Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 33 of 203
Found at i:10992294 original size:12 final size:12
Alignment explanation
Indices: 10992272--10992300 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
10992262 CAAATGCCTC
10992272 TAAAA-TAATAA
1 TAAAATTAATAA
10992283 TAAAATTAATAA
1 TAAAATTAATAA
10992295 TAAAAT
1 TAAAAT
10992301 AAGAGTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
TAAAATTAATAA
Found at i:11004084 original size:14 final size:14
Alignment explanation
Indices: 11004034--11004086 Score: 56
Period size: 14 Copynumber: 3.8 Consensus size: 14
11004024 GTTTGTATGT
11004034 ATTTAATATATTGTA
1 ATTT-ATATATTGTA
*
11004049 ATTTATA-ATTATA
1 ATTTATATATTGTA
*
11004062 A-TGACTATATTGTA
1 ATTTA-TATATTGTA
11004076 ATTTATATATT
1 ATTTATATATT
11004087 ATATGTTATG
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
12 2 0.06
13 8 0.26
14 15 0.48
15 6 0.19
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.53
Consensus pattern (14 bp):
ATTTATATATTGTA
Found at i:11006880 original size:17 final size:17
Alignment explanation
Indices: 11006858--11006908 Score: 93
Period size: 17 Copynumber: 3.0 Consensus size: 17
11006848 GACTAATCTC
*
11006858 TATACATCACTTAGGTA
1 TATACATTACTTAGGTA
11006875 TATACATTACTTAGGTA
1 TATACATTACTTAGGTA
11006892 TATACATTACTTAGGTA
1 TATACATTACTTAGGTA
11006909 CATGCCACGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 33 1.00
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (17 bp):
TATACATTACTTAGGTA
Found at i:11008146 original size:27 final size:27
Alignment explanation
Indices: 11008115--11008169 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
11008105 CTTTCCACTT
11008115 TCTAATCAATATACAATTCAGTACCAA
1 TCTAATCAATATACAATTCAGTACCAA
11008142 TCTAATCAATATACAATTCAGTACCAA
1 TCTAATCAATATACAATTCAGTACCAA
11008169 T
1 T
11008170 ACATATTTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.44, C:0.22, G:0.04, T:0.31
Consensus pattern (27 bp):
TCTAATCAATATACAATTCAGTACCAA
Found at i:11008481 original size:112 final size:112
Alignment explanation
Indices: 11008334--11008566 Score: 278
Period size: 112 Copynumber: 2.1 Consensus size: 112
11008324 GATTCACAAA
* *
11008334 AAGCGCCGCAAAAAAATAAGGCCAACGACGTCGTTTAT-TGAGTTTTTGGGCCATTAGCGGCGTT
1 AAGCGCCGCAAAAAAATAAGGCCAACGACGCCGTTT-TCTGAGTTTTTGGGCCATTAACGGCGTT
*
11008398 TT-TACAAAAGCGCC-CTAATGCTCCTG-TCTTTAGCGGCG-TTTTCTGAG
65 TTCT-CAAAAGCGCCGCTAATGAT-CTGTTCTTTAGCGGCGTTTTTCTG-G
* * ** *
11008445 AAGCGCCGCAAAAAACCTAAGGGCAACGACGCCGTTTTCTTTGTTTTTGGGCCTTTAACGGCGTT
1 AAGCGCCGCAAAAAA-ATAAGGCCAACGACGCCGTTTTCTGAGTTTTTGGGCCATTAACGGCGTT
* * * *
11008510 TTCTTAAAAGCGCCGCTAATGATTTGTTTTTTAGCGGCGTTTTTCTGT
65 TTCTCAAAAGCGCCGCTAATGATCTGTTCTTTAGCGGCGTTTTTCTGG
11008558 AAGCGCCGC
1 AAGCGCCGC
11008567 TAATAGTAAT
Statistics
Matches: 104, Mismatches: 12, Indels: 10
0.83 0.10 0.08
Matches are distributed among these distances:
111 16 0.15
112 53 0.51
113 28 0.27
114 7 0.07
ACGTcount: A:0.22, C:0.23, G:0.24, T:0.31
Consensus pattern (112 bp):
AAGCGCCGCAAAAAAATAAGGCCAACGACGCCGTTTTCTGAGTTTTTGGGCCATTAACGGCGTTT
TCTCAAAAGCGCCGCTAATGATCTGTTCTTTAGCGGCGTTTTTCTGG
Found at i:11008948 original size:18 final size:21
Alignment explanation
Indices: 11008902--11008950 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 21
11008892 TAGTTCGACT
11008902 AAATTAATATATAAATCAAAC
1 AAATTAATATATAAATCAAAC
* *
11008923 AAAGTAATATA-AAA-C-ACC
1 AAATTAATATATAAATCAAAC
11008941 AAATTAATAT
1 AAATTAATAT
11008951 CGTGATTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 11 0.44
19 1 0.04
20 3 0.12
21 10 0.40
ACGTcount: A:0.61, C:0.10, G:0.02, T:0.27
Consensus pattern (21 bp):
AAATTAATATATAAATCAAAC
Found at i:11009234 original size:15 final size:16
Alignment explanation
Indices: 11009216--11009246 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
11009206 GCTTTAAGAC
11009216 TTAGGGTT-TAGGGGT
1 TTAGGGTTATAGGGGT
11009231 TTAGGGTTATAGGGGT
1 TTAGGGTTATAGGGGT
11009247 CGTGTTAGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.16, C:0.00, G:0.45, T:0.39
Consensus pattern (16 bp):
TTAGGGTTATAGGGGT
Found at i:11009613 original size:14 final size:14
Alignment explanation
Indices: 11009538--11009615 Score: 66
Period size: 14 Copynumber: 5.6 Consensus size: 14
11009528 TCGGATGTAA
*
11009538 GGGTTTGTGGTTTG
1 GGGTTTGGGGTTTG
11009552 GGGTTTGGGGTTTG
1 GGGTTTGGGGTTTG
* * *
11009566 GGATTTGGGTTTTT
1 GGGTTTGGGGTTTG
* * * *
11009580 GAGTTTAGAGTTTA
1 GGGTTTGGGGTTTG
**
11009594 ATGTTTGGGGTTTG
1 GGGTTTGGGGTTTG
11009608 GGGTTTGG
1 GGGTTTGG
11009616 AAATTTAAGG
Statistics
Matches: 47, Mismatches: 17, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
14 47 1.00
ACGTcount: A:0.08, C:0.00, G:0.45, T:0.47
Consensus pattern (14 bp):
GGGTTTGGGGTTTG
Found at i:11010437 original size:230 final size:230
Alignment explanation
Indices: 11010033--11010541 Score: 752
Period size: 230 Copynumber: 2.2 Consensus size: 230
11010023 AAGAAAACGG
*
11010033 CGCCGTTTTCTTATTACATTTAGTGGCGTTTTATACAAAACGCCGCAACTATGTTTTCTTTGTTA
1 CGCCGTTTTCTTATTACATTTAGTGGCGTTTTA-ATAAAACGCCGCAACTATGTTTTCTTTGTTA
* * * ** *
11010098 CGGGAACGACGTCGTTTTCCATTGTTATTAGTGGCGTTACACCCAAAACGCCGCAAATATATTTT
65 CAGAAACGACATCGTTTTCCAAGGATATTAGTGGCGTTACACCCAAAACGCCGCAAATATATTTT
*
11010163 AAAGATTACACGAGTTTGCGTTAAACGACTGCGTTTGACCTTATATTTAGTGGCATTTATATATA
130 AAAGATTACACGAGTTTGCGTTAAACGACTGCGTTTGACCTTATATTTAGTGGCACTTATATATA
* * **
11010228 AACGTCGCAAACTCGAAATGGTGTTACGAAAAATGA
195 AACGCCGCAAAATCGAAATGGTGTTACGAAAAACAA
*
11010264 CGCCGTTTTCTTATTACATTTAGTGGCGTTTTAGATAAAACGCCGCAAGTATGTTTTCTTTGTTA
1 CGCCGTTTTCTTATTACATTTAGTGGCGTTTTA-ATAAAACGCCGCAACTATGTTTTCTTTGTTA
* *
11010329 CAGAAACGGCATCGTTTT-CAAGGATATTTGTGGCGTTACACCCAAAACGCCGCAAATATATTTT
65 CAGAAACGACATCGTTTTCCAAGGATATTAGTGGCGTTACACCCAAAACGCCGCAAATATATTTT
* * *
11010393 AAAGATTACAGGAGTTTGCTTTAAACGACTGCGTTTGACCTTATATTTAGTGGCGCTTATATATA
130 AAAGATTACACGAGTTTGCGTTAAACGACTGCGTTTGACCTTATATTTAGTGGCACTTATATATA
*
11010458 AACGCCGCAAAATCGAAATGGTGTTACGGAAAACAA
195 AACGCCGCAAAATCGAAATGGTGTTACGAAAAACAA
* *** *
11010494 CGCCGTTTACTTAGTTGGTTTTAGTGGCGCTTTT-ATTAAACGCCGCAA
1 CGCCGTTTTCTTA-TTACATTTAGTGGCG-TTTTAATAAAACGCCGCAA
11010542 ATTTGCATTA
Statistics
Matches: 251, Mismatches: 25, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
230 159 0.63
231 88 0.35
232 4 0.02
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.34
Consensus pattern (230 bp):
CGCCGTTTTCTTATTACATTTAGTGGCGTTTTAATAAAACGCCGCAACTATGTTTTCTTTGTTAC
AGAAACGACATCGTTTTCCAAGGATATTAGTGGCGTTACACCCAAAACGCCGCAAATATATTTTA
AAGATTACACGAGTTTGCGTTAAACGACTGCGTTTGACCTTATATTTAGTGGCACTTATATATAA
ACGCCGCAAAATCGAAATGGTGTTACGAAAAACAA
Found at i:11010893 original size:19 final size:19
Alignment explanation
Indices: 11010871--11010914 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
11010861 CAGACATCTC
*
11010871 CCCCAAATCCCTAAAATTT
1 CCCCAAATCCCTAAAAGTT
* *
11010890 CCCCTAATCCCTAACAGTT
1 CCCCAAATCCCTAAAAGTT
11010909 CCCCAA
1 CCCCAA
11010915 CGTAGTCCAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.32, C:0.43, G:0.02, T:0.23
Consensus pattern (19 bp):
CCCCAAATCCCTAAAAGTT
Found at i:11012453 original size:20 final size:20
Alignment explanation
Indices: 11012428--11012489 Score: 90
Period size: 20 Copynumber: 3.1 Consensus size: 20
11012418 TACAATTTCT
11012428 TAACTTATATAATATTAAGA
1 TAACTTATATAATATTAAGA
*
11012448 TAACTTATATAATATT-ACA
1 TAACTTATATAATATTAAGA
* *
11012467 TAACTTATATTATGTTAAGA
1 TAACTTATATAATATTAAGA
11012487 TAA
1 TAA
11012490 AAAATCGAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
19 16 0.43
20 21 0.57
ACGTcount: A:0.47, C:0.06, G:0.05, T:0.42
Consensus pattern (20 bp):
TAACTTATATAATATTAAGA
Found at i:11012572 original size:26 final size:26
Alignment explanation
Indices: 11012528--11013496 Score: 1854
Period size: 26 Copynumber: 37.4 Consensus size: 26
11012518 CATTTGACTG
*
11012528 ACATAATACAT-TTAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
*
11012553 ACACAATACATAATAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
11012579 ACATAATACATAATAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
* *
11012605 ACATAATACAT-TTAACTTGCAACTT
1 ACATAATACATAATAACTTACAACTT
*
11012630 ACACAATACATAATAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
11012656 ACATAATACATAATAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
11012682 ACATAATACATAATAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
11012708 ACATAATACATAATAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
11012734 ACATAATACATAATAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
11012760 ACATAATACATAATAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
11012786 ACATAATACATAATAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
11012812 ACATAATACATAATAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
11012838 ACATAATACATAATAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
11012864 ACATAATACATAATAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
11012890 ACATAATACATAATAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
11012916 ACATAATACATAATAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
11012942 ACATAATACATAATAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
11012968 ACATAATACATAATAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
11012994 ACATAATACATAATAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
11013020 ACATAATACATAATAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
11013046 ACATAATACATAATAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
11013072 ACATAATACATAATAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
11013098 ACATAATACATAATAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
11013124 ACATAATACATAATAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
11013150 ACATAATACATAATAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
11013176 ACATAATACATAATAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
11013202 ACATAATACATAATAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
11013228 ACATAATACATAATAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
11013254 ACATAATACATAATAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
11013280 ACATAATACATAATAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
11013306 ACATAATACATAATAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
11013332 ACATAATACATAATAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
11013358 ACATAATACATAATAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
11013384 ACATAATACATAATAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
11013410 ACATAATACATAATAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
11013436 ACATAATACATAATAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
*
11013462 ACATAATACAT-TTAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
*
11013487 ACACAATACA
1 ACATAATACA
11013497 ACTTACTAAA
Statistics
Matches: 931, Mismatches: 11, Indels: 4
0.98 0.01 0.00
Matches are distributed among these distances:
25 54 0.06
26 877 0.94
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.31
Consensus pattern (26 bp):
ACATAATACATAATAACTTACAACTT
Found at i:11013498 original size:14 final size:14
Alignment explanation
Indices: 11013454--11013502 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
11013444 CATAATAACT
*
11013454 TACAACTTACATAA
1 TACAACTTACACAA
* *
11013468 TAC-ATTTA-AC-T
1 TACAACTTACACAA
11013479 TACAACTTACACAA
1 TACAACTTACACAA
11013493 TACAACTTAC
1 TACAACTTAC
11013503 TAAATGATAA
Statistics
Matches: 27, Mismatches: 5, Indels: 6
0.71 0.13 0.16
Matches are distributed among these distances:
11 3 0.11
12 5 0.19
13 6 0.22
14 13 0.48
ACGTcount: A:0.45, C:0.24, G:0.00, T:0.31
Consensus pattern (14 bp):
TACAACTTACACAA
Found at i:11013826 original size:21 final size:21
Alignment explanation
Indices: 11013800--11013870 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
11013790 CTACAACTTA
* *
11013800 AAGCAGAGGCGGAAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* *
11013821 AAGCAGCGACTGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* * *
11013842 AAGCGGAGGCTGCAGCAAGAG
1 AAGCAGAGGCTGCAGCGAGGG
11013863 AAGCAGAG
1 AAGCAGAG
11013871 CAGAGCAAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.34, C:0.18, G:0.45, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGGG
Found at i:11014113 original size:14 final size:14
Alignment explanation
