Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 52 of 313
Found at i:17243731 original size:7 final size:7
Alignment explanation
Indices: 17243719--17243743 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
17243709 GTGGCCTAAG
17243719 TGTAAAA
1 TGTAAAA
17243726 TGTAAAA
1 TGTAAAA
17243733 TGTAAAA
1 TGTAAAA
17243740 TGTA
1 TGTA
17243744 CTATGTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.52, C:0.00, G:0.16, T:0.32
Consensus pattern (7 bp):
TGTAAAA
Found at i:17245672 original size:85 final size:85
Alignment explanation
Indices: 17245563--17245732 Score: 313
Period size: 85 Copynumber: 2.0 Consensus size: 85
17245553 GTTGAAAAGA
* * *
17245563 GGAAGAAGAGACATTAGGGTTTAACCAAGAGAAAGAAAAAGACGCAAAATATTTTTCTAAAAAAA
1 GGAAAAAGAGACATTAGGGGTTAACCAAGAGAAAGAAAAAAACGCAAAATATTTTTCTAAAAAAA
17245628 AAGAACTTTTTATTAAATTT
66 AAGAACTTTTTATTAAATTT
17245648 GGAAAAAGAGACATTAGGGGTTAACCAAGAGAAAGAAAAAAACGCAAAATATTTTTCTAAAAAAA
1 GGAAAAAGAGACATTAGGGGTTAACCAAGAGAAAGAAAAAAACGCAAAATATTTTTCTAAAAAAA
17245713 AAGAACTTTTTATTAAATTT
66 AAGAACTTTTTATTAAATTT
17245733 ATTTATTTCG
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 82 1.00
ACGTcount: A:0.51, C:0.08, G:0.16, T:0.25
Consensus pattern (85 bp):
GGAAAAAGAGACATTAGGGGTTAACCAAGAGAAAGAAAAAAACGCAAAATATTTTTCTAAAAAAA
AAGAACTTTTTATTAAATTT
Found at i:17246040 original size:102 final size:102
Alignment explanation
Indices: 17245929--17246134 Score: 403
Period size: 102 Copynumber: 2.0 Consensus size: 102
17245919 AAATGATTTT
*
17245929 TGTTATTTTATTAAACAACATTAAAAAAAATGGTCATGGGAATTTGAATATATTATTAGAAAATA
1 TGTTATTTTAGTAAACAACATTAAAAAAAATGGTCATGGGAATTTGAATATATTATTAGAAAATA
17245994 GAACATAAAAATTGACGGTATCTTTAAAATTACGAAA
66 GAACATAAAAATTGACGGTATCTTTAAAATTACGAAA
17246031 TGTTATTTTAGTAAACAACATTAAAAAAAATGGTCATGGGAATTTGAATATATTATTAGAAAATA
1 TGTTATTTTAGTAAACAACATTAAAAAAAATGGTCATGGGAATTTGAATATATTATTAGAAAATA
17246096 GAACATAAAAATTGACGGTATCTTTAAAATTACGAAA
66 GAACATAAAAATTGACGGTATCTTTAAAATTACGAAA
17246133 TG
1 TG
17246135 AAGATTTACA
Statistics
Matches: 103, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
102 103 1.00
ACGTcount: A:0.47, C:0.07, G:0.14, T:0.33
Consensus pattern (102 bp):
TGTTATTTTAGTAAACAACATTAAAAAAAATGGTCATGGGAATTTGAATATATTATTAGAAAATA
GAACATAAAAATTGACGGTATCTTTAAAATTACGAAA
Found at i:17246101 original size:50 final size:49
Alignment explanation
Indices: 17245945--17246106 Score: 132
Period size: 50 Copynumber: 3.2 Consensus size: 49
17245935 TTTATTAAAC
17245945 AACATTAAAAAAAATGGTCATGGGAATTTGAATATATTATTAGAAAATAG
1 AACA-TAAAAAAAATGGTCATGGGAATTTGAATATATTATTAGAAAATAG
** * * *** * * * *
17245995 AACATAAAAATTGACGGTATCTTTAAAATTACGAA-ATGTTATTTTAG-TAA-AC
1 AACATAAAAA-AAATGG--TCATGGGAATT-TGAATATATTA--TTAGAAAATAG
17246047 AACATTAAAAAAAATGGTCATGGGAATTTGAATATATTATTAGAAAATAG
1 AACA-TAAAAAAAATGGTCATGGGAATTTGAATATATTATTAGAAAATAG
17246097 AACATAAAAA
1 AACATAAAAA
17246107 TTGACGGTAT
Statistics
Matches: 80, Mismatches: 22, Indels: 21
0.65 0.18 0.17
Matches are distributed among these distances:
48 4 0.05
49 17 0.21
50 24 0.30
52 20 0.25
53 11 0.14
54 4 0.05
ACGTcount: A:0.50, C:0.06, G:0.14, T:0.30
Consensus pattern (49 bp):
AACATAAAAAAAATGGTCATGGGAATTTGAATATATTATTAGAAAATAG
Found at i:17246463 original size:13 final size:12
Alignment explanation
Indices: 17246442--17246475 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
17246432 TATGAAAACG
17246442 AAAGGAAAAAAA
1 AAAGGAAAAAAA
17246454 AAAGGAAAAAAA
1 AAAGGAAAAAAA
*
17246466 AAAGCAAAAA
1 AAAGGAAAAA
17246476 GCTTTCACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.82, C:0.03, G:0.15, T:0.00
Consensus pattern (12 bp):
AAAGGAAAAAAA
Found at i:17249678 original size:15 final size:15
Alignment explanation
Indices: 17249658--17249687 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
17249648 CTTATTATCG
*
17249658 TATCTATAATGTATA
1 TATCTATAATATATA
17249673 TATCTATAATATATA
1 TATCTATAATATATA
17249688 AAAACATCAA
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:0.43, C:0.07, G:0.03, T:0.47
Consensus pattern (15 bp):
TATCTATAATATATA
Found at i:17251707 original size:22 final size:20
Alignment explanation
Indices: 17251682--17251721 Score: 62
Period size: 22 Copynumber: 1.9 Consensus size: 20
17251672 TCGGTTGATG
17251682 AATTGGTTATATATAATTGAGT
1 AATTGGTT-TATA-AATTGAGT
17251704 AATTGGTTTATAAATTGA
1 AATTGGTTTATAAATTGA
17251722 ATTGAGAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.33
21 4 0.22
22 8 0.44
ACGTcount: A:0.38, C:0.00, G:0.17, T:0.45
Consensus pattern (20 bp):
AATTGGTTTATAAATTGAGT
Found at i:17253512 original size:81 final size:82
Alignment explanation
Indices: 17253409--17253573 Score: 323
Period size: 81 Copynumber: 2.0 Consensus size: 82
17253399 TTTTGGAAAG
17253409 TTTAGTAGTAAGGGTATTTTGGTCATTTAGTTATTAAAATGAATTAAAAACAAAATTAAAAGCCA
1 TTTAGTAGTAAGGGTATTTTGGTCATTTAGTTATTAAAATGAATTAAAAACAAAATTAAAAGCCA
17253474 A-TTTTTGTCCATCTTC
66 ATTTTTTGTCCATCTTC
17253490 TTTAGTAGTAAGGGTATTTTGGTCATTTAGTTATTAAAATGAATTAAAAACAAAATTAAAAGCCA
1 TTTAGTAGTAAGGGTATTTTGGTCATTTAGTTATTAAAATGAATTAAAAACAAAATTAAAAGCCA
17253555 ATTTTTTGTCCATCTTC
66 ATTTTTTGTCCATCTTC
17253572 TT
1 TT
17253574 CATTAGGCCG
Statistics
Matches: 83, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
81 66 0.80
82 17 0.20
ACGTcount: A:0.36, C:0.10, G:0.13, T:0.41
Consensus pattern (82 bp):
TTTAGTAGTAAGGGTATTTTGGTCATTTAGTTATTAAAATGAATTAAAAACAAAATTAAAAGCCA
ATTTTTTGTCCATCTTC
Found at i:17254522 original size:46 final size:46
Alignment explanation
Indices: 17254472--17254644 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
17254462 TGGTTGAGCA
17254472 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
17254518 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
17254563 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
17254611 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
17254645 GGGGTGGGTT
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 59 0.55
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:17254628 original size:93 final size:93
Alignment explanation
Indices: 17254469--17254639 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
17254459 GGATGGTTGA
* * *
17254469 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
17254534 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
17254562 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
17254627 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
17254640 ACTTAGGGGT
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:17254906 original size:19 final size:20
Alignment explanation
Indices: 17254869--17254906 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
17254859 ATAAGGTGGT
17254869 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
17254889 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
17254907 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:17255332 original size:86 final size:86
Alignment explanation
Indices: 17255185--17255360 Score: 316
Period size: 86 Copynumber: 2.0 Consensus size: 86
17255175 CTTGGTTGAG
* *
17255185 AAAATGTTTGATATTGATAAGTCATGGTGATGGCTAATTTAGATCATGTTTGATATTATGGAAGT
1 AAAATGCTTGATATTGATAAGTCATGGTGATGGCTAATTTAGATCATGTTTGATATCATGGAAGT
* *
17255250 TTAATAGGTTATCTAGTTCAT
66 TTAACAAGTTATCTAGTTCAT
17255271 AAAATGCTTGATATTGATAAGTCATGGTGATGGCTAATTTAGATCATGTTTGATATCATGGAAGT
1 AAAATGCTTGATATTGATAAGTCATGGTGATGGCTAATTTAGATCATGTTTGATATCATGGAAGT
17255336 TTAACAAGTTATCTAGTTCAT
66 TTAACAAGTTATCTAGTTCAT
17255357 AAAA
1 AAAA
17255361 ATTCATGGAA
Statistics
Matches: 86, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
86 86 1.00
ACGTcount: A:0.34, C:0.07, G:0.20, T:0.39
Consensus pattern (86 bp):
AAAATGCTTGATATTGATAAGTCATGGTGATGGCTAATTTAGATCATGTTTGATATCATGGAAGT
TTAACAAGTTATCTAGTTCAT
Found at i:17265913 original size:22 final size:21
Alignment explanation
Indices: 17265875--17265928 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
17265865 AAAATCATAC
* *
17265875 AAAAAAAGAATATATATAGAA
1 AAAAAAAGAATAAATATACAA
* *
17265896 AAAAAAAGATTGAAATATACAT
1 AAAAAAAGAAT-AAATATACAA
*
17265918 AAAAAATGAAT
1 AAAAAAAGAAT
17265929 TTTTTTTAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 10 0.38
22 16 0.62
ACGTcount: A:0.69, C:0.02, G:0.09, T:0.20
Consensus pattern (21 bp):
AAAAAAAGAATAAATATACAA
Found at i:17272081 original size:39 final size:40
Alignment explanation
Indices: 17271924--17272148 Score: 262
Period size: 40 Copynumber: 5.7 Consensus size: 40
17271914 GCTACTCGTT
* *
17271924 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
* *
17271964 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGAA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
17272004 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
17272044 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * *
17272083 CAAATGCCTTC-GGATCTTAGTCCGGATAT-GCTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAG-TAAC-TCGCA
*
17272124 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
17272149 CATCATTCAA
Statistics
Matches: 163, Mismatches: 16, Indels: 12
0.85 0.08 0.06
Matches are distributed among these distances:
38 2 0.01
39 34 0.21
40 114 0.70
41 13 0.08
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:17272108 original size:119 final size:120
Alignment explanation
Indices: 17271924--17272148 Score: 280
Period size: 119 Copynumber: 1.9 Consensus size: 120
17271914 GCTACTCGTT
* *
17271924 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
17271989 ATTTAG-TAAC-TCGAACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
66 ATAT-GCTAACTTAGAACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * **
17272044 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* * *
17272106 GGATATGCTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 GGATATGCTAACTTAGAACAAAGCCTTCGGGACTTAACCCGGA
17272149 CATCATTCAA
Statistics
Matches: 90, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
118 5 0.06
119 64 0.71
120 21 0.23
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATGCTAACTTAGAACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:17279746 original size:40 final size:40
Alignment explanation
Indices: 17279709--17279933 Score: 289
Period size: 40 Copynumber: 5.7 Consensus size: 40
17279699 GCTACTCGTT
* *
17279709 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
17279749 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
17279789 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
17279829 CAAATGCCTTCGGGA-TTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * *
17279868 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGAT-TTAGTAAC-TCGCA
*
17279909 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
17279934 CATCATTCAA
Statistics
Matches: 168, Mismatches: 11, Indels: 12
0.88 0.06 0.06
Matches are distributed among these distances:
38 3 0.02
39 32 0.19
40 118 0.70
41 15 0.09
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:17279893 original size:119 final size:120
Alignment explanation
Indices: 17279709--17279933 Score: 307
Period size: 119 Copynumber: 1.9 Consensus size: 120
17279699 GCTACTCGTT
*
17279709 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
*
17279774 AT-TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
66 ATATT-GTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * **
17279829 CAAATGCCTTCGGGA-TTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* *
17279891 GGATATTGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 GGATATTGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
17279934 CATCATTCAA
Statistics
Matches: 93, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
118 4 0.04
119 64 0.69
120 25 0.27
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATTGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:17286059 original size:40 final size:40
Alignment explanation
Indices: 17286015--17286960 Score: 1727
Period size: 40 Copynumber: 23.6 Consensus size: 40
17286005 GCTCCTCGTT
* * * *
17286015 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAACGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
17286055 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAACGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
17286095 CAAACGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAACGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
17286135 CAAACGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAACGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
17286175 CAAACGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAACGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
17286215 CAAACGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAACGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
17286255 CAAACGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAACGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
