Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 62 of 214
Found at i:17593913 original size:54 final size:53
Alignment explanation
Indices: 17593867--17594275 Score: 400
Period size: 54 Copynumber: 7.6 Consensus size: 53
17593857 TTACACTATG
* *
17593867 AGGGTATTTTAGTCATTTTACCCTTCGAGGGTATTTTGATCATTTTACCCTTTA
1 AGGGTA-TTTAGTCATTTTACCCTTCGAGGGTATTTCGATCATTTTACCCTTCA
* * * *
17593921 AGCGTATTTCGATCATTTTACCTTTCGAGGGTATTTCGATCATTTTACCCTTCG
1 AGGGTATTTAG-TCATTTTACCCTTCGAGGGTATTTCGATCATTTTACCCTTCA
* * **
17593975 AGGGTATTTCGATCATTTTACCCTTC-AGGGGTATTTC-AGTCCTTTTACCCTATGG
1 AGGGTATTTAG-TCATTTTACCCTTCGA-GGGTATTTCGA-TCATTTTACCCT-TCA
* * *
17594030 A-GGTATTTCGATCATTTTACCCTTTGAGGGTATTTCGATCATTTTACCCTT-T
1 AGGGTATTTAG-TCATTTTACCCTTCGAGGGTATTTCGATCATTTTACCCTTCA
* * * * * * *
17594082 AGGAGTAATTCAATCATTTTACCCATCAAGGGTATTTCGGTTATTTTACACTTCA
1 AGG-GT-ATTTAGTCATTTTACCCTTCGAGGGTATTTCGATCATTTTACCCTTCA
* * *
17594137 AGGGTATTTTAATCATTTTACCTTTCGAGGGTATTTCGGTCATTTTACCCTTCA
1 AGGGTA-TTTAGTCATTTTACCCTTCGAGGGTATTTCGATCATTTTACCCTTCA
* * * *
17594191 AGGGTATTTCATTCA-TTTACCCTAT-GAAGGTATTTCGGTCATTTTACCCATCA
1 AGGGTATTT-AGTCATTTTACCCT-TCGAGGGTATTTCGATCATTTTACCCTTCA
*
17594244 AGGGTGATTCAGTCATTTTACCCTTCG-GGGTA
1 AGGGT-ATTTAGTCATTTTACCCTTCGAGGGTA
17594276 AGACGGTTTT
Statistics
Matches: 303, Mismatches: 36, Indels: 33
0.81 0.10 0.09
Matches are distributed among these distances:
52 1 0.00
53 59 0.19
54 232 0.77
55 11 0.04
ACGTcount: A:0.21, C:0.20, G:0.17, T:0.42
Consensus pattern (53 bp):
AGGGTATTTAGTCATTTTACCCTTCGAGGGTATTTCGATCATTTTACCCTTCA
Found at i:17593964 original size:81 final size:81
Alignment explanation
Indices: 17593852--17594265 Score: 411
Period size: 81 Copynumber: 5.1 Consensus size: 81
17593842 GATATAAAAT
* *
17593852 TCATTTTACACTAT-GAGGGTATTT-TAGTCATTTTACCCTTCGAGGGTATTTTGATCATTTTAC
1 TCATTTTAC-CTATCGAGGGTATTTCGA-TCATTTTACCCTTCGAGGGTATTTCGATCATTTTAC
*
17593915 CCTTTAAGCGTATTTCGA
64 CCTTTAAGGGTATTTCGA
*
17593933 TCATTTTACCTTTCGAGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCGATCATTTTACCC
1 TCATTTTACCTATCGAGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCGATCATTTTACCC
* *
17593998 TTCAGGGGTATTTC-A
66 TTTAAGGGTATTTCGA
* * *
17594013 GTCCTTTTACCCTATGGA-GGTATTTCGATCATTTTACCCTTTGAGGGTATTTCGATCATTTTAC
1 -TCATTTTA-CCTATCGAGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCGATCATTTTAC
* *
17594077 CCTTT-AGGAGTAATTCAA
64 CCTTTAAGG-GTATTTCGA
* * * * * * **
17594095 TCATTTTACCCATCAAGGGTATTTCGGTTATTTTACACTTCAAGGGTATTTTAATCATTTTA-CC
1 TCATTTTACCTATCGAGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCGATCATTTTACCC
* *
17594159 TTTCGAGGGTATTTCGG
66 TTT-AAGGGTATTTCGA
* * *
17594176 TCATTTTACCCT-TCAAGGGTATTTC-ATTCA-TTTACCCTAT-GAAGGTATTTCGGTCATTTTA
1 TCATTTTA-CCTATCGAGGGTATTTCGA-TCATTTTACCCT-TCGAGGGTATTTCGATCATTTTA
* *
17594237 CCCATCAAGGGTGA-TTC-A
63 CCCTTTAAGGGT-ATTTCGA
17594255 GTCATTTTACC
1 -TCATTTTACC
17594266 CTTCGGGGTA
Statistics
Matches: 278, Mismatches: 40, Indels: 32
0.79 0.11 0.09
Matches are distributed among these distances:
79 2 0.01
80 55 0.20
81 208 0.75
82 13 0.05
ACGTcount: A:0.22, C:0.20, G:0.16, T:0.42
Consensus pattern (81 bp):
TCATTTTACCTATCGAGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCGATCATTTTACCC
TTTAAGGGTATTTCGA
Found at i:17597438 original size:25 final size:25
Alignment explanation
Indices: 17597405--17597462 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 25
17597395 GTTCTGACCC
*
17597405 ACAATTCGTGAGAGCATACCAATTT
1 ACAACTCGTGAGAGCATACCAATTT
* *
17597430 ACAACTCGTGTGAGCATACCGATTT
1 ACAACTCGTGAGAGCATACCAATTT
17597455 ACAACTCG
1 ACAACTCG
17597463 AATGAGCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (25 bp):
ACAACTCGTGAGAGCATACCAATTT
Found at i:17597468 original size:25 final size:25
Alignment explanation
Indices: 17597416--17597473 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 25
17597406 CAATTCGTGA
**
17597416 GAGCATACCAATTTACAACTCGTGT
1 GAGCATACCAATTTACAACTCGAAT
*
17597441 GAGCATACCGATTTACAACTCGAAT
1 GAGCATACCAATTTACAACTCGAAT
17597466 GAGCATAC
1 GAGCATAC
17597474 ATCTATAGGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.24
Consensus pattern (25 bp):
GAGCATACCAATTTACAACTCGAAT
Found at i:17603467 original size:32 final size:32
Alignment explanation
Indices: 17603406--17603470 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
17603396 CAGACGAGTA
* **
17603406 GTCTAAGCCTTTTCTTTATCTGACCTTTCAGG
1 GTCTAAGCCTTTTCTTTATCTAAAATTTCAGG
*
17603438 GTCTGAGCCTTTTCTTTATCTAAAATTTCAGG
1 GTCTAAGCCTTTTCTTTATCTAAAATTTCAGG
17603470 G
1 G
17603471 CAATCTCTGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.18, C:0.22, G:0.17, T:0.43
Consensus pattern (32 bp):
GTCTAAGCCTTTTCTTTATCTAAAATTTCAGG
Found at i:17614688 original size:6 final size:6
Alignment explanation
Indices: 17614674--17614712 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
17614664 TAGGTTTCCA
*
17614674 AAATGG AAATTG AAATGG AAATGG AAATGG AAATGG AAA
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAA
17614713 GGATTAATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.54, C:0.00, G:0.28, T:0.18
Consensus pattern (6 bp):
AAATGG
Found at i:17614897 original size:25 final size:26
Alignment explanation
Indices: 17614862--17614916 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 26
17614852 TATTTTCTCG
*
17614862 AAATTTGACTAGGGGTAAAATTGTC-
1 AAATTTGACTAGGGGTAAAATCGTCT
*
17614887 AAATTTTACTAGGGGTAAAATCGTCT
1 AAATTTGACTAGGGGTAAAATCGTCT
17614913 AAAT
1 AAAT
17614917 ATAGAATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 23 0.85
26 4 0.15
ACGTcount: A:0.38, C:0.09, G:0.20, T:0.33
Consensus pattern (26 bp):
AAATTTGACTAGGGGTAAAATCGTCT
Found at i:17616507 original size:30 final size:29
Alignment explanation
Indices: 17616463--17616522 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 29
17616453 ATAACATAGA
*
17616463 GTAAGAACAAATTCTTAGTAAGTTCATGT
1 GTAAGAAAAAATTCTTAGTAAGTTCATGT
17616492 GTAAGAATAAAATTCTTAGTAAGTTCATGT
1 GTAAGAA-AAAATTCTTAGTAAGTTCATGT
17616522 G
1 G
17616523 ATGTAAAACT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 7 0.24
30 22 0.76
ACGTcount: A:0.38, C:0.08, G:0.18, T:0.35
Consensus pattern (29 bp):
GTAAGAAAAAATTCTTAGTAAGTTCATGT
Found at i:17618060 original size:24 final size:25
Alignment explanation
Indices: 17618025--17618102 Score: 77
Period size: 25 Copynumber: 3.2 Consensus size: 25
17618015 CATCTTGTGA
*
17618025 GAGCTTACCGATTT-TAGCTCATAT
1 GAGCTTACCGATTTACAGCTCATAT
* *
17618049 GAGCTTATCGATTTACAGCTCATAA
1 GAGCTTACCGATTTACAGCTCATAT
* * * * *
17618074 GACCATACCGATTCATAGCTCGTAT
1 GAGCTTACCGATTTACAGCTCATAT
17618099 GAGC
1 GAGC
17618103 ATACATGTAC
Statistics
Matches: 42, Mismatches: 11, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
24 13 0.31
25 29 0.69
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (25 bp):
GAGCTTACCGATTTACAGCTCATAT
Found at i:17622483 original size:24 final size:24
Alignment explanation
Indices: 17622450--17622505 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
17622440 TAAAATTGCC
17622450 AAAGCATGTCATGCACATATGAGA
1 AAAGCATGTCATGCACATATGAGA
* *
17622474 TAAGCATGTCTTGCACATATGAGA
1 AAAGCATGTCATGCACATATGAGA
17622498 AAAGCATG
1 AAAGCATG
17622506 CCATATAGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.23
Consensus pattern (24 bp):
AAAGCATGTCATGCACATATGAGA
Found at i:17636151 original size:17 final size:17
Alignment explanation
Indices: 17636125--17636188 Score: 51
Period size: 18 Copynumber: 3.6 Consensus size: 17
17636115 GGCAACCCAA
17636125 TTTTTA-TTTTTATTAT
1 TTTTTATTTTTTATTAT
*
17636141 TTTTTATTTTTTCTTTACT
1 TTTTTATTTTTT-ATTA-T
*
17636160 TTATTTATTACTTTATT-T
1 TT-TTTATT-TTTTATTAT
17636178 TATTTTATTTT
1 T-TTTTATTTT
17636189 ACTTATTTGG
Statistics
Matches: 38, Mismatches: 4, Indels: 11
0.72 0.08 0.21
Matches are distributed among these distances:
16 6 0.16
17 6 0.16
18 11 0.29
19 4 0.11
20 8 0.21
21 3 0.08
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTTTATTTTTTATTAT
Found at i:17636167 original size:27 final size:25
Alignment explanation
Indices: 17636133--17636196 Score: 65
Period size: 27 Copynumber: 2.4 Consensus size: 25
17636123 AATTTTTATT
*
17636133 TTTATTATTTTTTATTTTTTCTTTAC
1 TTTATTATTTTTTATTTTAT-TTTAC
* *
17636159 TTTATTTATTACTTTATTTTATTTTAT
1 TTTA-TTATT-TTTTATTTTATTTTAC
17636186 TTTACTTATTT
1 TTTA-TTATTT
17636197 GGATATTAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
26 4 0.13
27 18 0.58
28 9 0.29
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (25 bp):
TTTATTATTTTTTATTTTATTTTAC
Found at i:17636510 original size:22 final size:21
Alignment explanation
Indices: 17636457--17636516 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
17636447 TATTACTATC
*
17636457 ATTTTCTGCT-GTGATTTTGATT
1 ATTTT-TGCTGGTG-TTGTGATT
*
17636479 ATTTTTGCTGTTGTTGTGATT
1 ATTTTTGCTGGTGTTGTGATT
17636500 ATTTTTGGCTGGTGTTG
1 ATTTTT-GCTGGTGTTG
17636517 CTTCTTGAGG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 17 0.52
22 16 0.48
ACGTcount: A:0.10, C:0.07, G:0.25, T:0.58
Consensus pattern (21 bp):
ATTTTTGCTGGTGTTGTGATT
Found at i:17639982 original size:13 final size:13
Alignment explanation
Indices: 17639964--17639996 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
17639954 GTCGTATAAT
*
17639964 AATTTTGTTGAGA
1 AATTTTGTTAAGA
17639977 AATTTTGTTAAGA
1 AATTTTGTTAAGA
17639990 AATTTTG
1 AATTTTG
17639997 ACGTTTGCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.48
Consensus pattern (13 bp):
AATTTTGTTAAGA
Found at i:17648581 original size:38 final size:38
Alignment explanation
Indices: 17648517--17648604 Score: 140
Period size: 38 Copynumber: 2.3 Consensus size: 38
17648507 AAAACCATCA
*
17648517 AAAATTAAAAATGTCCAATGTCCAAGTCCAATTACAACC
1 AAAATT-AAATTGTCCAATGTCCAAGTCCAATTACAACC
* *
17648556 AAAATTAAATTGTCCGATGTTCAAGTCCAATTACAACC
1 AAAATTAAATTGTCCAATGTCCAAGTCCAATTACAACC
17648594 AAAATTAAATT
1 AAAATTAAATT
17648605 AAGTCTCGAA
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
38 40 0.87
39 6 0.13
ACGTcount: A:0.45, C:0.19, G:0.08, T:0.27
Consensus pattern (38 bp):
AAAATTAAATTGTCCAATGTCCAAGTCCAATTACAACC
Found at i:17650583 original size:15 final size:15
Alignment explanation
Indices: 17650560--17650589 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
17650550 TTATCATTAT
*
17650560 TCATTAAAATTAAGA
1 TCATAAAAATTAAGA
17650575 TCATAAAAATTAAGA
1 TCATAAAAATTAAGA
17650590 GTTTATTAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.30
Consensus pattern (15 bp):
TCATAAAAATTAAGA