Indices: 11014094--11014127 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
11014084 ATTGCTATTG
11014094 GTTGCTTTTGAAAT
1 GTTGCTTTTGAAAT
11014108 GTTGCTTTTGAAAT
1 GTTGCTTTTGAAAT
*
11014122 TTTGCT
1 GTTGCT
11014128 ACAGGAGGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.18, C:0.09, G:0.21, T:0.53
Consensus pattern (14 bp):
GTTGCTTTTGAAAT
Found at i:11014295 original size:42 final size:42
Alignment explanation
Indices: 11014196--11015197 Score: 1830
Period size: 42 Copynumber: 23.9 Consensus size: 42
11014186 TTTTGTATAA
* * * * **
11014196 AAGCGCCACTAAAGAACATGTTCTTTTGCGGCG--TTTGTAA
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
** * * * *
11014236 AAATGCCACTAAAGAACATGGTCTTTAGTGGCATTTTTTTAC-
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT-CT
* *
11014278 AAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
11014320 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
11014362 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
11014404 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
11014446 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
11014488 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
11014530 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
11014572 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
11014614 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
11014656 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
11014698 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
11014740 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
11014782 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
11014824 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
11014866 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
11014908 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
11014950 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
11014992 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
11015034 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
11015076 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
11015118 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
* *
11015160 AAGCGCCGCTAAAGAACATGGTCTTTAACGGCGTTTTT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTT
11015198 GTTTGTAAAC
Statistics
Matches: 941, Mismatches: 17, Indels: 6
0.98 0.02 0.01
Matches are distributed among these distances:
40 27 0.03
41 1 0.00
42 913 0.97
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.33
Consensus pattern (42 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
Found at i:11015453 original size:27 final size:30
Alignment explanation
Indices: 11015409--11015465 Score: 84
Period size: 28 Copynumber: 2.0 Consensus size: 30
11015399 ATAATCATAA
*
11015409 TTTAATTCACTTTTATTCAAT-TC-ATATT
1 TTTAATTCACTTTAATTCAATATCGATATT
11015437 TTTAATTCA-TTTAATTCAATATCGATATT
1 TTTAATTCACTTTAATTCAATATCGATATT
11015466 CACCTTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 10 0.38
28 11 0.42
29 5 0.19
ACGTcount: A:0.32, C:0.12, G:0.02, T:0.54
Consensus pattern (30 bp):
TTTAATTCACTTTAATTCAATATCGATATT
Found at i:11020073 original size:30 final size:31
Alignment explanation
Indices: 11020014--11020073 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
11020004 AGTAATTCCA
* * *
11020014 ACTCTTTTTAAAATATTGATAGTCAAATTTG
1 ACTCTTTTTAAAAGATTAATAGCCAAATTTG
11020045 ACTCTTTTTAAAAGATTAAT-GCCAAATTT
1 ACTCTTTTTAAAAGATTAATAGCCAAATTT
11020074 TGCTAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 8 0.31
31 18 0.69
ACGTcount: A:0.37, C:0.12, G:0.08, T:0.43
Consensus pattern (31 bp):
ACTCTTTTTAAAAGATTAATAGCCAAATTTG
Found at i:11021928 original size:44 final size:46
Alignment explanation
Indices: 11021873--11021990 Score: 143
Period size: 46 Copynumber: 2.6 Consensus size: 46
11021863 CTTTTAATCC
* * * *
11021873 GCTCCATTGTAATCTCAAGGAGATAGGAT-T--ACTATCTTTGATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATCTGAAAT-TCTTTGATCT
* *
11021917 GCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTTGGTCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTTGATCT
*
11021963 GTTCCACTGTAATCTCAGGGAGATAAGA
1 GCTCCACTGTAATCTCAGGGAGATAAGA
11021991 CCTGTATAAT
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
44 25 0.40
45 1 0.02
46 35 0.56
47 2 0.03
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (46 bp):
GCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTTGATCT
Found at i:11032828 original size:15 final size:15
Alignment explanation
Indices: 11032808--11032836 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
11032798 TAAAAATTTG
11032808 GTGGGTATTGGGTTT
1 GTGGGTATTGGGTTT
11032823 GTGGGTATTGGGTT
1 GTGGGTATTGGGTT
11032837 CTTTTGTTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.00, G:0.48, T:0.45
Consensus pattern (15 bp):
GTGGGTATTGGGTTT
Found at i:11043900 original size:34 final size:34
Alignment explanation
Indices: 11043861--11043929 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
11043851 TTCATAAATA
11043861 TCAGTTATCCTATGTCAAACAGTAAAGACATAAT
1 TCAGTTATCCTATGTCAAACAGTAAAGACATAAT
11043895 TCAGTTATCCTATGTCAAACAGTAAAGACATAAT
1 TCAGTTATCCTATGTCAAACAGTAAAGACATAAT
11043929 T
1 T
11043930 GCAAGTCTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.41, C:0.17, G:0.12, T:0.30
Consensus pattern (34 bp):
TCAGTTATCCTATGTCAAACAGTAAAGACATAAT
Found at i:11047529 original size:17 final size:17
Alignment explanation
Indices: 11047476--11047534 Score: 55
Period size: 17 Copynumber: 3.3 Consensus size: 17
11047466 CTATAGAATT
* *
11047476 TATTAAATATCATAAAA
1 TATTAAATATTATAAAC
* *
11047493 TTTTAAAAAATTATAAAAAC
1 TATT-AAATATTAT--AAAC
11047513 TATTAAATATTATAAAC
1 TATTAAATATTATAAAC
11047530 TATTA
1 TATTA
11047535 TTAATATGTT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
17 12 0.36
18 7 0.21
19 8 0.24
20 6 0.18
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (17 bp):
TATTAAATATTATAAAC
Found at i:11047621 original size:29 final size:27
Alignment explanation
Indices: 11047589--11047647 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
11047579 AAAAATTTAG
* *
11047589 AAATGATAGGAAATGATATAAAAACAATT
1 AAATGATA-AAAAT-ATATAAAAAAAATT
*
11047618 AAATGATAAAAATCTATAAAAAAAATT
1 AAATGATAAAAATATATAAAAAAAATT
11047645 AAA
1 AAA
11047648 AAAATTATTG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 15 0.56
28 4 0.15
29 8 0.30
ACGTcount: A:0.64, C:0.03, G:0.08, T:0.24
Consensus pattern (27 bp):
AAATGATAAAAATATATAAAAAAAATT
Found at i:11049692 original size:61 final size:60
Alignment explanation
Indices: 11049600--11049717 Score: 173
Period size: 61 Copynumber: 1.9 Consensus size: 60
11049590 ACGTTATATG
* * *
11049600 CCACAATTTTAAGGGAATACCAATATTTCTAAGCAATCTCATTAGAAATTTTGGTATGTA
1 CCACAATTTTAAGGAAATACCAATATTTCTAAGCAACCTCATTAGAAATTTTAGTATGTA
* * *
11049660 CCACAATTTTAAAGTAAATATCAATATTTCTAAGGAACCTCATTAGAAATTTTAGTAT
1 CCACAATTTT-AAGGAAATACCAATATTTCTAAGCAACCTCATTAGAAATTTTAGTAT
11049718 ACCAAAATCA
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
60 10 0.20
61 41 0.80
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.36
Consensus pattern (60 bp):
CCACAATTTTAAGGAAATACCAATATTTCTAAGCAACCTCATTAGAAATTTTAGTATGTA
Found at i:11049804 original size:86 final size:84
Alignment explanation
Indices: 11049702--11049978 Score: 204
Period size: 86 Copynumber: 3.2 Consensus size: 84
11049692 AGGAACCTCA
*
11049702 TTAGAAATTTTAGTATACCAAAATCATGTTGCACAAGTCTATACCAAGATTTTAAATGAAATGCT
1 TTAGAAATTTTAGTATACCAAAATCATGTTACACAAG-CTATACCAAGATTTT-AATGAAATGCT
*
11049767 AAAATTTTTAAGCGCATATCT
64 AAAATTTATAAGCGCATATCT
* * * ** * * * * *
11049788 TTAGATATTTTGGTATACCCAAATCGCGTTATAGAAGCTTTTACCAAAATTTCTAA-GAGATTAG
1 TTAGAAATTTTAGTATACCAAAATCATGTTACACAAGC-TATACCAAGATTT-TAATGA-AAT-G
* * *
11049852 -TAATATTTCTAAG-G-A-ACCT
62 CTAAAATTTATAAGCGCATATCT
* * *
11049871 TGCTAGAAATTTTGGTATATCAAAATCATGTTACACAAGCCTATACCAAGATTTTCTAGTGAAAT
1 T--TAGAAATTTTAGTATACCAAAATCATGTTACACAAG-CTATACCAAGA-TTT-TAATGAAAT
* * *
11049936 ACCAAAACTTCTATAAGCACATATCT
61 GCTAAAA-TT-TATAAGCGCATATCT
*
11049962 TTAGATATTTTAGTATA
1 TTAGAAATTTTAGTATA
11049979 TGCTTCAATT
Statistics
Matches: 143, Mismatches: 33, Indels: 27
0.70 0.16 0.13
Matches are distributed among these distances:
83 4 0.03
84 1 0.01
85 41 0.29
86 67 0.47
87 6 0.04
88 5 0.03
89 14 0.10
90 1 0.01
91 4 0.03
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (84 bp):
TTAGAAATTTTAGTATACCAAAATCATGTTACACAAGCTATACCAAGATTTTAATGAAATGCTAA
AATTTATAAGCGCATATCT
Found at i:11059791 original size:27 final size:27
Alignment explanation
Indices: 11059753--11059806 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
11059743 AGAAAAAATT
11059753 GTAGAAGCAAGTGGCCATCAAAGTGCC
1 GTAGAAGCAAGTGGCCATCAAAGTGCC
11059780 GTAGAAGCAAGTGGCCATCAAAGTGCC
1 GTAGAAGCAAGTGGCCATCAAAGTGCC
11059807 AACGGTAGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.22, G:0.30, T:0.15
Consensus pattern (27 bp):
GTAGAAGCAAGTGGCCATCAAAGTGCC
Found at i:11064717 original size:13 final size:13
Alignment explanation
Indices: 11064699--11064774 Score: 53
Period size: 13 Copynumber: 5.2 Consensus size: 13
11064689 ATACGTGAAA
11064699 TATTTCAATTAAT
1 TATTTCAATTAAT
11064712 TATTTCAAATTACAT
1 TATTTC-AATTA-AT
* *
11064727 TATGTTTATATGTGAAA
1 TAT-TTCA-AT-T-AAT
11064744 TATTTCAATTAAT
1 TATTTCAATTAAT
*
11064757 CATTTCAAATTACAT
1 TATTTC-AATTA-AT
11064772 TAT
1 TAT
11064775 GTTTATATGT
Statistics
Matches: 49, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
13 13 0.27
14 11 0.22
15 12 0.24
16 7 0.14
17 5 0.10
18 1 0.02
ACGTcount: A:0.38, C:0.09, G:0.04, T:0.49
Consensus pattern (13 bp):
TATTTCAATTAAT
Found at i:11064750 original size:45 final size:45
Alignment explanation
Indices: 11064686--11064796 Score: 195
Period size: 45 Copynumber: 2.5 Consensus size: 45
11064676 TGCAAATATT
* *
11064686 TTTATACGTGAAATATTTCAATTAATTATTTCAAATTACATTATG
1 TTTATATGTGAAATATTTCAATTAATCATTTCAAATTACATTATG
11064731 TTTATATGTGAAATATTTCAATTAATCATTTCAAATTACATTATG
1 TTTATATGTGAAATATTTCAATTAATCATTTCAAATTACATTATG
*
11064776 TTTATATGTTAAATATTTCAA
1 TTTATATGTGAAATATTTCAA
11064797 AAAGACGTAC
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 63 1.00
ACGTcount: A:0.38, C:0.08, G:0.06, T:0.48
Consensus pattern (45 bp):
TTTATATGTGAAATATTTCAATTAATCATTTCAAATTACATTATG
Found at i:11069334 original size:33 final size:35
Alignment explanation
Indices: 11069296--11069377 Score: 86
Period size: 33 Copynumber: 2.5 Consensus size: 35
11069286 ATGGTTATAT
11069296 TTAAATATTTAAAATATAGT-TTATATATT-C-TAA
1 TTAAATATTTAAAAT-TAGTATTATATATTGCTTAA
* *
11069329 TTAAAT-TTTATAAATTATTATTATTTATTGCTTAA
1 TTAAATATTTA-AAATTAGTATTATATATTGCTTAA
11069364 --AAATATTTAAAATT
1 TTAAATATTTAAAATT
11069378 TATATTTCAT
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
32 7 0.17
33 27 0.64
34 5 0.12
35 3 0.07
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (35 bp):
TTAAATATTTAAAATTAGTATTATATATTGCTTAA
Found at i:11069592 original size:13 final size:13
Alignment explanation
Indices: 11069576--11069626 Score: 66
Period size: 13 Copynumber: 3.9 Consensus size: 13
11069566 TTTAAGCCAA
*
11069576 ACTTTTCAAAAAC
1 ACTTTTCAAAAGC
*
11069589 ACTTCTCAAAAGC
1 ACTTTTCAAAAGC
* *
11069602 ACTTTTCCACAGC
1 ACTTTTCAAAAGC
11069615 ACTTTTCAAAAG
1 ACTTTTCAAAAG
11069627 TAATGAAGAA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.37, C:0.27, G:0.06, T:0.29
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:11071897 original size:31 final size:31
Alignment explanation
Indices: 11071862--11071924 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 31
11071852 TTAATAACCT
*
11071862 AGTGACTTAAATAAAAACTTTT-GAATAGTTC
1 AGTGACTTAAATAAAAA-TTTTAAAATAGTTC
*
11071893 AGTGACTTAAATGAAAATTTTAAAATAGTTC
1 AGTGACTTAAATAAAAATTTTAAAATAGTTC
11071924 A
1 A
11071925 ATGGCCAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 4 0.14
31 25 0.86
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.35
Consensus pattern (31 bp):
AGTGACTTAAATAAAAATTTTAAAATAGTTC
Found at i:11088602 original size:10 final size:9
Alignment explanation
Indices: 11088485--11088625 Score: 70
Period size: 9 Copynumber: 15.1 Consensus size: 9
11088475 TTAAAATCAT
11088485 TAAAAATTA
1 TAAAAATTA
11088494 TAAAAAAGATTA
1 T--AAAA-ATTA
** *
11088506 TAGGAATCA
1 TAAAAATTA
*
11088515 TACAAATTA
1 TAAAAATTA
11088524 TAAAAATTA
1 TAAAAATTA
* *
11088533 -CAAAATAA
1 TAAAAATTA
*
11088541 TTAAAA-TA
1 TAAAAATTA
