Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 102 of 172
Found at i:34293710 original size:43 final size:43
Alignment explanation
Indices: 34293597--34293711 Score: 113
Period size: 43 Copynumber: 2.7 Consensus size: 43
34293587 CAAACGGGCT
* * * * * *
34293597 GAGACACGGCCATGTGTCTCTATCGTGTGAGGGACACGACCTG
1 GAGACACGGACATGTGGCCCGACCGTGTGAAGGACACGACCTG
* * * * * *
34293640 GAGACACGGCCATGTGTCTCTATCGTGTGAAGGACACGGCCTG
1 GAGACACGGACATGTGGCCCGACCGTGTGAAGGACACGACCTG
*
34293683 GAGACACGGACGTGTGGCCCGACCGTGTG
1 GAGACACGGACATGTGGCCCGACCGTGTG
34293712 GTTCGATGTG
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 64 1.00
ACGTcount: A:0.20, C:0.26, G:0.35, T:0.19
Consensus pattern (43 bp):
GAGACACGGACATGTGGCCCGACCGTGTGAAGGACACGACCTG
Found at i:34297065 original size:16 final size:14
Alignment explanation
Indices: 34297040--34297073 Score: 50
Period size: 16 Copynumber: 2.3 Consensus size: 14
34297030 TTTACGCGTG
34297040 AAAAAAATTTAAAT
1 AAAAAAATTTAAAT
34297054 CAAAATAAATTTAAAT
1 -AAAA-AAATTTAAAT
34297070 AAAA
1 AAAA
34297074 GTTGTTACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (14 bp):
AAAAAAATTTAAAT
Found at i:34297936 original size:24 final size:24
Alignment explanation
Indices: 34297909--34297968 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 24
34297899 AATTGTGTTA
*
34297909 TTTGATAATAATAAATTTTA-ATTT
1 TTTGATAATAAT-AATTTCATATTT
* *
34297933 TTTGAAAATTAATTATTTCATATTT
1 TTTGATAA-TAATAATTTCATATTT
34297958 TTT-ATAATAAT
1 TTTGATAATAAT
34297969 TTATATCATA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
23 4 0.13
24 15 0.50
25 11 0.37
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (24 bp):
TTTGATAATAATAATTTCATATTT
Found at i:34298916 original size:35 final size:35
Alignment explanation
Indices: 34298868--34298937 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
34298858 GTCTTTCCCA
34298868 TGAATGTAAGTATGTTATGATCTCAGGTGAAAACT
1 TGAATGTAAGTATGTTATGATCTCAGGTGAAAACT
*
34298903 TGAATGTATGTATGTTATGATCTCAGGTGAAAACT
1 TGAATGTAAGTATGTTATGATCTCAGGTGAAAACT
34298938 GAAAAGAAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.33, C:0.09, G:0.23, T:0.36
Consensus pattern (35 bp):
TGAATGTAAGTATGTTATGATCTCAGGTGAAAACT
Found at i:34300763 original size:96 final size:96
Alignment explanation
Indices: 34300597--34300786 Score: 317
Period size: 96 Copynumber: 2.0 Consensus size: 96
34300587 TTCTTTTTGC
*
34300597 TCCTCTTTACCCTCTTGGCTTCGGCCTTTCCCTTGCTCGAACCAAGCTTATTGGGCTCCTTGTCT
1 TCCTCCTTACCCTCTTGGCTTCGGCCTTTCCCTTGCTCGAACCAAGCTTATTGGGCTCCTTGTCT
*
34300662 GCTCCATCGTTCCCTTCGATGACAGACTTAT
66 ACTCCATCGTTCCCTTCGATGACAGACTTAT
* * *
34300693 TCCTCCTTACCCTCTTGGCTTCGGCTTTTCCCTTGCTCGAACCAAGCTTCTTGGGTTCCTTGTCT
1 TCCTCCTTACCCTCTTGGCTTCGGCCTTTCCCTTGCTCGAACCAAGCTTATTGGGCTCCTTGTCT
* *
34300758 ACTCCATCGTTCCTTTCGATGATAGACTT
66 ACTCCATCGTTCCCTTCGATGACAGACTT
34300787 CTTCGAACAC
Statistics
Matches: 87, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
96 87 1.00
ACGTcount: A:0.12, C:0.34, G:0.16, T:0.38
Consensus pattern (96 bp):
TCCTCCTTACCCTCTTGGCTTCGGCCTTTCCCTTGCTCGAACCAAGCTTATTGGGCTCCTTGTCT
ACTCCATCGTTCCCTTCGATGACAGACTTAT
Found at i:34306038 original size:30 final size:30
Alignment explanation
Indices: 34306004--34306066 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
34305994 ATTGATTTGA
*
34306004 AAGAGGTGATCTAATAACTAAGAATTAAAT
1 AAGAGGTGATCCAATAACTAAGAATTAAAT
*
34306034 AAGAGGTGATCCAATAACTAAGAATTAACT
1 AAGAGGTGATCCAATAACTAAGAATTAAAT
34306064 AAG
1 AAG
34306067 TAATCAACGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.49, C:0.10, G:0.17, T:0.24
Consensus pattern (30 bp):
AAGAGGTGATCCAATAACTAAGAATTAAAT
Found at i:34308237 original size:19 final size:19
Alignment explanation
Indices: 34308213--34308252 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
34308203 TGAATCGAGA
34308213 ATGCTAAAAGATAATTGGG
1 ATGCTAAAAGATAATTGGG
34308232 ATGCTAAAAGATAATTGGG
1 ATGCTAAAAGATAATTGGG
34308251 AT
1 AT
34308253 AGTAGAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.42, C:0.05, G:0.25, T:0.28
Consensus pattern (19 bp):
ATGCTAAAAGATAATTGGG
Found at i:34312035 original size:46 final size:46
Alignment explanation
Indices: 34311985--34312154 Score: 188
Period size: 46 Copynumber: 3.7 Consensus size: 46
34311975 TTGAGCATCC
* *
34311985 GAACTCGTTGAGTTGAATCCGAGTTCACTTATGGATGCGAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCGAATGTCT
* * *
34312031 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGAAATGTAACTAG-GCAT-TC-
1 GAACTCGTTGAGTTGAGTCCGAGTTCACT--TATG-AA-T-GCGAATGTCT
*
34312078 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGCATGCGAATGT-T
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCGAATGTCT
*
34312123 CGAACTTGTTGAGTTGAGTCCGAGTTCACTTA
1 -GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
34312155 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 10, Indels: 20
0.78 0.07 0.15
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 3 0.03
46 58 0.56
47 29 0.28
48 4 0.04
49 4 0.04
50 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCGAATGTCT
Found at i:34312143 original size:93 final size:93
Alignment explanation
Indices: 34311979--34312149 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
34311969 GGATGGTTGA
*
34311979 GCATCCGAACTCGTTGAGTTGAATCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAATCCGAGTTCACTTATGCATGCGAATGTCTGAACTCGTTGAGT
34312044 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * *
34312072 GCATTCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGCATGCGAATGT-TCGAACTTGTTGAG
1 GCATCCGAACTCGTTGAGTTGAATCCGAGTTCACTTATGCATGCGAATGTCT-GAACTCGTTGAG
34312136 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
34312150 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 1 0.01
93 72 0.99
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.32
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAATCCGAGTTCACTTATGCATGCGAATGTCTGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:34318906 original size:46 final size:47
Alignment explanation
Indices: 34318787--34318915 Score: 147
Period size: 47 Copynumber: 2.8 Consensus size: 47
34318777 AACCCGCCCC
* *
34318787 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATT
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGACTAGATACA-T
* * * * * *
34318835 TCA-CGAACTTGGACTCAACTCAACGAGTTCGGAT-ATTCGCATCCA-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGACTAG-ATACAT
34318880 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
34318916 CTCAACCATC
Statistics
Matches: 67, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
45 2 0.03
46 31 0.46
47 32 0.48
48 2 0.03
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (47 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGACTAGATACAT
Found at i:34318932 original size:46 final size:46
Alignment explanation
Indices: 34318785--34318932 Score: 144
Period size: 46 Copynumber: 3.2 Consensus size: 46
34318775 GTAACCCGCC
34318785 CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTACAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACAT
* * * * ** *
34318834 -TTCA-CGAACTTGGACTCAACTCAACGAGTTCGGATATTC-GCAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACAT
34318877 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT
1 CC-TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAA-CAT
34318925 CCT-AGTGA
1 CCTAAGTGA
34318933 CTTGTCACTT
Statistics
Matches: 79, Mismatches: 14, Indels: 15
0.73 0.13 0.14
Matches are distributed among these distances:
43 3 0.04
45 2 0.03
46 36 0.46
47 30 0.38
48 8 0.10
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (46 bp):
CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACAT
Found at i:34321453 original size:47 final size:46
Alignment explanation
Indices: 34321341--34321560 Score: 164
Period size: 47 Copynumber: 4.7 Consensus size: 46
34321331 GCACTTGTGT
* ** *** *
34321341 GTGCTAGTGTAAGA-CATGTCAGGGACATGCATCAACCACATTATGA
1 GTGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCTTGA-GATGA
* * * *
34321387 GAGCCAGAGTAAGACCATGTCTGGGACATGGCATTGGCATTGAGATGA
1 GTGCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGC-TTGAGATGA
* * * *
34321435 GTGCTAGTGTAAGA-CATGTCTAGGACATGCATCAGCCTCGATAGTGA
1 GTGCTAGTGTAAGACCATGTCTGGGACATGCATC-GGCTTGAGA-TGA
* *
34321482 -TAGCCAGTGTAAGA-CATGTTTGGGACATGCATCGGC-TGAGA-GA
1 GT-GCTAGTGTAAGACCATGTCTGGGACATGCATCGGCTTGAGATGA
*
34321525 TGTGCTAGTGTAAGACCATGTCTGGGATATGACATC
1 -GTGCTAGTGTAAGACCATGTCTGGGACATG-CATC
34321561 AACGTGCATA
Statistics
Matches: 136, Mismatches: 28, Indels: 20
0.74 0.15 0.11
Matches are distributed among these distances:
43 2 0.01
44 11 0.08
45 17 0.12
46 26 0.19
47 59 0.43
48 20 0.15
49 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.25
Consensus pattern (46 bp):
GTGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCTTGAGATGA
Found at i:34321591 original size:94 final size:93
Alignment explanation
Indices: 34321340--34321613 Score: 283
Period size: 94 Copynumber: 2.9 Consensus size: 93
34321330 GGCACTTGTG
* * *
34321340 TGTGCTAGTGTAAGACATGTCAGGGACATGCATCAAC-CACATTATGAGAGCCAGAGTAAGACCA
1 TGTGCTAGTGTAAGACATGTCTGGGACATGCATCAACTCATA-TATGAGAGCCAGTGTAAGA-CA
*
34321404 TGTCTGGGACATGGCATTGGCATTGAGATGA
64 TGTCTGGGACATGGCATCGGCA-TGAGATGA
* * * *
34321435 -GTGCTAGTGTAAGACATGTCTAGGACATGCATCAGCCTCGATA-GTGATAGCCAGTGTAAGACA
1 TGTGCTAGTGTAAGACATGTCTGGGACATGCATCA-ACTC-ATATATGAGAGCCAGTGTAAGACA
*
34321498 TGTTTGGGACAT-GCATCGGC-TGAGA-GA
64 TGTCTGGGACATGGCATCGGCATGAGATGA
* *
34321525 TGTGCTAGTGTAAGACCATGTCTGGGATATGACATCAACGTGCATATATGAGAGCTAGTGTAAGA
1 TGTGCTAGTGTAAGA-CATGTCTGGGACATG-CATCAAC-T-CATATATGAGAGCCAGTGTAAGA
* * *
34321590 CAATATCTAGGAAATGGCAT-GGCA
62 C-ATGTCTGGGACATGGCATCGGCA
34321614 ACTTACCTCA
Statistics
Matches: 148, Mismatches: 19, Indels: 23
0.78 0.10 0.12
Matches are distributed among these distances:
90 2 0.01
91 19 0.13
92 14 0.09
93 16 0.11
94 62 0.42
95 28 0.19
96 5 0.03
97 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.24
Consensus pattern (93 bp):
TGTGCTAGTGTAAGACATGTCTGGGACATGCATCAACTCATATATGAGAGCCAGTGTAAGACATG
TCTGGGACATGGCATCGGCATGAGATGA
Found at i:34322939 original size:31 final size:31
Alignment explanation
Indices: 34322903--34322977 Score: 114
Period size: 31 Copynumber: 2.4 Consensus size: 31
34322893 ACATATACTG
34322903 GGCCGAAGCCTTTTCATAAATCAAATCACTA
1 GGCCGAAGCCTTTTCATAAATCAAATCACTA
* * * *
34322934 GGCCGAAGCCTTTTTATGAATCATATCACTG
1 GGCCGAAGCCTTTTCATAAATCAAATCACTA
34322965 GGCCGAAGCCTTT
1 GGCCGAAGCCTTT
34322978 ATTGTAAACG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (31 bp):
GGCCGAAGCCTTTTCATAAATCAAATCACTA
Found at i:34323063 original size:42 final size:42
Alignment explanation
Indices: 34323004--34323092 Score: 160
Period size: 42 Copynumber: 2.1 Consensus size: 42
34322994 CCCATAGGCT
*
34323004 CATTTCAATAACACATGAAATATCAATGAATGTATGCAAGCC
1 CATTTCAATAACACATGAAATACCAATGAATGTATGCAAGCC
*
34323046 CATTTCAATATCACATGAAATACCAATGAATGTATGCAAGCC
1 CATTTCAATAACACATGAAATACCAATGAATGTATGCAAGCC
34323088 CATTT
1 CATTT
34323093 GGGGAGACTA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.28
Consensus pattern (42 bp):
CATTTCAATAACACATGAAATACCAATGAATGTATGCAAGCC
Found at i:34323308 original size:26 final size:26
Alignment explanation
Indices: 34323237--34323384 Score: 221
Period size: 26 Copynumber: 5.8 Consensus size: 26
34323227 CCTCTTTAAT
34323237 AACTGGGGCA-AAGCCCTTTTCAGTA
1 AACTGGGGCATAAGCCCTTTTCAGTA
* *
34323262 AACTGAGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAGTA
34323287 AACTGGGGCATAAGCCCTTTTCAGTA
1 AACTGGGGCATAAGCCCTTTTCAGTA
* *
34323313 AACTAGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAGTA
*
34323339 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAGTA
*
34323365 AACTGGGGCAT-GGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
34323385 AGCACTTCCT
Statistics
Matches: 112, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
25 40 0.36
26 72 0.64
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAGTA
Found at i:34324267 original size:27 final size:27
Alignment explanation
Indices: 34324194--34324250 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
34324184 GGGCATATTC
34324194 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
34324221 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
