Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032253.1 Gossypioides kirkii chromosome KI_11
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: 55708359
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 50 of 182
Found at i:17142604 original size:18 final size:17
Alignment explanation
Indices: 17142569--17142608 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
17142559 TTATCTTGTG
*
17142569 AAATTTAAATTTAAATT
1 AAATTTAAATTGAAATT
*
17142586 AGAATTTAAATTGATATT
1 A-AATTTAAATTGAAATT
17142604 AAATT
1 AAATT
17142609 AAAAAACCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (17 bp):
AAATTTAAATTGAAATT
Found at i:17144712 original size:58 final size:58
Alignment explanation
Indices: 17144619--17144760 Score: 178
Period size: 58 Copynumber: 2.4 Consensus size: 58
17144609 CTAAACTATC
* ** * *
17144619 CAAAAATTCCATTTTTGACCCCAAAACTTCCAAAAATTACATTTTTACCCTTAAAATTT
1 CAAAAATTACATTTTT-ACCCCTGAACTTCCAAAAATTACATTTTGACCCTGAAAATTT
** * *
17144678 TGAAAATTACATTTTTACCCCTGAACTTCCAAAAATTCCATTTTGACCCTGAAAGTTT
1 CAAAAATTACATTTTTACCCCTGAACTTCCAAAAATTACATTTTGACCCTGAAAATTT
17144736 CAAAAATTACCA-TTTTACCCCTGAA
1 CAAAAATTA-CATTTTTACCCCTGAA
17144761 GTTTAAAAAC
Statistics
Matches: 71, Mismatches: 11, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
58 56 0.79
59 15 0.21
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.35
Consensus pattern (58 bp):
CAAAAATTACATTTTTACCCCTGAACTTCCAAAAATTACATTTTGACCCTGAAAATTT
Found at i:17144758 original size:30 final size:31
Alignment explanation
Indices: 17144619--17144760 Score: 131
Period size: 29 Copynumber: 4.8 Consensus size: 31
17144609 CTAAACTATC
* *
17144619 CAAAAATT-CCATTTTTGACCCC-AAAACTTC
1 CAAAAATTACCATTTTT-ACCCCTGAAACTTT
* *
17144649 CAAAAATTA-CATTTTTA-CCCTTAAAATTT
1 CAAAAATTACCATTTTTACCCCTGAAACTTT
** *
17144678 TGAAAATTA-CATTTTTACCCCTG-AACTTC
1 CAAAAATTACCATTTTTACCCCTGAAACTTT
* *
17144707 CAAAAATT-CCATTTTGA-CCCTGAAAGTTT
1 CAAAAATTACCATTTTTACCCCTGAAACTTT
17144736 CAAAAATTACCA-TTTTACCCCTGAA
1 CAAAAATTACCATTTTTACCCCTGAA
17144761 GTTTAAAAAC
Statistics
Matches: 91, Mismatches: 14, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
28 8 0.09
29 54 0.59
30 29 0.32
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.35
Consensus pattern (31 bp):
CAAAAATTACCATTTTTACCCCTGAAACTTT
Found at i:17146082 original size:51 final size:51
Alignment explanation
Indices: 17146003--17146182 Score: 227
Period size: 51 Copynumber: 3.5 Consensus size: 51
17145993 GAGTCTGATA
*
17146003 ACTAAGTGTTATCGTGAGTAAATGAATCCTTTACGGATTAAAGGTTCGATG
1 ACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGTTCGATG
* ** * * *
17146054 ACTAAGTGTCATCGTAAGTAAACAAATCCTCTACAGATTAAAGGTCCGATG
1 ACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGTTCGATG
* * * *
17146105 ACTAAGTGTCATCGTGAGTAAATGAATCCATGACGAATTAAAGG-TCTGAAG
1 ACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGTTC-GATG
* *
17146156 ACTCAGTGTCATCGTGAGTATATGAAT
1 ACTAAGTGTCATCGTGAGTAAATGAAT
17146183 TTCTATACGG
Statistics
Matches: 109, Mismatches: 19, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
50 1 0.01
51 108 0.99
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (51 bp):
ACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGTTCGATG
Found at i:17151779 original size:1 final size:1
Alignment explanation
Indices: 17151775--17151850 Score: 53
Period size: 1 Copynumber: 76.0 Consensus size: 1
17151765 TCTTTTTCTC
* * * * ** * * * *
17151775 TTTTTTGTTTTTCTTTTTTTTTTCTTTTTTTATTTTGCTTTTTCTTTTTTTTTCTTTCTTTTCTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
17151840 TTTTCTTTTTT
1 TTTTTTTTTTT
17151851 CATTGAATCC
Statistics
Matches: 54, Mismatches: 21, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 54 1.00
