAAAATATTTTTTTGGAAATTTATTTTCTAAGG
* * *
17070064 AAAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTTGAAATTTTTTATTTTTATTTAAA
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATAT-TTTTTTGGAAA---TTTA--TTT-TCTAAG
17070129 G
59 G
** * *** * * * * *** * *
17070130 AAAATAAAAAATAAATAAAAAGAATATTACAT-AAACCCTTTTTTTGAAAATTT-CTTTCTAAGG
1 AAAAT---TGAT-ACT-TTCA-ACTTTTCCCTAAAAATATTTTTTTGGAAATTTATTTTCTAAGG
*
17070193 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTTGATTTTC-AAGG
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTTGGAAA-TTT-ATTTTCTAAGG
*
17070254 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTATTTTTCTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTTGGAAATTTA-TTTTC---TAAGG
* *
17070318 AAAATTGATACTTTTAACTTTTCCCTAAAAAATATTTTTTTTGGAAATTTA-TTTCTAAGA
1 AAAATTGATACTTTCAACTTTTCCCT-AAAAATA-TTTTTTTGGAAATTTATTTTCTAAGG
17070378 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTT
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTT
17070418 TTGGAATTTT
Statistics
Matches: 551, Mismatches: 58, Indels: 89
0.79 0.08 0.13
Matches are distributed among these distances:
57 59 0.11
58 30 0.05
59 131 0.24
60 96 0.17
61 66 0.12
62 8 0.01
63 18 0.03
64 67 0.12
65 40 0.07
66 9 0.02
67 3 0.01
69 2 0.00
70 11 0.02
71 5 0.01
72 6 0.01
ACGTcount: A:0.35, C:0.12, G:0.07, T:0.45
Consensus pattern (59 bp):
AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTATTTTCTAAGG
Found at i:17070254 original size:61 final size:61
Alignment explanation
Indices: 17070168--17070427 Score: 377
Period size: 60 Copynumber: 4.2 Consensus size: 61
17070158 ACATAAACCC
* *
17070168 TTTTTTTGAAAATTT-CTTTCTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATT
1 TTTTTTTGAAATTTTATTTTCTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATT
17070228 TTTTTTTGAAATTTTGATTTTC-AAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATT
1 TTTTTTTGAAATTTT-ATTTTCTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATT
*
17070289 TTTTTTTGAAA-TTTATTTTTCTTTTAAGGAAAATTGATACTTTTAACTTTTCCCTAAAAAATAT
1 TTTTTTTGAAATTTTA-TTTTC---TAAGGAAAATTGATACTTTCAACTTTTCCCT-AAAAATAT
17070353 T
61 T
* *
17070354 TTTTTTGGAAA-TTTA-TTTCTAAGAAAAATTGATACTTTCAACTTTTCCCTAAAAATATT
1 TTTTTTTGAAATTTTATTTTCTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATT
*
17070413 TTTTTTTGGAATTTT
1 TTTTTTTGAAATTTT
17070428 TTATTTTTAT
Statistics
Matches: 183, Mismatches: 8, Indels: 18
0.88 0.04 0.09
Matches are distributed among these distances:
59 19 0.10
60 54 0.30
61 50 0.27
62 4 0.02
63 4 0.02
64 29 0.16
65 23 0.13
ACGTcount: A:0.32, C:0.11, G:0.07, T:0.50
Consensus pattern (61 bp):
TTTTTTTGAAATTTTATTTTCTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATT
Found at i:17070428 original size:314 final size:311
Alignment explanation
Indices: 17069857--17070487 Score: 1013
Period size: 314 Copynumber: 2.0 Consensus size: 311
17069847 CCCAAAAATA
*
17069857 TTTTTTTGAAATTTTGATTTTCAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATACTTTTT
1 TTTTTTTGAAAATTTGATTTTCAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATACTTTTT
** *
17069922 TTGGAAATTTATTTTTCTTTTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTT
66 TTGGAAATTTATTGATCTTTCAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTT
* *
17069987 TTTGAAATTTATTTCTGAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGGAAAT
131 TTTGAAATTTATTTCTAAGGAAAATTGATACTTTCAACTTTTCCTAAAAAATATTTTTTGGAAAT
17070052 TTATTTCTAAGAAAAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTTGAAATTTTTTA
196 TTATTTCTAAGAAAAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTTGAAATTTTTTA
*
17070117 TTTTTATTTAAAGAAAATAAAAAATAAATAAAAAGAATATTACATAAACCC
261 TTTTTATTTAAAGAAAATAAAAAAAAAATAAAAAGAATATTACATAAACCC
* * *
17070168 TTTTTTTGAAAATTT--CTTTCTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTT
1 TTTTTTTGAAAATTTGATTTTC-AAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATACTTTT
*
17070231 TTTTGAAA-TT-TTGAT-TTTCAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTT
65 TTTGGAAATTTATTGATCTTTCAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTT
*
17070292 TTTTGAAATTTATTTTTCTTTTAAGGAAAATTGATACTTTTAACTTTTCCCTAAAAAATATTTTT
130 TTTTGAAATTTA--TTTC---TAAGGAAAATTGATACTTTCAACTTTT-CCTAAAAAATA--TTT
* *
17070357 TTTGGAAATTTATTTCTAAGAAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGG
187 TTTGGAAATTTATTTCTAAGAAAAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTTGA
17070422 AATTTTTTATTTTTATTTAAAGAAAATAAAAAAAAAATAAAAAGAATATTACATAAACCC
252 AATTTTTTATTTTTATTTAAAGAAAATAAAAAAAAAATAAAAAGAATATTACATAAACCC
17070482 TTTTTT
1 TTTTTT
17070488 AATAAATAAA
Statistics
Matches: 297, Mismatches: 14, Indels: 15
0.91 0.04 0.05
Matches are distributed among these distances:
306 17 0.06
307 40 0.13
308 7 0.02
309 6 0.02
310 47 0.16
311 39 0.13
312 10 0.03
314 131 0.44
ACGTcount: A:0.37, C:0.10, G:0.07, T:0.46
Consensus pattern (311 bp):
TTTTTTTGAAAATTTGATTTTCAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATACTTTTT
TTGGAAATTTATTGATCTTTCAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTT
TTTGAAATTTATTTCTAAGGAAAATTGATACTTTCAACTTTTCCTAAAAAATATTTTTTGGAAAT
TTATTTCTAAGAAAAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTTGAAATTTTTTA
TTTTTATTTAAAGAAAATAAAAAAAAAATAAAAAGAATATTACATAAACCC
Found at i:17070508 original size:12 final size:11
Alignment explanation
Indices: 17070488--17070553 Score: 62
Period size: 12 Copynumber: 5.7 Consensus size: 11
17070478 ACCCTTTTTT
*
17070488 AATAAATAAAA
1 AATAAAAAAAA
17070499 AATAAAATAAACA
1 AATAAAA-AAA-A
*
17070512 AATAAACAAAGA
1 AATAAA-AAAAA
17070524 AATAAAAAAAA
1 AATAAAAAAAA
*
17070535 ATTTAAAAAAAA
1 A-ATAAAAAAAA
17070547 AA-AAAAA
1 AATAAAAA
17070554 CCTGGAGCGG
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
10 5 0.11
11 11 0.24
12 20 0.43
13 9 0.20
14 1 0.02
ACGTcount: A:0.82, C:0.03, G:0.02, T:0.14
Consensus pattern (11 bp):
AATAAAAAAAA
Found at i:17070890 original size:19 final size:19
Alignment explanation
Indices: 17070863--17070905 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
17070853 ACACCGGTGC
*
17070863 CGGATTCTGGAAATTTCGT
1 CGGAATCTGGAAATTTCGT
17070882 CGGAATCTGGAAATTTCGT
1 CGGAATCTGGAAATTTCGT
17070901 CGGAA
1 CGGAA
17070906 GTTGGCCGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (19 bp):
CGGAATCTGGAAATTTCGT
Found at i:17071649 original size:12 final size:12
Alignment explanation
Indices: 17071560--17071654 Score: 54