34324248 GTC
1 GTC
34324251 TTTTTACCTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.18, C:0.30, G:0.23, T:0.30
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGCTTTACG
Found at i:34324342 original size:27 final size:27
Alignment explanation
Indices: 34324289--34324621 Score: 233
Period size: 27 Copynumber: 12.3 Consensus size: 27
34324279 TTTCACCCTA
* * * *
34324289 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
** *
34324316 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * * * *
34324343 AAATGGTATTTCT-ATAATTTTTAGAAAGT
1 CAAGGGTATTT-TGGTAA-TTTTATAAA-C
* * *
34324372 CAAGGGTATTTTTGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * * *
34324399 TAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
** * * *
34324426 TGAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
*
34324453 C-AGTGGTATTTTGGTAATTTTACAAAC
1 CAAG-GGTATTTTGGTAATTTTATAAAC
* * *
34324480 TAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * * * *
34324507 CAGGGGTATTTTAGCAATTTTACAGAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
34324534 C-AGGGTATTTTGGTAATTTTACT-GAT
1 CAAGGGTATTTTGGTAATTTTA-TAAAC
* *
34324560 CGAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
34324587 CAAGGGTATTTTAGTAATTTTATAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
*
34324614 CGAGGGTA
1 CAAGGGTA
34324622 AAATAGTAAT
Statistics
Matches: 246, Mismatches: 51, Indels: 18
0.78 0.16 0.06
Matches are distributed among these distances:
26 23 0.09
27 195 0.79
28 16 0.07
29 12 0.05
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTATAAAC
Found at i:34324587 original size:80 final size:81
Alignment explanation
Indices: 34324376--34324608 Score: 263
Period size: 81 Copynumber: 2.9 Consensus size: 81
34324366 GAAAGTCAAG
* ** ** *** ** *
34324376 GGTATTTTTGTAATTTTGTAAATTAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGT
1 GGTATTTTGGTAATTTTACAAACGAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGC
*
34324441 AATTTCACAAACCAGT
66 AATTTTACAAACCAGT
* *
34324457 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGC
1 GGTATTTTGGTAATTTTACAAACGAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGC
*
34324522 AATTTTACAGACCAG-
66 AATTTTACAAACCAGT
* * **
34324537 GGTATTTTGGTAATTTTACTGATCGA-GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAG
1 GGTATTTTGGTAATTTTAC-AAACGAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAG
*
34324601 TAATTTTA
65 CAATTTTA
34324609 TAAATCGAGG
Statistics
Matches: 131, Mismatches: 20, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
80 61 0.47
81 70 0.53
ACGTcount: A:0.28, C:0.08, G:0.21, T:0.42
Consensus pattern (81 bp):
GGTATTTTGGTAATTTTACAAACGAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGC
AATTTTACAAACCAGT
Found at i:34324616 original size:54 final size:54
Alignment explanation
Indices: 34324291--34324675 Score: 244
Period size: 54 Copynumber: 7.1 Consensus size: 54
34324281 TCACCCTACA
* * * * * *
34324291 AGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAA-CAA
1 AGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTATAAATC-G
* * * * * * *
34324345 ATGGTATTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTTTGTAATTTTGTAAAT-T
1 AGGGTATTT-TGGTAA-TTTTACAAA-CCAAGGGTATTTTAGTAATTTTATAAATCG
*** ** * * *
34324400 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAA-CC
1 A-GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTATAAATCG
* * * * *
34324454 AGTGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAA-CC
1 AG-GGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTATAAATCG
* * * * *
34324508 AGGGGTATTTTAGCAATTTTACAGACC-AGGGTATTTTGGTAATTTTACT-GATCG
1 A-GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTA-TAAATCG
**
34324562 AGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTATAAATCG
1 AGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTATAAATCG
*** * * ** * *** *
34324616 AGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAATAGTAATTCTATAAATCG
1 AGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTATAAATCG
34324670 AGGGTA
1 AGGGTA
34324676 AAACGATAAT
Statistics
Matches: 267, Mismatches: 51, Indels: 26
0.78 0.15 0.08
Matches are distributed among these distances:
53 42 0.16
54 173 0.65
55 18 0.07
56 34 0.13
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.38
Consensus pattern (54 bp):
AGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTATAAATCG
Found at i:34324648 original size:134 final size:134
Alignment explanation
Indices: 34324402--34324648 Score: 291
Period size: 134 Copynumber: 1.8 Consensus size: 134
34324392 TGTAAATTAG
* *
34324402 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTTGG
1 GGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTTAG
* *** * * *
34324467 TAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGCAATTTTACAG
66 TAATTTTACAAACGAGGGGTAAAATAGTAATTCTACAAACCAAGGGTATTTTAGCAATTTTACAG
34324532 ACCA
131 ACCA
** * ***
34324536 GGGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTTTGTAAACCAAG-GGTATTTTA
1 GGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTCACAAACC-AGTGGTATTTTA
* ** *
34324600 GTAATTTTATAAATCGA-GGGTAAAATAGTAATTCTGTAAATCAAGGGTA
65 GTAATTTTACAAA-CGAGGGGTAAAATAGTAATTCTACAAACCAAGGGTA
34324649 AAATAGTAAT
Statistics
Matches: 92, Mismatches: 19, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
134 88 0.96
135 4 0.04
ACGTcount: A:0.31, C:0.09, G:0.22, T:0.38
Consensus pattern (134 bp):
GGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTTAG
TAATTTTACAAACGAGGGGTAAAATAGTAATTCTACAAACCAAGGGTATTTTAGCAATTTTACAG
ACCA
Found at i:34324676 original size:54 final size:53
Alignment explanation
Indices: 34324573--34324705 Score: 176
Period size: 54 Copynumber: 2.5 Consensus size: 53
34324563 GGGTATTTTG
* *** *
34324573 GTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTATAAATCGAGGGTAAAATA
1 GTAATTTTGTAAATCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAA-A
* *
34324627 GTAATTCTGTAAATCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAAC
1 GTAATTTTGTAAATCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAAA
*
34324680 GATAATTTTGTAAATCGAGGGTAAAA
1 G-TAATTTTGTAAATCAAGGGTAAAA
34324706 CGATAATTAT
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
53 1 0.01
54 68 0.99
ACGTcount: A:0.41, C:0.07, G:0.20, T:0.32
Consensus pattern (53 bp):
GTAATTTTGTAAATCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAAA
Found at i:34324706 original size:27 final size:27
Alignment explanation
Indices: 34324599--34324723 Score: 146
Period size: 27 Copynumber: 4.6 Consensus size: 27
34324589 AGGGTATTTT
* * *
34324599 AGTAATTTTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAG
* *
34324626 AGTAATTCTGTAAATCAAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAG
*
34324653 AGTAATTCTATAAATCGAGGGTAAAACG
1 AGTAATTCTGTAAATCGAGGGTAAAA-G
*
34324681 A-TAATTTTGTAAATCGAGGGTAAAACG
1 AGTAATTCTGTAAATCGAGGGTAAAA-G
*
34324708 A-TAATTATGTAAATCG
1 AGTAATTCTGTAAATCG
34324724 GGGGAACTTT
Statistics
Matches: 88, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
27 87 0.99
28 1 0.01
ACGTcount: A:0.43, C:0.07, G:0.19, T:0.30
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAG
Found at i:34327264 original size:43 final size:43
Alignment explanation
Indices: 34327210--34327291 Score: 119
Period size: 43 Copynumber: 1.9 Consensus size: 43
34327200 GATATATGTG
* ** *
34327210 GCATCCGAGCTCGTTGAGTGGTCCGAGTTCATTATGGATGCGA
1 GCATCCGAGCTCATTGAGCAGTCCGAGTTCATAATGGATGCGA
*
34327253 GCATCCGAGCTCATTGAGCAGTCTGAGTTCATAATGGAT
1 GCATCCGAGCTCATTGAGCAGTCCGAGTTCATAATGGAT
34327292 ACGATACATG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (43 bp):
GCATCCGAGCTCATTGAGCAGTCCGAGTTCATAATGGATGCGA
Found at i:34331680 original size:39 final size:39
Alignment explanation
Indices: 34331630--34331729 Score: 148
Period size: 39 Copynumber: 2.6 Consensus size: 39
34331620 GACTTAATGT
*
34331630 CTAGCAGGCCTCATGCCGGTGATAAATTCAGGTTTATAC
1 CTAGCAGGCCTCATGCCGGTGATAAATTCAAGTTTATAC
* *
34331669 CTAGCAGGCCTCGTGCCGGTGATAAGTTCAAGTTTATAC
1 CTAGCAGGCCTCATGCCGGTGATAAATTCAAGTTTATAC
*
34331708 CTAGCAGG-CTAATTGCCGGTGA
1 CTAGCAGGCCTCA-TGCCGGTGA
34331730 AATAATAAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
38 2 0.04
39 53 0.96
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (39 bp):
CTAGCAGGCCTCATGCCGGTGATAAATTCAAGTTTATAC
Found at i:34338547 original size:43 final size:43
Alignment explanation
Indices: 34338492--34338573 Score: 128
Period size: 43 Copynumber: 1.9 Consensus size: 43
34338482 GATATATGTG
** *
34338492 GCATCCGAGCTCGTTGAGTGGTCCGAGTTCATTATGGATGCGA
1 GCATCCGAGCTCGTTGAGCAGTCCGAGTTCATAATGGATGCGA
*
34338535 GCATCCGAGCTCGTTGAGCAGTCCGAGTTGATAATGGAT
1 GCATCCGAGCTCGTTGAGCAGTCCGAGTTCATAATGGAT
34338574 ACGATACATG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.21, C:0.21, G:0.32, T:0.27
Consensus pattern (43 bp):
GCATCCGAGCTCGTTGAGCAGTCCGAGTTCATAATGGATGCGA
Found at i:34347172 original size:12 final size:12
Alignment explanation
Indices: 34347155--34347192 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
34347145 TTTTAATATC
*
34347155 ATATCTTATTCA
1 ATATCTAATTCA
34347167 ATATCTAATTCA
1 ATATCTAATTCA
*
34347179 ATCTCTAATTCA
1 ATATCTAATTCA
34347191 AT
1 AT
34347193 TTTCACAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.37, C:0.18, G:0.00, T:0.45
Consensus pattern (12 bp):
ATATCTAATTCA
Found at i:34357739 original size:34 final size:33
Alignment explanation
Indices: 34357652--34357735 Score: 114
Period size: 34 Copynumber: 2.5 Consensus size: 33
34357642 TTTGATTGCA
* *
34357652 TACTGTACTGATATGGACTAAGGCCCAGACTGC
1 TACTGTACTGAAATGGGCTAAGGCCCAGACTGC
** *
34357685 TTTTATCACTGAAATGGGCTAAGGCCCAGACTGC
1 TACTGT-ACTGAAATGGGCTAAGGCCCAGACTGC
34357719 TACTGTACTGAAATGGG
1 TACTGTACTGAAATGGG
34357736 GCTACGGCTC
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
33 14 0.33
34 28 0.67
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.26
Consensus pattern (33 bp):
TACTGTACTGAAATGGGCTAAGGCCCAGACTGC
Found at i:34361386 original size:47 final size:46
Alignment explanation
Indices: 34361313--34361625 Score: 218
Period size: 46 Copynumber: 6.7 Consensus size: 46
34361303 GGTAGAATGC
34361313 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCATGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-CATCATGT
* * * * * *
34361360 CGATGCCATGTCCCAAACATGATCTTACACTGACT-ATCAAAATTGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC---A-TCATGT
* *
34361409 CGACGCCATGTCCCAGACATGGTCTTACACTAGCTC-TCGCAT-ATCCGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT--CATCAT--GT
* * * *
34361457 GCCGGTGCCATGTCCCAGACATGGTCTTACACTGACACATC-TCGTAGT
1 --CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCAT-GT
* *
34361505 CGATG-CATGTCCTAGACAT-GTCTTACACTGGCTTACATC-TCGA-GG
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGC-T-CATCATC-ATGT
* * *
34361550 CTGATG-CATGTCCCAAACATGTTCTTACACTGGCTC-TCATAATGT
1 C-GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCATGT
*
34361595 AGCAATG-CATGTCCCAGACAT-GTCTTACACT
1 --CGATGCCATGTCCCAGACATGGTCTTACACT
34361626 AGCACACAAA
Statistics
Matches: 210, Mismatches: 34, Indels: 46
0.72 0.12 0.16
Matches are distributed among these distances:
44 15 0.07
45 28 0.13
46 46 0.22
47 46 0.22
48 6 0.03
49 36 0.17
50 31 0.15
51 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (46 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCATGT
Found at i:34361476 original size:50 final size:46
Alignment explanation
Indices: 34361310--34361625 Score: 208
Period size: 47 Copynumber: 6.7 Consensus size: 46
34361300 TGGGGTAGAA
34361310 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCATG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACT-GCTC-TCCAT-ATG
* * * * *
34361359 T--CGATGCCATGTCCCAAACATGATCTTACACTGACTATCAAAATTG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTG-CTCTCCATA-TG
* *
34361405 AGGCCGACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGCATATCCG
1 -TGCCGATGCCATGTCCCAGACATGGTCTTACACT-GCTCTC-CATAT--G
* * *
34361456 TGCCGGTGCCATGTCCCAGACATGGTCTTACACTGACACATCTCGTA-G
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTG-CTC-TC-CATATG
* * *
34361504 T--CGATG-CATGTCCTAGACAT-GTCTTACACTGGCT-TACATCTCG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACT-GCTCTCCATAT-G
* * * *
34361547 AGGCTGATG-CATGTCCCAAACATGTTCTTACACTGGCTCT-CATAATG
