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 47 of 172
Found at i:15149418 original size:39 final size:39
Alignment explanation
Indices: 15149364--15149440 Score: 145
Period size: 39 Copynumber: 2.0 Consensus size: 39
15149354 CAAAATGTAT
15149364 GAAATCGCGCGTACTGCAGTTTATTACTTTAGATTACCC
1 GAAATCGCGCGTACTGCAGTTTATTACTTTAGATTACCC
*
15149403 GAAATCGCGTGTACTGCAGTTTATTACTTTAGATTACC
1 GAAATCGCGCGTACTGCAGTTTATTACTTTAGATTACC
15149441 AAATATACAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (39 bp):
GAAATCGCGCGTACTGCAGTTTATTACTTTAGATTACCC
Found at i:15154264 original size:27 final size:26
Alignment explanation
Indices: 15154227--15154367 Score: 156
Period size: 27 Copynumber: 5.3 Consensus size: 26
15154217 AGCATGGCTG
* * *
15154227 CCAGAACAGATAATGTGACAAAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
15154253 CCAGATACAGATAATCTGGCAGAGCCA
1 CCAGA-ACAGATAATGTGGCAGAGCCA
15154280 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
** *
15154307 CCAGATTAGATATTTGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
15154334 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
15154361 CCAGAAC
1 CCAGAAC
15154368 GCTTCCTCCA
Statistics
Matches: 102, Mismatches: 11, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
26 12 0.12
27 90 0.88
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:15154327 original size:54 final size:54
Alignment explanation
Indices: 15154227--15154365 Score: 174
Period size: 54 Copynumber: 2.6 Consensus size: 54
15154217 AGCATGGCTG
* *
15154227 CCAGAACAGATA-ATGTGACAAAGTCACCAGATACAGATAATCTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAAAGCCACCAGATACAGATAATCTGGCAGAGCCA
* * * *
15154280 CCAGAACAGATATATGTGGCAGAGCCACCAGAT-TAGATATTTGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAAAGCCACCAGATACAGATA-ATCTGGCAGAGCCA
* * *
15154334 CCAGATCAGATATTTGTGGCATAGCCACCAGA
1 CCAGAACAGATATATGTGGCAAAGCCACCAGA
15154366 ACGCTTCCTC
Statistics
Matches: 75, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
53 17 0.23
54 58 0.77
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (54 bp):
CCAGAACAGATATATGTGGCAAAGCCACCAGATACAGATAATCTGGCAGAGCCA
Found at i:15154497 original size:26 final size:27
Alignment explanation
Indices: 15154468--15154543 Score: 82
Period size: 26 Copynumber: 2.8 Consensus size: 27
15154458 CAAAATTAAC
* *
15154468 CCTAGGGGTATAATGGTAATTTTGC-A
1 CCTAGGGGTATAATAGTAATTTTCCAA
* *
15154494 CCTAAGGGTATAACAGTAATTTTCCATA
1 CCTAGGGGTATAATAGTAATTTTCCA-A
* *
15154522 CATAGGGGTATTATAGTAATTT
1 CCTAGGGGTATAATAGTAATTT
15154544 AGCTACTTTT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
26 21 0.52
28 19 0.47
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.36
Consensus pattern (27 bp):
CCTAGGGGTATAATAGTAATTTTCCAA
Found at i:15154745 original size:45 final size:45
Alignment explanation
Indices: 15154681--15154770 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
15154671 TCAAAATGTA
*
15154681 TGAAATCGCGTGTACTGCAGTTTATTACTTTAGATTACCAAATAT
1 TGAAATCGCGCGTACTGCAGTTTATTACTTTAGATTACCAAATAT
15154726 TGAAATCGCGCGTACTGCAGTTTATTACTTTAGATTACCAAATAT
1 TGAAATCGCGCGTACTGCAGTTTATTACTTTAGATTACCAAATAT
15154771 ACAAACCCAA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.37
Consensus pattern (45 bp):
TGAAATCGCGCGTACTGCAGTTTATTACTTTAGATTACCAAATAT
Found at i:15156063 original size:26 final size:26
Alignment explanation
Indices: 15156027--15156136 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
15156017 CATGAAATTC
15156027 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
15156053 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
15156079 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
15156105 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCCA
15156131 TTATCA
1 TTATCA
15156137 ATTTGTACCA
Statistics
Matches: 81, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
26 79 0.98
27 2 0.02
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:15158443 original size:19 final size:19
Alignment explanation
Indices: 15158421--15158458 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
15158411 TGGTTAGTTC
15158421 CTAACCAGCTTAATTTGTA
1 CTAACCAGCTTAATTTGTA
15158440 CTAACCAGCTTAATTTGTA
1 CTAACCAGCTTAATTTGTA
15158459 ACCTAAGTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.37
Consensus pattern (19 bp):
CTAACCAGCTTAATTTGTA
Found at i:15159328 original size:42 final size:42
Alignment explanation
Indices: 15159262--15159372 Score: 125
Period size: 42 Copynumber: 2.6 Consensus size: 42
15159252 CCAGTTAGAT
* * * * * *
15159262 ATGATTCACTGAGGTTCCAAATATATTTCTTTGAACTTT-TGG
1 ATGATGCACTGAAGTGCCAGATATATTTCTTTAAAATTTCT-G
*
15159304 ATGATGCACTGAAGTGTCAGATATATTTCTTTAAAATTTCTG
1 ATGATGCACTGAAGTGCCAGATATATTTCTTTAAAATTTCTG
* *
15159346 ATGATGCATTGAGGTGCCAGATATATT
1 ATGATGCACTGAAGTGCCAGATATATT
15159373 ACTTCAGACT
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 57 0.98
43 1 0.02
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.40
Consensus pattern (42 bp):
ATGATGCACTGAAGTGCCAGATATATTTCTTTAAAATTTCTG
Found at i:15160528 original size:74 final size:75
Alignment explanation
Indices: 15160407--15160555 Score: 210
Period size: 74 Copynumber: 2.0 Consensus size: 75
15160397 AAGAAAAATC
* * *
15160407 ATGATTATTCCATTATTAGTAGAAAAGGCAAATAAAAAGTTAGAAAAATGAAGTATGTT-TTTCC
1 ATGATTATTCCATTATTAATAGAAAAGACAAATAAAAAGTTAGAAAAATGAAGTATATTCTTTCC
15160471 AAAAGAATAT
66 AAAAGAATAT
* * ** * *
15160481 ATGATTATTCCCTTATTAATAGAGAAGACAAATGGAAAGTTAGAAAAATGAATTATATTCTTTCG
1 ATGATTATTCCATTATTAATAGAAAAGACAAATAAAAAGTTAGAAAAATGAAGTATATTCTTTCC
15160546 AAAAGAATAT
66 AAAAGAATAT
15160556 TAATTTTCAT
Statistics
Matches: 65, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
74 51 0.78
75 14 0.22
ACGTcount: A:0.46, C:0.07, G:0.15, T:0.32
Consensus pattern (75 bp):
ATGATTATTCCATTATTAATAGAAAAGACAAATAAAAAGTTAGAAAAATGAAGTATATTCTTTCC
AAAAGAATAT
Found at i:15161056 original size:144 final size:144
Alignment explanation
Indices: 15160531--15161789 Score: 2064
Period size: 144 Copynumber: 8.8 Consensus size: 144
15160521 TAGAAAAATG
* * * * *
15160531 AATTATATTCTTTCGAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGATTATTAATTTCCATGTCTTTTATATTTTGGCCAAAATTAATTAA
* * *** * *
15160596 TATAATTGTCTATATTAATAAATTCAATAAAATATATACAATT-A-A----TATTTTGTATGAAT
66 TATAACTGTTTATATTAATAAATTTGGTAAAATATATAAAATTAATATTTGTATTTTATATGAAT
*
15160655 CAAATTCATATATT
131 CAAATTCAAATATT
* * * ** * * *
15160669 AATTATATTATTTCCAAAATAATATTAATTTTTATCTCTTTTATATTTTGACCGAAATCT-ATTA
1 AATTATATTCTTTCCAAAAGATTATTAATTTCCATGTCTTTTATATTTTGGCCAAAAT-TAATTA
* * * *
15160733 ATATAACTGTTTATATTAATACATTTAGTAAAAATATATACAATT-A-A----TATTTTGTATGA
65 ATATAACTGTTTATATTAATAAATTTGGT-AAAATATATAAAATTAATATTTGTATTTTATATGA
* *
15160792 ATCAAGTT-AATATTTT
129 ATCAAATTCAA-ATATT
* * ** * *
15160808 AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTC-TTT-TATTTTGAACGAAATTAATGAA
1 AATTATATTCTTTCCAAAAGATTATTAATTTCCATGTCTTTTATATTTTGGCCAAAATTAATTAA
15160871 TATAACTGTTTATATTAATAAATTTGGTAAAATATATAAAATTAATATTTGTATTTTATATGAAT
66 TATAACTGTTTATATTAATAAATTTGGTAAAATATATAAAATTAATATTTGTATTTTATATGAAT
15160936 CAAATTCAAATATT
131 CAAATTCAAATATT
15160950 AATTATATTCTTTCCAAAAGATTATTAATTTCCATGTCTTTTATATTTTGGCCAAAATTAATTAA
1 AATTATATTCTTTCCAAAAGATTATTAATTTCCATGTCTTTTATATTTTGGCCAAAATTAATTAA
15161015 TATAACTGTTTATATTAATAAATTTGGTAAAATATATAAAATTAATATTTGTATTTTATATGAAT
66 TATAACTGTTTATATTAATAAATTTGGTAAAATATATAAAATTAATATTTGTATTTTATATGAAT
15161080 CAAATTCAAATATT
131 CAAATTCAAATATT
15161094 AATTATATTCTTTCCAAAAGATTATTAATTTCCATGTCTTTTATATTTTGGCCAAAATTAATTAA
1 AATTATATTCTTTCCAAAAGATTATTAATTTCCATGTCTTTTATATTTTGGCCAAAATTAATTAA
15161159 TATAACTGTTTATATTAATAAATTTGGTAAAATATATAAAATTAATATTTGTATTTTATATGAAT
66 TATAACTGTTTATATTAATAAATTTGGTAAAATATATAAAATTAATATTTGTATTTTATATGAAT
15161224 CAAATTCAAATATT
131 CAAATTCAAATATT
15161238 AATTATATTCTTTCCAAAAGATTATTAATTTCCATGTCTTTTATATTTTGGCCAAAATTAATTAA
1 AATTATATTCTTTCCAAAAGATTATTAATTTCCATGTCTTTTATATTTTGGCCAAAATTAATTAA
15161303 TATAACTGTTTATATTAATAAATTTGGTAAAATATATAAAATTAATATTTGTATTTTATATGAAT
66 TATAACTGTTTATATTAATAAATTTGGTAAAATATATAAAATTAATATTTGTATTTTATATGAAT
15161368 CAAATTCAAATATT
131 CAAATTCAAATATT
15161382 AATTATATTCTTTCCAAAAGATTATTAATTTCCATGTCTTTTATATTTTGGCCAAAATTAATTAA
1 AATTATATTCTTTCCAAAAGATTATTAATTTCCATGTCTTTTATATTTTGGCCAAAATTAATTAA
15161447 TATAACTGTTTATATTAATAAATTTGGTAAAATATATAAAATTAATATTTGTATTTTATATGAAT
66 TATAACTGTTTATATTAATAAATTTGGTAAAATATATAAAATTAATATTTGTATTTTATATGAAT
15161512 CAAATTCAAATATT
131 CAAATTCAAATATT
15161526 AATTATATTCTTTCCAAAAGATTATTAATTTCCATGTCTTTTATATTTTGGCCAAAATTAATTAA
1 AATTATATTCTTTCCAAAAGATTATTAATTTCCATGTCTTTTATATTTTGGCCAAAATTAATTAA
15161591 TATAACTGTTTATATTAATAAATTTGGTAAAATATATAAAATTAATATTTGTATTTTATATGAAT
66 TATAACTGTTTATATTAATAAATTTGGTAAAATATATAAAATTAATATTTGTATTTTATATGAAT
15161656 CAAATTCAAATATT
131 CAAATTCAAATATT
15161670 AATTATATTCTTTCCAAAAGATTATTAATTTCCATGTCTTTTATATTTTGGCCAAAATTAATTAA
1 AATTATATTCTTTCCAAAAGATTATTAATTTCCATGTCTTTTATATTTTGGCCAAAATTAATTAA
*
15161735 TATAACTGTTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTAT
66 TATAACTGTTTATATTAATAAATTTGGTAAAATATATAAAATTAATA-TTTGTAT
15161790 GAATCAAATT
Statistics
Matches: 1075, Mismatches: 32, Indels: 21
0.95 0.03 0.02
Matches are distributed among these distances:
136 15 0.01
137 45 0.04
138 86 0.08
139 75 0.07
142 58 0.05
143 5 0.00
144 784 0.73
145 7 0.01
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.46
Consensus pattern (144 bp):
AATTATATTCTTTCCAAAAGATTATTAATTTCCATGTCTTTTATATTTTGGCCAAAATTAATTAA
TATAACTGTTTATATTAATAAATTTGGTAAAATATATAAAATTAATATTTGTATTTTATATGAAT
CAAATTCAAATATT
Found at i:15173823 original size:138 final size:137
Alignment explanation
Indices: 15173575--15174266 Score: 1003
Period size: 138 Copynumber: 5.0 Consensus size: 137
15173565 TAGAAAAATA
* * * *
15173575 AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTATTTTATATTTTGACTGAAATTAATTAA
1 AATTATATTCTTTCCAAAATAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
* * ** *
15173640 TATAGCTATTTATATTAATAAATTTATTAAAATATATACAATTAATATTTTGTATGAATCATATT
66 TATAACTGTTTATATTAATAAA-TTGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
15173705 CATATATT
130 CATATATT
** * * *
15173713 AATTATATAATTTCCAAAATAATATTAATTTCTATGTCTTTTATATTTTGATCGAAACCT-ATTA
1 AATTATATTCTTTCCAAAATAATATTAATTTCCATGTCTTTTATATTTTGACCGAAA-TTAATTA
* *
15173777 ATATAACTATTTATATTAATAAATTCGATAAAATATATACAATTAATATTTTGTATGAATCAAAT
65 ATATAACTGTTTATATTAATAAATT-GGTAAAATATATACAATTAATATTTTGTATGAATCAAAT
* *
15173842 TAATATTTT
129 TCATATATT
** * *
15173851 AATTATATTCTTT-TGAAATAATATTAATTTCCATGTCTTTTATATTTTGAACGAAATTAATGAA
1 AATTATATTCTTTCCAAAATAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
15173915 TATAACTGTTTATATTAATAAAATTGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
66 TATAACTGTTTATATTAAT-AAATTGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
* *
15173980 AAGATATT
130 CATATATT
* * * * *
15173988 AATTTTATTCTTTCCAAAAGATTATTAATTTCCAAGGC-TTTATATTTTGACCGAAATTAATTAA
1 AATTATATTCTTTCCAAAATAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
*
15174052 TATAACTGTTTATATTAATAAATTTGGTAAAATATATGCAATTAATATTTTGTATGAATCAAATT
66 TATAACTGTTTATATTAATAAA-TTGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
15174117 CATATATT
130 CATATATT
* *
15174125 AATTATATTCTTTCCAAAATAATATTAATTTCCATATGTTTTATATTTTGACCGAAATTAATTAA
1 AATTATATTCTTTCCAAAATAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
* *
15174190 TATAACTGTTTTTATTAATAAATTCGGTAAAATATATACAATTAATATATTGTATGAATCAAATT
66 TATAACTGTTTATATTAATAAATT-GGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
15174255 CATATATT
130 CATATATT
15174263 AATT
1 AATT
15174267 GTAACGACCC
Statistics
Matches: 497, Mismatches: 49, Indels: 16
0.88 0.09 0.03
Matches are distributed among these distances:
136 4 0.01
137 243 0.49
138 249 0.50
139 1 0.00
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.46
Consensus pattern (137 bp):
AATTATATTCTTTCCAAAATAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
TATAACTGTTTATATTAATAAATTGGTAAAATATATACAATTAATATTTTGTATGAATCAAATTC
ATATATT
Found at i:15173946 original size:137 final size:138
Alignment explanation
Indices: 15173575--15174266 Score: 982
