Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 79 of 438
Found at i:21338163 original size:27 final size:27
Alignment explanation
Indices: 21338133--21338200 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
21338123 TAAGCCGAGG
* *
21338133 GTAAAACGGGGGTAAAATGGTAATTAT
1 GTAAATCGGGGGTAAAACGGTAATTAT
** *
21338160 GTAAATTAGGGGTAAAACGGTAATTCT
1 GTAAATCGGGGGTAAAACGGTAATTAT
21338187 GTAAATCGGGGGTA
1 GTAAATCGGGGGTA
21338201 CTTTGGTAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.37, C:0.06, G:0.31, T:0.26
Consensus pattern (27 bp):
GTAAATCGGGGGTAAAACGGTAATTAT
Found at i:21338227 original size:27 final size:27
Alignment explanation
Indices: 21338197--21338295 Score: 112
Period size: 27 Copynumber: 3.7 Consensus size: 27
21338187 GTAAATCGGG
*
21338197 GGTACTTT-GGTAATTTTACAAGTCGAA
1 GGTA-TTTCGGTAATTTTACAAATCGAA
* *
21338224 GGTATTTCGGTAAATTTACAAATCGAG
1 GGTATTTCGGTAATTTTACAAATCGAA
* * *
21338251 GGTATTTCAGTATTTTTACAAA-CTAA
1 GGTATTTCGGTAATTTTACAAATCGAA
21338277 GGGTATTTCGGTAATTTTA
1 -GGTATTTCGGTAATTTTA
21338296 GTAAACTAAA
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
26 5 0.08
27 55 0.92
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.39
Consensus pattern (27 bp):
GGTATTTCGGTAATTTTACAAATCGAA
Found at i:21338235 original size:54 final size:53
Alignment explanation
Indices: 21338189--21338293 Score: 124
Period size: 54 Copynumber: 2.0 Consensus size: 53
21338179 GTAATTCTGT
* * *
21338189 AAATCGGGGGTACTTT-GGTAATTTTACAAGTCGAA-GGTATTTCGGTAAATTTAC
1 AAATCGAGGGTA-TTTCAGTAATTTTACAA-ACGAAGGGTATTTCGGT-AATTTAC
* *
21338243 AAATCGAGGGTATTTCAGTATTTTTACAAACTAAGGGTATTTCGGTAATTT
1 AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCGGTAATTT
21338294 TAGTAAACTA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
53 11 0.25
54 33 0.75
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.37
Consensus pattern (53 bp):
AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCGGTAATTTAC
Found at i:21338309 original size:27 final size:27
Alignment explanation
Indices: 21338206--21338310 Score: 72
Period size: 27 Copynumber: 3.9 Consensus size: 27
21338196 GGGTACTTTG
* * *
21338206 GTAATTTTACAAGTCGAAG-GTATTTCG
1 GTAATTTTACAA-ACTAAGAGTATTTCA
* * *
21338233 GTAAATTTACAAA-TCGAGGGTATTTCA
1 GTAATTTTACAAACT-AAGAGTATTTCA
* * *
21338260 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAAACTAAGAGTATTTCA
*
21338287 GTAATTTTAGTAAACTAA-AGTATT
1 GTAATTTTA-CAAACTAAGAGTATT
21338311 CTAAACAGGG
Statistics
Matches: 62, Mismatches: 12, Indels: 8
0.76 0.15 0.10
Matches are distributed among these distances:
26 2 0.03
27 52 0.84
28 8 0.13
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.38
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGAGTATTTCA
Found at i:21340530 original size:40 final size:40
Alignment explanation
Indices: 21340481--21340631 Score: 173
Period size: 40 Copynumber: 3.8 Consensus size: 40
21340471 ATCACGATTT
*
21340481 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
* * *
21340521 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAATTACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
* * *
21340561 GCATAAATGTCC-TCGGGACTTAGCCCGGAT-GTA-GCCACTA
1 GCACAAATG-CCTTCGGGTCTTAGCCCGGATAGAATG--ACTA
* *
21340601 GCACAATTGCCTTCGGGTCTTAACCCGGATA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATA
21340632 TAATTTCCAG
Statistics
Matches: 92, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
39 3 0.03
40 87 0.95
41 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
Found at i:21340569 original size:80 final size:80
Alignment explanation
Indices: 21340485--21340671 Score: 229
Period size: 80 Copynumber: 2.3 Consensus size: 80
21340475 CGATTTGCAC
* * *
21340485 AAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTCGCACGAA-TGCCTTCGGGTCTTAGCCCG
1 AAATGCCTTCGGGACTTAGCCCGGATAGAA-GCACTAGCAC-AATTGCCTTCGGGTCTTAACCCG
*
21340548 GATATAATTACTAGCAT
64 GATATAATTACCAGCAT
*
21340565 AAATGTCC-TCGGGACTTAGCCCGGAT-GTAGCCACTAGCACAATTGCCTTCGGGTCTTAACCCG
1 AAATG-CCTTCGGGACTTAGCCCGGATAGAAG-CACTAGCACAATTGCCTTCGGGTCTTAACCCG
*
21340628 GATATAATTTCCAGCAT
64 GATATAATTACCAGCAT
* * *
21340645 TAACGTCTTCGGGACTTAGCCCGGATA
1 AAATGCCTTCGGGACTTAGCCCGGATA
21340672 TCATTCAATT
Statistics
Matches: 92, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
78 1 0.01
79 5 0.05
80 84 0.91
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (80 bp):
AAATGCCTTCGGGACTTAGCCCGGATAGAAGCACTAGCACAATTGCCTTCGGGTCTTAACCCGGA
TATAATTACCAGCAT
Found at i:21345329 original size:40 final size:40
Alignment explanation
Indices: 21345243--21345358 Score: 108
Period size: 40 Copynumber: 2.9 Consensus size: 40
21345233 CTACGATGTC
** * * *
21345243 TGGCACTTAGTGTGCGTTTTGAGATAGCTTCGGCTATATA
1 TGGCACTTAGTGTGCGAATTGAAATAACTTCGGTTATATA
** * *
21345283 CAGCACTTAGTGTTCGAATTGAAATAACTTCGGTTTTATA
1 TGGCACTTAGTGTGCGAATTGAAATAACTTCGGTTATATA
* *
21345323 TGGCACTAAGTGTGCGATACT-AAGATAACTTCGGTT
1 TGGCACTTAGTGTGCGA-ATTGAA-ATAACTTCGGTT
21345359 CAATGTGATG
Statistics
Matches: 60, Mismatches: 14, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
40 46 0.77
41 14 0.23
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (40 bp):
TGGCACTTAGTGTGCGAATTGAAATAACTTCGGTTATATA
Found at i:21346984 original size:26 final size:26
Alignment explanation
Indices: 21346950--21347002 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
21346940 AAGTACGTAC
21346950 GATAACTATGTGGTAGTTGATACTAT
1 GATAACTATGTGGTAGTTGATACTAT
*
21346976 GATACCTATGTGGTAGTTGATACTAT
1 GATAACTATGTGGTAGTTGATACTAT
21347002 G
1 G
21347003 TGTACGAAGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.28, C:0.09, G:0.25, T:0.38
Consensus pattern (26 bp):
GATAACTATGTGGTAGTTGATACTAT
Found at i:21349732 original size:72 final size:73
Alignment explanation
Indices: 21349597--21349781 Score: 196
Period size: 72 Copynumber: 2.6 Consensus size: 73
21349587 GTAATGTGGG
* * * ** *
21349597 TCCGAGTACTGACTTTGTGTATAAACTCGTGAGTAACACGCTGAGCGAGCATATCATGTTAATGC
1 TCCGGGTACTGACTTTGTGTATAAACTCGTGAGTAGCTCAATGAGCGAGCATATCATGATAATGC
21349662 TTT-AGGT
66 TTTGAGGT
* * *
21349669 TCCGGGTACTGACTTTGTGTATAAACCCGTGAGTAGCTCAATGAGTGGGCAT-TACATGATAATG
1 TCCGGGTACTGACTTTGTGTATAAACTCGTGAGTAGCTCAATGAGCGAGCATAT-CATGATAATG
*
21349733 CTTTGGGGT
65 CTTTGAGGT
* * * * * *
21349742 T-CAGGTGCTAACTTTGTGTACAGACTCATGAGTAGCTCAA
1 TCCGGGTACTGACTTTGTGTATAAACTCGTGAGTAGCTCAA
21349782 ATACGGGCAT
Statistics
Matches: 94, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
71 1 0.01
72 89 0.95
73 4 0.04
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.31
Consensus pattern (73 bp):
TCCGGGTACTGACTTTGTGTATAAACTCGTGAGTAGCTCAATGAGCGAGCATATCATGATAATGC
TTTGAGGT
Found at i:21354997 original size:46 final size:45
Alignment explanation
Indices: 21354927--21355049 Score: 119
Period size: 46 Copynumber: 2.7 Consensus size: 45
21354917 TATGTATGCT
* * *
21354927 AGTGTAAGA-ATGTTTGGGACATGCATTGGCCACATT-ATGAGTGCC
1 AGTGTAAGACATGTCT-GGACATGCATTGGCCA-ATTGACGAGAGCC
* *
21354972 AGTGTAAGACATGTCTAGGACATGCAATGG--AATTGAGACGAGAGCT
1 AGTGTAAGACATGTCT-GGACATGCATTGGCCAATT--GACGAGAGCC
21355018 AGTGTAAGACATGTCTGGAACATGCATTGGCC
1 AGTGTAAGACATGTCTGG-ACATGCATTGGCC
21355050 TCAAGATATA
Statistics
Matches: 64, Mismatches: 7, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
43 3 0.05
44 1 0.02
45 11 0.17
46 49 0.77
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.25
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGACATGCATTGGCCAATTGACGAGAGCC
Found at i:21355188 original size:49 final size:49
Alignment explanation
Indices: 21355109--21355285 Score: 164
Period size: 49 Copynumber: 3.6 Consensus size: 49
21355099 TGTTGTGTGT
*
21355109 CAGTGTAAGACCTATCTAGGACATGGCATCGACAC-CGATAGAT-AAGAGC
1 CAGTGTAAGACCTATCTAGGACATGACATCGAC-CTCGATAGATGAA-AGC
* * * * *
21355158 CAGTGTAAGACCTGTCTAGGACACGACATCGGCCTCGATATATGAAAGT
1 CAGTGTAAGACCTATCTAGGACATGACATCGACCTCGATAGATGAAAGC
* * * * **
21355207 CAATGTAAGACCTATCTGGGACATGACATCGACTTTGAT-G-TGCTAGC
1 CAGTGTAAGACCTATCTAGGACATGACATCGACCTCGATAGATGAAAGC
* * *
21355254 CAGTGTAAGACCATGTCTGGGACATGGCATCG
1 CAGTGTAAGACC-TATCTAGGACATGACATCG
21355286 GCATCTTATC
Statistics
Matches: 105, Mismatches: 20, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
47 15 0.14
48 18 0.17
49 70 0.67
50 2 0.02
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.23
Consensus pattern (49 bp):
CAGTGTAAGACCTATCTAGGACATGACATCGACCTCGATAGATGAAAGC
Found at i:21366208 original size:15 final size:16
Alignment explanation
Indices: 21366180--21366209 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
21366170 ATATTTTATG
21366180 TTAATTGTACATAATT
1 TTAATTGTACATAATT
21366196 TTAATTG-ACATAAT
1 TTAATTGTACATAAT
21366210 AACATATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.47
Consensus pattern (16 bp):
TTAATTGTACATAATT
Found at i:21367245 original size:24 final size:25
Alignment explanation
Indices: 21367199--21367247 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
21367189 TTATGTGTTT
* * *
21367199 ATTTTTTAATTTAGTAAATAATATA
1 ATTTTATAATTTAGAAAAAAATATA
21367224 ATTTTATAATTTA-AAAAAAATATA
1 ATTTTATAATTTAGAAAAAAATATA
21367248 TTTACTAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (25 bp):
ATTTTATAATTTAGAAAAAAATATA
Found at i:21367690 original size:2 final size:2
Alignment explanation
Indices: 21367683--21367717 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
21367673 TCTATTACTA
*
21367683 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
21367718 GTGCTAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:21368123 original size:2 final size:2
Alignment explanation
Indices: 21368118--21368166 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
21368108 TGTGTGCTTT
21368118 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
21368160 TA T- TA TA
1 TA TA TA TA
21368167 GATTAACACT
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 45 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:21370468 original size:18 final size:18
Alignment explanation
Indices: 21370428--21370469 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
21370418 GAAACATTCA
*
21370428 TTTTAATATTTTTAGTAT
1 TTTTAATATTTATAGTAT
*
21370446 ATTTAATATATTATA-TAT
1 TTTTAATAT-TTATAGTAT
21370464 TTTTAA
1 TTTTAA
21370470 AAAAAGTATA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (18 bp):
TTTTAATATTTATAGTAT
Found at i:21375387 original size:44 final size:44
Alignment explanation
Indices: 21375279--21375848 Score: 349
Period size: 44 Copynumber: 12.7 Consensus size: 44
21375269 CTTCGTTCCA
* * * * **
21375279 CTCCACTACAACTTC-GGGAAGATAAGACTTGTAGTTTCGATCCA
1 CTCCACTGCAACTTCAGGG-AGATAAGATTTGTAGCTTCAATCTG
* * * *
21375323 CTCCACTGTAACTTTAGGGAGATAAGACTTGCAGCTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTG
** *
21375367 CTCCACTGCAACTTCAGGGAGACGAGATTTGT-GTCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTAG-CTTCAATCTG
* * * ** *
21375411 CTCTACCGCAACTTTAGGGAGATAAGATTTGTTTATTTTTAA-CTTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTG--TAGCTTCAATC-TG
* * * * *
21375457 CTCCACTACAACCTCAGGGAGATAA-AGTGTGTAGCTTTAATCTA
1 CTCCACTGCAACTTCAGGGAGATAAGA-TTTGTAGCTTCAATCTG
* * * * * * *
21375501 CTCTATTGCAACTTCAGAGAGATAAAATTTGCTATCTTCGATCTA
1 CTCCACTGCAACTTCAGGGAGATAAGATTTG-TAGCTTCAATCTG
* * * * *
21375546 CCCCACTCCAACTTCAGGGAGATAAGATCTATAACTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTG
* * * * *
21375590 TTCTACTGTAACTTTAGGGAGATAAGATTTGTAATTTTTAGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTG-------TAGCTTCAATCTG
* * * * * *** * *
21375641 TTCCACTGTAACTTTAGAGAAATAAGATCCACTATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGAT-TTGTAGCTTCAATCTG