1 -TGCCGATGCCATGTCCCAGACATGGTCTTACACT-GCTCTCCAT-ATG
*
34361594 TAG-CAATG-CATGTCCCAGACAT-GTCTTACACT
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACT
34361626 AGCACACAAA
Statistics
Matches: 211, Mismatches: 35, Indels: 46
0.72 0.12 0.16
Matches are distributed among these distances:
41 2 0.01
42 1 0.00
43 1 0.00
44 11 0.05
45 24 0.11
46 42 0.20
47 49 0.23
48 4 0.02
49 35 0.17
50 36 0.17
51 6 0.03
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (46 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGCTCTCCATATG
Found at i:34361811 original size:28 final size:28
Alignment explanation
Indices: 34361779--34361834 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
34361769 TAATAACAAT
34361779 GTAGATGTATTATTTACATACAGCTTAC
1 GTAGATGTATTATTTACATACAGCTTAC
34361807 GTAGATGTATTATTTACATACAGCTTAC
1 GTAGATGTATTATTTACATACAGCTTAC
34361835 TTGTTTCAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.39
Consensus pattern (28 bp):
GTAGATGTATTATTTACATACAGCTTAC
Found at i:34365655 original size:15 final size:15
Alignment explanation
Indices: 34365630--34365678 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
34365620 CATGAAAACC
* *
34365630 AAGATAAAGAAGTCT
1 AAGACAAAGAAATCT
*
34365645 AGGACAAAGAAATCT
1 AAGACAAAGAAATCT
* *
34365660 AAGATAAAGAAATCC
1 AAGACAAAGAAATCT
34365675 AAGA
1 AAGA
34365679 AACAATATGA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.18, T:0.14
Consensus pattern (15 bp):
AAGACAAAGAAATCT
Found at i:34366928 original size:36 final size:36
Alignment explanation
Indices: 34366888--34366959 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
34366878 TCATCATAAT
34366888 TGTACTTTACCCAGAGACCTTGGCATCACATTTAAC
1 TGTACTTTACCCAGAGACCTTGGCATCACATTTAAC
*
34366924 TGTACTTTACCCAGATACCTTGGCATCACATTTAAC
1 TGTACTTTACCCAGAGACCTTGGCATCACATTTAAC
34366960 ATGGTCGATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.28, C:0.28, G:0.12, T:0.32
Consensus pattern (36 bp):
TGTACTTTACCCAGAGACCTTGGCATCACATTTAAC
Found at i:34369532 original size:43 final size:42
Alignment explanation
Indices: 34369484--34369615 Score: 165
Period size: 43 Copynumber: 3.0 Consensus size: 42
34369474 CATGTATCTC
* ** *
34369484 ATCCATTATGAACTCGGACCACTCAACAAGCTCAGATGCTCAT
1 ATCCATAATGAACTTAGACCACTCAACGAGCTC-GATGCTCAT
***
34369527 ATCCATAATGAACTTAGACCACTCAACGAGCTCGAATGCTGGC
1 ATCCATAATGAACTTAGACCACTCAACGAGCTCG-ATGCTCAT
34369570 ATCCATAATGAACTTAGACCACTCAACGAGCTCGGATGCTACAT
1 ATCCATAATGAACTTAGACCACTCAACGAGCTC-GATGCT-CAT
34369614 AT
1 AT
34369616 ATCACGAACT
Statistics
Matches: 76, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
42 1 0.01
43 72 0.95
44 3 0.04
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (42 bp):
ATCCATAATGAACTTAGACCACTCAACGAGCTCGATGCTCAT
Found at i:34373718 original size:49 final size:49
Alignment explanation
Indices: 34373657--34373888 Score: 293
Period size: 49 Copynumber: 4.7 Consensus size: 49
34373647 CTGGTACGCA
* *
34373657 TAGTAGCTTGCACTTAGTACTACACATGCGACCAATTATCCAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCAGTACACG
* ** * *
34373706 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTATCCAGTACACG
* * ** * *
34373756 TAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCCAGTACACG
* *
34373807 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCAGTACACG
*
34373856 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC
34373889 TCACAATAGA
Statistics
Matches: 157, Mismatches: 23, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
49 72 0.46
50 48 0.31
51 37 0.24
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCAGTACACG
Found at i:34373880 original size:100 final size:99
Alignment explanation
Indices: 34373657--34373887 Score: 302
Period size: 100 Copynumber: 2.3 Consensus size: 99
34373647 CTGGTACGCA
* * * * *
34373657 TAGTAGCTTGCACTTAGTACTACACATGCGACCAATTATCCAGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACAAATTATCCAGTACACATAGTAGCCTGCACTTA
* *
34373722 GTACTACACACGTGACCTAACCATCTAATACACG
66 GTACTACACACGCGACCTAACCATCCAATACACG
** *
34373756 TAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGTTATCGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CAAA-TTATCCAGTACACATAGTAGCCTGCACT
* ** **
34373821 TAGTACTACACATGCGACC-AATTATCCGGTACACG
64 TAGTACTACACACGCGACCTAACCATCCAATACACG
34373856 TAGTAGCCTGCACTTAGTACTACACACGTGAC
1 TAGTAGCCTGCACTTAGTACTACACACGTGAC
34373888 CTCACAATAG
Statistics
Matches: 115, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
99 29 0.25
100 45 0.39
101 41 0.36
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACAAATTATCCAGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTAACCATCCAATACACG
Found at i:34397018 original size:28 final size:27
Alignment explanation
Indices: 34396956--34397030 Score: 96
Period size: 28 Copynumber: 2.7 Consensus size: 27
34396946 CTTTAGAGTA
*
34396956 TGCCACAAAGGCTTCTTTTTCATAGAT
1 TGCCACAAAGGCTTCCTTTTCATAGAT
* ** *
34396983 CGTTACAAAGGTTTTCCTTTTCATAGAT
1 TGCCACAAAGG-CTTCCTTTTCATAGAT
34397011 TGCCACAAAGGCTTCCTTTT
1 TGCCACAAAGGCTTCCTTTT
34397031 ATGGCTTGTT
Statistics
Matches: 38, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
27 16 0.42
28 22 0.58
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.39
Consensus pattern (27 bp):
TGCCACAAAGGCTTCCTTTTCATAGAT
Found at i:34399713 original size:31 final size:31
Alignment explanation
Indices: 34399678--34399739 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
34399668 CACACCTTGA
34399678 CCGAATGTATCATAACCATAGATATAAATAT
1 CCGAATGTATCATAACCATAGATATAAATAT
34399709 CCGAATGTATCATAACCATAGATATAAATAT
1 CCGAATGTATCATAACCATAGATATAAATAT
34399740 ATCATGTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.45, C:0.16, G:0.10, T:0.29
Consensus pattern (31 bp):
CCGAATGTATCATAACCATAGATATAAATAT
Found at i:34400029 original size:45 final size:45
Alignment explanation
Indices: 34399942--34400159 Score: 332
Period size: 45 Copynumber: 4.9 Consensus size: 45
34399932 AATTCATTCT
* * **
34399942 CCGGCATT-TCGCCTGCTAGGCTC-GAGGCCCGAATAGCGTCTCA
1 CCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCA
* *
34399985 TCGGCATTATAGCCTGCTAGGCTCAAAGGTCCGAATAGTATCTCA
1 CCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCA
*
34400030 CCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATCTCA
1 CCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCA
* *
34400075 CTGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATCTCA
1 CCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCA
*
34400120 CCGGCATTATACCCTGCTAGGCTCAAAGGCCCGAATAGTA
1 CCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
34400160 CTGTACAATA
Statistics
Matches: 160, Mismatches: 13, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
43 7 0.04
44 14 0.09
45 139 0.87
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (45 bp):
CCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCA
Found at i:34400136 original size:135 final size:130
Alignment explanation
Indices: 34399897--34400159 Score: 339
Period size: 135 Copynumber: 2.0 Consensus size: 130
34399887 TTTTATCAAA
* * * *
34399897 TCACCGGCATTCAGCCTGCTAGGTTTAAAAACCCGAATTCATTCTCCGGCATTTCGCCTGCTAGG
1 TCACCGGCATTCAGCCTGCTAGGCTCAAAAACCCGAATTAATTCTCCGGCATTTAGCCTGCTAGG
* * * * * *
34399962 CTCGAGGCCCGAATAGCGTCTCATCGGCATTATAGCCTGCTAGGCTCAAAGGTCCGAATAGTATC
66 CTCAAGGCCCGAATAACATCTCACCGGCATTATACCCTGCTAGGCTCAAAGGCCCGAATAGTATC
* **
34400027 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAA-TAATATCTCACTGGCATTATAGCCTG
1 TCACCGGCATT-CAGCCTGCTAGGCTCAAAAACCCGAATTAAT-TCTC-C-GGCATT-TAGCCTG
*
34400091 CTAGGCTCAAAGGCCCGAATAATATCTCACCGGCATTATACCCTGCTAGGCTCAAAGGCCCGAAT
61 CTAGGCTC-AAGGCCCGAATAACATCTCACCGGCATTATACCCTGCTAGGCTCAAAGGCCCGAAT
34400156 AGTA
125 AGTA
34400160 CTGTACAATA
Statistics
Matches: 113, Mismatches: 14, Indels: 7
0.84 0.10 0.05
Matches are distributed among these distances:
130 14 0.12
131 25 0.22
132 1 0.01
133 6 0.05
134 14 0.12
135 53 0.47
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (130 bp):
TCACCGGCATTCAGCCTGCTAGGCTCAAAAACCCGAATTAATTCTCCGGCATTTAGCCTGCTAGG
CTCAAGGCCCGAATAACATCTCACCGGCATTATACCCTGCTAGGCTCAAAGGCCCGAATAGTATC
Found at i:34412666 original size:16 final size:17
Alignment explanation
Indices: 34412641--34412672 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
34412631 AGGGTTGGGT
34412641 TTTTTCTTTTCCTTTTC
1 TTTTTCTTTTCCTTTTC
34412658 TTTTT-TTTTCCTTTT
1 TTTTTCTTTTCCTTTT
34412673 TGAGGCAGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTTTCTTTTCCTTTTC
Found at i:34416939 original size:49 final size:49
Alignment explanation
Indices: 34416774--34417011 Score: 314
Period size: 49 Copynumber: 4.8 Consensus size: 49
34416764 TGAGGTCGCA
* * * * *
34416774 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-TGGTCACG
* * **
34416825 TGTGTAGTACTAAGGGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACG
*
34416875 TGTATAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
* *
34416924 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
* * *
34416973 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
34417012 GCTTTGGCTA
Statistics
Matches: 165, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
49 89 0.54
50 44 0.27
51 32 0.19
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.28
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
Found at i:34416946 original size:99 final size:100
Alignment explanation
Indices: 34416767--34417011 Score: 332
Period size: 99 Copynumber: 2.5 Consensus size: 100
34416757 TCTATTGTGA
* * * *
34416767 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAG
1 GGTCACATGTATAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTGTGATCACGTGTGTAG
* **
34416832 TACTAAGGGCAGGCTACTACGTGTATCAGATGGTT
66 TACTAAGGGCAGGCTACTACGTGTACCAGATAATT
* * * *
34416867 AGGTCACGTGTATAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-TGGTCACGTGTGTA
1 -GGTCACATGTATAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTGTGATCACGTGTGTA
* *
34416930 GTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
65 GTACTAAGGGCAGGCTACTACGTGTACCAGATAATT
* *
34416966 GGTCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATA
1 GGTCACATGTATAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
34417012 GCTTTGGCTA
Statistics
Matches: 126, Mismatches: 18, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
98 41 0.33
99 44 0.35
100 1 0.01
101 40 0.32
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (100 bp):
GGTCACATGTATAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTGTGATCACGTGTGTAG
TACTAAGGGCAGGCTACTACGTGTACCAGATAATT
Found at i:34420018 original size:30 final size:31
Alignment explanation
Indices: 34419982--34420050 Score: 83
Period size: 30 Copynumber: 2.3 Consensus size: 31
34419972 TATCGTATCT
34419982 TGGGTTTCTT-TAT-TCTAGATTTCTTTATTC
1 TGGGTTTCTTCTATCT-TAGATTTCTTTATTC
*
34420012 TGGGTTT-TTCTATCTTGGATTTCTTTATTC
1 TGGGTTTCTTCTATCTTAGATTTCTTTATTC
*
34420042 -GGTTTTCTT
1 TGGGTTTCTT
34420051 GTTATCTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
29 7 0.21
30 26 0.76
31 1 0.03
ACGTcount: A:0.10, C:0.13, G:0.16, T:0.61
Consensus pattern (31 bp):
TGGGTTTCTTCTATCTTAGATTTCTTTATTC
Found at i:34421023 original size:86 final size:86
Alignment explanation
Indices: 34420878--34421048 Score: 324
Period size: 86 Copynumber: 2.0 Consensus size: 86
34420868 AAGTTTCTAG
*
34420878 TATGAAATTGCTTTGAAATATTAATTTGGAGGTCTTAAATAGCAATTTTACCAATTTCAAAGTTT
1 TATGAAATTGCTTTGAAATATTAATTTGGAGGTCTTAAATAGCAATTTTACCAATTTCAAAGTAT
*
34420943 ATGGACAAATATTGGACATGA
66 ATGGACAAAAATTGGACATGA
34420964 TATGAAATTGCTTTGAAATATTAATTTGGAGGTCTTAAATAGCAATTTTACCAATTTCAAAGTAT
1 TATGAAATTGCTTTGAAATATTAATTTGGAGGTCTTAAATAGCAATTTTACCAATTTCAAAGTAT
34421029 ATGGACAAAAATTGGACATG
66 ATGGACAAAAATTGGACATG
34421049 GATGGAATTT
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
86 83 1.00
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.36
Consensus pattern (86 bp):
TATGAAATTGCTTTGAAATATTAATTTGGAGGTCTTAAATAGCAATTTTACCAATTTCAAAGTAT
ATGGACAAAAATTGGACATGA
Found at i:34422437 original size:49 final size:49
Alignment explanation
Indices: 34422267--34422510 Score: 283
Period size: 49 Copynumber: 4.9 Consensus size: 49
34422257 TCTATTGTGA
* * * * *
34422267 GGTCGCATGTGTAGTACTAAGTGCA-GCTACTATGCGTACCCGAAAACTGT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-T