Period size: 137 Copynumber: 5.0 Consensus size: 138
15173565 TAGAAAAATA
* * *
15173575 AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTATTTTATATTTTG-ACTGAAATTAATTA
1 AATTATATTCTTTCCAAAATAATATTAATTTCCATGTCTTTTATATTTTGAAC-GAAATTAATTA
* * * ** *
15173639 ATATAGCTATTTATATTAATAAATTTATTAAAATATATACAATTAATATTTTGTATGAATCATAT
65 ATATAACTGTTTATATTAATAAAATTGGTAAAATATATACAATTAATATTTTGTATGAATCAAAT
15173704 TCATATATT
130 TCATATATT
** * * *
15173713 AATTATATAATTTCCAAAATAATATTAATTTCTATGTCTTTTATATTTTGATCGAAACCT-ATTA
1 AATTATATTCTTTCCAAAATAATATTAATTTCCATGTCTTTTATATTTTGAACGAAA-TTAATTA
* *
15173777 ATATAACTATTTATATTAAT-AAATTCGATAAAATATATACAATTAATATTTTGTATGAATCAAA
65 ATATAACTGTTTATATTAATAAAATT-GGTAAAATATATACAATTAATATTTTGTATGAATCAAA
* *
15173841 TTAATATTTT
129 TTCATATATT
** *
15173851 AATTATATTCTTT-TGAAATAATATTAATTTCCATGTCTTTTATATTTTGAACGAAATTAATGAA
1 AATTATATTCTTTCCAAAATAATATTAATTTCCATGTCTTTTATATTTTGAACGAAATTAATTAA
15173915 TATAACTGTTTATATTAATAAAATTGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
66 TATAACTGTTTATATTAATAAAATTGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
* *
15173980 AAGATATT
131 CATATATT
* * * * * *
15173988 AATTTTATTCTTTCCAAAAGATTATTAATTTCCAAGGC-TTTATATTTTGACCGAAATTAATTAA
1 AATTATATTCTTTCCAAAATAATATTAATTTCCATGTCTTTTATATTTTGAACGAAATTAATTAA
* *
15174052 TATAACTGTTTATATTAATAAATTTGGTAAAATATATGCAATTAATATTTTGTATGAATCAAATT
66 TATAACTGTTTATATTAATAAAATTGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
15174117 CATATATT
131 CATATATT
* * *
15174125 AATTATATTCTTTCCAAAATAATATTAATTTCCATATGTTTTATATTTTGACCGAAATTAATTAA
1 AATTATATTCTTTCCAAAATAATATTAATTTCCATGTCTTTTATATTTTGAACGAAATTAATTAA
* *
15174190 TATAACTGTTTTTATTAAT-AAATTCGGTAAAATATATACAATTAATATATTGTATGAATCAAAT
66 TATAACTGTTTATATTAATAAAATT-GGTAAAATATATACAATTAATATTTTGTATGAATCAAAT
15174254 TCATATATT
130 TCATATATT
15174263 AATT
1 AATT
15174267 GTAACGACCC
Statistics
Matches: 495, Mismatches: 51, Indels: 16
0.88 0.09 0.03
Matches are distributed among these distances:
136 1 0.00
137 250 0.51
138 242 0.49
139 2 0.00
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.46
Consensus pattern (138 bp):
AATTATATTCTTTCCAAAATAATATTAATTTCCATGTCTTTTATATTTTGAACGAAATTAATTAA
TATAACTGTTTATATTAATAAAATTGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
CATATATT
Found at i:15174147 original size:275 final size:276
Alignment explanation
Indices: 15173575--15174266 Score: 1007
Period size: 275 Copynumber: 2.5 Consensus size: 276
15173565 TAGAAAAATA
* *
15173575 AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTATTTTATATTTTG-ACTGAAATTAATTA
1 AATTATATTCTTTCCAAAATAATATTAATTTCCATGTATTTTATATTTTGAAC-GAAATTAATTA
* * * ** *
15173639 ATATAGCTATTTATATTAATAAATTTATTAAAATATATACAATTAATATTTTGTATGAATCATAT
65 ATATAACTGTTTATATTAATAAAATTGGTAAAATATATACAATTAATATTTTGTATGAATCAAAT
* * * * *
15173704 TCATATATTAATTATATAATTTCCAAAATAATATTAATTTCTATGTCTTTTATATTTTGATCGAA
130 TCATATATTAATTATATAATTTCCAAAAGAATATTAATTTCCAAGGCTTTTATATTTTGACCGAA
15173769 ACCTATTAATATAACTATTTATATTAATAAATTCGATAAAATATATACAATTAATATTTTGTATG
195 ACCTATTAATATAACTATTTATATTAATAAATTCGATAAAATATATACAATTAATATTTTGTATG
*
15173834 AATCAAATTAATATTTT
260 AATCAAATTAATATATT
** * *
15173851 AATTATATTCTTT-TGAAATAATATTAATTTCCATGTCTTTTATATTTTGAACGAAATTAATGAA
1 AATTATATTCTTTCCAAAATAATATTAATTTCCATGTATTTTATATTTTGAACGAAATTAATTAA
15173915 TATAACTGTTTATATTAATAAAATTGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
66 TATAACTGTTTATATTAATAAAATTGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
* * * ** *
15173980 AAGATATTAATTTTATTCTTTCCAAAAGATTATTAATTTCCAAGGC-TTTATATTTTGACCGAAA
131 CATATATTAATTATATAATTTCCAAAAGAATATTAATTTCCAAGGCTTTTATATTTTGACCGAAA
* * * * *
15174044 -TTAATTAATATAACTGTTTATATTAATAAATTTGGTAAAATATATGCAATTAATATTTTGTATG
196 CCT-ATTAATATAACTATTTATATTAATAAATTCGATAAAATATATACAATTAATATTTTGTATG
*
15174108 AATCAAATTCATATATT
260 AATCAAATTAATATATT
* * *
15174125 AATTATATTCTTTCCAAAATAATATTAATTTCCATATGTTTTATATTTTGACCGAAATTAATTAA
1 AATTATATTCTTTCCAAAATAATATTAATTTCCATGTATTTTATATTTTGAACGAAATTAATTAA
* *
15174190 TATAACTGTTTTTATTAAT-AAATTCGGTAAAATATATACAATTAATATATTGTATGAATCAAAT
66 TATAACTGTTTATATTAATAAAATT-GGTAAAATATATACAATTAATATTTTGTATGAATCAAAT
15174254 TCATATATTAATT
130 TCATATATTAATT
15174267 GTAACGACCC
Statistics
Matches: 372, Mismatches: 40, Indels: 9
0.88 0.10 0.02
Matches are distributed among these distances:
273 1 0.00
274 107 0.29
275 249 0.67
276 15 0.04
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.46
Consensus pattern (276 bp):
AATTATATTCTTTCCAAAATAATATTAATTTCCATGTATTTTATATTTTGAACGAAATTAATTAA
TATAACTGTTTATATTAATAAAATTGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
CATATATTAATTATATAATTTCCAAAAGAATATTAATTTCCAAGGCTTTTATATTTTGACCGAAA
CCTATTAATATAACTATTTATATTAATAAATTCGATAAAATATATACAATTAATATTTTGTATGA
ATCAAATTAATATATT
Found at i:15174558 original size:19 final size:22
Alignment explanation
Indices: 15174516--15174563 Score: 66
Period size: 19 Copynumber: 2.3 Consensus size: 22
15174506 GATGATTACA
15174516 TATATATATATATGTTAACTTAT
1 TATATATATATATGTTAAC-TAT
15174539 TATATAT-TATATGTT-A-TAT
1 TATATATATATATGTTAACTAT
15174558 TATATA
1 TATATA
15174564 ATAATAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 9 0.36
21 1 0.04
22 8 0.32
23 7 0.28
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (22 bp):
TATATATATATATGTTAACTAT
Found at i:15179146 original size:52 final size:52
Alignment explanation
Indices: 15179068--15179172 Score: 201
Period size: 52 Copynumber: 2.0 Consensus size: 52
15179058 AAAATTTTTG
*
15179068 AGTTATGTTGATTTGACGTATAGTATTCACCTATGTGGTACACCATTGACGT
1 AGTTATGTTGATTTGACATATAGTATTCACCTATGTGGTACACCATTGACGT
15179120 AGTTATGTTGATTTGACATATAGTATTCACCTATGTGGTACACCATTGACGT
1 AGTTATGTTGATTTGACATATAGTATTCACCTATGTGGTACACCATTGACGT
15179172 A
1 A
15179173 CTAAGTCTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.38
Consensus pattern (52 bp):
AGTTATGTTGATTTGACATATAGTATTCACCTATGTGGTACACCATTGACGT
Found at i:15183960 original size:80 final size:79
Alignment explanation
Indices: 15183876--15184047 Score: 211
Period size: 79 Copynumber: 2.2 Consensus size: 79
15183866 GGACTAAGAT
* *
15183876 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCAAAGG-CATTGTGCGAGATACT
* *
15183940 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * * *
15183956 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCAAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCAAAGGCATTGTGCGAGATACTAA
*
15184021 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
15184035 CCGAAGGCATTTG
1 CCGAAGGCATTTG
15184048 AACGAGGAGC
Statistics
Matches: 78, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
79 38 0.49
80 37 0.47
81 3 0.04
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCAAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:15184027 original size:39 final size:39
Alignment explanation
Indices: 15183876--15184045 Score: 198
Period size: 40 Copynumber: 4.3 Consensus size: 39
15183866 GGACTAAGAT
* * *
15183876 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCC
1 CCGAAGGCA-TTGTGCGAGTTACTAAA-TCCGGGTTATGTC
* * *
15183916 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGG-CATTGTGCGAGTTACTAAATCCGGGTTATGTC
*
15183956 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATT-GTGCGAGTTACTAAATCCGGGTTATGTC
* * * *
15183996 CCAAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTATGTC
15184035 CCGAAGGCATT
1 CCGAAGGCATT
15184046 TGAACGAGGA
Statistics
Matches: 115, Mismatches: 12, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
39 37 0.32
40 74 0.64
41 4 0.03
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTATGTC
Found at i:15184441 original size:84 final size:85
Alignment explanation
Indices: 15184298--15184466 Score: 304
Period size: 84 Copynumber: 2.0 Consensus size: 85
15184288 TTGATATCGG
15184298 TAAATTGCGTATTATGAAATATTCCGTTTAGCTAAATGTGTGCTATTCTTTGTGCATGCTGGAAT
1 TAAATTGCGTATTATGAAATATTCCGTTTAGCTAAATGTGTGCTATTCTTTGTGCATGCTGGAAT
15184363 TCCTTGCTC-AAACTTACTA
66 TCCTTGCTCAAAACTTACTA
* **
15184382 TAAATTGCGTATTATGAAATATTCCGTTTAGCTAAATGTGTGTTATTCTTTGTTTATGCTGGAAT
1 TAAATTGCGTATTATGAAATATTCCGTTTAGCTAAATGTGTGCTATTCTTTGTGCATGCTGGAAT
15184447 TCCTTGCTCAAAACTTACTA
66 TCCTTGCTCAAAACTTACTA
15184467 AGCATAAATT
Statistics
Matches: 81, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
84 71 0.88
85 10 0.12
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.42
Consensus pattern (85 bp):
TAAATTGCGTATTATGAAATATTCCGTTTAGCTAAATGTGTGCTATTCTTTGTGCATGCTGGAAT
TCCTTGCTCAAAACTTACTA
Found at i:15187885 original size:9 final size:9
Alignment explanation
Indices: 15187873--15187897 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
15187863 CTCTTTTTGG
15187873 CCACCACAA
1 CCACCACAA
15187882 CCACCACAA
1 CCACCACAA
15187891 CCACCAC
1 CCACCAC
15187898 CCTCTTCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.40, C:0.60, G:0.00, T:0.00
Consensus pattern (9 bp):
CCACCACAA
Found at i:15191748 original size:48 final size:48
Alignment explanation
Indices: 15191677--15192091 Score: 392
Period size: 48 Copynumber: 8.6 Consensus size: 48
15191667 TGTGCTAGCA
15191677 TAAGACCATGTCTGGGACATGGCATCGACCACATTATGAGAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGACCACATTATGAGAGCCAGTG
***** * * * *
15191725 TAAGACCATGTCTGGGACATGGCATCGGTGTTGA-TATGTGTGCTATTG
1 TAAGACCATGTCTGGGACATGGCATC-GACCACATTATGAGAGCCAGTG
* *
15191773 TAAGACCATGTTTGGGACATGGCATCGGCCACATTATGAGAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGACCACATTATGAGAGCCAGTG
*** * * *
15191821 TAAGACCATGTCTGGGACATGGCATCGACGTTGA-TATGTGTGCTAGTG
1 TAAGACCATGTCTGGGACATGGCATCGAC-CACATTATGAGAGCCAGTG
* *
15191869 TAAGACCATGTCTGGGACATGGCCTCGGCCACATTATGAGAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGACCACATTATGAGAGCCAGTG
* * * * *
15191917 TAAGACCATGTCTGGGATATGGCATCGGCCTCAATATGTGAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGACCACATTATGAGAGCCAGTG
* * * * * **
15191965 TAAGACCATGTTTGGAACATGGCATC-A--ACATTGTTTTATGTGTTAGTG
1 TAAGACCATGTCTGGGACATGGCATCGACCACA-T-TATGA-GAGCCAGTG
* * * *
15192013 TAAGACCATGTCTAGGACATGTCATCAGCACC-GATGTATGAGAGCTAGTG
1 TAAGACCATGTCTGGGACATGGCATC-G-ACCACAT-TATGAGAGCCAGTG
*
15192063 TAAGACCATGTCCGGGACATGGCATCGAC
1 TAAGACCATGTCTGGGACATGGCATCGAC
15192092 ATTTTACCCT
Statistics
Matches: 291, Mismatches: 64, Indels: 24
0.77 0.17 0.06
Matches are distributed among these distances:
45 2 0.01
47 5 0.02
48 243 0.84
49 4 0.01
50 30 0.10
51 6 0.02
52 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (48 bp):
TAAGACCATGTCTGGGACATGGCATCGACCACATTATGAGAGCCAGTG
Found at i:15191822 original size:96 final size:96
Alignment explanation
Indices: 15191658--15191990 Score: 522
Period size: 96 Copynumber: 3.5 Consensus size: 96
15191648 AAGACATTTG
** *
15191658 GTTGATATGTGTGCTAGCATAAGACCATGTCTGGGACATGGCATCGACCACATTATGAGAGCCAG
1 GTTGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAG
*
15191723 TGTAAGACCATGTCTGGGACATGGCATCGGT
66 TGTAAGACCATGTCTGGGACATGGCATCGGC
* *
15191754 GTTGATATGTGTGCTATTGTAAGACCATGTTTGGGACATGGCATCGGCCACATTATGAGAGCCAG
1 GTTGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAG
*
15191819 TGTAAGACCATGTCTGGGACATGGCATCGAC
66 TGTAAGACCATGTCTGGGACATGGCATCGGC
*
15191850 GTTGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCCTCGGCCACATTATGAGAGCCAG
1 GTTGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAG
*
15191915 TGTAAGACCATGTCTGGGATATGGCATCGGC
66 TGTAAGACCATGTCTGGGACATGGCATCGGC
* ** * * * *
15191946 CTCAATATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATC
1 GTTGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATC
15191991 AACATTGTTT
Statistics
Matches: 217, Mismatches: 20, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
96 217 1.00
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (96 bp):
GTTGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAG
TGTAAGACCATGTCTGGGACATGGCATCGGC
Found at i:15191939 original size:144 final size:142
Alignment explanation
Indices: 15191677--15192089 Score: 468
Period size: 144 Copynumber: 2.9 Consensus size: 142
15191667 TGTGCTAGCA
*** * * *
15191677 TAAGACCATGTCTGGGACATGGCATCGACCACATTATGAGAGCCAGTGTAAGACCATGTCTGGGA
1 TAAGACCATGTCTGGGACATGGCATCGACTTGA-TATGTGTGCTAGTGTAAGACCATGTCTGGGA