ACGTcount: A:0.01, C:0.11, G:0.03, T:0.86
Consensus pattern (1 bp):
T
Found at i:17151796 original size:26 final size:24
Alignment explanation
Indices: 17151767--17151848 Score: 85
Period size: 25 Copynumber: 3.3 Consensus size: 24
17151757 TCGACCTCTC
* *
17151767 TTTTTCTCTTTTTTGTTTTTCTTT
1 TTTTTTTCTTTTTTTTTTTTCTTT
*
17151791 TTTTTTTCTTTTTTTATTTTGCTTT
1 TTTTTTTCTTTTTTT-TTTTTCTTT
*
17151816 TTCTTTTT-TTTTCTTTCTTTTCTTT
1 TT-TTTTTCTTTT-TTTTTTTTCTTT
17151841 TTTCTTTT
1 TTT-TTTT
17151849 TTCATTGAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
24 14 0.29
25 27 0.55
26 8 0.16
ACGTcount: A:0.01, C:0.12, G:0.02, T:0.84
Consensus pattern (24 bp):
TTTTTTTCTTTTTTTTTTTTCTTT
Found at i:17151823 original size:30 final size:31
Alignment explanation
Indices: 17151769--17151841 Score: 98
Period size: 30 Copynumber: 2.4 Consensus size: 31
17151759 GACCTCTCTT
*
17151769 TTTCTCTT-TTTTGTTTTTCTTTTTTTTTTC
1 TTTCTTTTATTTTGTTTTTCTTTTTTTTTTC
17151799 TTT-TTTTATTTTGCTTTTTC-TTTTTTTTTC
1 TTTCTTTTATTTTG-TTTTTCTTTTTTTTTTC
*
17151829 TTTCTTTTCTTTT
1 TTTCTTTTATTTT
17151842 TTCTTTTTTC
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
29 3 0.08
30 21 0.55
31 14 0.37
ACGTcount: A:0.01, C:0.12, G:0.03, T:0.84
Consensus pattern (31 bp):
TTTCTTTTATTTTGTTTTTCTTTTTTTTTTC
Found at i:17151849 original size:26 final size:25
Alignment explanation
Indices: 17151765--17151850 Score: 86
Period size: 26 Copynumber: 3.3 Consensus size: 25
17151755 CCTCGACCTC
*
17151765 TCTTTTTCTCTTTTTTGTTTTTCTTTTT
1 TCTTTTT-T-TTTTTT-ATTTTCTTTTT
*
17151793 T-TTTTCTTTTTTTATTTTGC-TTTT
1 TCTTTTTTTTTTTTATTTT-CTTTTT
*
17151817 TCTTTTTTTTTCTTTCTTTTCTTTTT
1 TCTTTTTTTTT-TTTATTTTCTTTTT
17151843 TCTTTTTT
1 TCTTTTTT
17151851 CATTGAATCC
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
24 9 0.18
25 16 0.32
26 20 0.40
27 4 0.08
28 1 0.02
ACGTcount: A:0.01, C:0.13, G:0.02, T:0.84
Consensus pattern (25 bp):
TCTTTTTTTTTTTTATTTTCTTTTT
Found at i:17153001 original size:51 final size:51
Alignment explanation
Indices: 17152917--17153109 Score: 253
Period size: 51 Copynumber: 3.8 Consensus size: 51
17152907 GCTATAAACG
*
17152917 AAAGAGTCCGATGACTGAGTGTCATCGTGAGTAAATGAATCCATTACGGATT
1 AAAG-GTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCATTACGGATT
* * * *
17152969 AAAGGTTCGATGACTAAGTGTCATCGTAAGTAAACGAATCC-TCTGCGGATT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCAT-TACGGATT
* * * * *
17153020 AAAGGTCCGATGACTAAGTGTTATCGTGAGGAAATGAATTCATGACGAATT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCATTACGGATT
* *
17153071 AAAGGTCCGATGACTCAGTGTCATCGTGAGTATATGAAT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAAT
17153110 TTTTATACGG
Statistics
Matches: 121, Mismatches: 18, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
50 1 0.01
51 115 0.95
52 5 0.04
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (51 bp):
AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCATTACGGATT
Found at i:17153879 original size:21 final size:21
Alignment explanation
Indices: 17153853--17153903 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
17153843 GGAGTTTTTA
*
17153853 GTATCGGTAGATA-CATGACTT
1 GTATCGGTAGAAATCAT-ACTT
*
17153874 GTATCGGTAGAAATTATACTT
1 GTATCGGTAGAAATCATACTT
17153895 GTATCGGTA
1 GTATCGGTA
17153904 TAACTAGTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 25 0.93
22 2 0.07
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.35
Consensus pattern (21 bp):
GTATCGGTAGAAATCATACTT
Found at i:17154142 original size:14 final size:14
Alignment explanation
Indices: 17154123--17154149 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
17154113 ATATGTGTAA
17154123 AATATGAATAGTAT
1 AATATGAATAGTAT
17154137 AATATGAATAGTA
1 AATATGAATAGTA