* * * * * * **
34422317 GATCACGTGTGTAGTACTAAGGGTAGGCTACTACGTGTATCTGATGGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
34422366 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
*
34422416 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
** * * *
34422465 GGTTGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATA
34422511 GCTTTGGCTA
Statistics
Matches: 165, Mismatches: 27, Indels: 5
0.84 0.14 0.03
Matches are distributed among these distances:
49 89 0.54
50 62 0.38
51 14 0.08
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
Found at i:34422507 original size:98 final size:101
Alignment explanation
Indices: 34422266--34422510 Score: 336
Period size: 99 Copynumber: 2.5 Consensus size: 101
34422256 ATCTATTGTG
* *
34422266 AGGTCGCATGTGTAGTACTAAGTGCA-GCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTA
1 AGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCGGATAACTGTGATCACGTGTGTA
* * * **
34422330 GTACTAAGGGTAGGCTACTACGTGTATCTGATGGTT
66 GTACTAAGGGCAGGCTACTACGTGTACCGGATAATT
* * * *
34422366 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGGTCACGTGTGTA
1 AGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCGGATAACTGTGATCACGTGTGTA
*
34422429 GTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
66 GTACTAAGGGCAGGCTACTACGTGTACCGGATAATT
* *
34422465 -GGTTGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATA
1 AGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCGGATA
34422511 GCTTTGGCTA
Statistics
Matches: 127, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
98 41 0.32
99 43 0.34
100 26 0.20
101 17 0.13
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (101 bp):
AGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCGGATAACTGTGATCACGTGTGTA
GTACTAAGGGCAGGCTACTACGTGTACCGGATAATT
Found at i:34424032 original size:27 final size:27
Alignment explanation
Indices: 34423975--34424037 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
34423965 CTTTGCAGTG
* * *
34423975 ATCTATAAAAAGGAAGCCCTTGTGGCG
1 ATCTATGAAAAGGAAGCCCTTGTGACA
* * *
34424002 ATCTTTGAAAAGGAAGCCTTTGTTACA
1 ATCTATGAAAAGGAAGCCCTTGTGACA
34424029 ATCTATGAA
1 ATCTATGAA
34424038 GGAATGCTTG
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.29
Consensus pattern (27 bp):
ATCTATGAAAAGGAAGCCCTTGTGACA
Found at i:34425431 original size:43 final size:42
Alignment explanation
Indices: 34425363--34425452 Score: 119
Period size: 43 Copynumber: 2.1 Consensus size: 42
34425353 AGTGTACATC
* * *
34425363 GGCATCATATTTGATTTCGTGTAAGACC-CTGTCTGGGACAGT
1 GGCATCATATTTGATTACATATAAGACCAC-GTCTGGGACAGT
*
34425405 GGCATCGATATTTGATTACATATAAGACCACGTCTGGGACATT
1 GGCATC-ATATTTGATTACATATAAGACCACGTCTGGGACAGT
34425448 GGCAT
1 GGCAT
34425453 TGTATGAGCT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
42 6 0.14
43 35 0.83
44 1 0.02
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (42 bp):
GGCATCATATTTGATTACATATAAGACCACGTCTGGGACAGT
Found at i:34429388 original size:43 final size:44
Alignment explanation
Indices: 34429341--34429502 Score: 147
Period size: 43 Copynumber: 3.8 Consensus size: 44
34429331 ATATAGGATT
* *
34429341 TCAATATGTG--TTATCGTGTAAGACTATGTCTGGGACGTTGGCA
1 TCAATATGTGATTTA-CGTGTAAGACCATGTCTGGGACATTGGCA
*
34429384 TCAATTTGTGATTTACGTGTAAGACCATGTCTGGGACATTGGCA
1 TCAATATGTGATTTACGTGTAAGACCATGTCTGGGACATTGGCA
* * * * * *
34429428 TC-GTATTTGATTT-TGTAG-AAGACCTTGTCTGGGATAGTGGCA
1 TCAATATGTGATTTACGT-GTAAGACCATGTCTGGGACATTGGCA
* * * *
34429470 TCGATATTTGA-TTACATGTAAGACCACGTCTGG
1 TCAATATGTGATTTACGTGTAAGACCATGTCTGG
34429503 TCTGTTGGCA
Statistics
Matches: 98, Mismatches: 15, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
42 28 0.29
43 38 0.39
44 29 0.30
45 3 0.03
ACGTcount: A:0.24, C:0.15, G:0.26, T:0.35
Consensus pattern (44 bp):
TCAATATGTGATTTACGTGTAAGACCATGTCTGGGACATTGGCA
Found at i:34435433 original size:48 final size:48
Alignment explanation
Indices: 34435268--34435547 Score: 262
Period size: 48 Copynumber: 5.8 Consensus size: 48
34435258 GTAAAATGCC
* *
34435268 GATGCCATGTCCCGGACATGGTCTTACACTGGCTCTCATGCATCG-GTGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT--ATTGAG-GCT
* * * *** * *
34435318 GATGGCATGTCCCAGACATGGTCTTACACT-G-ACACATAACAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATTGAGGCT
* * * *
34435364 GATTCCATGTTCCAAACATGGTCTTACACTGGCTCGCATATTGAGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATTGAGGCT
* * * *
34435412 GATGCCATGTCTCAAACATGGTCTTACACTGGCTCTCATAATGTGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATTGAGGCT
* * * * * **
34435460 GATGCCATGTCCTAGACGTGGTCTTACACTAGCACAT-ATATTAACACT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCATATTGAGGCT
*
34435508 GATGCCATGTCCCAGACATGGTCCTACACTGGCTCTCATA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA
34435548 ATGTGGCCCG
Statistics
Matches: 184, Mismatches: 41, Indels: 12
0.78 0.17 0.05
Matches are distributed among these distances:
46 30 0.16
47 2 0.01
48 122 0.66
49 2 0.01
50 28 0.15
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.28
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATTGAGGCT
Found at i:34435452 original size:96 final size:95
Alignment explanation
Indices: 34435259--34435548 Score: 291
Period size: 96 Copynumber: 3.0 Consensus size: 95
34435249 TACAAAAGTG
* * * * *
34435259 TAAAATGCCGATGCCATGTCCCGGACATGGTCTTACACTGGCTCTCATGCATCG-GTGCTGATGG
1 TAAAATGCCGATGCCATGTTCCAGACATGGTCTTACACTGGCTCACAT--ATTGAG-GCTGATGC
* *
34435323 CATGTCCCAGACATGGTCTTACACT-G-ACACA
63 CATGTCCCAGACATGGTCTTACACTGGCTCTCA
* * *
34435354 TAACAATGCCGATTCCATGTTCCAAACATGGTCTTACACTGGCTCGCATATTGAGGCTGATGCCA
1 TAA-AATGCCGATGCCATGTTCCAGACATGGTCTTACACTGGCTCACATATTGAGGCTGATGCCA
* *
34435419 TGTCTCAAACATGGTCTTACACTGGCTCTCA
65 TGTCCCAGACATGGTCTTACACTGGCTCTCA
** * * * * * * **
34435450 TAATGTGGCTGATGCCATG-TCCTAGACGTGGTCTTACACTAGCACATATATTAACACTGATGCC
1 TAAAAT-GCCGATGCCATGTTCC-AGACATGGTCTTACACTGGCTCACATATTGAGGCTGATGCC
*
34435514 ATGTCCCAGACATGGTCCTACACTGGCTCTCA
64 ATGTCCCAGACATGGTCTTACACTGGCTCTCA
34435546 TAA
1 TAA
34435549 TGTGGCCCGT
Statistics
Matches: 162, Mismatches: 27, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
94 33 0.20
95 9 0.06
96 120 0.74
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (95 bp):
TAAAATGCCGATGCCATGTTCCAGACATGGTCTTACACTGGCTCACATATTGAGGCTGATGCCAT
GTCCCAGACATGGTCTTACACTGGCTCTCA
Found at i:34435528 original size:144 final size:144
Alignment explanation
Indices: 34435268--34435547 Score: 352
Period size: 144 Copynumber: 1.9 Consensus size: 144
34435258 GTAAAATGCC
** * *
34435268 GATGCCATGTCCCGGACATGGTCTTACACTGGCTCTCATGCATCGGTGCTGATGGCATGTCCCAG
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATGAATCGGTGCTGATGCCATGTCCCAG
** * * *
34435333 ACATGGTCTTACACTGACACATAACAATGCCGATTCCATGTTCCAAACATGGTCTTACACTGGCT
66 ACATGGTCTTACACTGACACATAACAACACCGATGCCATGTCCCAAACATGGTCCTACACTGGCT
34435398 CGCATATTGAGGCT
131 CGCATATTGAGGCT
* *
34435412 GATGCCATGTCTCAAACATGGTCTTACACTGGCTCTCAT-AAT--GTGGCTGATGCCATGTCCTA
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATGAATCGGT-GCTGATGCCATGTCCCA
* * * *
34435474 GACGTGGTCTTACACT-AGCACATATATTAACACTGATGCCATGTCCCAGACATGGTCCTACACT
65 GACATGGTCTTACACTGA-CACATA-A-CAACACCGATGCCATGTCCCAAACATGGTCCTACACT
*
34435538 GGCTCTCATA
127 GGCTCGCATA
34435548 ATGTGGCCCG
Statistics
Matches: 116, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
141 3 0.03
142 36 0.31
143 3 0.03
144 74 0.64
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.28
Consensus pattern (144 bp):
GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATGAATCGGTGCTGATGCCATGTCCCAG
ACATGGTCTTACACTGACACATAACAACACCGATGCCATGTCCCAAACATGGTCCTACACTGGCT
CGCATATTGAGGCT
Found at i:34436270 original size:37 final size:37
Alignment explanation
Indices: 34436220--34436343 Score: 248
Period size: 37 Copynumber: 3.4 Consensus size: 37
34436210 AAATAGGGAA
34436220 AAGAAAACAATTAAGCTTCAAAGCTTAGTAAGTTCAT
1 AAGAAAACAATTAAGCTTCAAAGCTTAGTAAGTTCAT
34436257 AAGAAAACAATTAAGCTTCAAAGCTTAGTAAGTTCAT
1 AAGAAAACAATTAAGCTTCAAAGCTTAGTAAGTTCAT
34436294 AAGAAAACAATTAAGCTTCAAAGCTTAGTAAGTTCAT
1 AAGAAAACAATTAAGCTTCAAAGCTTAGTAAGTTCAT
34436331 AAGAAAACAATTA
1 AAGAAAACAATTA
34436344 GCAACTCATT
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 87 1.00
ACGTcount: A:0.48, C:0.13, G:0.13, T:0.26
Consensus pattern (37 bp):
AAGAAAACAATTAAGCTTCAAAGCTTAGTAAGTTCAT
Found at i:34437505 original size:43 final size:43
Alignment explanation
Indices: 34437457--34437676 Score: 170
Period size: 43 Copynumber: 5.2 Consensus size: 43
34437447 CTGGCAATAA
34437457 GCCTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTAC
1 GCCTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTAC
* *** * * *
34437500 GCCTGCTAG-GCTCGGAGCCCGATA--ATGTTCACCAGC-TTAAA
1 GCCTGCTAGACCTTTAAGTCCGATATCAT-TTCACCGGCATT-AC
*
34437541 GCTTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTAC
1 GCCTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTAC
* *** * *
34437584 ACCTGCTAGA-CTCGGAG-CCTGATA--ATATTCACCAGC-TTAAA
1 GCCTGCTAGACCTTTAAGTCC-GATATCAT-TTCACCGGCATT-AC
* * * *
34437625 GCTTGCTAGACCTTTAAGTCTGATGTCATTTCAACGGCATTAC
1 GCCTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTAC
34437668 GCCTGCTAG
1 GCCTGCTAG
34437677 GCTCAAATCC
Statistics
Matches: 130, Mismatches: 33, Indels: 28
0.68 0.17 0.15
Matches are distributed among these distances:
40 8 0.06
41 36 0.28
42 35 0.27
43 43 0.33
44 8 0.06
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.29
Consensus pattern (43 bp):
GCCTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTAC
Found at i:34437559 original size:84 final size:84
Alignment explanation
Indices: 34437455--34437680 Score: 380
Period size: 84 Copynumber: 2.7 Consensus size: 84
34437445 CACTGGCAAT
*
34437455 AAGCCTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTACGCCTGCTAGGCTCGGAGCCC
1 AAGCTTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTACGCCTGCTAGGCTCGGAGCCC
*
34437520 GATAATGTTCACCAGCTTA
66 GATAATATTCACCAGCTTA
* * *
34437539 AAGCTTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTACACCTGCTAGACTCGGAGCCT
1 AAGCTTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTACGCCTGCTAGGCTCGGAGCCC
34437604 GATAATATTCACCAGCTTA
66 GATAATATTCACCAGCTTA
* * *
34437623 AAGCTTGCTAGACCTTTAAGTCTGATGTCATTTCAACGGCATTACGCCTGCTAGGCTC
1 AAGCTTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTACGCCTGCTAGGCTC
34437681 AAATCCCCAA
Statistics
Matches: 132, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
84 132 1.00
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (84 bp):
AAGCTTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTACGCCTGCTAGGCTCGGAGCCC
GATAATATTCACCAGCTTA
Found at i:34437564 original size:42 final size:41
Alignment explanation
Indices: 34437455--34437644 Score: 129
Period size: 41 Copynumber: 4.5 Consensus size: 41
34437445 CACTGGCAAT
* *
34437455 AAGCCTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATT-
1 AAGCTTGCTAGACCTTTAAGTCCGATA--ATTTCACCAGC-TTA
* * * *** *
34437498 ACGCCTGCTAG-GCTCGGAGCCCGATAATGTTCACCAGCTTA
1 AAGCTTGCTAGACCTTTAAGTCCGATAAT-TTCACCAGCTTA
*
34437539 AAGCTTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTA
1 AAGCTTGCTAGACCTTTAAGTCCGATA--ATTTCACCAGC-TTA
* * ***
34437583 CA-CCTGCTAGA-CTCGGAG-CCTGATAATATTCACCAGCTTA
1 AAGCTTGCTAGACCTTTAAGTCC-GATAAT-TTCACCAGCTTA
34437623 AAGCTTGCTAGACCTTTAAGTC
1 AAGCTTGCTAGACCTTTAAGTC
34437645 TGATGTCATT
Statistics
Matches: 110, Mismatches: 26, Indels: 22
0.70 0.16 0.14
Matches are distributed among these distances:
40 10 0.09
41 35 0.32
42 32 0.29
43 27 0.25
44 6 0.05
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (41 bp):
AAGCTTGCTAGACCTTTAAGTCCGATAATTTCACCAGCTTA
Found at i:34439603 original size:14 final size:15
Alignment explanation
Indices: 34439574--34439603 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
34439564 CAAAATTAAG
34439574 ACATGATACTTTCAC
1 ACATGATACTTTCAC
34439589 ACATGATAC-TTCAC
1 ACATGATACTTTCAC
34439603 A
1 A
34439604 TATAATAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (15 bp):
ACATGATACTTTCAC
Found at i:34442570 original size:34 final size:34
Alignment explanation
Indices: 34442527--34442594 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
34442517 CCCTTCCAAC
34442527 TCGAGCTATTGTACAGACCTATAAGAAATAGGGA
1 TCGAGCTATTGTACAGACCTATAAGAAATAGGGA