Found at i:17663347 original size:17 final size:17
Alignment explanation
Indices: 17663322--17663374 Score: 79
Period size: 17 Copynumber: 3.1 Consensus size: 17
17663312 AAATCTCAGA
17663322 TTTTGATACCCATATCT
1 TTTTGATACCCATATCT
* *
17663339 TTTTTATACCTATATCT
1 TTTTGATACCCATATCT
*
17663356 TTCTGATACCCATATCT
1 TTTTGATACCCATATCT
17663373 TT
1 TT
17663375 GACTTTCTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.04, T:0.51
Consensus pattern (17 bp):
TTTTGATACCCATATCT
Found at i:17664463 original size:11 final size:11
Alignment explanation
Indices: 17664447--17664478 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
17664437 CTTAGATGCT
17664447 ATCAACATATC
1 ATCAACATATC
17664458 ATCAACATATC
1 ATCAACATATC
17664469 ATCAACATAT
1 ATCAACATAT
17664479 AAGAGCAAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.28
Consensus pattern (11 bp):
ATCAACATATC
Found at i:17667980 original size:17 final size:17
Alignment explanation
Indices: 17667958--17668007 Score: 82
Period size: 17 Copynumber: 2.9 Consensus size: 17
17667948 TCTCAAATTT
17667958 TGATACCCATATCTTTC
1 TGATACCCATATCTTTC
**
17667975 TGATACTTATATCTTTC
1 TGATACCCATATCTTTC
17667992 TGATACCCATATCTTT
1 TGATACCCATATCTTT
17668008 GACTTTCTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.24, C:0.24, G:0.06, T:0.46
Consensus pattern (17 bp):
TGATACCCATATCTTTC
Found at i:17669506 original size:19 final size:21
Alignment explanation
Indices: 17669462--17669506 Score: 51
Period size: 19 Copynumber: 2.3 Consensus size: 21
17669452 TTACCCAAAA
* *
17669462 CTCCCAAACTTCTTTACTTTC
1 CTCCCAAAATTCTTTACTTCC
17669483 C-CCCAAAATT-TTTAC-TCC
1 CTCCCAAAATTCTTTACTTCC
17669501 CTCCCA
1 CTCCCA
17669507 CTTTTCCCGC
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
18 3 0.14
19 9 0.43
20 8 0.38
21 1 0.05
ACGTcount: A:0.22, C:0.42, G:0.00, T:0.36
Consensus pattern (21 bp):
CTCCCAAAATTCTTTACTTCC
Found at i:17669520 original size:30 final size:31
Alignment explanation
Indices: 17669479--17669537 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
17669469 ACTTCTTTAC
*
17669479 TTTCCCCCAAAATTTTTACTCC-CTCCCACT
1 TTTCCCCCAAAACTTTTACTCCACTCCCACT
* *
17669509 TTTCCCGCAAAACTTTTATTCCACTCCCA
1 TTTCCCCCAAAACTTTTACTCCACTCCCA
17669538 TCCCACCCCC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 19 0.76
31 6 0.24
ACGTcount: A:0.22, C:0.41, G:0.02, T:0.36
Consensus pattern (31 bp):
TTTCCCCCAAAACTTTTACTCCACTCCCACT
Found at i:17682745 original size:27 final size:28
Alignment explanation
Indices: 17682703--17682757 Score: 94
Period size: 27 Copynumber: 2.0 Consensus size: 28
17682693 AGATGTAGGA
*
17682703 AAAAGTGATTTGACCATGGACATTGAGG
1 AAAAGTGAGTTGACCATGGACATTGAGG
17682731 AAAAG-GAGTTGACCATGGACATTGAGG
1 AAAAGTGAGTTGACCATGGACATTGAGG
17682758 GGAAGATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 21 0.81
28 5 0.19
ACGTcount: A:0.36, C:0.11, G:0.31, T:0.22
Consensus pattern (28 bp):
AAAAGTGAGTTGACCATGGACATTGAGG
Found at i:17694453 original size:33 final size:33
Alignment explanation
Indices: 17694410--17694475 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
17694400 ACATGCAAAA
* *
17694410 ACAGTCTGGGCCTGAGCCCTA-TTCAGTAATAGT
1 ACAGTCTGGGCCTAAGCCC-AGTACAGTAATAGT
*
17694443 ACAGTGTGGGCCTAAGCCCAGTACAGTAATAGT
1 ACAGTCTGGGCCTAAGCCCAGTACAGTAATAGT
17694476 GAGTGGGAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 1 0.03
33 28 0.97
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (33 bp):
ACAGTCTGGGCCTAAGCCCAGTACAGTAATAGT
Found at i:17694882 original size:27 final size:27
Alignment explanation
Indices: 17694862--17695166 Score: 371
Period size: 27 Copynumber: 11.3 Consensus size: 27
17694852 GGTATAACAA
* **
17694862 TCATTTTACCCTTCGAAGGTATTTTGG
1 TCATTTTACCCTTCGAGGGTATTTCAG
*
17694889 TCATTTTACCCTTCGAAGGTATTTCAG
1 TCATTTTACCCTTCGAGGGTATTTCAG
* *
17694916 TCATTTTAACCTTCGAGGGTATTTCAA
1 TCATTTTACCCTTCGAGGGTATTTCAG
* * *
17694943 TCATTTTACCCTTCAAGGATATTTCAA
1 TCATTTTACCCTTCGAGGGTATTTCAG
**
17694970 TCATTTTACCCTTCGAGGGTATTTTGG
1 TCATTTTACCCTTCGAGGGTATTTCAG
* *
17694997 TTATTTTACCCTTCGGGGGTATTTC-G
1 TCATTTTACCCTTCGAGGGTATTTCAG
* *
17695023 ATCATTTTACCCTTCGAGGGCATTTTAG
1 -TCATTTTACCCTTCGAGGGTATTTCAG
* * *
17695051 TTATTTTACCCTTCAAGGGTATTT-TG
1 TCATTTTACCCTTCGAGGGTATTTCAG
17695077 ATCATTTTACCCTTCGAGGGTATTTCAG
1 -TCATTTTACCCTTCGAGGGTATTTCAG
*
17695105 TCATTTTACCCTTTGAGGGTATTTCAG
1 TCATTTTACCCTTCGAGGGTATTTCAG
** *
17695132 TCATTTTACCCTTTAAGGGTATTTCGG
1 TCATTTTACCCTTCGAGGGTATTTCAG
*
17695159 TTATTTTA
1 TCATTTTA
17695167 GGCCCAGTAC
Statistics
Matches: 243, Mismatches: 31, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
26 2 0.01
27 239 0.98
28 2 0.01
ACGTcount: A:0.20, C:0.19, G:0.17, T:0.44
Consensus pattern (27 bp):
TCATTTTACCCTTCGAGGGTATTTCAG
Found at i:17697786 original size:39 final size:39
Alignment explanation
Indices: 17697743--17697841 Score: 144
Period size: 39 Copynumber: 2.5 Consensus size: 39
17697733 CACGTTCACT
*
17697743 TTTAAGCATATATCACATTACACATATAATCACATAAAA
1 TTTAAGCATATATCACAATACACATATAATCACATAAAA
* * * *
17697782 TTTAAGCATATATAACAATACTCATATATTCACATAACA
1 TTTAAGCATATATCACAATACACATATAATCACATAAAA
*
17697821 TTCAAGCATATATCACAATAC
1 TTTAAGCATATATCACAATAC
17697842 TTAAAAACAT
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 53 1.00
ACGTcount: A:0.46, C:0.19, G:0.03, T:0.31
Consensus pattern (39 bp):
TTTAAGCATATATCACAATACACATATAATCACATAAAA
Found at i:17701767 original size:24 final size:24
Alignment explanation
Indices: 17701740--17701787 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
17701730 CATTTAGAGA
17701740 ATTATGTGTTTACGTTTAAAGGGT
1 ATTATGTGTTTACGTTTAAAGGGT
17701764 ATTATGTGTTTACGTTTAAAGGGT
1 ATTATGTGTTTACGTTTAAAGGGT
17701788 TCTTTGTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.04, G:0.25, T:0.46
Consensus pattern (24 bp):
ATTATGTGTTTACGTTTAAAGGGT
Found at i:17704291 original size:42 final size:42
Alignment explanation
Indices: 17704176--17704291 Score: 130
Period size: 42 Copynumber: 2.8 Consensus size: 42
17704166 ATATACCAAC
* * *
17704176 ACACAT-AGTGCACCATC-GAACAAACCAAATCAAATATAATG
1 ACACATAAGTGCATCATCGGAA-GAACCAAAGCAAATATAATG
* *
17704217 ACACATAAGTGCATCATCGGAAGAACCTAAGCAAATATATTAG
1 ACACATAAGTGCATCATCGGAAGAACCAAAGCAAATATAAT-G
* *
17704260 A-ACATAAGTGCATCATCGGATGAATCAAAGCA
1 ACACATAAGTGCATCATCGGAAGAACCAAAGCA
17704292 TAAACCCACG
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
41 6 0.09
42 53 0.83
43 5 0.08
ACGTcount: A:0.46, C:0.21, G:0.15, T:0.19
Consensus pattern (42 bp):
ACACATAAGTGCATCATCGGAAGAACCAAAGCAAATATAATG
Found at i:17720499 original size:15 final size:14
Alignment explanation
Indices: 17720480--17720550 Score: 65
Period size: 15 Copynumber: 5.1 Consensus size: 14
17720470 TTATAAAAAA
17720480 TATTTTTATAATTT
1 TATTTTTATAATTT
17720494 TAATTTTTATAATTT
1 T-ATTTTTATAATTT
* ** *
17720509 T-CTTAAATAACTT
1 TATTTTTATAATTT
*
17720522 T-TTTATATAATTT
1 TATTTTTATAATTT
17720535 TAATTTTTATAATTT
1 T-ATTTTTATAATTT
17720550 T
1 T
17720551 CTTAAATAAC
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
13 19 0.41
14 1 0.02
15 26 0.57
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (14 bp):
TATTTTTATAATTT
Found at i:17720531 original size:13 final size:12
Alignment explanation
Indices: 17720497--17720579 Score: 55
Period size: 13 Copynumber: 6.7 Consensus size: 12
17720487 ATAATTTTAA
17720497 TTTT-TATAATT
1 TTTTATATAATT
*
17720508 TTCTTAAATAACTT
1 TT-TTATATAA-TT
17720522 TTTTATATAATTT
1 TTTTATATAA-TT
*
17720535 TAATTTTTATAATT
1 T--TTTATATAATT
* *
17720549 TTCTTAAATAACT
1 TT-TTATATAATT
17720562 TTTT-TATAA-T
1 TTTTATATAATT
17720572 TTTTATAT
1 TTTTATAT
17720580 TTAAAAAAGG
Statistics
Matches: 57, Mismatches: 8, Indels: 14
0.72 0.10 0.18
Matches are distributed among these distances:
10 5 0.09
11 9 0.16
12 5 0.09
13 23 0.40
14 7 0.12
15 8 0.14
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.63
Consensus pattern (12 bp):
TTTTATATAATT
Found at i:17720536 original size:41 final size:41
Alignment explanation
Indices: 17720482--17720569 Score: 169
Period size: 41 Copynumber: 2.2 Consensus size: 41
17720472 ATAAAAAATA
17720482 TTTT-TATAATTTTAATTTTTATAATTTTCTTAAATAACTT
1 TTTTATATAATTTTAATTTTTATAATTTTCTTAAATAACTT
17720522 TTTTATATAATTTTAATTTTTATAATTTTCTTAAATAACTT
1 TTTTATATAATTTTAATTTTTATAATTTTCTTAAATAACTT
17720563 TTTTATA
1 TTTTATA
17720570 ATTTTTATAT
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
40 4 0.09
41 43 0.91
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (41 bp):
TTTTATATAATTTTAATTTTTATAATTTTCTTAAATAACTT
Found at i:17729706 original size:11 final size:11
Alignment explanation
Indices: 17729675--17729758 Score: 72
Period size: 12 Copynumber: 7.9 Consensus size: 11
17729665 GGCCCATTTT
17729675 TATTTTAAAAA
1 TATTTTAAAAA
17729686 T-TTTTAAAAA
1 TATTTTAAAAA
17729696 GTATTTTAAAAA
1 -TATTTTAAAAA
17729708 TATTTT--AAA
1 TATTTTAAAAA
17729717 -A--TTAAAAA
1 TATTTTAAAAA
* **
17729725 AATTAAAAAAAA
1 TATT-TTAAAAA
17729737 GTATTTTAAAAA
1 -TATTTTAAAAA
17729749 TATTTTAAAA
1 TATTTTAAAA
17729759 TTAAAAAAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 18
0.72 0.06 0.22
Matches are distributed among these distances:
6 2 0.03
8 4 0.07
9 4 0.07
10 9 0.15
11 18 0.31
12 19 0.32
13 3 0.05
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:17729738 original size:41 final size:39
Alignment explanation
Indices: 17729691--17729809 Score: 175
Period size: 40 Copynumber: 2.9 Consensus size: 39
17729681 AAAAATTTTT
17729691 AAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATTAAA
1 AAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATT--A
17729732 AAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAAATTA
1 AAAAAGTATTTTAAAAATATTTTAAAATT-AAAAAAATTA
* * *
17729772 AAAAAGTATGTAAAAAATATTTTAAAATTTTAAAAAAT
1 AAAAAGTATTTTAAAAATATTTTAAAA-TTAAAAAAAT
17729810 AAATATATTT
Statistics
Matches: 73, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
40 33 0.45
41 31 0.42
42 9 0.12
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (39 bp):
AAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATTA
Found at i:17735531 original size:18 final size:17
Alignment explanation
Indices: 17735510--17735548 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
17735500 TGTAATCCAT
17735510 TTTTGGGCTTGGTTTTGG
1 TTTTGGGCTTGGTTTT-G
**
17735528 TTTTGGTTTTGGTTTTG
1 TTTTGGGCTTGGTTTTG
17735545 TTTT
1 TTTT
17735549 CGGTTTTGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.00, C:0.03, G:0.31, T:0.67
Consensus pattern (17 bp):