*** * * * *
15191742 CATGGCATCGG-TGTTGATATGTGTGCTATTGTAAGACCATGTTTGGGACATGGCATCGGCCACA
65 CATGGCATCGGCACAT--TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACA
*
15191806 TTATGAGAGCCAGTG
128 ATATGAGAGCCAGTG
15191821 TAAGACCATGTCTGGGACATGGCATCGACGTTGATATGTGTGCTAGTGTAAGACCATGTCTGGGA
1 TAAGACCATGTCTGGGACATGGCATCGAC-TTGATATGTGTGCTAGTGTAAGACCATGTCTGGGA
* * * *
15191886 CATGGCCTCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGGGATATGGCATCGGCCTCAA
65 CATGGCATCGG-CACATTATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACAA
*
15191951 TATGTGAGCCAGTG
129 TATGAGAGCCAGTG
* * * * * * * *
15191965 TAAGACCATGTTTGGAACATGGCATCAACATTGTTTTATGTGTTAGTGTAAGACCATGTCTAGGA
1 TAAGACCATGTCTGGGACATGGCATCGAC-TTGATATGTGTGCTAGTGTAAGACCATGTCTGGGA
* * *
15192030 CATGTCATCAGCACCGATGTATGAGAGCTAGTGTAAGACCATGTCCGGGACATGGCATCG
65 CATGGCATCGGCA-C-AT-TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCG
15192090 ACATTTTACC
Statistics
Matches: 229, Mismatches: 34, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
143 2 0.01
144 185 0.81
145 3 0.01
146 39 0.17
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (142 bp):
TAAGACCATGTCTGGGACATGGCATCGACTTGATATGTGTGCTAGTGTAAGACCATGTCTGGGAC
ATGGCATCGGCACATTATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACAATA
TGAGAGCCAGTG
Found at i:15192013 original size:96 final size:94
Alignment explanation
Indices: 15191662--15192087 Score: 442
Period size: 96 Copynumber: 4.4 Consensus size: 94
15191652 CATTTGGTTG
* **
15191662 ATATGTGTGCTAGCATAAGACCATGTCTGGGACATGGCATCGACCACATTATGAGAGCCAGTGTA
1 ATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCAT-G-CCACATTATGAGAGCCAGTGTA
** **
15191727 AGACCATGTCTGGGACATGGCATCGGTGTTG
64 AGACCATGTCTGGGACATGGCATCGGCCTCA
* * *
15191758 ATATGTGTGCTATTGTAAGACCATGTTTGGGACATGGCATCGGCCACATTATGAGAGCCAGTGTA
1 ATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCAT--GCCACATTATGAGAGCCAGTGTA
* * **
15191823 AGACCATGTCTGGGACATGGCATCGACGTTG
64 AGACCATGTCTGGGACATGGCATCGGCCTCA
* *
15191854 ATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCCTCGGCCACATTATGAGAGCCAGTGTA
1 ATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCAT--GCCACATTATGAGAGCCAGTGTA
*
15191919 AGACCATGTCTGGGATATGGCATCGGCCTCA
64 AGACCATGTCTGGGACATGGCATCGGCCTCA
* * * * * * * **
15191950 ATATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCAT-CAACATTGTTTTATGTGTTAGTGT
1 ATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATGCCACA-T-TATGA-GAGCCAGTGT
* * *
15192014 AAGACCATGTCTAGGACATGTCATCAGCAC-CGA
63 AAGACCATGTCTGGGACATGGCATCGGC-CTC-A
* * *
15192047 TGTATGAGAGCTAGTGTAAGACCATGTCCGGGACATGGCAT
1 -ATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCAT
15192088 CGACATTTTA
Statistics
Matches: 287, Mismatches: 36, Indels: 12
0.86 0.11 0.04
Matches are distributed among these distances:
93 4 0.01
94 1 0.00
95 3 0.01
96 242 0.84
97 3 0.01
98 34 0.12
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (94 bp):
ATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATGCCACATTATGAGAGCCAGTGTAAG
ACCATGTCTGGGACATGGCATCGGCCTCA
Found at i:15192083 original size:98 final size:96
Alignment explanation
Indices: 15191913--15192094 Score: 231
Period size: 98 Copynumber: 1.9 Consensus size: 96
15191903 TATGAGAGCC
* * * * **
15191913 AGTGTAAGACCATGTCTGGGATATGGCATCGGCCTCAATATGTGAGCCAGTGTAAGACCATGTTT
1 AGTGTAAGACCATGTCTAGGACATGGCATCAGCCTCAATATGAGAGCCAGTGTAAGACCATGTCC
15191978 GGAACATGGCATCAACATTGTTTTATGTGTT
66 GGAACATGGCATCAACATTGTTTTATGTGTT
* * *
15192009 AGTGTAAGACCATGTCTAGGACATGTCATCAGCAC-CGATGTATGAGAGCTAGTGTAAGACCATG
1 AGTGTAAGACCATGTCTAGGACATGGCATCAGC-CTC-A-ATATGAGAGCCAGTGTAAGACCATG
* *
15192073 TCCGGGACATGGCATCGACATT
63 TCCGGAACATGGCATCAACATT
15192095 TTACCCTTTT
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
96 30 0.42
97 2 0.03
98 40 0.56
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.27
Consensus pattern (96 bp):
AGTGTAAGACCATGTCTAGGACATGGCATCAGCCTCAATATGAGAGCCAGTGTAAGACCATGTCC
GGAACATGGCATCAACATTGTTTTATGTGTT
Found at i:15194428 original size:18 final size:18
Alignment explanation
Indices: 15194407--15194442 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
15194397 ATCTTAGGTT
15194407 TATTTGCACTTTTAGCCC
1 TATTTGCACTTTTAGCCC
15194425 TATTTGCACTTTTAGCCC
1 TATTTGCACTTTTAGCCC
15194443 ATCTCTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.28, G:0.11, T:0.44
Consensus pattern (18 bp):
TATTTGCACTTTTAGCCC
Found at i:15197089 original size:33 final size:32
Alignment explanation
Indices: 15197040--15197103 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
15197030 CTCGCTGCAA
* *
15197040 TCTGGTGGCTTCGCCACACATATATATATCTGT
1 TCTGGTGGCCTAGCCACA-ATATATATATCTGT
* *
15197073 TCTGGTGGCCTAGCCACAATATCTGTATCTG
1 TCTGGTGGCCTAGCCACAATATATATATCTG
15197104 GTGACTTTGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.34
Consensus pattern (32 bp):
TCTGGTGGCCTAGCCACAATATATATATCTGT
Found at i:15197117 original size:27 final size:26
Alignment explanation
Indices: 15197065--15197124 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
15197055 ACACATATAT
*
15197065 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
15197091 ATATCTGTATCTGGTGACTTTGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
15197118 ATATCTG
1 ATATCTG
15197125 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.37
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:15197505 original size:64 final size:64
Alignment explanation
Indices: 15197409--15197530 Score: 199
Period size: 64 Copynumber: 1.9 Consensus size: 64
15197399 TTCATCTCTC
* * * *
15197409 CAGGAAATCCCCAACCATTGTGGGCTTTGAGCTGTGAGGGATTCGAAGTGGCCACATCTCTTTG
1 CAGGAAATCCCCAACCATCGTGGGCTTGGAGCTGTAAAGGATTCGAAGTGGCCACATCTCTTTG
*
15197473 CAGGAAATCCCCAACCATCGTGGGCTTGGAGCTGTAAAGGATTCGGAGTGGCCACATC
1 CAGGAAATCCCCAACCATCGTGGGCTTGGAGCTGTAAAGGATTCGAAGTGGCCACATC
15197531 ATCTGCAAAG
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 53 1.00
ACGTcount: A:0.24, C:0.25, G:0.29, T:0.23
Consensus pattern (64 bp):
CAGGAAATCCCCAACCATCGTGGGCTTGGAGCTGTAAAGGATTCGAAGTGGCCACATCTCTTTG
Found at i:15211430 original size:21 final size:21
Alignment explanation
Indices: 15211406--15211473 Score: 66
Period size: 22 Copynumber: 3.1 Consensus size: 21
15211396 AGCACGAGCA
*
15211406 TGTCCCAGGGTCACACGGGCG
1 TGTCCCAGGGCCACACGGGCG
*
15211427 TGTCCCTTA-GGCCACACGGGTG
1 TGTCCC--AGGGCCACACGGGCG
**
15211449 TGTCCTTTGGGCCACACGGGCG
1 TGTCC-CAGGGCCACACGGGCG
15211471 TGT
1 TGT
15211474 GACCCTGTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
21 6 0.16
22 31 0.82
23 1 0.03
ACGTcount: A:0.12, C:0.31, G:0.35, T:0.22
Consensus pattern (21 bp):
TGTCCCAGGGCCACACGGGCG
Found at i:15211444 original size:22 final size:22
Alignment explanation
Indices: 15211417--15211473 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 22
15211407 GTCCCAGGGT
15211417 CACACGGGCGTGTCCCTTAGGC
1 CACACGGGCGTGTCCCTTAGGC
* * *
15211439 CACACGGGTGTGTCCTTTGGGC
1 CACACGGGCGTGTCCCTTAGGC
15211461 CACACGGGCGTGT
1 CACACGGGCGTGT
15211474 GACCCTGTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.12, C:0.32, G:0.35, T:0.21
Consensus pattern (22 bp):
CACACGGGCGTGTCCCTTAGGC
Found at i:15215325 original size:57 final size:57
Alignment explanation
Indices: 15215252--15215361 Score: 211
Period size: 57 Copynumber: 1.9 Consensus size: 57
15215242 ACAGAGATTC
15215252 AAAGAAACGAAGTAAGCATTTAATGCTTAGTAAGTTTGAGCCATAAAATTAGAATTA
1 AAAGAAACGAAGTAAGCATTTAATGCTTAGTAAGTTTGAGCCATAAAATTAGAATTA
*
15215309 AAAGAAACGGAGTAAGCATTTAATGCTTAGTAAGTTTGAGCCATAAAATTAGA
1 AAAGAAACGAAGTAAGCATTTAATGCTTAGTAAGTTTGAGCCATAAAATTAGA
15215362 CACAACTACA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 52 1.00
ACGTcount: A:0.45, C:0.09, G:0.19, T:0.27
Consensus pattern (57 bp):
AAAGAAACGAAGTAAGCATTTAATGCTTAGTAAGTTTGAGCCATAAAATTAGAATTA
Found at i:15215720 original size:129 final size:130
Alignment explanation
Indices: 15215490--15215748 Score: 466
Period size: 129 Copynumber: 2.0 Consensus size: 130
15215480 CCAAAGGCCG
15215490 GTAGCTCATTTATCGACTGAGCGAATACTATTTGTAAGGGATCAACTAATTCAATGCATATACGA
1 GTAGCTCATTTATCGACTGAGCGAATACTATTTGTAAGGGATCAACTAATTCAATGCATATACGA
**
15215555 AACATACCTCATCGCTGGGATTTTATTAGCATATTAATTGAAACTATT-CAACAAGGTCGCTCAT
66 AACATACCTCATCGCTGGGATTTTACGAGCATATTAATTGAAACTATTACAACAAGGTCGCTCAT
15215619 GTAGCTCATTTATCGACTGAGCGAATACTATTTGTAAGGGATCAACTAATTCAATGCATATACGA
1 GTAGCTCATTTATCGACTGAGCGAATACTATTTGTAAGGGATCAACTAATTCAATGCATATACGA
* * *
15215684 GACATACCTCATCGCTGGGATTTTACGAGCGTATTAATTGAAACTATTACAGCAAGGTCGCTCAT
66 AACATACCTCATCGCTGGGATTTTACGAGCATATTAATTGAAACTATTACAACAAGGTCGCTCAT
15215749 TCCCAAGCCA
Statistics
Matches: 124, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
129 109 0.88
130 15 0.12
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (130 bp):
GTAGCTCATTTATCGACTGAGCGAATACTATTTGTAAGGGATCAACTAATTCAATGCATATACGA
AACATACCTCATCGCTGGGATTTTACGAGCATATTAATTGAAACTATTACAACAAGGTCGCTCAT
Found at i:15215825 original size:40 final size:40
Alignment explanation
Indices: 15215763--15215940 Score: 209
Period size: 40 Copynumber: 4.5 Consensus size: 40
15215753 AAGCCAAGTA
* * * * *
15215763 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCCCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
15215802 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
15215842 CCTTTGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
15215882 CCTTCGGGACTTAGCCC-GAAACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
15215922 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
15215941 TTATCATCCA
Statistics
Matches: 121, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
39 15 0.12
40 105 0.87
41 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:15224367 original size:46 final size:46
Alignment explanation
Indices: 15224300--15224471 Score: 197
Period size: 46 Copynumber: 3.7 Consensus size: 46
15224290 AACCCGCCCC
* *
15224300 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCCA
* *
15224346 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTCACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C-ATTCGCATCCA
* * **
15224394 TCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCCA
* *
15224439 TAGGTGAACTTGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
15224472 ATGCTCAACC
Statistics
Matches: 104, Mismatches: 15, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 1 0.01
46 58 0.56
47 27 0.26
48 3 0.03
49 2 0.02
50 5 0.05
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCCA
Found at i:15224412 original size:93 final size:93
Alignment explanation
Indices: 15224305--15224475 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
15224295 GCCCCTAAGT
** *
15224305 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
15224370 CGAGTTCGGATGCCTAGTCACATCTCAC
66 CGAGTTCGGATGCCTAGTCACATCTCAC
* * *
15224398 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAGGTGAACTTGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
15224463 CGAGTTCGGATGC
66 CGAGTTCGGATGC
15224476 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTCACATCTCAC
Found at i:15227045 original size:20 final size:20
Alignment explanation
Indices: 15227016--15227060 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
15227006 AGCACATATA
* *
15227016 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
*
15227036 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
15227056 TTCAT
1 TTCAT
15227061 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:15228799 original size:48 final size:48
Alignment explanation
Indices: 15228718--15228903 Score: 241
Period size: 48 Copynumber: 3.9 Consensus size: 48
15228708 ACTCGACAGT
* * *
15228718 CTCGCACCCTAAGTGCCAATATCATGGCTCGAAGCGAAATCAATAAAG
1 CTCGCACCCGAAGTGCCAATATCATGGCCCGAAGCCAAATCAATAAAG
* *
15228766 CTTGCACCCGAAGTGCCAATATCGA-GGCCCGAAGCCAAATCAATGTAA-
1 CTCGCACCCGAAGTGCCAATATC-ATGGCCCGAAGCCAAATCAAT-AAAG
* * *
15228814 CTCGCACCTGAAGTGCCAATATCATGGCCTGAAGCCAAATCAATGAAG
1 CTCGCACCCGAAGTGCCAATATCATGGCCCGAAGCCAAATCAATAAAG
* * *
15228862 CTCGCACCCGAAGTACCGATATCATGGCCCGAACCCAAATCA
1 CTCGCACCCGAAGTGCCAATATCATGGCCCGAAGCCAAATCA
15228904 GTGAATTCCC
Statistics
Matches: 120, Mismatches: 14, Indels: 8
0.85 0.10 0.06
Matches are distributed among these distances:
47 3 0.03