17286295 CAAACGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAACGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
17286335 CAAACGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAACGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
17286375 CAAACGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAACGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
17286415 CAAACGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAACGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
17286455 CAAACGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAACGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
17286495 CAAACGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAACGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
17286535 CAAACGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAACGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
17286575 CAAACGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAACGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
17286615 CAAACGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAACGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
17286655 CAAACGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAACGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
17286695 CAAACGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAACGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
17286735 CAAACGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAACGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
17286775 CAAACGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAACGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
17286815 CAAACGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAACGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
17286855 CAAACGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAACGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* ** * * * *
17286895 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAACGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
17286936 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAACGCCTTCGGGACTTAACCCGGA
17286961 CATCATTCAA
Statistics
Matches: 890, Mismatches: 12, Indels: 8
0.98 0.01 0.01
Matches are distributed among these distances:
39 3 0.00
40 874 0.98
41 13 0.01
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.23
Consensus pattern (40 bp):
CAAACGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:17293778 original size:6 final size:6
Alignment explanation
Indices: 17293745--17293798 Score: 56
Period size: 6 Copynumber: 9.2 Consensus size: 6
17293735 TGAATCCTCC
* * * * *
17293745 TATTTT T-TATT TATTCT TATTCT TATTTT TATTTT TCTTTT GATTTT
1 TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT
17293792 TATTTT T
1 TATTTT T
17293799 GTTTCAGTTT
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
5 4 0.10
6 35 0.90
ACGTcount: A:0.15, C:0.06, G:0.02, T:0.78
Consensus pattern (6 bp):
TATTTT
Found at i:17293809 original size:18 final size:18
Alignment explanation
Indices: 17293769--17293817 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
17293759 TCTTATTCTT
*
17293769 ATTTTTATTTTTCTTTTG
1 ATTTTTATTTTTCTTTAG
*
17293787 ATTTTTATTTTTGTTTCAG
1 ATTTTTATTTTTCTTT-AG
*
17293806 TTTTATTATTTT
1 ATTT-TTATTTT
17293818 ATTTTCAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 15 0.58
19 4 0.15
20 7 0.27
ACGTcount: A:0.14, C:0.04, G:0.06, T:0.76
Consensus pattern (18 bp):
ATTTTTATTTTTCTTTAG
Found at i:17300977 original size:40 final size:40
Alignment explanation
Indices: 17300922--17301144 Score: 270
Period size: 40 Copynumber: 5.5 Consensus size: 40
17300912 TATTCGGATG
17300922 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
17300962 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* ** *
17301005 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGGTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* ** * *
17301045 ATATCCGAGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
17301085 ATATCCGGGCTAAG-ACCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* *
17301124 ATATCC-GGCTAAATCCTGAAG
1 ATATCCGGGCTAAGTCCCGAAG
17301145 ATACTTGGGT
Statistics
Matches: 158, Mismatches: 21, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
38 6 0.04
39 30 0.19
40 85 0.54
41 1 0.01
43 36 0.23
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:17301065 original size:83 final size:78
Alignment explanation
Indices: 17300926--17301144 Score: 255
Period size: 83 Copynumber: 2.7 Consensus size: 78
17300916 CGGATGATAT
* * **
17300926 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTG-GAGTGACTATATCC-GGCTAAGTCCCGAAGGCATTCA
17300991 TGCGAGTAGTTG-CTATAC
64 TGC---TAG-TGACTATAC
17301009 CCGGGCTAAGTCCCGAAGGCATTTGTGGTAGTGACTATATCCGAGCTAAGTCCCGAAGGCATTCA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGG-AGTGACTATATCCG-GCTAAGTCCCGAAGGCATTCA
*
17301074 TGCTAGTGACTATAT
64 TGCTAGTGACTATAC
* * *
17301089 CCGGGCTAAG-ACCGAAGGCATTTGTGCGAGTTG-CTATATCCGGCTAAATCCTGAAG
1 CCGGGCTAAGTCCCGAAGGCATTTGTG-GAG-TGACTATATCCGGCTAAGTCCCGAAG
17301145 ATACTTGGGT
Statistics
Matches: 123, Mismatches: 8, Indels: 15
0.84 0.05 0.10
Matches are distributed among these distances:
78 12 0.10
79 28 0.23
80 21 0.17
82 1 0.01
83 61 0.50
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (78 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGGAGTGACTATATCCGGCTAAGTCCCGAAGGCATTCATG
CTAGTGACTATAC
Found at i:17304447 original size:26 final size:25
Alignment explanation
Indices: 17304383--17304452 Score: 77
Period size: 26 Copynumber: 2.7 Consensus size: 25
17304373 CAATCTGACC
* *
17304383 CATAGCTTGTGTGAGCAGGCCCATTT
1 CATAGC-TGTGTGAGCAAGACCATTT
* *
17304409 CACAACTGATGTGAGCAAGACCATTT
1 CATAGCTG-TGTGAGCAAGACCATTT
17304435 CATAGCTCGTGTGAGCAA
1 CATAGCT-GTGTGAGCAA
17304453 ACATGTATCT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
25 2 0.06
26 33 0.92
27 1 0.03
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (25 bp):
CATAGCTGTGTGAGCAAGACCATTT
Found at i:17310481 original size:20 final size:21
Alignment explanation
Indices: 17310442--17310481 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
17310432 GTACTTCGGA
* *
17310442 AAAAGAGGGCCTCGATGGGCC
1 AAAACAGGGCCTCAATGGGCC
17310463 AAAACAGGGCCT-AATGGGC
1 AAAACAGGGCCTCAATGGGC
17310482 TTACGGACCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.33, C:0.23, G:0.35, T:0.10
Consensus pattern (21 bp):
AAAACAGGGCCTCAATGGGCC
Found at i:17317295 original size:51 final size:50
Alignment explanation
Indices: 17317173--17317369 Score: 245
Period size: 49 Copynumber: 4.0 Consensus size: 50
17317163 TGTAGACAAG
* * * *
17317173 GTTATCTGGTACGCATAGTAGCCTGTACTTAGTACTAGACATGCGACCAA
1 GTTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAA
* * *
17317223 G-TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAA
1 GTTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA
* * *
17317273 GTTGTCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
1 GTTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAA
* * * *
17317323 -TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTATACACGTGACC
1 GTTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
17317370 TCACAATAGA
Statistics
Matches: 125, Mismatches: 20, Indels: 5
0.83 0.13 0.03
Matches are distributed among these distances:
49 78 0.62
50 8 0.06
51 39 0.31
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (50 bp):
GTTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAA
Found at i:17317315 original size:100 final size:100
Alignment explanation
Indices: 17317177--17317367 Score: 337
Period size: 100 Copynumber: 1.9 Consensus size: 100
17317167 GACAAGGTTA
* * *
17317177 TCTGGTACGCATAGTAGCCTGTACTTAGTACTAGACATGCGACCAAGTATCTGGTACACGTAGTA
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAGTATCCGGTACACGTAGTA
17317242 GCCTGCACTTAGTACTACACACGTGATCGAAGTTG
66 GCCTGCACTTAGTACTACACACGTGATCGAAGTTG
*
17317277 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTA
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAGTATCCGGTACACGTAGTA
*
17317342 GCCTGCACTTAGTACTATACACGTGA
66 GCCTGCACTTAGTACTACACACGTGA
17317368 CCTCACAATA
Statistics
Matches: 86, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 86 1.00
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (100 bp):
TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAGTATCCGGTACACGTAGTA
GCCTGCACTTAGTACTACACACGTGATCGAAGTTG
Found at i:17323129 original size:49 final size:49
Alignment explanation
Indices: 17323070--17323315 Score: 312
Period size: 49 Copynumber: 5.0 Consensus size: 49
17323060 GTAGACAAGG
* * **
17323070 TTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACGTGTGACCAA
1 TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAA
* * *
17323119 TTATCCGGTACACGTAGTAGCCTGTACTTAGTACTACACACGTGCCCTAA
1 TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC-AA
** *
17323169 CCATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGAACGAA
1 TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTG-ACCAA
* *** ***
17323219 GTTATCGGGTACGTATAGTAGCCTGCACTTAGTACTACACATACGACCAA
1 -TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAA
17323269 TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
17323316 TCACAATAGA
Statistics
Matches: 164, Mismatches: 30, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
49 80 0.49
50 48 0.29
51 36 0.22
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (49 bp):
TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAA
Found at i:17323312 original size:100 final size:100
Alignment explanation
Indices: 17323070--17323313 Score: 321
Period size: 100 Copynumber: 2.5 Consensus size: 100
17323060 GTAGACAAGG
* * ** *
17323070 TTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACGTGTG-ACCAATTATCCGGTACACGT
1 TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGAACCAATTATCCGGTACACAT
* ** *
17323134 AGTAGCCTGTACTTAGTACTACACACGTGCCCTAA
66 AGTAGCCTGCACTTAGTACTACACACACGACCTAA
** * * **
17323169 CCATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGAACGAAGTTATCGGGTACGTA
1 TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGAACCAA-TTATCCGGTACACA
*
17323234 TAGTAGCCTGCACTTAGTACTACACATACGACC-AA
65 TAGTAGCCTGCACTTAGTACTACACACACGACCTAA
17323269 TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA
1 TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA
17323314 CCTCACAATA
Statistics
Matches: 125, Mismatches: 18, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
99 38 0.30
100 49 0.39
101 38 0.30
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.27
Consensus pattern (100 bp):
TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGAACCAATTATCCGGTACACAT
AGTAGCCTGCACTTAGTACTACACACACGACCTAA
Found at i:17323592 original size:27 final size:28
Alignment explanation
Indices: 17323562--17323618 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 28
17323552 TCATACAACC
*
17323562 CATGTAATAATAATTTAACATTC-ATTT
1 CATGTAACAATAATTTAACATTCAATTT
**
17323589 CATGTAACAATAATTTGCCATTCAATTT
1 CATGTAACAATAATTTAACATTCAATTT
17323617 CA
1 CA
17323619 CATGACACAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 20 0.77
28 6 0.23
ACGTcount: A:0.39, C:0.16, G:0.05, T:0.40
Consensus pattern (28 bp):
CATGTAACAATAATTTAACATTCAATTT
Found at i:17324968 original size:24 final size:25
Alignment explanation
Indices: 17324933--17324987 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 25
17324923 TAAGCTCATT
*
17324933 GAGCT-AGAAACAATAAGCTCTGAC
1 GAGCTGAGAAACAATAAACTCTGAC
* *
17324957 GAGCTGAG-AACAGTAAACTCTTAC
1 GAGCTGAGAAACAATAAACTCTGAC
*
17324981 AAGCTGA
1 GAGCTGA
17324988 TTTATATCGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
24 24 0.92
25 2 0.08
ACGTcount: A:0.40, C:0.20, G:0.22, T:0.18
Consensus pattern (25 bp):
GAGCTGAGAAACAATAAACTCTGAC
Found at i:17334907 original size:22 final size:22
Alignment explanation
Indices: 17334879--17334923 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
17334869 CCTTAATAGG
* *
17334879 CGAGGAAACATCCCGTTTGAAC
1 CGAGGAAAAATCCCATTTGAAC
17334901 CGAGGAAAAATCCCATTTGAAC
1 CGAGGAAAAATCCCATTTGAAC
17334923 C
1 C
17334924 TTAGGAATAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.36, C:0.27, G:0.20, T:0.18
Consensus pattern (22 bp):
CGAGGAAAAATCCCATTTGAAC
Found at i:17338703 original size:20 final size:20
Alignment explanation
Indices: 17338680--17338718 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
17338670 TAAACATGGT
17338680 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
17338700 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
17338719 TGTAATCACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:17338799 original size:23 final size:23