17154150 AACATCAAAA
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:0.52, C:0.00, G:0.15, T:0.33
Consensus pattern (14 bp):
AATATGAATAGTAT
Found at i:17159326 original size:28 final size:28
Alignment explanation
Indices: 17159286--17159369 Score: 123
Period size: 28 Copynumber: 3.0 Consensus size: 28
17159276 GTAAAAGTTT
*
17159286 AGGGTTAAAATGGTAATTTTTGGATGTA
1 AGGGGTAAAATGGTAATTTTTGGATGTA
* *
17159314 AGGGGTAAAATGGTAATTTTTTGATGTT
1 AGGGGTAAAATGGTAATTTTTGGATGTA
*
17159342 CGGGGTCAAAATGGTAATTTTTGGATGT
1 AGGGGT-AAAATGGTAATTTTTGGATGT
17159370 TCGGGGGTTA
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
28 30 0.60
29 20 0.40
ACGTcount: A:0.29, C:0.02, G:0.30, T:0.39
Consensus pattern (28 bp):
AGGGGTAAAATGGTAATTTTTGGATGTA
Found at i:17159449 original size:27 final size:29
Alignment explanation
Indices: 17159234--17159515 Score: 123
Period size: 30 Copynumber: 9.6 Consensus size: 29
17159224 TTTGAGGTAG
* **
17159234 AAAATGTAACTTTTAGAAA-TTTA-AGGGC
1 AAAATGTAA-TTTTTGAAAGTTTAGAGGTT
*
17159262 AAAATGGTAATTTTGTAAAAGTTTAG-GGTT
1 AAAAT-GTAATTTT-TGAAAGTTTAGAGGTT
* * * *
17159292 AAAATGGTAATTTTTGGATG-TAAG-GGGT
1 AAAAT-GTAATTTTTGAAAGTTTAGAGGTT
* * * *
17159320 AAAATGGTAATTTTTTG-ATG-TTCGGGGTC
1 AAAAT-GTAA-TTTTTGAAAGTTTAGAGGTT
* * ** *
17159349 AAAATGGTAATTTTTGGATGTTCGGGGGTT
1 AAAAT-GTAATTTTTGAAAGTTTAGAGGTT
** * *
17159379 AAAATACAATTTTGGAATAGTTTGAGGGGTT
1 AAAATGTAATTTTTGAA-AGTTT-AGAGGTT
*
17159410 AAAATGGTAATTTTTGAATGTTTA-AGG-T
1 AAAAT-GTAATTTTTGAAAGTTTAGAGGTT
* *
17159438 AAAATGTAATTTTGGAAAAGTTTAGGGGTT
1 AAAATGTAATTTTTG-AAAGTTTAGAGGTT
* * * *
17159468 AAAATGTGATTTTTGAGAAGTTTGGGGGTC
1 AAAATGTAATTTTTGA-AAGTTTAGAGGTT
*
17159498 AAAATATAATTTTATGAA
1 AAAATGTAATTTT-TGAA
17159516 TTTTGGGGGT
Statistics
Matches: 201, Mismatches: 37, Indels: 30
0.75 0.14 0.11
Matches are distributed among these distances:
27 9 0.04
28 49 0.24
29 44 0.22
30 72 0.36
31 18 0.09
32 9 0.04
ACGTcount: A:0.34, C:0.02, G:0.26, T:0.38
Consensus pattern (29 bp):
AAAATGTAATTTTTGAAAGTTTAGAGGTT
Found at i:17159474 original size:30 final size:30
Alignment explanation
Indices: 17159373--17159510 Score: 129
Period size: 30 Copynumber: 4.6 Consensus size: 30
17159363 TGGATGTTCG
** *
17159373 GGGGTTAAAATACAATTTTGGAATAGTTTGA
1 GGGGTTAAAATGTAATTTTGGAAAAGTTT-A
* *
17159404 GGGGTTAAAATGGTAATTTTTG-AATGTTTA
1 GGGGTTAAAAT-GTAATTTTGGAAAAGTTTA
*
17159434 -AGG-TAAAATGTAATTTTGGAAAAGTTTA
1 GGGGTTAAAATGTAATTTTGGAAAAGTTTA
* * * *
17159462 GGGGTTAAAATGTGATTTTTGAGAAGTTTG
1 GGGGTTAAAATGTAATTTTGGAAAAGTTTA
* *
17159492 GGGGTCAAAATATAATTTT
1 GGGGTTAAAATGTAATTTT
17159511 ATGAATTTTG
Statistics
Matches: 87, Mismatches: 16, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
27 9 0.10
28 13 0.15
29 4 0.05
30 38 0.44
31 16 0.18
32 7 0.08
ACGTcount: A:0.34, C:0.01, G:0.26, T:0.38
Consensus pattern (30 bp):
GGGGTTAAAATGTAATTTTGGAAAAGTTTA
Found at i:17159480 original size:118 final size:116
Alignment explanation
Indices: 17159270--17159510 Score: 267
Period size: 118 Copynumber: 2.1 Consensus size: 116
17159260 GCAAAATGGT
* *
17159270 AATTTTGTAAAAGTTTAGGGTTAAAATGGTAATTTTTGGATGTAAGGGGTAAAATGGTAATTTTT
1 AATTTTGGAAAAGTTTAGGGTTAAAATGGTAATTTTTGAATGTAA-GGGTAAAATGGTAATTTTT
* * * * *
17159335 TGATGTTCGGGGTCAAAATGGTAATTTTTG-GATGTTCGGGGGTTAAAATAC
65 GGAAGTTAGGGGTCAAAATGGTAATTTTTGAGAAGTTCGGGGGTCAAAATAC
*
17159386 AATTTTGGAATAGTTTGAGGGGTTAAAATGGTAATTTTTGAATGTTTAA-GGTAAAAT-GTAA-T
1 AATTTTGGAAAAGTTT-A-GGGTTAAAATGGTAATTTTTGAATG--TAAGGGTAAAATGGTAATT
* * * *
17159448 TTTGGAAAAGTTTAGGGGTTAAAAT-GTGATTTTTGAGAAGTTTGGGGGTCAAAATAT
62 TTTGG--AAG-TTAGGGGTCAAAATGGTAATTTTTGAGAAGTTCGGGGGTCAAAATAC
17159505 AATTTT
1 AATTTT
17159511 ATGAATTTTG
Statistics