48 114 0.95
49 3 0.03
ACGTcount: A:0.33, C:0.30, G:0.19, T:0.17
Consensus pattern (48 bp):
CTCGCACCCGAAGTGCCAATATCATGGCCCGAAGCCAAATCAATAAAG
Found at i:15228884 original size:96 final size:96
Alignment explanation
Indices: 15228718--15228903 Score: 270
Period size: 96 Copynumber: 1.9 Consensus size: 96
15228708 ACTCGACAGT
* * *
15228718 CTCGCACCCTAAGTGCCAATATCATGGCTCGAAGCGAAATCAATAAAGCTTGCACCCGAAGTGCC
1 CTCGCACCCTAAGTGCCAATATCATGGCTCGAAGCCAAATCAATAAAGCTCGCACCCGAAGTACC
*
15228783 AATATCGA-GGCCCGAAGCCAAATCAATGTAA
66 AATATC-ATGGCCCGAACCCAAATCAATGTAA
*
15228814 CTCGCA-CCTGAAGTGCCAATATCATGGC-CTGAAGCCAAATCAATGAAGCTCGCACCCGAAGTA
1 CTCGCACCCT-AAGTGCCAATATCATGGCTC-GAAGCCAAATCAATAAAGCTCGCACCCGAAGTA
*
15228877 CCGATATCATGGCCCGAACCCAAATCA
64 CCAATATCATGGCCCGAACCCAAATCA
15228904 GTGAATTCCC
Statistics
Matches: 81, Mismatches: 6, Indels: 6
0.87 0.06 0.06
Matches are distributed among these distances:
95 5 0.06
96 76 0.94
ACGTcount: A:0.33, C:0.30, G:0.19, T:0.17
Consensus pattern (96 bp):
CTCGCACCCTAAGTGCCAATATCATGGCTCGAAGCCAAATCAATAAAGCTCGCACCCGAAGTACC
AATATCATGGCCCGAACCCAAATCAATGTAA
Found at i:15230973 original size:13 final size:13
Alignment explanation
Indices: 15230955--15230983 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
15230945 TTTTCAAAGT
15230955 TGTGAACAGGCCG
1 TGTGAACAGGCCG
15230968 TGTGAACAGGCCG
1 TGTGAACAGGCCG
15230981 TGT
1 TGT
15230984 CAAAACAGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.21, C:0.21, G:0.38, T:0.21
Consensus pattern (13 bp):
TGTGAACAGGCCG
Found at i:15231082 original size:66 final size:66
Alignment explanation
Indices: 15230974--15231099 Score: 166
Period size: 66 Copynumber: 1.9 Consensus size: 66
15230964 GCCGTGTGAA
* *
15230974 CAGGCCGTGTCAAAACAGGGCATACATACTGACTTGTCCACACATCCACAAGACACGCCCATGTG
1 CAGGCCGTGTCAAAACAGGGCAGACATACTGACTTGTCCACACAGCCACAAGACACGCCCATGTG
15231039 C
66 C
* * * *
15231040 CAGGCCGTGTGAAAATTAGGG-AGAC-TACTGACTTGGTTCACACGGCCACAAGACACGCCC
1 CAGGCCGTGTCAAAA-CAGGGCAGACATACTGACTT-GTCCACACAGCCACAAGACACGCCC
15231100 GCGTGTCTAG
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
65 9 0.17
66 39 0.75
67 4 0.08
ACGTcount: A:0.29, C:0.31, G:0.23, T:0.17
Consensus pattern (66 bp):
CAGGCCGTGTCAAAACAGGGCAGACATACTGACTTGTCCACACAGCCACAAGACACGCCCATGTG
C
Found at i:15232280 original size:42 final size:43
Alignment explanation
Indices: 15232184--15232322 Score: 137
Period size: 43 Copynumber: 3.3 Consensus size: 43
15232174 TGCCTCAAAC
*
15232184 GTGGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGAA
1 GTGGTCTTACATGAAATCAAATATCGATGCCACTGTCCCAGAA
** *
15232227 AAGGTCTTACATGAAATCAAATA-CGATGCCAAC-GTCCCAGAG
1 GTGGTCTTACATGAAATCAAATATCGATGCC-ACTGTCCCAGAA
* *
15232269 GTGGTCCTACATATAAATCAGAAGT-T-GATGCCAC-GTCCCA-AA
1 GTGGTCTTACAT-GAAATCA-AA-TATCGATGCCACTGTCCCAGAA
15232311 CGTGGTCTTACA
1 -GTGGTCTTACA
15232323 CGATAACACA
Statistics
Matches: 80, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
42 25 0.31
43 46 0.57
44 8 0.10
45 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.24
Consensus pattern (43 bp):
GTGGTCTTACATGAAATCAAATATCGATGCCACTGTCCCAGAA
Found at i:15238288 original size:13 final size:13
Alignment explanation
Indices: 15238270--15238296 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
15238260 GCTCAGCAGG
15238270 GACACGCCCGTGT
1 GACACGCCCGTGT
15238283 GACACGCCCGTGT
1 GACACGCCCGTGT
15238296 G
1 G
15238297 CGATTACTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:15240740 original size:48 final size:48
Alignment explanation
Indices: 15240664--15240841 Score: 277
Period size: 48 Copynumber: 3.7 Consensus size: 48
15240654 GTACCCTAAC
*
15240664 TGCCAATATCATGGCCCAAAGCCAAATCAATGAAGCTCGCACCCGAAG
1 TGCCAATATCATGGCCCGAAGCCAAATCAATGAAGCTCGCACCCGAAG
* *
15240712 TGCCGATATCATAGCCCGAAGCCAAATCAATGTAA-CTCGCACCCGAAG
1 TGCCAATATCATGGCCCGAAGCCAAATCAATG-AAGCTCGCACCCGAAG
* * *
15240760 TACCAATATCATGGCTCGAAGCCAAATCAATGAAGCCCGCACCCGAAG
1 TGCCAATATCATGGCCCGAAGCCAAATCAATGAAGCTCGCACCCGAAG
*
15240808 TGCCGATATCATGGCCCGAAGCCAAATCAATGAA
1 TGCCAATATCATGGCCCGAAGCCAAATCAATGAA
15240842 TTCCTTAATG
Statistics
Matches: 117, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
47 2 0.02
48 113 0.97
49 2 0.02
ACGTcount: A:0.35, C:0.30, G:0.19, T:0.16
Consensus pattern (48 bp):
TGCCAATATCATGGCCCGAAGCCAAATCAATGAAGCTCGCACCCGAAG
Found at i:15240830 original size:96 final size:96
Alignment explanation
Indices: 15240666--15240839 Score: 312
Period size: 96 Copynumber: 1.8 Consensus size: 96
15240656 ACCCTAACTG
*
15240666 CCAATATCATGGCCCAAAGCCAAATCAATGAAGCTCGCACCCGAAGTGCCGATATCATAGCCCGA
1 CCAATATCATGGCCCAAAGCCAAATCAATGAAGCCCGCACCCGAAGTGCCGATATCATAGCCCGA
15240731 AGCCAAATCAATGTAACTCGCACCCGAAGTA
66 AGCCAAATCAATGTAACTCGCACCCGAAGTA
* * *
15240762 CCAATATCATGGCTCGAAGCCAAATCAATGAAGCCCGCACCCGAAGTGCCGATATCATGGCCCGA
1 CCAATATCATGGCCCAAAGCCAAATCAATGAAGCCCGCACCCGAAGTGCCGATATCATAGCCCGA
15240827 AGCCAAATCAATG
66 AGCCAAATCAATG
15240840 AATTCCTTAA
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
96 74 1.00
ACGTcount: A:0.34, C:0.31, G:0.19, T:0.16
Consensus pattern (96 bp):
CCAATATCATGGCCCAAAGCCAAATCAATGAAGCCCGCACCCGAAGTGCCGATATCATAGCCCGA
AGCCAAATCAATGTAACTCGCACCCGAAGTA
Found at i:15253247 original size:50 final size:49
Alignment explanation
Indices: 15253193--15253469 Score: 257
Period size: 50 Copynumber: 5.5 Consensus size: 49
15253183 TGAGAACACA
* * *
15253193 TGTGTAGTACTAAGTGCAGGCTACTATGTGTATTAGATGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGAT-AGGTCACG
* * ***
15253243 TGTGTAGTACTAAGTGCAGGCTACTACGTGTAGCGGATCGATAGGTCGTA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAT-GATAGGTCACG
* * * * * * * *
15253293 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGA--TAGGTCACG
* ** * * *
15253344 TGTGTAATACTAAGTGCAGGCTGTTACATGTATCAGATGGATAAGTCATG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAT-GATAGGTCACG
* ** * *
15253394 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCACTTTGATAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCA-GATGATAGGTCACG
15253444 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
15253470 TGCGTACCAG
Statistics
Matches: 178, Mismatches: 44, Indels: 10
0.77 0.19 0.04
Matches are distributed among these distances:
49 1 0.01
50 140 0.79
51 36 0.20
52 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGATAGGTCACG
Found at i:15253398 original size:101 final size:101
Alignment explanation
Indices: 15253238--15253419 Score: 274
Period size: 101 Copynumber: 1.8 Consensus size: 101
15253228 GATGGTGAGG
* * * * *
15253238 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAGCGGATCGATAGGTCGTATGTGTAGTAC
1 TCACGTGTGTAATACTAAGTGCAGGCTACTACATGTAGCAGATCGATAAGTCATATGTGTAGTAC
15253303 TAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGA
66 TAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGA
** * * *
15253339 TCACGTGTGTAATACTAAGTGCAGGCTGTTACATGTATCAGATGGATAAGTCATGTGTGTAGTAC
1 TCACGTGTGTAATACTAAGTGCAGGCTACTACATGTAGCAGATCGATAAGTCATATGTGTAGTAC
15253404 TAAGTGCAGGCTACTA
66 TAAGTGCAGGCTACTA
15253420 CGTGTACCAC
Statistics
Matches: 71, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
101 71 1.00
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.30
Consensus pattern (101 bp):
TCACGTGTGTAATACTAAGTGCAGGCTACTACATGTAGCAGATCGATAAGTCATATGTGTAGTAC
TAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGA
Found at i:15253467 original size:151 final size:151
Alignment explanation
Indices: 15253193--15253477 Score: 428
Period size: 151 Copynumber: 1.9 Consensus size: 151
15253183 TGAGAACACA
* ** * *
15253193 TGTGTAGTACTAAGTGCAGGCTACTATGTGTATTAGATGGTGAGGTCACGTGTGTAGTACTAAGT
1 TGTGTAATACTAAGTGCAGGCTACTACATGTATCAGATGGTGAAGTCACGTGTGTAGTACTAAGT
* ** *
15253258 GCAGGCTACTACGTGTAGCGGATCGATAGGTCGTATGTGTAGTACTAAGTGCAGGCTACTATGCG
66 GCAGGCTACTACGTGTACCACATCGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCG
15253323 TACCCGTTAACTTCGATCACG
131 TACCCGTTAACTTCGATCACG
** *
15253344 TGTGTAATACTAAGTGCAGGCTGTTACATGTATCAGATGGAT-AAGTCATGTGTGTAGTACTAAG
1 TGTGTAATACTAAGTGCAGGCTACTACATGTATCAGATGG-TGAAGTCACGTGTGTAGTACTAAG
* *
15253408 TGCAGGCTACTACGTGTACCACTTTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGC
65 TGCAGGCTACTACGTGTACCACATCGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGC
15253473 GTACC
130 GTACC
15253478 AGAGAGCTTC
Statistics
Matches: 119, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
151 118 0.99
152 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (151 bp):
TGTGTAATACTAAGTGCAGGCTACTACATGTATCAGATGGTGAAGTCACGTGTGTAGTACTAAGT
GCAGGCTACTACGTGTACCACATCGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCG
TACCCGTTAACTTCGATCACG
Found at i:15254166 original size:39 final size:39
Alignment explanation
Indices: 15254123--15254198 Score: 125
Period size: 39 Copynumber: 1.9 Consensus size: 39
15254113 GAATAAACTA
*
15254123 TACTAATTGACTAAACAAAAAATTCTAAAATTTTTATTG
1 TACTAATTGACTAAACAAAAAATTCTAAAAATTTTATTG
* *
15254162 TACTAATTGACTGAACCAAAAATTCTAAAAATTTTAT
1 TACTAATTGACTAAACAAAAAATTCTAAAAATTTTAT
15254199 GATAAGAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.46, C:0.12, G:0.05, T:0.37
Consensus pattern (39 bp):
TACTAATTGACTAAACAAAAAATTCTAAAAATTTTATTG
Found at i:15261023 original size:101 final size:101
Alignment explanation
Indices: 15260895--15261079 Score: 316
Period size: 101 Copynumber: 1.8 Consensus size: 101
15260885 GATGGTTAGG
* * *
15260895 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAGCGGATCGATAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATCGATAGATCGCATGTGTAGTAC
15260960 AAAGTGCAGGCTACTATGCGTACTCGTTAACCTCGA
66 AAAGTGCAGGCTACTATGCGTACTCGTTAACCTCGA
* *
15260996 TCACGTGTGTAGTACTAAGTTCAGGCTACTACGTGTACCAGATTGATAGATCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATCGATAGATCGCATGTGTAGTAC
*
15261061 TAAGTGCAGGCTACTATGC
66 AAAGTGCAGGCTACTATGC
15261080 ATACCAGAGA
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
101 78 1.00
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.28
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATCGATAGATCGCATGTGTAGTAC
AAAGTGCAGGCTACTATGCGTACTCGTTAACCTCGA
Found at i:15261087 original size:50 final size:50
Alignment explanation
Indices: 15260846--15261076 Score: 250
Period size: 50 Copynumber: 4.6 Consensus size: 50
15260836 GTTGTGAAAA
** * * *
15260846 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGAT
* * * * *
15260896 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAGCGGATCGATAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGAT
* * * * * *
15260946 CGCATGTGTAGTACAAAGTGCAGGCTACTATGCGTACTC-G-TTAACCTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CAGATTGA--TAGAT
* *
15260997 CACGTGTGTAGTACTAAGTTCAGGCTACTACGTGTACCAGATTGATAGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGAT
*
15261047 CGCATGTGTAGTACTAAGTGCAGGCTACTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTA
15261077 TGCATACCAG
Statistics
Matches: 149, Mismatches: 27, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
49 2 0.01
50 108 0.72
51 36 0.24
52 3 0.02
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.29
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGAT
Found at i:15261901 original size:180 final size:180
Alignment explanation
Indices: 15261643--15261997 Score: 480
Period size: 180 Copynumber: 2.0 Consensus size: 180
15261633 CATCCGAGAT
* * * *
15261643 CTGTACCATGAGATAAATAATTTTTAATGAAGAAATATTGGAACTATCGGACAGTGAAACAGGTG
1 CTGTACCATGAGATAAATAATTTTTAATGAAGAAAGATCGGAACTATCGGAAAGTGAAACAGGGG
* * ** *
15261708 TATCTTTAATGAATAAACTGTACTAACTGGCTAAAC-AAAAAATTATGAAAATTTTATGATATGA
66 TAACTTTAATGAATAAACTGTACCAACTGAATAAACAAAAAAATT-TGAAAATTTTATGATAAGA
* *
15261772 ATATATGTGAGTCTAGTTT-TTGTGAAAATTAGCGGTTCTTAATTTGGAGTC
130 ATATATGTGAGTCTAGTTTCTTG-GAAAATTAACGGATCTTAATTTGGAGTC
* * * * * * *
15261823 CTGTACCATGAGATAAATAATTTTTAGTGAATAGAGGTCGGAACTGTTGGAAAGTGAAATAGGGG
1 CTGTACCATGAGATAAATAATTTTTAATGAAGAAAGATCGGAACTATCGGAAAGTGAAACAGGGG
* * * *
15261888 TAACTTTAATGAATAAACTGTACCAATTGAATAAACAAAAAAATTTTAAATTTTTATGGTAAGAA
66 TAACTTTAATGAATAAACTGTACCAACTGAATAAACAAAAAAATTTGAAAATTTTATGATAAGAA
15261953 TATATGTGAGTCTAGTTTCTTGGAAAATTAACGGATCTTAATTTG
131 TATATGTGAGTCTAGTTTCTTGGAAAATTAACGGATCTTAATTTG
15261998 AAGTTCCATA