Alignment explanation
Indices: 17338770--17339095 Score: 580
Period size: 23 Copynumber: 14.1 Consensus size: 23
17338760 AGGAAGTGTA
17338770 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
17338793 AAAGGGCTTATGCCCTAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
17338816 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
17338839 AAAGGGCTTATGCCCTAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
17338862 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
17338885 AAAGGGCTTATGCCCTAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
17338908 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
17338931 AAAGGGCTTATGCCCTAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
17338954 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
17338977 AAAGGGCTTATGCCCTAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
17339000 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
17339023 AAAGGGCTTATGCCCTAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
17339046 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
17339069 AATAGGGCTTTTGCCCCAGTTATT
1 AA-AGGGCTTATGCCCCAGTTATT
17339093 AAA
1 AAA
17339096 AGAGGCTAGG
Statistics
Matches: 289, Mismatches: 13, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
23 267 0.92
24 22 0.08
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:17339350 original size:31 final size:31
Alignment explanation
Indices: 17339312--17339371 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
17339302 TACAGTAAAG
17339312 GCTTCGGCCCAGTAATATGAAATATGAAAAA
1 GCTTCGGCCCAGTAATATGAAATATGAAAAA
**
17339343 GCTTCGGCCCAGTGTTATGAAATATGAAA
1 GCTTCGGCCCAGTAATATGAAATATGAAA
17339372 TATGAAAAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.25
Consensus pattern (31 bp):
GCTTCGGCCCAGTAATATGAAATATGAAAAA
Found at i:17346944 original size:25 final size:25
Alignment explanation
Indices: 17346915--17346962 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
17346905 TTATAACATG
* * *
17346915 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
17346940 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
17346963 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:17347046 original size:11 final size:11
Alignment explanation
Indices: 17347010--17347065 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
17347000 CATGGTATGT
17347010 ATGATATGCAC
1 ATGATATGCAC
* *
17347021 ATGACATG--T
1 ATGATATGCAC
17347030 ATGATATGCAC
1 ATGATATGCAC
*
17347041 ATGATATG--T
1 ATGATATGCAC
17347050 ATGATATGCAC
1 ATGATATGCAC
17347061 ATGAT
1 ATGAT
17347066 GGAATCACAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:17347065 original size:20 final size:20
Alignment explanation
Indices: 17346999--17347065 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
17346989 ATTTTGATAA
*
17346999 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
17347019 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
17347039 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
17347059 ACATGAT
1 ACATGAT
17347066 GGAATCACAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:17347145 original size:24 final size:24
Alignment explanation
Indices: 17347114--17347186 Score: 94
Period size: 24 Copynumber: 3.0 Consensus size: 24
17347104 GGAGGAAGTG
17347114 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
* *
17347138 TAATAGGGCTTTTGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
17347162 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 TAAAAG-GGCTTATGCC-CCAGTTAT
17347187 ATGATAAAGT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
24 31 0.74
25 11 0.26
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:17347245 original size:87 final size:87
Alignment explanation
Indices: 17347141--17347314 Score: 348
Period size: 87 Copynumber: 2.0 Consensus size: 87
17347131 CAGTTATTAA
17347141 TAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTATATGATAAAGTAGCTATGCT
1 TAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTATATGATAAAGTAGCTATGCT
17347206 TCCAGTGGAGAGTTATGGCGGG
66 TCCAGTGGAGAGTTATGGCGGG
17347228 TAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTATATGATAAAGTAGCTATGCT
1 TAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTATATGATAAAGTAGCTATGCT
17347293 TCCAGTGGAGAGTTATGGCGGG
66 TCCAGTGGAGAGTTATGGCGGG
17347315 GGGTTGAGTT
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
87 87 1.00
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (87 bp):
TAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTATATGATAAAGTAGCTATGCT
TCCAGTGGAGAGTTATGGCGGG
Found at i:17347504 original size:31 final size:30
Alignment explanation
Indices: 17347465--17347528 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 30
17347455 CGTTTACAGT
17347465 AAAAGCTTCGGCCCAGTAATATGAAATATG
1 AAAAGCTTCGGCCCAGTAATATGAAATATG
**
17347495 AAAAGGCTTCGGCCCAGTGTTATGAAATATG
1 AAAA-GCTTCGGCCCAGTAATATGAAATATG
17347526 AAA
1 AAA
17347529 TATGAAAAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 4 0.13
31 27 0.87
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (30 bp):
AAAAGCTTCGGCCCAGTAATATGAAATATG
Found at i:17353287 original size:36 final size:36
Alignment explanation
Indices: 17353219--17353289 Score: 88
Period size: 36 Copynumber: 2.0 Consensus size: 36
17353209 AAGCCATCAG
* * *
17353219 TAGGTCCACAGTTGTCTTGGGAAACTCATGCAACCT
1 TAGGTCCACAGTTGGCTTAGGAAACACATGCAACCT
** *
17353255 TAGGTCCACAGTTGGCTTAGGCGACACGTGCAACC
1 TAGGTCCACAGTTGGCTTAGGAAACACATGCAACC
17353290 ATATCAGCAC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.24, C:0.27, G:0.25, T:0.24
Consensus pattern (36 bp):
TAGGTCCACAGTTGGCTTAGGAAACACATGCAACCT
Found at i:17353536 original size:53 final size:53
Alignment explanation
Indices: 17353433--17353578 Score: 213
Period size: 53 Copynumber: 2.7 Consensus size: 53
17353423 TAGGGCAAAT
17353433 CAGTCATTTTACCTTACAAGGGTATTACAGTCATTTTACCCTACAAGGGTATTA
1 CAGTCATTTTACCTTACAAGGGTATTA-AGTCATTTTACCCTACAAGGGTATTA
* *
17353487 CAGTCATTTTACCCTAC-AGAGGTATTAAGTCATTTTACCCTACAGGGGTATTA
1 CAGTCATTTTACCTTACAAG-GGTATTAAGTCATTTTACCCTACAAGGGTATTA
* * **
17353540 CATTCATTTTACCTTATAAGGGTATTTGGTCATTTTACC
1 CAGTCATTTTACCTTACAAGGGTATTAAGTCATTTTACC
17353579 TTATGAGGGT
Statistics
Matches: 83, Mismatches: 7, Indels: 5
0.87 0.07 0.05
Matches are distributed among these distances:
53 58 0.70
54 25 0.30
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.38
Consensus pattern (53 bp):
CAGTCATTTTACCTTACAAGGGTATTAAGTCATTTTACCCTACAAGGGTATTA
Found at i:17353582 original size:26 final size:27
Alignment explanation
Indices: 17353433--17353578 Score: 199
Period size: 27 Copynumber: 5.5 Consensus size: 27
17353423 TAGGGCAAAT
*
17353433 CAGTCATTTTACCTTACAAGGGTATTA
1 CAGTCATTTTACCCTACAAGGGTATTA
17353460 CAGTCATTTTACCCTACAAGGGTATTA
1 CAGTCATTTTACCCTACAAGGGTATTA
17353487 CAGTCATTTTACCCTAC-AGAGGTATTA
1 CAGTCATTTTACCCTACAAG-GGTATTA
*
17353514 -AGTCATTTTACCCTACAGGGGTATTA
1 CAGTCATTTTACCCTACAAGGGTATTA
* * *
17353540 CATTCATTTTACCTTATAAGGGTATT-
1 CAGTCATTTTACCCTACAAGGGTATTA
**
17353566 TGGTCATTTTACC
1 CAGTCATTTTACC
17353579 TTATGAGGGT
Statistics
Matches: 107, Mismatches: 9, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
26 35 0.33
27 72 0.67
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.38
Consensus pattern (27 bp):
CAGTCATTTTACCCTACAAGGGTATTA
Found at i:17357215 original size:35 final size:35
Alignment explanation
Indices: 17357099--17357201 Score: 134
Period size: 35 Copynumber: 2.9 Consensus size: 35
17357089 CTCAAGGTTC
* *
17357099 ATTATATCATCACATATGGCCAAATATACAAGTAT
1 ATTATAACATCACATGTGGCCAAATATACAAGTAT
* * * * *
17357134 ATTAAAACATCACATGTAGTCAAATATTCAAGTTT
1 ATTATAACATCACATGTGGCCAAATATACAAGTAT
*
17357169 ATTATAACATCACATGTGGCCAAAGATACAAGT
1 ATTATAACATCACATGTGGCCAAATATACAAGT
17357202 CCAATATATC
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 56 1.00
ACGTcount: A:0.43, C:0.17, G:0.11, T:0.30
Consensus pattern (35 bp):
ATTATAACATCACATGTGGCCAAATATACAAGTAT
Found at i:17358900 original size:13 final size:13
Alignment explanation
Indices: 17358882--17358921 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
17358872 GAAGTTGTCG
*
17358882 CACACGGGCATGT
1 CACACGGGCGTGT
17358895 CACACGGGCGTGT
1 CACACGGGCGTGT
17358908 CACACGGGCGTGT
1 CACACGGGCGTGT
17358921 C
1 C
17358922 CCTGTCGAGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.17, C:0.33, G:0.35, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:17360417 original size:31 final size:31
Alignment explanation
Indices: 17360382--17360460 Score: 106
Period size: 31 Copynumber: 2.5 Consensus size: 31
17360372 TTGCATTCAC
* * *
17360382 ATTCTGATTTTGATTCTGTTACCTGATAT-TG
1 ATTCTGATTCTGATTCTGTCACCTGAT-TCTA
*
17360413 ATTCTGATTCTGAATCTGTCACCTGATTCTA
1 ATTCTGATTCTGATTCTGTCACCTGATTCTA
17360444 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
17360461 AGCTCTGATA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
30 1 0.02
31 41 0.98
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTGATTCTA
Found at i:17360420 original size:6 final size:6
Alignment explanation
Indices: 17360382--17360460 Score: 56
Period size: 6 Copynumber: 12.8 Consensus size: 6
17360372 TTGCATTCAC
* *
17360382 ATTCTG ATTTTG ATTCTG -TTACCTG ATAT-TG ATTCTG ATTCTG AATCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG AT-TCTG ATTCTG ATTCTG ATTCTG
* *
17360431 -TCACCTG ATTCTA ATTCTG ATTCTG ATTCT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCT
17360461 AGCTCTGATA
Statistics
Matches: 57, Mismatches: 8, Indels: 16
0.70 0.10 0.20
Matches are distributed among these distances:
5 3 0.05
6 45 0.79
7 6 0.11
8 2 0.04
9 1 0.02
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:17360467 original size:18 final size:18
Alignment explanation
Indices: 17360435--17360469 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
17360425 AATCTGTCAC
*
17360435 CTGATTCTAATTCTGATT
1 CTGATTCTAACTCTGATT
*
17360453 CTGATTCTAGCTCTGAT
1 CTGATTCTAACTCTGAT
17360470 AATGTTTCTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.46
Consensus pattern (18 bp):
CTGATTCTAACTCTGATT
Found at i:17362444 original size:27 final size:27
Alignment explanation
Indices: 17362414--17362616 Score: 282
Period size: 27 Copynumber: 7.5 Consensus size: 27
17362404 ATACTTTAGT
* **
17362414 TTACCAAAATACCCTTAGTTTACAAAA
1 TTACCAAAATACCCCTAGTTTGTAAAA
*
17362441 TTACCAAAATACCCCTGGTTTGTAAAA
1 TTACCAAAATACCCCTAGTTTGTAAAA
* * * *
17362468 TTACTAAAATACCCTTTGTTTATAAAA
1 TTACCAAAATACCCCTAGTTTGTAAAA
17362495 TTACCAAAATACCCCTAGTTTGTAAAA
1 TTACCAAAATACCCCTAGTTTGTAAAA
17362522 TTACCAAAATACCCCTAGTTTGTAAAA
1 TTACCAAAATACCCCTAGTTTGTAAAA
* *
17362549 TTATCAAAATACCCCTAGTTTCTAAAA
1 TTACCAAAATACCCCTAGTTTGTAAAA
*
17362576 TTACCAAAATACCCCT-GATTTGTGAAA
1 TTACCAAAATACCCCTAG-TTTGTAAAA
*
17362603 TTACTAAAATACCC
1 TTACCAAAATACCC
17362617 TCGACCTGTA
Statistics
Matches: 157, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
26 1 0.01
27 156 0.99
ACGTcount: A:0.40, C:0.22, G:0.06, T:0.32
Consensus pattern (27 bp):
TTACCAAAATACCCCTAGTTTGTAAAA
Found at i:17362627 original size:81 final size:81
Alignment explanation
Indices: 17362414--17362677 Score: 252
Period size: 81 Copynumber: 3.3 Consensus size: 81
17362404 ATACTTTAGT
* ** **
17362414 TTACCAAAATA-CCCTTAGTTTACAAAATTACCAAAATACCCCTG-GTTTGTAAAATTA-CTAAA
1 TTACCAAAATACCCCTGA-TTTGTAAAATTACCAAAATACCCC-GAGCCTGTAAAATTATC-AAA
* *
17362476 ATACCCTTTGTTTATAAAA
63 ATACCCCTAGTTTATAAAA
* **
17362495 TTACCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTATCAAAAT
1 TTACCAAAATACCCCTGA-TTTGTAAAATTACCAAAATACCCCGAGCCTGTAAAATTATCAAAAT
*
17362559 ACCCCTAGTTTCTAAAA
65 ACCCCTAGTTTATAAAA
* * **
17362576 TTACCAAAATACCCCTGATTTGTGAAATTACTAAAATACCCTCGA-CCTGTAAAATTATTGAAAT
1 TTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCC-CGAGCCTGTAAAATTATCAAAAT
* * *
17362640 A-CCCTCGACTTGTAAAA
65 ACCCCTAG-TTTATAAAA
* *
17362657 TTACCAAAGTACCCTTGATTT
1 TTACCAAAATACCCCTGATTT
17362678 ACAGAATTAC
Statistics
Matches: 159, Mismatches: 18, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
80 5 0.03
81 146 0.92
82 8 0.05
ACGTcount: A:0.39, C:0.22, G:0.08, T:0.32
Consensus pattern (81 bp):
TTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCCGAGCCTGTAAAATTATCAAAATA
CCCCTAGTTTATAAAA
Found at i:17362630 original size:27 final size:27
Alignment explanation
Indices: 17362437--17362671 Score: 176
Period size: 27 Copynumber: 8.7 Consensus size: 27
17362427 CTTAGTTTAC
**
17362437 AAAATTACCAAAATACCC-CTGGTTTGT
1 AAAATTACCAAAATACCCTC-GACTTGT
* * * *
17362464 AAAATTACTAAAATACCCTTTG-TTTAT
1 AAAATTACCAAAATACCC-TCGACTTGT
* *
17362491 AAAATTACCAAAATACCC-CTAGTTTGT
1 AAAATTACCAAAATACCCTCGA-CTTGT
* *
17362518 AAAATTACCAAAATACCC-CTAGTTTGT
1 AAAATTACCAAAATACCCTCGA-CTTGT
* * * *
17362545 AAAATTATCAAAATACCC-CTAGTTTCT
1 AAAATTACCAAAATACCCTCGA-CTTGT