* * * * *
21375686 CTCTACTGCTA-TTACAGGGAGATAAGACTTGTAACTTCAACCTG
1 CTCCACTGCAACTT-CAGGGAGATAAGATTTGTAGCTTCAATCTG
* * * * *
21375730 CTCCACTGCAACTTCGGGGAGATAAGGTTTATAACTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTG
* * * * * *
21375774 ATCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAGTCTA
1 CTCCACTGCAACTTCAGGGAGATAAGATTTG-TAGCTTCAATCTG
21375819 CTCCACTGCAACTTCAGGGAGATAAGATTT
1 CTCCACTGCAACTTCAGGGAGATAAGATTT
21375849 TCCATGATGA
Statistics
Matches: 400, Mismatches: 105, Indels: 41
0.73 0.19 0.08
Matches are distributed among these distances:
43 1 0.00
44 227 0.57
45 105 0.26
46 31 0.08
51 36 0.09
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTG
Found at i:21375603 original size:89 final size:88
Alignment explanation
Indices: 21375327--21375846 Score: 330
Period size: 89 Copynumber: 5.8 Consensus size: 88
21375317 GATCCACTCC
* * * * * * **
21375327 ACTGTAACTTTAGGGAGATAAGACTTGCAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGACGA
1 ACTGTAACTTCAGAGAGATAAGATTTGTATCTTCAATCTACTCCACTGCAACTTCAGGGAGATAA
* * ** * *
21375392 GATTTGTGTCTTTAATCTGCTCT
66 GATCTATAACTTCAATCTGATCT
* * * * * * * * *
21375415 ACCGCAACTTTAGGGAGATAAGATTTGTTTATTTTTAA-CTTGCTCCACTACAACCTCAGGGAGA
1 ACTGTAACTTCAGAGAGATAAGATTTG--TATCTTCAATC-TACTCCACTGCAACTTCAGGGAGA
* * * *
21375479 TAA-AGTGTGTAGCTTTAATCT-ACTCT
63 TAAGA-TCTATAACTTCAATCTGA-TCT
* * * * * *
21375505 ATTGCAACTTCAGAGAGATAAAATTTGCTATCTTCGATCTACCCCACTCCAACTTCAGGGAGATA
1 ACTGTAACTTCAGAGAGATAAGATTTG-TATCTTCAATCTACTCCACTGCAACTTCAGGGAGATA
*
21375570 AGATCTATAACTTCAATCTGTTCT
65 AGATCTATAACTTCAATCTGATCT
* * * ** * * *
21375594 ACTGTAACTTTAGGGAGATAAGATTTGTAATTTTTAGCTTTAATCTGTTCCACTGTAACTTTAGA
1 ACTGTAACTTCAGAGAGATAAGATTTGT-A----T--CTTCAATCTACTCCACTGCAACTTCAGG
* * * * *
21375659 GAAATAAGATCCACTATCTTCAGTCTGCTCT
59 GAGATAAGATCTA-TAACTTCAATCTGATCT
* * * * * *
21375690 ACTGCT-A-TTACAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCGGGGAGAT
1 ACTG-TAACTT-CAGAGAGATAAGATTTGTATCTTCAATCTACTCCACTGCAACTTCAGGGAGAT
* * *
21375753 AAGGTTTATAACTTTAATCTGATCT
64 AAGATCTATAACTTCAATCTGATCT
* *
21375778 ACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAGTCTACTCCACTGCAACTTCAGGGAGATA
1 ACTGTAACTTCAGAGAGATAAGATTTG-TATCTTCAATCTACTCCACTGCAACTTCAGGGAGATA
21375843 AGAT
65 AGAT
21375847 TTTCCATGAT
Statistics
Matches: 332, Mismatches: 79, Indels: 41
0.73 0.17 0.09
Matches are distributed among these distances:
88 58 0.17
89 136 0.41
90 68 0.20
93 1 0.00
95 33 0.10
96 35 0.11
97 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (88 bp):
ACTGTAACTTCAGAGAGATAAGATTTGTATCTTCAATCTACTCCACTGCAACTTCAGGGAGATAA
GATCTATAACTTCAATCTGATCT
Found at i:21385105 original size:48 final size:48
Alignment explanation
Indices: 21384983--21385258 Score: 248
Period size: 48 Copynumber: 5.8 Consensus size: 48
21384973 TATGTGTGCT
** * *
21384983 AGTGTAAGACCATGTCTGGGACATGGTGTCGGCCATGATATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAATGTTATGAGAGCC
* * * * * *
21385031 AGTATAATACCATATTTGGAACATGGCATCGGCAATGTTATGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAATGTTATGAGAGCC
* * ** * * * *
21385079 AGTGTAAGACCATGTCCGGGATATGGCATCGGCGTTGTTAGGTGCGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAATGTTATGAGAGCC
* * * * **
21385127 AGTGTAAGACCATGTCTGGGACATGACAACGACCACATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAATGTTATGAGAGCC
* * * ** *
21385175 AGTGTAAGACCATGTCTGGGACATAGCATTGGC-CTCGACATGTGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAAT-GTTATGAGAGCC
* *
21385223 AGTGTGAGACCATGTCTGGGACATGGCATCGACAAT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAAT
21385259 TTACCCTCTT
Statistics
Matches: 175, Mismatches: 51, Indels: 3
0.76 0.22 0.01
Matches are distributed among these distances:
48 174 0.99
49 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCAATGTTATGAGAGCC
Found at i:21385249 original size:144 final size:144
Alignment explanation
Indices: 21384980--21385253 Score: 327
Period size: 144 Copynumber: 1.9 Consensus size: 144
21384970 TGATATGTGT
**** * * *
21384980 GCTAGTGTAAGACCATGTCTGGGACATGGTGTCGGCCATGATATGAGAGCCAGTATAATACCATA
1 GCTAGTGTAAGACCATGTCTGGGACATGACAACGACCATCATATGAGAGCCAGTATAAGACCATA
* * ** * *
21385045 TTTGGAACATGGCATCGGCAATGTTATGAGAGCTAGTGTAAGACCATGTCCGGGATATGGCATCG
66 TCTGGAACATAGCATCGGCAATGACATGAGAGCCAGTGTAAGACCATGTCCGGGACATGGCATCG
21385110 GCGTTGTTAGGTGC
131 GCGTTGTTAGGTGC
*
21385124 GCTAGTGTAAGACCATGTCTGGGACATGACAACGACCA-CATTATGAGAGCCAGTGTAAGACCAT
1 GCTAGTGTAAGACCATGTCTGGGACATGACAACGACCATCA-TATGAGAGCCAGTATAAGACCAT
* * * * * * *
21385188 GTCTGGGACATAGCATTGGC-CTCGACATGTGAGCCAGTGTGAGACCATGTCTGGGACATGGCAT
65 ATCTGGAACATAGCATCGGCAAT-GACATGAGAGCCAGTGTAAGACCATGTCCGGGACATGGCAT
21385252 CG
129 CG
21385254 ACAATTTACC
Statistics
Matches: 107, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
143 2 0.02
144 105 0.98
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (144 bp):
GCTAGTGTAAGACCATGTCTGGGACATGACAACGACCATCATATGAGAGCCAGTATAAGACCATA
TCTGGAACATAGCATCGGCAATGACATGAGAGCCAGTGTAAGACCATGTCCGGGACATGGCATCG
GCGTTGTTAGGTGC
Found at i:21390521 original size:23 final size:23
Alignment explanation
Indices: 21390476--21390556 Score: 53
Period size: 23 Copynumber: 3.5 Consensus size: 23
21390466 ATATAATAAT
* *
21390476 TAAAAGAAATATTAAAACAACAAAA
1 TAAAACAAA-ATTAAAA-TACAAAA
21390501 TAAAA-AAAATTAAAATTACAAACA
1 TAAAACAAAATTAAAA-TACAAA-A
*
21390525 -AAAACAATAA-TAAAATACACAA
1 TAAAACAA-AATTAAAATACAAAA
*
21390547 TTAAA-AAAAT
1 TAAAACAAAAT
21390557 ATGAGTAATC
Statistics
Matches: 47, Mismatches: 4, Indels: 13
0.73 0.06 0.20
Matches are distributed among these distances:
21 2 0.04
22 3 0.06
23 24 0.51
24 11 0.23
25 7 0.15
ACGTcount: A:0.72, C:0.09, G:0.01, T:0.19
Consensus pattern (23 bp):
TAAAACAAAATTAAAATACAAAA
Found at i:21393874 original size:17 final size:17
Alignment explanation
Indices: 21393854--21393887 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
21393844 AAGTTTAGGT
21393854 TTAAAAATTTTAATTAA
1 TTAAAAATTTTAATTAA
*
21393871 TTAAAATTTTTAATTAA
1 TTAAAAATTTTAATTAA
21393888 AAACCTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTAAAAATTTTAATTAA
Found at i:21398356 original size:29 final size:31
Alignment explanation
Indices: 21398323--21398381 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 31
21398313 ATTTATCATA
*
21398323 TAATATTAATTTAAA-AATAAA-AAATACAC
1 TAATATTAACTTAAATAATAAACAAATACAC
*
21398352 TAATATTTACTTAAATAATAAACAAATACA
1 TAATATTAACTTAAATAATAAACAAATACA
21398382 TACATGTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 13 0.50
30 6 0.23
31 7 0.27
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.32
Consensus pattern (31 bp):
TAATATTAACTTAAATAATAAACAAATACAC
Found at i:21400831 original size:2 final size:2
Alignment explanation
Indices: 21400824--21400869 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
21400814 AGAAGGAATA
21400824 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21400866 AT AT
1 AT AT
21400870 GATTACCTAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21401124 original size:30 final size:30
Alignment explanation
Indices: 21401088--21401155 Score: 109
Period size: 30 Copynumber: 2.3 Consensus size: 30
21401078 GTCACTACTA
21401088 ACCATTTTTCGTTACAGACATAATGGAGCT
1 ACCATTTTTCGTTACAGACATAATGGAGCT
* *
21401118 ACCATTTTTCGTTATAGACTTAATGGAGCT
1 ACCATTTTTCGTTACAGACATAATGGAGCT
*
21401148 ATCATTTT
1 ACCATTTT
21401156 CCATCCCCAC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.40
Consensus pattern (30 bp):
ACCATTTTTCGTTACAGACATAATGGAGCT
Found at i:21401250 original size:46 final size:47
Alignment explanation
Indices: 21401189--21401277 Score: 117
Period size: 47 Copynumber: 1.9 Consensus size: 47
21401179 CTTTCTCTCC
* *
21401189 TCCCTACCATCCCTCC-CTTCCCTTGGTTCTCTCCCTCTCCCCCTCT
1 TCCCCACCATCCCTCCTCTTCCCTTGATTCTCTCCCTCTCCCCCTCT
* * * *
21401235 TCCCCACCATTCCTCCTCTTGCTTTGATTCTTTCCCTCTCCCC
1 TCCCCACCATCCCTCCTCTTCCCTTGATTCTCTCCCTCTCCCC
21401278 TACCATCCCT
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
46 14 0.39
47 22 0.61
ACGTcount: A:0.06, C:0.53, G:0.04, T:0.37
Consensus pattern (47 bp):
TCCCCACCATCCCTCCTCTTCCCTTGATTCTCTCCCTCTCCCCCTCT
Found at i:21403185 original size:27 final size:26
Alignment explanation
Indices: 21403154--21403231 Score: 129
Period size: 26 Copynumber: 2.9 Consensus size: 26
21403144 GTTTCTTAGT
21403154 TTTTTTTTGGGGGTTAGGTTTTTTTTTC
1 TTTTTTTT--GGGTTAGGTTTTTTTTTC
21403182 TTTTTTTTTGGGTTAGGTTTTTTTTTC
1 -TTTTTTTTGGGTTAGGTTTTTTTTTC
21403209 TTTTTTTTGGGTTAGGTTTTTTT
1 TTTTTTTTGGGTTAGGTTTTTTT
21403232 GGGGGCTTAA
Statistics
Matches: 49, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
26 23 0.47
27 18 0.37
29 8 0.16
ACGTcount: A:0.04, C:0.03, G:0.22, T:0.72
Consensus pattern (26 bp):
TTTTTTTTGGGTTAGGTTTTTTTTTC
Found at i:21403202 original size:15 final size:15
Alignment explanation
Indices: 21403184--21403234 Score: 56
Period size: 15 Copynumber: 3.7 Consensus size: 15
21403174 TTTTTTTCTT
21403184 TTTTTTTGGGTTAGG
1 TTTTTTTGGGTTAGG
**
21403199 TTTTTTT---TT-CT
1 TTTTTTTGGGTTAGG
21403210 TTTTTTTGGGTTAGG
1 TTTTTTTGGGTTAGG
21403225 TTTTTTTGGG
1 TTTTTTTGGG
21403235 GGCTTAATGG
Statistics
Matches: 28, Mismatches: 4, Indels: 8
0.70 0.10 0.20
Matches are distributed among these distances:
11 7 0.25
12 2 0.07
14 2 0.07
15 17 0.61
ACGTcount: A:0.04, C:0.02, G:0.25, T:0.69
Consensus pattern (15 bp):
TTTTTTTGGGTTAGG
Found at i:21404089 original size:30 final size:30
Alignment explanation
Indices: 21404053--21404114 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
21404043 TTTTGAAAAA
21404053 CAGAAATT-AAAAGACTCAACTCAACTCTCG
1 CAGAAATTAAAAAG-CTCAACTCAACTCTCG
*
21404083 CAGAAATTAAAAAGCTCAACTCACCTCTCG
1 CAGAAATTAAAAAGCTCAACTCAACTCTCG
21404113 CA
1 CA
21404115 ATATGAGTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.42, C:0.29, G:0.10, T:0.19
Consensus pattern (30 bp):
CAGAAATTAAAAAGCTCAACTCAACTCTCG
Found at i:21404353 original size:79 final size:77
Alignment explanation
Indices: 21404224--21404821 Score: 366
Period size: 77 Copynumber: 7.7 Consensus size: 77
21404214 AAACAGAATC
** * * * * *
21404224 TGAAAAACAGATTTTGAAAATACCTC-GACATGTGACCCGAGGCTCAACTCACATCTCGCAATGT
1 TGAAAAACAGAAATTGAAAATACCTCAG-CGTGTGATCTGAGGCTCAACTCACCTCTCGCAATAT
21404288 GAGTTGATTTTTT
65 GAGTTGATTTTTT
* * * *
21404301 TGAAAAATATAAATTGAAAAAATACCTCAGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATA
1 TGAAAAACAGAAATTG--AAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATA
21404366 TGAGTTGATTTTTT
64 TGAGTTGATTTTTT
* * * ** * **
21404380 TGAAAGACAAAAATTGAAAATAGCTCAGCGCATGAGCCAAGGCTCAACTCACCTCTCGCAATATG
1 TGAAAAACAGAAATTGAAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATG
21404445 AGTTGATTTTTTTT
66 AGTTGA--TTTTTT
** ** *** ** * * * * *
21404459 TGAAAGGCAGAAATTGAAAA-A-CGGAAATTGAAAATACCTCG-GCGTGTGACCTGAGGCTCAAC
1 TGAAAAACAGAAATTGAAAATACCTCAGCGTG-TGAT--CT-GAG-G-CTCAACTCA--C-C-TC
* * * * *
21404521 TCGC-CTCTTACAATACGAGTTGATTTT
56 TCGCAAT-AT-GAGT-TGA-TT--TTTT
* * *
21404548 TTTG-ACAACAGAAATTGAAATTACCTCAGCGTGT-CT-TGAGGCTCAACTCACCTCTCGCAATA
1 --TGAAAAACAGAAATTGAAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATA
21404610 TGAGTTGATTTTTT
64 TGAGTTGATTTTTT
* * ** *
21404624 TGAAAAACAGAAATTGAAAATACCTCAGCATGT-CT-TGAGGCTCAACTCATTTCTCACAATATG
1 TGAAAAACAGAAATTGAAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATG
21404687 AGTTGATTTTTTTT
66 AGTTGA--TTTTTT
* * * **
21404701 TGAAAAACAGAAATTGAAAATACCTCAGCATGT-CT-TGAGGCTCAACTAATTTCTCGCAATATG
1 TGAAAAACAGAAATTGAAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATG
*
21404764 AGTTGA--ATTT
66 AGTTGATTTTTT