Statistics
Matches: 151, Mismatches: 22, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
180 140 0.93
181 11 0.07
ACGTcount: A:0.38, C:0.09, G:0.19, T:0.34
Consensus pattern (180 bp):
CTGTACCATGAGATAAATAATTTTTAATGAAGAAAGATCGGAACTATCGGAAAGTGAAACAGGGG
TAACTTTAATGAATAAACTGTACCAACTGAATAAACAAAAAAATTTGAAAATTTTATGATAAGAA
TATATGTGAGTCTAGTTTCTTGGAAAATTAACGGATCTTAATTTGGAGTC
Found at i:15267621 original size:79 final size:80
Alignment explanation
Indices: 15267452--15267634 Score: 228
Period size: 80 Copynumber: 2.3 Consensus size: 80
15267442 CTCCCCGTTG
* * ** * *
15267452 AATACAGAGACGCCCAAATCATCTTGAATTAGCCTTGATGAAGATCAGATCTACTAATGTCTTCG
1 AATACAGAGATGCCCAAATCATCTTGAATTAGCCTCGACAAAGATCAGATCTACTAATATCTTCA
*
15267517 ATTTGCTCTCTGTCC
66 ATTTGCTCTCTGTCA
* * * * *
15267532 ATTACAGAGATGCCCAAATTATCTTGGATTTGCCTCGACAAAGATCAGATCTGCT-ATATCTTCA
1 AATACAGAGATGCCCAAATCATCTTGAATTAGCCTCGACAAAGATCAGATCTACTAATATCTTCA
15267596 ATTTGCT-TCCTGTCA
66 ATTTGCTCT-CTGTCA
15267611 AATACAGAGATG-CCAAATCATCTT
1 AATACAGAGATGCCCAAATCATCTT
15267635 CTTGGTTTTG
Statistics
Matches: 88, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
78 12 0.14
79 30 0.34
80 46 0.52
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (80 bp):
AATACAGAGATGCCCAAATCATCTTGAATTAGCCTCGACAAAGATCAGATCTACTAATATCTTCA
ATTTGCTCTCTGTCA
Found at i:15267704 original size:45 final size:44
Alignment explanation
Indices: 15267655--15267779 Score: 150
Period size: 44 Copynumber: 2.9 Consensus size: 44
15267645 CTACCGGTCG
15267655 AATACGGGGATGCCAAATCTGTCATCTTGGATCTGCTCCCCATCA
1 AATACGGGGATGCCAAATCTGTC-TCTTGGATCTGCTCCCCATCA
* * * *
15267700 AATACGGGGATACCAAATCTG-CTTCTTGGATTTACTCCTCATCA
1 AATACGGGGATGCCAAATCTGTC-TCTTGGATCTGCTCCCCATCA
**
15267744 AATACGAAGATGCCAAATC--T-TCTTGGATCTGCTCCC
1 AATACGGGGATGCCAAATCTGTCTCTTGGATCTGCTCCC
15267780 TGATGCCAAA
Statistics
Matches: 68, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
41 13 0.19
44 35 0.51
45 20 0.29
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (44 bp):
AATACGGGGATGCCAAATCTGTCTCTTGGATCTGCTCCCCATCA
Found at i:15267831 original size:44 final size:43
Alignment explanation
Indices: 15267781--15268008 Score: 191
Period size: 44 Copynumber: 5.3 Consensus size: 43
15267771 TCTGCTCCCT
* *
15267781 GATGCCAAATCTGCTTCTTGGATTTGCTCATCGTAAAATACGAA
1 GATGCCAAATCTGCTTCTTGGATCTGCTC-TCGTCAAATACGAA
* * * *
15267825 GATGCCAAA--T-CATCTTGGATCTGCTCCCTGTCGAATACGGA
1 GATGCCAAATCTGCTTCTTGGATCTGCTCTC-GTCAAATACGAA
* *
15267866 GATGCCAAATCTGCTTCTTGGATTTGCTCCTCATCAAATACGAA
1 GATGCCAAATCTGCTTCTTGGATCTGCT-CTCGTCAAATACGAA
* * * *
15267910 GATGCCAAATCTACTATCTTCGATCTGCTCTC-TGACGATAC-AGA
1 GATGCCAAATCTGCT-TCTTGGATCTGCTCTCGTCA-AATACGA-A
* * *
15267954 GACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATATA--AA
1 GATGCCAAATCTGCT-TCTTGGATCTGCTCTC-GTCAA-ATACGAA
15267998 GATGCCAAATC
1 GATGCCAAATC
15268009 ATCTTGGATC
Statistics
Matches: 150, Mismatches: 23, Indels: 22
0.77 0.12 0.11
Matches are distributed among these distances:
40 1 0.01
41 32 0.21
42 1 0.01
43 4 0.03
44 94 0.63
45 14 0.09
46 4 0.03
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.29
Consensus pattern (43 bp):
GATGCCAAATCTGCTTCTTGGATCTGCTCTCGTCAAATACGAA
Found at i:15267831 original size:73 final size:73
Alignment explanation
Indices: 15267712--15267854 Score: 241
Period size: 73 Copynumber: 2.0 Consensus size: 73
15267702 TACGGGGATA
* * *
15267712 CCAAATCTGCTTCTTGGATTTACTCCTCATCAAATACGAAGATGCCAAATCTTCTTGGATCTGCT
1 CCAAATCTGCTTCTTGGATTTACTCATCATAAAATACGAAGATGCCAAATCATCTTGGATCTGCT
15267777 CCCTGATG
66 CCCTGATG
* *
15267785 CCAAATCTGCTTCTTGGATTTGCTCATCGTAAAATACGAAGATGCCAAATCATCTTGGATCTGCT
1 CCAAATCTGCTTCTTGGATTTACTCATCATAAAATACGAAGATGCCAAATCATCTTGGATCTGCT
15267850 CCCTG
66 CCCTG
15267855 TCGAATACGG
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
73 65 1.00
ACGTcount: A:0.25, C:0.27, G:0.16, T:0.32
Consensus pattern (73 bp):
CCAAATCTGCTTCTTGGATTTACTCATCATAAAATACGAAGATGCCAAATCATCTTGGATCTGCT
CCCTGATG
Found at i:15267850 original size:41 final size:40
Alignment explanation
Indices: 15267796--15267920 Score: 133
Period size: 41 Copynumber: 3.0 Consensus size: 40
15267786 CAAATCTGCT
*
15267796 TCTTGGATTTGCTCATCGTAAAATACGAAGATGCCAAATCA
1 TCTTGGATTTGCTC-TCGTCAAATACGAAGATGCCAAATCA
* * * * *
15267837 TCTTGGATCTGCTCCCTGTCGAATACGGAGATGCCAAATCTGCT
1 TCTTGGATTTGCTCTC-GTCAAATACGAAGATGCCAAA--T-CA
*
15267881 TCTTGGATTTGCTCCTCATCAAATACGAAGATGCCAAATC
1 TCTTGGATTTGCT-CTCGTCAAATACGAAGATGCCAAATC
15267921 TACTATCTTC
Statistics
Matches: 68, Mismatches: 11, Indels: 10
0.76 0.12 0.11
Matches are distributed among these distances:
40 1 0.01
41 32 0.47
42 1 0.01
43 1 0.01
44 31 0.46
45 2 0.03
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (40 bp):
TCTTGGATTTGCTCTCGTCAAATACGAAGATGCCAAATCA
Found at i:15267905 original size:85 final size:84
Alignment explanation
Indices: 15267781--15268019 Score: 286
Period size: 85 Copynumber: 2.8 Consensus size: 84
15267771 TCTGCTCCCT
* * *
15267781 GATGCCAAATCTGCTTCTTGGATTTGCTCATCGTAAAATACGAAGATGCCAAATCATCTTGGATC
1 GATGCCAAATCTGCTTCTTGGATTTGCTCCTCATCAAATACGAAGATGCCAAATCATCTTGGATC
* *
15267846 TGCTCCCTGTCGAATACGGA
66 TGCTCCCTGACG-ATACAGA
*
15267866 GATGCCAAATCTGCTTCTTGGATTTGCTCCTCATCAAATACGAAGATGCCAAATCTACTATCTTC
1 GATGCCAAATCTGCTTCTTGGATTTGCTCCTCATCAAATACGAAGATGCCAAA--T-C-ATCTTG
*
15267931 GATCTGCTCTCTGACGATACAGA
62 GATCTGCTCCCTGACGATACAGA
* * * *
15267954 GACGCCAAATCTGCTATCTTCGATCTGCTCTCTGA-CAATATA--AAGATGCCAAATCATCTTGG
1 GATGCCAAATCTGCT-TCTTGGATTTGCTC-CTCATCAA-ATACGAAGATGCCAAATCATCTTGG
15268016 ATCT
63 ATCT
15268020 ACTTCAGCGT
Statistics
Matches: 135, Mismatches: 12, Indels: 15
0.83 0.07 0.09
Matches are distributed among these distances:
84 10 0.07
85 51 0.38
86 1 0.01
87 1 0.01
88 32 0.24
89 34 0.25
90 6 0.04
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (84 bp):
GATGCCAAATCTGCTTCTTGGATTTGCTCCTCATCAAATACGAAGATGCCAAATCATCTTGGATC
TGCTCCCTGACGATACAGA
Found at i:15272928 original size:17 final size:17
Alignment explanation
Indices: 15272906--15272938 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
15272896 TAAATGGACT
*
15272906 GTTTAATTTTATTTTTC
1 GTTTAATTTCATTTTTC
15272923 GTTTAATTTCATTTTT
1 GTTTAATTTCATTTTT
15272939 AATTTTTGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.06, G:0.06, T:0.70
Consensus pattern (17 bp):
GTTTAATTTCATTTTTC
Found at i:15273385 original size:19 final size:17
Alignment explanation
Indices: 15273361--15273403 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
15273351 TGGGCCTTGT
*
15273361 TGGGCCGAGTTGGGCTATG
1 TGGGCCCAG-TGGGC-ATG
*
15273380 TGGGCCCAGTGGGCCTG
1 TGGGCCCAGTGGGCATG
15273397 TGGGCCC
1 TGGGCCC
15273404 CCACAGAGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 9 0.41
18 5 0.23
19 8 0.36
ACGTcount: A:0.07, C:0.26, G:0.47, T:0.21
Consensus pattern (17 bp):
TGGGCCCAGTGGGCATG
Found at i:15274064 original size:28 final size:28
Alignment explanation
Indices: 15274032--15274099 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 28
15274022 CATATTTACA
* *
15274032 CTACACTGATACTGTATTGGGCTTAGGC
1 CTACACTGATACTGTATAGGGCTAAGGC
*
15274060 CTACACT-ATTATTGTATAGGGCTAAGGC
1 CTACACTGA-TACTGTATAGGGCTAAGGC
* *
15274088 CCAGACTGATAC
1 CTACACTGATAC
15274100 CGAATGCATT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
27 1 0.03
28 30 0.94
29 1 0.03
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (28 bp):
CTACACTGATACTGTATAGGGCTAAGGC
Found at i:15289968 original size:37 final size:37
Alignment explanation
Indices: 15289912--15289990 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
15289902 CCGAGCTCTA
* * *
15289912 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
15289949 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
15289986 AAGAC
1 AAGAC
15289991 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:15292015 original size:1 final size:1
Alignment explanation
Indices: 15292011--15292060 Score: 55
Period size: 1 Copynumber: 50.0 Consensus size: 1
15292001 CTTTTTATTG
* * * * *
15292011 TTTTTTTTTTATTTTTTTTGTTGTTTTTTTTTTGTTTTTTTTTCTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
15292061 GATTTTCGAA
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.02, C:0.02, G:0.06, T:0.90
Consensus pattern (1 bp):
T
Found at i:15292021 original size:14 final size:13
Alignment explanation
Indices: 15292002--15292066 Score: 62
Period size: 14 Copynumber: 4.8 Consensus size: 13
15291992 CTCTTCTCTC
15292002 TTTTTATTGTTTTT
1 TTTTTATT-TTTTT
15292016 TTTTTATTTTTTT
1 TTTTTATTTTTTT
15292029 TGTTGTT-TTTTTTT
1 T-TT-TTATTTTTTT
15292043 TGTTTT-TTTTTCTT
1 T-TTTTATTTTT-TT
*
15292057 TTTTGATTTT
1 TTTTTATTTT
15292067 CGAAACCTCA
Statistics
Matches: 46, Mismatches: 1, Indels: 8
0.84 0.02 0.15
Matches are distributed among these distances:
13 16 0.35
14 28 0.61
15 2 0.04
ACGTcount: A:0.05, C:0.02, G:0.08, T:0.86
Consensus pattern (13 bp):
TTTTTATTTTTTT
Found at i:15292025 original size:11 final size:11
Alignment explanation
Indices: 15292002--15292053 Score: 77
Period size: 11 Copynumber: 4.6 Consensus size: 11
15291992 CTCTTCTCTC
*
15292002 TTTTTATTGTT
1 TTTTTTTTGTT
*
15292013 TTTTTTTTATT
1 TTTTTTTTGTT
15292024 TTTTTTGTTGTT
1 TTTTTT-TTGTT
15292036 TTTTTTTTGTT
1 TTTTTTTTGTT
15292047 TTTTTTT
1 TTTTTTT
15292054 CTTTTTTGAT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
11 27 0.73
12 10 0.27
ACGTcount: A:0.04, C:0.00, G:0.08, T:0.88
Consensus pattern (11 bp):
TTTTTTTTGTT
Found at i:15292034 original size:23 final size:23
Alignment explanation
Indices: 15292002--15292052 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
15291992 CTCTTCTCTC
15292002 TTTTTATTGTTTTTTTTTTATTT
1 TTTTTATTGTTTTTTTTTTATTT
* *
15292025 TTTTTGTTGTTTTTTTTTTGTTT
1 TTTTTATTGTTTTTTTTTTATTT
15292048 TTTTT
1 TTTTT
15292053 TCTTTTTTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.04, C:0.00, G:0.08, T:0.88
Consensus pattern (23 bp):
TTTTTATTGTTTTTTTTTTATTT
Found at i:15292060 original size:23 final size:22
Alignment explanation
Indices: 15292002--15292060 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 22
15291992 CTCTTCTCTC
* *
15292002 TTTTTATTGTTTTTTTTTTATT
1 TTTTTTTTTTTTTTTTTTTATT
* *
15292024 TTTTTTGTTGTTTTTTTTTTGTT
1 TTTTTT-TTTTTTTTTTTTTATT
*
15292047 TTTTTTTCTTTTTT
1 TTTTTTTTTTTTTT
15292061 GATTTTCGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 11 0.34
23 21 0.66
ACGTcount: A:0.03, C:0.02, G:0.07, T:0.88
Consensus pattern (22 bp):
TTTTTTTTTTTTTTTTTTTATT
Found at i:15301723 original size:28 final size:28
Alignment explanation
Indices: 15301675--15301765 Score: 130
Period size: 28 Copynumber: 3.2 Consensus size: 28
15301665 GTGACAAAGT
*
15301675 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCAGTGC
* *
15301704 CACCAGAACAGATAATTTGTGGCTGGGC
1 CACCAGAACAGATAATTTGTGGCAGTGC
15301732 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGATAATTTGTGGCAGT-GC
15301760 CACCAG
1 CACCAG
15301766 GACGCTTCCT
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
28 49 0.88
29 7 0.12
ACGTcount: A:0.31, C:0.23, G:0.24, T:0.22
Consensus pattern (28 bp):
CACCAGAACAGATAATTTGTGGCAGTGC
Found at i:15301914 original size:28 final size:28
Alignment explanation
Indices: 15301871--15301935 Score: 121
Period size: 28 Copynumber: 2.3 Consensus size: 28
15301861 AAATTAACCC
15301871 TAGGGGTATAACGGTAATTTTGCATACA
1 TAGGGGTATAACGGTAATTTTGCATACA
*
15301899 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAACGGTAATTTTGCATACA
15301927 TAGGGGTAT
1 TAGGGGTAT
15301936 TCTAGTACAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAACGGTAATTTTGCATACA
Found at i:15309602 original size:28 final size:28
Alignment explanation
Indices: 15309554--15309644 Score: 130
Period size: 28 Copynumber: 3.2 Consensus size: 28
15309544 GTGACAGAGT
*
15309554 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCAGTGC
*
15309583 CACCAGAACAGATAATTTGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCAGTGC
*
15309611 CACCAGAACAGATAACTTGTGGCA-TAGC
1 CACCAGAACAGATAATTTGTGGCAGT-GC
15309639 CACCAG
1 CACCAG
15309645 GACGCTTCCT
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
28 50 0.88
29 7 0.12
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.20
Consensus pattern (28 bp):