11088549 CTAAAAATTA
1 -TAAAAATTA
* *
11088559 AAAAAACTA
1 TAAAAATTA
* *
11088568 TAAAAGTGA
1 TAAAAATTA
*
11088577 AAAAAATTA
1 TAAAAATTA
11088586 TAAAAATTA
1 TAAAAATTA
* *
11088595 TTATAAATGA
1 -TAAAAATTA
*
11088605 CTCAAAAACTA
1 -T-AAAAATTA
11088616 TAAAAATTA
1 TAAAAATTA
11088625 T
1 T
11088626 TATAATAAAA
Statistics
Matches: 95, Mismatches: 29, Indels: 16
0.68 0.21 0.11
Matches are distributed among these distances:
8 7 0.07
9 61 0.64
10 13 0.14
11 9 0.09
12 5 0.05
ACGTcount: A:0.62, C:0.06, G:0.04, T:0.28
Consensus pattern (9 bp):
TAAAAATTA
Found at i:11088650 original size:25 final size:26
Alignment explanation
Indices: 11088615--11088671 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
11088605 CTCAAAAACT
*
11088615 ATAAAAATTAT-TAT-AA-TAAAAAA
1 ATAAAAATTTTATATGAATTAAAAAA
*
11088638 ATTAAAATTTTATATGAATTAAAAAA
1 ATAAAAATTTTATATGAATTAAAAAA
11088664 ATAAAAAT
1 ATAAAAAT
11088672 ATATATGGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 9 0.32
24 3 0.11
25 2 0.07
26 14 0.50
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (26 bp):
ATAAAAATTTTATATGAATTAAAAAA
Found at i:11088676 original size:25 final size:23
Alignment explanation
Indices: 11088615--11088678 Score: 67
Period size: 25 Copynumber: 2.6 Consensus size: 23
11088605 CTCAAAAACT
11088615 ATAAAAATTATTAT-AATAAAAAA
1 ATAAAAATTA-TATGAATAAAAAA
*
11088638 ATTAAAATTTTATATGAATTAAAAAA
1 A-TAAAA-ATTATATGAA-TAAAAAA
11088664 ATAAAAATATATATG
1 ATAAAAAT-TATATG
11088679 GAAATTTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
23 1 0.03
24 9 0.26
25 16 0.47
26 8 0.24
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (23 bp):
ATAAAAATTATATGAATAAAAAA
Found at i:11089050 original size:9 final size:9
Alignment explanation
Indices: 11089038--11089128 Score: 71
Period size: 9 Copynumber: 10.1 Consensus size: 9
11089028 TTTTAGTTTG
11089038 TTTTATAAT
1 TTTTATAAT
*
11089047 TTTTATGAT
1 TTTTATAAT
*
11089056 TTTTATATT
1 TTTTATAAT
* *
11089065 ATTTTGTAAA
1 -TTTTATAAT
*
11089075 TTTTATTAT
1 TTTTATAAT
*
11089084 TTTTAAATAT
1 TTTTATA-AT
11089094 TTTTCATAA-
1 TTTT-ATAAT
11089103 TTTT-TAAT
1 TTTTATAAT
11089111 TTTT-TAAT
1 TTTTATAAT
*
11089119 TTTTGTAAT
1 TTTTATAAT
11089128 T
1 T
11089129 CATTTAGTTT
Statistics
Matches: 65, Mismatches: 12, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
7 3 0.05
8 12 0.18
9 35 0.54
10 13 0.20
11 2 0.03
ACGTcount: A:0.29, C:0.01, G:0.03, T:0.67
Consensus pattern (9 bp):
TTTTATAAT
Found at i:11089058 original size:28 final size:27
Alignment explanation
Indices: 11089019--11089114 Score: 90
Period size: 28 Copynumber: 3.5 Consensus size: 27
11089009 AAAAAAATGT
*
11089019 TTTTTATATTTTTAGT-TTGTTTTATAA
1 TTTTTATATTTTTA-TATTATTTTATAA
*
11089046 TTTTTATGATTTTTATATTATTTTGTAA
1 TTTTTAT-ATTTTTATATTATTTTATAA
* *
11089074 ATTTTATTATTTTTAAATATT-TTTCATAA
1 TTTTTA-TATTTTT--ATATTATTTTATAA
11089103 TTTTTA-ATTTTT
1 TTTTTATATTTTT
11089115 TAATTTTTGT
Statistics
Matches: 58, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
27 14 0.24
28 27 0.47
29 12 0.21
30 5 0.09
ACGTcount: A:0.26, C:0.01, G:0.04, T:0.69
Consensus pattern (27 bp):
TTTTTATATTTTTATATTATTTTATAA
Found at i:11089096 original size:10 final size:9
Alignment explanation
Indices: 11089018--11089127 Score: 52
Period size: 9 Copynumber: 11.9 Consensus size: 9
11089008 GAAAAAAATG
*
11089018 TTTTTTATA
1 TTTTTAATA
*
11089027 TTTTTAGT-
1 TTTTTAATA
*
11089035 TTGTTTTATAA
1 TT-TTTAAT-A
11089046 TTTTT-ATGA
1 TTTTTAAT-A
11089055 TTTTTATATTA
1 TTTTTA-A-TA
11089066 TTTTGTAA-A
1 TTTT-TAATA
*
11089075 -TTTTATTA
1 TTTTTAATA
11089083 TTTTTAAATA
1 TTTTT-AATA
*
11089093 TTTTTCATAA
1 TTTTTAAT-A
11089103 TTTTTAAT-
1 TTTTTAATA
11089111 TTTTTAAT-
1 TTTTTAATA
11089119 TTTTGTAAT
1 TTTT-TAAT
11089128 TCATTTAGTT
Statistics
Matches: 80, Mismatches: 9, Indels: 24
0.71 0.08 0.21
Matches are distributed among these distances:
7 2 0.03
8 18 0.22
9 29 0.36
10 19 0.24
11 9 0.11
12 3 0.04
ACGTcount: A:0.26, C:0.01, G:0.05, T:0.68
Consensus pattern (9 bp):
TTTTTAATA
Found at i:11091647 original size:30 final size:30
Alignment explanation
Indices: 11091548--11091694 Score: 174
Period size: 30 Copynumber: 4.9 Consensus size: 30
11091538 ACTTTTCTCA
* *
11091548 ACTAGCCACTCCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTCTCCACCACCAACTCC
* *
11091578 ACTAGCCACTCCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTCTCCACCACCAACTCC
*
11091608 ACTAGCCACACCTTCTCCACCACCAAATCC
1 ACTAGCCACACCTTCTCCACCACCAACTCC
** *
11091638 ACTAGCCACA-CTTGCTCCATTACCTACTCC
1 ACTAGCCACACCTT-CTCCACCACCAACTCC
*
11091668 ACTAACCACA-CTTGCTCCACCA-CAACT
1 ACTAGCCACACCTT-CTCCACCACCAACT
11091695 TGTACCTACA
Statistics
Matches: 105, Mismatches: 11, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
29 7 0.07
30 98 0.93
ACGTcount: A:0.27, C:0.48, G:0.04, T:0.22
Consensus pattern (30 bp):
ACTAGCCACACCTTCTCCACCACCAACTCC
Found at i:11092029 original size:16 final size:15
Alignment explanation
Indices: 11092005--11092052 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
11091995 TAATTATTAT
*
11092005 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
11092021 TATTTTAATATTTTA
1 TATTTTAATATTTTA
11092036 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
11092052 T
1 T
11092053 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:11092040 original size:7 final size:8
Alignment explanation
Indices: 11092005--11092056 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
11091995 TAATTATTAT
*
11092005 TATTCTAA
1 TATTTTAA
*
11092013 TATTTTGA
1 TATTTTAA
11092021 TATTTTAA
1 TATTTTAA
11092029 TATTTT-A
1 TATTTTAA
11092036 TATTTTATA
1 TATTTTA-A
*
11092045 TATTTTAT
1 TATTTTAA
11092053 TATT
1 TATT
11092057 CACATCATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:11093677 original size:11 final size:12
Alignment explanation
Indices: 11093653--11093684 Score: 57
Period size: 11 Copynumber: 2.8 Consensus size: 12
11093643 TGTATTAAAT
11093653 TTTTTTATATTA
1 TTTTTTATATTA
11093665 TTTTTTATA-TA
1 TTTTTTATATTA
11093676 TTTTTTATA
1 TTTTTTATA
11093685 AAAAATATAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 11 0.55
12 9 0.45
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (12 bp):
TTTTTTATATTA
Found at i:11093877 original size:11 final size:11
Alignment explanation
Indices: 11093863--11093898 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
11093853 ATATACAACC
*
11093863 AATAATAGTAA
1 AATAATAGCAA
11093874 AATAATAGCAA
1 AATAATAGCAA
*
11093885 CATAATAGCAA
1 AATAATAGCAA
11093896 AAT
1 AAT
11093899 GGTAACAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.61, C:0.08, G:0.08, T:0.22
Consensus pattern (11 bp):
AATAATAGCAA
Found at i:11094349 original size:41 final size:41
Alignment explanation
Indices: 11094304--11094463 Score: 205
Period size: 41 Copynumber: 3.9 Consensus size: 41
11094294 TGGCGCTAAT
* * * *
11094304 AGAAAAAAGCCGCAATAGGTAAAGCAGTAGCGGCGTTTATG
1 AGAAAAACGCCGCAAAAGGTAAAGCAATAGCAGCGTTTATG
* * * *
11094345 AGAAAAACGCCTCAAAAGGTCAAGCAATAACAACGTTTATG
1 AGAAAAACGCCGCAAAAGGTAAAGCAATAGCAGCGTTTATG
* * *
11094386 AGAAAAACGCCGCAAAAGGTCAAGCATTAGCAGCGCTTATG
1 AGAAAAACGCCGCAAAAGGTAAAGCAATAGCAGCGTTTATG
*
11094427 AGAAAAACGCCGCAAAAGGT-AAGCAACAGCAGCGTTT
1 AGAAAAACGCCGCAAAAGGTAAAGCAATAGCAGCGTTT
11094464 TAAAAAACAC
Statistics
Matches: 103, Mismatches: 16, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
40 14 0.14
41 89 0.86
ACGTcount: A:0.42, C:0.19, G:0.24, T:0.15
Consensus pattern (41 bp):
AGAAAAACGCCGCAAAAGGTAAAGCAATAGCAGCGTTTATG
Found at i:11104095 original size:28 final size:28
Alignment explanation
Indices: 11104037--11104095 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
11104027 ATATTGGTAC
*
11104037 TTGCATTTAACTTGGAAAATATAAAATT
1 TTGCATTTAACTTGGAAAATATAAAAAT
11104065 TTGCATTTAACTTGGAAAATATAAAAAT
1 TTGCATTTAACTTGGAAAATATAAAAAT
11104093 TTG
1 TTG
11104096 GAGATTTGGA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.42, C:0.07, G:0.12, T:0.39
Consensus pattern (28 bp):
TTGCATTTAACTTGGAAAATATAAAAAT
Found at i:11105248 original size:8 final size:8
Alignment explanation
Indices: 11105235--11105261 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
11105225 TTTATGCACC
11105235 TACCAAAA
1 TACCAAAA
11105243 TACCAAAA
1 TACCAAAA
11105251 TACCAAAA
1 TACCAAAA
11105259 TAC
1 TAC
11105262 AAGCCAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.59, C:0.26, G:0.00, T:0.15
Consensus pattern (8 bp):
TACCAAAA
Found at i:11106122 original size:21 final size:20
Alignment explanation
Indices: 11106098--11106158 Score: 56
Period size: 21 Copynumber: 3.1 Consensus size: 20
11106088 TTCGATTTTG
11106098 TTTCTCTTTATTTTTTTCTCT
1 TTTCTC-TTATTTTTTTCTCT
** *
11106119 TTTCGGTATATTTATTT-TCT
1 TTTCTCT-TATTTTTTTCTCT
11106139 TTT-TC-TATTTTTTTCTCT
1 TTTCTCTTATTTTTTTCTCT
11106157 TT
1 TT
11106159 ATTTTTTTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 7
0.71 0.13 0.16
Matches are distributed among these distances:
17 8 0.25
18 5 0.16
20 7 0.22
21 12 0.38
ACGTcount: A:0.08, C:0.15, G:0.03, T:0.74
Consensus pattern (20 bp):
TTTCTCTTATTTTTTTCTCT
Found at i:11106154 original size:16 final size:16
Alignment explanation
Indices: 11106092--11106170 Score: 61
Period size: 16 Copynumber: 4.6 Consensus size: 16
11106082 TTTGTGTTCG
11106092 ATTTTGTTTCTCTTTAT
1 ATTTT-TTTCTCTTTAT
*
11106109 -TTTTTTCTCTTTTCGGTAT
1 ATTTTTT-TCTCTT---TAT
* *
11106128 ATTTATTTTCTTTTTCT
1 ATTT-TTTTCTCTTTAT
11106145 ATTTTTTTCTCTTTAT
1 ATTTTTTTCTCTTTAT
*
11106161 TTTTTTTTCT
1 ATTTTTTTCT
11106171 AACTATTTGT
Statistics
Matches: 51, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
15 2 0.04
16 28 0.55
17 6 0.12
19 3 0.06
20 9 0.18
21 3 0.06
ACGTcount: A:0.09, C:0.13, G:0.04, T:0.75
Consensus pattern (16 bp):
ATTTTTTTCTCTTTAT
Found at i:11106196 original size:94 final size:95
Alignment explanation
Indices: 11106021--11106206 Score: 340
Period size: 94 Copynumber: 2.0 Consensus size: 95
11106011 TCAACAACCC
11106021 CTTTTCGATATATTTATTTTCTTTTTCTATTTTTTTTCTCTTTATTTTTTTCTTCTAACTATTTG
1 CTTTTCGATATATTTATTTTCTTTTTCTATTTTTTTTCTCTTTATTTTTTTCTTCTAACTATTTG
11106086 TGTTCGATTTTGTTTCTCTTTATTTTTTTCT
66 TGTTCGATTTTGTTTCT-TTTATTTTTTTCT
*
11106117 CTTTTCGGTATATTTATTTTCTTTTTCTA-TTTTTTTCTCTTTATTTTTTT-TTCTAACTATTTG
1 CTTTTCGATATATTTATTTTCTTTTTCTATTTTTTTTCTCTTTATTTTTTTCTTCTAACTATTTG
11106180 TGTTCGATTTTGTTTCTTTTATTTTTT
66 TGTTCGATTTTGTTTCTTTTATTTTTT
11106207 AATACTATAT
Statistics
Matches: 89, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
93 10 0.11
94 30 0.34
95 21 0.24
96 28 0.31
ACGTcount: A:0.11, C:0.12, G:0.06, T:0.70
Consensus pattern (95 bp):
CTTTTCGATATATTTATTTTCTTTTTCTATTTTTTTTCTCTTTATTTTTTTCTTCTAACTATTTG
TGTTCGATTTTGTTTCTTTTATTTTTTTCT
Found at i:11108143 original size:109 final size:109
Alignment explanation
Indices: 11107819--11108324 Score: 805
Period size: 109 Copynumber: 4.6 Consensus size: 109
11107809 CTTTTTTCCT
* * * *
11107819 AAATAAGGTAATATTTTGCGTTTGGAAATTCGAGAAAACATGCCTTAAGGTGCTGGGTGTCGATT
1 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGCGCTGGGTGTCGATT
11107884 TTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTA
66 TTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTA
11107928 AAATAAGGCAATGTTTTGCGTTTGGAAAATTCGAGAAAACATGCCCTAAGGCGCTGGGTGTCGAT
1 AAATAAGGCAATGTTTTGCGTTTGG-AAATTCGAGAAAACATGCCCTAAGGCGCTGGGTGTCGAT
11107993 TTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTA
65 TTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTA
*
11108038 AAATAAGGCAATGTTTTGCGTTTAGAAATTCGAGAAAACATGCCCTAAGGCGCTGGGTGTCGATT
1 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGCGCTGGGTGTCGATT
11108103 TTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTA
66 TTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTA
* * *
11108147 AAATAAGGCAATGTTTTGCGTTTAGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCAATT
1 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGCGCTGGGTGTCGATT
* * * **
11108212 TTTCTCATTCAACCAAATGGCTAAATATCCTTCTAAAAATTTCG
66 TTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTA
* ** * ** * * *
11108256 AAGTAAGATAATATTTTGCGTTTGGAAATTTAAGGAAACATGCCCTAATGCGCTGGGTTTCGATT
1 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGCGCTGGGTGTCGATT
11108321 TTTC
66 TTTC
11108325 CATTTGACCA
Statistics
Matches: 372, Mismatches: 24, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
109 266 0.72
110 106 0.28