* *
21404774 TG-AAAACAGAAATTGAAATTACCTCAGCGTGT-CT-TGAGGCTCAACTCA
1 TGAAAAACAGAAATTGAAAATACCTCAGCGTGTGATCTGAGGCTCAACTCA
21404822 TTTTGAACAG
Statistics
Matches: 412, Mismatches: 80, Indels: 63
0.74 0.14 0.11
Matches are distributed among these distances:
72 43 0.10
73 5 0.01
74 2 0.00
75 60 0.15
76 4 0.01
77 134 0.33
78 4 0.01
79 91 0.22
80 5 0.01
81 7 0.02
82 7 0.02
83 1 0.00
84 1 0.00
85 7 0.02
86 8 0.02
87 6 0.01
88 2 0.00
89 4 0.01
90 14 0.03
91 3 0.01
92 4 0.01
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (77 bp):
TGAAAAACAGAAATTGAAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATG
AGTTGATTTTTT
Found at i:21404431 original size:77 final size:78
Alignment explanation
Indices: 21404263--21404478 Score: 265
Period size: 79 Copynumber: 2.7 Consensus size: 78
21404253 ATGTGACCCG
* * * * *
21404263 AGGCTCAACTCACATCTCGCAATGTGAGTTGATTTTTTTGAAAAATATAAATTGAAAAAATACCT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAAAAATTG--AAAATACCT
* ** * *
21404328 CAGTGTGTGATCTGA
64 CAGCGCATGAGCTCA
*
21404343 A-GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAAAAATTGAAAATAGCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAAAAATTGAAAATACCTCA
21404407 GCGCATGAGC-CA
66 GCGCATGAGCTCA
* *
21404419 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAGGCAGAAATTGAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTTGAAAGACAAAAATTGAAAA
21404479 ACGGAAATTG
Statistics
Matches: 120, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
76 2 0.02
77 46 0.38
79 71 0.59
80 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.30
Consensus pattern (78 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAAAAATTGAAAATACCTCA
GCGCATGAGCTCA
Found at i:21404614 original size:244 final size:242
Alignment explanation
Indices: 21403886--21404720 Score: 913
Period size: 244 Copynumber: 3.4 Consensus size: 242
21403876 AACAGACATT
*
21403886 AAAAACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATAGCTCAGCGCATGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
** * * * *
21403951 TTGATTTTTTG-AAACTTAACTTGAAAAGCAGATTTTGAAAATACCTCGATATGTGA-CTGAGGT
66 TTGATTTTTTGAAAACAGAAATTGAAAAACAGATTTTGAAAATACCTCGACATGTGACCTGAGGC
* * * *
21404014 TCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTAAAAGACTCAACTCAA
131 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATT-GAA-A-TTACCTCAG
* *
21404077 C-TCTCGCAGAAATTAAAAAGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTG
193 CGTGT-GC-----TT--GAAGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTTTG
* * *
21404135 AAAAAAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCT-AACTCACTTCTCGCAATA
1 ----AAAAACAGAAATTGAAAATAGCTCAGCGCATGAGCCAAGGCTCAACTCACCTCTCGCAATA
*
21404199 TGAGTTGA-TTTTTGAAAACAG-AATCTGAAAAACAGATTTTGAAAATACCTCGACATGTGACCC
62 TGAGTTGATTTTTTGAAAACAGAAAT-TGAAAAACAGATTTTGAAAATACCTCGACATGTGACCT
* * * * *
21404262 GAGGCTCAACTCACATCTCGCAATGTGAGTTGATTTTTTTGAAAAATATAAATTGAAAAAATACC
126 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTG--AAATTACC
* *
21404327 TCAGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
189 TCAGCGTGTGCT-TGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
* *
21404382 AAAGACAAAAATTGAAAATAGCTCAGCGCATGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATAGCTCAGCGCATGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
* * ** * *
21404447 TTGATTTTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTG
66 TTGA---TTTTTTGAAA-ACAGAAATTGAAAAACAGATTTTGAAAATACCTCGACATGTGACCTG
* ** * *
21404512 AGGCTCAACTCGCCTCTTACAATACGAGTTGATTTTTTTG-ACAACAGAAATTGAAATTACCTCA
127 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAATTACCTCA
*
21404576 GCGTGT-CTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
192 GCGTGTGCTTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
* * ** ** *
21404626 AAAAACAGAAATTGAAAATACCTCA--GCATG-TCTTGAGGCTCAACTCATTTCTCACAATATGA
1 AAAAACAGAAATTGAAAATAGCTCAGCGCATGAGC-CAAGGCTCAACTCACCTCTCGCAATATGA
21404688 GTTGATTTTTTTTTGAAAAACAGAAATTGAAAA
65 GTTGA---TTTTTTG-AAAACAGAAATTGAAAA
21404721 TACCTCAGCA
Statistics
Matches: 507, Mismatches: 57, Indels: 47
0.83 0.09 0.08
Matches are distributed among these distances:
241 1 0.00
242 57 0.11
243 41 0.08
244 88 0.17
245 1 0.00
246 15 0.03
247 9 0.02
248 50 0.10
249 71 0.14
250 4 0.01
251 8 0.02
252 62 0.12
253 72 0.14
254 6 0.01
255 20 0.04
256 2 0.00
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.29
Consensus pattern (242 bp):
AAAAACAGAAATTGAAAATAGCTCAGCGCATGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTTGAAAACAGAAATTGAAAAACAGATTTTGAAAATACCTCGACATGTGACCTGAGGC
TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAATTACCTCAGCGT
GTGCTTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
Found at i:21404733 original size:77 final size:75
Alignment explanation
Indices: 21404472--21404824 Score: 471
Period size: 77 Copynumber: 4.7 Consensus size: 75
21404462 AAGGCAGAAA
* * * *** * *
21404472 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTTACAATAC
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGT--CTTGAGGCTCAACTCATTTCTCACAATAT
21404537 GAGTTGATTTTT
64 GAGTTGATTTTT
* * ** *
21404549 TTG-ACAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCACAATATGA
21404613 GTTGATTTTT
66 GTTGATTTTT
*
21404623 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCACAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCACAATATGA
21404688 GTTGATTTTTTT
66 GTTGA--TTTTT
* * *
21404700 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTAATTTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCACAATATGA
*
21404765 GTTGA--ATT
66 GTTGATTTTT
*
21404773 TTG-AAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTT
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTT
21404825 TGAACAGAAA
Statistics
Matches: 252, Mismatches: 21, Indels: 11
0.89 0.07 0.04
Matches are distributed among these distances:
72 46 0.18
73 5 0.02
74 39 0.15
75 60 0.24
76 26 0.10
77 76 0.30
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.31
Consensus pattern (75 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCACAATATGA
GTTGATTTTT
Found at i:21404808 original size:149 final size:148
Alignment explanation
Indices: 21404472--21404824 Score: 485
Period size: 149 Copynumber: 2.4 Consensus size: 148
21404462 AAGGCAGAAA
* * * *** *
21404472 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTTACAATAC
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGT--CTTGAGGCTCAACTCATTTCTCACAATAC
* * * *
21404537 GAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTC
64 GAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTAACCTC
*
21404602 TCGCAATATGAGTTGATTTTT
129 TCGCAATATGAGTTGA-TATT
* *
21404623 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCACAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCACAATACGA
**
21404688 GTTGATTTTTTTTTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTAATTT
66 GTTGA--TTTTTTTG-AAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTAACCT
21404753 CTCGCAATATGAGTTGA-ATT
128 CTCGCAATATGAGTTGATATT
*
21404773 TTG-AAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTT
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTT
21404825 TGAACAGAAA
Statistics
Matches: 181, Mismatches: 18, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
149 77 0.43
150 5 0.03
151 39 0.22
152 60 0.33
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.31
Consensus pattern (148 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCACAATACGA
GTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTAACCTCTC
GCAATATGAGTTGATATT
Found at i:21404844 original size:49 final size:49
Alignment explanation
Indices: 21404778--21404873 Score: 183
Period size: 49 Copynumber: 2.0 Consensus size: 49
21404768 GAATTTTGAA
*
21404778 AACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTTTG
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTTG
21404827 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
21404874 CTCACAATAT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (49 bp):
AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTTG
Found at i:21404859 original size:121 final size:121
Alignment explanation
Indices: 21404706--21404945 Score: 417
Period size: 121 Copynumber: 2.0 Consensus size: 121
21404696 TTTTTTGAAA
* *
21404706 AACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTAATTTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTAATTTCTCACAATATGAGTTGAA
* *
21404771 TTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTTTG
66 TTTTGAAAACAAAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTTG
* * *
21404827 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCACAATATGAGTTGAA
1 AACAGAAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTAATTTCTCACAATATGAGTTGAA
21404892 TTTTGAAAACAAAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
66 TTTTGAAAACAAAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
21404946 CTCGCAATAT
Statistics
Matches: 112, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
121 112 1.00
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.31
Consensus pattern (121 bp):
AACAGAAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTAATTTCTCACAATATGAGTTGAA
TTTTGAAAACAAAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTTG
Found at i:21404936 original size:72 final size:72
Alignment explanation
Indices: 21404827--21404967 Score: 264
Period size: 72 Copynumber: 2.0 Consensus size: 72
21404817 ACTCATTTTG
*
21404827 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCACAATATGAGTTGAA
1 AACAAAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCACAATATGAGTTGAA
21404892 TTTTGAA
66 TTTTGAA
*
21404899 AACAAAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
1 AACAAAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCACAATATGAGTTGAA
21404964 TTTT
66 TTTT
21404968 TTTTTTGAAA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 67 1.00
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (72 bp):
AACAAAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCACAATATGAGTTGAA
TTTTGAA
Found at i:21405116 original size:54 final size:55
Alignment explanation
Indices: 21405016--21405121 Score: 144
Period size: 54 Copynumber: 1.9 Consensus size: 55
21405006 GAACCGAGGC
* *
21405016 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGCAGAAATTGAAAAGGT
* * *
21405070 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAA-CATAAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAAAAAGCAGAAATTGAAAA
21405122 CAGAAATTGA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
54 34 0.76
55 11 0.24
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (55 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGCAGAAATTGAAAAGGT
Found at i:21405128 original size:13 final size:13
Alignment explanation
Indices: 21405101--21405134 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
21405091 GAGTTGATTC
*
21405101 TTGAACAACATAAA
1 TTGAA-AACAGAAA
21405115 TTGAAAACAGAAA
1 TTGAAAACAGAAA
21405128 TTGAAAA
1 TTGAAAA
21405135 TACCTCAGCG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.59, C:0.09, G:0.12, T:0.21
Consensus pattern (13 bp):
TTGAAAACAGAAA
Found at i:21405182 original size:140 final size:140
Alignment explanation
Indices: 21404972--21405599 Score: 1168
Period size: 140 Copynumber: 4.5 Consensus size: 140
21404962 AATTTTTTTT
21404972 TTGAAAGACAGAAATTGAAAATACCTCAGCATGTGAACC-GAGGCTCAACTCACCTCTCGCAATA
1 TTGAAA-ACAGAAATTGAAAATACCTCAGC--GTG-ACCTGAGGCTCAACTCACCTCTCGCAATA
21405036 TGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTC
62 TGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTC
*
21405101 TTGAACAACATAAA
127 TTGAACAACGTAAA
21405115 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
*
21405180 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACTTCTCGCAATATGAGTTGATTCTTGA
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
21405245 ACAACGTAAA
131 ACAACGTAAA
21405255 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
21405320 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
21405385 ACAACGTAAA
131 ACAACGTAAA
21405395 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
*
21405460 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTTAACCCACCTCTCGCAATATGAGTTGATTCTTGA
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
21405525 ACAACGTAAA
131 ACAACGTAAA
* *
21405535 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACTTGAGGCTCAACTCACCTATCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
21405600 TTGAAATTAA
Statistics
Matches: 478, Mismatches: 6, Indels: 5
0.98 0.01 0.01
Matches are distributed among these distances:
139 3 0.01
140 446 0.93
142 23 0.05
143 6 0.01
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.25
Consensus pattern (140 bp):
TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
ACAACGTAAA
Found at i:21405256 original size:54 final size:54
Alignment explanation
Indices: 21405156--21405261 Score: 135
Period size: 54 Copynumber: 1.9 Consensus size: 54
21405146 GACCTGAGGC
*
21405156 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTA-AAATTGAAAAGGT
* * *
21405210 TCAACCCACTTCTCGCAATATGAGTTGATTCTTGAACAACGT-AAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAA-AAAGTAAAATTGAAAA
21405262 CAGAAATTGA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
54 32 0.71
55 9 0.20
56 4 0.09
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (54 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAATTGAAAAGGT
Found at i:21405396 original size:54 final size:54
Alignment explanation
Indices: 21405296--21405401 Score: 144
Period size: 54 Copynumber: 1.9 Consensus size: 54
21405286 GACCTGAGGC
*
21405296 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTA-AAATTGAAAAGGT
* *
21405350 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGT-AAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAA-AAAGTAAAATTGAAAA
21405402 CAGAAATTGA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
54 33 0.72
55 9 0.20
56 4 0.09
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (54 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAATTGAAAAGGT
Found at i:21405666 original size:72 final size:71
Alignment explanation
Indices: 21405532--21405697 Score: 226
Period size: 72 Copynumber: 2.3 Consensus size: 71
21405522 TGAACAACGT
* * ** *
21405532 AAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACTTGAGGCTCAACTCACCTATCGCAATAT
1 AAATTAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTATAGCAATAT
21405597 GAGTTG
66 GAGTTG
* *
21405603 AAATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATA
1 AAATTAAAA-ACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTATAGCAATA
21405668 TGAGTTG
65 TGAGTTG
**
21405675 ATTTTGAAAAACAAAAATT-AAAA
1 AAATT-AAAAACAAAAATTGAAAA
21405698 GGCTTAACTC
Statistics
Matches: 84, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
71 12 0.14
72 68 0.81
73 4 0.05
ACGTcount: A:0.42, C:0.20, G:0.15, T:0.23
Consensus pattern (71 bp):
AAATTAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTATAGCAATAT
GAGTTG
Found at i:21408549 original size:195 final size:195
Alignment explanation
Indices: 21408217--21408606 Score: 753
Period size: 195 Copynumber: 2.0 Consensus size: 195
21408207 TTAATCAATT
21408217 TTAAGTCCCTCACTTCTCATTCTCCACGGATTTGGTAAATCACTAGGGCTGAATCCCCGTACACC
1 TTAAGTCCCTCACTTCTCATTCTCCACGGATTTGGTAAATCACTAGGGCTGAATCCCCGTACACC
*
21408282 TCCAAGATCTTGATGTTTCGTTCGATAGCTGCACGAAGCCCGATGATGCAGGCCTCATATTCTGA
66 TCCAAGATCTTGATGTTTCGTTCGATAGCTGCACGAAGCCCGATGATACAGGCCTCATATTCTGA
21408347 GATATTATTGGTACAGAAGAAGTTCAGTCTTGCAGTAAACGGATAATGATTCCCGTCTGGTGATA
131 GATATTATTGGTACAGAAGAAGTTCAGTCTTGCAGTAAACGGATAATGATTCCCGTCTGGTGATA
*
21408412 TTAAGTCCCTCACTTCTCATTCTCCACGGATTTGGTAAATCACTAGGGCTGAGTCCCCGTACACC
1 TTAAGTCCCTCACTTCTCATTCTCCACGGATTTGGTAAATCACTAGGGCTGAATCCCCGTACACC
21408477 TCCAAGATCTTGATGTTTCGTTCGATAGCTGCACGAAGCCCGATGATACAGGCCTCATATTCTGA
66 TCCAAGATCTTGATGTTTCGTTCGATAGCTGCACGAAGCCCGATGATACAGGCCTCATATTCTGA
*
21408542 GATATTATTGGTACAGAAGAAGTTCAGTCTTGCAGTAAACGGATAATGATTCCTGTCTGGTGATA
131 GATATTATTGGTACAGAAGAAGTTCAGTCTTGCAGTAAACGGATAATGATTCCCGTCTGGTGATA
21408607 CCAGGATTGC
Statistics
Matches: 192, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
195 192 1.00
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (195 bp):
TTAAGTCCCTCACTTCTCATTCTCCACGGATTTGGTAAATCACTAGGGCTGAATCCCCGTACACC
TCCAAGATCTTGATGTTTCGTTCGATAGCTGCACGAAGCCCGATGATACAGGCCTCATATTCTGA
GATATTATTGGTACAGAAGAAGTTCAGTCTTGCAGTAAACGGATAATGATTCCCGTCTGGTGATA
Found at i:21416960 original size:26 final size:26
Alignment explanation
Indices: 21416920--21416979 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
21416910 TAGGTTTTTT
* *
21416920 TTTTTCTTTTTTTTTTTTAGGGTTAGG
1 TTTTT-TTTTCTTTTTTTAGGGTTAAG
*
21416947 TTTTTTTTTCTTTTTTTTGGGTTAAG
1 TTTTTTTTTCTTTTTTTAGGGTTAAG
21416973 TTTTTTT
1 TTTTTTT
21416980 GGGGGGCTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 25 0.83
27 5 0.17
ACGTcount: A:0.07, C:0.03, G:0.15, T:0.75
Consensus pattern (26 bp):
TTTTTTTTTCTTTTTTTAGGGTTAAG
Found at i:21416977 original size:27 final size:28
Alignment explanation
Indices: 21416918--21416979 Score: 83
Period size: 27 Copynumber: 2.2 Consensus size: 28
21416908 GTTAGGTTTT
*
21416918 TTTTTTTCTTTTTTTTTTTTAGGGTTAG
1 TTTTTTTCTTTCTTTTTTTTAGGGTTAG
*
21416946 GTTTTTT-TTTCTTTTTTTT-GGGTTAAG
1 TTTTTTTCTTTCTTTTTTTTAGGGTT-AG
21416973 TTTTTTT
1 TTTTTTT
21416980 GGGGGGCTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
26 5 0.17
27 19 0.63
28 6 0.20
ACGTcount: A:0.06, C:0.03, G:0.15, T:0.76
Consensus pattern (28 bp):
TTTTTTTCTTTCTTTTTTTTAGGGTTAG
Found at i:21417647 original size:30 final size:30
Alignment explanation
Indices: 21417613--21417670 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
21417603 GGAAAATGAC
**
21417613 AGCTCCGTTAAGTCTGTAATGAAAAATGGT
1 AGCTCCGTTAAGTCTGTAACAAAAAATGGT
* * *
21417643 AGCTCTGTTACGTTTGTAACAAAAAATG
1 AGCTCCGTTAAGTCTGTAACAAAAAATG
21417671 ATTAGTGGTG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (30 bp):
AGCTCCGTTAAGTCTGTAACAAAAAATGGT
Found at i:21418556 original size:16 final size:16
Alignment explanation
Indices: 21418504--21418559 Score: 76
Period size: 16 Copynumber: 3.5 Consensus size: 16
21418494 CGTTTGGTTC
21418504 ACTGTAATGGAATAGA
1 ACTGTAATGGAATAGA
* * *
21418520 GCTATAATTGAATAGA
1 ACTGTAATGGAATAGA
*
21418536 GCTGTAATGGAATAGA
1 ACTGTAATGGAATAGA
21418552 ACTGTAAT
1 ACTGTAAT
21418560 AAATAATTCA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.41, C:0.07, G:0.23, T:0.29
Consensus pattern (16 bp):
ACTGTAATGGAATAGA
Found at i:21418627 original size:44 final size:46
Alignment explanation
Indices: 21418541--21418635 Score: 133
Period size: 46 Copynumber: 2.1 Consensus size: 46
21418531 ATAGAGCTGT
*
21418541 AATGGAATAGAACTGTAATAAATAATTCAATTGTTTGGTTGG-ATGG
1 AATGGAATAGAACTGTAAT-AAGAATTCAATTGTTTGGTTGGAATGG
*
21418587 AATGGAATAGAACTGTAAT-AGAATTC-TTGTGTTTGGTTGGAATGG
1 AATGGAATAGAACTGTAATAAGAATTCAAT-TGTTTGGTTGGAATGG
21418632 AATG
1 AATG
21418636 ACGTTGTAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
43 1 0.02
44 17 0.38
45 8 0.18
46 19 0.42
ACGTcount: A:0.35, C:0.04, G:0.26, T:0.35
Consensus pattern (46 bp):
AATGGAATAGAACTGTAATAAGAATTCAATTGTTTGGTTGGAATGG
Found at i:21418872 original size:34 final size:38
Alignment explanation
Indices: 21418794--21418872 Score: 96
Period size: 34 Copynumber: 2.2 Consensus size: 38
21418784 CATATTTTAC
*
21418794 TATAATTATTACTAAATATAATTTAATAAAATTCTTAA
1 TATAATTATTACTAAATATAATTTAATAAAATTCATAA
*
21418832 TATAATTATTA-T-TATATGAA-TTAA-AAAA-TCATAA
1 TATAATTATTACTAAATAT-AATTTAATAAAATTCATAA
21418866 TATAATT
1 TATAATT
21418873 TATGAGTTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
34 12 0.32
35 4 0.11
36 8 0.21
37 3 0.08
38 11 0.29
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (38 bp):
TATAATTATTACTAAATATAATTTAATAAAATTCATAA
Found at i:21422883 original size:14 final size:15
Alignment explanation
Indices: 21422858--21422891 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
21422848 CGAATTTATC
*
21422858 TATTTTTAAATATTT
1 TATTTTTAAATAATT
21422873 TATTTTT-AATAATT
1 TATTTTTAAATAATT
21422887 TATTT
1 TATTT
21422892 CCCTAGATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
TATTTTTAAATAATT
Found at i:21425668 original size:2 final size:2
Alignment explanation
Indices: 21425661--21425700 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
21425651 AGTTGGCTCT
21425661 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
21425701 ATTGGTGAAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:21430556 original size:48 final size:48
Alignment explanation
Indices: 21430473--21430876 Score: 490
Period size: 48 Copynumber: 8.4 Consensus size: 48
21430463 TACCAACGCT
* * * * *
21430473 ATGTCCCAGACATGGTCTTACA-T-GAATCCAAATATCATCGCTGATGCC
1 ATGTCCCAAACATGGTCTTACATTGGCA--CATATATCAACGCCGATGCC
* * * * * * *
21430521 ATATTCCAGACATAGTCTTACATTGGCACATATATCAATGCCAATGTC
1 ATGTCCCAAACATGGTCTTACATTGGCACATATATCAACGCCGATGCC
* *
21430569 GTGTCCCAAACATGGTCTTACATTGGCACATATATCAACGCTGATGCC
1 ATGTCCCAAACATGGTCTTACATTGGCACATATATCAACGCCGATGCC
21430617 ATGTCCCAAACATGGTCTTACATTGGCACATATATCAACGCCGATGCC
1 ATGTCCCAAACATGGTCTTACATTGGCACATATATCAACGCCGATGCC
* *
21430665 ATGTCCCAAACATGGTCTTACATTGGCACATATATCAACACTGATGCC
1 ATGTCCCAAACATGGTCTTACATTGGCACATATATCAACGCCGATGCC
21430713 ATGTCCCAAACATGGTCTTAC-TCTGGCACATATATCAACGCCGATGCC
1 ATGTCCCAAACATGGTCTTACAT-TGGCACATATATCAACGCCGATGCC
* *
21430761 ATGTCCCAGACATGGTCTTACACTGGCACATATATCAACGCCGATGCC
1 ATGTCCCAAACATGGTCTTACATTGGCACATATATCAACGCCGATGCC
* * * ** * * * * *
21430809 ATATCCCAGATATGGTCTTACACAGGCACACATCTCGGATGCCGAAGCC
1 ATGTCCCAAACATGGTCTTACATTGGCACATATATC-AACGCCGATGCC
*
21430858 ATGTCCCAGACATGGTCTT
1 ATGTCCCAAACATGGTCTT
21430877 CCACGGAATC
Statistics
Matches: 314, Mismatches: 37, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
47 1 0.00
48 284 0.90
49 27 0.09
50 2 0.01
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (48 bp):
ATGTCCCAAACATGGTCTTACATTGGCACATATATCAACGCCGATGCC
Found at i:21439472 original size:20 final size:20
Alignment explanation
Indices: 21439447--21439484 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
21439437 GTTTATTCGC
*
21439447 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
21439467 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
21439485 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:21441144 original size:28 final size:28
Alignment explanation
Indices: 21441112--21441180 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
21441102 GCGTAGATCA
21441112 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
21441140 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
21441168 CGATA-TACCCCTA
1 CGAAATTACCCCTA
21441181 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:21447479 original size:20 final size:20
Alignment explanation
Indices: 21447454--21447491 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
21447444 GTTTATTCGC
*
21447454 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
21447474 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
21447492 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:21449148 original size:28 final size:28
Alignment explanation