Period size: 12 Copynumber: 7.8 Consensus size: 12
17071550 TATATACATA
*
17071560 AATAAAAAATAC
1 AATAAATAATAC
*
17071572 ACATAAATATTAAC
1 A-ATAAATAAT-AC
*
17071586 AAAAAATAAATA-
1 AATAAAT-AATAC
17071598 AATAAATATATAC
1 AATAAATA-ATAC
*
17071611 -ATATATTAATAC
1 AATA-AATAATAC
*
17071623 -AT-AATAATAAT
1 AATAAATAAT-AC
17071634 AATAAATAATAC
1 AATAAATAATAC
*
17071646 AATACATAA
1 AATAAATAA
17071655 AATACAAAAG
Statistics
Matches: 64, Mismatches: 10, Indels: 18
0.70 0.11 0.20
Matches are distributed among these distances:
10 5 0.08
11 2 0.03
12 30 0.47
13 22 0.34
14 5 0.08
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.27
Consensus pattern (12 bp):
AATAAATAATAC
Found at i:17071654 original size:16 final size:15
Alignment explanation
Indices: 17071553--17071655 Score: 59
Period size: 16 Copynumber: 6.6 Consensus size: 15
17071543 ATATATATAT
*
17071553 ATACATAAATAAAAA
1 ATACATAAATAATAA
*
17071568 ATACACATAAATATTAACA
1 AT--ACATAAATAAT-A-A
* *
17071587 AAAAATAAATAAATAA
1 ATACATAAAT-AATAA
* * *
17071603 ATATATACATATATTA
1 ATACATAAATA-ATAA
17071619 ATACAT-AATAAT-A
1 ATACATAAATAATAA
17071632 ATA-ATAAATAATACA
1 ATACATAAATAATA-A
17071647 ATACATAAA
1 ATACATAAA
17071656 ATACAAAAGA
Statistics
Matches: 67, Mismatches: 11, Indels: 19
0.69 0.11 0.20
Matches are distributed among these distances:
12 2 0.03
13 10 0.15
14 2 0.03
15 10 0.15
16 21 0.31
17 17 0.25
18 3 0.04
19 2 0.03
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (15 bp):
ATACATAAATAATAA
Found at i:17071856 original size:1 final size:1
Alignment explanation
Indices: 17071852--17071914 Score: 72
Period size: 1 Copynumber: 63.0 Consensus size: 1
17071842 CATTTTTTGG
* * * * * *
17071852 TTTTTTTGTTTTTTTTGTTTTTTTTTGTTTTTTTGTTTTTTTTGTTTTTTTTTTGTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
17071915 ACCAAAGCTC
Statistics
Matches: 50, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 50 1.00
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (1 bp):
T
Found at i:17071865 original size:10 final size:9
Alignment explanation
Indices: 17071844--17071914 Score: 99
Period size: 9 Copynumber: 7.7 Consensus size: 9
17071834 CAACTCAACA
*
17071844 TTTTTTGGT
1 TTTTTTGTT
17071853 TTTTTTGTT
1 TTTTTTGTT
17071862 TTTTTTGTT
1 TTTTTTGTT
17071871 TTTTTT-TGT
1 TTTTTTGT-T
17071880 TTTTTTGTT
1 TTTTTTGTT
17071889 TTTTTTGTTTT
1 TTTTTTG--TT
17071900 TTTTTTGTT
1 TTTTTTGTT
17071909 TTTTTT
1 TTTTTT
17071915 ACCAAAGCTC
Statistics
Matches: 57, Mismatches: 1, Indels: 8
0.86 0.02 0.12
Matches are distributed among these distances:
8 1 0.02
9 46 0.81
10 1 0.02
11 9 0.16
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (9 bp):
TTTTTTGTT
Found at i:17071884 original size:28 final size:28
Alignment explanation
Indices: 17071844--17071913 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
17071834 CAACTCAACA
*
17071844 TTTTTTGGTTTTTTTGTTTTTTTTG-TT
1 TTTTTTTGTTTTTTTGTTTTTTTTGTTT
17071871 TTTTTTTGTTTTTTTGTTTTTTTTGTTT
1 TTTTTTTGTTTTTTTGTTTTTTTTGTTT
17071899 TTTTTTTGTTTTTTT
1 TTTTTTTGTTTTTTT
17071914 TACCAAAGCT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (28 bp):
TTTTTTTGTTTTTTTGTTTTTTTTGTTT
Found at i:17072008 original size:40 final size:41