TTTTGGGCTTGGTTTTG
Found at i:17735561 original size:6 final size:6
Alignment explanation
Indices: 17735518--17735560 Score: 63
Period size: 6 Copynumber: 7.3 Consensus size: 6
17735508 ATTTTTGGGC
17735518 TTGGTT TTGGTT TTGGTT TTGGTT TT-GTT TTCGGTT TT-GTT TT
1 TTGGTT TTGGTT TTGGTT TTGGTT TTGGTT TT-GGTT TTGGTT TT
17735561 TCATTGCTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
5 10 0.29
6 20 0.57
7 5 0.14
ACGTcount: A:0.00, C:0.02, G:0.28, T:0.70
Consensus pattern (6 bp):
TTGGTT
Found at i:17744333 original size:12 final size:12
Alignment explanation
Indices: 17744316--17744348 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
17744306 GCGAGTGCTT
17744316 GGCCGTGTG-GTA
1 GGCCGTGTGCG-A
17744328 GGCCGTGTGCGA
1 GGCCGTGTGCGA
17744340 GGCCGTGTG
1 GGCCGTGTG
17744349 TCACACATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 19 0.95
13 1 0.05
ACGTcount: A:0.06, C:0.21, G:0.52, T:0.21
Consensus pattern (12 bp):
GGCCGTGTGCGA
Found at i:17750403 original size:120 final size:120
Alignment explanation
Indices: 17750190--17750487 Score: 560
Period size: 120 Copynumber: 2.5 Consensus size: 120
17750180 TTCTTTTTAC
** *
17750190 ATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAATTGTATTAAATTATATATTTTTA
1 ATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTTA
17750255 TTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATT
66 TTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATT
17750310 ATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTTA
1 ATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTTA
17750375 TTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATT
66 TTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATT
*
17750430 ATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAACTTTATTAAATTATAT
1 ATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATAT
17750488 TTAATAATAA
Statistics
Matches: 174, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 174 1.00
ACGTcount: A:0.44, C:0.01, G:0.05, T:0.50
Consensus pattern (120 bp):
ATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTTA
TTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATT
Found at i:17750424 original size:59 final size:59
Alignment explanation
Indices: 17750241--17750429 Score: 213
Period size: 59 Copynumber: 3.2 Consensus size: 59
17750231 ATTGTATTAA
17750241 ATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGT
1 ATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGT
* * ** ** * * * * *
17750300 ATTATATATTATGATTTTAGAAAATTCATATAAGAA-TAT-TTAATATTAAGAATTTTATTA-A
1 ATTATATATTTTTATTAAATTATATTTA-ATAATAATTATGTTAA-ATT-A-TATTTTA-TAGT
17750361 ATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGT
1 ATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGT
17750420 ATTATATATT
1 ATTATATATT
17750430 ATGATTTTAG
Statistics
Matches: 100, Mismatches: 22, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
58 6 0.06
59 42 0.42
60 14 0.14
61 32 0.32
62 6 0.06
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (59 bp):
ATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGT
Found at i:17750748 original size:16 final size:16
Alignment explanation
Indices: 17750729--17750789 Score: 77
Period size: 16 Copynumber: 3.8 Consensus size: 16
17750719 TATTACGCTA
17750729 CTATTCCATTACACCT
1 CTATTCCATTACACCT
*
17750745 CTATTCCATTACGCCT
1 CTATTCCATTACACCT
* * *
17750761 TTATTTCATTACGCCT
1 CTATTCCATTACACCT
*
17750777 CTATTCCAATACA
1 CTATTCCATTACA
17750790 GCGAACCAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 38 1.00
ACGTcount: A:0.25, C:0.33, G:0.03, T:0.39
Consensus pattern (16 bp):
CTATTCCATTACACCT
Found at i:17752778 original size:22 final size:21
Alignment explanation
Indices: 17752728--17752770 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
17752718 ATAACGGGGG
*
17752728 TTAGTGAAAGGAACACCAAAA
1 TTAGTGAAAAGAACACCAAAA
17752749 TTAGTGAAAAGAACACCAAAA
1 TTAGTGAAAAGAACACCAAAA
17752770 T
1 T
17752771 AATATGAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.53, C:0.14, G:0.16, T:0.16
Consensus pattern (21 bp):
TTAGTGAAAAGAACACCAAAA
Found at i:17760437 original size:13 final size:13
Alignment explanation
Indices: 17760419--17760450 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
17760409 AGGGAGAAGA
17760419 AGTTATAATCATG
1 AGTTATAATCATG
17760432 AGTTATAATCATG
1 AGTTATAATCATG
17760445 AGTTAT
1 AGTTAT
17760451 TTAAGTAAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.38, C:0.06, G:0.16, T:0.41
Consensus pattern (13 bp):
AGTTATAATCATG
Found at i:17760477 original size:20 final size:20
Alignment explanation
Indices: 17760452--17760501 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
17760442 ATGAGTTATT
17760452 TAAGTAAGCAAGTAAGTAAA
1 TAAGTAAGCAAGTAAGTAAA
17760472 TAAGTAAG-AGAGTAAGTAAA
1 TAAGTAAGCA-AGTAAGTAAA
*
17760492 GAAG-AAGCAA
1 TAAGTAAGCAA
17760502 AGACCATGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 5 0.19
20 22 0.81
ACGTcount: A:0.56, C:0.04, G:0.24, T:0.16
Consensus pattern (20 bp):
TAAGTAAGCAAGTAAGTAAA
Found at i:17771022 original size:23 final size:23
Alignment explanation
Indices: 17770992--17771048 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
17770982 GCGATTTATC
*
17770992 GCATTTTTACTGTCAGCTTGTCT
1 GCATTTTTACTGGCAGCTTGTCT
* *
17771015 GCATTTTTACTGGCAGTTTGTTT
1 GCATTTTTACTGGCAGCTTGTCT
*
17771038 GAATTTTTACT
1 GCATTTTTACT
17771049 AGCATAATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.16, C:0.16, G:0.18, T:0.51
Consensus pattern (23 bp):
GCATTTTTACTGGCAGCTTGTCT
Found at i:17784746 original size:49 final size:49
Alignment explanation
Indices: 17784673--17784776 Score: 154
Period size: 49 Copynumber: 2.1 Consensus size: 49
17784663 AGATAAAAAC
* * * * *
17784673 AAATTAAAATTAAGTTTAATATCATGAATCAAAAGGTGAACATTTTATA
1 AAATTAAAATTAAGTTCAACATCATGAATCAAAAGCTCAACACTTTATA
*
17784722 AAATTAAAATTAAGTTCAACATCATGAATCAAAAGCTCAACGCTTTATA
1 AAATTAAAATTAAGTTCAACATCATGAATCAAAAGCTCAACACTTTATA
17784771 AAATTA
1 AAATTA
17784777 TAACACATGA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.49, C:0.11, G:0.09, T:0.32
Consensus pattern (49 bp):
AAATTAAAATTAAGTTCAACATCATGAATCAAAAGCTCAACACTTTATA
Found at i:17788093 original size:44 final size:45
Alignment explanation
Indices: 17788045--17788161 Score: 127
Period size: 44 Copynumber: 2.6 Consensus size: 45
17788035 TCATGGTGAA
17788045 TAAATAAAAACAGGGAAAGTTTAACATAA-GTAGTCATTGATAAC
1 TAAATAAAAACAGGGAAAGTTTAACATAATGTAGTCATTGATAAC
** * *
17788089 TAAAT-TTAACA---TAAGTTTAACATACGTATTTAGTCATTGATAAC
1 TAAATAAAAACAGGGAAAGTTTAACATA---ATGTAGTCATTGATAAC
*
17788133 TAACTAAAAACAGGGAAAGTTTAACATAA
1 TAAATAAAAACAGGGAAAGTTTAACATAA
17788162 ATTTAACATA
Statistics
Matches: 57, Mismatches: 8, Indels: 15
0.71 0.10 0.19
Matches are distributed among these distances:
40 12 0.21
43 5 0.09
44 23 0.40
45 5 0.09
48 12 0.21
ACGTcount: A:0.48, C:0.10, G:0.13, T:0.29
Consensus pattern (45 bp):
TAAATAAAAACAGGGAAAGTTTAACATAATGTAGTCATTGATAAC
Found at i:17813239 original size:13 final size:14
Alignment explanation
Indices: 17813220--17813257 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
17813210 CAATGGCATA
17813220 GAAATAATATAAAT
1 GAAATAATATAAAT
17813234 -AAATAA-ATAAAT
1 GAAATAATATAAAT
17813246 GAAATTAATATA
1 GAAA-TAATATA
17813258 CAAAAAAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 6 0.29
13 9 0.43
14 3 0.14
15 3 0.14
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (14 bp):
GAAATAATATAAAT
Found at i:17813871 original size:17 final size:17
Alignment explanation
Indices: 17813849--17813892 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
17813839 TAGGAAATAA
17813849 AAAATGTATATGTATAT
1 AAAATGTATATGTATAT
*
17813866 AAAATGTAAATGTATAT
1 AAAATGTATATGTATAT
*
17813883 -ATATGTATAT
1 AAAATGTATAT
17813893 AAAAGTTATG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 8 0.33
17 16 0.67
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (17 bp):
AAAATGTATATGTATAT
Found at i:17813918 original size:33 final size:33
Alignment explanation
Indices: 17813821--17813919 Score: 79
Period size: 33 Copynumber: 3.2 Consensus size: 33
17813811 AAAAGTGTAT
* * *
17813821 ATATATGCATATAAAAGTTA-GGAAATA-AAAA
1 ATATATGTATATAAAAGTTATGCAAATAGAATA
* *
17813852 ATGTATATGTATAT-AAA---ATGTAAAT-GTAT-
1 A--TATATGTATATAAAAGTTATGCAAATAGAATA
17813881 ATATATGTATATAAAAGTTATGCAAATAGAATA
1 ATATATGTATATAAAAGTTATGCAAATAGAATA
17813914 ATATAT
1 ATATAT
17813920 ATAATATGCA
Statistics
Matches: 52, Mismatches: 6, Indels: 18
0.68 0.08 0.24
Matches are distributed among these distances:
27 11 0.21
28 3 0.06
29 2 0.04
30 6 0.12
31 8 0.15
32 6 0.12
33 16 0.31
ACGTcount: A:0.52, C:0.02, G:0.12, T:0.34
Consensus pattern (33 bp):
ATATATGTATATAAAAGTTATGCAAATAGAATA
Found at i:17814417 original size:21 final size:19
Alignment explanation
Indices: 17814379--17814447 Score: 111
Period size: 19 Copynumber: 3.5 Consensus size: 19
17814369 AATCATATCT
17814379 TCTAAGATTGTATATCATA
1 TCTAAGATTGTATATCATA
*
17814398 TCTAAGATTGCATTTATCATA
1 TCTAAGATTG--TATATCATA
17814419 TCTAAGATTGTATATCATA
1 TCTAAGATTGTATATCATA
17814438 TCTAAGATTG
1 TCTAAGATTG
17814448 CACATCCTTG
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
19 28 0.61
21 18 0.39
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.42
Consensus pattern (19 bp):
TCTAAGATTGTATATCATA
Found at i:17814950 original size:44 final size:44
Alignment explanation
Indices: 17814889--17815005 Score: 146
Period size: 44 Copynumber: 2.7 Consensus size: 44
17814879 ATTCTAATCC
* * *
17814889 ACTCCACTACAACTTTAGGGAGATAAGA-TTTGTTCATTCAGTCT
1 ACTCCACTGCAACTTTAGGGAGATAAGACTTTCTT-ACTCAGTCT
* * *
17814933 ACTTCACTGCAATTTTAGGGGGATAAGACTTTCTTACTCAGTCT
1 ACTCCACTGCAACTTTAGGGAGATAAGACTTTCTTACTCAGTCT
* *
17814977 GCTCCACTGCAACTTCAGGGAGATAAGAC
1 ACTCCACTGCAACTTTAGGGAGATAAGAC
17815006 CCGATGTGAT
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
44 56 0.92
45 5 0.08
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (44 bp):
ACTCCACTGCAACTTTAGGGAGATAAGACTTTCTTACTCAGTCT
Found at i:17815032 original size:41 final size:43
Alignment explanation
Indices: 17814982--17815086 Score: 124
Period size: 44 Copynumber: 2.5 Consensus size: 43
17814972 AGTCTGCTCC
*
17814982 ACTGCAACTTCAGGGAGATAAGACCCG-A-TGTGATCTACTCT
1 ACTGCAACTTCAGGGAGATAAGACCCGTAGTGTAATCTACTCT
* * * * *
17815023 ACTGCAACTTCAGAGAGATAAGATCTGTAGTTTTAATCTGCTCT
1 ACTGCAACTTCAGGGAGATAAGACCCGTAG-TGTAATCTACTCT
*
17815067 ACTGCAACTTTAGGGAGATA
1 ACTGCAACTTCAGGGAGATA