*
34442561 TCGAGCTATTGTACAGACCTATAAGAAATGGGGA
1 TCGAGCTATTGTACAGACCTATAAGAAATAGGGA
34442595 AAGAGAACGG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.24
Consensus pattern (34 bp):
TCGAGCTATTGTACAGACCTATAAGAAATAGGGA
Found at i:34444064 original size:40 final size:40
Alignment explanation
Indices: 34444027--34444169 Score: 218
Period size: 40 Copynumber: 3.6 Consensus size: 40
34444017 GCTACTCGCT
* *
34444027 CAAATGCCTTCGGGACTTAGCCCGG-ATATAGTAACTCGCA
1 CAAATGCCTTCGGGGCTTAGCCCGGAAT-TAGTAACTAGCA
34444067 CAAATGCCTTCGGGGCTTAGCCCGGAATTAGTCAA-TAGCA
1 CAAATGCCTTCGGGGCTTAGCCCGGAATTAGT-AACTAGCA
* *
34444107 CAAATGCCTTCGGGGCTTAGCCCGGAATTACTCACTAGCA
1 CAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACTAGCA
34444147 CAAATGCCTTCGGGGCTTAGCCC
1 CAAATGCCTTCGGGGCTTAGCCC
34444170 AGTTATCATC
Statistics
Matches: 96, Mismatches: 4, Indels: 6
0.91 0.04 0.06
Matches are distributed among these distances:
39 1 0.01
40 91 0.95
41 4 0.04
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.22
Consensus pattern (40 bp):
CAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACTAGCA
Found at i:34447045 original size:41 final size:41
Alignment explanation
Indices: 34447000--34447126 Score: 123
Period size: 41 Copynumber: 3.0 Consensus size: 41
34446990 GCATTACGCC
*
34447000 TGCTAGGCTCGGAGCCCGATAATATTCACCAGCTTAAAGCT
1 TGCTAGGCTCGAAGCCCGATAATATTCACCAGCTTAAAGCT
* ** * * * * *
34447041 TGCTAGACCTTTAAGTCCAAT-ATCATTTCACCGGCATT-ACGCC
1 TGCTAG-GCTCGAAGCCCGATAAT-A-TTCACCAGC-TTAAAGCT
34447084 TGCTAGGCTCGAAGCCCGATAATATTCACCAGCTTAAAGCT
1 TGCTAGGCTCGAAGCCCGATAATATTCACCAGCTTAAAGCT
34447125 TG
1 TG
34447127 GTAGACCTTT
Statistics
Matches: 63, Mismatches: 17, Indels: 12
0.68 0.18 0.13
Matches are distributed among these distances:
40 2 0.03
41 21 0.33
42 19 0.30
43 19 0.30
44 2 0.03
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.27
Consensus pattern (41 bp):
TGCTAGGCTCGAAGCCCGATAATATTCACCAGCTTAAAGCT
Found at i:34447197 original size:84 final size:84
Alignment explanation
Indices: 34446952--34447177 Score: 389
Period size: 84 Copynumber: 2.7 Consensus size: 84
34446942 CACTGGCAAT
* *
34446952 AAGCCTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTACGCCTGCTAGGCTCGGAGCCC
1 AAGCTTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTACGCCTGCTAGGCTCGAAGCCC
34447017 GATAATATTCACCAGCTTA
66 GATAATATTCACCAGCTTA
*
34447036 AAGCTTGCTAGACCTTTAAGTCCAATATCATTTCACCGGCATTACGCCTGCTAGGCTCGAAGCCC
1 AAGCTTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTACGCCTGCTAGGCTCGAAGCCC
34447101 GATAATATTCACCAGCTTA
66 GATAATATTCACCAGCTTA
* * * *
34447120 AAGCTTGGTAGACCTTTAAGTTCGATATCATTTCAACGGCATTACACCTGCTAGGCTC
1 AAGCTTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTACGCCTGCTAGGCTC
34447178 AAATCCCCAA
Statistics
Matches: 134, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
84 134 1.00
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (84 bp):
AAGCTTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTACGCCTGCTAGGCTCGAAGCCC
GATAATATTCACCAGCTTA
Found at i:34449254 original size:48 final size:47
Alignment explanation
Indices: 34449195--34449337 Score: 144
Period size: 48 Copynumber: 3.0 Consensus size: 47
34449185 TGTCACATGG
* *
34449195 CCGATGCCATGTCCCAGACTTAATCTTACACTAGCACACATATCAACA
1 CCGATGCCATGTCCCAGACTT-GTCTTACAGTAGCACACATATCAACA
* * * * ****
34449243 CCGATGCCATGTCCCAAACATTGTCTTACAGTGGCTCTCATAAT-GTGG
1 CCGATGCCATGTCCCAGAC-TTGTCTTACAGTAGCACACAT-ATCAACA
*
34449291 CCGATGCCATGTCCCAGACATGGTCTTACAGTAGCACACATATCAAC
1 CCGATGCCATGTCCCAGAC-TTGTCTTACAGTAGCACACATATCAAC
34449338 CCAATGTCTT
Statistics
Matches: 74, Mismatches: 18, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
47 2 0.03
48 68 0.92
49 4 0.05
ACGTcount: A:0.29, C:0.31, G:0.16, T:0.24
Consensus pattern (47 bp):
CCGATGCCATGTCCCAGACTTGTCTTACAGTAGCACACATATCAACA
Found at i:34456580 original size:44 final size:44
Alignment explanation
Indices: 34456515--34456683 Score: 169
Period size: 46 Copynumber: 3.7 Consensus size: 44
34456505 ATGTAACCGT
34456515 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACATCTCGTA-
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACATCTCG-AG
* * * * * *
34456559 GCCGACGCATGTCCCAAACATGTCTGACAATGGCTAACATCTTGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGC--ACATCTCGAG
* * * *
34456605 GCCGATGCATGTCCTAGACATGTCTTACACTAGCACTCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCA--CATCTCGAG
*
34456651 ACCGATGCCATGTCCCAGACATGGTCTTACACT
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACT
34456684 GGCTCTCATT
Statistics
Matches: 100, Mismatches: 18, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
44 30 0.30
45 1 0.01
46 46 0.46
47 13 0.13
48 10 0.10
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (44 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCACATCTCGAG
Found at i:34456718 original size:94 final size:90
Alignment explanation
Indices: 34456516--34456729 Score: 243
Period size: 94 Copynumber: 2.3 Consensus size: 90
34456506 TGTAACCGTG
*
34456516 CCGATGCATGTCCCAGACATGTCTTACACTAGCACATCTCGTAGCCGACGCATGTCCCAAACATG
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCACATCTCATAGCCGACGCATGTCCCAAACATG
*
34456581 TCTGACAATGGCTAACATCTTGAGG
66 TCTGACAATGGCTAACATCTTGAGA
* * * *
34456606 CCGATGCATGTCCTAGACATGTCTTACACTAGCACTCGTCTCAATA-CCGATGCCATGTCCCAGA
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCA--CATCTC-ATAGCCGACG-CATGTCCCAAA
* * ** *
34456670 CATGGTCTTACACTGGCTCTCAT-TATGTGA
62 CAT-GTCTGACAATGGCTAACATCT-TGAGA
* *
34456700 CTGATGCATGTCCCAGACATGTCTAACACT
1 CCGATGCATGTCCCAGACATGTCTTACACT
34456730 GGCGCACATA
Statistics
Matches: 104, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
90 33 0.32
92 10 0.10
93 16 0.15
94 45 0.43
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (90 bp):
CCGATGCATGTCCCAGACATGTCTTACACTAGCACATCTCATAGCCGACGCATGTCCCAAACATG
TCTGACAATGGCTAACATCTTGAGA
Found at i:34460321 original size:27 final size:27
Alignment explanation
Indices: 34460291--34460468 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
34460281 TTATTGAGCC
* * * *
34460291 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
34460318 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
34460345 CGCACACTTAGTGCCACATAGTCCATCT
1 CGCACACTTAGTGCTACATAGT-CAAAT
** * *
34460373 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
34460400 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
34460427 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
34460454 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
34460469 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:34460430 original size:82 final size:81
Alignment explanation
Indices: 34460312--34460467 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
34460302 TGCTATATAA
* * **
34460312 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCCACATAGTCCATCTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGT-CAAATCGCA
34460377 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
34460394 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
34460458 CACTTAGTGC
65 CACTTAGTGC
34460468 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 18 0.28
82 47 0.72
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:34467655 original size:22 final size:22
Alignment explanation
Indices: 34467611--34467657 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
34467601 GAGACATAAT
* *
34467611 AAATATATCTTTATATGATAGA
1 AAATATATCTTTACATGAGAGA
34467633 AAAT-TATCTTTACATTGAGAGA
1 AAATATATCTTTACA-TGAGAGA
34467655 AAA
1 AAA
34467658 AATTTTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.47, C:0.06, G:0.11, T:0.36
Consensus pattern (22 bp):
AAATATATCTTTACATGAGAGA
Found at i:34468956 original size:22 final size:21
Alignment explanation
Indices: 34468926--34468966 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
34468916 CAAATGTGTT
*
34468926 AAAATTATTAATTAAAAATAAA
1 AAAAATATT-ATTAAAAATAAA
*
34468948 AAAAATATTTTTAAAAATA
1 AAAAATATTATTAAAAATA
34468967 CTAATTACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (21 bp):
AAAAATATTATTAAAAATAAA
Found at i:34474571 original size:70 final size:69
Alignment explanation
Indices: 34474437--34474719 Score: 210
Period size: 71 Copynumber: 4.0 Consensus size: 69
34474427 TGGCAGCTTC
*** * * * * * * * **
34474437 AACTTGCACTAACTATTTTAAAGGCTGTGGTTTTAAACCTACGATCCTTAAAGCTATAGTTAGGA
1 AACTTGCACTAACTATTTTGGGGGCTGTGGTATTGAACCTGCGAGCCTTAGATC-ACAACTAGGA
34474502 G-CTT
65 GCCTT
* *
34474506 CAGCTTGCACTAACTATTTTGGGGGCTGTGGTGTTGAACCTGCGAGCCTTTAGATCACAACTAGG
1 -AACTTGCACTAACTATTTTGGGGGCTGTGGTATTGAACCTGCGAGCC-TTAGATCACAACTAGG
34474571 AGCCTT
64 AGCCTT
* * * * * *
34474577 AACTTTCACTAACTATTTTGGGGGGCTATGGTATTGTACCTGCTAGCCATAAGATCACAGCTAGG
1 AACTTGCACTAACTATTTT-GGGGGCTGTGGTATTGAACCTGCGAGCC-TTAGATCACAACTAGG
34474642 AGCCTT
64 AGCCTT
* * * * * * * * * *
34474648 AGCTCT-CGCTAACTATTTTTAGGGGTTGTAGTATTGAACTTGTGAGCCCTAAGATCACAGCTTG
1 AACT-TGCACTAACTA-TTTTGGGGGCTGTGGTATTGAACCTGCGAG-CCTTAGATCACAACTAG
34474712 GAGCCTT
63 GAGCCTT
34474719 A
1 A
34474720 GCTCTTTCTA
Statistics
Matches: 174, Mismatches: 33, Indels: 11
0.80 0.15 0.05
Matches are distributed among these distances:
70 64 0.37
71 103 0.59
72 7 0.04
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (69 bp):
AACTTGCACTAACTATTTTGGGGGCTGTGGTATTGAACCTGCGAGCCTTAGATCACAACTAGGAG
CCTT
Found at i:34474738 original size:71 final size:71
Alignment explanation
Indices: 34474515--34474951 Score: 320
Period size: 71 Copynumber: 6.2 Consensus size: 71
34474505 TCAGCTTGCA
* * * * * *
34474515 CTAACTA-TTTTGGGGGCTGTGGTGTTGAACCTGCGAGCCTTTAGATCACAACTAGGAGCCTTAA
1 CTAACTATTTTTGGGGGCTGTGGTATTGAACCTGTGAGCCCTAAGATCACAGCTAGGAGCCTTAG
*
34474579 CT-TTCA
66 CTCTT-T
* * * *
34474585 CTAACTATTTTGGGGGGCTATGGTATTGTACCTGCT-AGCCATAAGATCACAGCTAGGAGCCTTA
1 CTAACTATTTTTGGGGGCTGTGGTATTGAACCTG-TGAGCCCTAAGATCACAGCTAGGAGCCTTA
**
34474649 GCTCTCG
65 GCTCTTT
* * * * *
34474656 CTAACTATTTTTAGGGGTTGTAGTATTGAACTTGTGAGCCCTAAGATCACAGCTTGGAGCCTTAG
1 CTAACTATTTTTGGGGGCTGTGGTATTGAACCTGTGAGCCCTAAGATCACAGCTAGGAGCCTTAG
34474721 CTCTTT
66 CTCTTT
*** * ** * * *
34474727 CTAACTATTTTTTAAGG-TTTACAATATTGAATCTGTGAG-CCTCAAGATCATAGCT-GAGAGCT
1 CTAACTATTTTTGGGGGCTGT--GGTATTGAACCTGTGAGCCCT-AAGATCACAGCTAG-GAGCC
*
34474789 TTAGCTCTCGT
62 TTAGCTCT-TT
* ** ** * *
34474800 -TAACTATTTTTGGGGGCTGTGGTATTAAACCTGTGAGCCCTAAGATCGTATTTGGGAACCTTAG
1 CTAACTATTTTTGGGGGCTGTGGTATTGAACCTGTGAGCCCTAAGATCACAGCTAGGAGCCTTAG
34474864 CTC--T
66 CTCTTT
* * * * * * * *
34474868 CTAACTATTGTT--GGGCTGCGGTATTAAACTTGTGAGCTCTAAGATCATAACTAGGAGGAGTCT
1 CTAACTATTTTTGGGGGCTGTGGTATTGAACCTGTGAGCCCTAAGATCACAGCT---AGGAGCCT
34474931 TAGCTCTTT
63 TAGCTCTTT
34474940 CTAACTATTTTT
1 CTAACTATTTTT
34474952 TGAGGGGAGG
Statistics
Matches: 293, Mismatches: 56, Indels: 34
0.77 0.15 0.09
Matches are distributed among these distances:
67 34 0.12
68 1 0.00
69 10 0.03
70 21 0.07
71 157 0.54
72 67 0.23
73 3 0.01
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (71 bp):
CTAACTATTTTTGGGGGCTGTGGTATTGAACCTGTGAGCCCTAAGATCACAGCTAGGAGCCTTAG
CTCTTT
Found at i:34474793 original size:72 final size:72
Alignment explanation
Indices: 34474621--34474810 Score: 203
Period size: 72 Copynumber: 2.7 Consensus size: 72
34474611 TGTACCTGCT
* * * ** *
34474621 AGCCATAAGATCACAGCT-AGGAGCCTTAGCTCTCGCTAACTA-TTTTTAGGGGTTGTAGTATTG
1 AGCCCTAAGATCACAGCTGA-GAGCCTTAGCTCTCTCTAACTATTTTTTAAGGGTTACAATATTG
34474684 AACTTGTG
65 AACTTGTG
* *
34474692 AGCCCTAAGATCACAGCTTG-GAGCCTTAGCTCTTTCTAACTATTTTTTAAGGTTTACAATATTG
1 AGCCCTAAGATCACAGC-TGAGAGCCTTAGCTCTCTCTAACTATTTTTTAAGGGTTACAATATTG
34474756 AA-TCTGTG
65 AACT-TGTG
* *
34474764 AG-CCTCAAGATCATAGCTGAGAGCTTTAGCTCTCGT-TAACTATTTTT
1 AGCCCT-AAGATCACAGCTGAGAGCCTTAGCTCTC-TCTAACTATTTTT
34474811 GGGGGCTGTG
Statistics
Matches: 101, Mismatches: 11, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
71 42 0.42
72 58 0.57
73 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.35
Consensus pattern (72 bp):
AGCCCTAAGATCACAGCTGAGAGCCTTAGCTCTCTCTAACTATTTTTTAAGGGTTACAATATTGA
ACTTGTG
Found at i:34479519 original size:15 final size:15
Alignment explanation
Indices: 34479499--34479597 Score: 108
Period size: 15 Copynumber: 6.6 Consensus size: 15
34479489 ATATCTTGGG
34479499 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