Matches: 105, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
116 19 0.18
117 5 0.05
118 43 0.41
119 35 0.33
120 3 0.03
ACGTcount: A:0.32, C:0.02, G:0.27, T:0.39
Consensus pattern (116 bp):
AATTTTGGAAAAGTTTAGGGTTAAAATGGTAATTTTTGAATGTAAGGGTAAAATGGTAATTTTTG
GAAGTTAGGGGTCAAAATGGTAATTTTTGAGAAGTTCGGGGGTCAAAATAC
Found at i:17166352 original size:17 final size:17
Alignment explanation
Indices: 17166325--17166410 Score: 118
Period size: 17 Copynumber: 5.0 Consensus size: 17
17166315 AATTTTGAAT
*
17166325 TTTTAAAATTTTAATTTA
1 TTTT-AAATTTAAATTTA
17166343 TTTTAAATTTAAATTTA
1 TTTTAAATTTAAATTTA
* *
17166360 TTTTAAAATTAAACTTA
1 TTTTAAATTTAAATTTA
*
17166377 TTTTAAGTTTAAATTTA
1 TTTTAAATTTAAATTTA
*
17166394 TTTTAAATTAAAATTTA
1 TTTTAAATTTAAATTTA
17166411 ATCAAAAATT
Statistics
Matches: 60, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
17 56 0.93
18 4 0.07
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (17 bp):
TTTTAAATTTAAATTTA
Found at i:17166353 original size:6 final size:6
Alignment explanation
Indices: 17166330--17166411 Score: 55
Period size: 6 Copynumber: 14.3 Consensus size: 6
17166320 TGAATTTTTA
* * * * *
17166330 AAATTT TAATTT -ATTTT AAATTT AAATTT -ATTTT AAAATT AAACTT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT
* * * *
17166376 -ATTTT AAGTTT AAATTT -ATTTT AAATTA AAATTT AA
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AA
17166412 TCAAAAATTG
Statistics
Matches: 57, Mismatches: 15, Indels: 8
0.71 0.19 0.10
Matches are distributed among these distances:
5 15 0.26
6 42 0.74
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (6 bp):
AAATTT
Found at i:17168409 original size:59 final size:59
Alignment explanation
Indices: 17168315--17168565 Score: 167
Period size: 59 Copynumber: 4.3 Consensus size: 59
17168305 CCTTGAATTA
* * * * * *
17168315 TCCAAAAATCATATTTTGACCCTCGAACTTCCAAAAATCATATTTTGACCCCTAAACTT
1 TCCAAAAATTACATTTTAACCCTCAAACTTCCAAAAATCACATTTTGACCCCCAAACTT
* * *
17168374 TTCAAAAATTACATTTTAACCCT-AAACTTTCCAAAAATTACATTTTTACCCCCAAACTT
1 TCCAAAAATTACATTTTAACCCTCAAAC-TTCCAAAAATCACATTTTGACCCCCAAACTT
* * * * ** * *
17168433 TCCAAAAATTCCATTTTTTA-TCTCGAACTTTTAAAAAATTACCA-TTT-A-CCCCGAACTT
1 TCCAAAAATTACA-TTTTAACCCTCAAAC-TTCCAAAAATCA-CATTTTGACCCCCAAACTT
* * * * * * *
17168491 T-CAAAAATTCCATTTTTAACCCTAAAATTTCTAAAAGTTACCATTTT-ACCCCCAAA-TG
1 TCCAAAAATTACA-TTTTAACCCTCAAACTTCCAAAAATCA-CATTTTGACCCCCAAACTT
*
17168549 TCCAAAAATTCCATTTT
1 TCCAAAAATTACATTTT
17168566 TGACCTCGAA
Statistics
Matches: 157, Mismatches: 27, Indels: 17
0.78 0.13 0.08
Matches are distributed among these distances:
57 29 0.18
58 27 0.17
59 77 0.49
60 22 0.14
61 2 0.01
ACGTcount: A:0.37, C:0.25, G:0.03, T:0.35
Consensus pattern (59 bp):
TCCAAAAATTACATTTTAACCCTCAAACTTCCAAAAATCACATTTTGACCCCCAAACTT
Found at i:17168450 original size:30 final size:30
Alignment explanation
Indices: 17168343--17168625 Score: 178
Period size: 30 Copynumber: 9.6 Consensus size: 30
17168333 ACCCTCGAAC
*
17168343 TTCCAAAAA-T-CATATTTTGACCCCTAAACT
1 TTCCAAAAATTCCAT-TTTT-ACCCCCAAACT
* * * *
17168373 TTTCAAAAATTACA-TTTTAACCCTAAACT
1 TTCCAAAAATTCCATTTTTACCCCCAAACT
*
17168402 TTCCAAAAATTACATTTTTACCCCCAAACT
1 TTCCAAAAATTCCATTTTTACCCCCAAACT
* * *
17168432 TTCCAAAAATTCCATTTTTTA-TCTCGAACT
1 TTCCAAAAATTCCA-TTTTTACCCCCAAACT
** *
17168462 TTTAAAAAATTACCA--TTTA-CCCCGAACT
1 TTCCAAAAATT-CCATTTTTACCCCCAAACT
* * *
17168490 TT-CAAAAATTCCATTTTTAACCCTAAAAT
1 TTCCAAAAATTCCATTTTTACCCCCAAACT
* *
17168519 TTCTAAAAGTTACCA-TTTTACCCCCAAA-T
1 TTCCAAAAATT-CCATTTTTACCCCCAAACT
* * * *
17168548 GTCCAAAAATTCCATTTTTGA-CCTCGAATT
1 TTCCAAAAATTCCATTTTT-ACCCCCAAACT
* * *
17168578 TTCCAAAAGTTACCA-TTTTACCCTCGAA-T
1 TTCCAAAAATT-CCATTTTTACCCCCAAACT
* *
17168607 GTCCAAAAATTGCATTTTT
1 TTCCAAAAATTCCATTTTT