17815087 GGACTATTGG
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
41 24 0.45
42 1 0.02
44 28 0.53
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (43 bp):
ACTGCAACTTCAGGGAGATAAGACCCGTAGTGTAATCTACTCT
Found at i:17815076 original size:44 final size:41
Alignment explanation
Indices: 17814974--17815086 Score: 127
Period size: 41 Copynumber: 2.7 Consensus size: 41
17814964 TCTTACTCAG
* *
17814974 TCTGCTCCACTGCAACTTCAGGGAGATAAGACCCGATGTGA
1 TCTGCTCTACTGCAACTTCAGGGAGATAAGACCCGATGTAA
* * * * *
17815015 TCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTAGTTTTAA
1 TCTGCTCTACTGCAACTTCAGGGAGATAAGACCCG-A--TGTAA
*
17815059 TCTGCTCTACTGCAACTTTAGGGAGATA
1 TCTGCTCTACTGCAACTTCAGGGAGATA
17815087 GGACTATTGG
Statistics
Matches: 59, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
41 30 0.51
42 1 0.02
44 28 0.47
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.29
Consensus pattern (41 bp):
TCTGCTCTACTGCAACTTCAGGGAGATAAGACCCGATGTAA
Found at i:17815102 original size:44 final size:44
Alignment explanation
Indices: 17814974--17815117 Score: 116
Period size: 44 Copynumber: 3.3 Consensus size: 44
17814964 TCTTACTCAG
* * * * * *
17814974 TCTGCTCCACTGCAACTTCAGGGAGATAAGACCCG-A--TGTGA
1 TCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAGCTTTAA
* *
17815015 TCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTAGTTTTAA
1 TCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAGCTTTAA
* * * * *
17815059 TCTGCTCTACTGCAACTTTAGGGAGATAGGA-CTATTGGCTTTAA
1 TCTGCTCTACTGCAACTTCAGAGAGATAAGATCT-GTAGCTTTAA
* *
17815103 TATGCTCCACTGCAA
1 TCTGCTCTACTGCAA
17815118 TGCCAAAGAG
Statistics
Matches: 83, Mismatches: 16, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
41 30 0.36
42 1 0.01
43 2 0.02
44 50 0.60
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (44 bp):
TCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAGCTTTAA
Found at i:17815506 original size:88 final size:89
Alignment explanation
Indices: 17815297--17815621 Score: 315
Period size: 88 Copynumber: 3.7 Consensus size: 89
17815287 TCAAGGCAAT
* * * * * *
17815297 AAGACTGATATCTTCGATCTGCTTCACTGCCAGTATAGGAAGGCAAGATCTGCTGT--TTTAACC
1 AAGACTGGTGTCTTCAATCTGCTTCACTGCCAGTACAGGAAGGCAAGATCTGCTATCCTTCAACC
* ** **
17815360 TACTCCACTGCTGCT-CAGGGAGAT
66 TGCTCCACTG-TAATCCAGGGAGGC
* * * * * * * **
17815384 AAGGCAGGAGTTTTCGATCTGCTTCCCTGCCAGTATAGGAAGGCAAGATCTGCTATCCTT-AGTC
1 AAGACTGGTGTCTTCAATCTGCTTCACTGCCAGTACAGGAAGGCAAGATCTGCTATCCTTCAACC
17815448 TGCTCCACTGTAA-CCTAGGGAGGC
66 TGCTCCACTGTAATCC-AGGGAGGC
* *
17815472 AAGACTGGT-TCCTTCAATCTGCTTCACTGTCAGTACAGGAAGGCAAGATCTGCTAT-TTTCAAC
1 AAGACTGGTGT-CTTCAATCTGCTTCACTGCCAGTACAGGAAGGCAAGATCTGCTATCCTTCAAC
*
17815535 CTGCTCCGCTGTAATCCAGGGAGGC
65 CTGCTCCACTGTAATCCAGGGAGGC
* ** * *
17815560 AAGGCTGGTGTCTTTGATCTGCTTCGCTGCCGGTACAGGAAGGCAAGATCTGCTAT-CTTCAA
1 AAGACTGGTGTCTTCAATCTGCTTCACTGCCAGTACAGGAAGGCAAGATCTGCTATCCTTCAA
17815622 TGATCTGTTC
Statistics
Matches: 196, Mismatches: 34, Indels: 15
0.80 0.14 0.06
Matches are distributed among these distances:
87 53 0.27
88 138 0.70
89 5 0.03
ACGTcount: A:0.23, C:0.25, G:0.24, T:0.28
Consensus pattern (89 bp):
AAGACTGGTGTCTTCAATCTGCTTCACTGCCAGTACAGGAAGGCAAGATCTGCTATCCTTCAACC
TGCTCCACTGTAATCCAGGGAGGC
Found at i:17815539 original size:45 final size:45
Alignment explanation
Indices: 17815394--17815622 Score: 134
Period size: 44 Copynumber: 5.2 Consensus size: 45
17815384 AAGGCAGGAG
* * * *
17815394 TTTTCGATCTGCTTCCCTGCCAGTATAGGAAGGCAAGATCTGCTA
1 TTTTCAATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTA
* * * * * *
17815439 TCCTT-AGTCTGCTCCACTGT-A--ACCTAGGGAGGCAAGA-CTGGT-
1 T-TTTCAATCTGCTTCGCTGTCAGTA-C-AGGAAGGCAAGATCTGCTA
* *
17815481 TCCTTCAATCTGCTTCACTGTCAGTACAGGAAGGCAAGATCTGCTA
1 T-TTTCAATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTA
* * * * * * * *
17815527 TTTTCAACCTGCTCCGCTGT-AATCCAGGGAGGCAAG-GCTGGTG
1 TTTTCAATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTA
* * *
17815570 TCTTT-GATCTGCTTCGCTGCCGGTACAGGAAGGCAAGATCTGCTA
1 T-TTTCAATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTA
*
17815615 TCTTCAAT
1 TTTTCAAT
17815623 GATCTGTTCT
Statistics
Matches: 135, Mismatches: 36, Indels: 26
0.69 0.18 0.13
Matches are distributed among these distances:
42 6 0.04
43 33 0.24
44 54 0.40
45 38 0.28
46 4 0.03
ACGTcount: A:0.22, C:0.25, G:0.24, T:0.29
Consensus pattern (45 bp):
TTTTCAATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTA
Found at i:17821880 original size:31 final size:33
Alignment explanation
Indices: 17821827--17821914 Score: 91
Period size: 30 Copynumber: 2.8 Consensus size: 33
17821817 CATGTACATA
*
17821827 TATAAAAAAATAATTATCTACATATATATAGAT
1 TATAAAAAAATAATAATCTACATATATATAGAT
*
17821860 TATAAAAAAA-GATAAT-TACATATATATA-A-
1 TATAAAAAAATAATAATCTACATATATATAGAT
17821889 -A-AACAAATAATAATAAT-TACATATAT
1 TATAA-AAA-AATAATAATCTACATATAT
17821915 TGAAATTAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
27 2 0.04
28 4 0.08
29 2 0.04
30 15 0.31
31 12 0.24
32 4 0.08
33 10 0.20
ACGTcount: A:0.59, C:0.06, G:0.02, T:0.33
Consensus pattern (33 bp):
TATAAAAAAATAATAATCTACATATATATAGAT
Found at i:17821954 original size:24 final size:24
Alignment explanation
Indices: 17821926--17821975 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
17821916 GAAATTAATT
17821926 AATTTA-GAAAAATATATATAAAAA
1 AATTTATGAAAAATA-ATATAAAAA
* *
17821950 AATTTATGAAGAATAATATAAGAA
1 AATTTATGAAAAATAATATAAAAA
17821974 AA
1 AA
17821976 CATACGTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 16 0.70
25 7 0.30
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (24 bp):
AATTTATGAAAAATAATATAAAAA
Found at i:17822076 original size:17 final size:17
Alignment explanation
Indices: 17822054--17822097 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
17822044 TAGGAAATAA
17822054 AAAATGTATATGTATAT
1 AAAATGTATATGTATAT
*
17822071 AAAATGTAAATGTATAT
1 AAAATGTATATGTATAT
*
17822088 -ATATGTATAT
1 AAAATGTATAT
17822098 AAAAGTTATG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 8 0.33
17 16 0.67
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (17 bp):
AAAATGTATATGTATAT
Found at i:17822231 original size:3 final size:3
Alignment explanation
Indices: 17822223--17822264 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
17822213 ATATATATAG
*
17822223 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA CAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
17822265 CTTAATAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:17822301 original size:20 final size:21
Alignment explanation
Indices: 17822257--17822305 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
17822247 TAATAATAAC
*
17822257 AATAATAACTTAATAAAAAGAA
1 AATAA-AATTTAATAAAAAGAA
*
17822279 AATAAAATTTAATAAAAA-TA
1 AATAAAATTTAATAAAAAGAA
17822299 AATAAAA
1 AATAAAA
17822306 AACCAAATCG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 8 0.32
21 12 0.48
22 5 0.20
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (21 bp):
AATAAAATTTAATAAAAAGAA
Found at i:17822630 original size:21 final size:20
Alignment explanation
Indices: 17822594--17822663 Score: 117
Period size: 19 Copynumber: 3.5 Consensus size: 20
17822584 AATCATATCT
17822594 TCTAAGATTG-TATATCATA
1 TCTAAGATTGCTATATCATA
17822613 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC-TATATCATA
17822634 TCTAAGATTGC-ATATCATA
1 TCTAAGATTGCTATATCATA
17822653 TCTAAGATTGC
1 TCTAAGATTGC
17822664 ACATCCTTGA
Statistics
Matches: 49, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
19 29 0.59
21 20 0.41
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (20 bp):
TCTAAGATTGCTATATCATA
Found at i:17832303 original size:18 final size:18
Alignment explanation
Indices: 17832275--17832319 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
17832265 CGTTCGTTTC
*
17832275 CAAAACATTATTC-ATTT
1 CAAAACGTTATTCAATTT
*
17832292 ACAAATCGTTATTCAATTT
1 -CAAAACGTTATTCAATTT
17832311 CAAAACGTT
1 CAAAACGTT
17832320 TTCTTATTGC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.40, C:0.18, G:0.04, T:0.38
Consensus pattern (18 bp):
CAAAACGTTATTCAATTT
Found at i:17835562 original size:32 final size:33
Alignment explanation
Indices: 17835521--17835596 Score: 111
Period size: 33 Copynumber: 2.3 Consensus size: 33
17835511 GCCCACACGA
* *
17835521 CCCAAAATGGC-TTGCTTGTGTGGGT-CACATGG
1 CCCAAAATGGCATTGCCTATGT-GGTCCACATGG
17835553 CCCAAAATGGCATTGCCTATGTGGTCCACATGG
1 CCCAAAATGGCATTGCCTATGTGGTCCACATGG
17835586 CCCAAAATGGC
1 CCCAAAATGGC
17835597 CTAAACCGTG
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
32 14 0.35
33 26 0.65
ACGTcount: A:0.24, C:0.26, G:0.26, T:0.24
Consensus pattern (33 bp):
CCCAAAATGGCATTGCCTATGTGGTCCACATGG
Found at i:17841918 original size:27 final size:27
Alignment explanation
Indices: 17841874--17841925 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
17841864 ATGAGCGTGC
17841874 TCGAAATACCCTCAAAGGGTAAAATTA
1 TCGAAATACCCTCAAAGGGTAAAATTA
* *
17841901 TCGAAATACTCTCGAAGGGTAAAAT
1 TCGAAATACCCTCAAAGGGTAAAAT
17841926 AACCAAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.42, C:0.17, G:0.17, T:0.23
Consensus pattern (27 bp):
TCGAAATACCCTCAAAGGGTAAAATTA
Found at i:17841944 original size:27 final size:27
Alignment explanation
Indices: 17841877--17841938 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
17841867 AGCGTGCTCG
* * * *
17841877 AAATACCCTCAAAGGGTAAAATTATCG
1 AAATACCCTCGAAGGGTAAAATAACCA
*
17841904 AAATACTCTCGAAGGGTAAAATAACCA
1 AAATACCCTCGAAGGGTAAAATAACCA
17841931 AAATACCC
1 AAATACCC
17841939 ATGAAGAGGA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.47, C:0.21, G:0.13, T:0.19
Consensus pattern (27 bp):
AAATACCCTCGAAGGGTAAAATAACCA
Found at i:17847572 original size:36 final size:36
Alignment explanation
Indices: 17847525--17847595 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
17847515 AGTTTGGGGG
17847525 TGTGATAATACTAGAAAGAACATATGTTTTATCCCC
1 TGTGATAATACTAGAAAGAACATATGTTTTATCCCC
*
17847561 TGTGATAATACTAGAAAGAACATATGTTTTCTCCC
1 TGTGATAATACTAGAAAGAACATATGTTTTATCCC
17847596 TACTTATTGG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.34
Consensus pattern (36 bp):
TGTGATAATACTAGAAAGAACATATGTTTTATCCCC
Found at i:17854047 original size:44 final size:44
Alignment explanation
Indices: 17853997--17854107 Score: 134
Period size: 44 Copynumber: 2.5 Consensus size: 44
17853987 ATCTGCTCTT
* * * *
17853997 TGCAACTTCAGAGAGATAAGATCT-GTGGTTTTAATCCGCTCTAC
1 TGCAACTTCAGGGAGATAAGAT-TAGTGGCTTTAATACGCTCCAC
* * *