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (109 bp):
AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGCGCTGGGTGTCGATT
TTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTA
Found at i:11108402 original size:21 final size:21
Alignment explanation
Indices: 11108372--11108428 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
11108362 TCCATGTCAT
11108372 AAGAGTTGAACAAAAGCTCAA
1 AAGAGTTGAACAAAAGCTCAA
* * **
11108393 AAGAGCTGAACAGAAGCTCCT
1 AAGAGTTGAACAAAAGCTCAA
11108414 AAGAGTTGAACAAAA
1 AAGAGTTGAACAAAA
11108429 AGTAAAACAT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.49, C:0.16, G:0.21, T:0.14
Consensus pattern (21 bp):
AAGAGTTGAACAAAAGCTCAA
Found at i:11110074 original size:43 final size:43
Alignment explanation
Indices: 11110021--11110278 Score: 333
Period size: 43 Copynumber: 6.0 Consensus size: 43
11110011 TAACATGACT
**
11110021 TTTAGCGGCGTTTTTGGGAAAAGCATCGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTTTGGGAAAAGCGCCGCTAAAGGTCATGTTC
* *
11110064 TTTAGTGGCGTTTGTTGGG-AAAGCGCCGCTAAAGGTCATGTTG
1 TTTAGCGGCGTTT-TTGGGAAAAGCGCCGCTAAAGGTCATGTTC
* * * ** *
11110107 TTTAGTGGCGTTTGTGGGGAAAGCATCGCTAAAGGCCATGTTC
1 TTTAGCGGCGTTTTTGGGAAAAGCGCCGCTAAAGGTCATGTTC
* *
11110150 TTTAGCAGCGTTTGTGGGGAAAA-CGCCGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTT-TTGGGAAAAGCGCCGCTAAAGGTCATGTTC
* * * *
11110193 TATAGCGGTGTTTTTGGGGAAAGCGCCGCTAAAGGTCACGTTC
1 TTTAGCGGCGTTTTTGGGAAAAGCGCCGCTAAAGGTCATGTTC
11110236 -TTAGCGGCGTTTTTGGGAAAAGCGCCGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTTTGGGAAAAGCGCCGCTAAAGGTCATGTTC
11110278 T
1 T
11110279 AAAAAAAGCC
Statistics
Matches: 183, Mismatches: 27, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
42 49 0.27
43 123 0.67
44 11 0.06
ACGTcount: A:0.21, C:0.17, G:0.31, T:0.30
Consensus pattern (43 bp):
TTTAGCGGCGTTTTTGGGAAAAGCGCCGCTAAAGGTCATGTTC
Found at i:11123616 original size:12 final size:11
Alignment explanation
Indices: 11123599--11123633 Score: 54
Period size: 10 Copynumber: 3.2 Consensus size: 11
11123589 AACAAATCCT
11123599 CTCTCATATTTC
1 CTCTCA-ATTTC
11123611 CTCTCAA-TTC
1 CTCTCAATTTC
11123621 CTCTCAATTTC
1 CTCTCAATTTC
11123632 CT
1 CT
11123634 TCCAAAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 10 0.45
11 6 0.27
12 6 0.27
ACGTcount: A:0.17, C:0.37, G:0.00, T:0.46
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:11123647 original size:22 final size:22
Alignment explanation
Indices: 11123616--11123671 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
11123606 ATTTCCTCTC
11123616 AATTCCTCTCAATTTCCTTCCAA
1 AATT-CTCTCAATTTCCTTCCAA
*
11123639 AATTTTCTCAATTTCCTTCCAA
1 AATTCTCTCAATTTCCTTCCAA
11123661 AATTCTCTCAA
1 AATTCTCTCAA
11123672 ATCTATATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 27 0.87
23 4 0.13
ACGTcount: A:0.29, C:0.30, G:0.00, T:0.41
Consensus pattern (22 bp):
AATTCTCTCAATTTCCTTCCAA
Found at i:11123701 original size:51 final size:51
Alignment explanation
Indices: 11123644--11123755 Score: 197
Period size: 51 Copynumber: 2.2 Consensus size: 51
11123634 TCCAAAATTT
* * *
11123644 TCTCAATTTCCTTCCAAAATTCTCTCAAATCTATATTTAATTTTAATTTCC
1 TCTCAATTTCCTTCAAAAATTCTCTCAAATCCATATTTAATTTCAATTTCC
11123695 TCTCAATTTCCTTCAAAAATTCTCTCAAATCCATATTTAATTTCAATTTCC
1 TCTCAATTTCCTTCAAAAATTCTCTCAAATCCATATTTAATTTCAATTTCC
11123746 TCTCAATTTC
1 TCTCAATTTC
11123756 ATTTTTTAAA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 58 1.00
ACGTcount: A:0.29, C:0.25, G:0.00, T:0.46
Consensus pattern (51 bp):
TCTCAATTTCCTTCAAAAATTCTCTCAAATCCATATTTAATTTCAATTTCC
Found at i:11124906 original size:7 final size:7
Alignment explanation
Indices: 11124894--11124918 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
11124884 ATTCGATTGA
11124894 TATTTAG
1 TATTTAG
11124901 TATTTAG
1 TATTTAG
11124908 TATTTAG
1 TATTTAG
11124915 TATT
1 TATT
11124919 ATGTATGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:11125593 original size:18 final size:18
Alignment explanation
Indices: 11125570--11125604 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
11125560 AGGTGCGTTT
11125570 CCTAGCCCTTATATGTAC
1 CCTAGCCCTTATATGTAC
11125588 CCTAGCCCTTATATGTA
1 CCTAGCCCTTATATGTA
11125605 TCCTTTTTCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.23, C:0.31, G:0.11, T:0.34
Consensus pattern (18 bp):
CCTAGCCCTTATATGTAC
Found at i:11126074 original size:43 final size:45
Alignment explanation
Indices: 11126026--11126111 Score: 122
Period size: 43 Copynumber: 2.0 Consensus size: 45
11126016 ATATTTTGAA
* * *
11126026 TATTTTTATATTGTTTTATGTAA-AAAATAGAAATTT-TTTGAGT
1 TATTTTGATATTATTTGATGTAATAAAATAGAAATTTATTTGAGT
*
11126069 TATTTTGATATTATTTGATGTAATAAAATAGAAGTTTATTTGA
1 TATTTTGATATTATTTGATGTAATAAAATAGAAATTTATTTGA
11126112 TGTAATAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
43 20 0.54
44 12 0.32
45 5 0.14
ACGTcount: A:0.36, C:0.00, G:0.13, T:0.51
Consensus pattern (45 bp):
TATTTTGATATTATTTGATGTAATAAAATAGAAATTTATTTGAGT
Found at i:11126169 original size:23 final size:23
Alignment explanation
Indices: 11126117--11127048 Score: 643
Period size: 23 Copynumber: 39.5 Consensus size: 23
11126107 TTTGATGTAA
*
11126117 TAAAAACCCTAACCTAATTTAAC
1 TAAAAACCCTAACCTAATTTAAT
*** **
11126140 CCTAAACCCTAACCTAAAATAAT
1 TAAAAACCCTAACCTAATTTAAT
11126163 TAAAAACCCAAAATCATAACCTAATTTAAT
1 TAAAAA-CC-----C-TAACCTAATTTAAT
*
11126193 TAAAAACCCTAGCCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
* *
11126216 TAAAAACCCTGACTTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
11126239 TAAAAACCCTTAACCCTTAA-TTAA-
1 TAAAAACCC-TAA-CC-TAATTTAAT
11126263 -AAACCCTAACCCTAACCTAATTTAAT
1 TAAA----AACCCTAACCTAATTTAAT
*
11126289 TAAAAACCCTAGCCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
* *
11126312 TAAAAACCCTGACTTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
11126335 TAAAAACCCTTAACCCTTAA-TTAA-
1 TAAAAACCC-TAA-CC-TAATTTAAT
11126359 -AAACCCTAACCCTAACCTAATTTAAT
1 TAAA----AACCCTAACCTAATTTAAT
*
11126385 TAAAAACCCTAAACC---CTTAACT
1 TAAAAACCCT-AACCTAATTTAA-T
*
11126407 TAAAAGCCCTAACCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
*
11126430 TAAAAACCCTAAACC---CTTAACT
1 TAAAAACCCT-AACCTAATTTAA-T
*
11126452 TAAAAGCCCTAACCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
*
11126475 TAAAAACCCTAAACC---CTTAACT
1 TAAAAACCCT-AACCTAATTTAA-T
*
11126497 TAAAAGCCCTAACCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
*
11126520 TAAAAACCCTAAACC---CTTAACT
1 TAAAAACCCT-AACCTAATTTAA-T
*
11126542 TAAAAGCCCTAACCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
*
11126565 TAAAAACCCTAAACC---CTTAACT
1 TAAAAACCCT-AACCTAATTTAA-T
*
11126587 TAAAAGCCCTAACCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
*
11126610 TAAAAACCCTAAACC---CTTAACT
1 TAAAAACCCT-AACCTAATTTAA-T
*
11126632 TAAAAGCCCTAACCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
*
11126655 TAAAAACCCTAAACC---CTTAACT
1 TAAAAACCCT-AACCTAATTTAA-T
*
11126677 TAAAAGCCCTAACCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
11126700 TAAAAACCCTAAACCCTTAACTACCTTAACT
1 TAAAAACCCT-AA-CC-TAA-T---TTAA-T
11126731 TAAAAACCCTAACTCTAACCTAATTTAAT
1 TAAAAA--C---C-CTAACCTAATTTAAT
11126760 TAAAAACCCTAAACC---TTTAACT
1 TAAAAACCCT-AACCTAATTTAA-T
*
11126782 TAAAAACCCTAACCTATTTTAAT
1 TAAAAACCCTAACCTAATTTAAT
*
11126805 TAAAAACCCTAGCCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
*
11126828 TAAAAACCCTAGCCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
*
11126851 TAAAAACCCTAAAACCTTAACTTAA-
1 TAAAAACCCT--AACC-TAATTTAAT
*
11126876 -AAACCCTAACTCTAACCTAATTTAAT
1 TAAA----AACCCTAACCTAATTTAAT
*
11126902 TAAAAACCCTAAACC---CTTAACT
1 TAAAAACCCT-AACCTAATTTAA-T
*
11126924 TAAAAGCCCTAACCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
*
11126947 TAAAAACCCTAAACC---CTTAACT
1 TAAAAACCCT-AACCTAATTTAA-T
* *
11126969 TAAAAGCCCTAGGCCTAATTTAAT
1 TAAAAACCCTA-ACCTAATTTAAT
*
11126993 T-AAAACCCTAAACC---CTTAACT
1 TAAAAACCCT-AACCTAATTTAA-T
*
11127014 TAAAAACTCTAACCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
11127037 TAAAAACCCTAA
1 TAAAAACCCTAA
11127049 ACCCTTAACT
Statistics
Matches: 730, Mismatches: 72, Indels: 214
0.72 0.07 0.21
Matches are distributed among these distances:
20 4 0.01
21 84 0.12
22 110 0.15
23 284 0.39
24 103 0.14
25 38 0.05
26 26 0.04
27 21 0.03
28 5 0.01
29 10 0.01
30 26 0.04
31 7 0.01
33 2 0.00
34 3 0.00
35 2 0.00
36 3 0.00
37 2 0.00
ACGTcount: A:0.45, C:0.26, G:0.02, T:0.28
Consensus pattern (23 bp):
TAAAAACCCTAACCTAATTTAAT
Found at i:11126259 original size:21 final size:20
Alignment explanation
Indices: 11126234--11127196 Score: 304
Period size: 23 Copynumber: 43.0 Consensus size: 20
11126224 CTGACTTAAT
11126234 TTAATTAAAAACCCTTAACCC
1 TTAATTAAAAACCC-TAACCC
11126255 TTAATTAAAAACCCTAACCCTAACC
1 TTAATTAAAAACCCTAA--C---CC
* *
11126280 TAATTTAATTAAAAACCCTAGCCTAAT
1 ----TTAATTAAAAACCCTAACC---C
* **
11126307 TTAATTAAAAACCCTGACTTAAT
1 TTAATTAAAAACCCTAAC---CC
11126330 TTAATTAAAAACCCTTAACCC
1 TTAATTAAAAACCC-TAACCC
11126351 TTAATTAAAAACCCTAACCCTAACC
1 TTAATTAAAAACCCTAA--C---CC
11126376 TAATTTAATTAAAAACCCTAAACCC
1 ----TTAATTAAAAACCCT-AACCC
* *
11126401 TTAACTTAAAAGCCCTAACCTAAT
1 TTAA-TTAAAAACCCTAACC---C
11126425 TTAATTAAAAACCCTAAACCC
1 TTAATTAAAAACCCT-AACCC
* *
11126446 TTAACTTAAAAGCCCTAACCTAAT
1 TTAA-TTAAAAACCCTAACC---C
11126470 TTAATTAAAAACCCTAAACCC
1 TTAATTAAAAACCCT-AACCC
* *
11126491 TTAACTTAAAAGCCCTAACCTAAT
1 TTAA-TTAAAAACCCTAACC---C
11126515 TTAATTAAAAACCCTAAACCC
1 TTAATTAAAAACCCT-AACCC
* *
11126536 TTAACTTAAAAGCCCTAACCTAAT
1 TTAA-TTAAAAACCCTAACC---C
11126560 TTAATTAAAAACCCTAAACCC
1 TTAATTAAAAACCCT-AACCC
* *
11126581 TTAACTTAAAAGCCCTAACCTAAT
1 TTAA-TTAAAAACCCTAACC---C
11126605 TTAATTAAAAACCCTAAACCC
1 TTAATTAAAAACCCT-AACCC
* *
11126626 TTAACTTAAAAGCCCTAACCTAAT
1 TTAA-TTAAAAACCCTAACC---C
11126650 TTAATTAAAAACCCTAAACCC
1 TTAATTAAAAACCCT-AACCC
* *
11126671 TTAACTTAAAAGCCCTAACCTAAT
1 TTAA-TTAAAAACCCTAACC---C
11126695 TTAATTAAAAACCCTAAACCC
1 TTAATTAAAAACCCT-AACCC
* *
11126716 TTAACT----ACCTTAA--C
1 TTAATTAAAAACCCTAACCC
* *
11126730 TTAA--AAACCCTAACTCTAACCTAAT
1 TTAATTAAA----AACCCTAACC---C
*
11126755 TTAATTAAAAACCCTAAACCT
1 TTAATTAAAAACCCT-AACCC
*
11126776 TTAACTTAAAAACCCTAACCTATT
1 TTAA-TTAAAAACCCTAACC---C
* *
11126800 TTAATTAAAAACCCTAGCCTAAT
1 TTAATTAAAAACCCTAACC---C
* *
11126823 TTAATTAAAAACCCTAGCCTAAT
1 TTAATTAAAAACCCTAACC---C
*
11126846 TTAATTAAAAACCCTAAAACC
1 TTAATTAAAAACCCT-AACCC
11126867 TTAACTTAAAAACCCTAACTCTAACC
1 TTAA-TTAAAAACCCTAA--C---CC
11126893 TAATTTAATTAAAAACCCTAAACCC
1 ----TTAATTAAAAACCCT-AACCC
* *
11126918 TTAACTTAAAAGCCCTAACCTAAT
1 TTAA-TTAAAAACCCTAACC---C
11126942 TTAATTAAAAACCCTAAACCC
1 TTAATTAAAAACCCT-AACCC
* **
11126963 TTAACTTAAAAGCCCTAGGCC
1 TTAA-TTAAAAACCCTAACCC
11126984 -TAATTTAATTAAAACCCTAAACCC
1 TTAA-TT-A--AAAACCCT-AACCC
* *
11127008 TTAACTTAAAAACTCTAACCTAAT
1 TTAA-TTAAAAACCCTAACC---C
11127032 TTAATTAAAAACCCTAAACCC
1 TTAATTAAAAACCCT-AACCC
*
11127053 TTAACTTAAAAACTCTAA-CC
1 TTAA-TTAAAAACCCTAACCC
** *
11127073 -TACCT---AA-CCTAA--T
1 TTAATTAAAAACCCTAACCC
* *
11127086 TTAATTAAAAACTCTAACCTAAT
1 TTAATTAAAAACCCTAACC---C
* *
11127109 TTAATTAAAAACCCTAGCCTAAT
1 TTAATTAAAAACCCTAACC---C
**
11127132 TTAATTAAAAACCCTAAACTAAT
1 TTAATTAAAAACCCT-AAC--CC
11127155 TTAATTAAAAACCCTAAACCC
1 TTAATTAAAAACCCT-AACCC
*
11127176 TTAATTAAAAACTCTAACCC
1 TTAATTAAAAACCCTAACCC
11127196 T
1 T
11127197 AACCTAATTT
Statistics
Matches: 741, Mismatches: 79, Indels: 245
0.70 0.07 0.23
Matches are distributed among these distances:
14 12 0.02
15 2 0.00
16 2 0.00
17 6 0.01
18 5 0.01
19 2 0.00
20 24 0.03
21 144 0.19
22 131 0.18
23 245 0.33
24 93 0.13
25 17 0.02
26 2 0.00
27 4 0.01
28 2 0.00
29 42 0.06
30 8 0.01
ACGTcount: A:0.45, C:0.26, G:0.02, T:0.28
Consensus pattern (20 bp):
TTAATTAAAAACCCTAACCC
Found at i:11126290 original size:73 final size:71
Alignment explanation
Indices: 11126197--11127268 Score: 272
Period size: 73 Copynumber: 15.1 Consensus size: 71
11126187 TTTAATTAAA
*
11126197 AACCCTAGCCTAATTTAATTAAAAACCCTGACTTAATTTAATTAAAAACCCTTAACCCTTAATTA
1 AACCCTA-CCTAATTTAATTAAAAACCCT-ACCTAATTTAATTAAAAACCCTTAACCCTTAATTA
11126262 AAAACCCT
64 AAAACCCT
*
11126270 AACCCTAACCTAATTTAATTAAAAACCCTAGCCTAATTTAATTAAAAACCCTGACTTAA--TTTA
1 AACCCT-ACCTAATTTAATTAAAAACCCTA-CCTAATTTAATTAAAAA-CC---CTTAACCCTTA
11126333 ATTAAAAACCCTT
60 ATTAAAAACCC-T
*
11126346 AACCCT---TAA-TTAA--AAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTTAA
1 AACCCTACCTAATTTAATTAAA----AACCCT-ACCTAATTTAATTAAAAACCCTTAACCCTTAA
*
11126405 CTTAAAAGCCCT
61 -TTAAAAACCCT
* * *
11126417 -A----ACCTAATTTAATTAAAAACCCTA---AACCCTTAACTTAAAAGCCC-TAACCTAATTTA
1 AACCCTACCTAATTTAATTAAAAACCCTACCTAA--TTTAA-TTAAAAACCCTTAACC---CTTA
11126473 ATTAAAAACCCT
60 ATTAAAAACCCT
* * *
11126485 AAACCCT---T-A---ACTTAAAAGCCCTAACCTAATTTAATTAAAAACCCTAAACCCTTAACTT
1 -AACCCTACCTAATTTAATTAAAAACCCT-ACCTAATTTAATTAAAAACCCTTAACCCTTAA-TT
*
11126543 AAAAGCCCT
63 AAAAACCCT
* * *
11126552 -A----ACCTAATTTAATTAAAAACCCTA---AACCCTTAACTTAAAAGCCC-TAACCTAATTTA
1 AACCCTACCTAATTTAATTAAAAACCCTACCTAA--TTTAA-TTAAAAACCCTTAACC---CTTA
11126608 ATTAAAAACCCT
60 ATTAAAAACCCT
* * *
11126620 AAACCCT---T-A---ACTTAAAAGCCCTAACCTAATTTAATTAAAAACCCTAAACCCTTAACTT
1 -AACCCTACCTAATTTAATTAAAAACCCT-ACCTAATTTAATTAAAAACCCTTAACCCTTAA-TT
*
11126678 AAAAGCCCT
63 AAAAACCCT
11126687 -A----ACCTAATTTAATTAAAAACCCTAAACCCTTAACTACCTTAACTTAAAAACCCTAACTCT
1 AACCCTACCTAATTTAATTAAAAACCCT--A-CC-TAA-T---TTAA-TTAAAAA-CC---CT-T
*
11126747 AACCTAATTTAATTAAAAACCCT
52 AACC---CTTAATTAAAAACCCT
* *
11126770 AA----ACC---TTTAACTTAAAAACCCTAACCTATTTTAATTAAAAACCC-T-AGCC-TAATTT
1 AACCCTACCTAATTTAA-TTAAAAACCCT-ACCTAATTTAATTAAAAACCCTTAACCCTTAA-TT
11126825 AATTAAA----
63 AA--AAACCCT
* *
11126832 AACCCTAGCCTAATTTAATTAAAAACCCTA--AAACCTTAACTTAAAAACCCTAACTCTAACCTA
1 AACCCTA-CCTAATTTAATTAAAAACCCTACCTAA-TTTAA-TTAAAAA-CC---CT-TAACC--
*
11126895 ATTTAATTAAAAACCCT
56 -CTTAATTAAAAACCCT
* * *
11126912 AAACCCT---T-A---ACTTAAAAGCCCTAACCTAATTTAATTAAAAACCCTAAACCCTTAACTT
1 -AACCCTACCTAATTTAATTAAAAACCCT-ACCTAATTTAATTAAAAACCCTTAACCCTTAA-TT
*
11126970 AAAAGCCCT
63 AAAAACCCT
** * * *
11126979 -A---GGCCTAATTTAATT-AAAACCCTA---AACCCTTAACTTAAAAACTC-TAACCTAATTTA
1 AACCCTACCTAATTTAATTAAAAACCCTACCTAA--TTTAA-TTAAAAACCCTTAACC---CTTA
11127035 ATTAAAAACCCT
60 ATTAAAAACCCT
* * ** *
11127047 AAACCCTTAACTTAA--AAACTCTAACCTA-CCTAACCTAATTTAATTAAAAACTC-TAA-CC-T
1 -AACCC-T-ACCTAATTTAA-T-TAA-AAACCCT-ACCTAATTTAATTAAAAACCCTTAACCCTT
11127106 AATTTAATTAAA----
59 AA-TTAA--AAACCCT
* *
11127118 AACCCTAGCCTAATTTAATTAAAAACCCTAAACTAATTTAATTAAAAACCCTAAACCCTTAATTA
1 AACCCTA-CCTAATTTAATTAAAAACCCT-ACCTAATTTAATTAAAAACCCTTAACCCTTAATTA
*
11127183 AAAACTCT
64 AAAACCCT
** *
11127191 AACCCTAACCTAATTTAATTAAAAACTGTA---AACCTTTAACTTAAAAACCCTAAACCCTTAAC
1 AACCCT-ACCTAATTTAATTAAAAACCCTACCTAA--TTTAA-TTAAAAACCCTTAACCCTTAA-
*
11127253 TTTAAAAACTCT
61 -TTAAAAACCCT
11127265 AACC
1 AACC
11127269 TTAACGTAAT
Statistics
Matches: 753, Mismatches: 76, Indels: 339
0.64 0.07 0.29
Matches are distributed among these distances:
62 2 0.00
63 3 0.00
64 12 0.02
65 6 0.01
66 42 0.06
67 90 0.12
68 96 0.13
69 96 0.13
70 28 0.04
71 31 0.04
72 48 0.06
73 112 0.15
74 37 0.05
75 36 0.05
76 25 0.03
77 23 0.03
78 9 0.01
79 5 0.01
80 6 0.01
81 17 0.02
82 11 0.01
83 10 0.01
84 8 0.01
ACGTcount: A:0.44, C:0.25, G:0.02, T:0.28
Consensus pattern (71 bp):
AACCCTACCTAATTTAATTAAAAACCCTACCTAATTTAATTAAAAACCCTTAACCCTTAATTAAA
AACCCT
Found at i:11126417 original size:45 final size:45
Alignment explanation
Indices: 11126179--11127150 Score: 1084
Period size: 45 Copynumber: 20.6 Consensus size: 45
11126169 CCCAAAATCA
* * *
11126179 TAACCTAATTTAATTAAAAACCCT-AGCCTAATTTAA-TTAAAAACCC
1 TAACCTAATTTAATTAAAAACCCTAAACC---CTTAACTTAAAAGCCC
* * * *
11126225 TGACTTAATTTAATTAAAAACCCTTAACCCTTAA-TTAAAAACCCTAACCC
1 TAACCTAATTTAATTAAAAACCCTAAACCCTTAACTT--AAA----AGCCC
* * *
11126275 TAACCTAATTTAATTAAAAACCCT-AGCCTAATTTAA-TTAAAAACCC
1 TAACCTAATTTAATTAAAAACCCTAAACC---CTTAACTTAAAAGCCC
* * * *
11126321 TGACTTAATTTAATTAAAAACCCTTAACCCTTAA-TTAAAAACCCTAACCC
1 TAACCTAATTTAATTAAAAACCCTAAACCCTTAACTT--AAA----AGCCC
11126371 TAACCTAATTTAATTAAAAACCCTAAACCCTTAACTTAAAAGCCC
1 TAACCTAATTTAATTAAAAACCCTAAACCCTTAACTTAAAAGCCC
11126416 TAACCTAATTTAATTAAAAACCCTAAACCCTTAACTTAAAAGCCC
1 TAACCTAATTTAATTAAAAACCCTAAACCCTTAACTTAAAAGCCC
11126461 TAACCTAATTTAATTAAAAACCCTAAACCCTTAACTTAAAAGCCC
1 TAACCTAATTTAATTAAAAACCCTAAACCCTTAACTTAAAAGCCC
11126506 TAACCTAATTTAATTAAAAACCCTAAACCCTTAACTTAAAAGCCC
1 TAACCTAATTTAATTAAAAACCCTAAACCCTTAACTTAAAAGCCC
11126551 TAACCTAATTTAATTAAAAACCCTAAACCCTTAACTTAAAAGCCC
1 TAACCTAATTTAATTAAAAACCCTAAACCCTTAACTTAAAAGCCC
11126596 TAACCTAATTTAATTAAAAACCCTAAACCCTTAACTTAAAAGCCC
1 TAACCTAATTTAATTAAAAACCCTAAACCCTTAACTTAAAAGCCC
11126641 TAACCTAATTTAATTAAAAACCCTAAACCCTTAACTTAAAAGCCC
1 TAACCTAATTTAATTAAAAACCCTAAACCCTTAACTTAAAAGCCC
*
11126686 TAACCTAATTTAATTAAAAACCCTAAACCCTTAACTACCTTAACTTAAAAACCCTAACTC
1 TAACCTAATTTAATTAAAAACCCT--A-----AAC--CCTTAACTT-AAAAGCC-----C
* *
11126746 TAACCTAATTTAATTAAAAACCCTAAACCTTTAACTTAAAAACCC
1 TAACCTAATTTAATTAAAAACCCTAAACCCTTAACTTAAAAGCCC
* * * *
11126791 TAACCTATTTTAATTAAAAACCCT-AGCCTAATTTAA-TTAAAAACCC
1 TAACCTAATTTAATTAAAAACCCTAAACC---CTTAACTTAAAAGCCC
* * *
11126837 TAGCCTAATTTAATTAAAAACCCTAAAACCTTAACTTAAAAACCCTAACTC
1 TAACCTAATTTAATTAAAAACCCTAAACCCTTAACTT-AAAA-GC---C-C
11126888 TAACCTAATTTAATTAAAAACCCTAAACCCTTAACTTAAAAGCCC
1 TAACCTAATTTAATTAAAAACCCTAAACCCTTAACTTAAAAGCCC
11126933 TAACCTAATTTAATTAAAAACCCTAAACCCTTAACTTAAAAGCCC
1 TAACCTAATTTAATTAAAAACCCTAAACCCTTAACTTAAAAGCCC
* * *
11126978 TAGGCCTAATTTAATT-AAAACCCTAAACCCTTAACTTAAAAACTC
1 TA-ACCTAATTTAATTAAAAACCCTAAACCCTTAACTTAAAAGCCC
*
11127023 TAACCTAATTTAATTAAAAACCCTAAACCCTTAACTTAAAAACTCTAACCTACC
1 TAACCTAATTTAATTAAAAACCCTAAACCCTTAACTT---AA----AAGC--CC
* * *
11127077 TAACCTAATTTAATTAAAAACTCT-AACCTAATTTAA-TTAAAAACCC
1 TAACCTAATTTAATTAAAAACCCTAAACC---CTTAACTTAAAAGCCC
*
11127123 TAGCCTAATTTAATTAAAAACCCTAAAC
1 TAACCTAATTTAATTAAAAACCCTAAAC
11127151 TAATTTAATT
Statistics
Matches: 826, Mismatches: 41, Indels: 117
0.84 0.04 0.12
Matches are distributed among these distances:
44 31 0.04
45 422 0.51
46 128 0.15
47 18 0.02
48 5 0.01
49 7 0.01
50 77 0.09
51 46 0.06
52 14 0.02
53 7 0.01
54 33 0.04
55 8 0.01
56 4 0.00
58 1 0.00
60 25 0.03
ACGTcount: A:0.44, C:0.25, G:0.02, T:0.28
Consensus pattern (45 bp):
TAACCTAATTTAATTAAAAACCCTAAACCCTTAACTTAAAAGCCC
Found at i:11127102 original size:23 final size:23
Alignment explanation
Indices: 11127075--11127216 Score: 173
Period size: 23 Copynumber: 6.0 Consensus size: 23
11127065 CTCTAACCTA
11127075 CCTAACCTAATTTAATTAAAAAC
1 CCTAACCTAATTTAATTAAAAAC
*
11127098 TCTAACCTAATTTAATTAAAAAC
1 CCTAACCTAATTTAATTAAAAAC
*
11127121 CCTAGCCTAATTTAATTAAAAAC
1 CCTAACCTAATTTAATTAAAAAC
*
11127144 CCTAAACTAATTTAATTAAAAAC
1 CCTAACCTAATTTAATTAAAAAC
11127167 CCTAAACCCTTAA-TTAA--AAACTCTAAC
1 CCT-AA-CC-TAATTTAATTAAA----AAC
11127194 CCTAACCTAATTTAATTAAAAAC
1 CCTAACCTAATTTAATTAAAAAC
11127217 TGTAAACCTT
Statistics
Matches: 103, Mismatches: 6, Indels: 20
0.80 0.05 0.16
Matches are distributed among these distances:
23 73 0.71
24 5 0.05
25 11 0.11
26 5 0.05
27 9 0.09
ACGTcount: A:0.47, C:0.22, G:0.01, T:0.30
Consensus pattern (23 bp):
CCTAACCTAATTTAATTAAAAAC
Found at i:11127162 original size:123 final size:119
Alignment explanation
Indices: 11126283--11127242 Score: 523
Period size: 119 Copynumber: 8.2 Consensus size: 119
11126273 CCTAACCTAA
*
11126283 TTTAA-TTAAAAACCCTAGCCTAATTTAA-TTAAAAACCCT-GACTTAATTTAATTAAAAACCCT
1 TTTAACTTAAAAACCCTAGCCTAATTTAACTTAAAAACCCTAAAC-TAATTTAATTAAAAACCCT
* * *
11126345 TAACCCTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACC
65 AAACCCTTAATTAAAAACTCTAACCCTAACCTAATTTAATTAAAAACTCTAAACC
* * * ** *
11126400 CTTAACTTAAAAGCCCTAACCTAATTTAA-TTAAAAACCCTAAAC--CCTTAACTTAAAAGCCCT
1 TTTAACTTAAAAACCCTAGCCTAATTTAACTTAAAAACCCTAAACTAATTTAA-TTAAAAACCCT
* * * *****
11126462 -AACCTAATTTAATTAAAAACCCTAAACCCTTAACTTAA---AAGCCCTAAC-CT-AA--
65 AAACC---CTTAATTAAAAACTCT-AACCC-TAACCTAATTTAATTAAAAACTCTAAACC
* * * *
11126514 TTTAA-TTAAAAACCCTAAACC---CTTAACTTAAAAGCCCTAACCTAATTTAATTAAAAACCCT
1 TTTAACTTAAAAACCCT-AGCCTAATTTAACTTAAAAACCCTAAACTAATTTAATTAAAAACCCT
* *
11126575 AAACCCTTAACTT--AAA----AGCCCTAACCTAATTTAATTAAAAACCCTAAACC
65 AAACCCTTAA-TTAAAAACTCTAACCCTAACCTAATTTAATTAAAAACTCTAAACC
* * * ** *
11126625 CTTAACTTAAAAGCCCTAACCTAATTTAA-TTAAAAACCCTAAAC--CCTTAACTTAAAAGCCCT
1 TTTAACTTAAAAACCCTAGCCTAATTTAACTTAAAAACCCTAAACTAATTTAA-TTAAAAACCCT
* * ** *
11126687 -AACCTAATTTAATTAAAAACCCTAAACCCTTAA-CTACCTTAACTTAAAAACCCTAACTCTAAC
65 AAACC---CTTAATTAAAAACTCT-AACCC-TAACCTAATTTAA-TTAAAAA--CT--CT-AAAC
11126750 C
119 C
* * *
11126751 TAATTTAA-TTAAAAACCCTAAACC---TTTAACTTAAAAACCCTAACCTATTTTAATTAAAAAC
1 ---TTTAACTTAAAAACCCT-AGCCTAATTTAACTTAAAAACCCTAAACTAATTTAATTAAAAAC
* * *
11126812 CCT--AGCC-TAATTTAATTAAA----AACCCTAGCCTAATTTAATTAAAAACCCTAAAACC
62 CCTAAACCCTTAA-TTAA--AAACTCTAACCCTAACCTAATTTAATTAAAAACTCT-AAACC
* **
11126867 -TTAACTTAAAAACCCTAACTCTAACCTAATTTAA-TTAAAAACCCTAAAC--CCTTAACTTAAA
1 TTTAACTTAAAAA--C---C-CTAGCCTAATTTAACTTAAAAACCCTAAACTAATTTAA-TTAAA
* * * * **
11126928 AGCCCT-AA-CC-TAATTTAATTAAA----AACCCTAAACC---CTTAACTTAAAAGCCCTAGGC
59 AACCCTAAACCCTTAA-TTAA--AAACTCTAACCCT-AACCTAATTTAA-TTAAAAACTCTAAAC
11126983 C
119 C
* * * *
11126984 TAATTTAA-TT-AAAACCCTAAACC---CTTAACTTAAAAACTCTAACCTAATTTAATTAAAAAC
1 ---TTTAACTTAAAAACCCT-AGCCTAATTTAACTTAAAAACCCTAAACTAATTTAATTAAAAAC
11127044 CCTAAACCCTTAACTTAAAAACTCTAACCTACCTAACCTAATTTAATTAAAAACTCT-AACC
62 CCTAAACCCTTAA-TTAAAAACTCTAA-C--CCTAACCTAATTTAATTAAAAACTCTAAACC
11127105 TAATTTAA-TTAAAAACCCTAGCCTAATTTAA-TTAAAAACCCTAAACTAATTTAATTAAAAACC
1 ---TTTAACTTAAAAACCCTAGCCTAATTTAACTTAAAAACCCTAAACTAATTTAATTAAAAACC
*
11127168 CTAAACCCTTAATTAAAAACTCTAACCCTAACCTAATTTAATTAAAAACTGTAAACC
63 CTAAACCCTTAATTAAAAACTCTAACCCTAACCTAATTTAATTAAAAACTCTAAACC
11127225 TTTAACTTAAAAACCCTA
1 TTTAACTTAAAAACCCTA
11127243 AACCCTTAAC
Statistics
Matches: 664, Mismatches: 84, Indels: 189
0.71 0.09 0.20
Matches are distributed among these distances:
104 7 0.01
105 4 0.01
107 5 0.01
108 2 0.00
109 2 0.00
110 3 0.00
111 28 0.04
112 52 0.08
113 54 0.08
114 38 0.06
115 6 0.01
116 23 0.03
117 29 0.04
118 71 0.11
119 80 0.12
120 53 0.08
121 57 0.09
122 30 0.05
123 50 0.08
124 8 0.01
125 2 0.00
126 12 0.02
127 16 0.02
128 20 0.03
129 12 0.02
ACGTcount: A:0.45, C:0.25, G:0.02, T:0.28
Consensus pattern (119 bp):
TTTAACTTAAAAACCCTAGCCTAATTTAACTTAAAAACCCTAAACTAATTTAATTAAAAACCCTA
AACCCTTAATTAAAAACTCTAACCCTAACCTAATTTAATTAAAAACTCTAAACC
Found at i:11127212 original size:50 final size:52
Alignment explanation
Indices: 11127140--11127253 Score: 160
Period size: 50 Copynumber: 2.2 Consensus size: 52
11127130 ATTTAATTAA
*
11127140 AAACCCTAAACTAATTTAATTAAAAACCCTAAACCCTTAA-TTAAAAACTCT
1 AAACCCTAAACTAATTTAATTAAAAACCCTAAACCCTTAACTTAAAAACCCT
* ** *
11127191 -AACCCTAACCTAATTTAATTAAAAACTGTAAACCTTTAACTTAAAAACCCT
1 AAACCCTAAACTAATTTAATTAAAAACCCTAAACCCTTAACTTAAAAACCCT
*
11127242 AAACCCTTAACT
1 AAACCCTAAACT
11127254 TTAAAAACTC
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
50 35 0.65
51 10 0.19
52 9 0.17
ACGTcount: A:0.46, C:0.25, G:0.01, T:0.28
Consensus pattern (52 bp):
AAACCCTAAACTAATTTAATTAAAAACCCTAAACCCTTAACTTAAAAACCCT
Found at i:11127235 original size:22 final size:22
Alignment explanation
Indices: 11127204--11127270 Score: 84
Period size: 22 Copynumber: 3.1 Consensus size: 22
11127194 CCTAACCTAA
*
11127204 TTTAA-TTAAAAACTGTAAACC
1 TTTAACTTAAAAACTCTAAACC
*
11127225 TTTAACTTAAAAACCCTAAACC
1 TTTAACTTAAAAACTCTAAACC
*
11127247 CTTAACTTTAAAAACTCT-AACC
1 TTTAAC-TTAAAAACTCTAAACC
11127269 TT
1 TT
11127271 AACGTAATGT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
21 5 0.13
22 24 0.62
23 10 0.26
ACGTcount: A:0.43, C:0.22, G:0.01, T:0.33
Consensus pattern (22 bp):
TTTAACTTAAAAACTCTAAACC
Found at i:11127417 original size:116 final size:116
Alignment explanation
Indices: 11127275--11127608 Score: 614
Period size: 116 Copynumber: 2.9 Consensus size: 116
11127265 AACCTTAACG
* * * * *
11127275 TAATGTTAGATTTGGAAAAATGTTTTGACTGATACTAACAAATAATAATTTTACATAATTTGATA
1 TAATGTTAGATTTGGAAAAATATTTTGACTGGTACTAACAATTAATAATTGTATATAATTTGATA
*
11127340 ATTTTTCTAACCATTAATACAATTTTTTGACTTAATAATTTTACATTCACA
66 ATTTTACTAACCATTAATACAATTTTTTGACTTAATAATTTTACATTCACA
11127391 TAATGTTAGATTTGGAAAAATATTTTGACTGGTACTAACAATTAATAATTGTATATAATTTGATA
1 TAATGTTAGATTTGGAAAAATATTTTGACTGGTACTAACAATTAATAATTGTATATAATTTGATA
11127456 ATTTTACTAACCATTAATACAATTTTTTGACTTAATAATTTTACATTCACA
66 ATTTTACTAACCATTAATACAATTTTTTGACTTAATAATTTTACATTCACA
11127507 TAATGTTAGATTTGGAAAAATATTTTGACTGGTACTAACAATTAATAATTGTATATAATTTGATA
1 TAATGTTAGATTTGGAAAAATATTTTGACTGGTACTAACAATTAATAATTGTATATAATTTGATA
11127572 ATTTTACTAACCATTAATACAATTTTTTGACTTAATA
66 ATTTTACTAACCATTAATACAATTTTTTGACTTAATA
11127609 CAATTTATCA
Statistics