*
17362572 AAAATTACCAAAATACCC-CTGATTTGT
1 AAAATTACCAAAATACCCTC-GACTTGT
* * *
17362599 GAAATTACTAAAATACCCTCGACCTGT
1 AAAATTACCAAAATACCCTCGACTTGT
***
17362626 AAAATTATTGAAATACCCTCGACTTGT
1 AAAATTACCAAAATACCCTCGACTTGT
*
17362653 AAAATTACCAAAGTACCCT
1 AAAATTACCAAAATACCCT
17362672 TGATTTACAG
Statistics
Matches: 178, Mismatches: 24, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
27 175 0.98
28 3 0.02
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.31
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTCGACTTGT
Found at i:17362723 original size:27 final size:26
Alignment explanation
Indices: 17362437--17362724 Score: 147
Period size: 27 Copynumber: 10.7 Consensus size: 26
17362427 CTTAGTTTAC
*
17362437 AAAATTACCAAAATACCC-CTGGTTTGT
1 AAAATT-CCAAAATACCCTC-GATTTGT
* * *
17362464 AAAATTACTAAAATACCCTTTG-TTTAT
1 AAAATT-CCAAAATACCC-TCGATTTGT
*
17362491 AAAATTACCAAAATACCC-CTAGTTTGT
1 AAAATT-CCAAAATACCCTCGA-TTTGT
*
17362518 AAAATTACCAAAATACCC-CTAGTTTGT
1 AAAATT-CCAAAATACCCTCGA-TTTGT
* * *
17362545 AAAATTATCAAAATACCC-CTAGTTTCT
1 AAAATT-CCAAAATACCCTCGA-TTTGT
17362572 AAAATTACCAAAATACCC-CTGATTTGT
1 AAAATT-CCAAAATACCCTC-GATTTGT
* * **
17362599 GAAATTACTAAAATACCCTCGACCTGT
1 AAAATT-CCAAAATACCCTCGATTTGT
*** *
17362626 AAAATTATTGAAATACCCTCGACTTGT
1 AAAATT-CCAAAATACCCTCGATTTGT
* * **
17362653 AAAATTACCAAAGTACCCTTGATTTAC
1 AAAATT-CCAAAATACCCTCGATTTGT
* * ** *
17362680 AGAATTACAATTTTACCCTCGATTTAT
1 AAAATTCCAA-AATACCCTCGATTTGT
17362707 AAAATTCCTAAAATACCC
1 AAAATTCC-AAAATACCC
17362725 CTGTAGGGTA
Statistics
Matches: 215, Mismatches: 38, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
26 3 0.01
27 207 0.96
28 5 0.02
ACGTcount: A:0.40, C:0.22, G:0.07, T:0.32
Consensus pattern (26 bp):
AAAATTCCAAAATACCCTCGATTTGT
Found at i:17362885 original size:54 final size:54
Alignment explanation
Indices: 17362717--17362902 Score: 248
Period size: 54 Copynumber: 3.5 Consensus size: 54
17362707 AAAATTCCTA
* *
17362717 AAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAAAAATACCG
1 AAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAGAAATACCG
* * **
17362771 AAATACCCCTGTAAGGTAGAATTACTAAAATACCCTTGTAGGGTAGAAATACTA
1 AAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAGAAATACCG
* * *
17362825 AAATACCCCAGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAGAAATACCG
* * * *
17362879 AGATA-CCTTGTGGGGTAAAATTAC
1 AAATACCCCTGTAGGGTAGAATTAC
17362903 CATTTTACCC
Statistics
Matches: 114, Mismatches: 18, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
53 15 0.13
54 99 0.87
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.24
Consensus pattern (54 bp):
AAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAGAAATACCG
Found at i:17362901 original size:26 final size:27
Alignment explanation
Indices: 17362717--17362903 Score: 223
Period size: 27 Copynumber: 7.0 Consensus size: 27
17362707 AAAATTCCTA
17362717 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
17362744 AAATACCCTTGTAGGGTAAAAATACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* **
17362771 AAATACCCCTGTAAGGTAGAATTACTA
1 AAATACCCCTGTAGGGTAGAATTACCG
* * **
17362798 AAATACCCTTGTAGGGTAGAAATACTA
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
17362825 AAATACCCCAGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
17362852 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * * *
17362879 AGATA-CCTTGTGGGGTAAAATTACC
1 AAATACCCCTGTAGGGTAGAATTACC
17362904 ATTTTACCCC
Statistics
Matches: 138, Mismatches: 22, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
26 17 0.12
27 121 0.88
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACCG
Found at i:17363192 original size:27 final size:26
Alignment explanation
Indices: 17363148--17363199 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
17363138 CTCGCTGCAA
*
17363148 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
17363175 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
17363200 GCAGCCTCAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:17377164 original size:51 final size:51
Alignment explanation
Indices: 17377044--17377275 Score: 296
Period size: 49 Copynumber: 4.6 Consensus size: 51
17377034 TCTATTGTGA
* *
17377044 GGTCACGTGTGTAGTACTAAGTGTAGACTACTACGTGTAC-CGGATAA-TT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTCGGATAATTT
* * * *
17377093 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACTC-GATAACTTT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTCGGATAA-TTT
* * ** *
17377144 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TCAGATGGTTA
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTCGGATAATTT
17377194 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CGGATAA-TT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTCGGATAATTT
* *
17377243 GGTCTCATGTGTAGTACTAAGTGCAGGCTACTA
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTA
17377276 TGCGTACTAG
Statistics
Matches: 157, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
49 71 0.45
50 47 0.30
51 39 0.25
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (51 bp):
GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTCGGATAATTT
Found at i:17377179 original size:28 final size:28
Alignment explanation
Indices: 17377148--17377231 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
17377138 AACTTTGATC
17377148 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * *
17377176 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
17377198 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
17377226 ACGTGT
1 ACGTGT
17377232 ACCGGATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 14 0.33
29 2 0.05
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:17386377 original size:6 final size:6
Alignment explanation
Indices: 17386353--17386414 Score: 56
Period size: 6 Copynumber: 10.2 Consensus size: 6
17386343 TGCATTCACG
* * *
17386353 TTCTGA TTCTG- TTACCTGA TACTGA TTCTGA TTCTGA TTCTCA TTTTGA
1 TTCTGA TTCTGA TT--CTGA TTCTGA TTCTGA TTCTGA TTCTGA TTCTGA
17386402 TTCT-A GTTCTGA T
1 TTCTGA -TTCTGA T
17386415 AATGTTTCTT
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
5 3 0.07
6 37 0.82
7 4 0.09
8 1 0.02
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.50
Consensus pattern (6 bp):
TTCTGA
Found at i:17392823 original size:47 final size:48
Alignment explanation
Indices: 17392764--17392873 Score: 159
Period size: 48 Copynumber: 2.3 Consensus size: 48
17392754 CAGTAATGCG
* *
17392764 AATAAACTGCCACATAATCAAA-TTGTGGACAAGCCACCAATTTTGTA
1 AATATACTGCCACATAATCAAATTTGTGGACAAGCCACCAATTTTGCA
* * *
17392811 GATATACTGCCACATAATCAAATTTGTGGACAGGCCACCACTTTTGCA
1 AATATACTGCCACATAATCAAATTTGTGGACAAGCCACCAATTTTGCA
*
17392859 AATATACTACCACAT
1 AATATACTGCCACAT
17392874 TCTTCCACCT
Statistics
Matches: 55, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
47 20 0.36
48 35 0.64
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.26
Consensus pattern (48 bp):
AATATACTGCCACATAATCAAATTTGTGGACAAGCCACCAATTTTGCA
Found at i:17394974 original size:8 final size:8
Alignment explanation
Indices: 17394961--17394989 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
17394951 AGTAGTTAAG
17394961 TGGAGTGT
1 TGGAGTGT
17394969 TGGAGTGT
1 TGGAGTGT
17394977 TGGAGTGT
1 TGGAGTGT
17394985 TGGAG
1 TGGAG
17394990 GTTCTTTGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.52, T:0.34
Consensus pattern (8 bp):
TGGAGTGT
Found at i:17395234 original size:3 final size:3
Alignment explanation
Indices: 17395226--17395260 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
17395216 TTTTGACGTT
*
17395226 TTC TTC TTC TTT TTC TTC TTC TTC TTC TCTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC T-TC TTC T
17395261 ATCAATTCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:17403595 original size:13 final size:13
Alignment explanation
Indices: 17403577--17403601 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17403567 GAACTATGAA
17403577 ATTAATGAGTACT
1 ATTAATGAGTACT
17403590 ATTAATGAGTAC
1 ATTAATGAGTAC
17403602 AGAAGAAACT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.16, T:0.36
Consensus pattern (13 bp):
ATTAATGAGTACT
Found at i:17406234 original size:30 final size:30
Alignment explanation
Indices: 17406200--17406257 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
17406190 CCTTAACTCT
17406200 AACTTTTGCAAAATTACA-ATTTTGCCCCTA
1 AACTTTTGCAAAATTACACA-TTTGCCCCTA
* *
17406230 AACTTTTGCATATTTACACATTTGCCCC
1 AACTTTTGCAAAATTACACATTTGCCCC
17406258 AAATCTCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 24 0.96
31 1 0.04
ACGTcount: A:0.29, C:0.26, G:0.07, T:0.38
Consensus pattern (30 bp):
AACTTTTGCAAAATTACACATTTGCCCCTA
Found at i:17409899 original size:34 final size:34
Alignment explanation
Indices: 17409859--17409924 Score: 114
Period size: 34 Copynumber: 1.9 Consensus size: 34
17409849 TCAACCTTTC
*
17409859 TCACCTAACTTCCAAATGCATAATCTTACCATTT
1 TCACCTAACTTCCAAATACATAATCTTACCATTT
*
17409893 TCACCTAACTTCCAGATACATAATCTTACCAT
1 TCACCTAACTTCCAAATACATAATCTTACCAT
17409925 CTTTTTACCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.33, C:0.30, G:0.03, T:0.33
Consensus pattern (34 bp):
TCACCTAACTTCCAAATACATAATCTTACCATTT
Found at i:17413468 original size:22 final size:23
Alignment explanation
Indices: 17413414--17413465 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
17413404 TATAAAACCT
17413414 AATAAAAA-TAAG-CTTAAAGAAA
1 AATAAAAAGT-AGTCTTAAAGAAA
* *
17413436 AATAAAAAGTAGTCTTAAAGTAG
1 AATAAAAAGTAGTCTTAAAGAAA
17413459 AATAAAA
1 AATAAAA
17413466 GTAAAAACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 10 0.38
23 16 0.62
ACGTcount: A:0.63, C:0.04, G:0.12, T:0.21
Consensus pattern (23 bp):
AATAAAAAGTAGTCTTAAAGAAA
Found at i:17419845 original size:43 final size:43
Alignment explanation
Indices: 17419733--17419902 Score: 164
Period size: 43 Copynumber: 4.0 Consensus size: 43
17419723 ATAAAGGTCG
* * * *
17419733 TACAATG-CAATATCCCAGATATGGTCTTACATGTTATCAC-A
1 TACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAA
* * * * * *
17419774 TATCGATGCCACTATCCTAGACAGGGTCTTACACGAAATCACAA
1 TA-CAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAA
* * * * *
17419818 TACGATGCCAATGTCTCAGGCATGGTCTTACGCGTAATCATAA
1 TACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAA
* *
17419861 TACAATGCCAATGTCCCAGACATGGTATTACATGTAATCACA
1 TACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACA
17419903 TCTCGATAAG
Statistics
Matches: 102, Mismatches: 24, Indels: 4
0.78 0.18 0.03
Matches are distributed among these distances:
41 2 0.02
42 4 0.04
43 93 0.91
44 3 0.03
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (43 bp):
TACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAA
Found at i:17433515 original size:40 final size:40
Alignment explanation
Indices: 17432840--17433501 Score: 1254
Period size: 40 Copynumber: 16.6 Consensus size: 40
17432830 NNNNNNNNNN
17432840 GGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAACCG
1 GGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAACCG
17432880 GGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAACCG
1 GGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAACCG
17432920 GGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAACCG
1 GGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAACCG
17432960 GGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAACCG
1 GGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAACCG
17433000 GGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAACCG
1 GGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAACCG
17433040 GGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAACCG
1 GGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAACCG
17433080 GGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAACCG
1 GGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAACCG
17433120 GGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAACCG
1 GGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAACCG
17433160 GGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAACCG
1 GGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAACCG
17433200 GGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAACCG
1 GGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAACCG
17433240 GGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAACCG
1 GGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAACCG
17433280 GGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAACCG
1 GGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAACCG
17433320 GGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAACCG
1 GGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAACCG
*
17433360 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCG
1 GGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAACCG
* *