Indices: 21449116--21449184 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
21449106 GCGTAGATCA
21449116 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
21449144 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
21449172 CGATA-TACCCCTA
1 CGAAATTACCCCTA
21449185 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:21455482 original size:20 final size:20
Alignment explanation
Indices: 21455457--21455494 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
21455447 GTTTATTCGC
*
21455457 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
21455477 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
21455495 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:21456782 original size:24 final size:24
Alignment explanation
Indices: 21456718--21456859 Score: 220
Period size: 23 Copynumber: 6.0 Consensus size: 24
21456708 GCTTTATCAT
*
21456718 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
21456743 ATAACTGGGGCA-AAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
21456766 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
21456789 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
21456813 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
21456836 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
21456860 CTTCCTCCAT
Statistics
Matches: 110, Mismatches: 3, Indels: 9
0.90 0.02 0.07
Matches are distributed among these distances:
23 63 0.57
24 39 0.35
25 8 0.07
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:21456817 original size:70 final size:71
Alignment explanation
Indices: 21456718--21456857 Score: 223
Period size: 70 Copynumber: 2.0 Consensus size: 71
21456708 GCTTTATCAT
*
21456718 ATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCA-AAGCCCTTTTAATAACTGGGGCATAAG
1 ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAG
21456782 CCCTTTA
65 CCCTTTA
*
21456789 ATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAG
1 ATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAG
21456852 CCCTTT
65 CCCTTT
21456858 TACTTCCTCC
Statistics
Matches: 65, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
70 47 0.72
71 18 0.28
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (71 bp):
ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGC
CCTTTA
Found at i:21456818 original size:47 final size:47
Alignment explanation
Indices: 21456739--21456859 Score: 226
Period size: 47 Copynumber: 2.6 Consensus size: 47
21456729 CCTAGCCTCT
21456739 TTTAATAACTGGGGCA-AAGCCCTTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
*
21456785 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
21456832 TTTAATAACTGGGGCATAAGCCCTTTTA
1 TTTAATAACTGGGGCATAAGCCCTTTTA
21456860 CTTCCTCCAT
Statistics
Matches: 72, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
46 16 0.22
47 56 0.78
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (47 bp):
TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
Found at i:21456928 original size:9 final size:9
Alignment explanation
Indices: 21456914--21456970 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
21456904 ATCTCATGTG
21456914 CATATCATA
1 CATATCATA
*
21456923 CATATCATGTG
1 CATATCA--TA
21456934 CATATCATA
1 CATATCATA
* *
21456943 CATGTCATGTG
1 CATATCA--TA
21456954 CATATCATA
1 CATATCATA
21456963 CATATCAT
1 CATATCAT
21456971 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:21456930 original size:20 final size:20
Alignment explanation
Indices: 21456902--21456972 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
21456892 GCATTTATGA
*
21456902 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
21456922 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
21456942 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
21456962 ACATATCATGT
1 ACATATCATGT
21456973 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:21456937 original size:11 final size:11
Alignment explanation
Indices: 21456907--21456961 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
21456897 TATGAACATC
21456907 TCATGTGCATA
1 TCATGTGCATA
*
21456918 TCA--TACATA
1 TCATGTGCATA
21456927 TCATGTGCATA
1 TCATGTGCATA
* *
21456938 TCA--TACATG
1 TCATGTGCATA
21456947 TCATGTGCATA
1 TCATGTGCATA
21456958 TCAT
1 TCAT
21456962 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:21457037 original size:25 final size:25
Alignment explanation
Indices: 21457009--21457056 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
21456999 ATATATAAAC
* * *
21457009 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
21457034 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
21457057 CATTTAAGGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:21463828 original size:28 final size:28
Alignment explanation
Indices: 21463782--21463850 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
21463772 TTTAAAACCC
*
21463782 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
21463809 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
21463837 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
21463851 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:21466406 original size:19 final size:20
Alignment explanation
Indices: 21466382--21466419 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
21466372 GGTACCACCA
21466382 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
21466401 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
21466420 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:21466762 original size:92 final size:91
Alignment explanation
Indices: 21466649--21466817 Score: 284
Period size: 92 Copynumber: 1.8 Consensus size: 91
21466639 GCCCCTAAGT
* *
21466649 GAACTCGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAAC
1 GAACTCGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAAC
21466714 GAGTTCGGATGCCTAGTACATCTCAC
66 GAGTTCGGATGCCTAGTACATCTCAC
* * *
21466740 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTC-GACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
21466805 CGAGTTCGGATGC
65 CGAGTTCGGATGC
21466818 TCAACCATCC
Statistics
Matches: 72, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
91 6 0.08
92 66 0.92
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (91 bp):
GAACTCGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTACATCTCAC
Found at i:21466814 original size:46 final size:46
Alignment explanation
Indices: 21466644--21466814 Score: 197
Period size: 46 Copynumber: 3.7 Consensus size: 46
21466634 AACCCGCCCC
* * * *
21466644 TAAGTGAACTC-GACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * * *
21466689 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA--CAT-TTGCATCCA
* *
21466736 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
21466781 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
21466815 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 14, Indels: 13
0.80 0.11 0.10
Matches are distributed among these distances:
43 4 0.04
44 3 0.03
45 12 0.11
46 78 0.74
47 2 0.02
48 3 0.03
49 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:21478721 original size:25 final size:26
Alignment explanation
Indices: 21478674--21478722 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
21478664 AAAAGTCTTG
* * *
21478674 TTTTTAAATTTTATAATATTTAATAA
1 TTTTAAAATATTATAATAATTAATAA
21478700 TTTTAAAATATTAT-ATAATTAAT
1 TTTTAAAATATTATAATAATTAAT
21478723 TCTATCATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 8 0.40
26 12 0.60
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (26 bp):
TTTTAAAATATTATAATAATTAATAA
Found at i:21479015 original size:2 final size:2
Alignment explanation
Indices: 21479008--21479037 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
21478998 AAAATAACAA
21479008 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21479038 TTAAGTACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21479076 original size:14 final size:13
Alignment explanation
Indices: 21479045--21479084 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
21479035 TATTTAAGTA
* *
21479045 CTTTTTAAAAATA
1 CTTTTTAAAATTT
21479058 CTTTTTAAAATTT
1 CTTTTTAAAATTT
21479071 CTTTTTTAAAATTT
1 C-TTTTTAAAATTT
21479085 TTATAATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 12 0.50
14 12 0.50
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.57
Consensus pattern (13 bp):
CTTTTTAAAATTT
Found at i:21483825 original size:13 final size:14
Alignment explanation
Indices: 21483801--21483829 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
21483791 ATTATGTTAA
21483801 ATATATATATATAC
1 ATATATATATATAC
21483815 ATATA-ATATATAC
1 ATATATATATATAC
21483828 AT
1 AT
21483830 TAAAATGAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (14 bp):
ATATATATATATAC
Found at i:21489216 original size:58 final size:56
Alignment explanation
Indices: 21489153--21489290 Score: 154
Period size: 58 Copynumber: 2.4 Consensus size: 56
21489143 TTTTTATAGT
* * *
21489153 ATTATATATTATGATTT-TTTAATTCATA-TAATAATAATTATATTAAGAATTTTATTAA
1 ATTATATATTAT--TTTATTAAATT-ATATTAATAATAATTATATTAA-AATATGATTAA
* *
21489211 ATTATATATTATTTTATTAAATTATATTTAATAATAATTATGTTAAAATATGGTTAA
1 ATTATATATTATTTTATTAAATTATA-TTAATAATAATTATATTAAAATATGATTAA
*
21489268 ATTATTTATTATTTTTATTAAAT
1 ATTATATATTA-TTTTATTAAAT
21489291 CTGCAAAGGT
Statistics
Matches: 70, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
56 6 0.09
57 24 0.34
58 40 0.57
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.54
Consensus pattern (56 bp):
ATTATATATTATTTTATTAAATTATATTAATAATAATTATATTAAAATATGATTAA
Found at i:21490680 original size:182 final size:182
Alignment explanation
Indices: 21490373--21490739 Score: 664
Period size: 182 Copynumber: 2.0 Consensus size: 182
21490363 AAAGATATCA
21490373 TATGAGGGTAACACACTTATGACAAGGTCACTGGGCAAACATCTAAAAAGTTGCTTTTATAATGA
1 TATGAGGGTAACACACTTATGACAAGGTCACTGGGCAAACATCTAAAAAGTTGCTTTTATAATGA
* *
21490438 TATATAATAAATGAGAGTTCAATCATTGTACTTTAGTGAAATGACTCCATGATTAAATAATATTG
66 TATATAATAAAGGAGAGTTCAATCATTGTACATTAGTGAAATGACTCCATGATTAAATAATATTG
21490503 TAATTAATAGACGAAGAGTCAAAACTTAATTACAAATTATTTGA-GCCCTAAT
131 TAATTAATAGACGAAGAGTCAAAACTTAATTACAAATTATTT-ATGCCCTAAT
*
21490555 TATGAGGGTAACACACTTATGACAAGGTCATTGGGCAAACATCTAAAAAGTTGCTTTTATAATGA
1 TATGAGGGTAACACACTTATGACAAGGTCACTGGGCAAACATCTAAAAAGTTGCTTTTATAATGA
* *
21490620 TATATAATAAGGGAGAGTTCAATCATTGTACATTAGTGAAATGACTCCATGATTAAATAATTTTG
66 TATATAATAAAGGAGAGTTCAATCATTGTACATTAGTGAAATGACTCCATGATTAAATAATATTG
*
21490685 TAATTAATAGACGAAGAGTCAGAACTTAATTACAAATTATTTATGCCCTAAT
131 TAATTAATAGACGAAGAGTCAAAACTTAATTACAAATTATTTATGCCCTAAT
21490737 TAT
1 TAT
21490740 ATATGTCCAA
Statistics
Matches: 178, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
181 1 0.01
182 177 0.99
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (182 bp):
TATGAGGGTAACACACTTATGACAAGGTCACTGGGCAAACATCTAAAAAGTTGCTTTTATAATGA
TATATAATAAAGGAGAGTTCAATCATTGTACATTAGTGAAATGACTCCATGATTAAATAATATTG
TAATTAATAGACGAAGAGTCAAAACTTAATTACAAATTATTTATGCCCTAAT
Found at i:21492817 original size:15 final size:16
Alignment explanation
Indices: 21492797--21492829 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
21492787 GACACGGCCA
21492797 TGTGTCTC-AACCGTG
1 TGTGTCTCTAACCGTG
*
21492812 TGTGTCTCTACCCGTG
1 TGTGTCTCTAACCGTG
21492828 TG
1 TG
21492830 GAGGACATGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.09, C:0.27, G:0.27, T:0.36
Consensus pattern (16 bp):
TGTGTCTCTAACCGTG
Found at i:21495805 original size:20 final size:21
Alignment explanation
Indices: 21495780--21495819 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
21495770 CCCTTGAAAC
*
21495780 AGGGC-ACATGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
*
21495800 AGGGCAACACGTCCGTGTGG