Matches: 212, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
116 212 1.00
ACGTcount: A:0.39, C:0.09, G:0.09, T:0.43
Consensus pattern (116 bp):
TAATGTTAGATTTGGAAAAATATTTTGACTGGTACTAACAATTAATAATTGTATATAATTTGATA
ATTTTACTAACCATTAATACAATTTTTTGACTTAATAATTTTACATTCACA
Found at i:11127625 original size:17 final size:18
Alignment explanation
Indices: 11127584--11127625 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
11127574 TTTACTAACC
* *
11127584 ATTAATACAATTTTTTGA
1 ATTAATACAATTTTATCA
*
11127602 CTTAATACAA-TTTATCA
1 ATTAATACAATTTTATCA
11127619 ATTAATA
1 ATTAATA
11127626 ATTTCACAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.43, C:0.10, G:0.02, T:0.45
Consensus pattern (18 bp):
ATTAATACAATTTTATCA
Found at i:11130801 original size:124 final size:125
Alignment explanation
Indices: 11130642--11130992 Score: 507
Period size: 125 Copynumber: 2.8 Consensus size: 125
11130632 CCCAAACATG
11130642 CTACTGTAGCAAAAGCGCATCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATTGCATCCTGC
1 CTACTGTAGCAAAAGCGCATCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATTGCATCCTGC
11130707 TAGAAGCGATTTTATATTATTTCTTCAGAAACGTCAAAAAA-AATTATTTCTTACATG-C
66 TAGAAGCGATTTTATATTATTTCTTCAGAAACGTCAAAAAATAATTATTTCTTACATGAC
** * *
11130765 CTTACTGTAGCAAAAGCGCA-CTGGCGAGGCCGCGATTTCACAAATTCTTCTCAAATAGCATCCT
1 C-TACTGTAGCAAAAGCGCATC-CACGAGGGCGCGATTTCACAAATTCTTCTCAAATTGCATCCT
* * *
11130829 GCTAGAAGCGATTTTATACTATTTGC-TCAGAAACGTCAAAAAATAATTATTTCTTCCGTGAC
64 GCTAGAAGCGATTTTATATTATTT-CTTCAGAAACGTCAAAAAATAATTATTTCTTACATGAC
* * *
11130891 CTACTGTAGCAAAAGTGCGTCCACGAGGGCGCGATTTCACAACTTCTTCTCAAATAT-CATCCTG
1 CTACTGTAGCAAAAGCGCATCCACGAGGGCGCGATTTCACAAATTCTTCTCAAAT-TGCATCCTG
* *
11130955 CTATAAGCGATTTTATATTATTT-TATCAGAAACATCAA
65 CTAGAAGCGATTTTATATTATTTCT-TCAGAAACGTCAA
11130993 CTCGAAATTA
Statistics
Matches: 202, Mismatches: 17, Indels: 16
0.86 0.07 0.07
Matches are distributed among these distances:
123 2 0.01
124 96 0.48
125 101 0.50
126 3 0.01
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCATCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATTGCATCCTGC
TAGAAGCGATTTTATATTATTTCTTCAGAAACGTCAAAAAATAATTATTTCTTACATGAC
Found at i:11135246 original size:11 final size:13
Alignment explanation
Indices: 11135222--11135253 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
11135212 TAGTTTATTA
11135222 ATATTTTAATATG
1 ATATTTTAATATG
11135235 AT-TTTTAA-ATG
1 ATATTTTAATATG
11135246 ATATTTTA
1 ATATTTTA
11135254 TTAATTTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 5 0.28
12 11 0.61
13 2 0.11
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (13 bp):
ATATTTTAATATG
Found at i:11137061 original size:46 final size:44
Alignment explanation
Indices: 11136994--11137145 Score: 171
Period size: 36 Copynumber: 3.6 Consensus size: 44
11136984 TTTGAGTACT
*
11136994 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGC--TAGCTACACTTA
*
11137040 TCTGATCAAGTGACAAAGTGAT-A-----AG-T-GCTACACTTA
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTAGCTACACTTA
*
11137076 TCTAATCAAGAGACAAAGTGATAAGTGGTAGCCTAGCTACACTTA
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAG-CTAGCTACACTTA
*
11137121 TCTGATC-AGGGAC-AAGTGATAAGTG
1 TCTGATCAAGAGACAAAGTGATAAGTG
11137146 ATCATACGTA
Statistics
Matches: 91, Mismatches: 6, Indels: 21
0.77 0.05 0.18
Matches are distributed among these distances:
36 30 0.33
37 2 0.02
40 2 0.02
42 2 0.02
43 12 0.13
44 6 0.07
45 17 0.19
46 20 0.22
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.27
Consensus pattern (44 bp):
TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTAGCTACACTTA
Found at i:11139556 original size:33 final size:32
Alignment explanation
Indices: 11139519--11139626 Score: 126
Period size: 33 Copynumber: 3.3 Consensus size: 32
11139509 TTTCTTTTTG
* * *
11139519 GTGTGATGGTTGGTTTTGCTCTTATAAACATT
1 GTGTGATGGTTGGTTTAGCTCTTATGAGCATT
* *
11139551 AGTGTGATGGTCGATTTAGCTCTTATGAGCATT
1 -GTGTGATGGTTGGTTTAGCTCTTATGAGCATT
* *
11139584 GGTATGATGGTTGGATTAGCTCTTATGAGCATT
1 -GTGTGATGGTTGGTTTAGCTCTTATGAGCATT
11139617 GATGTGATGG
1 G-TGTGATGG
11139627 ATGGATTGGC
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
32 1 0.02
33 62 0.98
ACGTcount: A:0.20, C:0.09, G:0.30, T:0.41
Consensus pattern (32 bp):
GTGTGATGGTTGGTTTAGCTCTTATGAGCATT
Found at i:11139632 original size:33 final size:33
Alignment explanation
Indices: 11139520--11139638 Score: 125
Period size: 33 Copynumber: 3.6 Consensus size: 33
11139510 TTCTTTTTGG
* * * *
11139520 TGTGATGGTTGGTTTTGCTCTTATAAACATT-A
1 TGTGATGGTTGGATTAGCTCTTATGAGCATTGA
* *
11139552 GTGTGATGG-TCGATTTAGCTCTTATGAGCATTGG
1 -TGTGATGGTTGGA-TTAGCTCTTATGAGCATTGA
*
11139586 TATGATGGTTGGATTAGCTCTTATGAGCATTGA
1 TGTGATGGTTGGATTAGCTCTTATGAGCATTGA
* *
11139619 TGTGATGGATGGATTGGCTC
1 TGTGATGGTTGGATTAGCTC
11139639 AAGTGAGCAT
Statistics
Matches: 71, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
32 2 0.03
33 66 0.93
34 3 0.04
ACGTcount: A:0.20, C:0.10, G:0.29, T:0.40
Consensus pattern (33 bp):
TGTGATGGTTGGATTAGCTCTTATGAGCATTGA
Found at i:11139646 original size:33 final size:33
Alignment explanation
Indices: 11139566--11139648 Score: 96
Period size: 33 Copynumber: 2.5 Consensus size: 33
11139556 GATGGTCGAT
* * *
11139566 TTAGCTCTTATGAGCATTGGTATGATGGTTGGA
1 TTAGCTCTAATGAGCATTGATATGATGGATGGA
* *
11139599 TTAGCTCTTATGAGCATTGATGTGATGGATGGA
1 TTAGCTCTAATGAGCATTGATATGATGGATGGA
*
11139632 TTGGCTC-AAGTGAGCAT
1 TTAGCTCTAA-TGAGCAT
11139649 CTGGTGTGTT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
32 1 0.02
33 43 0.98
ACGTcount: A:0.23, C:0.11, G:0.30, T:0.36
Consensus pattern (33 bp):
TTAGCTCTAATGAGCATTGATATGATGGATGGA
Found at i:11143821 original size:51 final size:49
Alignment explanation
Indices: 11143694--11143881 Score: 223
Period size: 51 Copynumber: 3.7 Consensus size: 49
11143684 TTATCATTCA
* ** * *
11143694 ATACACGTAGTAGCCTCCACATAGTACTACATGCGTGATCAAGTTTTACG
1 ATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAATTTT-CG
* *
11143744 GTTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAACTTTTCG
1 ATACACGTAGTAGCCTTCACATAGTACTACACACGTGACC-AAA-TTTTCG
* * * *
11143795 ATACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATTATTTATCG
1 ATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCA-AATTT-TCG
*
11143846 ATACACGTAGTAGCCTTCACACAGTACTACACACGT
1 ATACACGTAGTAGCCTTCACATAGTACTACACACGT
11143882 TTTCATCGAT
Statistics
Matches: 117, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
50 38 0.32
51 75 0.64
52 4 0.03
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (49 bp):
ATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAATTTTCG
Found at i:11144385 original size:30 final size:30
Alignment explanation
Indices: 11144351--11144415 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 30
11144341 TCCTTAACTC
* *
11144351 AAACTTTGGCAAAATTATAATTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCA
* * * *
11144381 AAACTTTTGCATATTTACACTTTTGCCCCA
1 AAACTTTGGCAAAATTACAATTTTGCCCCA
11144411 AAACT
1 AAACT
11144416 CGGAAATTAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.32, C:0.23, G:0.08, T:0.37
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACAATTTTGCCCCA
Found at i:11147887 original size:10 final size:10
Alignment explanation
Indices: 11147872--11147896 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
11147862 CTTCTGATTT
11147872 AAGAGTTGAA
1 AAGAGTTGAA
11147882 AAGAGTTGAA
1 AAGAGTTGAA
11147892 AAGAG
1 AAGAG
11147897 ATTATGAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.32, T:0.16
Consensus pattern (10 bp):
AAGAGTTGAA
Found at i:11149675 original size:52 final size:51
Alignment explanation
Indices: 11149606--11149708 Score: 188
Period size: 52 Copynumber: 2.0 Consensus size: 51
11149596 ACTTTACATT
*
11149606 CCTGCTACAATATAATTCTAATCTTGCATATAATTGTCAAATTTACATCAA
1 CCTGCTACAATAGAATTCTAATCTTGCATATAATTGTCAAATTTACATCAA
11149657 NCCTGCTACAATAGAATTCTAATCTTGCATATAATTGTCAAATTTACATCAA
1 -CCTGCTACAATAGAATTCTAATCTTGCATATAATTGTCAAATTTACATCAA
11149709 TAAAAGTACC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.37, C:0.19, G:0.07, T:0.36
Consensus pattern (51 bp):
CCTGCTACAATAGAATTCTAATCTTGCATATAATTGTCAAATTTACATCAA
Found at i:11158758 original size:21 final size:22
Alignment explanation
Indices: 11158734--11158776 Score: 79
Period size: 21 Copynumber: 2.0 Consensus size: 22
11158724 CAGACTGATT
11158734 AATAAAATTATA-AAAATAAAA
1 AATAAAATTATACAAAATAAAA
11158755 AATAAAATTATACAAAATAAAA
1 AATAAAATTATACAAAATAAAA
11158777 TAAAAACTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.23
Consensus pattern (22 bp):
AATAAAATTATACAAAATAAAA
Found at i:11165518 original size:15 final size:15
Alignment explanation
Indices: 11165498--11165526 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
11165488 TGTAGACTGA
11165498 GCACTTTTCTCAAGG
1 GCACTTTTCTCAAGG
11165513 GCACTTTTCTCAAG
1 GCACTTTTCTCAAG
11165527 CCAATTGTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (15 bp):
GCACTTTTCTCAAGG
Found at i:11170535 original size:14 final size:14
Alignment explanation
Indices: 11170518--11170544 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
11170508 TTTTTTTTTC
11170518 TATTATTTTATAAA
1 TATTATTTTATAAA
11170532 TATTATTTTATAA
1 TATTATTTTATAA
11170545 TTAAAATTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TATTATTTTATAAA
Found at i:11173399 original size:3 final size:3
Alignment explanation
Indices: 11173391--11173593 Score: 406
Period size: 3 Copynumber: 67.7 Consensus size: 3
11173381 GATTCACACA
11173391 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
11173439 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
11173487 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
11173535 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
11173583 AAT AAT AAT AA
1 AAT AAT AAT AA
11173594 AGTATTATTA
Statistics
Matches: 200, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 200 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:11179824 original size:14 final size:14
Alignment explanation
Indices: 11179802--11179839 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
11179792 AGTAATTCTT
*
11179802 ACCCCAAAC-CCAA
1 ACCCTAAACTCCAA
11179815 CACCCTAAACTCCAA
1 -ACCCTAAACTCCAA
11179830 ACCCTAAACT
1 ACCCTAAACT
11179840 TAAACCATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 18 0.82
15 4 0.18
ACGTcount: A:0.42, C:0.47, G:0.00, T:0.11
Consensus pattern (14 bp):
ACCCTAAACTCCAA
Found at i:11179937 original size:7 final size:7
Alignment explanation
Indices: 11179927--11179965 Score: 60
Period size: 7 Copynumber: 5.6 Consensus size: 7
11179917 CTTGAACCTC
11179927 AAATCCT
1 AAATCCT
11179934 AAATCCT
1 AAATCCT
11179941 AAATCCT
1 AAATCCT
*
11179948 AAATCTT
1 AAATCCT
*
11179955 AAACCCT
1 AAATCCT
11179962 AAAT
1 AAAT
11179966 TTTAAGGTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.28
Consensus pattern (7 bp):
AAATCCT
Found at i:11179970 original size:14 final size:14
Alignment explanation
Indices: 11179931--11179970 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
11179921 AACCTCAAAT
* *
11179931 CCTAAATCCTAAAT
1 CCTAAATCTTAAAC
11179945 CCTAAATCTTAAAC
1 CCTAAATCTTAAAC
*
11179959 CCTAAATTTTAA
1 CCTAAATCTTAA
11179971 GGTTTAAGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.42, C:0.25, G:0.00, T:0.33
Consensus pattern (14 bp):
CCTAAATCTTAAAC
Found at i:11181094 original size:24 final size:25
Alignment explanation
Indices: 11181067--11181114 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
11181057 GCTTTATATC
*
11181067 TTCCATGT-AATAAAAAAAATTGCT
1 TTCCAAGTCAATAAAAAAAATTGCT
* *
11181091 TTCCAAGTCAATAAGAAATATTGC
1 TTCCAAGTCAATAAAAAAAATTGC
11181115 ACTCGATGTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.31
Consensus pattern (25 bp):
TTCCAAGTCAATAAAAAAAATTGCT
Found at i:11187153 original size:23 final size:24
Alignment explanation
Indices: 11187116--11187160 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
11187106 AATCGATATG
*
11187116 AAATATTGATAAATTTTGATAAAA
1 AAATATTGATAAATTTTAATAAAA
*
11187140 AAATATTTAT-AATTTTAATAA
1 AAATATTGATAAATTTTAATAA
11187161 TTGAATTGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.42
Consensus pattern (24 bp):
AAATATTGATAAATTTTAATAAAA
Found at i:11188541 original size:3 final size:3
Alignment explanation
Indices: 11188533--11188557 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
11188523 GATCTGTTTG