CACCAGAACAGATAATTTGTGGCAGTGC
Found at i:15309793 original size:28 final size:28
Alignment explanation
Indices: 15309750--15310570 Score: 1633
Period size: 28 Copynumber: 29.3 Consensus size: 28
15309740 AAATTAACCC
*
15309750 TAGGGGTATAACGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
15309778 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
15309806 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
15309834 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
15309862 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
15309890 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
15309918 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
15309946 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
15309974 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
15310002 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
15310030 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
15310058 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
15310086 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
15310114 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
15310142 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
15310170 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
15310198 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
15310226 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
15310254 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
15310282 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
15310310 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
15310338 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
15310366 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
15310394 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
15310422 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
15310450 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
15310478 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
15310506 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
15310534 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
15310562 TAGGGGTAT
1 TAGGGGTAT
15310571 TCTAGTACAT
Statistics
Matches: 792, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 792 1.00
ACGTcount: A:0.32, C:0.07, G:0.25, T:0.36
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTTGCATACA
Found at i:15314467 original size:25 final size:25
Alignment explanation
Indices: 15314439--15314547 Score: 77
Period size: 25 Copynumber: 4.4 Consensus size: 25
15314429 GATATATGTT
* *
15314439 AAAATATATATTAATATGATAATAG
1 AAAATATATAGTAATATAATAATAG
*
15314464 AAAA-ATATGAAGTAATATAAT-ATAAT
1 AAAATATAT--AGTAATATAATAAT-AG
*
15314490 AAAATATA-AGTAA-ATAATAATAT
1 AAAATATATAGTAATATAATAATAG
*
15314513 AAAATATATAATACATAT-ATAA-AG
1 AAAATATATAGTA-ATATAATAATAG
*
15314537 TAATATATATA
1 -AAAATATATA
15314548 CAATTTAAAA
Statistics
Matches: 69, Mismatches: 6, Indels: 18
0.74 0.06 0.19
Matches are distributed among these distances:
23 15 0.22
24 15 0.22
25 20 0.29
26 16 0.23
27 3 0.04
ACGTcount: A:0.61, C:0.01, G:0.06, T:0.33
Consensus pattern (25 bp):
AAAATATATAGTAATATAATAATAG
Found at i:15314477 original size:51 final size:49
Alignment explanation
Indices: 15314402--15314497 Score: 115
Period size: 51 Copynumber: 1.9 Consensus size: 49
15314392 ATGTGATAAA
* **
15314402 AATATGATATAATAAATAATAAGTAATGAT-ATATGTTAAAATATATATT
1 AATATGATATAAAAAATAATAAGTAAT-ATAATATAATAAAATATATATT
15314451 AATATGATAATAGAAAAAT-ATGAAGTAATATAATATAATAAAATATA
1 AATATGAT-ATA-AAAAATAAT-AAGTAATATAATATAATAAAATATA
15314498 AGTAAATAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
49 8 0.20
50 7 0.17
51 25 0.62
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.34
Consensus pattern (49 bp):
AATATGATATAAAAAATAATAAGTAATATAATATAATAAAATATATATT
Found at i:15314486 original size:5 final size:5
Alignment explanation
Indices: 15314476--15314547 Score: 53
Period size: 5 Copynumber: 14.4 Consensus size: 5
15314466 AAATATGAAG
* *
15314476 TAATA TAATA TAATA AAATA TAAGTA -AATAA TAATA TAAAA T-ATA TAATA
1 TAATA TAATA TAATA TAATA TAA-TA TAAT-A TAATA TAATA TAATA TAATA
*
15314526 CATATA TAA-A GTAATA T-ATA TA
1 TA-ATA TAATA -TAATA TAATA TA
15314548 CAATTTAAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
4 9 0.17
5 34 0.64
6 10 0.19
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (5 bp):
TAATA
Found at i:15314514 original size:8 final size:8
Alignment explanation
Indices: 15314444--15314525 Score: 57
Period size: 8 Copynumber: 10.4 Consensus size: 8
15314434 ATGTTAAAAT
*
15314444 ATATATTA
1 ATATAATA
*
15314452 ATATGATA
1 ATATAATA
* *
15314460 ATAGAAAA
1 ATATAATA
15314468 ATATGAAGTA
1 ATAT-AA-TA
15314478 ATATAAT-
1 ATATAATA
15314485 ATAATAA-A
1 AT-ATAATA
15314493 ATATAAGTA
1 ATATAA-TA
15314502 A-ATAATA
1 ATATAATA
15314509 ATATAA-A
1 ATATAATA
15314516 ATAT-ATA
1 ATATAATA
15314523 ATA
1 ATA
15314526 CATATATAAA
Statistics
Matches: 59, Mismatches: 7, Indels: 17
0.71 0.08 0.20
Matches are distributed among these distances:
6 1 0.02
7 18 0.31
8 29 0.49
9 6 0.10
10 5 0.08
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (8 bp):
ATATAATA
Found at i:15318362 original size:30 final size:30
Alignment explanation
Indices: 15318328--15318386 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
15318318 TCCTTGACTC
*
15318328 AAACTTTGGCAAAATTACA-TTTTTGCCCCT
1 AAACTTTGACAAAATTACACTTTTT-CCCCT
* *
15318358 AAACTTTTACATAATTACACTTTTTCCCC
1 AAACTTTGACAAAATTACACTTTTTCCCC
15318387 AATGCTCGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.31, C:0.25, G:0.05, T:0.39
Consensus pattern (30 bp):
AAACTTTGACAAAATTACACTTTTTCCCCT
Found at i:15329831 original size:32 final size:32
Alignment explanation
Indices: 15329785--15329857 Score: 101
Period size: 32 Copynumber: 2.3 Consensus size: 32
15329775 GACTAGATGA
*
15329785 GGCCATGTGATACACACGAGCTCGACCAATTG
1 GGCCATGTGATACACACGAGCTAGACCAATTG
* * *
15329817 GGCCGTGTGATACACACGTGTTAGACCAATTG
1 GGCCATGTGATACACACGAGCTAGACCAATTG
*
15329849 GGTCATGTG
1 GGCCATGTG
15329858 GGCCAAACGG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.23
Consensus pattern (32 bp):
GGCCATGTGATACACACGAGCTAGACCAATTG
Found at i:15337082 original size:17 final size:18
Alignment explanation
Indices: 15337060--15337094 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
15337050 TAACTTGGGC
15337060 TGTGTGGG-CCACACGGG
1 TGTGTGGGCCCACACGGG
15337077 TGTGTGGGCCCACACGGG
1 TGTGTGGGCCCACACGGG
15337095 CATGCCACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.11, C:0.26, G:0.46, T:0.17
Consensus pattern (18 bp):
TGTGTGGGCCCACACGGG
Found at i:15338684 original size:34 final size:34
Alignment explanation
Indices: 15338644--15338713 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
15338634 TCCATAGTAA
*
15338644 CTCTTTCCTATTTCCACTCCGGTACAGTAACTGG
1 CTCTTTCCCATTTCCACTCCGGTACAGTAACTGG
15338678 CTCTTTCCCATTTCCACTCCGGTACAGTAACTGG
1 CTCTTTCCCATTTCCACTCCGGTACAGTAACTGG
15338712 CT
1 CT
15338714 GTAACAATCC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.17, C:0.34, G:0.14, T:0.34
Consensus pattern (34 bp):
CTCTTTCCCATTTCCACTCCGGTACAGTAACTGG
Found at i:15342826 original size:43 final size:43
Alignment explanation
Indices: 15342752--15342873 Score: 165
Period size: 43 Copynumber: 2.8 Consensus size: 43
15342742 CTGAATTCAT
* * * *
15342752 TCACCGATATTAT-GCCTGTTAGGCTCGAAGCCCGATATTAAC
1 TCACCGGTATTATAGCCTGCTAGGCTCAAAGCCCGATATTAAA
*
15342794 TCACCGGTATTATAGCCTGCTAGGCTTAAAGCCCGATATTAAA
1 TCACCGGTATTATAGCCTGCTAGGCTCAAAGCCCGATATTAAA
* *
15342837 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGA
1 TCACCGGTATTATAGCCTGCTAGGCTC-AAAGCCCGA
15342874 ATAGCACTGT
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
42 12 0.17
43 50 0.71
44 8 0.11
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (43 bp):
TCACCGGTATTATAGCCTGCTAGGCTCAAAGCCCGATATTAAA
Found at i:15350755 original size:43 final size:43
Alignment explanation
Indices: 15350708--15350790 Score: 121
Period size: 43 Copynumber: 1.9 Consensus size: 43
15350698 GCCACGCTCG
* * * *
15350708 AAGCCCGATATTAACTGACTGACATTATAGCCTGCTAGGCATA
1 AAGCCCGATATTAAATCACCGACATTACAGCCTGCTAGGCATA
*
15350751 AAGCCCGATATTAAATCACCGGCATTACAGCCTGCTAGGC
1 AAGCCCGATATTAAATCACCGACATTACAGCCTGCTAGGC
15350791 TCGAAGGCTC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (43 bp):
AAGCCCGATATTAAATCACCGACATTACAGCCTGCTAGGCATA
Found at i:15369918 original size:48 final size:48
Alignment explanation
Indices: 15369831--15370127 Score: 335
Period size: 48 Copynumber: 6.1 Consensus size: 48
15369821 GGAAATCTTA
* * *
15369831 CACATATTGATGCCGATGCCATATCCCAGATATGCTCTTACACTGGCT
1 CACATAATAATGCCGATGCCATATCCCAGATATGGTCTTACACTGGCT
* * *
15369879 CCCATAATAATGTCGATGCCATA-CCCTAGATATGGTCTTACATTGGCT
1 CACATAATAATGCCGATGCCATATCCC-AGATATGGTCTTACACTGGCT
* * *
15369927 CACATAATAATGTCGATGCCATATCCTAGATATGGTCTTACACTAGCT
1 CACATAATAATGCCGATGCCATATCCCAGATATGGTCTTACACTGGCT
* *
15369975 CACATAATAATGCCAATGCCATATCCCAGACATGGTCTTACACTGGCT
1 CACATAATAATGCCGATGCCATATCCCAGATATGGTCTTACACTGGCT
* * * * * * *
15370023 CTCATAATAATGCCAATGCCATGTTCCAAACATGGTCTTACACTAGCT
1 CACATAATAATGCCGATGCCATATCCCAGATATGGTCTTACACTGGCT
* ** * * *
15370071 CTCATACATCGGTGCCGATACCATGTCCCAGACATGGTCTTACACTGGCT
1 CACATA-AT-AATGCCGATGCCATATCCCAGATATGGTCTTACACTGGCT
*
15370121 CGCATAA
1 CACATAA
15370128 CAGCAGTGTC
Statistics
Matches: 217, Mismatches: 28, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
47 3 0.01
48 171 0.79
49 5 0.02
50 38 0.18
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (48 bp):
CACATAATAATGCCGATGCCATATCCCAGATATGGTCTTACACTGGCT
Found at i:15377397 original size:27 final size:27
Alignment explanation
Indices: 15377289--15377596 Score: 299
Period size: 27 Copynumber: 11.6 Consensus size: 27
15377279 TTAGTTTACC
* *
15377289 AAATTACTGAAATACTCC-C-AGTTGTA
1 AAATTACTAAAATAC-CCTCGATTTGTA
* * *
15377315 AAATTACCAAAGTACCC-CGATTTATA
1 AAATTACTAAAATACCCTCGATTTGTA
** *
15377341 AAATTACCGAAATACCATCG--TTGTA
1 AAATTACTAAAATACCCTCGATTTGTA
*
15377366 AAATTACTAAAATACCCTTGATTTGTA
1 AAATTACTAAAATACCCTCGATTTGTA
** *
15377393 AAATTACCGAAATACCCTC-AGTTTGCA
1 AAATTACTAAAATACCCTCGA-TTTGTA
*
15377420 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACTAAAATACCCTCGATTTGTA
* *
15377447 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACTAAAATACCCTCGATTTGTA
* * * *
15377474 AAATTACCAAAGTACCCCCGATTTATA
1 AAATTACTAAAATACCCTCGATTTGTA
** * *
15377501 AAATTACCCAAATATCCTCAATTTGTA
1 AAATTACTAAAATACCCTCGATTTGTA
*
15377528 AAATTA-TCAAAATACCCTC-AGTTTGCA
1 AAATTACT-AAAATACCCTCGA-TTTGTA
15377555 AAATTACTAAAATACCCTCGATTTGTA
1 AAATTACTAAAATACCCTCGATTTGTA
*
15377582 AAATTACTGAAATAC
1 AAATTACTAAAATAC
15377597 TCCTGTAAGA
Statistics
Matches: 234, Mismatches: 38, Indels: 19
0.80 0.13 0.07
Matches are distributed among these distances:
25 23 0.10
26 33 0.14
27 175 0.75
28 3 0.01
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (27 bp):
AAATTACTAAAATACCCTCGATTTGTA
Found at i:15377460 original size:81 final size:79
Alignment explanation
Indices: 15377289--15377596 Score: 331
Period size: 81 Copynumber: 3.8 Consensus size: 79
15377279 TTAGTTTACC
* *
15377289 AAATTACTGAAATACTCC-CAGTTGTAAAATTACCAAAGTACCCCGATTTATAAAATTACCGAAA
1 AAATTACTAAAATAC-CCTCATTTGTAAAATTACCAAAGTACCCCGATTTATAAAATTACCGAAA
*
15377353 TACCATCG--TTGTA
65 TACCCTCGATTTGTA
* ** *
15377366 AAATTACTAAAATACCCTTGATTTGTAAAATTACCGAAA-TACCCTC-AGTTTGCAAAATTACTG
1 AAATTACTAAAATACCC-TCATTTGTAAAATTACC-AAAGTACCC-CGA-TTTATAAAATTACCG
15377429 AAATACCCTCGATTTGTA
62 AAATACCCTCGATTTGTA
* * *
15377447 AAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCCGATTTATAAAATTACCCAA
1 AAATTACTAAAATACCCTC-ATTTGTAAAATTACCAAAGTA-CCCCGATTTATAAAATTACCGAA
* *
15377512 ATATCCTCAATTTGTA
64 ATACCCTCGATTTGTA
* * * * *
15377528 AAATTA-TCAAAATACCCTCAGTTTGCAAAATTACTAAAATACCCTCGATTTGTAAAATTACTGA
1 AAATTACT-AAAATACCCTCA-TTTGTAAAATTACCAAAGTACCC-CGATTTATAAAATTACCGA
15377592 AATAC
63 AATAC
15377597 TCCTGTAAGA
Statistics
Matches: 192, Mismatches: 25, Indels: 24
0.80 0.10 0.10
Matches are distributed among these distances:
76 2 0.01
77 14 0.07
78 20 0.10
79 26 0.14
80 9 0.05
81 117 0.61
82 4 0.02
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (79 bp):