1 AGGGCAACACGCCCGTGTGG
21495820 TCATCATAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.20, C:0.25, G:0.40, T:0.15
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:21497399 original size:94 final size:95
Alignment explanation
Indices: 21497020--21497425 Score: 311
Period size: 94 Copynumber: 4.3 Consensus size: 95
21497010 ATGCCGACGC
* * ** * *
21497020 CATGTCCCAGACATAGTCTTACACTAGCTTTCATATAGCGAGGTCGATGCCATGTTCCAGACAGG
1 CATGTCCCAGACAT-GTCTTACACTAGCTTACACATCTCAAGGTCGATGCCATGTCCCAGACAGG
21497085 TCTTACACT-GACTCTTATCTATC--AGTGTTGATG
65 TCTTACACTAG-CTC-TA-C-ATCTGAG-GTTGATG
* * * * *
21497118 CCATGTCCCAGACAAGTCTTACACT-G---ACACACCACAAGCT-GACGCCATGTCCCAGACAGG
1 -CATGTCCCAGACATGTCTTACACTAGCTTACACATCTCAAGGTCGATGCCATGTCCCAGACAGG
* * * *
21497178 TCTTACACTAGCTTGTATATCGCGAGGCCT-ATG
65 TCTTACACTAGC-TCTACATC-TGAGG-TTGATG
* * * * * * *
21497211 CATGTCCCAGACATGTCTTACACTAGC-T-CTCGTCTCAATGCCGATG-CATGTCCCAAACATGC
1 CATGTCCCAGACATGTCTTACACTAGCTTACACATCTCAAGGTCGATGCCATGTCCCAGACAGGT
*
21497273 CTTACACTAGCT-TAAACATCTCGAGGTCGATG
66 CTTACACTAGCTCT--ACATCT-GAGGTTGATG
* * *
21497305 CATGTCCCAGACATGTCTTACACTAGCTTAAACATCTCGAGGTCGATG-CATGTCCCAGACATGT
1 CATGTCCCAGACATGTCTTACACTAGCTTACACATCTCAAGGTCGATGCCATGTCCCAGACAGGT
* *
21497369 CTTACACTGGCTCT-CATGCTGTGGTTGATG
66 CTTACACTAGCTCTACAT-CTGAGGTTGATG
* *
21497399 CATTTCCCATACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
21497426 ACACATATCA
Statistics
Matches: 247, Mismatches: 42, Indels: 41
0.75 0.13 0.12
Matches are distributed among these distances:
91 3 0.01
92 24 0.10
93 36 0.15
94 116 0.47
95 6 0.02
96 37 0.15
97 2 0.01
98 10 0.04
99 13 0.05
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (95 bp):
CATGTCCCAGACATGTCTTACACTAGCTTACACATCTCAAGGTCGATGCCATGTCCCAGACAGGT
CTTACACTAGCTCTACATCTGAGGTTGATG
Found at i:21497416 original size:46 final size:46
Alignment explanation
Indices: 21497020--21497425 Score: 308
Period size: 48 Copynumber: 8.6 Consensus size: 46
21497010 ATGCCGACGC
* *
21497020 CATGTCCCAGACATAGTCTTACACTAGCTTTCATATAGCGAGGTCGATG
1 CATGTCCCAGACAT-GTCTTACACTAGCTTACATCT--CGAGGTCGATG
* * * * *
21497069 CCATGTTCCAGACAGGTCTTACACTGACTCTTATC-TATC-AGTGTTGATG
1 -CATGTCCCAGACATGTCTTACACT-A-GCTTA-CATCTCGAG-GTCGATG
* * * * * *
21497118 CCATGTCCCAGACAAGTCTTACACT-GAC--ACACCACAAGCT-GACG
1 -CATGTCCCAGACATGTCTTACACTAG-CTTACATCTCGAGGTCGATG
* * * * *
21497162 CCATGTCCCAGACAGGTCTTACACTAGCTTGTATATCGCGAGGCCTATG
1 -CATGTCCCAGACATGTCTTACACTAGC-T-TACATCTCGAGGTCGATG
* * * *
21497211 CATGTCCCAGACATGTCTTACACTAGCTCT-CGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCT-TACATCTCGAGGTCGATG
* *
21497257 CATGTCCCAAACATGCCTTACACTAGCTTAAACATCTCGAGGTCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTT--ACATCTCGAGGTCGATG
21497305 CATGTCCCAGACATGTCTTACACTAGCTTAAACATCTCGAGGTCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTT--ACATCTCGAGGTCGATG
* * *
21497353 CATGTCCCAGACATGTCTTACACTGGCTCT-CATGCT-GTGGTTGATG
1 CATGTCCCAGACATGTCTTACACTAGCT-TACAT-CTCGAGGTCGATG
* *
21497399 CATTTCCCATACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
21497426 ACACATATCA
Statistics
Matches: 294, Mismatches: 44, Indels: 40
0.78 0.12 0.11
Matches are distributed among these distances:
44 29 0.10
45 5 0.02
46 73 0.25
47 5 0.02
48 119 0.40
49 43 0.15
50 13 0.04
51 6 0.02
52 1 0.00
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTTACATCTCGAGGTCGATG
Found at i:21497419 original size:142 final size:139
Alignment explanation
Indices: 21497015--21497426 Score: 418
Period size: 142 Copynumber: 2.9 Consensus size: 139
21497005 TTAAGATGCC
** * *
21497015 GACGCCATGTCCCAGACATAGTCTTACACTAGCTTTCATATAGCGAGGTCGATGCCATGTTCCAG
1 GACGCCATGTCCCAGACAT-GTCTTACACTAGCTTAAATATCGCGAGGTCGATG-CATGTCCCAG
* * * * *
21497080 ACAGGTCTTACACTGACTCTTATCTATCAGTGTTGATGCCATGTCCCAGACAAGTCTTACACT-G
64 ACATGTCTTACACTGGCTCTCATCTAT--G-GTTGATG-CATGTCCCAAACATGTCTTACACTAG
*
21497144 -ACACACCACAAGCT
125 CAAACACCACAAGCT
* ** * *
21497158 GACGCCATGTCCCAGACAGGTCTTACACTAGCTTGTATATCGCGAGGCCTATGCATGTCCCAGAC
1 GACGCCATGTCCCAGACATGTCTTACACTAGCTTAAATATCGCGAGGTCGATGCATGTCCCAGAC
* * ** *
21497223 ATGTCTTACACTAGCTCTCGTCTCAAT-GCCGATGCATGTCCCAAACATGCCTTACACTAGCTTA
66 ATGTCTTACACTGGCTCTCATCT--ATGGTTGATGCATGTCCCAAACATGTCTTACACTAGC--A
* * * *
21497287 AACATCTCGAGGT
127 AACACCACAAGCT
* * *
21497300 CGATG-CATGTCCCAGACATGTCTTACACTAGCTTAAACATCTCGAGGTCGATGCATGTCCCAGA
1 -GACGCCATGTCCCAGACATGTCTTACACTAGCTTAAATATCGCGAGGTCGATGCATGTCCCAGA
* * *
21497364 CATGTCTTACACTGGCTCTCATGCTGTGGTTGATGCATTTCCCATACATGTCTTACACTAGCA
65 CATGTCTTACACTGGCTCTCAT-CTATGGTTGATGCATGTCCCAAACATGTCTTACACTAGCA
21497427 CACATATCAC
Statistics
Matches: 222, Mismatches: 38, Indels: 21
0.79 0.14 0.07
Matches are distributed among these distances:
138 21 0.09
139 6 0.03
140 1 0.00
141 30 0.14
142 139 0.63
143 25 0.11
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (139 bp):
GACGCCATGTCCCAGACATGTCTTACACTAGCTTAAATATCGCGAGGTCGATGCATGTCCCAGAC
ATGTCTTACACTGGCTCTCATCTATGGTTGATGCATGTCCCAAACATGTCTTACACTAGCAAACA
CCACAAGCT
Found at i:21511859 original size:66 final size:66
Alignment explanation
Indices: 21511784--21511916 Score: 239
Period size: 66 Copynumber: 2.0 Consensus size: 66
21511774 ATTGATATGA
*
21511784 TTGAAACTTTGTAACATGGTCTGTTTATGTATTATAATTAATAAAATATAATTGACTATATTTGG
1 TTGAAACTTTGTAACATGGTCTGTTTATGTACTATAATTAATAAAATATAATTGACTATATTTGG
21511849 T
66 T
* *
21511850 TTGAAACTTTGTAACATGGTTTGTTTATGTACTATAATTAATAAAATATAATTGATTATATTTGG
1 TTGAAACTTTGTAACATGGTCTGTTTATGTACTATAATTAATAAAATATAATTGACTATATTTGG
21511915 T
66 T
21511916 T
1 T
21511917 AAGTGTTTCC
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.35, C:0.05, G:0.14, T:0.47
Consensus pattern (66 bp):
TTGAAACTTTGTAACATGGTCTGTTTATGTACTATAATTAATAAAATATAATTGACTATATTTGG
T
Found at i:21514450 original size:29 final size:27
Alignment explanation
Indices: 21514416--21514518 Score: 89
Period size: 29 Copynumber: 3.6 Consensus size: 27
21514406 TACTCGATCA
*
21514416 CGCACACTTAGTGCCATGTGATTTAAGCC
1 CGCACACTTAGTGCCAT-T-ATTTAAGCT
* ** *
21514445 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTTAAGCT
*
21514474 CGCACACTTAGTGCCATACATTTCAAGCT
1 CGCACACTTAGTGCCAT-TATTT-AAGCT
*
21514503 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
21514519 ATCTCGTCAC
Statistics
Matches: 60, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
28 2 0.03
29 58 0.97
ACGTcount: A:0.28, C:0.32, G:0.17, T:0.23
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTTAAGCT
Found at i:21520681 original size:49 final size:48
Alignment explanation
Indices: 21520614--21520879 Score: 192
Period size: 49 Copynumber: 5.6 Consensus size: 48
21520604 TGTTGTGTGT
*
21520614 CAGTGTAAGACCTGTCTGGGACATGGCATTGATGCCGATAGATGAGAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATTCA-GCCGATAGATGAGAGC
* * * * * * *
21520663 CAGTGTAAAACCTATCTGGGACATGGCA-TCAG-C--TTGTTGTGTGT
1 CAGTGTAAGACCTGTCTGGGACATGGCATTCAGCCGATAGATGAGAGC
* *
21520707 CAGTGTAAGACCTGTCTGGGACATGGCA-TCGACACCGACAGATGAGAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATTC-A-GCCGATAGATGAGAGC
* * * * *
21520756 CAGTGTAAGATCTGTCTAGGACATGGCA-TCAGCCTCGATATATGAAAGT
1 CAGTGTAAGACCTGTCTGGGACATGGCATTCAG-C-CGATAGATGAGAGC
* * * * **
21520805 CAATGTAAAACCTGTCCGGGACATGGCA-TCTA-CTTTGAT-G-TGCTAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATTC-AGC--CGATAGATGAGAGC
21520852 CAGTGTAAGACCATGTCTGGGACATGGC
1 CAGTGTAAGACC-TGTCTGGGACATGGC
21520880 GTCAGCAACT
Statistics
Matches: 170, Mismatches: 37, Indels: 21
0.75 0.16 0.09
Matches are distributed among these distances:
44 34 0.20
45 1 0.01
46 1 0.01
47 16 0.09
48 19 0.11
49 98 0.58
50 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (48 bp):
CAGTGTAAGACCTGTCTGGGACATGGCATTCAGCCGATAGATGAGAGC
Found at i:21520705 original size:93 final size:93
Alignment explanation
Indices: 21520574--21520788 Score: 340
Period size: 93 Copynumber: 2.3 Consensus size: 93
21520564 ACAAGCTAGA
* *
21520574 GTAAGACCTGTCTAGGACATGGTATCAACTTGTTGTGTGTCAGTGTAAGACCTGTCTGGGACATG
1 GTAAGACCTGTCTAGGACATGGCATCAGCTTGTTGTGTGTCAGTGTAAGACCTGTCTGGGACATG
* ** *
21520639 GCATTGATGCCGATAGATGAGAGCCAGT
66 GCATCGACACCGACAGATGAGAGCCAGT
* * *
21520667 GTAAAACCTATCTGGGACATGGCATCAGCTTGTTGTGTGTCAGTGTAAGACCTGTCTGGGACATG
1 GTAAGACCTGTCTAGGACATGGCATCAGCTTGTTGTGTGTCAGTGTAAGACCTGTCTGGGACATG
21520732 GCATCGACACCGACAGATGAGAGCCAGT
66 GCATCGACACCGACAGATGAGAGCCAGT
*
21520760 GTAAGATCTGTCTAGGACATGGCATCAGC
1 GTAAGACCTGTCTAGGACATGGCATCAGC
21520789 CTCGATATAT
Statistics
Matches: 109, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 109 1.00
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.26
Consensus pattern (93 bp):
GTAAGACCTGTCTAGGACATGGCATCAGCTTGTTGTGTGTCAGTGTAAGACCTGTCTGGGACATG
GCATCGACACCGACAGATGAGAGCCAGT
Found at i:21520733 original size:44 final size:44
Alignment explanation
Indices: 21520574--21520736 Score: 182
Period size: 44 Copynumber: 3.6 Consensus size: 44
21520564 ACAAGCTAGA
* * *
21520574 GTAAGACCTGTCTAGGACATGGTATCAACTTGTTGTGTGTCAGT
1 GTAAGACCTGTCTGGGACATGGCATCAGCTTGTTGTGTGTCAGT
* * * * * *
21520618 GTAAGACCTGTCTGGGACATGGCATTGATGCCGATAGATGAGAGCCAGT
1 GTAAGACCTGTCTGGGACATGGCA-TCA-G-C--TTGTTGTGTGTCAGT
* *
21520667 GTAAAACCTATCTGGGACATGGCATCAGCTTGTTGTGTGTCAGT
1 GTAAGACCTGTCTGGGACATGGCATCAGCTTGTTGTGTGTCAGT
21520711 GTAAGACCTGTCTGGGACATGGCATC
1 GTAAGACCTGTCTGGGACATGGCATC
21520737 GACACCGACA
Statistics
Matches: 95, Mismatches: 19, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
44 56 0.59
45 2 0.02
46 1 0.01
47 2 0.02
48 2 0.02
49 32 0.34
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.28
Consensus pattern (44 bp):
GTAAGACCTGTCTGGGACATGGCATCAGCTTGTTGTGTGTCAGT
Found at i:21520772 original size:142 final size:146
Alignment explanation
Indices: 21520614--21520879 Score: 357
Period size: 142 Copynumber: 1.8 Consensus size: 146
21520604 TGTTGTGTGT
* * * *
21520614 CAGTGTAAGACCTGTCTGGGACATGGCATTGATG-C-CGATAGATGAGAGCCAGTGTAAAACCTA
1 CAGTGTAAGACCTGTCTAGGACATGGCA-TCA-GCCTCGATAGATGAAAGCCAATGTAAAACCTA
* * *
21520677 TCTGGGACATGGCATC-AGC-TTGTTGTG-T-GTCAGTGTAAGACC-TGTCTGGGACATGGCATC
64 TCCGGGACATGGCATCTA-CTTTGATGTGCTAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
21520737 GACACCGACAGATGAGAGC
128 GACACCGACAGATGAGAGC
* * * *
21520756 CAGTGTAAGATCTGTCTAGGACATGGCATCAGCCTCGATATATGAAAGTCAATGTAAAACCTGTC
1 CAGTGTAAGACCTGTCTAGGACATGGCATCAGCCTCGATAGATGAAAGCCAATGTAAAACCTATC
21520821 CGGGACATGGCATCTACTTTGATGTGCTAGCCAGTGTAAGACCATGTCTGGGACATGGC
66 CGGGACATGGCATCTACTTTGATGTGCTAGCCAGTGTAAGACCATGTCTGGGACATGGC
21520880 GTCAGCAACT
Statistics
Matches: 106, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
140 1 0.01
141 3 0.03
142 65 0.61
143 8 0.08
144 1 0.01
145 13 0.12
146 15 0.14
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (146 bp):
CAGTGTAAGACCTGTCTAGGACATGGCATCAGCCTCGATAGATGAAAGCCAATGTAAAACCTATC
CGGGACATGGCATCTACTTTGATGTGCTAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGAC
ACCGACAGATGAGAGC
Found at i:21524041 original size:15 final size:15
Alignment explanation
Indices: 21524005--21524041 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
21523995 CAATAGGATC
* *
21524005 ATCATTAAGACCATG
1 ATCATTCAGACCAGG
21524020 ATCATTCAGACCAGG
1 ATCATTCAGACCAGG
21524035 ATCATTC
1 ATCATTC
21524042 TCTTCCCTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.27
Consensus pattern (15 bp):
ATCATTCAGACCAGG
Found at i:21529134 original size:11 final size:11
Alignment explanation
Indices: 21529120--21529169 Score: 68
Period size: 11 Copynumber: 4.7 Consensus size: 11
21529110 TTTCAATATT
21529120 CTCTCAAATTC
1 CTCTCAAATTC
21529131 CTCTCAAA-T-
1 CTCTCAAATTC
*