11188533 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
11188558 AGTAATTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:11190898 original size:7 final size:7
Alignment explanation
Indices: 11190886--11190910 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
11190876 CTATCTCTCT
11190886 ATTTTAA
1 ATTTTAA
11190893 ATTTTAA
1 ATTTTAA
11190900 ATTTTAA
1 ATTTTAA
11190907 ATTT
1 ATTT
11190911 GAGATTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (7 bp):
ATTTTAA
Found at i:11193120 original size:16 final size:17
Alignment explanation
Indices: 11193099--11193134 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
11193089 GGATCAAAGA
*
11193099 TAAATATATTTATT-AT
1 TAAATATAATTATTAAT
11193115 TAAATATAATTATTAAT
1 TAAATATAATTATTAAT
11193132 TAA
1 TAA
11193135 TGAAATGTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TAAATATAATTATTAAT
Found at i:11199057 original size:15 final size:15
Alignment explanation
Indices: 11199037--11199067 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
11199027 AAGTTTTGGT
11199037 CTTTTGTCTCAGCAA
1 CTTTTGTCTCAGCAA
11199052 CTTTTGTCTCAGCAA
1 CTTTTGTCTCAGCAA
11199067 C
1 C
11199068 CAAGCGTAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.29, G:0.13, T:0.39
Consensus pattern (15 bp):
CTTTTGTCTCAGCAA
Found at i:11206809 original size:7 final size:7
Alignment explanation
Indices: 11206784--11206821 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
11206774 AAGCAATAAG
11206784 AAGAAA-
1 AAGAAAC
*
11206790 AAGAAGC
1 AAGAAAC
11206797 -AGAAAC
1 AAGAAAC
11206803 AAGAAAC
1 AAGAAAC
11206810 AAGAAAC
1 AAGAAAC
11206817 AAGAA
1 AAGAA
11206822 GAAGAGAACA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
6 10 0.36
7 18 0.64
ACGTcount: A:0.71, C:0.11, G:0.18, T:0.00
Consensus pattern (7 bp):
AAGAAAC
Found at i:11206831 original size:14 final size:13
Alignment explanation
Indices: 11206781--11206831 Score: 59
Period size: 14 Copynumber: 3.8 Consensus size: 13
11206771 TTGAAGCAAT
11206781 AAGAAGAAA-AAG
1 AAGAAGAAACAAG
*
11206793 AAGCAGAAACAAG
1 AAGAAGAAACAAG
*
11206806 AAACAAGAAACAAG
1 -AAGAAGAAACAAG
11206820 AAGAAGAGAACA
1 AAGAAGA-AACA
11206832 CACCTTGGGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
12 8 0.25
13 9 0.28
14 15 0.47
ACGTcount: A:0.69, C:0.10, G:0.22, T:0.00
Consensus pattern (13 bp):
AAGAAGAAACAAG
Found at i:11210145 original size:31 final size:28
Alignment explanation
Indices: 11210082--11210146 Score: 78
Period size: 28 Copynumber: 2.2 Consensus size: 28
11210072 TTTAACCATA
*
11210082 TAATAAATTATTAATATAATTTATTTTT
1 TAATAAATTATTAATATAATTTATATTT
11210110 TAATAAATTATTTAATATTTTAATTT-TATTT
1 TAATAAATTA-TTAATA---TAATTTATATTT
11210141 TAATAA
1 TAATAA
11210147 TAATTTTAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
28 10 0.31
29 6 0.19
31 10 0.31
32 6 0.19
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (28 bp):
TAATAAATTATTAATATAATTTATATTT
Found at i:11217502 original size:14 final size:15
Alignment explanation
Indices: 11217478--11217506 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
11217468 TTTTTCTGTG
11217478 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
11217493 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
11217507 AGTTTCGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:11217710 original size:28 final size:28
Alignment explanation
Indices: 11217677--11217733 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
11217667 TATAGTTTTT
11217677 ATAATA-ATTAGAAAGGTTATAATAATAA
1 ATAATATATTAGAAA-GTTATAATAATAA
* *
11217705 ATAATATATTATAAAGTTATTATAATAA
1 ATAATATATTAGAAAGTTATAATAATAA
11217733 A
1 A
11217734 AAAAAACAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 19 0.73
29 7 0.27
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (28 bp):
ATAATATATTAGAAAGTTATAATAATAA
Found at i:11218415 original size:64 final size:64
Alignment explanation
Indices: 11218330--11218506 Score: 220
Period size: 64 Copynumber: 2.8 Consensus size: 64
11218320 ATATATATTT
* * *
11218330 AAAGTTCTTGAGTTGTATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
1 AAAGTTTTTGAGATGAATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
* * *
11218394 AAAGTTTTTGAGATGAATTTAATGTATGAATTTTACATACATATGTGGTTCGAATATATGTTAC
1 AAAGTTTTTGAGATGAATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
* *
11218458 AAA-TTCTTTGAGCTGAATTTTAATGT-TGTAA--AT-TATACATATGTGGTTC
1 AAAGTT-TTTGAGATGAA-TTTAATGTATG-AATTTTATATACATATGTGGTTC
11218507 GAATGTTTGT
Statistics
Matches: 101, Mismatches: 9, Indels: 8
0.86 0.08 0.07
Matches are distributed among these distances:
62 15 0.15
63 3 0.03
64 73 0.72
65 10 0.10
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.44
Consensus pattern (64 bp):
AAAGTTTTTGAGATGAATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
Found at i:11218697 original size:41 final size:41
Alignment explanation
Indices: 11218640--11218728 Score: 169
Period size: 41 Copynumber: 2.2 Consensus size: 41
11218630 GGCTTAATGC
11218640 CTAGCAGACTTGATGTCGGTGAATTACTTCAAACTTTATGT
1 CTAGCAGACTTGATGTCGGTGAATTACTTCAAACTTTATGT
*
11218681 CTAGCAGACTTGATGTCGGTGAATTACTTCAGACTTTATGT
1 CTAGCAGACTTGATGTCGGTGAATTACTTCAAACTTTATGT
11218722 CTAGCAG
1 CTAGCAG
11218729 GCTTTGTGCC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 47 1.00
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (41 bp):
CTAGCAGACTTGATGTCGGTGAATTACTTCAAACTTTATGT
Found at i:11218742 original size:41 final size:41
Alignment explanation
Indices: 11218640--11218744 Score: 158
Period size: 41 Copynumber: 2.6 Consensus size: 41
11218630 GGCTTAATGC
*
11218640 CTAGCAGACTTGATGTCGGTGAATTACTTCAAACTTTATGT
1 CTAGCAGACTTGATGCCGGTGAATTACTTCAAACTTTATGT
* *
11218681 CTAGCAGACTTGATGTCGGTGAATTACTTCAGACTTTATGT
1 CTAGCAGACTTGATGCCGGTGAATTACTTCAAACTTTATGT
*
11218722 CTAGCAGGCTTTG-TGCCGGTGAA
1 CTAGCAGAC-TTGATGCCGGTGAA
11218745 ATGTATCGAG
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
41 57 0.95
42 3 0.05
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (41 bp):
CTAGCAGACTTGATGCCGGTGAATTACTTCAAACTTTATGT
Found at i:11222366 original size:51 final size:50
Alignment explanation
Indices: 11222306--11222737 Score: 347
Period size: 51 Copynumber: 8.5 Consensus size: 50
11222296 GATGAACACG
* *
11222306 TGTGTAGTACTGTGTGAAGGCTACTGCGTGTATCGATAAATAATGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAAT-ATGGTCACA
* * * * * * * *
11222357 TGTGTAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGTCACT
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAA-ATATGGTCACA
*
11222408 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAAT-ATGGTCACA
* * * * * * * **
11222459 TGTGTAATACTAAGTGAAGGCTACTATGTGTACCGAAAAACTTTGATCATG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAA-TATGGTCACA
* * * *
11222510 TGTGTAGTACTATGTGAAGGCTACTTCGTG-AACTG-TAGAACT-TGATCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATC-GATA-AA-TATGGTCACA
* * *
11222560 TGTGTAGTACTATGTGTAGGCTACTACGTGTATC-A-GAATGATAGGTCGCA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAAT-AT-GGTCACA
* * * ** * *
11222610 TGTGTAGTACTATGTGAAGGCTACTATGCGTACCAGATAGCT-TCGATCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATC-GATAAATAT-GGTCACA
* * *
11222661 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGAT-AGTGATGTTCACC
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATC-GATAAAT-ATGGTCACA
* *
11222712 TGTGTAGTACTATGTGCATGCTACTA
1 TGTGTAGTACTATGTGAAGGCTACTA
11222738 TGTGAACCGG
Statistics
Matches: 302, Mismatches: 64, Indels: 30
0.76 0.16 0.08
Matches are distributed among these distances:
47 1 0.00
48 2 0.01
49 1 0.00
50 74 0.25
51 219 0.73
52 4 0.01
53 1 0.00
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (50 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATATGGTCACA
Found at i:11222482 original size:102 final size:102
Alignment explanation
Indices: 11222305--11222539 Score: 382
Period size: 102 Copynumber: 2.3 Consensus size: 102
11222295 CGATGAACAC
* *
11222305 GTGTGTAGTACTGTGTGAAGGCTACTGCGTGTATCGATAAATAATGGTCACATGTGTAGTACTAA
1 GTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACATGTGTAATACTAA
* * *
11222370 GTGAAGGCTACAATGTGTACCGAGAAGCTTTGGTCACT
66 GTGAAGGCTACAATGTGTACCGAAAAACTTTGATCA-T
11222408 -TGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACATGTGTAATACTAA
1 GTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACATGTGTAATACTAA
*
11222472 GTGAAGGCTACTATGTGTACCGAAAAACTTTGATCAT
66 GTGAAGGCTACAATGTGTACCGAAAAACTTTGATCAT
* *
11222509 GTGTGTAGTACTATGTGAAGGCTACTTCGTG
1 GTGTGTAGTACTGTGTGAAGGCTACTACGTG
11222540 AACTGTAGAA
Statistics
Matches: 123, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
101 1 0.01
102 122 0.99
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.31
Consensus pattern (102 bp):
GTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACATGTGTAATACTAA
GTGAAGGCTACAATGTGTACCGAAAAACTTTGATCAT
Found at i:11222636 original size:151 final size:153
Alignment explanation
Indices: 11222306--11222690 Score: 433
Period size: 151 Copynumber: 2.5 Consensus size: 153
11222296 GATGAACACG
* ** * * * * * *
11222306 TGTGTAGTACTGTGTGAAGGCTACTGCGTGTATCGATAAA-TAATGGTCACATGTGTAGTACTAA
1 TGTGTAGTACTATGTGAAGGCTACTATGTGTACCGAAAAACT-TTGATCACGTGTGTAGTACTAT
* * * * *
11222370 GTGAAGGCTACAAT-GTGTACCGAGAAGCTTTGGTCACTTGTGTAGTACTGTGTGAAGGCTACTA
65 GTGAAGGCTAC-TTCGTGAACCGAGAAGCTTTGATCACGTGTGTAGTACTATGTGAAGGCTACTA
11222434 CGTGTATCGATAAATAATGGTCACA
129 CGTGTATCGATAAATAATGGTCACA
* * *
11222459 TGTGTAATACTAAGTGAAGGCTACTATGTGTACCGAAAAACTTTGATCATGTGTGTAGTACTATG
1 TGTGTAGTACTATGTGAAGGCTACTATGTGTACCGAAAAACTTTGATCACGTGTGTAGTACTATG
* *
11222524 TGAAGGCTACTTCGTGAACTGTAGAA-C-TTGATCACGTGTGTAGTACTATGTGTAGGCTACTAC
66 TGAAGGCTACTTCGTGAACCG-AGAAGCTTTGATCACGTGTGTAGTACTATGTGAAGGCTACTAC
* * *
11222587 GTGTATC-A-GAATGATAGGTCGCA
130 GTGTATCGATAAATAAT-GGTCACA
* * * *
11222610 TGTGTAGTACTATGTGAAGGCTACTATGCGTACC-AGATAGCTTCGATCACGTGTGTAGTACTAT
1 TGTGTAGTACTATGTGAAGGCTACTATGTGTACCGA-AAAACTTTGATCACGTGTGTAGTACTAT
*
11222674 GTGAAGGCTACTACGTG
65 GTGAAGGCTACTTCGTG
11222691 TATCGGATAG
Statistics
Matches: 197, Mismatches: 30, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
150 6 0.03
151 78 0.40
152 40 0.20
153 68 0.35
154 5 0.03
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (153 bp):
TGTGTAGTACTATGTGAAGGCTACTATGTGTACCGAAAAACTTTGATCACGTGTGTAGTACTATG
TGAAGGCTACTTCGTGAACCGAGAAGCTTTGATCACGTGTGTAGTACTATGTGAAGGCTACTACG
TGTATCGATAAATAATGGTCACA
Found at i:11227371 original size:21 final size:21
Alignment explanation
Indices: 11227345--11227395 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
11227335 AACAGCGGTG
*
11227345 GCGGTGAGACTAGTTACTGTA
1 GCGGTGAGACTAGGTACTGTA
* *
11227366 GCGGTGAGATTGGGTACTGTA
1 GCGGTGAGACTAGGTACTGTA
*
11227387 GCAGTGAGA
1 GCGGTGAGA
11227396 TTAGAAACAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.24, C:0.12, G:0.39, T:0.25
Consensus pattern (21 bp):
GCGGTGAGACTAGGTACTGTA
Found at i:11227535 original size:19 final size:19
Alignment explanation
Indices: 11227511--11227558 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
11227501 TAGAAATTTT
*
11227511 TAAAATTATTTAATAATTA
1 TAAAATTATTAAATAATTA
* *
11227530 TAAAATTAATAAATGATTA
1 TAAAATTATTAAATAATTA
11227549 -AAAATTATTA
1 TAAAATTATTA
11227559 CAATTATATT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 9 0.36
19 16 0.64
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (19 bp):
TAAAATTATTAAATAATTA
Found at i:11231351 original size:43 final size:43
Alignment explanation
Indices: 11231268--11231370 Score: 102
Period size: 43 Copynumber: 2.4 Consensus size: 43
11231258 ATTTATGTGG
* * * *
11231268 AAAAACGACACTATAGAACTTGACATTTAGCGGAGCTTTTCCT
1 AAAAACGCCACTAAAGAACATGACATTTAGCGGAGCTTTTCCC
* *
11231311 ACAAACGCCACTAAAGAACATGACCTTTAGC-GA-CAATTTTCCC
1 AAAAACGCCACTAAAGAACATGACATTTAGCGGAGC--TTTTCCC
**
11231354 AAAAACGCTGCTAAAGA
1 AAAAACGCCACTAAAGA
11231371 CCATATCAAA
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
41 1 0.02
42 2 0.04
43 46 0.94
ACGTcount: A:0.39, C:0.24, G:0.15, T:0.22
Consensus pattern (43 bp):
AAAAACGCCACTAAAGAACATGACATTTAGCGGAGCTTTTCCC
Found at i:11252888 original size:93 final size:92
Alignment explanation
Indices: 11252776--11252964 Score: 306
Period size: 93 Copynumber: 2.0 Consensus size: 92
11252766 AACATTGATT
* *
11252776 TTTTTAATATATTTGTACAAACTATTTTTATATTATTTCATTTAATAAAATAAAATTTGTTTTTA