17433400 GGCTAAGT-TCCGAAGGCATTTGTGCAAGTTACTATAATCG
1 GGCTAAGTCT-CGAAGGCATTTGTGCGAGTTACTATAACCG
* *
17433440 GGCTCAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCG
1 GGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAACCG
*
17433480 GGCTAAGTCCCGAAGGCATTTG
1 GGCTAAGTCTCGAAGGCATTTG
17433502 AGCAAGTAGC
Statistics
Matches: 611, Mismatches: 9, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
40 611 1.00
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (40 bp):
GGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAACCG
Found at i:17441465 original size:40 final size:40
Alignment explanation
Indices: 17441410--17441707 Score: 521
Period size: 40 Copynumber: 7.5 Consensus size: 40
17441400 CGGATGATAA
* *
17441410 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
17441450 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
17441490 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
17441530 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
17441570 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
17441610 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
17441650 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
17441690 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
17441708 TACTTGGTTT
Statistics
Matches: 252, Mismatches: 4, Indels: 5
0.97 0.02 0.02
Matches are distributed among these distances:
39 17 0.07
40 234 0.93
41 1 0.00
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:17444070 original size:5 final size:5
Alignment explanation
Indices: 17444060--17444088 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
17444050 TTGGGGAGAC
17444060 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
17444089 AATTAAAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:17447343 original size:50 final size:50
Alignment explanation
Indices: 17447284--17447384 Score: 193
Period size: 50 Copynumber: 2.0 Consensus size: 50
17447274 AAACTCCTTT
*
17447284 TATTGATAAGTCACTCATATGCAAACATTATTTCAAAATTTTAATCTAAG
1 TATTGATAAGTCACTCATATGCAAACATTATTTCAAAATTATAATCTAAG
17447334 TATTGATAAGTCACTCATATGCAAACATTATTTCAAAATTATAATCTAAG
1 TATTGATAAGTCACTCATATGCAAACATTATTTCAAAATTATAATCTAAG
17447384 T
1 T
17447385 GTGGAAAAAT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.41, C:0.14, G:0.08, T:0.38
Consensus pattern (50 bp):
TATTGATAAGTCACTCATATGCAAACATTATTTCAAAATTATAATCTAAG
Found at i:17449289 original size:37 final size:37
Alignment explanation
Indices: 17449239--17449317 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
17449229 TTATTACGAA
* * *
17449239 GTCTTACCCGGACATAATCTCCACACGA-AGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACAC-ATAGTCATCGG
17449276 GTCTTACCCGGACAAAATCCCCACACATAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACATAGTCATCGG
17449313 GTCTT
1 GTCTT
17449318 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
36 1 0.03
37 37 0.97
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACATAGTCATCGG
Found at i:17449514 original size:47 final size:47
Alignment explanation
Indices: 17449436--17450018 Score: 932
Period size: 47 Copynumber: 12.2 Consensus size: 47
17449426 CCCTTCGGGA
* * * * * *
17449436 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
17449483 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
17449530 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTGGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
17449577 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
17449624 CTTATCACATATATATACACTTTCACATTAATCACAGCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
17449673 CTTATCACATATATATACACTTTCACATCCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
17449722 CTTAGCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
17449769 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
17449818 CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17449865 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
17449912 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
17449961 CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17450008 CTTATCACATA
1 CTTATCACATA
17450019 GAATCCTAAA
Statistics
Matches: 501, Mismatches: 29, Indels: 12
0.92 0.05 0.02
Matches are distributed among these distances:
47 320 0.64
49 181 0.36
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:17449667 original size:96 final size:96
Alignment explanation
Indices: 17449436--17450018 Score: 921
Period size: 96 Copynumber: 6.1 Consensus size: 96
17449426 CCCTTCGGGA
* * * * * * *
17449436 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
17449499 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
17449530 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTGGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
17449593 ACTTTCACATTCATCACATCAGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
17449624 CTTATCACATATATATACACTTTCACATTAATCACAGCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
*
17449689 ACACTTTCACATCCATCACATCGGCCATTAGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
*
17449722 CTTAGCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
*
17449785 ACACTTTCACATTCATCACATCGGCTATTAGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
*
17449818 CTTATCAC--ATATATACACTTTCACATTTATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
17449881 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
17449912 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
17449977 ACTTTCACATTTATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
17450008 CTTATCACATA
1 CTTATCACATA
17450019 GAATCCTAAA
Statistics
Matches: 457, Mismatches: 24, Indels: 14
0.92 0.05 0.03
Matches are distributed among these distances:
93 1 0.00
94 137 0.30
96 275 0.60
98 44 0.10
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.32
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:17450017 original size:143 final size:143
Alignment explanation
Indices: 17449436--17450018 Score: 972
Period size: 143 Copynumber: 4.1 Consensus size: 143
17449426 CCCTTCGGGA
* * * * * * * *
17449436 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
17449499 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
*
17449564 TCGGCCATTGGGC
131 TCGGCCATTAGGC
*
17449577 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* * *
17449642 ACTTTCACATTAATCACAGCGGCCATTAGGCCTTATCACATATATATACACTTTCACATCCATCA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCA
17449707 CATCGGCCATTAGGC
129 CATCGGCCATTAGGC
*
17449722 CTTAGCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* *
17449787 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTTATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
17449852 TCGGCCATTAGGC
131 TCGGCCATTAGGC
17449865 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* *
17449930 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTTATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
17449995 TCGGCCATTAGGC
131 TCGGCCATTAGGC
17450008 CTTATCACATA
1 CTTATCACATA
17450019 GAATCCTAAA
Statistics
Matches: 417, Mismatches: 21, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
141 46 0.11
143 235 0.56
145 136 0.33
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.32
Consensus pattern (143 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:17456058 original size:43 final size:43
Alignment explanation
Indices: 17456003--17456175 Score: 162
Period size: 43 Copynumber: 4.0 Consensus size: 43
17455993 ATATCATACA
17456003 ATGCCAAC-GTCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACTGTCCCAGACGTGGTCTTACATG-AATCACATATCG
*
17456046 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGAATCACA-ATTACG
1 ATGCCAACTGTCCCAGAC-GTGGTCTTACATGAATCACATA-T-CG
* * * *
17456089 ATGCCGA-TGTCCTAGACATGGTCTTAC-TCGAAATCACATATCA
1 ATGCCAACTGTCCCAGACGTGGTCTTACAT-G-AATCACATATCG
* * *
17456132 ATGCCAACT-TCCTAGACGTGGTCTTACACGAGAGCACATATCG
1 ATGCCAACTGTCCCAGACGTGGTCTTACATGA-ATCACATATCG
17456175 A
1 A
17456176 AAATCCTATG
Statistics
Matches: 108, Mismatches: 10, Indels: 24
0.76 0.07 0.17
Matches are distributed among these distances:
41 1 0.01
42 11 0.10
43 84 0.78
44 11 0.10
45 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.24
Consensus pattern (43 bp):
ATGCCAACTGTCCCAGACGTGGTCTTACATGAATCACATATCG
Found at i:17457745 original size:279 final size:279
Alignment explanation
Indices: 17457245--17457801 Score: 1069
Period size: 279 Copynumber: 2.0 Consensus size: 279
17457235 TCATTTTACG
*
17457245 CGATTAAGTCCTTTTAATTAAATCGGCACTCAAATGATAAAATTAAAGCATGAAAATTTCACATA
1 CGATTAAGTCCTTTTAATTAAATCGGCACTCAAATGATAAAATTAAAGCACGAAAATTTCACATA
17457310 TATAAATTCACACATAATAAACACTGAAAATAATTTTTAAATATTTTTTTGACTCAAATTTGTGG
66 TATAAATTCACACATAATAAACACTGAAAATAATTTTTAAATATTTTTTTGACTCAAATTTGTGG
*
17457375 TTCCAAAACCACCATTTCTAATAGGGTCTAAATCAGGCTGTTACAACCCATATGCTCGTGTGTTA
131 TTCCAAAACCACCATTTCTAATAGGGTCTAAATCAGGCTGTTACAACCCATATGCTCGTGTGCTA
17457440 GGTCGTGTAACTCACTAACTTGCTTACAAAGGAATTCTTAGATGACACACAGCTGTGTGCCACAC
196 GGTCGTGTAACTCACTAACTTGCTTACAAAGGAATTCTTAGATGACACACAGCTGTGTGCCACAC
17457505 ATGACTGAGTCACACACCA
261 ATGACTGAGTCACACACCA
17457524 CGATTAAGTCCTTTTAATTAAATCGGCACTCAAATGATAAAATTAAAGCACGAAAATTTCACATA
1 CGATTAAGTCCTTTTAATTAAATCGGCACTCAAATGATAAAATTAAAGCACGAAAATTTCACATA
* *
17457589 TATAAATTCACACATAATAAACACTGAAAATATTTTTTAAATATTTTTTTGACTCGAATTTGTGG
66 TATAAATTCACACATAATAAACACTGAAAATAATTTTTAAATATTTTTTTGACTCAAATTTGTGG
17457654 TTCCAAAACCACCATTTCTAATAGGGTCTAAATCAGGCTGTTACAACCCATATGCTCGTGTGCTA
131 TTCCAAAACCACCATTTCTAATAGGGTCTAAATCAGGCTGTTACAACCCATATGCTCGTGTGCTA
*
17457719 GGTCGTGTAACTCACTAACTTGCTTACAAAGGAATTCTTAGATGACACACAGTTGTGTGCCACAC
196 GGTCGTGTAACTCACTAACTTGCTTACAAAGGAATTCTTAGATGACACACAGCTGTGTGCCACAC
17457784 ATGACTGAGTCACACACC
261 ATGACTGAGTCACACACC
17457802 TATGTCTCAA
Statistics
Matches: 273, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
279 273 1.00
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.31
Consensus pattern (279 bp):
CGATTAAGTCCTTTTAATTAAATCGGCACTCAAATGATAAAATTAAAGCACGAAAATTTCACATA
TATAAATTCACACATAATAAACACTGAAAATAATTTTTAAATATTTTTTTGACTCAAATTTGTGG
TTCCAAAACCACCATTTCTAATAGGGTCTAAATCAGGCTGTTACAACCCATATGCTCGTGTGCTA
GGTCGTGTAACTCACTAACTTGCTTACAAAGGAATTCTTAGATGACACACAGCTGTGTGCCACAC
ATGACTGAGTCACACACCA
Found at i:17458970 original size:38 final size:38
Alignment explanation
Indices: 17458876--17459037 Score: 272
Period size: 38 Copynumber: 4.3 Consensus size: 38
17458866 AGGCCCGAAT
* *
17458876 ATAT-TTCCAGCACGTAGCCTGCGGACCTCAGGTCTGG
1 ATATGTTCCAGCACGTAGCCTGCGGACCTCAAGTCCGG
*
17458913 ATATGTTTCCAACACGTAGCCTGCGGACCTCAAGTCCGG
1 ATATG-TTCCAGCACGTAGCCTGCGGACCTCAAGTCCGG
*
17458952 ATATGTTCCAGCACGTAGCCTGCAGACCTCAAGTCCGG
1 ATATGTTCCAGCACGTAGCCTGCGGACCTCAAGTCCGG
17458990 ATATGTTCCAGCACGTAGCCTGCGGACCTCAAGTCCGG
1 ATATGTTCCAGCACGTAGCCTGCGGACCTCAAGTCCGG
17459028 ATATGTTCCA
1 ATATGTTCCA
17459038 AATATCATGC
Statistics
Matches: 117, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
37 4 0.03
38 78 0.67
39 35 0.30
ACGTcount: A:0.22, C:0.30, G:0.24, T:0.23
Consensus pattern (38 bp):
ATATGTTCCAGCACGTAGCCTGCGGACCTCAAGTCCGG
Found at i:17463592 original size:48 final size:48
Alignment explanation
Indices: 17463487--17463801 Score: 235
Period size: 48 Copynumber: 6.6 Consensus size: 48
17463477 CATGTGTGCT
* * * *
17463487 AGTGTAAGA-CATGTTTGGGACAT-GCATCGGCCACAT--TATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAG-CATATGAGATGAGAG-C
* *
17463533 AATGTAAGACCATGTCTGGGACATGGCATCAGCAT-TGAGACGAGAGC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCATATGAGATGAGAGC
* * * * * *
17463580 TAGTGTATGACCATGTCTAGGACATGGCATCGGCCT-CGAGATGTGAGCC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCAGCATATGAGATGAGAG-C
* * *
17463629 AGTGTAAGACCATGTCTGGGACATGGCATCAAC-TATGAGATGTG-TC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCATATGAGATGAGAGC
* * *
17463675 AGTGTAAGACCATGTTTGGGACATGGCATCGGGACGGATATGTGA-GAGA-C
1 AGTGTAAGACCATGTCTGGGACATGGCATC---A-GCATATGAGATGAGAGC
*
17463725 AGTGTAAGACCATGTCTGGGACATGGCATCAAC-T-T--GATGTATGAGC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCATATGAGATG-A-GAGC
* * *
17463771 TAGTGTAAGACCATGTTTGGGGCATGACATC
1 -AGTGTAAGACCATGTCTGGGACATGGCATC
17463802 GACATCCTAC
Statistics
Matches: 220, Mismatches: 31, Indels: 35
0.77 0.11 0.12
Matches are distributed among these distances:
42 2 0.01
43 1 0.00
44 2 0.01
45 3 0.01
46 40 0.18
47 45 0.20
48 87 0.40
49 2 0.01
50 32 0.15
51 6 0.03
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCAGCATATGAGATGAGAGC
Found at i:17463628 original size:96 final size:94
Alignment explanation
Indices: 17463484--17463802 Score: 355
Period size: 96 Copynumber: 3.4 Consensus size: 94
17463474 TGACATGTGT
* *
17463484 GCTAGTGTAAGA-CATGTTTGGGACAT-GCATCGGCCAC-ATTATGAGAGCCAATGTAAGACCAT