Alignment explanation
Indices: 17071921--17072288 Score: 540
Period size: 40 Copynumber: 9.0 Consensus size: 41
17071911 TTTTACCAAA
17071921 GCTCCTCTAAACAGAGGCACCACG-ACTTTTGG-AAAGTAAATT
1 GCTCCTCTAAACAGAGGCA--ACGAAC-TTTGGAAAAGTAAATT
17071963 GCTCCTCTAAACAGAGGCAACGAAC-TTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACGAACTTTGGAAAAGTAAATT
*
17072003 GCTCCTCTAAACAGAGGTACCACG-ACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGG--CAACGAACTTTGGAAAAGTAAATT
17072045 GCTCCTCTAAACAGAGGCACCACG-ACTTTGG-AAAGTAAATT
1 GCTCCTCTAAACAGAGGCA--ACGAACTTTGGAAAAGTAAATT
*
17072086 GCTCCTCTAAACGGAGGCAACGAACTTT-GAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACGAACTTTGGAAAAGTAAATT
17072126 GCTCCTCTAAACAGAGGCAACGAACTTT-GAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACGAACTTTGGAAAAGTAAATT
17072166 GCTCCTCTAAACAGAGGCAACGAACTTT-GAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACGAACTTTGGAAAAGTAAATT
*
17072206 GCTCCTCTAAACAGAGGCACCACG-ACTTTGGGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCA--ACGAACTTT-GGAAAAGTAAATT
*
17072249 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAAGTAAAT
1 GCTCCTCTAAACAGAGGCAACGAACTTTGGAAAAGTAAAT
17072289 ACTCCTAGAC
Statistics
Matches: 305, Mismatches: 7, Indels: 29
0.89 0.02 0.09
Matches are distributed among these distances:
39 8 0.03
40 144 0.47
41 50 0.16
42 73 0.24
43 30 0.10
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.22
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCAACGAACTTTGGAAAAGTAAATT
Found at i:17072141 original size:123 final size:122
Alignment explanation
Indices: 17071921--17072288 Score: 575
Period size: 123 Copynumber: 3.0 Consensus size: 122
17071911 TTTTACCAAA
17071921 GCTCCTCTAAACAGAGGCACCACGACTTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
* *
17071986 ACTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACG-ACTTTGGAAAAGTAAATT
65 ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGG--CAACGAACTTTGGAAAAGTAAATT
*
17072045 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTAAACGGAGGCAACGAA
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAA
17072110 CTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTT-GAAAAGTAAATT
66 CTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGGAAAAGTAAATT
*
17072166 GCTCCTCTAAACAGAGGCA--ACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCA--AC
* *
17072229 G-ACTTTGGGAAAAATAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAAAAGTAAAT
63 GAACTTT--GAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGGAAAAGTAAAT
17072289 ACTCCTAGAC
Statistics
Matches: 230, Mismatches: 7, Indels: 14
0.92 0.03 0.06
Matches are distributed among these distances:
119 3 0.01
120 34 0.15
121 40 0.17
122 8 0.03
123 109 0.47
124 36 0.16
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.22
Consensus pattern (122 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAA
CTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGGAAAAGTAAATT
Found at i:17072249 original size:163 final size:162
Alignment explanation
Indices: 17071921--17072288 Score: 598
Period size: 163 Copynumber: 2.2 Consensus size: 162
17071911 TTTTACCAAA
*