AAATTACTAAAATACCCTCATTTGTAAAATTACCAAAGTACCCCGATTTATAAAATTACCGAAAT
ACCCTCGATTTGTA
Found at i:15377640 original size:27 final size:27
Alignment explanation
Indices: 15377610--15377777 Score: 237
Period size: 27 Copynumber: 6.2 Consensus size: 27
15377600 TGTAAGATAA
15377610 AATTACCATTTTACCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
* * *
15377637 AATTATCGTTTTACCCTCGATTTATAG
1 AATTACCATTTTACCCTCGATTTACAG
* *
15377664 AATTACCATTTTACCATCGATTTATAG
1 AATTACCATTTTACCCTCGATTTACAG
* *
15377691 AATTACCATTTTATCTTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
* * *
15377718 AATTACCGTCTTACCCTCGATTTATAG
1 AATTACCATTTTACCCTCGATTTACAG
*
15377745 AATTACCATTTTACCCTCGATTTACAA
1 AATTACCATTTTACCCTCGATTTACAG
15377772 AATTAC
1 AATTAC
15377778 TGAAATATCC
Statistics
Matches: 123, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 123 1.00
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.40
Consensus pattern (27 bp):
AATTACCATTTTACCCTCGATTTACAG
Found at i:15377695 original size:81 final size:81
Alignment explanation
Indices: 15377608--15377777 Score: 277
Period size: 81 Copynumber: 2.1 Consensus size: 81
15377598 CCTGTAAGAT
* *
15377608 AAAATTACCATTTTACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTATAGAATTACCAT
1 AAAATTACCATTTTACCCTCGATTTACAGAATTACCGTCTTACCCTCGATTTATAGAATTACCAT
*
15377673 TTTACCATCGATTTAT
66 TTTACCATCGATTTAC
* * *
15377689 AGAATTACCATTTTATCTTCGATTTACAGAATTACCGTCTTACCCTCGATTTATAGAATTACCAT
1 AAAATTACCATTTTACCCTCGATTTACAGAATTACCGTCTTACCCTCGATTTATAGAATTACCAT
*
15377754 TTTACCCTCGATTTAC
66 TTTACCATCGATTTAC
15377770 AAAATTAC
1 AAAATTAC
15377778 TGAAATATCC
Statistics
Matches: 81, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 81 1.00
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.39
Consensus pattern (81 bp):
AAAATTACCATTTTACCCTCGATTTACAGAATTACCGTCTTACCCTCGATTTATAGAATTACCAT
TTTACCATCGATTTAC
Found at i:15377803 original size:54 final size:54
Alignment explanation
Indices: 15377327--15377806 Score: 183
Period size: 54 Copynumber: 8.9 Consensus size: 54
15377317 ATTACCAAAG
* * * ***
15377327 TACCC-CGATTTATAAAATTACCGAAATACCATCG-TTGT--AAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACCGAAATACCCTCGATT-TACAAAATTACCATTT
* ** * * **
15377378 TACCCTTGATTTGTAAAATTACCGAAATACCCTC-AGTTTGCAAAATTACTGA-AA
1 TACCCTCGATTTACAAAATTACCGAAATACCCTCGA-TTTACAAAATTAC-CATTT
** * * ** ***
15377432 TACCCTCGATTTGTAAAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAG
1 TACCCTCGATTTACAAAATTACCGAAATACCCTCGATTTACAAAATTACCATTT
* * * * * ** * ***
15377486 TACCCCCGATTTATAAAATTACCCAAATATCCTCAATTTGTAAAATTATCAAAA
1 TACCCTCGATTTACAAAATTACCGAAATACCCTCGATTTACAAAATTACCATTT
* ** ** * **
15377540 TACCCTC-AGTTTGCAAAATTACTAAAATACCCTCGATTTGTAAAATTACTGA-AA
1 TACCCTCGA-TTTACAAAATTACCGAAATACCCTCGATTTACAAAATTAC-CATTT
** * ** * * *
15377594 TACTCCT-G-TAAGATAAAATTACC-ATTTTACCCTCGATTTACAGAATTATCGTTT
1 TAC-CCTCGAT-TTACAAAATTACCGA-AATACCCTCGATTTACAAAATTACCATTT
* * ** * * *
15377648 TACCCTCGATTTATAGAATTACC-ATTTTACCATCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCGA-AATACCCTCGATTTACAAAATTACCATTT
* * * *** * *
15377702 TATCTTCGATTTACAGAATTACCGTCTTACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCGAAATACCCTCGATTTACAAAATTACCATTT
* * * *
15377756 TACCCTCGATTTACAAAATTACTGAAATATCCTTGGTTTACAAAATTACCA
1 TACCCTCGATTTACAAAATTACCGAAATACCCTCGATTTACAAAATTACCA
15377807 AAATATCCTC
Statistics
Matches: 343, Mismatches: 68, Indels: 33
0.77 0.15 0.07
Matches are distributed among these distances:
51 5 0.01
52 26 0.08
53 9 0.03
54 296 0.86
55 7 0.02
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTACCGAAATACCCTCGATTTACAAAATTACCATTT
Found at i:15377817 original size:54 final size:53
Alignment explanation
Indices: 15377759--15377864 Score: 122
Period size: 54 Copynumber: 2.0 Consensus size: 53
15377749 ACCATTTTAC
** ** * *
15377759 CCTCGATTTACAAAATTACTGAAATATCCTTGGTTTACAAAATTACCAAAATAT
1 CCTCGATCAACAAAATTACCAAAATACCCCTGGTTTACAAAA-TACCAAAATAT
* **
15377813 CCTCGATCAATAAAATTACCAAAATACCCCTGGTTTGTAAAATACCAAAATA
1 CCTCGATCAACAAAATTACCAAAATACCCCTGGTTTACAAAATACCAAAATA
15377865 CCCCTGATTT
Statistics
Matches: 43, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
53 10 0.23
54 33 0.77
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (53 bp):
CCTCGATCAACAAAATTACCAAAATACCCCTGGTTTACAAAATACCAAAATAT
Found at i:15377817 original size:81 final size:81
Alignment explanation
Indices: 15377648--15377833 Score: 196
Period size: 81 Copynumber: 2.3 Consensus size: 81
15377638 ATTATCGTTT
* * **
15377648 TACCCTCGATTTATAGAATTACCATTTTACCATCGATTTATAGAATTACCATTTTATCTTCGATT
1 TACCCTCGATTTATAGAATTACCATTTTACCATCGATTTACAAAATTACCATAATATCTTCGATT
* ****
15377713 TACAGAATTACCGTCT
66 TACAAAATTACCAAAA
* * *
15377729 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACTGA-AATATCCTT-GG
1 TACCCTCGATTTATAGAATTACCATTTTACCATCGATTTACAAAATTAC-CATAATAT-CTTCGA
15377792 TTTACAAAATTACCAAAA
64 TTTACAAAATTACCAAAA
* ** *
15377810 TATCCTCGATCAATAAAATTACCA
1 TACCCTCGATTTATAGAATTACCA
15377834 AAATACCCCT
Statistics
Matches: 87, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
81 83 0.95
82 4 0.05
ACGTcount: A:0.34, C:0.22, G:0.08, T:0.37
Consensus pattern (81 bp):
TACCCTCGATTTATAGAATTACCATTTTACCATCGATTTACAAAATTACCATAATATCTTCGATT
TACAAAATTACCAAAA
Found at i:15377853 original size:27 final size:27
Alignment explanation
Indices: 15377797--15377894 Score: 110
Period size: 27 Copynumber: 3.7 Consensus size: 27
15377787 CTTGGTTTAC
* ***
15377797 AAAATTACCAAAATA-TCCTCGATCAAT
1 AAAATTACCAAAATACCCCT-GATTTGT
*
15377824 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
15377851 AAAA-TACCAAAATACCCCTGATTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
* *
15377877 GAAATTACCGAAATACCC
1 AAAATTACCAAAATACCC
15377895 TTGTAGGGTA
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
26 24 0.39
27 34 0.56
28 3 0.05
ACGTcount: A:0.43, C:0.23, G:0.08, T:0.26
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGATTTGT
Found at i:15377895 original size:26 final size:26
Alignment explanation
Indices: 15377825--15377894 Score: 104
Period size: 26 Copynumber: 2.7 Consensus size: 26
15377815 TCGATCAATA
*
15377825 AAATTACCAAAATACCCCTGGTTTGT
1 AAATTACCAAAATACCCCTGATTTGT
*
15377851 AAAATACCAAAATACCCCTGATTTGT
1 AAATTACCAAAATACCCCTGATTTGT
*
15377877 GAAATTACCGAAATACCC
1 -AAATTACCAAAATACCC
15377895 TTGTAGGGTA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
26 24 0.62
27 15 0.38
ACGTcount: A:0.40, C:0.24, G:0.10, T:0.26
Consensus pattern (26 bp):
AAATTACCAAAATACCCCTGATTTGT
Found at i:15377909 original size:27 final size:27
Alignment explanation
Indices: 15377879--15378233 Score: 464
Period size: 27 Copynumber: 13.3 Consensus size: 27
15377869 TGATTTGTGA
*
15377879 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
15377906 AATTACTGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
15377933 AATTACTGGAATACCCCTATAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
15377960 AATTACCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
15377987 AATTATCGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
15378014 AATTATCGCAATACCCCTGTAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
15378041 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
15378068 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
15378095 AATTATCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
15378122 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
15378149 AATTACTAAAATACCCCTGTAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
15378176 AATTACCGAGATA-CCTTGTGGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
15378202 AATTACCGAGATA-CCTTGTGGGGTA-
1 AATTACCGAAATACCCCTGTAGGGTAG
15378227 AATTACC
1 AATTACC
15378234 ATTTTGCCCC
Statistics
Matches: 298, Mismatches: 30, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
25 7 0.02
26 35 0.12
27 256 0.86
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:15378196 original size:21 final size:24
Alignment explanation
Indices: 15378171--15378222 Score: 86
Period size: 26 Copynumber: 2.1 Consensus size: 24
15378161 ACCCCTGTAG
15378171 GGTGGAATTACCGAGATACCTTGT
1 GGTGGAATTACCGAGATACCTTGT
15378195 GGGGTGGAATTACCGAGATACCTTGT
1 --GGTGGAATTACCGAGATACCTTGT
15378221 GG
1 GG
15378223 GGTAAATTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
24 2 0.08
26 24 0.92
ACGTcount: A:0.23, C:0.15, G:0.35, T:0.27
Consensus pattern (24 bp):
GGTGGAATTACCGAGATACCTTGT
Found at i:15378688 original size:31 final size:31
Alignment explanation
Indices: 15378642--15378752 Score: 150
Period size: 31 Copynumber: 3.5 Consensus size: 31
15378632 TTGCATTCAC
*
15378642 ATTCTGATTTTTGATTCTGTTACCTGATACTA
1 ATTCTGA-TTTTGATTCTGTTACCTGATACTG
15378674 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
* * * * *
15378705 ATTTTGATTATGATTCTGTCACCTAATTCTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
*
15378736 ATTCTGATTCTGATTCT
1 ATTCTGATTTTGATTCT
15378753 AGTTCTGATA
Statistics
Matches: 71, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
31 64 0.90
32 7 0.10
ACGTcount: A:0.21, C:0.16, G:0.14, T:0.50
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:15378741 original size:6 final size:6
Alignment explanation
Indices: 15378642--15378761 Score: 59
Period size: 6 Copynumber: 19.3 Consensus size: 6
15378632 TTGCATTCAC
* * * *
15378642 ATTCTG ATTTTTG ATTCTG -TTACCTG ATACTA ATTCTG ATTTTG ATTCTG
1 ATTCTG A-TTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * * *
15378692 -TTACCTG ATACTG ATTTTG ATTATG ATTCTG -TCACCTA ATTCTG ATTCTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
15378742 ATTCTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG A-TTCTG AT
15378762 AATGTTTCTT
Statistics
Matches: 85, Mismatches: 17, Indels: 24
0.67 0.13 0.19
Matches are distributed among these distances:
5 6 0.07
6 62 0.73
7 14 0.16
8 3 0.04
ACGTcount: A:0.21, C:0.16, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:15386817 original size:12 final size:12
Alignment explanation
Indices: 15386800--15386827 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
15386790 GAGAATAAAA
15386800 AAAATAAAATGG
1 AAAATAAAATGG
15386812 AAAATAAAATGG
1 AAAATAAAATGG
15386824 AAAA
1 AAAA
15386828 ACTACTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (12 bp):
AAAATAAAATGG
Found at i:15395553 original size:20 final size:21
Alignment explanation
Indices: 15395528--15395566 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
15395518 TTCTTGAAAC
15395528 AGGGC-ACACGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
*
15395548 AGGGCAACATGCCCGTGTG
1 AGGGCAACACGCCCGTGTG
15395567 ATCCTTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.21, C:0.28, G:0.38, T:0.13
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:15397600 original size:18 final size:19
Alignment explanation
Indices: 15397577--15397617 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
15397567 TTACATCAAC
15397577 ATTTTAATCAGAAT-AAAT
1 ATTTTAATCAGAATAAAAT
*
15397595 ATTTTAATCGGAATAAAAT
1 ATTTTAATCAGAATAAAAT
15397614 ATTT
1 ATTT
15397618 GGACTAGCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.41
Consensus pattern (19 bp):
ATTTTAATCAGAATAAAAT
Found at i:15398437 original size:21 final size:21
Alignment explanation
Indices: 15398412--15398453 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
15398402 GTTTTAGCTA
* *
15398412 TTTGAATTGGTTAATAATATT
1 TTTGAACTCGTTAATAATATT
15398433 TTTGAACTCGTTAATAATATT
1 TTTGAACTCGTTAATAATATT
15398454 ATAAAAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.05, G:0.12, T:0.50
Consensus pattern (21 bp):
TTTGAACTCGTTAATAATATT
Found at i:15408163 original size:19 final size:19
Alignment explanation
Indices: 15408127--15408165 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
15408117 TTTTCATCAT
* *
15408127 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
15408146 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
15408165 A
1 A
15408166 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:15408715 original size:28 final size:27
Alignment explanation
Indices: 15408629--15408718 Score: 101
Period size: 27 Copynumber: 3.2 Consensus size: 27
15408619 GTGACAGAGT
*