34479514 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
34479529 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
34479544 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
* *
34479559 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
34479574 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
34479589 TTTCTTTAT
1 TTTCTTTAT
34479598 TCGGTTTTCT
Statistics
Matches: 67, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 67 1.00
ACGTcount: A:0.11, C:0.17, G:0.14, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:34479535 original size:30 final size:30
Alignment explanation
Indices: 34479490--34479607 Score: 159
Period size: 30 Copynumber: 4.0 Consensus size: 30
34479480 CATAGTATCA
* * * * *
34479490 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGGTTTCTC
34479520 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGGTTTCTC
34479550 TATCTTGGATTTCTTTATTCTGGGTTTCTC
1 TATCTTGGATTTCTTTATTCTGGGTTTCTC
*
34479580 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGGTTTCT
34479608 TGTTATCTTT
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
29 8 0.10
30 71 0.89
31 1 0.01
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGGTTTCTC
Found at i:34479593 original size:45 final size:45
Alignment explanation
Indices: 34479490--34479593 Score: 138
Period size: 45 Copynumber: 2.3 Consensus size: 45
34479480 CATAGTATCA
* *
34479490 TATCTTGGGTTTCTTTATCCTGGATCTCTTTATTCTGGATTTCTT
1 TATCTTGGGTTTCTCTATCCTGGATCTCTTTATTCTGGATTTCTC
* * *
34479535 TAT-TCTGGGTTTCTCTATCTTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGGTTTCTCTATCCTGGATCTCTTTATTCTGGATTTCTC
*
34479580 TATCTTGGATTTCT
1 TATCTTGGGTTTCT
34479594 TTATTCGGTT
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
44 1 0.02
45 49 0.96
46 1 0.02
ACGTcount: A:0.11, C:0.17, G:0.16, T:0.56
Consensus pattern (45 bp):
TATCTTGGGTTTCTCTATCCTGGATCTCTTTATTCTGGATTTCTC
Found at i:34482035 original size:46 final size:45
Alignment explanation
Indices: 34481979--34482153 Score: 176
Period size: 46 Copynumber: 3.8 Consensus size: 45
34481969 TATTTGGGCA
34481979 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *** * *
34482025 TCTGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* *
34482072 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *
34482118 CCCGAGCTCGTTGAGTTG-CTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
34482154 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 16, Indels: 15
0.77 0.12 0.11
Matches are distributed among these distances:
44 3 0.03
45 18 0.17
46 49 0.46
47 31 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:34482134 original size:93 final size:92
Alignment explanation
Indices: 34481975--34482145 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 92
34481965 AGGATATTTG
* * * *
34481975 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAG
*
34482040 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTG-CTCCGAGTTCGAGAGATGTAACTA
* *
34482068 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAG
34482133 TTGCTCCGAGTTC
66 TTGCTCCGAGTTC
34482146 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
92 9 0.13
93 62 0.87
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (92 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAG
TTGCTCCGAGTTCGAGAGATGTAACTA
Found at i:34483131 original size:102 final size:102
Alignment explanation
Indices: 34482955--34483157 Score: 370
Period size: 102 Copynumber: 2.0 Consensus size: 102
34482945 ATGAGATGTT
34482955 TAAATTTTTGTGAAACAGGGCCAGAGCGATTTCTGGATCCCCTGTTCTGACTTTGGAAATTCACC
1 TAAATTTTTGTGAAACAGGGCCAGAGCGATTTCTGGATCCCCTGTTCTGACTTTGGAAATTCACC
*
34483020 ATAAATTTTTCAAATATAATTAGAAGTCAGGATTTAG
66 ATAAATTTTTCAAAGATAATTAGAAGTCAGGATTTAG
* *
34483057 TAAATTTTTGTGAAACAGGGTCAGAGTGATTTCTGGATCCCCTGTTCTGACTTTGGAAATTCACC
1 TAAATTTTTGTGAAACAGGGCCAGAGCGATTTCTGGATCCCCTGTTCTGACTTTGGAAATTCACC
*
34483122 ATAAATTTTTCAAAGATAATTAGAAGTCATGATTTA
66 ATAAATTTTTCAAAGATAATTAGAAGTCAGGATTTA
34483158 TATGTAAAGA
Statistics
Matches: 97, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
102 97 1.00
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (102 bp):
TAAATTTTTGTGAAACAGGGCCAGAGCGATTTCTGGATCCCCTGTTCTGACTTTGGAAATTCACC
ATAAATTTTTCAAAGATAATTAGAAGTCAGGATTTAG
Found at i:34493787 original size:14 final size:14
Alignment explanation
Indices: 34493768--34493795 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
34493758 CCCATCTTCA
34493768 AATATTTTACACAC
1 AATATTTTACACAC
34493782 AATATTTTACACAC
1 AATATTTTACACAC
34493796 TATGGCTTCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.21, G:0.00, T:0.36
Consensus pattern (14 bp):
AATATTTTACACAC
Found at i:34495973 original size:15 final size:15
Alignment explanation
Indices: 34495953--34495999 Score: 76
Period size: 15 Copynumber: 3.1 Consensus size: 15
34495943 ATATCCTAGC
34495953 TTATACATCCATAGG
1 TTATACATCCATAGG
* *
34495968 TTATACATCCACAAG
1 TTATACATCCATAGG
34495983 TTATACATCCATAGG
1 TTATACATCCATAGG
34495998 TT
1 TT
34496000 CAAGTTTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.34
Consensus pattern (15 bp):
TTATACATCCATAGG
Found at i:34498303 original size:20 final size:20
Alignment explanation
Indices: 34498266--34498303 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
34498256 TGTGGATTCC
*
34498266 ACACGCCCGTGTGGCTTGGG
1 ACACGCCCGTGTGCCTTGGG
*
34498286 ACACGCCCGTGTTCCTTG
1 ACACGCCCGTGTGCCTTG
34498304 TCCGTGGAGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.11, C:0.34, G:0.32, T:0.24
Consensus pattern (20 bp):
ACACGCCCGTGTGCCTTGGG
Found at i:34516388 original size:80 final size:80
Alignment explanation
Indices: 34516255--34516409 Score: 310
Period size: 80 Copynumber: 1.9 Consensus size: 80
34516245 CTTCATGAAC
34516255 TTTTCACACAATCATGCAATCATATCATAGACCTCAAAATAATCATAAAATAATTATTTCTATCT
1 TTTTCACACAATCATGCAATCATATCATAGACCTCAAAATAATCATAAAATAATTATTTCTATCT
34516320 CGGATTTGTGCGAAA
66 CGGATTTGTGCGAAA
34516335 TTTTCACACAATCATGCAATCATATCATAGACCTCAAAATAATCATAAAATAATTATTTCTATCT
1 TTTTCACACAATCATGCAATCATATCATAGACCTCAAAATAATCATAAAATAATTATTTCTATCT
34516400 CGGATTTGTG
66 CGGATTTGTG
34516410 GTCCCAAAAC
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 75 1.00
ACGTcount: A:0.38, C:0.19, G:0.08, T:0.35
Consensus pattern (80 bp):
TTTTCACACAATCATGCAATCATATCATAGACCTCAAAATAATCATAAAATAATTATTTCTATCT
CGGATTTGTGCGAAA
Found at i:34519626 original size:32 final size:32
Alignment explanation
Indices: 34519590--34519652 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
34519580 TCTTTACTTA
34519590 GTAAATATGCATTTTACTGATCCTTGTTTACC
1 GTAAATATGCATTTTACTGATCCTTGTTTACC
34519622 GTAAATATGCATTTTACTGATCCTTGTTTAC
1 GTAAATATGCATTTTACTGATCCTTGTTTAC
34519653 TAAGGGTGTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.25, C:0.17, G:0.13, T:0.44
Consensus pattern (32 bp):
GTAAATATGCATTTTACTGATCCTTGTTTACC
Found at i:34522620 original size:40 final size:39
Alignment explanation
Indices: 34522526--34522697 Score: 168
Period size: 40 Copynumber: 4.3 Consensus size: 39
34522516 TACTCGAATG
* * *
34522526 ATATCCGGGCTAAGTCCTGAAGGCTTTTCTGCTAAGCGACT
1 ATATCCGGGCTAAGTCC-GAAGGCATTTGTGCT-AGTGACT
* *
34522567 ACATCCGGACTAAGATCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAG-TCCGAAGGCATTTGTGCTAGTGACT
* *
34522607 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGT-CCGAAGGCATTTGTGCTAGTGACT
* * * * **
34522647 ATATCCGGGTTAAGACCCGAAGGC-CTTGTGCGAGTGGTT
1 ATATCCGGGCTAAG-TCCGAAGGCATTTGTGCTAGTGACT
34522686 ATATCC-GGCTAA
1 ATATCCGGGCTAA
34522698 ACCCCGAAGA
Statistics
Matches: 110, Mismatches: 18, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
38 5 0.05
39 16 0.15
40 61 0.55
41 25 0.23
42 3 0.03
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.26
Consensus pattern (39 bp):
ATATCCGGGCTAAGTCCGAAGGCATTTGTGCTAGTGACT
Found at i:34530088 original size:41 final size:40
Alignment explanation
Indices: 34530029--34530140 Score: 147
Period size: 41 Copynumber: 2.8 Consensus size: 40
34530019 CTCGAATGAT
*
34530029 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCAACTA
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCAACTA
* *
34530069 CATCCGGACTAAGAT-CCGAAGGCATTTGTGCT-AGCGACTA
1 -ATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAAGCAACTA
* *
34530109 TTCCGGGCTAAGTCCCGAAGGCATTTATGCTA
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA
34530141 GTGACCATAT
Statistics
Matches: 62, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
38 1 0.02
39 26 0.42
40 7 0.11
41 27 0.44
42 1 0.02
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCAACTA
Found at i:34530127 original size:39 final size:39
Alignment explanation
Indices: 34530030--34530170 Score: 158
Period size: 39 Copynumber: 3.5 Consensus size: 39
34530020 TCGAATGATA
* * *
34530030 TCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCAACTACA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACTA-T
*
34530071 TCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACTAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACTAT
* * *
34530110 TCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACTAT
* *
34530149 ATCCGGGTTAAGACCCGAAGGC
1 -TCCGGGCTAAGTCCCGAAGGC
34530171 CTTGTGCGAG
Statistics
Matches: 87, Mismatches: 10, Indels: 7
0.84 0.10 0.07
Matches are distributed among these distances:
38 1 0.01
39 33 0.38
40 26 0.30
41 26 0.30
42 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.26, T:0.23
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACTAT
Found at i:34536640 original size:7 final size:7
Alignment explanation
Indices: 34536628--34536652 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
34536618 TATTGACATA
34536628 AAAATTT
1 AAAATTT
34536635 AAAATTT
1 AAAATTT
34536642 AAAATTT
1 AAAATTT
34536649 AAAA
1 AAAA
34536653 CAAACAAATG
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:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (7 bp):
AAAATTT
Found at i:34558574 original size:79 final size:80
Alignment explanation
Indices: 34558447--34558631 Score: 209
Period size: 79 Copynumber: 2.3 Consensus size: 80
34558437 GCTACTCGTT
* * *
34558447 CAAATGCCTTCGGGACATAGCCCGGTCATAGTAACTCGCACAATTGCCTTCGGGA-CTTCA-CCC
1 CAAATGCCTTCGGGACTTAGCCCGG-AATAGTAACTCGCACAAATGCCTTC-GGATCTT-AGCCC
* *
34558510 GGATTTAGTAAC-TCGCA
63 GGATATAGTAACTTAGCA
** *
34558527 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTGTCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAA-TAGTAACTCGCACAAATGCCTTCGGATCTTAGCCCGG
* *
34558591 ATATGGTCACTTAGCA
65 ATATAGTAACTTAGCA
34558607 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
34558632 CATCATTCAA
Statistics
Matches: 90, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
78 5 0.06
79 52 0.58
80 33 0.37
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATAGTAACTCGCACAAATGCCTTCGGATCTTAGCCCGGA
TATAGTAACTTAGCA
Found at i:34558631 original size:40 final size:40
Alignment explanation
Indices: 34558428--34558631 Score: 206
Period size: 40 Copynumber: 5.1 Consensus size: 40
34558418 CGGAATTTAA
** *
34558428 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
34558468 CCGG-TCATAGTAACTCGCACAATTGCCTTCGGGACTTCA-C
1 CCGGAT-ATAGTAACTCGCACAAATGCCTTCGGGACTT-AGC
*
34558508 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
** *
34558547 CCGGA-ATTAGTGTCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
34558587 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
34558627 CCGGA
1 CCGGA
34558632 CATCATTCAA
Statistics
Matches: 138, Mismatches: 15, Indels: 22
0.79 0.09 0.13
Matches are distributed among these distances:
38 3 0.02
39 32 0.23
40 89 0.64
41 14 0.10
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:34563418 original size:41 final size:41
Alignment explanation
Indices: 34563373--34563463 Score: 155
Period size: 41 Copynumber: 2.2 Consensus size: 41
34563363 GGGCCTACTT
**
34563373 ACACAAGCTGTCAGTCAAGATGTAGCTACTCGGTGCTGCTC
1 ACACAAGCTGTCAGTCAAGATGTAGCTACTCAATGCTGCTC
*
34563414 ACACAAGTTGTCAGTCAAGATGTAGCTACTCAATGCTGCTC
1 ACACAAGCTGTCAGTCAAGATGTAGCTACTCAATGCTGCTC
34563455 ACACAAGCT
1 ACACAAGCT
34563464 ATCAAGTAAC
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 46 1.00
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (41 bp):
ACACAAGCTGTCAGTCAAGATGTAGCTACTCAATGCTGCTC
Found at i:34563642 original size:18 final size:18