17168626 GACCTTGAAC
Statistics
Matches: 206, Mismatches: 31, Indels: 33
0.76 0.11 0.12
Matches are distributed among these distances:
26 3 0.01
27 7 0.03
28 22 0.11
29 64 0.31
30 92 0.45
31 16 0.08
32 2 0.01
ACGTcount: A:0.35, C:0.24, G:0.04, T:0.36
Consensus pattern (30 bp):
TTCCAAAAATTCCATTTTTACCCCCAAACT
Found at i:17168566 original size:59 final size:59
Alignment explanation
Indices: 17168376--17168644 Score: 253
Period size: 59 Copynumber: 4.6 Consensus size: 59
17168366 CTAAACTTTT
* *
17168376 CAAAAATTACA-TTTTAACC-CTAAACTTTCCAAAAATTA-CATTTTTACCCCCAAACTTTC
1 CAAAAATTCCATTTTTAACCTC-AAACTTTCCAAAAATTACCA-TTTTACCCCCAAA-TGTC
* * * ** * * *
17168435 CAAAAATTCCATTTTTTATCTCGAACTTTTAAAAAATTACCA-TTTACCCCGAACT-TT
1 CAAAAATTCCATTTTTAACCTCAAACTTTCCAAAAATTACCATTTTACCCCCAAATGTC
* * *
17168492 CAAAAATTCCATTTTTAACC-CTAAAATTTCTAAAAGTTACCATTTTACCCCCAAATGTC
1 CAAAAATTCCATTTTTAACCTC-AAACTTTCCAAAAATTACCATTTTACCCCCAAATGTC
* * * * * *
17168551 CAAAAATTCCATTTTTGACCTCGAATTTTCCAAAAGTTACCATTTTACCCTCGAATGTC
1 CAAAAATTCCATTTTTAACCTCAAACTTTCCAAAAATTACCATTTTACCCCCAAATGTC
* * **
17168610 CAAAAATTGCATTTTTGACCTTGAACTTTCCAAAA
1 CAAAAATTCCATTTTTAACCTCAAACTTTCCAAAA
17168645 TTATGTTTTT
Statistics
Matches: 175, Mismatches: 28, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
56 1 0.01
57 34 0.19
58 12 0.07
59 104 0.59
60 21 0.12
61 3 0.02
ACGTcount: A:0.36, C:0.25, G:0.04, T:0.35
Consensus pattern (59 bp):
CAAAAATTCCATTTTTAACCTCAAACTTTCCAAAAATTACCATTTTACCCCCAAATGTC
Found at i:17168643 original size:30 final size:29
Alignment explanation
Indices: 17168315--17168644 Score: 205
Period size: 29 Copynumber: 11.2 Consensus size: 29
17168305 CCTTGAATTA
17168315 TCCAAAAA-T-CATATTTTGACCCTCGAAC-T
1 TCCAAAAATTCCAT-TTTT-ACCC-CGAACTT
*
17168344 TCCAAAAA-T-CATATTTTGACCCCTAAACTT
1 TCCAAAAATTCCAT-TTTT-ACCCC-GAACTT
* * * **
17168374 TTCAAAAATTACATTTTAACCCTAAACTT
1 TCCAAAAATTCCATTTTTACCCCGAACTT
* *
17168403 TCCAAAAATTACATTTTTACCCCCAAACTT
1 TCCAAAAATTCCATTTTTA-CCCCGAACTT
* *
17168433 TCCAAAAATTCCATTTTTTATCTCGAACTT
1 TCCAAAAATTCCA-TTTTTACCCCGAACTT
**
17168463 TTAAAAAATTACCA--TTTACCCCGAACTT
1 TCCAAAAATT-CCATTTTTACCCCGAACTT
** *
17168491 T-CAAAAATTCCATTTTTAACCCTAAAATT
1 TCCAAAAATTCCATTTTT-ACCCCGAACTT
* * * * *
17168520 TCTAAAAGTTACCA-TTTTACCCCCAAATG
1 TCCAAAAATT-CCATTTTTACCCCGAACTT
* *
17168549 TCCAAAAATTCCATTTTTGACCTCGAATTT
1 TCCAAAAATTCCATTTTT-ACCCCGAACTT
* *
17168579 TCCAAAAGTTACCA-TTTTACCCTCGAA-TG
1 TCCAAAAATT-CCATTTTTACCC-CGAACTT
* **
17168608 TCCAAAAATTGCATTTTTGACCTTGAACTT
1 TCCAAAAATTCCATTTTT-ACCCCGAACTT
17168638 TCCAAAA
1 TCCAAAA
17168645 TTATGTTTTT
Statistics
Matches: 244, Mismatches: 38, Indels: 37
0.76 0.12 0.12
Matches are distributed among these distances:
26 3 0.01
27 7 0.03
28 22 0.09
29 97 0.40
30 93 0.38
31 19 0.08
32 3 0.01
ACGTcount: A:0.35, C:0.25, G:0.05, T:0.35
Consensus pattern (29 bp):
TCCAAAAATTCCATTTTTACCCCGAACTT
Found at i:17168684 original size:58 final size:59
Alignment explanation
Indices: 17168518--17168716 Score: 159
Period size: 59 Copynumber: 3.4 Consensus size: 59
17168508 AACCCTAAAA
* * * ** ** * * *
17168518 TTTCTAAAAGTTACCATTTTACCCCCAAATGTCCAAAAATTCCATTTTTGACCTCGAAT
1 TTTCCAAAAGTTACCATTTTACCCTCGAACATAAAAAAATTACAGTTTTGACCTCGAAC
** ** * * *
17168577 TTTCCAAAAGTTACCATTTTACCCTCGAATGTCCAAAAATTGCATTTTTGACCTTGAAC
1 TTTCCAAAAGTTACCATTTTACCCTCGAACATAAAAAAATTACAGTTTTGACCTCGAAC
*** * * *
17168636 TTTCCAAAA-TTATGTTTTTACCCTCGAACATAAAAAAATTACCGTTTTGCCCTCGAAG
1 TTTCCAAAAGTTACCATTTTACCCTCGAACATAAAAAAATTACAGTTTTGACCTCGAAC
* *
17168694 TGTCTAAAA-TTACCATTTTACCC
1 TTTCCAAAAGTTACCATTTTACCC
17168717 CTGGGCATCC
Statistics
Matches: 116, Mismatches: 24, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
58 54 0.47
59 62 0.53