17071921 GCTCCTCTAAACAGAGGCACCACG-ACTTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCAACG
1 GCTCCTCTAAACAGAGGCA--ACGAAC-TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACG
*
17071985 AACTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCC
63 AACTTGGAAAAGTAAATTGCTCCTCTAAACAGAGG-ACAACGACTTTGGAAAAGTAAATTGCTCC
*
17072050 TCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
127 TCTAAACAGAGGCACCACGACTTTGGAAAATAAATT
*
17072086 GCTCCTCTAAACGGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAAC
1 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAAC
*
17072151 TTTGAAAAGTAAATTGCTCCTCTAAACAGAGG-CAACGAACTTT-GAAAAGTAAATTGCTCCTCT
66 TTGGAAAAGTAAATTGCTCCTCTAAACAGAGGACAACG-ACTTTGGAAAAGTAAATTGCTCCTCT
17072214 AAACAGAGGCACCACGACTTTGGGAAAAATAAATT
130 AAACAGAGGCACCACGACTTT-GG-AAAATAAATT
17072249 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAAGTAAAT
1 GCTCCTCTAAACAGAGGCAACGAACTTTG-AAAAGTAAAT
17072289 ACTCCTAGAC
Statistics
Matches: 192, Mismatches: 6, Indels: 11
0.92 0.03 0.05
Matches are distributed among these distances:
161 45 0.23
162 7 0.04
163 110 0.57
164 12 0.06
165 18 0.09
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.22
Consensus pattern (162 bp):
GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAAC
TTGGAAAAGTAAATTGCTCCTCTAAACAGAGGACAACGACTTTGGAAAAGTAAATTGCTCCTCTA
AACAGAGGCACCACGACTTTGGAAAATAAATT
Found at i:17073531 original size:21 final size:19
Alignment explanation
Indices: 17073507--17073561 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 19
17073497 AATTTGAATC
17073507 TCTTTTTTTTCATTTTTTCCT
1 TCTTTTTTTT--TTTTTTCCT
17073528 TCTTTCTTTCTTTTTTTTCCT
1 TCTTT-TTT-TTTTTTTTCCT
17073549 T-TTTTTTTCTTTT
1 TCTTTTTTT-TTTT
17073562 CTTTTTTTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
18 1 0.03
19 7 0.23
20 3 0.10
21 15 0.48
22 3 0.10
23 2 0.06
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (19 bp):
TCTTTTTTTTTTTTTTCCT
Found at i:17073539 original size:29 final size:25
Alignment explanation
Indices: 17073507--17073577 Score: 88
Period size: 25 Copynumber: 2.7 Consensus size: 25
17073497 AATTTGAATC
*
17073507 TCTTTTTTTTCATTTTTTCCTTCTTTCTT
1 TCTTTTTTTTCATTTTTT--TT-TCT-TT
*
17073536 TCTTTTTTTTCCTTTTTTTTTCTTT
1 TCTTTTTTTTCATTTTTTTTTCTTT
17073561 TCTTTTTTTTCATTTTT
1 TCTTTTTTTTCATTTTT
17073578 CATCCATTGT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
25 18 0.46
26 2 0.05
27 2 0.05
29 17 0.44
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (25 bp):
TCTTTTTTTTCATTTTTTTTTCTTT
Found at i:17073566 original size:21 final size:20
Alignment explanation
Indices: 17073509--17073566 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
17073499 TTTGAATCTC
*
17073509 TTTTTTTTC-ATTTTTTCCT
1 TTTTTTTTCTTTTTTTTCCT
*
17073528 TCTTTCTTTCTTTTTTTTCCT
1 T-TTTTTTTCTTTTTTTTCCT
17073549 TTTTTTTTCTTTTCTTTT
1 TTTTTTTTCTTTT-TTTT
17073567 TTTTCATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 1 0.03
20 18 0.55
21 14 0.42
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (20 bp):
TTTTTTTTCTTTTTTTTCCT
Found at i:17073577 original size:11 final size:10
Alignment explanation
Indices: 17073509--17073567 Score: 57
Period size: 10 Copynumber: 5.8 Consensus size: 10
17073499 TTTGAATCTC