15408629 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
** *
15408658 CACCAGAACAGAT-ATACGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
15408685 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
15408713 CACCAG
1 CACCAG
15408719 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.19
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:15408871 original size:28 final size:28
Alignment explanation
Indices: 15408825--15408888 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
15408815 AATTAACCCT
*
15408825 AGGGGTATAAATGTCATTTTGCATACAC
1 AGGGGTATAAATGTAATTTTGCATACAC
* *
15408853 AGGGGTAT-AATGGTAATTTTTCATACAT
1 AGGGGTATAAAT-GTAATTTTGCATACAC
15408881 AGGGGTAT
1 AGGGGTAT
15408889 TCTAGTAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
27 3 0.09
28 29 0.91
ACGTcount: A:0.31, C:0.09, G:0.25, T:0.34
Consensus pattern (28 bp):
AGGGGTATAAATGTAATTTTGCATACAC
Found at i:15417110 original size:16 final size:16
Alignment explanation
Indices: 15417089--15417120 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
15417079 AATCTATATT
15417089 TATTATAAATTTTTTA
1 TATTATAAATTTTTTA
*
15417105 TATTATTAATTTTTTA
1 TATTATAAATTTTTTA
15417121 GATAAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TATTATAAATTTTTTA
Found at i:15418329 original size:22 final size:22
Alignment explanation
Indices: 15418288--15418329 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
15418278 TAATTTCCTC
*
15418288 ATTTAATTTTGAAATTAATTTT
1 ATTTAATTTTGAAATAAATTTT
**
15418310 ATTTAATTTTGGTATAAATT
1 ATTTAATTTTGAAATAAATT
15418330 CTTTTAAATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (22 bp):
ATTTAATTTTGAAATAAATTTT
Found at i:15428920 original size:25 final size:25
Alignment explanation
Indices: 15428881--15428928 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
15428871 CAAGCGAGTC
15428881 ATATCAGGAAGCTCA-CAAAGAGCCT
1 ATATCAGGAAGCTCATC-AAGAGCCT
15428906 ATATCAGGACA-CTCATCAAGAGC
1 ATATCAGGA-AGCTCATCAAGAGC
15428929 TGCATTTGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
25 19 0.90
26 2 0.10
ACGTcount: A:0.40, C:0.25, G:0.19, T:0.17
Consensus pattern (25 bp):
ATATCAGGAAGCTCATCAAGAGCCT
Found at i:15431618 original size:14 final size:15
Alignment explanation
Indices: 15431587--15431635 Score: 50
Period size: 14 Copynumber: 3.5 Consensus size: 15
15431577 ACTAGAAGAA
15431587 AAAGAAAAAAGGAAG
1 AAAGAAAAAAGGAAG
* *
15431602 AAAG-AAAATGGAGG
1 AAAGAAAAAAGGAAG
*
15431616 AAA-AAGAAAGGAAG
1 AAAGAAAAAAGGAAG
15431630 -AAGAAA
1 AAAGAAA
15431636 TTAGCACCAA
Statistics
Matches: 26, Mismatches: 6, Indels: 5
0.70 0.16 0.14
Matches are distributed among these distances:
13 2 0.08
14 20 0.77
15 4 0.15
ACGTcount: A:0.69, C:0.00, G:0.29, T:0.02
Consensus pattern (15 bp):
AAAGAAAAAAGGAAG
Found at i:15443720 original size:15 final size:15
Alignment explanation
Indices: 15443702--15443745 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
15443692 GAAGCCCAGA
15443702 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
15443717 ATAAAGAATTCCATG
1 ATAAAGAAATCCAAG
*
15443732 ATAAGGAAATCCAA
1 ATAAAGAAATCCAA
15443746 TTTACAGTAG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.55, C:0.14, G:0.14, T:0.18
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:15453055 original size:37 final size:37
Alignment explanation
Indices: 15453005--15453083 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
15452995 TTATTACGAA
* * *
15453005 GTCTTACACGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACACGGACAAAATCCCCACACGAAGTCATCGG
* *
15453042 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACACGGACAAAATCCCCACACGAAGTCATCGG
15453079 GTCTT
1 GTCTT
15453084 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACACGGACAAAATCCCCACACGAAGTCATCGG
Found at i:15453352 original size:47 final size:47
Alignment explanation
Indices: 15453202--15454332 Score: 2003
Period size: 47 Copynumber: 24.1 Consensus size: 47
15453192 CCCTTCGGGA
* * * * * * * *
15453202 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
15453249 CCTGTCACATATATACACTTTCACATTCA-CACATCGGCCATTAGGC
1 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
15453295 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
15453342 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
15453389 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
15453436 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
15453483 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
15453530 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
15453577 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
15453624 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
15453671 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
15453718 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
15453765 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
15453812 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
15453859 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
15453906 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
15453953 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
15454000 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
15454047 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
15454094 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
15454141 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
15454188 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
15454235 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
15454282 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
15454329 CTTA
1 CTTA
15454333 CTATCATTTC
Statistics
Matches: 1061, Mismatches: 22, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
46 40 0.04
47 1021 0.96
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:15464861 original size:39 final size:39
Alignment explanation
Indices: 15464769--15464868 Score: 130
Period size: 39 Copynumber: 2.6 Consensus size: 39
15464759 GAAATCCTTG
*
15464769 TTATAATTATTGTAATTATAA-TTTACGATCAAATATTA
1 TTATAATTATTGTAATTATAATTTTACGATCAAACATTA
* * * * *
15464807 TTATAATTATTGTAATTGTAATTTTTCGGTCAAGCGTTA
1 TTATAATTATTGTAATTATAATTTTACGATCAAACATTA
*
15464846 TTATAATTATGGTAATTATAATT
1 TTATAATTATTGTAATTATAATT
15464869 ATTATATTCG
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
38 20 0.38
39 33 0.62
ACGTcount: A:0.36, C:0.05, G:0.10, T:0.49
Consensus pattern (39 bp):
TTATAATTATTGTAATTATAATTTTACGATCAAACATTA
Found at i:15468482 original size:14 final size:14
Alignment explanation
Indices: 15468463--15468498 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
15468453 GTTGGTGCCC
15468463 AGGAATGTTATTGG
1 AGGAATGTTATTGG
*
15468477 AGGAATGTTATTGT
1 AGGAATGTTATTGG
15468491 AGG-ATGTT
1 AGGAATGTT
15468499 CTTTGTTGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 5 0.24
14 16 0.76
ACGTcount: A:0.28, C:0.00, G:0.33, T:0.39
Consensus pattern (14 bp):
AGGAATGTTATTGG
Found at i:15472629 original size:29 final size:29
Alignment explanation
Indices: 15472586--15472642 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
15472576 CAACTGTGCA
* * *
15472586 TTCGAATCAATAACTCAGATATCACTTGG
1 TTCGAACCAACAACTCAGATACCACTTGG
*
15472615 TTCGAACCAACAACTCGGATACCACTTG
1 TTCGAACCAACAACTCAGATACCACTTG
15472643 TCATGGGGCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.26
Consensus pattern (29 bp):
TTCGAACCAACAACTCAGATACCACTTGG
Found at i:15476935 original size:8 final size:8
Alignment explanation
Indices: 15476922--15476947 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
15476912 ATATGTGGTA
15476922 AATTTGTG
1 AATTTGTG
15476930 AATTTGTG
1 AATTTGTG
15476938 AATTTGTG
1 AATTTGTG
15476946 AA
1 AA
15476948 AAATATGGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (8 bp):
AATTTGTG
Found at i:15477402 original size:25 final size:25
Alignment explanation
Indices: 15477363--15477420 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
15477353 CAACTCGAGA
* * *
15477363 GAGCTTATCGGTATTTAGCTTGCAT
1 GAGCTTACCGATATTTAGCTCGCAT
*
15477388 GAGCTTACCGATATTTAGCTCGTAT
1 GAGCTTACCGATATTTAGCTCGCAT
15477413 GAGCTTAC
1 GAGCTTAC
15477421 TGTTTACAGC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.36
Consensus pattern (25 bp):
GAGCTTACCGATATTTAGCTCGCAT
Found at i:15478691 original size:25 final size:25
Alignment explanation
Indices: 15478655--15478743 Score: 99
Period size: 25 Copynumber: 3.6 Consensus size: 25
15478645 GCCCATTTCC
* * **
15478655 ACAGCTCATGTGAGCTAACTGATTT
1 ACAGCTCGTGTGAGCAAACCAATTT
15478680 ACAGCTCGTGTGAGCAAACCAATTT
1 ACAGCTCGTGTGAGCAAACCAATTT
* *
15478705 ACAGCTCGTGTGAGCATACC-GTTT
1 ACAGCTCGTGTGAGCAAACCAATTT
*
15478729 CATAGCTCGTGTGAG
1 -ACAGCTCGTGTGAG
15478744 AATACATGTA
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
24 3 0.05
25 53 0.95
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (25 bp):
ACAGCTCGTGTGAGCAAACCAATTT
Found at i:15483588 original size:14 final size:14
Alignment explanation
Indices: 15483569--15483597 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
15483559 GGATATGATT
15483569 TACTTAGGGGTATG
1 TACTTAGGGGTATG
15483583 TACTTAGGGGTATG
1 TACTTAGGGGTATG
15483597 T
1 T
15483598 GCTCGGTATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.07, G:0.34, T:0.38
Consensus pattern (14 bp):
TACTTAGGGGTATG
Found at i:15489304 original size:4 final size:4
Alignment explanation
Indices: 15489295--15489323 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
15489285 TTGTGCGTTC
15489295 TTCT TTCT TT-T TTCT TTCT TTCT TTCT TT
1 TTCT TTCT TTCT TTCT TTCT TTCT TTCT TT
15489324 TTTAATTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
3 3 0.12
4 21 0.88
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (4 bp):
TTCT
Found at i:15492029 original size:94 final size:94
Alignment explanation
Indices: 15491928--15492114 Score: 356
Period size: 94 Copynumber: 2.0 Consensus size: 94
15491918 ACACATTTAA
15491928 AAACCTGTATTTAAAATGTTCAGCTAAAGACACATTTAAAATGTTGTAGCTAGACATATTAAAAA
1 AAACCTGTATTTAAAATGTTCAGCTAAAGACACATTTAAAATGTTGTAGCTAGACATATTAAAAA
*
15491993 CAAATATTAATTAGGACTCAAATTAAACT
66 CAAATATTAATTAAGACTCAAATTAAACT
15492022 AAACCTGTATTTAAAATGTTCAGCTAAAGACACATTTAAAATGTTGTAGCTAGACATATTAAAAA
1 AAACCTGTATTTAAAATGTTCAGCTAAAGACACATTTAAAATGTTGTAGCTAGACATATTAAAAA
*
15492087 CAAATATTAATTAAGACTTAAATTAAAC
66 CAAATATTAATTAAGACTCAAATTAAAC
15492115 ATCAACAGCA
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
94 91 1.00
ACGTcount: A:0.47, C:0.12, G:0.10, T:0.31
Consensus pattern (94 bp):
AAACCTGTATTTAAAATGTTCAGCTAAAGACACATTTAAAATGTTGTAGCTAGACATATTAAAAA
CAAATATTAATTAAGACTCAAATTAAACT
Found at i:15503435 original size:25 final size:25
Alignment explanation
Indices: 15503398--15503459 Score: 90
Period size: 25 Copynumber: 2.5 Consensus size: 25
15503388 ACCGATTCTT
*
15503398 AGCTCGAGA-GAGCTTACTGATATTT
1 AGCTCGA-ATGAGCTTACTGATATTC
*
15503423 AGCTCGCATGAGCTTACTGATATTC
1 AGCTCGAATGAGCTTACTGATATTC
15503448 AGCTCGAATGAG
1 AGCTCGAATGAG
15503460 TTTATCATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 1 0.03
25 32 0.97
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.29
Consensus pattern (25 bp):
AGCTCGAATGAGCTTACTGATATTC
Found at i:15503484 original size:24 final size:26
Alignment explanation
Indices: 15503448--15503503 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 26
15503438 ACTGATATTC
* *
15503448 AGCTCG-AATGAGTTTATC-ATTTAT
1 AGCTCGTAATGAGTATATCGATTTAG
*
15503472 AGCTCGTAA-GAGTATGTCGATTTAG
1 AGCTCGTAATGAGTATATCGATTTAG
15503497 AGCTCGT
1 AGCTCGT
15503504 TTGAGCATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 13 0.48
25 14 0.52
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (26 bp):
AGCTCGTAATGAGTATATCGATTTAG
Found at i:15510516 original size:25 final size:25
Alignment explanation
Indices: 15510503--15510558 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
15510493 TTGAGAGAGC
*
15510503 TTACCGATGTTCAGCTCGCATGAGG
1 TTACCGATGTTCAGCTTGCATGAGG
* *
15510528 TTACTGATGTTCAGCTTGTATG-GG
1 TTACCGATGTTCAGCTTGCATGAGG
15510552 CTTACCG
1 -TTACCG
15510559 TTTATAGCCT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
24 2 0.08
25 24 0.92
ACGTcount: A:0.18, C:0.21, G:0.27, T:0.34
Consensus pattern (25 bp):
TTACCGATGTTCAGCTTGCATGAGG
Done.