Alignment explanation
Indices: 34563619--34563658 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
34563609 TTGTCGTCGA
*
34563619 ACTCGTTTGTAGAATTAT
1 ACTCGTTCGTAGAATTAT
*
34563637 ACTCGTTCGTCGAATTAT
1 ACTCGTTCGTAGAATTAT
34563655 ACTC
1 ACTC
34563659 ATTCACATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.40
Consensus pattern (18 bp):
ACTCGTTCGTAGAATTAT
Found at i:34565138 original size:27 final size:28
Alignment explanation
Indices: 34565108--34565169 Score: 92
Period size: 27 Copynumber: 2.3 Consensus size: 28
34565098 GACCCCAGTT
34565108 TGTAAAATTACCAAAATACCCTTGTA-G
1 TGTAAAATTACCAAAATACCCTTGTACG
**
34565135 TGTAAAATTACTGAAATACCCTTGTACG
1 TGTAAAATTACCAAAATACCCTTGTACG
34565163 -GTAAAAT
1 TGTAAAAT
34565170 GTCTGTTTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.40, C:0.16, G:0.13, T:0.31
Consensus pattern (28 bp):
TGTAAAATTACCAAAATACCCTTGTACG
Found at i:34565576 original size:22 final size:22
Alignment explanation
Indices: 34565528--34565587 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
34565518 ACAATCTGAT
*
34565528 TATGGCTCTATGCCAACCTAAA
1 TATGGCTCTGTGCCAACCTAAA
* * * *
34565550 AATGGCTCTGTGCCATCTTAAC
1 TATGGCTCTGTGCCAACCTAAA
*
34565572 TATGGCTTTGTGCCAA
1 TATGGCTCTGTGCCAA
34565588 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (22 bp):
TATGGCTCTGTGCCAACCTAAA
Found at i:34567175 original size:13 final size:13
Alignment explanation
Indices: 34567159--34567183 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34567149 TTATTCTATT
34567159 TTAATTATTTTAG
1 TTAATTATTTTAG
34567172 TTAATTATTTTA
1 TTAATTATTTTA
34567184 ATTTTTTTTT
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:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (13 bp):
TTAATTATTTTAG
Found at i:34567974 original size:47 final size:45
Alignment explanation
Indices: 34567878--34567978 Score: 139
Period size: 45 Copynumber: 2.2 Consensus size: 45
34567868 CCATATTGTC
* *
34567878 TTTCAACTATAGTCTTATTCATTCTCGTCTTGATACCATAGTGTA
1 TTTCAACCATAGTCTTATTCATTCTCGTCTTGATACCATAGTATA
** *
34567923 TTTCAACCATAGTCTTATTCATTCTCGTCTCTTGATGTCATAGTATG
1 TTTCAACCATAGTCTTATTCATTCTCG--TCTTGATACCATAGTATA
34567970 TTTCAACCA
1 TTTCAACCA
34567979 GGGTCTTGTA
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
45 26 0.53
47 23 0.47
ACGTcount: A:0.24, C:0.22, G:0.11, T:0.44
Consensus pattern (45 bp):
TTTCAACCATAGTCTTATTCATTCTCGTCTTGATACCATAGTATA
Found at i:34567985 original size:47 final size:45
Alignment explanation
Indices: 34567878--34567985 Score: 126
Period size: 47 Copynumber: 2.4 Consensus size: 45
34567868 CCATATTGTC
* * *
34567878 TTTCAACTATAGTCTTATTCATTCTCGTCTTGATACCATAGTGTA
1 TTTCAACCAGAGTCTTATTCATTCTCGTCTTGATACCATAGTATA
* ** *
34567923 TTTCAACCATAGTCTTATTCATTCTCGTCTCTTGATGTCATAGTATG
1 TTTCAACCAGAGTCTTATTCATTCTCG--TCTTGATACCATAGTATA
*
34567970 TTTCAACCAGGGTCTT
1 TTTCAACCAGAGTCTT
34567986 GTACATTTTT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
45 26 0.48
47 28 0.52
ACGTcount: A:0.22, C:0.21, G:0.13, T:0.44
Consensus pattern (45 bp):
TTTCAACCAGAGTCTTATTCATTCTCGTCTTGATACCATAGTATA
Found at i:34571327 original size:47 final size:47
Alignment explanation
Indices: 34571226--34571316 Score: 157
Period size: 47 Copynumber: 2.0 Consensus size: 47
34571216 TCACATTTCC
* *
34571226 AACCCTTATATTCATACATAAGGGATCAACTTAACCAAAAACCGGCC
1 AACCCTTATATTCATACATAAGGGATCAACTTAACCAAAAACCCGCA
34571273 AACCCTTATATTCATACATAAGGGATCAACTTAACC-AAAACCCG
1 AACCCTTATATTCATACATAAGGGATCAACTTAACCAAAAACCCG
34571317 AAAGCTCCTT
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
46 7 0.16
47 36 0.84
ACGTcount: A:0.41, C:0.27, G:0.10, T:0.22
Consensus pattern (47 bp):
AACCCTTATATTCATACATAAGGGATCAACTTAACCAAAAACCCGCA
Found at i:34571547 original size:40 final size:40
Alignment explanation
Indices: 34571499--34571683 Score: 223
Period size: 40 Copynumber: 4.6 Consensus size: 40
34571489 CTTGCACAAG
* *
34571499 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAA
* * *
34571539 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAA
34571579 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTAGCA-ACAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACA-AAA
* * *
34571619 GCCCTT-GGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 G-CCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAA
* *
34571660 GCCTTCGGGACTTAGCCCAGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
34571684 CATTCGAATA
Statistics
Matches: 124, Mismatches: 14, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
39 2 0.02
40 93 0.75
41 28 0.23
42 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAA
Found at i:34579440 original size:40 final size:40
Alignment explanation
Indices: 34579393--34579577 Score: 228
Period size: 40 Copynumber: 4.6 Consensus size: 40
34579383 CTTGCACAAG
* *
34579393 GCCTTCGGGTCTTAGCTCGGATATAGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* **
34579433 GCCTTCGGGACTTAGCCCGGATATAGTTGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
34579473 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * * *
34579513 GCCTTCGGATCTTAGTCCAGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
*
34579554 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
34579578 CATTCGAATA
Statistics
Matches: 120, Mismatches: 22, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
40 92 0.77
41 28 0.23
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:34579488 original size:80 final size:79
Alignment explanation
Indices: 34579357--34579577 Score: 241
Period size: 80 Copynumber: 2.8 Consensus size: 79
34579347 CTCAAGTAAT
* ** * * *
34579357 CTTCGGGATTTAGCCGGATATAACTACTTGCAC-AAGGCCTTCGGGTCTTAGCTCGGATATAGTC
1 CTTCGGGACTTAGCCGGATATAGTTACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAG-C
*
34579421 -ACTAGCATAAATGC
65 AACTAGCACAAATGC
* *
34579435 CTTCGGGACTTAGCCCGGATATAGTTGCTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGC
1 CTTCGGGACTTAG-CCGGATATAGTTACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAGC
* *
34579500 AACTCGCACGAATGC
65 AACTAGCACAAATGC
* * * *
34579515 CTTC-GGATCTTAGTCCAGTTATAGTCACCTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGA-CTTAG-CCGGATATAGTTA-CTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATAT
34579578 CATTCGAATA
Statistics
Matches: 121, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
78 12 0.10
79 20 0.17
80 56 0.46
81 33 0.27
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (79 bp):
CTTCGGGACTTAGCCGGATATAGTTACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAGCA
ACTAGCACAAATGC
Found at i:34582915 original size:27 final size:27
Alignment explanation
Indices: 34582874--34582927 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
34582864 TGTCATGTGA
* *
34582874 AATTGAATGACAAATTATTGTTACATG
1 AATTGAATGACAAATTACTATTACATG
**
34582901 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGACAAATTACTATTACATG
34582928 GGTTGTATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.41, C:0.07, G:0.13, T:0.39
Consensus pattern (27 bp):
AATTGAATGACAAATTACTATTACATG
Found at i:34583251 original size:49 final size:50
Alignment explanation
Indices: 34583173--34583405 Score: 254
Period size: 49 Copynumber: 4.7 Consensus size: 50
34583163 ATCTATTGTG
34583173 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * * *
34583223 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TT
* * ** * * * * **
34583273 CGATCACGCGTGTAGTACTATGTGCAGGCTATTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * * * *
34583323 AGGTCACGTATGTAGTACTAAGTGTAGGCTACTACATGTACAGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* *
34583373 -GGTCCCATGTGTAGTGCTAAGTGCAGGCTACTA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
34583406 TGCGTACTAG
Statistics
Matches: 147, Mismatches: 34, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
49 71 0.48
50 41 0.28
51 35 0.24
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
Found at i:34583445 original size:150 final size:150
Alignment explanation
Indices: 34583173--34583451 Score: 384
Period size: 150 Copynumber: 1.9 Consensus size: 150
34583163 ATCTATTGTG
* * * *
34583173 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGT
1 AGGTCACATATGTAGTACTAAGTGCAGGCTACTACATGTACAGGATAATTGGTCCCATGTGTAGT
* ** * *
34583238 ACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACGCGTGTAGTACTATGTGCAGGCT
66 ACTAAGTGCAGGCTACTATGCGTACCAGATAACTTCGATCACAAGTGTAGAAATATGTGCAGGCT
34583303 ATTACGTGTATCAGATGGTT
131 ATTACGTGTATCAGATGGTT
* *
34583323 AGGTCACGTATGTAGTACTAAGTGTAGGCTACTACATGTACAGGATAATTGGTCCCATGTGTAGT
1 AGGTCACATATGTAGTACTAAGTGCAGGCTACTACATGTACAGGATAATTGGTCCCATGTGTAGT
* * *
34583388 GCTAAGTGCAGGCTACTATGCGTACTAGATAGCCTT-G-TCTACAAGTGT-GAAAATATGTGCAG
66 ACTAAGTGCAGGCTACTATGCGTACCAGATA-ACTTCGATC-ACAAGTGTAG-AAATATGTGCAG
34583450 GC
128 GC
34583452 AACTAAGTAT
Statistics
Matches: 112, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
149 3 0.03
150 106 0.95
151 3 0.03
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (150 bp):
AGGTCACATATGTAGTACTAAGTGCAGGCTACTACATGTACAGGATAATTGGTCCCATGTGTAGT
ACTAAGTGCAGGCTACTATGCGTACCAGATAACTTCGATCACAAGTGTAGAAATATGTGCAGGCT
ATTACGTGTATCAGATGGTT
Found at i:34587033 original size:19 final size:19
Alignment explanation
Indices: 34587009--34587047 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
34586999 CGGGTTACTT
34587009 AGAAAATATCTTCTCAAAA
1 AGAAAATATCTTCTCAAAA
*
34587028 AGAAAATATCTTCTTAAAA
1 AGAAAATATCTTCTCAAAA
34587047 A
1 A
34587048 ATATATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.54, C:0.13, G:0.05, T:0.28
Consensus pattern (19 bp):
AGAAAATATCTTCTCAAAA
Found at i:34595971 original size:40 final size:40
Alignment explanation
Indices: 34595882--34596145 Score: 360
Period size: 40 Copynumber: 6.7 Consensus size: 40
34595872 TTGAATGATG
* *
34595882 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
* * *
34595921 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
34595961 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
34596000 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
34596040 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
34596080 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
34596121 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
34596146 AACGAGGAGC
Statistics
Matches: 206, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
39 53 0.26
40 143 0.69
41 10 0.05
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:34596163 original size:120 final size:118
Alignment explanation
Indices: 34595882--34596178 Score: 338
Period size: 119 Copynumber: 2.5 Consensus size: 118
34595872 TTGAATGATG
* *
34595882 TCCGGGCTAAGTCCCGAAGGC-TTGTG--CTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
1 TCCGGGCTAAGTCCCGAAGGCATT-TGAAC-GAGTGACTAA-ATCCGG-TTAA-ATCCCGAAGGC
* *
34595942 ATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
61 ATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAAA
* ** * *
34596000 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCC-GGTTAAATCCCGAAGGCATTT
* *
34596065 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
65 GTGCGAGATACTAAATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAATTACTA-AA
* * *
34596121 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGTTAAATCCCGAAGG
34596179 TACGTGATTT
Statistics
Matches: 153, Mismatches: 17, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
118 23 0.15
119 64 0.42
120 64 0.42
121 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (118 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGTTAAATCCCGAAGGCATTTG
TGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAAA
Found at i:34603909 original size:39 final size:40
Alignment explanation
Indices: 34603814--34604036 Score: 273
Period size: 39 Copynumber: 5.7 Consensus size: 40
34603804 TTGAATGATG
*
34603814 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
34603852 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
34603893 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
34603932 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
34603971 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
34604010 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
34604037 AACGAGGAGC
Statistics
Matches: 166, Mismatches: 10, Indels: 15
0.87 0.05 0.08