1 TTTTTAACATATTTGTACAAACTATTTTTATATTATTTCATTTAATAAAATAAAAGTTGTTTTTA
* * *
11252841 GTATTTTAATAGTAATTTATTTTTAATA
66 ATAATTTAACAGTAATTTATTTTT-ATA
*
11252869 TTTTTAACATATTTGTACAAACTATTTTTATATTGTTTCATTTAATAAAATAAAAGTTGTTTTTA
1 TTTTTAACATATTTGTACAAACTATTTTTATATTATTTCATTTAATAAAATAAAAGTTGTTTTTA
*
11252934 ATAATTTAGCAGTAATTTATTTTTATA
66 ATAATTTAACAGTAATTTATTTTTATA
11252961 TTTT
1 TTTT
11252965 AATAAAATAG
Statistics
Matches: 89, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
92 7 0.08
93 82 0.92
ACGTcount: A:0.35, C:0.04, G:0.05, T:0.55
Consensus pattern (92 bp):
TTTTTAACATATTTGTACAAACTATTTTTATATTATTTCATTTAATAAAATAAAAGTTGTTTTTA
ATAATTTAACAGTAATTTATTTTTATA
Found at i:11253010 original size:8 final size:9
Alignment explanation
Indices: 11252994--11253023 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
11252984 TGAATAAGAC
11252994 AATATTTTT
1 AATATTTTT
11253003 AATATTTTT
1 AATATTTTT
11253012 -ATATTTTT
1 AATATTTTT
11253020 AATA
1 AATA
11253024 AAATAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (9 bp):
AATATTTTT
Found at i:11255685 original size:50 final size:50
Alignment explanation
Indices: 11255610--11255710 Score: 175
Period size: 50 Copynumber: 2.0 Consensus size: 50
11255600 GAACAACAGT
11255610 AAATGTTGAAGTTACAAATGCTTTATTTGGCAATGAAAATTATACATATA
1 AAATGTTGAAGTTACAAATGCTTTATTTGGCAATGAAAATTATACATATA
* * *
11255660 AAATGTTGAAGTTGCAAATGCTTTATTTGGCGATGAAAATTATATATATA
1 AAATGTTGAAGTTACAAATGCTTTATTTGGCAATGAAAATTATACATATA
11255710 A
1 A
11255711 CTCAAGATAG
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.41, C:0.07, G:0.16, T:0.37
Consensus pattern (50 bp):
AAATGTTGAAGTTACAAATGCTTTATTTGGCAATGAAAATTATACATATA
Found at i:11256360 original size:123 final size:124
Alignment explanation
Indices: 11256111--11256632 Score: 683
Period size: 123 Copynumber: 4.1 Consensus size: 124
11256101 TAAGGTCAAA
*
11256111 CAGGAACTACTGTAGAAAAAGAGCGTCCACGTCCACGTGAGAGCTTTTTTTAGTAATTTTGCTGA
1 CAGGAACTACTGTAG--AAAGAGCGTCCACGT----G-GA-AGCTTTTTTCAGTAATTTTGCTGA
* *
11256176 CAGTGCACCTTGCTTGAAGCGTTTTTGACACTATTTGTTCATAATCGTCTTCTCAAAATTATTTT
58 CAGTGCACCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAATCGTCTTCTCAAAATTATTTT
11256241 TT
123 TT
* *
11256243 CAGGAACTACTATAGAAAGAGCGTCCACGTTGAAGC-TTTTTCAGTAATTTTGCTGACAGTGCAC
1 CAGGAACTACTGTAGAAAGAGCGTCCACGTGGAAGCTTTTTTCAGTAATTTTGCTGACAGTGCAC
* * *
11256307 CCTGCTTGAAGCGTTTTTGACATTATTTGCTCATAATCGTCTTCTCAAAATTATTTTTT
66 CCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAATCGTCTTCTCAAAATTATTTTTT
* * *
11256366 CAGGAACTATTGTAGAAAGAGCGTCCACGTGGAAAC-TTTTTCAGTAATTTTGCTGACA-TGCAT
1 CAGGAACTACTGTAGAAAGAGCGTCCACGTGGAAGCTTTTTTCAGTAATTTTGCTGACAGTGCAC
* *
11256429 CCTGCTTGAAGTGTTTTTTACACTATTTGTTCAGAATCGTCTTCTCAAAATTATTTTTTT
66 CCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAATCGTCTTCTCAAAATTA-TTTTTT
* * * *
11256489 CAAGAACTACTGTAGAAAAAGAGCGTCCACGTGGGATCTTTTTTCAGTAATTTTGCTGACAATGC
1 CAGGAACTACTGTAG--AAAGAGCGTCCACGTGGAAGCTTTTTTCAGTAATTTTGCTGACAGTGC
* * * * * * *
11256554 ATCTTGCTTAAAGTGTTTTTTACATTATCTT-TTTAGAATCGTCTTCTCAAAATTATTTTTT
64 ACCCTGCTTGAAGCGTTTTTGACACTAT-TTGTTCAGAATCGTCTTCTCAAAATTATTTTTT
*
11256615 CAGAAACTACTGTAGAAA
1 CAGGAACTACTGTAGAAA
11256633 AAATAAAAGT
Statistics
Matches: 358, Mismatches: 26, Indels: 20
0.89 0.06 0.05
Matches are distributed among these distances:
122 52 0.15
123 156 0.44
124 6 0.02
125 21 0.06
126 41 0.11
127 51 0.14
128 2 0.01
130 15 0.04
132 14 0.04
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.38
Consensus pattern (124 bp):
CAGGAACTACTGTAGAAAGAGCGTCCACGTGGAAGCTTTTTTCAGTAATTTTGCTGACAGTGCAC
CCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAATCGTCTTCTCAAAATTATTTTTT
Found at i:11256608 original size:249 final size:246
Alignment explanation
Indices: 11256156--11256632 Score: 699
Period size: 249 Copynumber: 1.9 Consensus size: 246
11256146 CGTGAGAGCT
* *
11256156 TTTTTTAGTAATTTTGCTGACAGTGCACCTTGCTTGAAGCGTTTTTGACACTATTTGTTCATAAT
1 TTTTTCAGTAATTTTGCTGACAGTGCACCTTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAT
* *
11256221 CGTCTTCTCAAAATTATTTTTTCAGGAACTACTATAGAAAGAGCGTCCACGTTGAAGCTTTTTCA
66 CGTCTTCTCAAAATTATTTTTTCAAGAACTACTATAGAAAGAGCGTCCACGTGGAAGCTTTTTCA
* * *
11256286 GTAATTTTGCTGACAGTGCACCCTGCTTGAAGCGTTTTTGACATTATTTGCTCATAATCGTCTTC
131 GTAATTTTGCTGACAATGCACCCTGCTTAAAGCGTTTTTGACATTATTTGCTCAGAATCGTCTTC
* *
11256351 TCAAAATTATTTTTTCAGGAACTATTGTAGAAAGAGCGTCCACGTGGAAAC
196 TCAAAATTATTTTTTCAGAAACTACTGTAGAAAGAGCGTCCACGTGGAAAC
* *
11256402 TTTTTCAGTAATTTTGCTGACA-TGCATCC-TGCTTGAAGTGTTTTTTACACTATTTGTTCAGAA
1 TTTTTCAGTAATTTTGCTGACAGTGCA-CCTTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAA
* * *
11256465 TCGTCTTCTCAAAATTATTTTTTTCAAGAACTACTGTAGAAAAAGAGCGTCCACGTGGGATCTTT
65 TCGTCTTCTCAAAATTA-TTTTTTCAAGAACTACTATAG--AAAGAGCGTCCACGTGGAAGC-TT
* * * * * *
11256530 TTTCAGTAATTTTGCTGACAATGCATCTTGCTTAAAGTGTTTTTTACATTATCTT-TTTAGAATC
126 TTTCAGTAATTTTGCTGACAATGCACCCTGCTTAAAGCGTTTTTGACATTAT-TTGCTCAGAATC
11256594 GTCTTCTCAAAATTATTTTTTCAGAAACTACTGTAGAAA
190 GTCTTCTCAAAATTATTTTTTCAGAAACTACTGTAGAAA
11256633 AAATAAAAGT
Statistics
Matches: 205, Mismatches: 20, Indels: 9
0.88 0.09 0.04
Matches are distributed among these distances:
245 52 0.25
246 42 0.20
248 18 0.09
249 91 0.44
250 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.16, T:0.40
Consensus pattern (246 bp):
TTTTTCAGTAATTTTGCTGACAGTGCACCTTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAT
CGTCTTCTCAAAATTATTTTTTCAAGAACTACTATAGAAAGAGCGTCCACGTGGAAGCTTTTTCA
GTAATTTTGCTGACAATGCACCCTGCTTAAAGCGTTTTTGACATTATTTGCTCAGAATCGTCTTC
TCAAAATTATTTTTTCAGAAACTACTGTAGAAAGAGCGTCCACGTGGAAAC
Found at i:11256753 original size:34 final size:32
Alignment explanation
Indices: 11256707--11256793 Score: 104
Period size: 34 Copynumber: 2.6 Consensus size: 32
11256697 CTAAACCATG
*
11256707 ATTTAATTAATTTTCTTAAAACC-CAGAAATCCTA
1 ATTTAA-TAATTTT-TTAAAACCTCA-AAAACCTA
11256741 ATTTAATCAATTTATTTAAAACCTCAAAAACCTA
1 ATTTAAT-AATTT-TTTAAAACCTCAAAAACCTA
*
11256775 ATTTAATTATTTTTTAAAA
1 ATTTAATAATTTTTTAAAA
11256794 AAACCCTAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
32 7 0.15
33 5 0.10
34 33 0.69
35 3 0.06
ACGTcount: A:0.44, C:0.14, G:0.01, T:0.41
Consensus pattern (32 bp):
ATTTAATAATTTTTTAAAACCTCAAAAACCTA
Found at i:11260973 original size:23 final size:24
Alignment explanation
Indices: 11260908--11260976 Score: 63
Period size: 24 Copynumber: 2.9 Consensus size: 24
11260898 ATATTTTTTA
*
11260908 AATTTT-TAAATTTTTATATTATAT
1 AATTTTATATATTTTTAT-TTATAT
* * *
11260932 TATTTCA-ATATTTAATATTTA-AT
1 AATTTTATATATTT-TTATTTATAT
11260955 AATTTTATATATTTTTATTTAT
1 AATTTTATATATTTTTATTTAT
11260977 TGAACTTTTT
Statistics
Matches: 34, Mismatches: 7, Indels: 8
0.69 0.14 0.16
Matches are distributed among these distances:
23 13 0.38
24 18 0.53
25 3 0.09
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.62
Consensus pattern (24 bp):
AATTTTATATATTTTTATTTATAT
Found at i:11273864 original size:15 final size:15
Alignment explanation
Indices: 11273844--11273891 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
11273834 TCAAAGATGG
11273844 GTTTATGGATATGAA
1 GTTTATGGATATGAA
* * *
11273859 GTTTATGTAGATGGA
1 GTTTATGGATATGAA
*
11273874 -TTTATGGATATAAA
1 GTTTATGGATATGAA
11273888 GTTT
1 GTTT
11273892 TTGTAGGTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (15 bp):
GTTTATGGATATGAA
Found at i:11273871 original size:29 final size:29
Alignment explanation
Indices: 11273838--11273897 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
11273828 AAGGATTCAA
* *
11273838 AGATGGGTTTATGGATATGAAGTTTATGT
1 AGATGGATTTATGGATATAAAGTTTATGT
*
11273867 AGATGGATTTATGGATATAAAGTTTTTGT
1 AGATGGATTTATGGATATAAAGTTTATGT
11273896 AG
1 AG
11273898 GTTTGGTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.30, C:0.00, G:0.28, T:0.42
Consensus pattern (29 bp):
AGATGGATTTATGGATATAAAGTTTATGT
Found at i:11277237 original size:27 final size:27
Alignment explanation
Indices: 11277175--11277237 Score: 65
Period size: 27 Copynumber: 2.3 Consensus size: 27
11277165 GCCGAATTTC
*
11277175 ATGTGTCTTAGTTCCAGCATGATTTTA
1 ATGTGTCTTAGTTCCAGCATGATTTAA
* * **
11277202 ATTTCTCTTAGTTATTA-CATGATTTAA
1 ATGTGTCTTAGTT-CCAGCATGATTTAA
11277229 ATGTGTCTT
1 ATGTGTCTT
11277238 TGAGCCGAAT
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
27 27 0.96
28 1 0.04
ACGTcount: A:0.24, C:0.13, G:0.14, T:0.49
Consensus pattern (27 bp):
ATGTGTCTTAGTTCCAGCATGATTTAA
Found at i:11278338 original size:30 final size:30
Alignment explanation
Indices: 11278304--11278400 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
11278294 AGCTCACTCC
*
11278304 TAGCTC-ACTTTCAACTCACGAGCTAAACCT
1 TAGCTCAACTTT-AGCTCACGAGCTAAACCT
* * * * *
11278334 TAGCTCAACTTTAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
* *
11278364 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
11278394 TAGCTCA
1 TAGCTCA
11278401 TTTTAGTTTA
Statistics
Matches: 52, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
30 47 0.90
31 5 0.10
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:11281298 original size:63 final size:65
Alignment explanation
Indices: 11281231--11281365 Score: 154
Period size: 67 Copynumber: 2.1 Consensus size: 65
11281221 CTAACTTAAA
*
11281231 TAAATGAAC-TAACACTTATGCATCA-T-TTAATCC-AGAAACTAGTTTAATTAATAGAAGCAT-
1 TAAATGAACTTAA-ACTCATGCATCACTATT-ATCCTAGAAACTAGTTTAATTAA-AGAAGCATC
11281291 TAT
63 TAT
* * *
11281294 TAAATGAACTTTAACTCATGCATCACTAAATTATCCTAGTAACTAGTTTATTTAAAGAAGCATCT
1 TAAATGAACTTAAACTCATGCATCACT--ATTATCCTAGAAACTAGTTTAATTAAAGAAGCATCT
11281359 AT
64 AT
11281361 TAAAT
1 TAAAT
11281366 CAAGTTCATA
Statistics
Matches: 61, Mismatches: 4, Indels: 10
0.81 0.05 0.13
Matches are distributed among these distances:
63 20 0.33
64 3 0.05
66 12 0.20
67 26 0.43
ACGTcount: A:0.41, C:0.15, G:0.09, T:0.35
Consensus pattern (65 bp):
TAAATGAACTTAAACTCATGCATCACTATTATCCTAGAAACTAGTTTAATTAAAGAAGCATCTAT
Found at i:11319398 original size:23 final size:23
Alignment explanation
Indices: 11319371--11319419 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
11319361 GGAAAATGTA
* *
11319371 AAATTAATCTTTATATATTAAAT
1 AAATTAATCCTTATACATTAAAT
* *
11319394 AAATTCATCCTTATACGTTAAAT
1 AAATTAATCCTTATACATTAAAT
11319417 AAA
1 AAA
11319420 ACACCAAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.47, C:0.10, G:0.02, T:0.41
Consensus pattern (23 bp):
AAATTAATCCTTATACATTAAAT
Found at i:11333657 original size:16 final size:15
Alignment explanation
Indices: 11333632--11333661 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
11333622 AAAATAACTC
11333632 TAAAGGGGGGGGGGG
1 TAAAGGGGGGGGGGG
11333647 TAAAGGGGGGGGGGG
1 TAAAGGGGGGGGGGG
11333662 AGAAATACGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.00, G:0.73, T:0.07
Consensus pattern (15 bp):
TAAAGGGGGGGGGGG
Found at i:11337878 original size:50 final size:50
Alignment explanation
Indices: 11337771--11337967 Score: 220
Period size: 50 Copynumber: 3.8 Consensus size: 50
11337761 ATTTGGGTAA
11337771 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGATCATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC----GAT-ATG
* *
11337827 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATATG
* * *
11337877 AGA-ACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCA--GTACATG
1 AGAGA-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-ATATG
* * * *
11337926 AAACATCCCATGTAAGACCATGACTGGGACATGGCTTTGGCA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
11337968 TGTTATTATC
Statistics
Matches: 126, Mismatches: 12, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
48 1 0.01
49 39 0.31
50 41 0.33
51 3 0.02
55 2 0.02
56 40 0.32
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (50 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATATG
Found at i:11339473 original size:9 final size:9
Alignment explanation
Indices: 11339455--11339530 Score: 98
Period size: 9 Copynumber: 8.4 Consensus size: 9
11339445 TTTGGTTAAA
11339455 AATTAACCG
1 AATTAACCG
*
11339464 AATTATCCG
1 AATTAACCG
11339473 AATTAACCG
1 AATTAACCG
*
11339482 AATTAACCA
1 AATTAACCG
*
11339491 AATTACCCG
1 AATTAACCG
* *
11339500 AACTATCCG
1 AATTAACCG
*
11339509 AATTACCCG
1 AATTAACCG
11339518 AATTAACCG
1 AATTAACCG
11339527 AATT
1 AATT
11339531 GAATCACTAC
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 57 1.00
ACGTcount: A:0.41, C:0.25, G:0.09, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Done.