ACGTcount: A:0.32, C:0.24, G:0.09, T:0.36
Consensus pattern (59 bp):
TTTCCAAAAGTTACCATTTTACCCTCGAACATAAAAAAATTACAGTTTTGACCTCGAAC
Found at i:17174898 original size:3 final size:3
Alignment explanation
Indices: 17174890--17174929 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
17174880 ATATCGAGGT
17174890 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
17174930 AAGGATGACT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:17177413 original size:209 final size:209
Alignment explanation
Indices: 17177053--17177723 Score: 1006
Period size: 209 Copynumber: 3.2 Consensus size: 209
17177043 ATAATGAGCT
* * *
17177053 GGTCATCTTCCTGATGAGATACTGAGAAGGAGACCAAATCAATGAAGTCAAGCTCAAAGTAAGCA
1 GGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAATGAAGCCAAGCTCAAAGTGAGCA
* * * * * *
17177118 AATCTTTGAACCCCAGCTTCTTAATGAGATACTGAGAAGCAGATCGAAGTAATAAAATTGTTAGC
66 AATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGC
* *
17177183 TTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCTTGATGAGATAAAAAGAAGCGGATT
131 TTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCTTGATGAGATACAGAGAAGCGGATT
17177248 GAAACAAGTGATGC
196 GAAACAAGTGATGC
*
17177262 GGTCATCTTCCTAATGAGATACTGAGAAGAAGACCAAATCAATGAAGCCAAGCTCAAAGTGAGCA
1 GGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAATGAAGCCAAGCTCAAAGTGAGCA
*
17177327 AATCTTCGAACCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGC
66 AATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGC
*
17177392 TTCCTGATGAGATATTGAGAAGTGGACCAAATTCGTCTT-TCTGATGAGATACAGAGAAGCGGAT
131 TTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCT-TGATGAGATACAGAGAAGCGGAT
17177456 TG--ACAAGTGATGC
195 TGAAACAAGTGATGC
*
17177469 GGTCATCTTCCTGATGAGATACTGAGAAGAAGATCAAATCAATGAAGCCAAGCTCAAAGTGAGCA
1 GGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAATGAAGCCAAGCTCAAAGTGAGCA
* *
17177534 AATCTTCGAACCCCAGCTTCCTGATGAGATATTGAGAAGCAGGTCGAAGCAATAAAATGGTTACC
66 AATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGC
* ** ** * ** * * * *
17177599 TTCCTAATGAGATACAAAGAAGTAAACCAGACCCGTCTTCCTGATGAGACACAGAGAAGTGGATC
131 TTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCTTGATGAGATACAGAGAAGCGGATT
* * *
17177664 AAAATAAGTGATGT
196 GAAACAAGTGATGC
* *
17177678 GGTCATCTTCGTGATGAGATACTGAGAAGTAGACCAAATCAATGAA
1 GGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAATGAA
17177724 ACCACACTAA
Statistics
Matches: 420, Mismatches: 38, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
207 187 0.45
208 1 0.00
209 232 0.55
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.23
Consensus pattern (209 bp):
GGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAATGAAGCCAAGCTCAAAGTGAGCA
AATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGC
TTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCTTGATGAGATACAGAGAAGCGGATT
GAAACAAGTGATGC
Found at i:17178049 original size:27 final size:27
Alignment explanation
Indices: 17178017--17178077 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
17178007 CTGTTGAAGC
* *
17178017 CCAATTTGTCCGGGCCCAATTTTGAAA
1 CCAATTTGACCGAGCCCAATTTTGAAA
* *
17178044 CCAATTTGACTGAGCCTAATTTTGAAA
1 CCAATTTGACCGAGCCCAATTTTGAAA
17178071 CCAATTT
1 CCAATTT
17178078 AAACCCAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.33
Consensus pattern (27 bp):
CCAATTTGACCGAGCCCAATTTTGAAA
Found at i:17178117 original size:17 final size:17
Alignment explanation
Indices: 17178095--17178128 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
17178085 ATTTTGGATT
*
17178095 TTTAAAATTTAAATTTA
1 TTTAAAATTAAAATTTA
17178112 TTTAAAATTAAAATTTA
1 TTTAAAATTAAAATTTA
17178129 ATCAAAAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTTAAAATTAAAATTTA
Found at i:17180059 original size:29 final size:29