17854041 TGCAACTTCAGGGAGATAGGATTATTGGCTTTAATATGCTCCAC
1 TGCAACTTCAGGGAGATAAGATTAGTGGCTTTAATACGCTCCAC
*
17854085 TGCAACTTCAGGGAAATAAGATT
1 TGCAACTTCAGGGAGATAAGATT
17854108 TTCCATATTC
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
43 1 0.02
44 56 0.98
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.31
Consensus pattern (44 bp):
TGCAACTTCAGGGAGATAAGATTAGTGGCTTTAATACGCTCCAC
Found at i:17854370 original size:51 final size:51
Alignment explanation
Indices: 17854301--17854400 Score: 137
Period size: 51 Copynumber: 2.0 Consensus size: 51
17854291 TTCAAGTCCT
* * * *
17854301 AACGCTAGTGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCACTGC
1 AACGCTAGGGAAACAAGATTCGCTACCCTCAGCTTTAATCTGCTCCACTGC
* * *
17854352 AACGCTAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACT
1 AACGCTAGGGAAACAAGATTCGCTACCCTCAGCTTTAATCTGCTCCACT
17854401 ATAATGCGAA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 42 1.00
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (51 bp):
AACGCTAGGGAAACAAGATTCGCTACCCTCAGCTTTAATCTGCTCCACTGC
Found at i:17854668 original size:44 final size:45
Alignment explanation
Indices: 17854544--17854677 Score: 119
Period size: 43 Copynumber: 3.0 Consensus size: 45
17854534 AAGACTAATT
** * *
17854544 TCTTCGATCTACTTCACTACCAGCACAGGAAGGCAAGATCTGCTA
1 TCTTCGATCTACTTCACTACCAATACAGGAAGACAAGAGCTGCTA
* * * * * *** * *
17854589 TTTTCAACCTACTCCACTGCTGCT-CAGGGAGACAAG-GCTGGTA
1 TCTTCGATCTACTTCACTACCAATACAGGAAGACAAGAGCTGCTA
*
17854632 TCTTCGATCTACTTCACTACCAATACAGGAAGACAAGATCTGCTA
1 TCTTCGATCTACTTCACTACCAATACAGGAAGACAAGAGCTGCTA
17854677 T
1 T
17854678 TTTCAACCTA
Statistics
Matches: 63, Mismatches: 24, Indels: 4
0.69 0.26 0.04
Matches are distributed among these distances:
43 21 0.33
44 21 0.33
45 21 0.33
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (45 bp):
TCTTCGATCTACTTCACTACCAATACAGGAAGACAAGAGCTGCTA
Found at i:17854693 original size:88 final size:88
Alignment explanation
Indices: 17854544--17854716 Score: 292
Period size: 88 Copynumber: 2.0 Consensus size: 88
17854534 AAGACTAATT
* *
17854544 TCTTCGATCTACTTCACTACCAGCACAGGAAGGCAAGATCTGCTATTTTCAACCTACTCCACTGC
1 TCTTCGATCTACTTCACTACCAACACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGC
* *
17854609 TGCTCAGGGAGACAAGGCTGGTA
66 TACTCAGGAAGACAAGGCTGGTA
*
17854632 TCTTCGATCTACTTCACTACCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGC
1 TCTTCGATCTACTTCACTACCAACACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGC
*
17854697 TACTCAGGAAGATAAGGCTG
66 TACTCAGGAAGACAAGGCTG
17854717 AAATATCACC
Statistics
Matches: 79, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
88 79 1.00
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (88 bp):
TCTTCGATCTACTTCACTACCAACACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGC
TACTCAGGAAGACAAGGCTGGTA
Found at i:17854705 original size:44 final size:44
Alignment explanation
Indices: 17854569--17854708 Score: 156
Period size: 44 Copynumber: 3.2 Consensus size: 44
17854559 ACTACCAGCA
* *
17854569 CAGGAAGGCAAGATCTGCTATTTTCAACCTACTCCACTGCTGCT
1 CAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTACT
* * * * * * * * * *
17854613 CAGGGAGACAAG-GCTGGTATCTTCGATCTACTTCACTACCAAT
1 CAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTACT
17854656 ACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTACT
1 -CAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTACT
17854701 CAGGAAGA
1 CAGGAAGA
17854709 TAAGGCTGAA
Statistics
Matches: 72, Mismatches: 22, Indels: 4
0.73 0.22 0.04
Matches are distributed among these distances:
43 21 0.29
44 29 0.40
45 22 0.31
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (44 bp):
CAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTACT
Found at i:17874476 original size:58 final size:58
Alignment explanation
Indices: 17874406--17874523 Score: 227
Period size: 58 Copynumber: 2.0 Consensus size: 58
17874396 CTAGAATTTC
17874406 AAGAGAAACACTAAAAACACCATCAATTTTACCATCTCTCTAATTTGTGGGTTTTCCA
1 AAGAGAAACACTAAAAACACCATCAATTTTACCATCTCTCTAATTTGTGGGTTTTCCA
*
17874464 AAGAGAAACACTAAAAACACCATCAATTTTATCATCTCTCTAATTTGTGGGTTTTCCA
1 AAGAGAAACACTAAAAACACCATCAATTTTACCATCTCTCTAATTTGTGGGTTTTCCA
17874522 AA
1 AA
17874524 TTTTCTACGA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.37, C:0.21, G:0.10, T:0.31
Consensus pattern (58 bp):
AAGAGAAACACTAAAAACACCATCAATTTTACCATCTCTCTAATTTGTGGGTTTTCCA
Found at i:17890254 original size:40 final size:39
Alignment explanation
Indices: 17890225--17890427 Score: 271
Period size: 40 Copynumber: 5.1 Consensus size: 39
17890215 ATAAGTGTAT
*
17890225 TCAGGTGTACCGAAGTACAAACAGTGGCACGTATGTGCAA
1 TCAGGGGTACCGAAGTACAAACAG-GGCACGTATGTGCAA
* * *
17890265 TCAGGAGTACCGAAGTACAAATAGGCGAACGTATGTGCAA
1 TCAGGGGTACCGAAGTACAAACAGG-GCACGTATGTGCAA
* *
17890305 TCAGGGGTACCAAAGTATAAACAAGGGCACGTATGTGCAA
1 TCAGGGGTACCGAAGTACAAAC-AGGGCACGTATGTGCAA
*
17890345 TCAGGGGTACCGAAGTACAAACAGGGGCACATATGTGCAA
1 TCAGGGGTACCGAAGTACAAACA-GGGCACGTATGTGCAA
* * *
17890385 CCAGGGGTACCGAAATATAAACAAGGGCACGTATGTGCAA
1 TCAGGGGTACCGAAGTACAAAC-AGGGCACGTATGTGCAA
17890425 TCA
1 TCA
17890428 CCAATAATTA
Statistics
Matches: 143, Mismatches: 16, Indels: 8
0.86 0.10 0.05
Matches are distributed among these distances:
39 2 0.01
40 137 0.96
41 4 0.03
ACGTcount: A:0.36, C:0.19, G:0.28, T:0.17
Consensus pattern (39 bp):
TCAGGGGTACCGAAGTACAAACAGGGCACGTATGTGCAA
Found at i:17890371 original size:20 final size:20
Alignment explanation
Indices: 17890226--17890371 Score: 64
Period size: 20 Copynumber: 7.3 Consensus size: 20
17890216 TAAGTGTATT
*
17890226 CAGGTGTACCGAAGTACAAA
1 CAGGGGTACCGAAGTACAAA
* * * * *
17890246 CAGTGGCA-CGTATGTGCAAT
1 CAGGGGTACCG-AAGTACAAA
*
17890266 CAGGAGTACCGAAGTACAAA
1 CAGGGGTACCGAAGTACAAA
* * * * * *
17890286 TAGGCG-AACGTATGTGCAAT
1 CAGGGGTACCG-AAGTACAAA
* *
17890306 CAGGGGTACCAAAGTATAAA
1 CAGGGGTACCGAAGTACAAA
* * * * *
17890326 CAAGGGCA-CGTATGTGCAAT
1 CAGGGGTACCG-AAGTACAAA
17890346 CAGGGGTACCGAAGTACAAA
1 CAGGGGTACCGAAGTACAAA
17890366 CAGGGG
1 CAGGGG
17890372 CACATATGTG
Statistics
Matches: 82, Mismatches: 38, Indels: 12
0.62 0.29 0.09
Matches are distributed among these distances:
19 6 0.07
20 70 0.85
21 6 0.07
ACGTcount: A:0.36, C:0.18, G:0.29, T:0.16
Consensus pattern (20 bp):
CAGGGGTACCGAAGTACAAA
Found at i:17890389 original size:20 final size:20
Alignment explanation
Indices: 17890323--17890391 Score: 57
Period size: 20 Copynumber: 3.5 Consensus size: 20
17890313 ACCAAAGTAT
* *
17890323 AAACAAGGGCACGTATGTGC
1 AAACAGGGGCACATATGTGC
* * ** * *
17890343 AATCAGGGGTACCGAAGTAC
1 AAACAGGGGCACATATGTGC
17890363 AAACAGGGGCACATATGTGC
1 AAACAGGGGCACATATGTGC
*
17890383 AACCAGGGG
1 AAACAGGGG
17890392 TACCGAAATA
Statistics
Matches: 35, Mismatches: 14, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.35, C:0.20, G:0.32, T:0.13
Consensus pattern (20 bp):
AAACAGGGGCACATATGTGC
Found at i:17890447 original size:80 final size:80
Alignment explanation
Indices: 17890207--17890434 Score: 235
Period size: 80 Copynumber: 2.9 Consensus size: 80
17890197 GGGTATAAAT
* * ** * * * **
17890207 AGGGGCACATAAGTGTATTCAGGTGTACCGAAGTACAAAC-AGTGGCACGTATGTGCAATCAGGA
1 AGGGGCACATATGTGCAACCAGGGGTACCAAAGTATAAACAAG-GGCACGTATGTGCAATCACCA
* * *
17890271 GTACCGAAGTACAAAT
65 ATAACGAAGTACAAAC
* * * * ****
17890287 AGGCGAACGTATGTGCAATCAGGGGTACCAAAGTATAAACAAGGGCACGTATGTGCAATCAGGGG
1 AGGGGCACATATGTGCAACCAGGGGTACCAAAGTATAAACAAGGGCACGTATGTGCAATCACCAA
*
17890352 TACCGAAGTACAAAC
66 TAACGAAGTACAAAC
17890367 AGGGGCACATATGTGCAACCAGGGGTACCGAAA-TATAAACAAGGGCACGTATGTGCAATCACCA
1 AGGGGCACATATGTGCAACCAGGGGTACC-AAAGTATAAACAAGGGCACGTATGTGCAATCACCA
17890431 ATAA
65 ATAA
17890435 TTATTTACAA
Statistics
Matches: 126, Mismatches: 20, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
80 121 0.96
81 5 0.04
ACGTcount: A:0.36, C:0.19, G:0.27, T:0.18
Consensus pattern (80 bp):
AGGGGCACATATGTGCAACCAGGGGTACCAAAGTATAAACAAGGGCACGTATGTGCAATCACCAA
TAACGAAGTACAAAC
Found at i:17895563 original size:20 final size:21
Alignment explanation
Indices: 17895529--17895567 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
17895519 TGGACCTGGT
17895529 ATTTTATTTTAGAATGTTTTTA
1 ATTTTATTTTAGAAT-TTTTTA
17895551 ATTTT-TTTT-GAATTTTT
1 ATTTTATTTTAGAATTTTT
17895568 AAGTATTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 4 0.24
20 4 0.24
21 4 0.24
22 5 0.29
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (21 bp):
ATTTTATTTTAGAATTTTTTA
Found at i:17898340 original size:62 final size:62
Alignment explanation
Indices: 17898258--17898377 Score: 240
Period size: 62 Copynumber: 1.9 Consensus size: 62
17898248 GTTATAACTC
17898258 AATCAAATTTAAAATCTTGCCATTGTCTAATACAAAGTTAATCATTTTTACAATCCAATGTT
1 AATCAAATTTAAAATCTTGCCATTGTCTAATACAAAGTTAATCATTTTTACAATCCAATGTT
17898320 AATCAAATTTAAAATCTTGCCATTGTCTAATACAAAGTTAATCATTTTTACAATCCAA
1 AATCAAATTTAAAATCTTGCCATTGTCTAATACAAAGTTAATCATTTTTACAATCCAA
17898378 CCTTAACTAA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 58 1.00
ACGTcount: A:0.40, C:0.17, G:0.06, T:0.38
Consensus pattern (62 bp):
AATCAAATTTAAAATCTTGCCATTGTCTAATACAAAGTTAATCATTTTTACAATCCAATGTT
Found at i:17901025 original size:59 final size:59
Alignment explanation
Indices: 17900897--17901099 Score: 336
Period size: 59 Copynumber: 3.4 Consensus size: 59
17900887 CACAGTCAAT
*
17900897 AATATATTTGTACAAAAATATTCAAAAGAGCTTCTATTTTATTAAATGAAACAATA-TAA
1 AATA-ATTTGTACAAAAATATTCAAAAGAACTTCTATTTTATTAAATGAAACAATATTAA
* * *
17900956 AATAATTTGTACAAAAAAATTCAAAAGAACTTCTATTTTATTAAATAAAATAATATTAA
1 AATAATTTGTACAAAAATATTCAAAAGAACTTCTATTTTATTAAATGAAACAATATTAA
*
17901015 AATAATTTGTACAAAAATATTCAAAAGAACTTCTATTTTATTAAATGAAACAATATAAA
1 AATAATTTGTACAAAAATATTCAAAAGAACTTCTATTTTATTAAATGAAACAATATTAA
*
17901074 AACAATTTGTACAAAAATATTCAAAA
1 AATAATTTGTACAAAAATATTCAAAA
17901100 ATAAATCAAT
Statistics
Matches: 134, Mismatches: 9, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
58 47 0.35
59 87 0.65
ACGTcount: A:0.53, C:0.08, G:0.05, T:0.34
Consensus pattern (59 bp):
AATAATTTGTACAAAAATATTCAAAAGAACTTCTATTTTATTAAATGAAACAATATTAA
Found at i:17903052 original size:11 final size:11
Alignment explanation
Indices: 17903038--17903063 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
17903028 TAATTAAATT
17903038 ATAAAAATGAA
1 ATAAAAATGAA
17903049 ATAAAAATGAA
1 ATAAAAATGAA
17903060 ATAA
1 ATAA
17903064 TATTAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.73, C:0.00, G:0.08, T:0.19
Consensus pattern (11 bp):
ATAAAAATGAA
Found at i:17903056 original size:20 final size:20
Alignment explanation