21529140 CTCTCAAATTT
1 CTCTCAAATTC
*
21529151 CTCTTAAATTC
1 CTCTCAAATTC
21529162 CTCTCAAA
1 CTCTCAAA
21529170 ACTCTCATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
9 8 0.24
10 2 0.06
11 24 0.71
ACGTcount: A:0.30, C:0.32, G:0.00, T:0.38
Consensus pattern (11 bp):
CTCTCAAATTC
Found at i:21529141 original size:31 final size:31
Alignment explanation
Indices: 21529118--21529176 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
21529108 TCTTTCAATA
21529118 TTCTCTCAAATTCCTCTCAAATCTCTCAAAT
1 TTCTCTCAAATTCCTCTCAAATCTCTCAAAT
* *
21529149 TTCTCTTAAATTCCTCTCAAAACTCTCA
1 TTCTCTCAAATTCCTCTCAAATCTCTCA
21529177 TTAATTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.29, C:0.32, G:0.00, T:0.39
Consensus pattern (31 bp):
TTCTCTCAAATTCCTCTCAAATCTCTCAAAT
Found at i:21529144 original size:20 final size:21
Alignment explanation
Indices: 21529112--21529169 Score: 73
Period size: 20 Copynumber: 2.7 Consensus size: 21
21529102 CTTCAATCTT
21529112 TCAATATTCTCTCAAATTCCTC
1 TCAA-ATTCTCTCAAATTCCTC
*
21529134 TCAAA-TCTCTCAAATTTCTC
1 TCAAATTCTCTCAAATTCCTC
*
21529154 TTAAATTCCTCTCAAA
1 TCAAATT-CTCTCAAA
21529170 ACTCTCATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 18 0.56
21 2 0.06
22 12 0.38
ACGTcount: A:0.31, C:0.29, G:0.00, T:0.40
Consensus pattern (21 bp):
TCAAATTCTCTCAAATTCCTC
Found at i:21530341 original size:7 final size:7
Alignment explanation
Indices: 21530329--21530355 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
21530319 TAGTGGATTC
21530329 GTATTTA
1 GTATTTA
21530336 GTATTTA
1 GTATTTA
21530343 GTATTTA
1 GTATTTA
21530350 GTATTT
1 GTATTT
21530356 TTTTATTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.15, T:0.59
Consensus pattern (7 bp):
GTATTTA
Found at i:21530893 original size:30 final size:30
Alignment explanation
Indices: 21530852--21530917 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
21530842 CGACGATGCA
*
21530852 GGCCCATCAACAGCG-CCCACACAATCACCC
1 GGCCCAGCAACAG-GACCCACACAATCACCC
* * *
21530882 GGCCCAGCAACAGGACCTACACAGTCACCG
1 GGCCCAGCAACAGGACCCACACAATCACCC
21530912 GGCCCA
1 GGCCCA
21530918 ACAGTTCAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 1 0.03
30 30 0.97
ACGTcount: A:0.29, C:0.45, G:0.20, T:0.06
Consensus pattern (30 bp):
GGCCCAGCAACAGGACCCACACAATCACCC
Found at i:21530994 original size:18 final size:18
Alignment explanation
Indices: 21530971--21531013 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
21530961 TGCCAGGTAC
*
21530971 GTATCCTAGCCCTTTTAT
1 GTATCCTAGCCCTTATAT
21530989 GTATCCTAGCCCTTATAT
1 GTATCCTAGCCCTTATAT
*
21531007 GTTTCCT
1 GTATCCT
21531014 TTTTCTAGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.16, C:0.28, G:0.12, T:0.44
Consensus pattern (18 bp):
GTATCCTAGCCCTTATAT
Found at i:21531700 original size:116 final size:116
Alignment explanation
Indices: 21531398--21531780 Score: 646
Period size: 115 Copynumber: 3.3 Consensus size: 116
21531388 TATTTGTACA
* *
21531398 AACATTTTGAATCTTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATAAGATAAAAGGTTGTTTTAAATAAAGTAAT
*
21531463 TGTAATTTACTTTTATATTTTTAATAAAA-AGAAATTATTTTAAATAAGGC
66 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
*
21531513 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATAAGATAAAAGGTTGTTTTAAATAAAGTAAT
21531578 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
66 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
* *
21531629 AACATTTT-AGATATTTTTATATTATTTCATGTGATAATATAAAAGGTTGTTTTAAATAAAGTAA
1 AACATTTTGA-ATATTTTTATATTATTTCATGTAATAAGATAAAAGGTTGTTTTAAATAAAGTAA
* * *
21531693 TTATAATTTACTTTT-TATTTTTAATAAAATGAAAATTATTTTAAATAAAGC
65 TTGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
*
21531744 AATATTTTGAATATTTTTATATTATTTCATGTAATAA
1 AACATTTTGAATATTTTTATATTATTTCATGTAATAA
21531781 AATATAAATA
Statistics
Matches: 255, Mismatches: 10, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
115 161 0.63
116 94 0.37
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.47
Consensus pattern (116 bp):
AACATTTTGAATATTTTTATATTATTTCATGTAATAAGATAAAAGGTTGTTTTAAATAAAGTAAT
TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
Found at i:21535044 original size:126 final size:126
Alignment explanation
Indices: 21534800--21535220 Score: 644
Period size: 126 Copynumber: 3.3 Consensus size: 126
21534790 GCCCAAGTTA
* * * * *
21534800 TTTCAAAAACCACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTGTTGCTGAAAA
1 TTTCAAAGACTACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTCTTTCAGTACTTTTGCTGACAA
* *
21534865 TGCATCCTGCTTGAAGCATTTTTGACACTATTTATGCAGACACGTCTTTTCAAAATTATTT
66 TGCATCCTGCTTGAAGCATTTTTGACACTATTTACGCAGACACGTCTTCTCAAAATTATTT
* *
21534926 TTTCAAAGACTACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTCTTTCAATACTTTTGCAGACAA
1 TTTCAAAGACTACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTCTTTCAGTACTTTTGCTGACAA
* * * * * *
21534991 TGCATCCTGCTTGAAGCGTTTTTTACACTATTTGCACAAACACTTCTTCTCAAAATTATTT
66 TGCATCCTGCTTGAAGCATTTTTGACACTATTTACGCAGACACGTCTTCTCAAAATTATTT
* * * *
21535052 TTTCAGATACTACTGTAGCAAAAGAGCGTCCATGTGGGAGCTTCTTTCAGTACTTTTGCTGACAA
1 TTTCAAAGACTACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTCTTTCAGTACTTTTGCTGACAA
*
21535117 TGCATCCTGCTTGAAGCATTTTTGACACTATTTACGCAGACACGTCTTCTCAAATTTATTT
66 TGCATCCTGCTTGAAGCATTTTTGACACTATTTACGCAGACACGTCTTCTCAAAATTATTT
* *
21535178 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTAGAAGCTT
1 TTTCAAAGACTACTGTAGCAAAAGAGCGTCCACGTGGAAGCTT
21535221 TTTTAGATTA
Statistics
Matches: 263, Mismatches: 32, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
126 263 1.00
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.33
Consensus pattern (126 bp):
TTTCAAAGACTACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTCTTTCAGTACTTTTGCTGACAA
TGCATCCTGCTTGAAGCATTTTTGACACTATTTACGCAGACACGTCTTCTCAAAATTATTT
Found at i:21535470 original size:96 final size:99
Alignment explanation
Indices: 21535301--21535500 Score: 250
Period size: 96 Copynumber: 2.0 Consensus size: 99
21535291 TAAATGCCCT
* * * **
21535301 AAAACCCTAAACCCTAAAATCCTAATCTAATTTTTTTTAAAATTTATAATTAATTTACTCAAGTA
1 AAAACCATAAACACTAAAATCCTAATCTAA-TTTTTTTAAAATTTATAATTAATTTAATCAACAA
21535366 ACCTTAAACCCTAATTTATTTAA-TTTTTTCCTTA
65 ACCTTAAACCCTAATTTATTTAATTTTTTTCCTTA
*
21535400 AAAACCATAAACACT-AAA-CCATAATCTAA-TTTTTTAAAA-TTAGTAATTAATTTAATTAACA
1 AAAACCATAAACACTAAAATCC-TAATCTAATTTTTTTAAAATTTA-TAATTAATTTAATCAACA
*
21535461 AACAC-TAAACCTTAATTTATTTAATTTTTTTTCCTTA
64 AAC-CTTAAACCCTAATTTATTTAA-TTTTTTTCCTTA
21535498 AAA
1 AAA
21535501 CCCTAAAATT
Statistics
Matches: 89, Mismatches: 7, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
95 3 0.03
96 45 0.51
97 3 0.03
98 25 0.28
99 13 0.15
ACGTcount: A:0.42, C:0.16, G:0.01, T:0.41
Consensus pattern (99 bp):
AAAACCATAAACACTAAAATCCTAATCTAATTTTTTTAAAATTTATAATTAATTTAATCAACAAA
CCTTAAACCCTAATTTATTTAATTTTTTTCCTTA
Found at i:21536728 original size:3 final size:3
Alignment explanation
Indices: 21536676--21536710 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
21536666 GTTATAATTG
21536676 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
21536711 TAATAGGTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:21536741 original size:20 final size:20
Alignment explanation
Indices: 21536680--21536741 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
21536670 TAATTGTTAT
* *
21536680 TATTATTATTA-TTATTA-T
1 TATTATTATTAGTTAATAGA
* *
21536698 TATTATTATTATTTAATAGG
1 TATTATTATTAGTTAATAGA
21536718 TATTATTATTAAGTTAA-AGA
1 TATTATTATT-AGTTAATAGA
21536738 TATT
1 TATT
21536742 TACTAAATTA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
18 11 0.30
19 5 0.14
20 16 0.43
21 5 0.14
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.56
Consensus pattern (20 bp):
TATTATTATTAGTTAATAGA
Found at i:21537151 original size:11 final size:12
Alignment explanation
Indices: 21537121--21537154 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
21537111 GTATGTTTAC
21537121 TTATTATATAAG
1 TTATTATATAAG
21537133 TATATTAT-TAAG
1 T-TATTATATAAG
21537145 TTATTATATA
1 TTATTATATA
21537155 TATATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 6 0.30
12 8 0.40
13 6 0.30
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (12 bp):
TTATTATATAAG
Found at i:21538046 original size:25 final size:25
Alignment explanation
Indices: 21538030--21538076 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
21538020 TTTGATATAT
*
21538030 AATGAATT-TATTGAATTTATATTG
1 AATGAATTGAATTGAATTTATATTG
*
21538054 ATTGAATTGAATTGAATTTATAT
1 AATGAATTGAATTGAATTTATAT
21538077 GATATATGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (25 bp):
AATGAATTGAATTGAATTTATATTG
Found at i:21538640 original size:18 final size:19
Alignment explanation
Indices: 21538619--21538659 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
21538609 AATGAAATGA
21538619 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
21538637 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
21538656 GAAA
1 GAAA
21538660 CATGAACCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:21540060 original size:25 final size:25
Alignment explanation
Indices: 21540013--21540062 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
21540003 TTGGCCATCG
21540013 AAAAGAAAGAGGAAAGAAAAAAAAT
1 AAAAGAAAGAGGAAAGAAAAAAAAT
21540038 AAAAGAAA-A-GAGAAGAAACAAAAAT
1 AAAAGAAAGAGGA-AAGAAA-AAAAAT
21540063 TCCTTATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 2 0.09
24 7 0.30
25 14 0.61
ACGTcount: A:0.76, C:0.02, G:0.18, T:0.04
Consensus pattern (25 bp):
AAAAGAAAGAGGAAAGAAAAAAAAT
Found at i:21546926 original size:39 final size:39
Alignment explanation
Indices: 21546845--21547007 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
21546835 TATGGTAACC
* *
21546845 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
21546885 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
21546924 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
21546963 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
21547002 CGCACA
1 CGCACA
21547008 TTCATACACA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:21549293 original size:2 final size:2
Alignment explanation
Indices: 21549286--21549311 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
21549276 GAAAAGAGGT
21549286 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
21549312 AACTAAACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:21550297 original size:24 final size:24
Alignment explanation
Indices: 21550226--21550299 Score: 77
Period size: 23 Copynumber: 3.2 Consensus size: 24
21550216 ACAGTATACT
21550226 TAAATATTATTCTT--AAAATATA
1 TAAATATTATTCTTAAAAAATATA
* * *
21550248 TTAAT-TGATT-TTAAAATCATAT-
1 TAAATATTATTCTTAAAA-AATATA
21550270 TAAATATTATTCTTAAAAAATATA
1 TAAATATTATTCTTAAAAAATATA
21550294 TAAATA
1 TAAATA
21550300 GAAATAGATG
Statistics
Matches: 40, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
20 2 0.05
21 4 0.10
22 10 0.25
23 12 0.30
24 12 0.30
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.45
Consensus pattern (24 bp):
TAAATATTATTCTTAAAAAATATA
Found at i:21550462 original size:12 final size:12
Alignment explanation
Indices: 21550432--21550469 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
21550422 AAAATAAATT
* *
21550432 ATAATATTTATA
1 ATAAAATTTAAA
21550444 A-AAAATTTAAA
1 ATAAAATTTAAA
21550455 ATAAAATTTAAA
1 ATAAAATTTAAA
21550467 ATA
1 ATA
21550470 CTTAAATCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
11 9 0.39
12 14 0.61
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
ATAAAATTTAAA
Found at i:21553421 original size:64 final size:64
Alignment explanation
Indices: 21553320--21553444 Score: 214