1 GCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCC-CGA-TATGTGAGCCAGTGTAAGACCAT
*
17463546 GTCTGGGACATGGCATCAGC-ATTGAGACGAG
64 GTCTGGGACATGGCATCAACTA-TGAGACGAG
* * * *
17463577 AGCTAGTGTATGACCATGTCTAGGACATGGCATCGGCCTCGAGATGTGAGCCAGTGTAAGACCAT
1 -GCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCC-CGATATGTGAGCCAGTGTAAGACCAT
* *
17463642 GTCTGGGACATGGCATCAACTATGAGATGTG
64 GTCTGGGACATGGCATCAACTATGAGACGAG
* * * *
17463673 TC-AGTGTAAGACCATGTTTGGGACATGGCATCGGGACGGATATGTGAGAGACAGTGTAAGACCA
1 GCTAGTGTAAGACCATGTTTGGGACATGGCATC-GGCCCGATATGT--GAGCCAGTGTAAGACCA
*
17463737 TGTCTGGGACATGGCATCAACT-TGATGTATGA-
63 TGTCTGGGACATGGCATCAACTATGA-G-ACGAG
* *
17463769 GCTAGTGTAAGACCATGTTTGGGGCATGACATCG
1 GCTAGTGTAAGACCATGTTTGGGACATGGCATCG
17463803 ACATCCTACC
Statistics
Matches: 193, Mismatches: 22, Indels: 18
0.83 0.09 0.08
Matches are distributed among these distances:
94 44 0.23
95 19 0.10
96 97 0.50
97 33 0.17
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.24
Consensus pattern (94 bp):
GCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCCGATATGTGAGCCAGTGTAAGACCATGT
CTGGGACATGGCATCAACTATGAGACGAG
Found at i:17473166 original size:45 final size:43
Alignment explanation
Indices: 17473043--17473194 Score: 157
Period size: 43 Copynumber: 3.5 Consensus size: 43
17473033 TATCCTAGAT
* * *
17473043 ATGGTCTTACATGTCATCACATATCAATGCCACTGTCCCAGAC
1 ATGGTCTTACATGTAATCACAAATCAATGCCAATGTCCCAGAC
* * * * *
17473086 A-GGATCTTAGATGAAATTGA-ATAAT-GATGCCAATGTCCTAGAC
1 ATGG-TCTTACATGTAA-TCACA-AATCAATGCCAATGTCCCAGAC
17473129 ATGGTCTTACATGTAATCACACAATACAATGCCAATGTCCCAGAC
1 ATGGTCTTACATGTAATCACA-AAT-CAATGCCAATGTCCCAGAC
*
17473174 ATGGTCTTACACGTAATCACA
1 ATGGTCTTACATGTAATCACA
17473195 TCTCGGTAAC
Statistics
Matches: 87, Mismatches: 15, Indels: 12
0.76 0.13 0.11
Matches are distributed among these distances:
42 4 0.05
43 41 0.47
44 6 0.07
45 36 0.41
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.27
Consensus pattern (43 bp):
ATGGTCTTACATGTAATCACAAATCAATGCCAATGTCCCAGAC
Found at i:17475151 original size:39 final size:39
Alignment explanation
Indices: 17475103--17475279 Score: 144
Period size: 39 Copynumber: 4.6 Consensus size: 39
17475093 CCTGATAACG
* * *
17475103 CTTACGTGCCCCTATCGTACTTCGGTACCCCTGATTGCA
1 CTTAAGTGCCCCTGTCGTACTTCGGTACCCCTAATTGCA
* * * *
17475142 CTTAAGTGCCCTTGTCGATACTTCAGTA-CCCTGATCGCA
1 CTTAAGTGCCCCTGTCG-TACTTCGGTACCCCTAATTGCA
* * * * *
17475181 CTTATGTGCCACTGTTGTACTTTGGTACCCC-AATTACA
1 CTTAAGTGCCCCTGTCGTACTTCGGTACCCCTAATTGCA
* * * * *
17475219 CTTACGTACCCCTGTCATACTTCGGTACCCTTAATTGCG
1 CTTAAGTGCCCCTGTCGTACTTCGGTACCCCTAATTGCA
* *
17475258 CTTACA-TGCCCCTATTGTACTT
1 CTTA-AGTGCCCCTGTCGTACTT
17475280 TGGTGCTCTT
Statistics
Matches: 106, Mismatches: 28, Indels: 8
0.75 0.20 0.06
Matches are distributed among these distances:
38 36 0.34
39 61 0.58
40 9 0.08
ACGTcount: A:0.19, C:0.32, G:0.16, T:0.34
Consensus pattern (39 bp):
CTTAAGTGCCCCTGTCGTACTTCGGTACCCCTAATTGCA
Found at i:17483191 original size:37 final size:37
Alignment explanation
Indices: 17483141--17483219 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
17483131 TTATTACGAA
* * *
17483141 GTCTTACCCGGACATAATCTCCACACGA-AGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACAC-ATAGTCATCGG
17483178 GTCTTACCCGGACAAAATCCCCACACATAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACATAGTCATCGG
17483215 GTCTT
1 GTCTT
17483220 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
36 1 0.03
37 37 0.97
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACATAGTCATCGG
Found at i:17483416 original size:47 final size:47
Alignment explanation
Indices: 17483339--17484492 Score: 1963
Period size: 47 Copynumber: 24.2 Consensus size: 47
17483329 CCTTCGGGAT
* * * * * *
17483339 TTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
* *
17483386 CTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
*
17483433 TTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCC
1 TTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
*
17483482 TTATCACATATATACACTTTCACATTTATCACATC-GCGCATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGC-CATTAGGCC
*
17483529 TTATCACATATATACACTTTCACATTTATCACATC-GCGCATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGC-CATTAGGCC
*
17483576 TTATCACATATATACACTTTCACATTTATCACATC-GCGCATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGC-CATTAGGCC
*
17483623 TTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
*
17483670 TTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
* * *
17483717 TTATGACATATATACACTTTCATATTCATCACATCAGCCATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
17483764 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
17483811 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
17483858 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
17483905 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
17483952 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
17483999 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
17484046 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
17484093 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
17484140 TTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
17484189 TTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
17484238 TTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
17484287 TTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
17484336 TTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
17484385 TTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
17484434 TTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
17484483 TTATCACATA
1 TTATCACATA
17484493 GAATCCTAAA
Statistics
Matches: 1079, Mismatches: 22, Indels: 12
0.97 0.02 0.01
Matches are distributed among these distances:
46 2 0.00
47 688 0.64
48 2 0.00
49 387 0.36
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
Found at i:17487126 original size:40 final size:40
Alignment explanation
Indices: 17487088--17487801 Score: 1223
Period size: 40 Copynumber: 17.9 Consensus size: 40
17487078 ACGTCACCAA
* * * * *
17487088 CATGATTGCTCTTCGGGACCTAGCCCGGATATAACACCAG
1 CATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAG
* ** * *
17487128 CACGAATGCTCTTCGGGGTTTAGCACGGATATATCACTAG
1 CATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAG
* *
17487168 CACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAG
1 CATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAG
17487208 CATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAG
1 CATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAG
* *
17487248 CACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAG
1 CATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAG
* *
17487288 CACGAATGCCCTTCGGGACTTAGCCCGGATACATCACTAG
1 CATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAG
*
17487328 CACGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAG
1 CATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAG
*
17487368 CACGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAG
1 CATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAG
17487408 CATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAG
1 CATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAG
17487448 CATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAG
1 CATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAG
17487488 CATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAG
1 CATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAG
17487528 CATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAG
1 CATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAG
*
17487568 CATGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAG
1 CATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAG
17487608 CATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAG
1 CATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAG
17487648 CATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAG
1 CATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAG
*
17487688 CATGAATGCTCTTCGAGACTTAGCCCGGATACATCACTAG
1 CATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAG
*
17487728 CACGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAG
1 CATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAG
*
17487768 CACGAATGCTCTTCGGGACTTAGCCCGGAT-CATC
1 CATGAATGCTCTTCGGGACTTAGCCCGGATACATC
17487802 GTCGAGACCT
Statistics
Matches: 648, Mismatches: 26, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
39 4 0.01
40 644 0.99
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
CATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAG
Found at i:17487924 original size:38 final size:38
Alignment explanation
Indices: 17487855--17487929 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
17487845 GAATTTTAAT
*
17487855 CCGGACATAATCTCTGTACATAGCCATCGGGTCTTTAC
1 CCGGACATAATCTCTGTACATAGCCAGCGGGTCTTTAC
* *
17487893 CCGGACATAATCTCT-TCATATAGTCAGCGGGTCTTTA
1 CCGGACATAATCTCTGT-ACATAGCCAGCGGGTCTTTA
17487930 AACTCGGATT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.31
Consensus pattern (38 bp):
CCGGACATAATCTCTGTACATAGCCAGCGGGTCTTTAC
Found at i:17490094 original size:47 final size:47
Alignment explanation
Indices: 17490016--17491032 Score: 1890
Period size: 47 Copynumber: 21.6 Consensus size: 47
17490006 CCCTTCGGGA
* * * * * *
17490016 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
17490063 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17490110 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17490157 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17490204 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17490251 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17490298 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
17490345 CTTATCACATATATATACTCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17490394 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17490441 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17490488 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17490535 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17490582 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17490629 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17490676 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17490723 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17490770 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17490817 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17490864 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17490911 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
17490958 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
17491007 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
17491033 CACAATTATC
Statistics
Matches: 951, Mismatches: 15, Indels: 8
0.98 0.02 0.01
Matches are distributed among these distances:
47 859 0.90
49 92 0.10
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:17492551 original size:56 final size:56
Alignment explanation
Indices: 17492484--17492603 Score: 222
Period size: 56 Copynumber: 2.1 Consensus size: 56
17492474 TATTAGTTTA
*
17492484 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCACGACATGTT
*
17492540 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCACGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCACGACATGTT
17492596 TTGCCCAT
1 TTGCCCAT
17492604 CATCCCTTGT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.23, C:0.24, G:0.09, T:0.44
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCACGACATGTT
Found at i:17497090 original size:43 final size:43
Alignment explanation
Indices: 17496917--17497093 Score: 161
Period size: 43 Copynumber: 4.1 Consensus size: 43
17496907 TAACACATAT
*
17496917 CATA-CAATGCCAAC-GTCCCAGACGTGGTCTTACATGTAATCA
1 CATATCAATGCCAACTGTCCCAGACGTGGTCTTACACG-AATCA
* *
17496959 CATGTCGATGCC-ACTGTCCCAGACAG-GGTCTTACACGAATCA
1 CATATCAATGCCAACTGTCCCAGAC-GTGGTCTTACACGAATCA
* * * * *
17497001 CA-ATTACGATGCCGA-TGTCCTAGACATGGTCTTACTCGAAATCA
1 CATA-T-CAATGCCAACTGTCCCAGACGTGGTCTTACACG-AATCA
* *
17497045 CATATCAATGCCAACT-TCCTAGACGTGGTCTTACACGAGAGCA
1 CATATCAATGCCAACTGTCCCAGACGTGGTCTTACACGA-ATCA
17497088 CATATC
1 CATATC
17497094 GAAAATCCTA
Statistics
Matches: 112, Mismatches: 12, Indels: 21
0.77 0.08 0.14
Matches are distributed among these distances:
42 14 0.12
43 86 0.77
44 11 0.10
45 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.24
Consensus pattern (43 bp):
CATATCAATGCCAACTGTCCCAGACGTGGTCTTACACGAATCA
Found at i:17499609 original size:38 final size:38
Alignment explanation
Indices: 17499515--17499676 Score: 263
Period size: 38 Copynumber: 4.3 Consensus size: 38
17499505 AGGCCCGAAT
* *
17499515 ATAT-TTCCAGCACGTAGCCTGCGGACCTCAGGTCTGG
1 ATATGTTCCAGCACGTAGCCTGCGGACCTCAAGTCCGG