Indices: 17903011--17903056 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 20
17903001 AGCTATTATA
17903011 AAAAATTATAAAAATATTAAT
1 AAAAATTATAAAAATA-TAAT
*
17903032 -TAAATTATAAAAATGA-AAT
1 AAAAATTATAAAAAT-ATAAT
17903051 AAAAAT
1 AAAAAT
17903057 GAAATAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 5
0.75 0.07 0.18
Matches are distributed among these distances:
19 3 0.14
20 17 0.81
21 1 0.05
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (20 bp):
AAAAATTATAAAAATATAAT
Found at i:17909657 original size:14 final size:15
Alignment explanation
Indices: 17909638--17909670 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
17909628 GAATTTTCCC
*
17909638 TTTTTTCTTTCT-CT
1 TTTTTTATTTCTCCT
17909652 TTTTTTATTTCTCCT
1 TTTTTTATTTCTCCT
17909667 TTTT
1 TTTT
17909671 CACTCAGCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTTTATTTCTCCT
Found at i:17910227 original size:6 final size:6
Alignment explanation
Indices: 17910216--17910242 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
17910206 GAAAAATATT
17910216 TGTGGA TGTGGA TGTGGA TGTGGA TGT
1 TGTGGA TGTGGA TGTGGA TGTGGA TGT
17910243 AATTATTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.48, T:0.37
Consensus pattern (6 bp):
TGTGGA
Found at i:17911382 original size:29 final size:27
Alignment explanation
Indices: 17911328--17911387 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 27
17911318 AAAGCCCCTT
17911328 TTTTTTAATAATTACAGAAATAGGCCA
1 TTTTTTAATAATTACAGAAATAGGCCA
* * * *
17911355 GTTTTTTAATTATTTACCGGAATGGGCCA
1 -TTTTTTAA-TAATTACAGAAATAGGCCA
17911384 TTTT
1 TTTT
17911388 CCGCGAAATC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 12 0.44
29 15 0.56
ACGTcount: A:0.30, C:0.12, G:0.15, T:0.43
Consensus pattern (27 bp):
TTTTTTAATAATTACAGAAATAGGCCA
Found at i:17911904 original size:127 final size:126
Alignment explanation
Indices: 17911655--17912038 Score: 567
Period size: 127 Copynumber: 3.1 Consensus size: 126
17911645 AAATAGTGGG
** * * * * * *
17911655 AAATCGCTTCTACTAGGATGCTAT-TTGAGAAGAAATTGTGAAATCGTGGCCTCGTGGACGCGAT
1 AAATCGCTGATACAAGGATGCTATATTGGGCAGAAATTGTTAAATCGCGCCCTCGTGGACGCGAT
* ** **
17911719 TTCGCTAC-AGTGGTCATGTAAGAAATAATTTTTTTTTGATGTTTTCTGAGCAAATAGTATA
66 TTCGCTACAATTGGTCATGTTGGAAATAA-TTTTTTTTGACATTTTCTGAGCAAATAGTATA
17911780 AAATCGCTGATACAAGGATGCTATATTGGGCAGAAATTGTTAAATCGCGCCCTCGTGGACGCGAT
1 AAATCGCTGATACAAGGATGCTATATTGGGCAGAAATTGTTAAATCGCGCCCTCGTGGACGCGAT
17911845 TTCGCTACAATTGGTCATGTTGGAAATAATTATTTTTTGACATTTTCTGAGCAAATAGTATA
66 TTCGCTACAATTGGTCATGTTGGAAATAATT-TTTTTTGACATTTTCTGAGCAAATAGTATA
*
17911907 AAATCGCTGATACAAGGATGCTATATTGGGCAGAAATTGTTAAATCGCGCCCTCGTGGACGCGAC
1 AAATCGCTGATACAAGGATGCTATATTGGGCAGAAATTGTTAAATCGCGCCCTCGTGGACGCGAT
* * * *
17911972 TTCGCTACAGTTGGTCATGTTGGAAATAATTTTTTTTTACA-TTTCTGAGCAAATAGTGTC
66 TTCGCTACAATTGGTCATGTTGGAAATAATTTTTTTTGACATTTTCTGAGCAAATAGTATA
17912032 AAATCGC
1 AAATCGC
17912039 GCCCTCGTGG
Statistics
Matches: 238, Mismatches: 18, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
125 45 0.19
126 54 0.23
127 139 0.58
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (126 bp):
AAATCGCTGATACAAGGATGCTATATTGGGCAGAAATTGTTAAATCGCGCCCTCGTGGACGCGAT
TTCGCTACAATTGGTCATGTTGGAAATAATTTTTTTTGACATTTTCTGAGCAAATAGTATA
Found at i:17915259 original size:7 final size:7
Alignment explanation
Indices: 17915243--17915300 Score: 73
Period size: 7 Copynumber: 8.4 Consensus size: 7
17915233 CTGTTGTATG
17915243 TTAGGG-
1 TTAGGGT
17915249 TTAGGGT
1 TTAGGGT
17915256 TTAGGGT
1 TTAGGGT
17915263 TTAGGGT
1 TTAGGGT
*
17915270 TAAGGGT
1 TTAGGGT
*
17915277 TAAGGGT
1 TTAGGGT
*
17915284 TAAGGGT
1 TTAGGGT
*
17915291 TAAGGGT
1 TTAGGGT
17915298 TTA
1 TTA
17915301 TAATTAAATT
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
6 6 0.12
7 43 0.88
ACGTcount: A:0.22, C:0.00, G:0.41, T:0.36
Consensus pattern (7 bp):
TTAGGGT
Found at i:17915268 original size:14 final size:14
Alignment explanation
Indices: 17915243--17915300 Score: 82
Period size: 14 Copynumber: 4.2 Consensus size: 14
17915233 CTGTTGTATG
17915243 TTAGGGTT-AGGGT
1 TTAGGGTTAAGGGT
*
17915256 TTAGGGTTTAGGGT
1 TTAGGGTTAAGGGT
*
17915270 TAAGGGTTAAGGGT
1 TTAGGGTTAAGGGT
*
17915284 TAAGGGTTAAGGGT
1 TTAGGGTTAAGGGT
17915298 TTA
1 TTA
17915301 TAATTAAATT
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
13 8 0.20
14 33 0.80
ACGTcount: A:0.22, C:0.00, G:0.41, T:0.36
Consensus pattern (14 bp):
TTAGGGTTAAGGGT
Found at i:17915277 original size:21 final size:21
Alignment explanation
Indices: 17915243--17915300 Score: 91
Period size: 21 Copynumber: 2.8 Consensus size: 21
17915233 CTGTTGTATG
17915243 TTAGGGTT-AGGGTTTAGGGT
1 TTAGGGTTAAGGGTTTAGGGT
*
17915263 TTAGGGTTAAGGGTTAAGGGT
1 TTAGGGTTAAGGGTTTAGGGT
*
17915284 TAAGGGTTAAGGGTTTA
1 TTAGGGTTAAGGGTTTA
17915301 TAATTAAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
20 8 0.24
21 26 0.76
ACGTcount: A:0.22, C:0.00, G:0.41, T:0.36
Consensus pattern (21 bp):
TTAGGGTTAAGGGTTTAGGGT
Found at i:17915307 original size:21 final size:21
Alignment explanation
Indices: 17915265--17915307 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
17915255 TTTAGGGTTT
**
17915265 AGGGTTAAGGGTTAAGGGTTA
1 AGGGTTAAGGGTTAAGAATTA
* *
17915286 AGGGTTAAGGGTTTATAATTA
1 AGGGTTAAGGGTTAAGAATTA
17915307 A
1 A
17915308 ATTAAGTTAG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.35, T:0.33
Consensus pattern (21 bp):
AGGGTTAAGGGTTAAGAATTA
Found at i:17915332 original size:29 final size:29
Alignment explanation
Indices: 17915286--17915895 Score: 713
Period size: 29 Copynumber: 21.2 Consensus size: 29
17915276 TTAAGGGTTA
*
17915286 AGGGTTAAGGGTTTATAATTAAATTAAGTT
1 AGGGTT-AGGGTTTTTAATTAAATTAAGTT
** *
17915316 AGGGTTAGGGTTCATAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAAGTT
* * ** *
17915345 AGGGTTTAGGGTTTATAGTTGTATTAGGTT
1 AGGG-TTAGGGTTTTTAATTAAATTAAGTT
* * * ** *
17915375 AGGGTTTAGGATTTATAGTTGTATTAGGTT
1 AGGG-TTAGGGTTTTTAATTAAATTAAGTT
**
17915405 AGGGTTAGGGTTTTTAATTAAATTGGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAAGTT
*
17915434 AGGGTTTAAGGTTTTTAATTAAATTAAGTT
1 AGGG-TTAGGGTTTTTAATTAAATTAAGTT
* *
17915464 AAGGTTTAGGGTTTATAATTAAATTAAGTT
1 -AGGGTTAGGGTTTTTAATTAAATTAAGTT
17915494 AGGGTTAGGGTTTTTAATTAAATTAAGTT
1 AGGGTTAGGGTTTTTAATTAAATTAAGTT
*
17915523 AGGGTTAGGGTTTATAATTAAATTAAGTT
1 AGGGTTAGGGTTTTTAATTAAATTAAGTT
*
17915552 AGGGTTAGGG-TTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAAGTT
17915580 AGGGTTAGGGTTTTTAATTAAATTAAGTT
1 AGGGTTAGGGTTTTTAATTAAATTAAGTT
*
17915609 AGGGTTTAGGGTTTATAATTAAATTAAGTT
1 AGGG-TTAGGGTTTTTAATTAAATTAAGTT
* *
17915639 AGGGTTAGGGTTTATAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAAGTT
17915668 AGGGTTAGGGTTTTTAATTAAATTAAGTT
1 AGGGTTAGGGTTTTTAATTAAATTAAGTT
* * *
17915697 A-GGTTAGGGGTTTTAATTCAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAAGTT
* * * *
17915725 AGGTTTTAGGGTTTATAATTACATTAAGAT
1 AGG-GTTAGGGTTTTTAATTAAATTAAGTT
* *
17915755 A-GGTTAGGGTTTTTAATTCAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAAGTT
* *
17915783 A-GGTTAGGGTTTTCAATTCAATT-A---
1 AGGGTTAGGGTTTTTAATTAAATTAAGTT
17915807 A--GTTAGGGTTTTTAATTAAATTAAGTT
1 AGGGTTAGGGTTTTTAATTAAATTAAGTT
* * *
17915834 A-GGTTAGGGGTTTTAATTCAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAAGTT
*
17915862 A-GGTTAGGGTTTTTAATTCAATTAAGTT
1 AGGGTTAGGGTTTTTAATTAAATTAAGTT
17915890 AGGGTT
1 AGGGTT
17915896 TTTAATTAAA
Statistics
Matches: 513, Mismatches: 54, Indels: 27
0.86 0.09 0.05
Matches are distributed among these distances:
23 19 0.04
24 2 0.00
27 1 0.00
28 143 0.28
29 192 0.37
30 153 0.30
31 3 0.01
ACGTcount: A:0.30, C:0.01, G:0.25, T:0.44
Consensus pattern (29 bp):
AGGGTTAGGGTTTTTAATTAAATTAAGTT
Found at i:17915780 original size:23 final size:24
Alignment explanation
Indices: 17915688--17915911 Score: 139
Period size: 28 Copynumber: 8.5 Consensus size: 24
17915678 TTTTTAATTA
*
17915688 AATT-AAGTTAGGTTAGGGGTTTT
1 AATTCAAGTTAGGTTAGGGTTTTT
*
17915711 AATTCAATTAGGTTAGGTTTTAGGGTTTAT
1 AATTC-A--A-GTTAGG--TTAGGGTTTTT
*
17915741 AATTACATTAAGATAGGTTAGGGTTTTT
1 AATT-C---AAGTTAGGTTAGGGTTTTT
*
17915769 AATTCAATTAGGTTAGGTTAGGGTTTTC
1 AATTC-A--A-GTTAGGTTAGGGTTTTT
*
17915797 AATTCAA-TTAAGTTAGGGTTTTT
1 AATTCAAGTTAGGTTAGGGTTTTT
* *
17915820 AATTAAATTAAGTTAGGTTAGGGGTTTT
1 AA-T---TCAAGTTAGGTTAGGGTTTTT
17915848 AATTCAATTAGGTTAGGTTAGGGTTTTT
1 AATTC-A--A-GTTAGGTTAGGGTTTTT
*
17915876 AATTCAA-TTAAGTTAGGGTTTTT
1 AATTCAAGTTAGGTTAGGGTTTTT
* *
17915899 AATTAAATTTAGG
1 AATTCAAGTTAGG
17915912 GGTTTTAATC
Statistics
Matches: 160, Mismatches: 18, Indels: 45
0.72 0.08 0.20
Matches are distributed among these distances:
23 41 0.26
24 6 0.04
25 5 0.03
27 10 0.06
28 77 0.48
30 18 0.11
31 2 0.01
33 1 0.01
ACGTcount: A:0.29, C:0.03, G:0.23, T:0.45
Consensus pattern (24 bp):
AATTCAAGTTAGGTTAGGGTTTTT
Found at i:17915912 original size:19 final size:19
Alignment explanation
Indices: 17915865--17915925 Score: 59
Period size: 19 Copynumber: 3.0 Consensus size: 19
17915855 TTAGGTTAGG
*
17915865 TTAGGGTTTTTAATTCAATTAAG
1 TTAGGGTTTTTAATT--A--AAT
17915888 TTAGGGTTTTTAATTAAAT
1 TTAGGGTTTTTAATTAAAT
* *
17915907 TTAGGGGTTTTAATCAAAT
1 TTAGGGTTTTTAATTAAAT
17915926 AATGTCAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
19 19 0.54
21 1 0.03
23 15 0.43
ACGTcount: A:0.31, C:0.03, G:0.18, T:0.48
Consensus pattern (19 bp):
TTAGGGTTTTTAATTAAAT
Found at i:17918077 original size:14 final size:15
Alignment explanation
Indices: 17918060--17918093 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
17918050 AATAAATATC
17918060 TAAAAATA-CATAAA
1 TAAAAATAGCATAAA
*
17918074 TAAAAATAGCTTAAA
1 TAAAAATAGCATAAA
17918089 TAAAA
1 TAAAA
17918094 TTTAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.68, C:0.06, G:0.03, T:0.24
Consensus pattern (15 bp):
TAAAAATAGCATAAA
Found at i:17918320 original size:22 final size:22
Alignment explanation
Indices: 17918290--17918331 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
17918280 ATTTGGAGAT
*
17918290 TTTTTGAAGGAAATTGAGAGGA
1 TTTTGGAAGGAAATTGAGAGGA
*
17918312 TTTTGGAAGGAATTTGAGAG
1 TTTTGGAAGGAAATTGAGAG
17918332 TTTGAGATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (22 bp):
TTTTGGAAGGAAATTGAGAGGA
Found at i:17918358 original size:22 final size:21
Alignment explanation
Indices: 17918333--17918409 Score: 93
Period size: 22 Copynumber: 3.6 Consensus size: 21
17918323 ATTTGAGAGT
*
17918333 TTGAGATAATTTTGGAAGGAAA
1 TTGAGAGAATTTT-GAAGGAAA
*
17918355 TTGAGAGAACTTTTGAAGGGAA
1 TTGAGAGAA-TTTTGAAGGAAA
*