Period size: 64 Copynumber: 2.0 Consensus size: 64
21553310 ATATCTGGGA
*
21553320 TATGGCATCGGTATCGAAATGAGATCCCGTGTAAGACCATATCTGGGATATGGCACCGGCAGGG
1 TATGGCATCGGCATCGAAATGAGATCCCGTGTAAGACCATATCTGGGATATGGCACCGGCAGGG
* * *
21553384 TATGGCATCGGCATCGAGATGAGATCCCGTGTAAGACCATATTTGGGATATGGCATCGGCA
1 TATGGCATCGGCATCGAAATGAGATCCCGTGTAAGACCATATCTGGGATATGGCACCGGCA
21553445 TCATTAAGAG
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
64 57 1.00
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.23
Consensus pattern (64 bp):
TATGGCATCGGCATCGAAATGAGATCCCGTGTAAGACCATATCTGGGATATGGCACCGGCAGGG
Found at i:21553438 original size:112 final size:111
Alignment explanation
Indices: 21553291--21553492 Score: 289
Period size: 112 Copynumber: 1.8 Consensus size: 111
21553281 ATGTGAGTAT
* *
21553291 TGAGATCCCGTATAAGACCATATCTGGGATATGGCATCGGTATCGA-AATGAGATCCCGTGTAAG
1 TGAGATCCCGTATAAGACCATATCTGGGATATGGCATCGGCATC-ATAA-GAGATCCCGTATAAG
* *
21553355 ACCATATCTGGGATATGGCACCGGCAGGGTATGGCATCGGCATCGAGA
64 ACCACATCTGGGACATGGCACCGGCAGGGTATGGCATCGGCATCGAGA
* *
21553403 TGAGATCCCGTGTAAGACCATATTTGGGATATGGCATCGGCATCATTAAGAGATCCCGTATAAGA
1 TGAGATCCCGTATAAGACCATATCTGGGATATGGCATCGGCATCA-TAAGAGATCCCGTATAAGA
* * *
21553468 CTACGTCTGGGACATGGCATCGGCA
65 CCACATCTGGGACATGGCACCGGCA
21553493 TCAGTATGAG
Statistics
Matches: 79, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
111 1 0.01
112 76 0.96
113 2 0.03
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (111 bp):
TGAGATCCCGTATAAGACCATATCTGGGATATGGCATCGGCATCATAAGAGATCCCGTATAAGAC
CACATCTGGGACATGGCACCGGCAGGGTATGGCATCGGCATCGAGA
Found at i:21553456 original size:48 final size:47
Alignment explanation
Indices: 21553384--21553622 Score: 219
Period size: 48 Copynumber: 5.0 Consensus size: 47
21553374 ACCGGCAGGG
* *
21553384 TATGGCATCGGCATCGAGATGAGATCCCGTGTAAGACCATATTTGGGA
1 TATGGCATCGGCATC-ATATGAGATCCCGTGTAAGACCATATCTGGGA
* * * **
21553432 TATGGCATCGGCATCATTAAGAGATCCCGTATAAGACTACGTCTGGGA
1 TATGGCATCGGCATCA-TATGAGATCCCGTGTAAGACCATATCTGGGA
* * * *
21553480 CATGGCATCGGCATCAGTATGAGGTCCCATGTAAGACCATATCTAGGA
1 TATGGCATCGGCATCA-TATGAGATCCCGTGTAAGACCATATCTGGGA
* * * * * *
21553528 TATGGCATTGGAATCGATATGAGGTCCCGTATAAGACCATGTCTGGAA
1 TATGGCATCGGCATC-ATATGAGATCCCGTGTAAGACCATATCTGGGA
* * * * *
21553576 CATGGCATCGGCACCGTTATGAGA-CTTCGTGTAAGACCATAGCTGGG
1 TATGGCATCGGCATC-ATATGAGATC-CCGTGTAAGACCATATCTGGG
21553623 CTGTTAGCAT
Statistics
Matches: 152, Mismatches: 36, Indels: 6
0.78 0.19 0.03
Matches are distributed among these distances:
47 2 0.01
48 149 0.98
49 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.25
Consensus pattern (47 bp):
TATGGCATCGGCATCATATGAGATCCCGTGTAAGACCATATCTGGGA
Found at i:21553556 original size:96 final size:96
Alignment explanation
Indices: 21553385--21553588 Score: 277
Period size: 96 Copynumber: 2.1 Consensus size: 96
21553375 CCGGCAGGGT
* * * *
21553385 ATGGCATCGGCATCGAGATGAGATCCCGTGTAAGACCATATTTGGGATATGGCATCGGCATCATT
1 ATGGCATCGGCATCGAGATGAGATCCCATGTAAGACCATATCTAGGATATGGCATCGGAATCATT
* *
21553450 AAGAGATCCCGTATAAGACTACGTCTGGGAC
66 AAGAGATCCCGTATAAGACCACGTCTGGAAC
* *
21553481 ATGGCATCGGCATC-AGTATGAGGTCCCATGTAAGACCATATCTAGGATATGGCATTGGAATCGA
1 ATGGCATCGGCATCGAG-ATGAGATCCCATGTAAGACCATATCTAGGATATGGCATCGGAATC-A
* * *
21553545 -TATGAGGTCCCGTATAAGACCATGTCTGGAAC
64 TTAAGAGATCCCGTATAAGACCACGTCTGGAAC
21553577 ATGGCATCGGCA
1 ATGGCATCGGCA
21553589 CCGTTATGAG
Statistics
Matches: 95, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
95 2 0.02
96 92 0.97
97 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (96 bp):
ATGGCATCGGCATCGAGATGAGATCCCATGTAAGACCATATCTAGGATATGGCATCGGAATCATT
AAGAGATCCCGTATAAGACCACGTCTGGAAC
Found at i:21553597 original size:96 final size:95
Alignment explanation
Indices: 21553385--21553616 Score: 261
Period size: 96 Copynumber: 2.4 Consensus size: 95
21553375 CCGGCAGGGT
* * * * * *
21553385 ATGGCATCGGCATCGAGATGAGATCCCGTGTAAGACCATATTTGGGATATGGCATCGGCATCATT
1 ATGGCATCGGCACCG-TATGAGATCCCATGTAAGACCATATCTAGGATATGGCATCGGAATCATT
* *
21553450 AAGAGATCCCGTATAAGACTACGTCTGGGAC
65 AAGAGATCCCGTATAAGACCACGTCTGGAAC
* * *
21553481 ATGGCATCGGCATCAGTATGAGGTCCCATGTAAGACCATATCTAGGATATGGCATTGGAATCGA-
1 ATGGCATCGGCA-CCGTATGAGATCCCATGTAAGACCATATCTAGGATATGGCATCGGAATC-AT
* * *
21553545 TATGAGGTCCCGTATAAGACCATGTCTGGAAC
64 TAAGAGATCCCGTATAAGACCACGTCTGGAAC
* *
21553577 ATGGCATCGGCACCGTTATGAGA-CTTCGTGTAAGACCATA
1 ATGGCATCGGCACCG-TATGAGATC-CCATGTAAGACCATA
21553617 GCTGGGCTGT
Statistics
Matches: 114, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
95 3 0.03
96 109 0.96
97 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (95 bp):
ATGGCATCGGCACCGTATGAGATCCCATGTAAGACCATATCTAGGATATGGCATCGGAATCATTA
AGAGATCCCGTATAAGACCACGTCTGGAAC
Found at i:21567353 original size:40 final size:40
Alignment explanation
Indices: 21567299--21567429 Score: 124
Period size: 39 Copynumber: 3.3 Consensus size: 40
21567289 GAATTCAATC
* * *
21567299 ACCAACACAAAGCCTACGGGACTTTAAGCTCAG-ATATAGT
1 ACCAGCACGAAGCCTACGGGACCTTAAG-TCAGAATATAGT
* * *
21567339 ACCAGTACGAAGCCTGC-GGACCTTAAGTCCGAATATAGT
1 ACCAGCACGAAGCCTACGGGACCTTAAGTCAGAATATAGT
* * * * *
21567378 ACCAGCACGAAGCCTAC-GGATCTTAAGTCTGGATACAAT
1 ACCAGCACGAAGCCTACGGGACCTTAAGTCAGAATATAGT
*
21567417 TCCAGCACGAAGC
1 ACCAGCACGAAGC
21567430 TTGCGGGTCT
Statistics
Matches: 76, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
38 3 0.04
39 60 0.79
40 13 0.17
ACGTcount: A:0.34, C:0.27, G:0.21, T:0.19
Consensus pattern (40 bp):
ACCAGCACGAAGCCTACGGGACCTTAAGTCAGAATATAGT
Found at i:21567375 original size:39 final size:39
Alignment explanation
Indices: 21567340--21567728 Score: 456
Period size: 39 Copynumber: 9.9 Consensus size: 39
21567330 AGATATAGTA
* * * * *
21567340 CCAGTACGAAGCCTGCGGACCTTAAGTCCGAATATAGTA
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
* * *
21567379 CCAGCACGAAGCCTACGGATCTTAAGTCTGGATACAATT
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
* * * * *
21567418 CCAGCACGAAGCTTGCGGGTCTTTAAGCCCAGATACAATT
1 CCAGCACGAAGCCTGC-GGACCTTAAGTCCGGATACAATT
* * * *
21567458 CCAGCACGAAGCCTGTAGGTCTTTAAGCCCGGATACAATT
1 CCAGCACGAAGCCTG-CGGACCTTAAGTCCGGATACAATT
21567498 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
* * * * *
21567537 CCAGCACAAAGCCTGCAGGTCTTTAAGCCCGGATATAATT
1 CCAGCACGAAGCCTGC-GGACCTTAAGTCCGGATACAATT
* * * *
21567577 CCAGCA-TATAGCCTGCGGGTCTTTAAGCCCGGATACAATT
1 CCAGCACGA-AGCCTGC-GGACCTTAAGTCCGGATACAATT
*
21567617 CCAGCACGAAGCTTGCGGACCTTAAGTCCGGATACAATT
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
* *
21567656 CCAGCACGAAGCTTGCGGACCTTAAGTCCAGATACAATT
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
*
21567695 CCAGCATGAAGCCTGCGGACCTTAAGTCCGGATA
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATA
21567729 TACATCAAAT
Statistics
Matches: 305, Mismatches: 40, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
39 170 0.56
40 134 0.44
41 1 0.00
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
Found at i:21567732 original size:119 final size:118
Alignment explanation
Indices: 21567320--21567728 Score: 507
Period size: 119 Copynumber: 3.5 Consensus size: 118
21567310 GCCTACGGGA
* * * * * * * * * * *
21567320 CTTTAAGCTCAGATATAGTACCAGTACGAAGCCTGCGGACCTTAAGTCCGAATATAGTACCAGCA
1 CTTTAAGCCCAGATACAATTCCAGCATGAAGCCTGCGGACCTTAAGCCCGGATACAATTCCAGCA
* * * *
21567385 CGAAGCCTACGGATCTTAAGTCTGGATACAATTCCAGCACGAAGCTTGCGGGT
66 CGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCTTGCAGGT
* * * *
21567438 CTTTAAGCCCAGATACAATTCCAGCACGAAGCCTGTAGGTCTTTAAGCCCGGATACAATTCCAGC
1 CTTTAAGCCCAGATACAATTCCAGCATGAAGCCTG-CGGACCTTAAGCCCGGATACAATTCCAGC
* *
21567503 ACGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACAAAGCCTGCAGGT
65 ACGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCTTGCAGGT
* * * *
21567557 CTTTAAGCCCGGATATAATTCCAGCAT-ATAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAG
1 CTTTAAGCCCAGATACAATTCCAGCATGA-AGCCTGC-GGACCTTAAGCCCGGATACAATTCCAG
* *
21567621 CACGAAGCTTGCGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCTTGC-GGA
64 CACGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCTTGCAGGT
* * *
21567675 CCTTAAGTCCAGATACAATTCCAGCATGAAGCCTGCGGACCTTAAGTCCGGATA
1 CTTTAAGCCCAGATACAATTCCAGCATGAAGCCTGCGGACCTTAAGCCCGGATA
21567729 TACATCAAAT
Statistics
Matches: 253, Mismatches: 34, Indels: 9
0.85 0.11 0.03
Matches are distributed among these distances:
117 15 0.06
118 63 0.25
119 175 0.69
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (118 bp):
CTTTAAGCCCAGATACAATTCCAGCATGAAGCCTGCGGACCTTAAGCCCGGATACAATTCCAGCA
CGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCTTGCAGGT
Found at i:21571494 original size:28 final size:28
Alignment explanation
Indices: 21571454--21571511 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
21571444 ATGCCATATA
*
21571454 TATCACGAACTTGGACCACTCAACAAGT
1 TATCACAAACTTGGACCACTCAACAAGT
21571482 TATCACAAACTTGGACCACTCAACAAGT
1 TATCACAAACTTGGACCACTCAACAAGT
21571510 TA
1 TA
21571512 AGATTTCTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.38, C:0.28, G:0.12, T:0.22
Consensus pattern (28 bp):
TATCACAAACTTGGACCACTCAACAAGT
Found at i:21574146 original size:32 final size:32
Alignment explanation
Indices: 21574072--21574147 Score: 120
Period size: 30 Copynumber: 2.4 Consensus size: 32
21574062 TTGGTACTTT
* *
21574072 TTATCATTTCACATAATTAAAGTTGGTATTTG
1 TTATCATTTCACAAAATTAAAGTTGATATTTG
21574104 -T-TCATTTCACAAAATTAAAGTTGATATTTG
1 TTATCATTTCACAAAATTAAAGTTGATATTTG
21574134 TTATCATTTCACAA
1 TTATCATTTCACAA
21574148 CCGTGCATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
30 27 0.68
31 2 0.05
32 11 0.28
ACGTcount: A:0.34, C:0.12, G:0.09, T:0.45
Consensus pattern (32 bp):
TTATCATTTCACAAAATTAAAGTTGATATTTG
Found at i:21582397 original size:20 final size:20
Alignment explanation
Indices: 21582364--21582404 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
21582354 TGGGATAATG
*
21582364 AATAATTTAGATATTGTATA
1 AATAAATTAGATATTGTATA
* *
21582384 AATAAATTATATATTTTATA
1 AATAAATTAGATATTGTATA
21582404 A
1 A
21582405 TTATACTCAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (20 bp):
AATAAATTAGATATTGTATA
Found at i:21584599 original size:29 final size:29
Alignment explanation
Indices: 21584550--21584612 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
21584540 ACTTAGTACT
*
21584550 TATTTAATTTATATGTGA-TTTTATAAATA
1 TATTTAATTTATATATGATTTTTAT-AATA
*
21584579 TATTTATTATTATATAT-ATTTTTATAATA
1 TATTTAAT-TTATATATGATTTTTATAATA
21584608 TATTT
1 TATTT
21584613 TAGGAAATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 17 0.57
30 13 0.43
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (29 bp):
TATTTAATTTATATATGATTTTTATAATA
Found at i:21584614 original size:12 final size:13
Alignment explanation
Indices: 21584568--21584613 Score: 56
Period size: 13 Copynumber: 3.2 Consensus size: 13
21584558 TTATATGTGA
21584568 TTTTATAAATATAT
1 TTTTAT-AATATAT
21584582 TTATTATTATATATAT
1 TT-TTA-TA-ATATAT
21584598 TTTTATAATATAT
1 TTTTATAATATAT
21584611 TTT
1 TTT
21584614 AGGAAATAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
13 9 0.31
14 4 0.14
15 7 0.24
16 9 0.31
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TTTTATAATATAT
Found at i:21585753 original size:14 final size:16
Alignment explanation
Indices: 21585734--21585766 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
21585724 TTTTCAATAG
21585734 TTTC-AATTTTTTT-T
1 TTTCAAATTTTTTTCT
21585748 TTTCAAATTTTTTTCT
1 TTTCAAATTTTTTTCT
21585764 TTT
1 TTT
21585767 ATTTCTTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 9 0.53
16 4 0.24
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTCAAATTTTTTTCT
Done.