*
17499552 ATATGTTTCCAACACGTAGCCTGCGGACCTCAAGTCCGG
1 ATATG-TTCCAGCACGTAGCCTGCGGACCTCAAGTCCGG
*
17499591 ATATGTTCCAGCACGTAGCCTGCAGACCTCAAGTCCGG
1 ATATGTTCCAGCACGTAGCCTGCGGACCTCAAGTCCGG
*
17499629 ATATGTTCCAGCACGTAGCCTGCGGACCTCAAGTCCAG
1 ATATGTTCCAGCACGTAGCCTGCGGACCTCAAGTCCGG
17499667 ATATGTTCCA
1 ATATGTTCCA
17499677 AATATCATGC
Statistics
Matches: 116, Mismatches: 7, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
37 4 0.03
38 77 0.66
39 35 0.30
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.23
Consensus pattern (38 bp):
ATATGTTCCAGCACGTAGCCTGCGGACCTCAAGTCCGG
Found at i:17504234 original size:48 final size:48
Alignment explanation
Indices: 17504129--17504397 Score: 234
Period size: 48 Copynumber: 5.6 Consensus size: 48
17504119 CATGTCTCCT
* * * *
17504129 AGTGTAAGA-CATGTTTGGGACAT-GCATCGGCCACAT--TATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAG-CATATGAGATGAGAG-C
* *
17504175 AATGTAAGACCATGTCTGGGACATGGCATCAGCAT-TGAGACGAGAGC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCATATGAGATGAGAGC
* * * * * *
17504222 TAGTGTATGACCATGTCTAGGACATGGCATCGGCCT-CGAGATGTGAGCC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCAGCATATGAGATGAGAG-C
* * *
17504271 AGTGTAAGACCATGTCTGGGACATGGCATCAAC-TATGAGATGTG-TC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCATATGAGATGAGAGC
* * *
17504317 AGTGTAAGACCATGTTTGGGACATGGCATCGGGACGGATATGTGA-GAGA-C
1 AGTGTAAGACCATGTCTGGGACATGGCATC---A-GCATATGAGATGAGAGC
17504367 AGTGTAAGACCATGTCTGGGACATGGCATCA
1 AGTGTAAGACCATGTCTGGGACATGGCATCA
17504398 ACTCGATGTA
Statistics
Matches: 184, Mismatches: 26, Indels: 25
0.78 0.11 0.11
Matches are distributed among these distances:
46 39 0.21
47 18 0.10
48 87 0.47
49 2 0.01
50 32 0.17
51 6 0.03
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCAGCATATGAGATGAGAGC
Found at i:17504270 original size:96 final size:94
Alignment explanation
Indices: 17504127--17504444 Score: 344
Period size: 96 Copynumber: 3.4 Consensus size: 94
17504117 GACATGTCTC
* *
17504127 CTAGTGTAAGA-CATGTTTGGGACAT-GCATCGGCCAC-ATTATGAGAGCCAATGTAAGACCATG
1 CTAGTGTAAGACCATGTTTGGGACATGGCATCGGCC-CGA-TATGTGAGCCAGTGTAAGACCATG
*
17504189 TCTGGGACATGGCATCAGC-ATTGAGACGAGAG
64 TCTGGGACATGGCATCAACTA-TGAGACGAG-G
* * * *
17504221 CTAGTGTATGACCATGTCTAGGACATGGCATCGGCCTCGAGATGTGAGCCAGTGTAAGACCATGT
1 CTAGTGTAAGACCATGTTTGGGACATGGCATCGGCC-CGATATGTGAGCCAGTGTAAGACCATGT
* * *
17504286 CTGGGACATGGCATCAACTATGAGATGTGT
65 CTGGGACATGGCATCAACTATGAGACGAGG
* * *
17504316 C-AGTGTAAGACCATGTTTGGGACATGGCATCGGGACGGATATGTGAGAGACAGTGTAAGACCAT
1 CTAGTGTAAGACCATGTTTGGGACATGGCATC-GGCCCGATATGT--GAGCCAGTGTAAGACCAT
* *
17504380 GTCTGGGACATGGCATCAACTCGATG-TATGA-G
63 GTCTGGGACATGGCATCAACT--ATGAGACGAGG
* *
17504412 CTAGTGTAAGACCATGTTTGGGGCATGACATCG
1 CTAGTGTAAGACCATGTTTGGGACATGGCATCG
17504445 ACATCCTACC
Statistics
Matches: 191, Mismatches: 23, Indels: 18
0.82 0.10 0.08
Matches are distributed among these distances:
94 43 0.23
95 16 0.08
96 96 0.50
97 33 0.17
98 3 0.02
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (94 bp):
CTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCCGATATGTGAGCCAGTGTAAGACCATGTC
TGGGACATGGCATCAACTATGAGACGAGG
Found at i:17504337 original size:46 final size:45
Alignment explanation
Indices: 17504177--17504443 Score: 209
Period size: 48 Copynumber: 5.6 Consensus size: 45
17504167 TGAGAGCCAA
* *
17504177 TGTAAGACCATGTCTGGGACATGGCATCAGC-ATTGAGACGAGAGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCAACTA-TGAGA--TGAGC-AG
* * ** *
17504225 TGTATGACCATGTCTAGGACATGGCATCGGCCT-CGAGATGTGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATC-AACTATGAGA--TGAG-CAG
*
17504273 TGTAAGACCATGTCTGGGACATGGCATCAACTATGAGATGTGTCAG
1 TGTAAGACCATGTCTGGGACATGGCATCAACTATGAGATGAG-CAG
* * *
17504319 TGTAAGACCATGTTTGGGACATGGCATCGGGACGGATATGTGA-GAGACAG
1 TGTAAGACCATGTCTGGGACATGGCATC--AAC---TATGAGATGAG-CAG
*
17504369 TGTAAGACCATGTCTGGGACATGGCATCAACTCGATG-TATGAGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCAACT--ATGAGATGAGC-AG
* * *
17504416 TGTAAGACCATGTTTGGGGCATGACATC
1 TGTAAGACCATGTCTGGGACATGGCATC
17504444 GACATCCTAC
Statistics
Matches: 181, Mismatches: 25, Indels: 27
0.78 0.11 0.12
Matches are distributed among these distances:
45 1 0.01
46 35 0.19
47 35 0.19
48 70 0.39
49 2 0.01
50 32 0.18
51 6 0.03
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (45 bp):
TGTAAGACCATGTCTGGGACATGGCATCAACTATGAGATGAGCAG
Found at i:17513326 original size:33 final size:33
Alignment explanation
Indices: 17513282--17513349 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 33
17513272 AAAAGTACCA
17513282 ACAAGTTAATTGATAGTGTGACGGCATTCC-CG
1 ACAAGTTAATTGATAGTGTGACGGCATTCCTCG
17513314 ACNAAGTTAATTGATAGTGTGACGGCATTCCTCG
1 AC-AAGTTAATTGATAGTGTGACGGCATTCCTCG
17513348 AC
1 AC
17513350 GGTTTTCAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 2 0.06
33 28 0.82
34 4 0.12
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.28
Consensus pattern (33 bp):
ACAAGTTAATTGATAGTGTGACGGCATTCCTCG
Found at i:17513839 original size:45 final size:43
Alignment explanation
Indices: 17513716--17513867 Score: 157
Period size: 43 Copynumber: 3.5 Consensus size: 43
17513706 TATCCTAGAT
* * *
17513716 ATGGTCTTACATGTCATCACATATCAATGCCACTGTCCCAGAC
1 ATGGTCTTACATGTAATCACAAATCAATGCCAATGTCCCAGAC
* * * * *
17513759 A-GGATCTTAGATGAAATTGA-ATAAT-GATGCCAATGTCCTAGAC
1 ATGG-TCTTACATGTAA-TCACA-AATCAATGCCAATGTCCCAGAC
17513802 ATGGTCTTACATGTAATCACACAATACAATGCCAATGTCCCAGAC
1 ATGGTCTTACATGTAATCACA-AAT-CAATGCCAATGTCCCAGAC
*
17513847 ATGGTCTTACACGTAATCACA
1 ATGGTCTTACATGTAATCACA
17513868 TCTCGGTAAC
Statistics
Matches: 87, Mismatches: 15, Indels: 12
0.76 0.13 0.11
Matches are distributed among these distances:
42 4 0.05
43 41 0.47
44 6 0.07
45 36 0.41
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.27
Consensus pattern (43 bp):
ATGGTCTTACATGTAATCACAAATCAATGCCAATGTCCCAGAC
Found at i:17515888 original size:39 final size:39
Alignment explanation
Indices: 17515799--17515896 Score: 99
Period size: 39 Copynumber: 2.5 Consensus size: 39
17515789 TAATTATACT
* * * *
17515799 CCTGATCACGCTTACGTGCCCCTATCGTACTTCGGTACC
1 CCTGATCGCACTTAAGTGCCCCTATCGTACTTCAGTACC
* * * *
17515838 CCTAATTGCACTTAAGTGCCCTTGTCGATACTTCAGTA-C
1 CCTGATCGCACTTAAGTGCCCCTATCG-TACTTCAGTACC
*
17515877 CCTGATCGCACTTATGTGCC
1 CCTGATCGCACTTAAGTGCC
17515897 ACTGTTGTAC
Statistics
Matches: 47, Mismatches: 11, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
39 38 0.81
40 9 0.19
ACGTcount: A:0.18, C:0.34, G:0.17, T:0.31
Consensus pattern (39 bp):
CCTGATCGCACTTAAGTGCCCCTATCGTACTTCAGTACC
Found at i:17515985 original size:39 final size:38
Alignment explanation
Indices: 17515809--17515985 Score: 165
Period size: 39 Copynumber: 4.6 Consensus size: 38
17515799 CCTGATCACG
*
17515809 CTTACGTGCCCCTATCGTACTTCGGTACCCCTAATTGCA
1 CTTACGTGCCCCTGTCGTACTTCGGTA-CCCTAATTGCA
* * * * *
17515848 CTTAAGTGCCCTTGTCGATACTTCAGTACCCTGATCGCA
1 CTTACGTGCCCCTGTCG-TACTTCGGTACCCTAATTGCA
* * * * * *
17515887 CTTATGTGCCACTGTTGTACTTTGGTACCCCAATTACA
1 CTTACGTGCCCCTGTCGTACTTCGGTACCCTAATTGCA
* * *
17515925 CTTACGTACCCCTGTCATACTTCGGTACCCTTAATTGCG
1 CTTACGTGCCCCTGTCGTACTTCGGTACCC-TAATTGCA
* * *
17515964 CTTACATGCCCCTATTGTACTT
1 CTTACGTGCCCCTGTCGTACTT
17515986 TGGTGCTCTT
Statistics
Matches: 106, Mismatches: 30, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
38 39 0.37
39 58 0.55
40 9 0.08
ACGTcount: A:0.19, C:0.32, G:0.15, T:0.34
Consensus pattern (38 bp):
CTTACGTGCCCCTGTCGTACTTCGGTACCCTAATTGCA
Found at i:17518655 original size:27 final size:27
Alignment explanation
Indices: 17518615--17518806 Score: 129
Period size: 27 Copynumber: 7.1 Consensus size: 27
17518605 CATACTTGAA
**
17518615 CCCTTATAAGATAAAATGACTATTTTG
1 CCCTTATGTGATAAAATGACTATTTTG
* *
17518642 CCCTTATTTTATAAAATGA-TAATTTTG
1 CCCTTATGTGATAAAATGACT-ATTTTG
* * **
17518669 CCCTTATGAGGTAAAATGACGGTTTTG
1 CCCTTATGTGATAAAATGACTATTTTG
* *
17518696 CCTTTATGGGGA-AAAATGACTATTTTG
1 CCCTTAT-GTGATAAAATGACTATTTTG
* * *
17518723 CCCTTATTTGATAAAATGACGATTTTT
1 CCCTTATGTGATAAAATGACTATTTTG
* * * * * *
17518750 CTCGTATGAGGTAAAATGA-TGGTTTTT
1 CCCTTATGTGATAAAATGACT-ATTTTG
* * **
17518777 CCCTTATGAGGTAAAATGACTGCTTTG
1 CCCTTATGTGATAAAATGACTATTTTG
17518804 CCC
1 CCC
17518807 CTTTTTGATG
Statistics
Matches: 129, Mismatches: 30, Indels: 12
0.75 0.18 0.07
Matches are distributed among these distances:
26 3 0.02
27 123 0.95
28 3 0.02
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.39
Consensus pattern (27 bp):
CCCTTATGTGATAAAATGACTATTTTG
Found at i:17518697 original size:54 final size:53
Alignment explanation
Indices: 17518615--17518796 Score: 159
Period size: 54 Copynumber: 3.4 Consensus size: 53
17518605 CATACTTGAA
* * ***
17518615 CCCTTATAAGATAAAATGACTATTTTGCCCTTATTTTATAAAATGATAATTTTG
1 CCCTTATGAGATAAAATGACGATTTTGCCCTTATGAGATAAAATGAT-ATTTTG
* * * *
17518669 CCCTTATGAGGTAAAATGACGGTTTTGCCTTTATGGGGA-AAAATGACTATTTTG
1 CCCTTATGAGATAAAATGACGATTTTGCCCTTAT-GAGATAAAATGA-TATTTTG
** * * * * * *
17518723 CCCTTATTTGATAAAATGACGATTTTTCTCGTATGAGGTAAAATGATGGTTTTT
1 CCCTTATGAGATAAAATGACGATTTTGCCCTTATGAGATAAAATGAT-ATTTTG
*
17518777 CCCTTATGAGGTAAAATGAC
1 CCCTTATGAGATAAAATGAC
17518797 TGCTTTGCCC
Statistics
Matches: 101, Mismatches: 23, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
53 3 0.03
54 96 0.95
55 2 0.02
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.38
Consensus pattern (53 bp):
CCCTTATGAGATAAAATGACGATTTTGCCCTTATGAGATAAAATGATATTTTG
Found at i:17518762 original size:81 final size:81
Alignment explanation
Indices: 17518627--17518815 Score: 245
Period size: 81 Copynumber: 2.3 Consensus size: 81
17518617 CTTATAAGAT
* * *
17518627 AAAATGACTATTTTGCCCTTATTTTATAAAATGATAATTTTGCCCTTATGAGGTAAAATGACGGT
1 AAAATGACTATTTTGCCCTTATTTGATAAAATGACAATTTTGCCCGTATGAGGTAAAATGACGGT
* *
17518692 TTTGCCTTTATGGGGA
66 TTTGCCCTTATGAGGA
* * * *
17518708 AAAATGACTATTTTGCCCTTATTTGATAAAATGACGATTTTTCTCGTATGAGGTAAAATGATGGT
1 AAAATGACTATTTTGCCCTTATTTGATAAAATGACAATTTTGCCCGTATGAGGTAAAATGACGGT
* *
17518773 TTTTCCCTTATGAGGT
66 TTTGCCCTTATGAGGA
**
17518789 AAAATGACTGCTTTGCCCCTT-TTTGAT
1 AAAATGACTATTTTG-CCCTTATTTGAT
17518816 GTATGTATAT
Statistics
Matches: 94, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
81 89 0.95
82 5 0.05
ACGTcount: A:0.28, C:0.14, G:0.18, T:0.40
Consensus pattern (81 bp):
AAAATGACTATTTTGCCCTTATTTGATAAAATGACAATTTTGCCCGTATGAGGTAAAATGACGGT
TTTGCCCTTATGAGGA
Found at i:17519179 original size:18 final size:18
Alignment explanation
Indices: 17519138--17519210 Score: 76
Period size: 18 Copynumber: 4.1 Consensus size: 18
17519128 GGATTTGCAT
* * *
17519138 ACTGTTTACTATTACTTC
1 ACTGATTACTGTTACTGC
17519156 ACTGATTACTGTTACTGC
1 ACTGATTACTGTTACTGC
* *
17519174 ATTGATTTCTGTTACTGC
1 ACTGATTACTGTTACTGC
*
17519192 AGT-ATTTACTGTTACTGC
1 ACTGA-TTACTGTTACTGC
17519210 A
1 A
17519211 ATGGGCTAAG
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
17 1 0.02
18 46 0.98
ACGTcount: A:0.22, C:0.19, G:0.14, T:0.45
Consensus pattern (18 bp):
ACTGATTACTGTTACTGC
Found at i:17521933 original size:79 final size:81
Alignment explanation
Indices: 17521797--17521981 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 81
17521787 TTGAATGATG
*
17521797 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
17521861 TGTGCGAGA-TACTA-A
66 TGTGCGA-ATTACTATA
* * * **
17521876 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
17521938 TTTGTGCGAATTACTATA
64 TTTGTGCGAATTACTATA
* *
17521956 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
17521982 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
78 2 0.02
79 57 0.62
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAATTACTATA
Found at i:17521995 original size:40 final size:39
Alignment explanation
Indices: 17521798--17521981 Score: 189
Period size: 40 Copynumber: 4.6 Consensus size: 39
17521788 TGAATGATGT
* * *
17521798 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGT-ACTATAA
* *
17521838 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAG-TACTATA-A
17521878 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAA
* *
17521916 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTACTATAA
*
17521957 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
17521982 AACGAGGAGC
Statistics
Matches: 125, Mismatches: 10, Indels: 18
0.82 0.07 0.12
Matches are distributed among these distances:
39 35 0.28
40 78 0.62
41 12 0.10
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATAA
Found at i:17522003 original size:79 final size:79
Alignment explanation
Indices: 17521798--17522014 Score: 194
Period size: 79 Copynumber: 2.7 Consensus size: 79
17521788 TGAATGATGT
** * * * **
17521798 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTGACTAAATCCGGGTTAA-ATCCCGAAGGCATT
*
17521861 TGTGCGAGATACTAATT
63 TGTGCGAGATACTAATA