17073509 TTTTTTTTC-
1 TTTTTTTTCT
* *
17073518 ATTTTTTCCT
1 TTTTTTTTCT
*
17073528 TCTTTCTTTCT
1 T-TTTTTTTCT
*
17073539 TTTTTTTCCT
1 TTTTTTTTCT
17073549 TTTTTTTTCT
1 TTTTTTTTCT
17073559 TTTCTTTTT
1 TTT-TTTTT
17073568 TTTCATTTTT
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
9 7 0.18
10 19 0.49
11 13 0.33
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTTTTTTCT
Found at i:17077518 original size:59 final size:58
Alignment explanation
Indices: 17077444--17078088 Score: 585
Period size: 59 Copynumber: 10.7 Consensus size: 58
17077434 TTTTTTTTAG
17077444 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTCGATTTTC-AA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTT--ATTTTCTAA
* *
17077503 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCT-TTTTTTGAAAATTTATTTT-TAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAA---TATTTTTTGGAAATTTATTTTCTAA
*
17077562 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTTTGATTTTC-AA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAA-TTT-ATTTTCTAA
17077621 GG-AAATTGATACTTTCAACTTTTCCCCAAAAATACTTTTTTTGGAAATTTATTTTTCTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTTGGAAATTTA-TTTTC---TAA
* * *
17077684 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTTGAAATTTA-TTTCTGA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA---TTTTTTGGAAATTTATTTTCTAA
*
17077744 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTA-TTTCTAT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTTCTAA
* * *
17077801 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTTGAAATTTTTTATTTTTATTTA
1 GGAAAATTGATACTTTCAACTTTTCCC-CAAAA-ATATTTTTTGGAAA---TTTA--TTT-TCTA
17077866 A
58 A
* ** * *** * * * ** ** * *
17077867 AGAAAATAAAAAATAAATAAAAAGAATATTACATAAACCCT-TTTTTTGAAAATTT-CTTTCTAA
1 GGAAAAT---TGAT-ACT-TTCA-ACTTTTCCCCAAA-AATATTTTTTGGAAATTTATTTTCTAA
* *
17077930 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCT-TTTTTTGAAAATTTA-TTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAA---TATTTTTTGGAAATTTATTTTCTAA
* *
17077989 GAAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTTA-TTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTTGGAAATTTATTTTCTAA
* * *
17078048 GAAAAATTGATGCTTTCAACTTTTCCCTAAAAATATTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTT
17078089 TTTGGAATTT
Statistics
Matches: 491, Mismatches: 55, Indels: 82
0.78 0.09 0.13
Matches are distributed among these distances:
56 2 0.00
57 69 0.14
58 41 0.08
59 210 0.43
60 48 0.10
61 13 0.03
62 5 0.01
63 18 0.04
64 33 0.07
65 17 0.03
66 9 0.02
67 3 0.01
69 2 0.00
70 11 0.02
71 5 0.01
72 5 0.01
ACGTcount: A:0.35, C:0.13, G:0.07, T:0.44
Consensus pattern (58 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTTCTAA
Found at i:17077729 original size:117 final size:118
Alignment explanation
Indices: 17077434--17077842 Score: 491
Period size: 117 Copynumber: 3.4 Consensus size: 118
17077424 GAAAGAATGA
* *
17077434 TTTTTTTTAGGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTCGATTT
1 TTTTTTTTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTT----ATTTTGATTT
* **
17077499 TCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTT-GAAA---AT