17918377 TTGAGAGAATTTTTGAA-GAAT
1 TTGAGAGAA-TTTTGAAGGAAA
17918398 TTGAGAGAATTT
1 TTGAGAGAATTT
17918410 GTTTGTGAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
20 3 0.06
21 11 0.22
22 31 0.63
23 4 0.08
ACGTcount: A:0.38, C:0.01, G:0.27, T:0.34
Consensus pattern (21 bp):
TTGAGAGAATTTTGAAGGAAA
Found at i:17928548 original size:41 final size:41
Alignment explanation
Indices: 17928503--17928600 Score: 160
Period size: 41 Copynumber: 2.4 Consensus size: 41
17928493 CAACGACACA
* *
17928503 TAGCCTGCTAGACTTATAGCCTGATTCAGATCATCGGCACG
1 TAGCCTGCTAGACTTATAACCTGATTCAGATCACCGGCACG
**
17928544 TAGCCTGCTAGGTTTATAACCTGATTCAGATCACCGGCACG
1 TAGCCTGCTAGACTTATAACCTGATTCAGATCACCGGCACG
17928585 TAGCCTGCTAGACTTA
1 TAGCCTGCTAGACTTA
17928601 AAGTCTGAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (41 bp):
TAGCCTGCTAGACTTATAACCTGATTCAGATCACCGGCACG
Found at i:17929304 original size:12 final size:12
Alignment explanation
Indices: 17929259--17929309 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
17929249 AATAACTTTT
**
17929259 ATATATATATGT
1 ATATATATATAC
*
17929271 ATATATATTCTAGC
1 ATATATA-TATA-C
17929285 AT-TATATATAC
1 ATATATATATAC
17929296 ATATATATATAC
1 ATATATATATAC
17929308 AT
1 AT
17929310 GCTTATTCGA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
11 3 0.09
12 21 0.66
13 6 0.19
14 2 0.06
ACGTcount: A:0.43, C:0.08, G:0.04, T:0.45
Consensus pattern (12 bp):
ATATATATATAC
Found at i:17931879 original size:4 final size:4
Alignment explanation
Indices: 17931870--17931894 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
17931860 TTCACAGAAA
17931870 ATAC ATAC ATAC ATAC ATAC ATAC A
1 ATAC ATAC ATAC ATAC ATAC ATAC A
17931895 ACACCTCATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAC
Found at i:17936182 original size:41 final size:40
Alignment explanation
Indices: 17936125--17936357 Score: 286
Period size: 41 Copynumber: 5.6 Consensus size: 40
17936115 GGATCCCGGT
*
17936125 GGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGG
1 GGAATCAGCACATAGCAACC-CCTTATAATCAATGATACGG
* *
17936166 GGAATCAGCACATAGCAACCCCTTTCACAATCAAGGATACGG
1 GGAATCAGCACATAGCAACCCC-TT-ATAATCAATGATACGG
* * *
17936208 TGAAATCAGTACTTAGCAACCACCTTATAATCAATGATACGG
1 -GGAATCAGCACATAGCAACC-CCTTATAATCAATGATACGG
* *
17936250 GGAATCAGCACATAGCAACCCCTTTCACAATCAAGGATACGG
1 GGAATCAGCACATAGCAACCCC-TT-ATAATCAATGATACGG
* * *
17936292 TGGAATCAACACTTAGCAACCACCTTATAATCAATGATACAG
1 -GGAATCAGCACATAGCAACC-CCTTATAATCAATGATACGG
17936334 GGAATCAGCACATAGCAACCCCTT
1 GGAATCAGCACATAGCAACCCCTT
17936358 TCATTCAAAG
Statistics
Matches: 164, Mismatches: 20, Indels: 17
0.82 0.10 0.08
Matches are distributed among these distances:
40 8 0.05
41 58 0.35
42 55 0.34
43 39 0.24
44 4 0.02
ACGTcount: A:0.37, C:0.26, G:0.16, T:0.21
Consensus pattern (40 bp):
GGAATCAGCACATAGCAACCCCTTATAATCAATGATACGG
Found at i:17936228 original size:84 final size:84
Alignment explanation
Indices: 17936121--17936360 Score: 444
Period size: 84 Copynumber: 2.9 Consensus size: 84
17936111 CAAAGGATCC
17936121 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
1 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
17936186 CCTTTCACAATCAAGGATA
66 CCTTTCACAATCAAGGATA
* *
17936205 CGGTGAAATCAGTACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
1 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
17936270 CCTTTCACAATCAAGGATA
66 CCTTTCACAATCAAGGATA
* *
17936289 CGGTGGAATCAACACTTAGCAACCACCTTATAATCAATGATACAGGGAATCAGCACATAGCAACC
1 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
17936354 CCTTTCA
66 CCTTTCA
17936361 TTCAAAGAAT
Statistics
Matches: 150, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
84 150 1.00
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.21
Consensus pattern (84 bp):
CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
CCTTTCACAATCAAGGATA
Found at i:17939041 original size:30 final size:31
Alignment explanation
Indices: 17939007--17939066 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
17938997 AAACCTTTTA
*
17939007 TTTTTCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTTCCCCAAAACTTTTACTCCCTTCCCAC
* *
17939037 TTTTTCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTTCCCCAAAACTTTTACTCCCTTCCCA
17939067 TCCCACCTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.37, G:0.00, T:0.43
Consensus pattern (31 bp):
TTTTTCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:17939345 original size:17 final size:17
Alignment explanation
Indices: 17939325--17939371 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
17939315 CACATTTTAT
17939325 ATTATTTATATTATTGA
1 ATTATTTATATTATTGA
17939342 ATTATTTAGTCA-TATTGA
1 ATTATTTA-T-ATTATTGA
17939360 A-TATTTATATTA
1 ATTATTTATATTA
17939372 AAATTGAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
15 1 0.04
16 3 0.11
17 14 0.52
18 8 0.30
19 1 0.04
ACGTcount: A:0.36, C:0.02, G:0.06, T:0.55
Consensus pattern (17 bp):
ATTATTTATATTATTGA
Found at i:17943595 original size:16 final size:16
Alignment explanation
Indices: 17943574--17943614 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 16
17943564 TTTTATATAA
17943574 ATATAAATATTTGT-TT
1 ATATAAATATTT-TCTT
17943590 ATATAAATATTTTCTT
1 ATATAAATATTTTCTT
17943606 ATATTAAAT
1 ATA-TAAAT
17943615 TGTATTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 1 0.04
16 17 0.74
17 5 0.22
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (16 bp):
ATATAAATATTTTCTT
Found at i:17944241 original size:16 final size:16
Alignment explanation
Indices: 17944220--17944260 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 16
17944210 TTTTATATAA
17944220 ATATAAATATTTGT-TT
1 ATATAAATATTT-TCTT
17944236 ATATAAATATTTTCTT
1 ATATAAATATTTTCTT
17944252 ATATTAAAT
1 ATA-TAAAT
17944261 TGTATTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 1 0.04
16 17 0.74
17 5 0.22
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (16 bp):
ATATAAATATTTTCTT
Found at i:17944391 original size:646 final size:646
Alignment explanation
Indices: 17943154--17944451 Score: 2483
Period size: 646 Copynumber: 2.0 Consensus size: 646
17943144 TGGAAATTTC
*
17943154 CAAAATCCCTCCATATTGAATGCCTATAAAAGCTTAAAGAATACTGCAGAATTCTTTAGAGAAAC
1 CAAAATACCTCCATATTGAATGCCTATAAAAGCTTAAAGAATACTGCAGAATTCTTTAGAGAAAC
* *
17943219 AGAGACACACTACGAATTTTTCACTCTCAAAAATTTTTTTCCTCTCCAAATTTTCAAACGTTTCA
66 AGAGACACACAACGAATTTTTCACTCTCAAAAAATTTTTTCCTCTCCAAATTTTCAAACGTTTCA
* *
17943284 GTGATAGAAGAAGCCAAGGTTTGTACATTAATCATTGCAGAAGTGCTACTACTTCGATCAATTTA
131 GTGATAGAAGAAGCCAAGGTTTGTACATTAATCACTGCAGAAGCGCTACTACTTCGATCAATTTA
*
17943349 TTATTGTATCCTGGGAGACAGTCGACCAATGTTTCTTCAAGCACCATAAGAGCGGTCGAATTTGT
196 TTATTGTATCCTGGGAGACAGTCGACCAATGTTTCTTCAAGCACCATAAGAGCGGTCGAATCTGT
17943414 CTTAAGGAAACAGTGAAAACAAGCCTCAACATCTAGTAAAACTGGATTCCCTTTATTCAATTTTT
261 CTTAAGGAAACAGTGAAAACAAGCCTCAACATCTAGTAAAACTGGATTCCCTTTATTCAATTTTT
17943479 AGTTTTCCAAAATCTTATTTATTTTAATTGTTCTGATGTTTTAAATAAATATAAATATTTAATTT
326 AGTTTTCCAAAATCTTATTTATTTTAATTGTTCTGATGTTTTAAATAAATATAAATATTTAATTT
17943544 GTTTTATTTAAATATGGTGTTTTTATATAAATATAAATATTTGTTTATATAAATATTTTCTTATA
391 GTTTTATTTAAATATGGTGTTTTTATATAAATATAAATATTTGTTTATATAAATATTTTCTTATA
17943609 TTAAATTGTATTATTTGTATATATAATTATTTATATTTATATATATTCGTTTGCTAACGTGTTTT
456 TTAAATTGTATTATTTGTATATATAATTATTTATATTTATATATATTCGTTTGCTAACGTGTTTT
17943674 GTCCAACAATTAAATTGATACTTTATTTATTAGTGTGAAGTATCAAACTCAACAAAAAAATTTAA
521 GTCCAACAATTAAATTGATACTTTATTTATTAGTGTGAAGTATCAAACTCAACAAAAAAATTTAA
*
17943739 TCACTTTGGTTCTCCTTAAGGTACGTTCCTTGGAGTACTCATCAAAGTATTTCATTGTAAA
586 TCACTTTGGTTCTCCTTAAGGTAAGTTCCTTGGAGTACTCATCAAAGTATTTCATTGTAAA
17943800 CAAAATACCTCCATATTGAATGCCTATAAAAGCTTAAAGAATACTGCAGAATTCTTTAGAGAAAC
1 CAAAATACCTCCATATTGAATGCCTATAAAAGCTTAAAGAATACTGCAGAATTCTTTAGAGAAAC
17943865 AGAGACACACAACGAATTTTTCACTCTCAAAAAAATTTTTTCCTCTCCAAATTTTCAAACG-TTC
66 AGAGACACACAACGAATTTTTCACTCTC-AAAAAATTTTTTCCTCTCCAAATTTTCAAACGTTTC
*
17943929 TAGTGATAGAAGAAGCCAAGGTTTGTTCATTAATCACTGCAGAAGCGCTACTACTTCGATCAATT
130 -AGTGATAGAAGAAGCCAAGGTTTGTACATTAATCACTGCAGAAGCGCTACTACTTCGATCAATT
*
17943994 TATTGTTGTATCCTGGGAGACAGTCGACCAATGTTTCTTCAAGCACCATAAGAGCGGTCGAATCT
194 TATTATTGTATCCTGGGAGACAGTCGACCAATGTTTCTTCAAGCACCATAAGAGCGGTCGAATCT
17944059 GTCTTAAGGAAACAGTG-AAACAAGCCTCAACATCTAGTAAAACTGGATTCCCTTTATTCAATTT
259 GTCTTAAGGAAACAGTGAAAACAAGCCTCAACATCTAGTAAAACTGGATTCCCTTTATTCAATTT
17944123 TTAGTTTTCCAAAATCTTATTTATTTTAATTGTTCTGATGTTTTAAATAAATATAAATATTTAAT
324 TTAGTTTTCCAAAATCTTATTTATTTTAATTGTTCTGATGTTTTAAATAAATATAAATATTTAAT
17944188 TTGTTTTATTTAAATATGGTGTTTTTATATAAATATAAATATTTGTTTATATAAATATTTTCTTA
389 TTGTTTTATTTAAATATGGTGTTTTTATATAAATATAAATATTTGTTTATATAAATATTTTCTTA
17944253 TATTAAATTGTATTATTTGTATATATAATTATTTATATTTATATATATTCGTTTGCTAACGTGTT
454 TATTAAATTGTATTATTTGTATATATAATTATTTATATTTATATATATTCGTTTGCTAACGTGTT
17944318 TTGTCCAACAATTAAATTGATACTTTATTTATTAGTGTGAAGTATCAAACTCAACAAAAAAATTT
519 TTGTCCAACAATTAAATTGATACTTTATTTATTAGTGTGAAGTATCAAACTCAACAAAAAAATTT
17944383 AATCACTTTGGTTCTCCTTAAGGTAAGTTCCTTGGAGTACTCATCAAAGTATTTCATTGTAAA
584 AATCACTTTGGTTCTCCTTAAGGTAAGTTCCTTGGAGTACTCATCAAAGTATTTCATTGTAAA
17944446 CAAAAT
1 CAAAAT
17944452 CTACACTATA
Statistics
Matches: 641, Mismatches: 9, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
646 469 0.73
647 172 0.27
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.39
Consensus pattern (646 bp):
CAAAATACCTCCATATTGAATGCCTATAAAAGCTTAAAGAATACTGCAGAATTCTTTAGAGAAAC
AGAGACACACAACGAATTTTTCACTCTCAAAAAATTTTTTCCTCTCCAAATTTTCAAACGTTTCA
GTGATAGAAGAAGCCAAGGTTTGTACATTAATCACTGCAGAAGCGCTACTACTTCGATCAATTTA
TTATTGTATCCTGGGAGACAGTCGACCAATGTTTCTTCAAGCACCATAAGAGCGGTCGAATCTGT
CTTAAGGAAACAGTGAAAACAAGCCTCAACATCTAGTAAAACTGGATTCCCTTTATTCAATTTTT
AGTTTTCCAAAATCTTATTTATTTTAATTGTTCTGATGTTTTAAATAAATATAAATATTTAATTT
GTTTTATTTAAATATGGTGTTTTTATATAAATATAAATATTTGTTTATATAAATATTTTCTTATA
TTAAATTGTATTATTTGTATATATAATTATTTATATTTATATATATTCGTTTGCTAACGTGTTTT
GTCCAACAATTAAATTGATACTTTATTTATTAGTGTGAAGTATCAAACTCAACAAAAAAATTTAA
TCACTTTGGTTCTCCTTAAGGTAAGTTCCTTGGAGTACTCATCAAAGTATTTCATTGTAAA
Found at i:17950126 original size:21 final size:19
Alignment explanation
Indices: 17950102--17950143 Score: 57
Period size: 21 Copynumber: 2.1 Consensus size: 19
17950092 CCTTTTATTG
*
17950102 TTATTTGCTATTATTTTGTTA
1 TTATTTGCT-GTATTTT-TTA
17950123 TTATTTGCTGTATTTTTTA
1 TTATTTGCTGTATTTTTTA
17950142 TT
1 TT
17950144 CATTCATCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 5 0.25
20 6 0.30
21 9 0.45
ACGTcount: A:0.17, C:0.05, G:0.10, T:0.69
Consensus pattern (19 bp):
TTATTTGCTGTATTTTTTA