** * *
17521878 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
17521943 GCGA-ATTACT-ATAA
66 GCGAGA-TACTAAT-A
* * *
17521957 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAATCCCGAAGG
17522015 TACGTGATTT
Statistics
Matches: 116, Mismatches: 15, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
78 4 0.03
79 70 0.60
80 42 0.36
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
GCGAGATACTAATA
Found at i:17528519 original size:56 final size:56
Alignment explanation
Indices: 17528449--17528629 Score: 344
Period size: 56 Copynumber: 3.2 Consensus size: 56
17528439 CCATGACAAG
*
17528449 GAAGGATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAA
1 GAAGCATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAA
17528505 GAAGCATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAA
1 GAAGCATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAA
*
17528561 GAAGCATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAA
1 GAAGCATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAA
17528617 GAAGCATGGGCAA
1 GAAGCATGGGCAA
17528630 TAAACTAATA
Statistics
Matches: 123, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 123 1.00
ACGTcount: A:0.45, C:0.09, G:0.24, T:0.22
Consensus pattern (56 bp):
GAAGCATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAA
Found at i:17534090 original size:43 final size:43
Alignment explanation
Indices: 17534035--17534191 Score: 269
Period size: 43 Copynumber: 3.7 Consensus size: 43
17534025 GTGCTGGTAT
*
17534035 TGTATTCGGGCCTTCGCGCCTAGCAGGCTTAGTGCCAGTGATG
1 TGTATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCAGTGATG
* *
17534078 TGTATTTGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATG
1 TGTATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCAGTGATG
* *
17534121 TGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGTCAGTGATG
1 TGTATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCAGTGATG
17534164 TGTATTCGGGCCTTCGTGCCTAGCAGGC
1 TGTATTCGGGCCTTCGTGCCTAGCAGGC
17534192 ATAATGCCGG
Statistics
Matches: 107, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 107 1.00
ACGTcount: A:0.12, C:0.24, G:0.33, T:0.31
Consensus pattern (43 bp):
TGTATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCAGTGATG
Found at i:17534132 original size:86 final size:85
Alignment explanation
Indices: 17534016--17534204 Score: 290
Period size: 86 Copynumber: 2.2 Consensus size: 85
17534006 GATAAATCCC
* *
17534016 GCAGGCCTAGTGCTGGT-ATTGTATTCGGGCCTTCGCGCCTAGCAGGCTTAGTGCCAGTGATGTG
1 GCAGGCATAGTGCCGGTGATTGTATTCGGGCCTTCGCGCCTAGCAGGCTTAGTGCCAGTGATGTG
*
17534080 TATTTGGGCCTTCGTGCCTA
66 TATTCGGGCCTTCGTGCCTA
* * * *
17534100 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGTCAGTGATGT
1 GCAGGCATAGTGCCGGTGAT-TGTATTCGGGCCTTCGCGCCTAGCAGGCTTAGTGCCAGTGATGT
17534165 GTATTCGGGCCTTCGTGCCTA
65 GTATTCGGGCCTTCGTGCCTA
*
17534186 GCAGGCATAATGCCGGTGA
1 GCAGGCATAGTGCCGGTGA
17534205 AATGGTATGT
Statistics
Matches: 95, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
84 15 0.16
85 2 0.02
86 78 0.82
ACGTcount: A:0.14, C:0.23, G:0.33, T:0.30
Consensus pattern (85 bp):
GCAGGCATAGTGCCGGTGATTGTATTCGGGCCTTCGCGCCTAGCAGGCTTAGTGCCAGTGATGTG
TATTCGGGCCTTCGTGCCTA
Found at i:17535771 original size:20 final size:20
Alignment explanation
Indices: 17535728--17535772 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
17535718 GCATAACGGG
*
17535728 GGCACCAAAGTGCAATCAGG
1 GGCACCAAAGTGCAATCAGA
17535748 GGCACCAAAGTGCAAAT-AGA
1 GGCACCAAAGTGC-AATCAGA
17535768 GGCAC
1 GGCAC
17535773 AAATGTCCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 20 0.87
21 3 0.13
ACGTcount: A:0.38, C:0.24, G:0.29, T:0.09
Consensus pattern (20 bp):
GGCACCAAAGTGCAATCAGA
Found at i:17536207 original size:17 final size:18
Alignment explanation
Indices: 17536170--17536208 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
17536160 AATATAAATT
*
17536170 ATTTCATTTATTAGCATAA
1 ATTTCATATATTA-CATAA
17536189 ATTTCATATATTA-ATAA
1 ATTTCATATATTACATAA
17536206 ATT
1 ATT
17536209 CTAAATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
19 12 0.63
ACGTcount: A:0.41, C:0.08, G:0.03, T:0.49
Consensus pattern (18 bp):
ATTTCATATATTACATAA
Found at i:17544066 original size:82 final size:82
Alignment explanation
Indices: 17543929--17544091 Score: 290
Period size: 82 Copynumber: 2.0 Consensus size: 82
17543919 CAGTCTATCG
*
17543929 ACAACAACCCAAATCGCATCTTTCTTACTTGCTGACAATGGCAGTCCGGACACAAAGTCCATTGT
1 ACAACAACCCAAATCGCATCCTTCTTACTTGCTGACAATGGCAGTCCGGACACAAAGTCCATTGT
17543994 AACTCGATCCCATTTCA
66 AACTCGATCCCATTTCA
* *
17544011 ACAACAACCCAAATCGCATCCTTCTTACTTGTTGACAATGGTAGTCCGGACACAAAGTCCATTGT
1 ACAACAACCCAAATCGCATCCTTCTTACTTGCTGACAATGGCAGTCCGGACACAAAGTCCATTGT
*
17544076 GACTCGATCCCATTTC
66 AACTCGATCCCATTTC
17544092 CACTCGGGTA
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
82 77 1.00
ACGTcount: A:0.29, C:0.30, G:0.14, T:0.26
Consensus pattern (82 bp):
ACAACAACCCAAATCGCATCCTTCTTACTTGCTGACAATGGCAGTCCGGACACAAAGTCCATTGT
AACTCGATCCCATTTCA
Found at i:17545688 original size:75 final size:75
Alignment explanation
Indices: 17545565--17545713 Score: 280
Period size: 75 Copynumber: 2.0 Consensus size: 75
17545555 ATCATCGATA
* *
17545565 CGCGGTAACGGATATTTGTTCTTTATCGTCACTTTATTCAGTTGACGATAGTCAATGCACAACCT
1 CGCGGCAACGGATATTTGTTCTTTATCGTCACTTTATTCAATTGACGATAGTCAATGCACAACCT
17545630 CATGGTTCCG
66 CATGGTTCCG
17545640 CGCGGCAACGGATATTTGTTCTTTATCGTCACTTTATTCAATTGACGATAGTCAATGCACAACCT
1 CGCGGCAACGGATATTTGTTCTTTATCGTCACTTTATTCAATTGACGATAGTCAATGCACAACCT
17545705 CATGGTTCC
66 CATGGTTCC
17545714 ATCCTTCTTT
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
75 72 1.00
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.34
Consensus pattern (75 bp):
CGCGGCAACGGATATTTGTTCTTTATCGTCACTTTATTCAATTGACGATAGTCAATGCACAACCT
CATGGTTCCG
Found at i:17546040 original size:90 final size:90
Alignment explanation
Indices: 17545887--17546063 Score: 336
Period size: 90 Copynumber: 2.0 Consensus size: 90
17545877 TCAATACCAA
17545887 ACTCTACCTCCCGAACAGGTGGTAAACCCGGTAATTCTTCAGGAAAAACATCCGGGCATTCACAA
1 ACTCTACCTCCCGAACAGGTGGTAAACCCGGTAATTCTTCAGGAAAAACATCCGGGCATTCACAA
*
17545952 ACCACCCGCACCGATTCGGGTTCAT
66 ACCACCCGCACAGATTCGGGTTCAT
*
17545977 ACTCTACCTCCCGAACAGGTGGTAAACCCGGTAATTCTTCAGGAAAAACATCCGGGTATTCACAA
1 ACTCTACCTCCCGAACAGGTGGTAAACCCGGTAATTCTTCAGGAAAAACATCCGGGCATTCACAA
17546042 ACCACCCGCACAGATTCGGGTT
66 ACCACCCGCACAGATTCGGGTT
17546064 TCTTTTCTAA
Statistics
Matches: 85, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
90 85 1.00
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.20
Consensus pattern (90 bp):
ACTCTACCTCCCGAACAGGTGGTAAACCCGGTAATTCTTCAGGAAAAACATCCGGGCATTCACAA
ACCACCCGCACAGATTCGGGTTCAT
Found at i:17556855 original size:26 final size:23
Alignment explanation
Indices: 17556819--17556871 Score: 79
Period size: 26 Copynumber: 2.2 Consensus size: 23
17556809 GTTTTATTTT
17556819 AATTAACCTTATTTACTAAATATCAA
1 AATTAACCTTA-TTACT-AAT-TCAA
17556845 AATTAACCTTATTACTAATTCAA
1 AATTAACCTTATTACTAATTCAA
17556868 AATT
1 AATT
17556872 TCAATAATGC
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
23 8 0.30
24 3 0.11
25 5 0.19
26 11 0.41
ACGTcount: A:0.45, C:0.15, G:0.00, T:0.40
Consensus pattern (23 bp):
AATTAACCTTATTACTAATTCAA
Found at i:17560458 original size:35 final size:34
Alignment explanation
Indices: 17560400--17560471 Score: 92
Period size: 35 Copynumber: 2.1 Consensus size: 34
17560390 ATCTATCATC
*
17560400 TCATCCATGAATCACATTACCAAA-AATTTCACAT
1 TCATCCATAAATCACATTACCAAACAA-TTCACAT
* *
17560434 TCATGCCATAAATCACATTTCCAAACAATTCAGAT
1 TCAT-CCATAAATCACATTACCAAACAATTCACAT
17560469 TCA
1 TCA
17560472 CCAAGCATAC
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
34 4 0.12
35 27 0.82
36 2 0.06
ACGTcount: A:0.40, C:0.26, G:0.04, T:0.29
Consensus pattern (34 bp):
TCATCCATAAATCACATTACCAAACAATTCACAT
Found at i:17562728 original size:40 final size:40
Alignment explanation
Indices: 17562680--17562787 Score: 189
Period size: 40 Copynumber: 2.7 Consensus size: 40
17562670 GCAAACACAT
* * *
17562680 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
17562720 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
17562760 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
17562788 TCCAATGCTC
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 65 1.00
ACGTcount: A:0.21, C:0.27, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:17565363 original size:43 final size:42
Alignment explanation
Indices: 17565295--17565458 Score: 195
Period size: 42 Copynumber: 3.9 Consensus size: 42
17565285 TACCTTGCCA
** * * *
17565295 ATGCCATATCTTAGATATGATCTTACATGTAATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCATATCG
* *
17565337 ATGCCAATAGCCCAGCTATGGTCTTACACG-AAGTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGTAA-TCTCATATCG
* * *
17565380 ATGCCATATCCTAGATATGGTCTTACACGAAATCTCATATAG
1 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCATATCG
* *
17565422 ATGCCATATCCCAAATATGGTCTTACATGTAATCTCA
1 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCA
17565459 GTAACCCTAA
Statistics
Matches: 104, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
42 70 0.67
43 34 0.33
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGTAATCTCATATCG
Found at i:17567492 original size:111 final size:111
Alignment explanation
Indices: 17567298--17567525 Score: 420
Period size: 111 Copynumber: 2.1 Consensus size: 111
17567288 ATAACATACA
* *
17567298 AACTTACCTCAGATGTTAAAACGGTGAATCTAGTTGATTAGTCGATAACTTTATCTTTTCCCCAA
1 AACTTACCTCAGATGTTAAAACGGTGAATCTAGTCGATTAGTAGATAACTTTATCTTTTCCCCAA
17567363 TCCAAATCTATATTTCTCCTTTCTTGATCTAAATATATTTAAAATT
66 TCCAAATCTATATTTCTCCTTTCTTGATCTAAATATATTTAAAATT
*
17567409 AACTTACCTCAGATGTTAAAACGGTGAATCTAGTCGATTAGTAGATAACTTTATCTTTTCCTCAA
1 AACTTACCTCAGATGTTAAAACGGTGAATCTAGTCGATTAGTAGATAACTTTATCTTTTCCCCAA
*
17567474 TCCAAATCTGTATTTCTCCTTTCTTGATCTAAATATATTTAAAATT
66 TCCAAATCTATATTTCTCCTTTCTTGATCTAAATATATTTAAAATT
17567520 AACTTA
1 AACTTA
17567526 TTTAATCATA
Statistics
Matches: 113, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
111 113 1.00
ACGTcount: A:0.32, C:0.18, G:0.09, T:0.40
Consensus pattern (111 bp):
AACTTACCTCAGATGTTAAAACGGTGAATCTAGTCGATTAGTAGATAACTTTATCTTTTCCCCAA
TCCAAATCTATATTTCTCCTTTCTTGATCTAAATATATTTAAAATT
Found at i:17572686 original size:42 final size:41
Alignment explanation
Indices: 17572584--17572703 Score: 116
Period size: 43 Copynumber: 2.9 Consensus size: 41
17572574 GTCTGTGACA
* * *
17572584 TCATGTAAGACCGTGTCTGGGACACAGGCCTCGATTGAGATT
1 TCATGTAAGACCATGTCTGGGACACAGGCATCGATT-ACATT
* **
17572626 TACATATAAGACCATGTCTGGGACATTGGCATCGTATCT-CATT
1 T-CATGTAAGACCATGTCTGGGACACAGGCATCG-AT-TACATT
* * *
17572669 TCATGTAAGACCCTGTCTGGGACAGATGCATCGAT
1 TCATGTAAGACCATGTCTGGGACACAGGCATCGAT
17572704 ATTGAATTAC
Statistics
Matches: 64, Mismatches: 11, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
41 2 0.03
42 28 0.44
43 31 0.48
44 2 0.03
45 1 0.02
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (41 bp):
TCATGTAAGACCATGTCTGGGACACAGGCATCGATTACATT
Found at i:17572742 original size:85 final size:85
Alignment explanation
Indices: 17572584--17572742 Score: 187
Period size: 85 Copynumber: 1.9 Consensus size: 85
17572574 GTCTGTGACA
* * ** *
17572584 TCATGTAAGACCGTGTCTGGGACACAGGCCTCGATTGAGATTTACATATAAGACCATGTCTGGGA
1 TCATGTAAGACCCTGTCTGGGACACAGGCATCGATTGAGATTTACATATAAGACCACATCTAGGA
*
17572649 CATTGGCATCGTATCTCATT
66 CATCGGCATCGTATCTCATT
* * *
17572669 TCATGTAAGACCCTGTCTGGGACAGATGCATCGATATTGA-A-TTACATGTAAGACCACATCTAG
1 TCATGTAAGACCCTGTCTGGGACACAGGCATCG--ATTGAGATTTACATATAAGACCACATCTAG
**
17572732 GATGTCGGCAT
64 GACATCGGCAT
17572743 TGTACTTGAT
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
85 55 0.90
86 1 0.02
87 5 0.08
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (85 bp):
TCATGTAAGACCCTGTCTGGGACACAGGCATCGATTGAGATTTACATATAAGACCACATCTAGGA
CATCGGCATCGTATCTCATT
Found at i:17575053 original size:18 final size:18
Alignment explanation
Indices: 17575030--17575067 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
17575020 TGTGTGAAAG
17575030 TTTCGTGTGCTAATTCTA
1 TTTCGTGTGCTAATTCTA
*
17575048 TTTCGTGTGCTAATTTTA
1 TTTCGTGTGCTAATTCTA
17575066 TT
1 TT
17575068 GTTTAAGTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.16, C:0.13, G:0.16, T:0.55
Consensus pattern (18 bp):
TTTCGTGTGCTAATTCTA
Found at i:17577369 original size:11 final size:11
Alignment explanation
Indices: 17577333--17577388 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
17577323 CATGGTATGT
17577333 ATGATATGCAC
1 ATGATATGCAC
* *
17577344 ATGACATG--T
1 ATGATATGCAC
17577353 ATGATATGCAC
1 ATGATATGCAC
*
17577364 ATGATATG--T
1 ATGATATGCAC
17577373 ATGATATGCAC
1 ATGATATGCAC
17577384 ATGAT
1 ATGAT
17577389 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Done.