Matches are distributed among these distances:
39 93 0.56
40 61 0.37
41 11 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:34604000 original size:79 final size:81
Alignment explanation
Indices: 34603814--34604036 Score: 282
Period size: 79 Copynumber: 2.8 Consensus size: 81
34603804 TTGAATGATG
* * *
34603814 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATATCCGGGCTAAGACCCGAAGGCA
*
34603875 TTTGTGCGAGATACTAAT
64 TTTGTGCGAGATACTAAA
34603893 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT-TCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
*
34603955 TGTGCGAGTTACTAAA
66 TGTGCGAGATACTAAA
* * * * *
34603971 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
34604035 TG
66 TG
34604037 AACGAGGAGC
Statistics
Matches: 128, Mismatches: 9, Indels: 13
0.85 0.06 0.09
Matches are distributed among these distances:
78 46 0.36
79 56 0.44
80 25 0.20
81 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:34604058 original size:79 final size:79
Alignment explanation
Indices: 34603814--34604069 Score: 224
Period size: 79 Copynumber: 3.3 Consensus size: 79
34603804 TTGAATGATG
* * * *
34603814 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
34603875 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
34603893 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
34603957 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
* *
34603971 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATT
*
34604035 TGAACGAG-GAGCTATA
64 TGAACGAGTGA-CTAAA
* *
34604051 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
34604070 TACGTGATTT
Statistics
Matches: 153, Mismatches: 15, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
77 1 0.01
78 45 0.29
79 70 0.46
80 36 0.24
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:34609686 original size:27 final size:27
Alignment explanation
Indices: 34609656--34609811 Score: 190
Period size: 27 Copynumber: 5.9 Consensus size: 27
34609646 ATTACCAAAG
*
34609656 TACCCCCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
34609683 TACCCTCGATTTATA-AATTACTATTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * * *
34609709 TACCCTTGATTTATAGAATTACCGTTC
1 TACCCTCGATTTACAGAATTACTGTTT
* *
34609736 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
34609763 TACCCTTGATTTACAGAATTATTG-TT
1 TACCCTCGATTTACAGAATTACTGTTT
*
34609789 TACCCTCGATTTACAAAATTACT
1 TACCCTCGATTTACAGAATTACT
34609812 AAAATACCCT
Statistics
Matches: 110, Mismatches: 18, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
26 46 0.42
27 64 0.58
ACGTcount: A:0.29, C:0.21, G:0.08, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:34609701 original size:53 final size:53
Alignment explanation
Indices: 34609629--34609837 Score: 224
Period size: 53 Copynumber: 3.9 Consensus size: 53
34609619 ATTATTGAAA
* * **
34609629 TACCCTCGACTTGTA-AAATTACCAAAGTACCCCCGATTTACAGAATTACTGTTT
1 TACCCTCGA-TT-TATAAATTACTAAATTACCCTTGATTTACAGAATTACTGTTT
** * * *
34609683 TACCCTCGATTTATAAATTACTATTTTACCCTTGATTTATAGAATTACCGTTC
1 TACCCTCGATTTATAAATTACTAAATTACCCTTGATTTACAGAATTACTGTTT
** *
34609736 TACCCTCGATTTATAGAATTACTATTTTACCCTTGATTTACAGAATTATTG-TT
1 TACCCTCGATTTATA-AATTACTAAATTACCCTTGATTTACAGAATTACTGTTT
* * * *
34609789 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTAC
1 TACCCTCGATTTA-TAAATTACTAAATTACCCTTGATTTACAGAATTAC
34609838 CAAAATACCC
Statistics
Matches: 132, Mismatches: 20, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
52 2 0.02
53 88 0.67
54 42 0.32
ACGTcount: A:0.32, C:0.22, G:0.09, T:0.38
Consensus pattern (53 bp):
TACCCTCGATTTATAAATTACTAAATTACCCTTGATTTACAGAATTACTGTTT
Found at i:34609820 original size:80 final size:80
Alignment explanation
Indices: 34609629--34609837 Score: 215
Period size: 80 Copynumber: 2.6 Consensus size: 80
34609619 ATTATTGAAA
* * * * *
34609629 TACCCTCGACTTGTAAAATTACCAAAGTACCCCCGATTTACAGAATTACTGTTTTACCCTCGATT
1 TACCCTCGATTTATAAAATTACCAAAATACCCTCGATTTACAGAATTACTATTTTACCCTCGATT
*
34609694 TATAAATTACTATTT
66 TACAAATTACTATTT
* * **** * *
34609709 TACCCTTGATTTATAGAATTACCGTTCTACCCTCGATTTATAGAATTACTATTTTACCCTTGATT
1 TACCCTCGATTTATAAAATTACCAAAATACCCTCGATTTACAGAATTACTATTTTACCCTCGATT
34609774 TACAGAATTA-T-TGTT
66 TACA-AATTACTAT-TT
* * * * *
34609789 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTAC
1 TACCCTCGATTTATAAAATTACCAAAATACCCTCGATTTACAGAATTAC
34609838 CAAAATACCC
Statistics
Matches: 102, Mismatches: 25, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
79 1 0.01
80 96 0.94
81 5 0.05
ACGTcount: A:0.32, C:0.22, G:0.09, T:0.38
Consensus pattern (80 bp):
TACCCTCGATTTATAAAATTACCAAAATACCCTCGATTTACAGAATTACTATTTTACCCTCGATT
TACAAATTACTATTT
Found at i:34609828 original size:27 final size:27
Alignment explanation
Indices: 34609789--34610121 Score: 160
Period size: 27 Copynumber: 12.3 Consensus size: 27
34609779 AATTATTGTT
* * *
34609789 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
34609816 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
* * * *
34609843 TACCC-TCGATCAGTAAAATTACCAAAA
1 TACCCTTGGTTTA-CAAAATTACCAAAA
* * ** * *
34609870 TACCC-TAGTCTGTAAAATTGCTAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
* **
34609896 TACCCCTGGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
* ** *
34609923 TATCCC-TAGTTTGTAAAGTTACCAAAA
1 TA-CCCTTGGTTTACAAAATTACCAAAA
* *** *
34609950 TACCAC-TAGTTTGTGAAATTACCGAAA
1 TACC-CTTGGTTTACAAAATTACCAAAA
* ***
34609977 TACACTCAATTT-CTAAAATTACCAAAA
1 TACCCTTGGTTTAC-AAAATTACCAAAA
* **
34610004 TACCCCTAATTTACAAAATTA-CAGAAA
1 TACCCTTGGTTTACAAAATTACCA-AAA
* * *
34610031 CACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTTG-GTTTAC--AAAATTACCA-AAA
* *
34610060 TACCATTGGTTTACAAAATTACTAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
* **
34610087 TACCCTCGGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
*
34610114 CACCCTTG
1 TACCCTTG
34610122 TAGGGTGAAA
Statistics
Matches: 246, Mismatches: 47, Indels: 26
0.77 0.15 0.08
Matches are distributed among these distances:
26 26 0.11
27 189 0.77
28 12 0.05
29 19 0.08
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.29
Consensus pattern (27 bp):
TACCCTTGGTTTACAAAATTACCAAAA
Found at i:34609870 original size:54 final size:53
Alignment explanation
Indices: 34609803--34610010 Score: 186
Period size: 54 Copynumber: 3.9 Consensus size: 53
34609793 CTCGATTTAC
* * **
34609803 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATA-CCCTCGATCAGT
1 AAAATTACCAAAATACCC-TAGTTTGTAAAATTACCAAAATACCCCT-GATCAGT
* * * * **
34609857 AAAATTACCAAAATACCCTAGTCTGTAAAATTGCTAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCTAGTTTGTAAAATTACCAAAATACCCCTGATCAGT
* * **
34609910 AAAATTACCAAAATATCCCTAGTTTGTAAAGTTACCAAAATACCACT-AGTTTGT
1 AAAATTACCAAAATA-CCCTAGTTTGTAAAATTACCAAAATACCCCTGA-TCAGT
* * * * *
34609964 GAAATTACCGAAATACACTCAATTTCTAAAATTACCAAAATACCCCT
1 AAAATTACCAAAATACCCT-AGTTTGTAAAATTACCAAAATACCCCT
34610011 AATTTACAAA
Statistics
Matches: 127, Mismatches: 23, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
53 39 0.31
54 88 0.69
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.29
Consensus pattern (53 bp):
AAAATTACCAAAATACCCTAGTTTGTAAAATTACCAAAATACCCCTGATCAGT
Found at i:34609874 original size:107 final size:107
Alignment explanation
Indices: 34609626--34609875 Score: 254
Period size: 107 Copynumber: 2.3 Consensus size: 107
34609616 CATATTATTG
* * *
34609626 AAATACCCTCGA-CTTGTAAAATTACCAAAGTACCCCCGATTTACAGAATTACTGTTTTACCCTC
1 AAATACCCTCGATC-AGTAAAATTACCAAAATACCCTCGATTTACAGAATTACTGTTTTACCCTC
* *** * * *
34609690 GATTTATAAATTACTATTTTACCCTTGATTTATAGAATTACCG
65 GATTTAAAAATTACTAAAATACCCTTGATTTACAAAATTACCA
*** * * * *** * *
34609733 TTCTACCCTCGATTTA-TAGAATTACTATTTTACCCTTGATTTACAGAATTATTG-TTTACCCTC
1 AAATACCCTCGA-TCAGTAAAATTACCAAAATACCCTCGATTTACAGAATTACTGTTTTACCCTC
*
34609796 GATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCA
65 GATTTA-AAAATTACTAAAATACCCTTGATTTACAAAATTACCA
34609840 AAATACCCTCGATCAGTAAAATTACCAAAATACCCT
1 AAATACCCTCGATCAGTAAAATTACCAAAATACCCT
34609876 AGTCTGTAAA
Statistics
Matches: 109, Mismatches: 30, Indels: 8
0.74 0.20 0.05
Matches are distributed among these distances:
106 17 0.16
107 92 0.84
ACGTcount: A:0.34, C:0.22, G:0.08, T:0.35
Consensus pattern (107 bp):
AAATACCCTCGATCAGTAAAATTACCAAAATACCCTCGATTTACAGAATTACTGTTTTACCCTCG
ATTTAAAAATTACTAAAATACCCTTGATTTACAAAATTACCA
Found at i:34610011 original size:81 final size:80
Alignment explanation
Indices: 34609803--34610008 Score: 202
Period size: 80 Copynumber: 2.6 Consensus size: 80
34609793 CTCGATTTAC
* * ** *
34609803 AAAATTACTAAAATACCCTTGGTTTAC-AAAATTACCAAAATACCCTCGATCAGTAAAATTACCA
1 AAAATTACCAAAATACCCCTAATTT-CTAAAATTACCAAAATACCCTAGATCAGTAAAATTACCA
34609867 AAATACCCTAGTCTGT
65 AAATACCCTAGTCTGT
* * ** * ** *
34609883 AAAATTGCTAAAATACCCCTGGTTTGTAAAATTACCAAAATATCCCTAG-TTTGTAAAGTTACCA
1 AAAATTACCAAAATACCCCTAATTTCTAAAATTACCAAAATA-CCCTAGATCAGTAAAATTACCA
*
34609947 AAATACCACTAGTTTGT
65 AAATACC-CTAGTCTGT
* * *
34609964 GAAATTACCGAAATA-CACTCAATTTCTAAAATTACCAAAATACCC
1 AAAATTACCAAAATACCCCT-AATTTCTAAAATTACCAAAATACCC
34610009 CTAATTTACA
Statistics
Matches: 106, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
80 63 0.59
81 43 0.41
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (80 bp):
AAAATTACCAAAATACCCCTAATTTCTAAAATTACCAAAATACCCTAGATCAGTAAAATTACCAA
AATACCCTAGTCTGT
Found at i:34610182 original size:27 final size:27
Alignment explanation
Indices: 34610143--34610211 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
34610133 GACTAAAATA
34610143 CCCCTATTA-GGTAAAAAGACCGTAAAG
1 CCCCTA-TAGGGTAAAAAGACCGTAAAG
* ** *
34610170 CCCCTGTAGGGTAAAGTGACTGTAAAG
1 CCCCTATAGGGTAAAAAGACCGTAAAG
34610197 CCCCTATAGGGTAAA
1 CCCCTATAGGGTAAA
34610212 GTGACTGTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
26 2 0.06
27 34 0.94
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (27 bp):
CCCCTATAGGGTAAAAAGACCGTAAAG
Found at i:34610236 original size:27 final size:27
Alignment explanation
Indices: 34610164--34610238 Score: 107
Period size: 27 Copynumber: 2.8 Consensus size: 27
34610154 TAAAAAGACC
34610164 GTAAAGCCCCTGTAGGGTAAAGTGACT
1 GTAAAGCCCCTGTAGGGTAAAGTGACT
*
34610191 GTAAAGCCCCTATAGGGTAAAGTGACT
1 GTAAAGCCCCTGTAGGGTAAAGTGACT
* *
34610218 GTAATA-CCCTTGTATGGTAAA
1 GTAA-AGCCCCTGTAGGGTAAA
34610239 ATGATGAATA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
27 42 0.98
28 1 0.02
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.25
Consensus pattern (27 bp):
GTAAAGCCCCTGTAGGGTAAAGTGACT
Found at i:34611072 original size:26 final size:26
Alignment explanation
Indices: 34611043--34611217 Score: 255
Period size: 26 Copynumber: 6.8 Consensus size: 26
34611033 GAGGAAGTGC
* *
34611043 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
*
34611069 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACTG
*
34611095 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
**
34611121 AAAAGGGCTTATGCCCCAGTTTACAA
1 AAAAGGGCTTATGCCCCAGTTTACTG
*
34611147 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
*
34611173 AAAAGGGCTT-TGCCTCAGTTTACTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
*
34611198 AAAAGGGCTT-TTCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
34611218 ATTAAAGAGG
Statistics
Matches: 134, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
25 31 0.23
26 103 0.77
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.29
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACTG
Found at i:34611121 original size:52 final size:52
Alignment explanation
Indices: 34611043--34611217 Score: 282
Period size: 52 Copynumber: 3.4 Consensus size: 52
34611033 GAGGAAGTGC
* *
34611043 AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACAG
*
34611095 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACAA
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACAG
* *
34611147 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTT-TGCCTCAGTTTACTG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACAG
*
34611198 AAAAGGGCTT-TTCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
34611218 ATTAAAGAGG
Statistics
Matches: 116, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
50 9 0.08
51 22 0.19
52 85 0.73
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.29
Consensus pattern (52 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACAG
Done.