Found at i:17954288 original size:22 final size:22
Alignment explanation
Indices: 17954261--17954303 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
17954251 TATGAATATG
17954261 TGTGTTTATGTGACATGTGACA
1 TGTGTTTATGTGACATGTGACA
17954283 TGTGTTTATGTGACATGTGAC
1 TGTGTTTATGTGACATGTGAC
17954304 CATTATGCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.21, C:0.09, G:0.28, T:0.42
Consensus pattern (22 bp):
TGTGTTTATGTGACATGTGACA
Found at i:17954400 original size:39 final size:39
Alignment explanation
Indices: 17954334--17954432 Score: 101
Period size: 39 Copynumber: 2.5 Consensus size: 39
17954324 AGGATGTTTT
* * *
17954334 TGAGTATTGTGACATAAGCTTAAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTAGGTGATTATA
* ** *
17954373 TGAGTATTGTGATATATGTTTGTATGTTAGGTTATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTAGGTGATTATA
* *
17954412 T-ATGTAATATGATATATGCTT
1 TGA-GTATTGTGATATATGCTT
17954433 GAAAGTGAAT
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
38 1 0.02
39 48 0.98
ACGTcount: A:0.30, C:0.03, G:0.20, T:0.46
Consensus pattern (39 bp):
TGAGTATTGTGATATATGCTTAAATGTTAGGTGATTATA
Found at i:17958841 original size:12 final size:12
Alignment explanation
Indices: 17958824--17958856 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
17958814 AGACAAATTT
17958824 TCTTTTCTTTTA
1 TCTTTTCTTTTA
17958836 TCTTTTC-TTTA
1 TCTTTTCTTTTA
17958847 -CTTTTCTTTT
1 TCTTTTCTTTT
17958857 TACTTTTAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 6 0.30
11 7 0.35
12 7 0.35
ACGTcount: A:0.06, C:0.18, G:0.00, T:0.76
Consensus pattern (12 bp):
TCTTTTCTTTTA
Found at i:17958858 original size:12 final size:11
Alignment explanation
Indices: 17958821--17958863 Score: 54
Period size: 12 Copynumber: 3.9 Consensus size: 11
17958811 ATAAGACAAA
17958821 TTTT-CTTTTC
1 TTTTACTTTTC
17958831 TTTTATCTTTTC
1 TTTTA-CTTTTC
17958843 -TTTACTTTTC
1 TTTTACTTTTC
17958853 TTTTTACTTTT
1 -TTTTACTTTT
17958864 AGAATATGGT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
10 10 0.34
11 4 0.14
12 15 0.52
ACGTcount: A:0.07, C:0.16, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTACTTTTC
Found at i:17958904 original size:28 final size:29
Alignment explanation
Indices: 17958860--17958915 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 29
17958850 TTCTTTTTAC
* *
17958860 TTTTAGAATATGGTTTTCTTTTATTTTCT
1 TTTTAGAATATGATTTTATTTTATTTTCT
17958889 TTTTAGAATA-GATTTTATTTTATTTTC
1 TTTTAGAATATGATTTTATTTTATTTTC
17958916 CTTCTTATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 15 0.60
29 10 0.40
ACGTcount: A:0.21, C:0.05, G:0.09, T:0.64
Consensus pattern (29 bp):
TTTTAGAATATGATTTTATTTTATTTTCT
Found at i:17964521 original size:32 final size:32
Alignment explanation
Indices: 17964471--17964563 Score: 96
Period size: 32 Copynumber: 2.9 Consensus size: 32
17964461 AGCCATAAAT
* * **
17964471 ACAGTAATATGATTGGCACAAAGCCATCATTA
1 ACAGTAACATGATCGGCACAAAGCCATCAGAA
** * *
17964503 GTAGTGACATGATCGGCACACAGCCATCAGAA
1 ACAGTAACATGATCGGCACAAAGCCATCAGAA
* *
17964535 ACGGTAATATGATCGGCACAAAGCCATCA
1 ACAGTAACATGATCGGCACAAAGCCATCA
17964564 ATAGCATCAT
Statistics
Matches: 47, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
32 47 1.00
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.19
Consensus pattern (32 bp):
ACAGTAACATGATCGGCACAAAGCCATCAGAA
Found at i:17964765 original size:24 final size:24
Alignment explanation
Indices: 17964738--17964819 Score: 85
Period size: 24 Copynumber: 3.4 Consensus size: 24
17964728 CCATGTTCAG
*
17964738 AATCAGTTATACAAATAACAGACA
1 AATCAGTCATACAAATAACAGACA
* * *
17964762 AATCAGTCATACCAATTATAGACA
1 AATCAGTCATACAAATAACAGACA
** *
17964786 AATCAGTCATTTAAA-ACACACACA
1 AATCAGTCATACAAATA-ACAGACA
17964810 AATCAGTCAT
1 AATCAGTCAT
17964820 TTACGTCACG
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.49, C:0.21, G:0.07, T:0.23
Consensus pattern (24 bp):
AATCAGTCATACAAATAACAGACA
Found at i:17964834 original size:24 final size:24
Alignment explanation
Indices: 17964755--17964848 Score: 84
Period size: 24 Copynumber: 3.9 Consensus size: 24
17964745 TATACAAATA
*
17964755 ACAGACAAATCAGTCA--TACCAATT
1 ACAGACAAATCAGTCATTTA-CAA-C
* *
17964779 ATAGACAAATCAGTCATTTAAAAC
1 ACAGACAAATCAGTCATTTACAAC
* **
17964803 ACACACAAATCAGTCATTTACGTC
1 ACAGACAAATCAGTCATTTACAAC
* *
17964827 ACGGACAAATCAATCATTTACA
1 ACAGACAAATCAGTCATTTACA
17964849 CTCGTAGGGA
Statistics
Matches: 56, Mismatches: 12, Indels: 4
0.78 0.17 0.06
Matches are distributed among these distances:
24 52 0.93
25 2 0.04
26 2 0.04
ACGTcount: A:0.45, C:0.23, G:0.09, T:0.23
Consensus pattern (24 bp):
ACAGACAAATCAGTCATTTACAAC
Found at i:17964939 original size:27 final size:27
Alignment explanation
Indices: 17964885--17965088 Score: 133
Period size: 27 Copynumber: 7.6 Consensus size: 27
17964875 CTCCAAAGGC
* * ***
17964885 ATTACGGTCATTTTACCTTACAAGGGT
1 ATTACGATCATTTTACCATATGGGGGT
* *
17964912 ATTTCGATC-TTTTAGCCCTATGGGGGT
1 ATTACGATCATTTTA-CCATATGGGGGT
* * * *
17964939 ATTACGGTCATTTTACCTTATAGGGGC
1 ATTACGATCATTTTACCATATGGGGGT
**
17964966 ATTACGATCATTTTACCATATGGGGAC
1 ATTACGATCATTTTACCATATGGGGGT
* * **
17964993 ATTACGGTCATTTTACCCTATAAGGGT
1 ATTACGATCATTTTACCATATGGGGGT
* * * ** *
17965020 -TTTCGGTCATTTTACCCTACAGAGGT
1 ATTACGATCATTTTACCATATGGGGGT
* * * *
17965046 ATTACGGTCATTTTACCTTATAGGGGC
1 ATTACGATCATTTTACCATATGGGGGT
*
17965073 ATTACGGTCATTTTAC
1 ATTACGATCATTTTAC
17965089 AAATATTAAG
Statistics
Matches: 144, Mismatches: 30, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
26 27 0.19
27 112 0.78
28 5 0.03
ACGTcount: A:0.23, C:0.19, G:0.20, T:0.38
Consensus pattern (27 bp):
ATTACGATCATTTTACCATATGGGGGT
Found at i:17964944 original size:54 final size:54
Alignment explanation
Indices: 17964885--17965088 Score: 241
Period size: 54 Copynumber: 3.8 Consensus size: 54
17964875 CTCCAAAGGC
*
17964885 ATTACGGTCATTTTACCTTACAAGGGTATTTCGATC-TTTTAGCCCTATGGGGGT
1 ATTACGGTCATTTTACCTTATAAGGGTATTTCGATCATTTTA-CCCTATGGGGGT
* * * * **
17964939 ATTACGGTCATTTTACCTTATAGGGGCATTACGATCATTTTACCATATGGGGAC
1 ATTACGGTCATTTTACCTTATAAGGGTATTTCGATCATTTTACCCTATGGGGGT
* * ** *
17964993 ATTACGGTCATTTTACCCTATAAGGGT-TTTCGGTCATTTTACCCTACAGAGGT
1 ATTACGGTCATTTTACCTTATAAGGGTATTTCGATCATTTTACCCTATGGGGGT
* * * *
17965046 ATTACGGTCATTTTACCTTATAGGGGCATTACGGTCATTTTAC
1 ATTACGGTCATTTTACCTTATAAGGGTATTTCGATCATTTTAC
17965089 AAATATTAAG
Statistics
Matches: 126, Mismatches: 22, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
53 42 0.33
54 79 0.63
55 5 0.04
ACGTcount: A:0.23, C:0.19, G:0.20, T:0.38
Consensus pattern (54 bp):
ATTACGGTCATTTTACCTTATAAGGGTATTTCGATCATTTTACCCTATGGGGGT
Found at i:17965056 original size:107 final size:108
Alignment explanation
Indices: 17964884--17965088 Score: 324
Period size: 107 Copynumber: 1.9 Consensus size: 108
17964874 CCTCCAAAGG
* ** *
17964884 CATTACGGTCATTTTACCTTACAAGGGTATTTCGATCTTTTAGCCCTATGGGGGTATTACGGTCA
1 CATTACGGTCATTTTACCCTACAAGGGTATTTCGATCTTTTAGCCCTACAGAGGTATTACGGTCA
17964949 TTTTACCTTATAGGGGCATTACGATCATTTTACCATATGGGGA
66 TTTTACCTTATAGGGGCATTACGATCATTTTACCATATGGGGA
* *
17964992 CATTACGGTCATTTTACCCTATAAGGGT-TTTCGGTCATTTTA-CCCTACAGAGGTATTACGGTC
1 CATTACGGTCATTTTACCCTACAAGGGTATTTCGATC-TTTTAGCCCTACAGAGGTATTACGGTC
*
17965055 ATTTTACCTTATAGGGGCATTACGGTCATTTTAC
65 ATTTTACCTTATAGGGGCATTACGATCATTTTAC
17965089 AAATATTAAG
Statistics
Matches: 89, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
107 58 0.65
108 31 0.35
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.38
Consensus pattern (108 bp):
CATTACGGTCATTTTACCCTACAAGGGTATTTCGATCTTTTAGCCCTACAGAGGTATTACGGTCA
TTTTACCTTATAGGGGCATTACGATCATTTTACCATATGGGGA
Found at i:17965057 original size:80 final size:80
Alignment explanation
Indices: 17964865--17965088 Score: 247
Period size: 80 Copynumber: 2.8 Consensus size: 80
17964855 GGGAAAAATA
* * ** * * *
17964865 GTCA-TTTACCCTCCAAAGGCATTACGGTCATTTTACCTTACAAGGGTATTTCGATC-TTTTAGC
1 GTCATTTTACCCTACAGAGGCATTACGGTCATTTTACCTTA-TGGGGCATTACGGTCATTTTA-C
**
17964928 CCTATGGGGGTATTACG
64 CCTATAAGGGTATTACG
* * * * *
17964945 GTCATTTTACCTTATAGGGGCATTACGATCATTTTACCATATGGGGACATTACGGTCATTTTACC
1 GTCATTTTACCCTACAGAGGCATTACGGTCATTTTACCTTATGGGG-CATTACGGTCATTTTACC
*
17965010 CTATAAGGGT-TTTCG
65 CTATAAGGGTATTACG
*
17965025 GTCATTTTACCCTACAGAGGTATTACGGTCATTTTACCTTATAGGGGCATTACGGTCATTTTAC
1 GTCATTTTACCCTACAGAGGCATTACGGTCATTTTACCTTAT-GGGGCATTACGGTCATTTTAC
17965089 AAATATTAAG
Statistics
Matches: 119, Mismatches: 21, Indels: 8
0.80 0.14 0.05
Matches are distributed among these distances:
80 64 0.54
81 50 0.42
82 5 0.04
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.37
Consensus pattern (80 bp):
GTCATTTTACCCTACAGAGGCATTACGGTCATTTTACCTTATGGGGCATTACGGTCATTTTACCC
TATAAGGGTATTACG
Found at i:17965106 original size:80 final size:80
Alignment explanation
Indices: 17964943--17965106 Score: 199
Period size: 80 Copynumber: 2.0 Consensus size: 80
17964933 GGGGGTATTA
* * *
17964943 CGGTCATTTTACCTTATAGGGGCATTACGATCATTTTACCATATGGGGACATTACGGTCATTTTA
1 CGGTCATTTTACCCTACAGAGGCATTACGATCATTTTACCATATGGGGACATTACGGTCATTTTA
** *
17965008 CCCTATAAGGGTTTT
66 CAATATAAGGGTTCT
* * *
17965023 CGGTCATTTTACCCTACAGAGGTATTACGGTCATTTTACCTTATAGGGG-CATTACGGTCATTTT
1 CGGTCATTTTACCCTACAGAGGCATTACGATCATTTTACCATAT-GGGGACATTACGGTCATTTT
17965087 ACAAATATTAA-GG-TCT
65 AC-AATA-TAAGGGTTCT
17965103 CGGT
1 CGGT
17965107 ACTTATTACG
Statistics
Matches: 72, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
80 61 0.85
81 8 0.11
82 3 0.04
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (80 bp):
CGGTCATTTTACCCTACAGAGGCATTACGATCATTTTACCATATGGGGACATTACGGTCATTTTA
CAATATAAGGGTTCT
Found at i:17966169 original size:17 final size:17
Alignment explanation
Indices: 17966147--17966181 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
17966137 TGATATTTGC
*
17966147 ATTTTTTTTCTATTTGTT
1 ATTTTTTAT-TATTTGTT
17966165 ATTTTTTATTATTTGTT
1 ATTTTTTATTATTTGTT
17966182 CTACATACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.14, C:0.03, G:0.06, T:0.77
Consensus pattern (17 bp):
ATTTTTTATTATTTGTT
Found at i:17967020 original size:24 final size:24
Alignment explanation
Indices: 17966988--17967041 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
17966978 GTACATATAT
*
17966988 ATATATTTTTAAATGAATATTTTC
1 ATATTTTTTTAAATGAATATTTTC
* *
17967012 CTATTTTTTTTAATGAATATTTTC
1 ATATTTTTTTAAATGAATATTTTC
17967036 ATATTT
1 ATATTT
17967042 ATATGTATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.59
Consensus pattern (24 bp):
ATATTTTTTTAAATGAATATTTTC
Done.