62 TCAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATACTTTTTTTGGAAATTTAT
*
17077552 TTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTTTGATTT
1 TTTTTTTTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTT---ATTTTGATTT
17077617 TCAAGG-AAATTGATACTTTCAACTTTTCCCCAAAAATACTTTTTTTGGAAATTTAT
62 TCAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATACTTTTTTTGGAAATTTAT
*
17077673 TTTTCTTTTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTT-TTTTGAAATTTA
1 TTTT-TTTTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTATTTTG--A--T-
*
17077737 TTTCTGAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTTGGAAATTTA-
60 TTTC-AAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATACTTTTTTTGGAAATTTAT
* * *
17077794 ---TTTCTATGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTT
1 TTTTTTTTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATAT-TTTTT
17077843 TTGAAATTTT
Statistics
Matches: 266, Mismatches: 11, Indels: 28
0.87 0.04 0.09
Matches are distributed among these distances:
117 82 0.31
118 71 0.27
119 7 0.03
121 12 0.05
122 59 0.22
123 3 0.01
124 32 0.12
ACGTcount: A:0.33, C:0.14, G:0.08, T:0.45
Consensus pattern (118 bp):
TTTTTTTTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTATTTTGATTTTCAA
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATACTTTTTTTGGAAATTTAT
Found at i:17078108 original size:247 final size:245
Alignment explanation
Indices: 17077674--17078159 Score: 805
Period size: 247 Copynumber: 2.0 Consensus size: 245
17077664 GAAATTTATT
***
17077674 TTTCTTTTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTTGAAATTTATT
1 TTTCTTTTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATACCCTTTTTTTGAAATTTATT
* * * *
17077739 TCTGAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTATGGA
66 TCTAAGAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAAGAA
17077804 AAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTTGAAATTTTTTATTTTTATTTAAAG
131 AAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTTGAAATTTTTTATTTTTATTTAAAG
17077869 AAAATAAAAAATAAATAAAAAGAATATTACATAAACCCTTTTTTTGAAAA
196 AAAATAAAAAATAAATAAAAAGAATATTACATAAACCCTTTTTTTGAAAA
*
17077919 TTTCTTTCTAAGGAAAATTGATACTTTCAACTTTT-CCTCAAAA-ACCCTTTTTTTGAAAATTTA
1 TTTCTTT-TAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATACCCTTTTTTTG-AAATTTA
*
17077982 TTTCTAAGAAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTTATTTCTA
64 TTTCTAAGAAAAATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTTGGAAATTTATTTCTA
* * *
17078047 AGAAAAATTGATGCTTTCAACTTTTCCCTAAAAATATTTTTTTTTGGAATTTTTTATTTTTATTT
127 AGAAAAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTTGAAATTTTTTATTTTTATTT
*
17078112 AAAGAAAATAAAAAATAAATAAAAGGAATATTACATAAACCCTTTTTT
192 AAAGAAAATAAAAAATAAATAAAAAGAATATTACATAAACCCTTTTTT
17078160 AATAAATAAA
Statistics
Matches: 224, Mismatches: 13, Indels: 6
0.92 0.05 0.02
Matches are distributed among these distances:
244 9 0.04
245 60 0.27
246 27 0.12
247 128 0.57
ACGTcount: A:0.37, C:0.11, G:0.07, T:0.44
Consensus pattern (245 bp):
TTTCTTTTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATACCCTTTTTTTGAAATTTATT
TCTAAGAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAAGAA
AAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTTGAAATTTTTTATTTTTATTTAAAG
AAAATAAAAAATAAATAAAAAGAATATTACATAAACCCTTTTTTTGAAAA
Found at i:17079173 original size:35 final size:33
Alignment explanation
Indices: 17079134--17079279 Score: 97
Period size: 31 Copynumber: 4.4 Consensus size: 33
17079124 ACAAAAATGA
17079134 ATAAAATAAAAAAGATAAAAAATATATATATATAC
1 ATAAAATAAAAAA-AT-AAAAATATATATATATAC
* * *
17079169 AT-AAATAATAAAATACAAATAAATAT-TA-AC
1 ATAAAATAAAAAAATAAAAATATATATATATAC
* * * *
17079199 AAAAAATAAATAAATAAATATATACATATATTA-
1 ATAAAATAAAAAAATAAAAATATATATATA-TAC
* *
17079232 ATACATAATAATAATAATAATAAATA-ATACA-ATAC
1 ATA-A-AATAA-AAAAATAA-AAATATATATATATAC
*
17079267 ATAAAATACAAAA
1 ATAAAATAAAAAA
17079280 GAAGAAGAAA
Statistics
Matches: 84, Mismatches: 18, Indels: 21
0.68 0.15 0.17
Matches are distributed among these distances:
30 3 0.04
31 20 0.24
32 15 0.18
33 8 0.10
34 14 0.17
35 11 0.13
36 9 0.11
37 4 0.05
ACGTcount: A:0.67, C:0.05, G:0.01, T:0.27
Consensus pattern (33 bp):
ATAAAATAAAAAAATAAAAATATATATATATAC
Found at i:17079249 original size:16 final size:16
Alignment explanation
Indices: 17079165--17079274 Score: 52
Period size: 16 Copynumber: 6.8 Consensus size: 16
17079155 ATATATATAT
17079165 ATACATAAATAATAA-A
1 ATACAT-AATAATAATA
*
17079181 ATACA-AATAAATATTA
1 ATACATAAT-AATAATA
* * *
17079197 ACAAAAAATAAATAAATAA
1 ATACATAAT-AAT-AAT-A
* *
17079216 ATATATACAT-ATATTA
1 ATACATA-ATAATAATA
17079232 ATACATAATAATAATA
1 ATACATAATAATAATA
*
17079248 ATA-ATAAATAAT-ACA
1 ATACAT-AATAATAATA
17079263 ATACATAA-AATA
1 ATACATAATAATA
17079275 CAAAAGAAGA
Statistics
Matches: 73, Mismatches: 11, Indels: 21
0.70 0.10 0.20
Matches are distributed among these distances:
14 6 0.08
15 15 0.21
16 32 0.44
17 9 0.12
18 4 0.05
19 5 0.07
20 2 0.03
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.28
Consensus pattern (16 bp):
ATACATAATAATAATA
Found at i:17080617 original size:55 final size:55
Alignment explanation
Indices: 17080533--17080642 Score: 193
Period size: 55 Copynumber: 2.0 Consensus size: 55
17080523 TACAATGTCC
* *
17080533 ATAAAACTAAGATAATATTTCTCATAAATGATAATTGTTGAGAATTCCCTTATAT
1 ATAAAACCAAGATAACATTTCTCATAAATGATAATTGTTGAGAATTCCCTTATAT
*
17080588 ATAAAACCAAGATAACATTTCTCATAAATGATAATTGTTGAGAATTCCTTTATAT
1 ATAAAACCAAGATAACATTTCTCATAAATGATAATTGTTGAGAATTCCCTTATAT
17080643 TTAGGCTAGA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 52 1.00
ACGTcount: A:0.42, C:0.12, G:0.09, T:0.37
Consensus pattern (55 bp):
ATAAAACCAAGATAACATTTCTCATAAATGATAATTGTTGAGAATTCCCTTATAT
Found at i:17080972 original size:15 final size:14
Alignment explanation
Indices: 17080933--17081006 Score: 64
Period size: 14 Copynumber: 5.3 Consensus size: 14
17080923 TTCAATTAAA
*
17080933 TTTAGGGTTTAGGG
1 TTTAGGGTTTAAGG
*
17080947 TTT--GATTTAAGG
1 TTTAGGGTTTAAGG
17080959 TTTTAGGGTTTAAGG
1 -TTTAGGGTTTAAGG
*
17080974 TTTAAGGTTTATA-G
1 TTTAGGGTTTA-AGG
*
17080988 TTTAGAGTTTTAAGG
1 TTTAG-GGTTTAAGG
17081003 TTTA
1 TTTA
17081007 ATGATTATGC
Statistics
Matches: 48, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
12 7 0.15
13 3 0.06
14 19 0.40
15 19 0.40
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.49
Consensus pattern (14 bp):
TTTAGGGTTTAAGG
Done.