Alignment explanation
Indices: 17180023--17180485 Score: 281
Period size: 29 Copynumber: 15.9 Consensus size: 29
17180013 CCCTGAATTG
* *
17180023 TCCAAAAATCATATTTTGACCCTCGAACTT
1 TCCAAAAATTACATTTT-ACCCTCGAACTT
* *
17180053 TCCAAAAATTATATTTTAACCC-CTAAAC-T
1 TCCAAAAATTACATTTT-ACCCTC-GAACTT
* *
17180082 TCCAAAAATTACATTTTAACCTTGAACTT
1 TCCAAAAATTACATTTTACCCTCGAACTT
* *
17180111 TTCAAAAATTACATTTTTACCTTCGAACTT
1 TCCAAAAATTACA-TTTTACCCTCGAACTT
* * *
17180141 TCCAAAAATTTCATTTGATCCT-GAACTT
1 TCCAAAAATTACATTTTACCCTCGAACTT
*
17180169 TCCAAAAATTACCATTTTACCC-CTAAACTT
1 TCCAAAAATTA-CATTTTACCCTC-GAACTT
* * *
17180199 T-CAAAAATTCCATTTTTACTC-CAAACTT
1 TCCAAAAATTACA-TTTTACCCTCGAACTT
***
17180227 TTTGAAAATTATCATTTTACCC-CTGAAC-T
1 TCCAAAAATTA-CATTTTACCCTC-GAACTT
* * * *
17180256 CCCAAAAATTCCATTTTGACCCT-AAAATT
1 TCCAAAAATTACATTTT-ACCCTCGAACTT
* * * *
17180285 TCCAAAAGTTACCATTTTACCCT-TAAATG
1 TCCAAAAATTA-CATTTTACCCTCGAACTT
* * *
17180314 TCCAAAAATTCCATTTTTGA-CCTTGAAATT
1 TCCAAAAATTACA-TTTT-ACCCTCGAACTT
* *
17180344 TCCAAAAGTTACCATTTTACCCTCGAA-TA
1 TCCAAAAATTA-CATTTTACCCTCGAACTT
* * *
17180373 TCTAAAAGTTGCATTTTAACCCT-GAACTT
1 TCCAAAAATTACATTTT-ACCCTCGAACTT
* *
17180402 TCCAAAAATTACATTTTTACCCCCGAA-TA
1 TCCAAAAATTACA-TTTTACCCTCGAACTT
* * * *
17180431 TCCAAAAATTACCTTTTTGCCCTCGAAGTG
1 TCCAAAAATTA-CATTTTACCCTCGAACTT
* *
17180461 TCC-AAAATCACCGTTTTACCCTCGA
1 TCCAAAAATTA-CATTTTACCCTCGA
17180486 GCATCCAAAA
Statistics
Matches: 345, Mismatches: 62, Indels: 53
0.75 0.13 0.12
Matches are distributed among these distances:
28 50 0.14
29 193 0.56
30 100 0.29
31 2 0.01
ACGTcount: A:0.34, C:0.25, G:0.05, T:0.36
Consensus pattern (29 bp):
TCCAAAAATTACATTTTACCCTCGAACTT
Found at i:17180245 original size:116 final size:114
Alignment explanation
Indices: 17180035--17180424 Score: 378
Period size: 116 Copynumber: 3.3 Consensus size: 114
17180025 CAAAAATCAT
* * *
17180035 ATTTTGACCCTCGAACTTTCCAAAAATTATATTTTAACCCCTAAACTTCCAAAAATTACATTTTA
1 ATTTTGACCCT-GAACTTTCCAAAAATTACATTTT-ACCCCTAAACTTCCAAAAATTCCATTTTT
** *
17180100 AC-CTTGAACTTTTCAAAAATTACATTTTTACCTTCGAACTTTCCAAAAATTTC
64 ACTC-CAAACTTTTCAAAAATTACA-TTTTACC-TCGAACTTTCCAAAAATTCC
* *
17180153 A-TTTGATCCTGAACTTTCCAAAAATTACCATTTTACCCCTAAACTTTCAAAAATTCCATTTTTA
1 ATTTTGACCCTGAACTTTCCAAAAATTA-CATTTTACCCCTAAACTTCCAAAAATTCCATTTTTA
** * *
17180217 CTCCAAACTTTTTGAAAATTATCATTTTACCCCTGAAC-TCCCAAAAATTCC
65 CTCCAAACTTTTCAAAAATTA-CATTTTACCTC-GAACTTTCCAAAAATTCC
* * * *
17180268 ATTTTGACCCTAAAATTTCCAAAAGTTACCATTTTACCCTTAAA-TGTCCAAAAATTCCATTTTT
1 ATTTTGACCCTGAACTTTCCAAAAATTA-CATTTTACCCCTAAACT-TCCAAAAATTCCATTTTT
** * * * * * *
17180332 GACCTTGAAA-TTTCCAAAAGTTACCATTTTACCCTCGAA-TATCTAAAAGTTGC
64 -A-CTCCAAACTTTTCAAAAATTA-CATTTTA-CCTCGAACTTTCCAAAAATTCC
*
17180385 ATTTTAACCCTGAACTTTCCAAAAATTACATTTTTACCCC
1 ATTTTGACCCTGAACTTTCCAAAAATTACA-TTTTACCCC
17180425 CGAATATCCA
Statistics
Matches: 225, Mismatches: 36, Indels: 23
0.79 0.13 0.08
Matches are distributed among these distances:
115 14 0.06
116 126 0.56
117 76 0.34
118 9 0.04
ACGTcount: A:0.34, C:0.24, G:0.05, T:0.37
Consensus pattern (114 bp):
ATTTTGACCCTGAACTTTCCAAAAATTACATTTTACCCCTAAACTTCCAAAAATTCCATTTTTAC
TCCAAACTTTTCAAAAATTACATTTTACCTCGAACTTTCCAAAAATTCC
Found at i:17190203 original size:23 final size:24
Alignment explanation
Indices: 17190159--17190203 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
17190149 CATTGCCTCT
17190159 AAAATGTTAATTCAAGAGAAGTAA
1 AAAATGTTAATTCAAGAGAAGTAA
17190183 AAAATGTTAATTCAAGA-AAGT
1 AAAATGTTAATTCAAGAGAAGT
17190204 GCTCAAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.53, C:0.04, G:0.16, T:0.27
Consensus pattern (24 bp):
AAAATGTTAATTCAAGAGAAGTAA
Found at i:17190750 original size:24 final size:21
Alignment explanation
Indices: 17190699--17190739 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
17190689 AATAAAATAG
*
17190699 ATTATATATTATTTTTTTAAT
1 ATTATATATTATATTTTTAAT
17190720 ATTATATATTATGATTTTTA
1 ATTATATATTAT-ATTTTTA
17190740 TTCATTCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (21 bp):
ATTATATATTATATTTTTAAT
Found at i:17191996 original size:19 final size:19
Alignment explanation
Indices: 17191966--17192020 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 19
17191956 ACAAGATTTT
*
17191966 AAAATAAATTTTAAAAATTG
1 AAAAT-AATTTTAAAAATTC
*
17191986 AAAATAATTTTTAAAATTC
1 AAAATAATTTTAAAAATTC
17192005 AAAAT-ATTTATAAAAA
1 AAAATAATTT-TAAAAA
17192021 AATCAAAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
18 4 0.13
19 22 0.71
20 5 0.16
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (19 bp):
AAAATAATTTTAAAAATTC
Found at i:17192018 original size:18 final size:18
Alignment explanation
Indices: 17191971--17192019 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
17191961 ATTTTAAAAT
*
17191971 AAAT-TTTA-AAAATTGA
1 AAATATTTATAAAATTCA
*
17191987 AAATAATTTTTAAAATTCA
1 AAAT-ATTTATAAAATTCA
17192006 AAATATTTATAAAA
1 AAATATTTATAAAA
17192020 AAATCAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 4 0.15
18 12 0.44
19 11 0.41
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (18 bp):
AAATATTTATAAAATTCA
Found at i:17195061 original size:20 final size:19
Alignment explanation
Indices: 17195033--17195073 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
17195023 ATTGTTATAC
17195033 TTATATATAT-TGATTTATT
1 TTATATATATGT-ATTTATT
17195052 TTATATTATATGTATTTATT
1 TTATA-TATATGTATTTATT
17195072 TT
1 TT
17195074 TTTTATTTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 5 0.25
20 14 0.70
21 1 0.05
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (19 bp):
TTATATATATGTATTTATT
Found at i:17195061 original size:24 final size:25
Alignment explanation
Indices: 17195022--17195079 Score: 73
Period size: 24 Copynumber: 2.3 Consensus size: 25
17195012 TTTCAAGGTA
17195022 TATTGTTATACTTATATATATTGATT
1 TATT-TTATACTTATATATATTGATT
* *
17195048 TATTTTATA-TTATATGTATTTATT
1 TATTTTATACTTATATATATTGATT
*
17195072 TTTTTTAT
1 TATTTTAT
17195080 TTCGAAACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 20 0.69
25 5 0.17
26 4 0.14
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.66
Consensus pattern (25 bp):
TATTTTATACTTATATATATTGATT
Found at i:17207865 original size:100 final size:100
Alignment explanation
Indices: 17207685--17207867 Score: 222
Period size: 100 Copynumber: 1.8 Consensus size: 100
17207675 ATCAAATCCT
* * * * *
17207685 ATACCCCTAAAGCTGTAGAGGAACGGATTGAAGCCGCAATGGCGAATGTCATACACCTAAAGCTG
1 ATACACCTAAAACTGTAGAGGAACAGATTGAAGCCGCAAGGGCGAATCTCATACACCTAAAGCTG
* * * *
17207750 TAGAGGGGCAGATTGAAGTCGCAATGGTGAATCTC
66 GAAAAGGGCAAATTGAAGTCGCAATGGTGAATCTC
** * * * *
17207785 ATACACCTAAAACTGTAGAGGGGCAGATTGAAGCCGCAAGGGTGAATCTTATACTCCTAAAGTTG
1 ATACACCTAAAACTGTAGAGGAACAGATTGAAGCCGCAAGGGCGAATCTCATACACCTAAAGCTG
*
17207850 GAAAAGGGTAAATTGAAG
66 GAAAAGGGCAAATTGAAG
17207868 CTATAAGAGC
Statistics
Matches: 67, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
100 67 1.00
ACGTcount: A:0.34, C:0.17, G:0.27, T:0.21
Consensus pattern (100 bp):
ATACACCTAAAACTGTAGAGGAACAGATTGAAGCCGCAAGGGCGAATCTCATACACCTAAAGCTG
GAAAAGGGCAAATTGAAGTCGCAATGGTGAATCTC
Found at i:17207868 original size:50 final size:50
Alignment explanation
Indices: 17207685--17207846 Score: 225
Period size: 50 Copynumber: 3.2 Consensus size: 50
17207675 ATCAAATCCT
* ** * * *
17207685 ATACCCCTAAAGCTGTAGAGGAACGGATTGAAGCCGCAATGGCGAATGTC
1 ATACACCTAAAGCTGTAGAGGGGCAGATTGAAGCCGCAATGGTGAATCTC
*
17207735 ATACACCTAAAGCTGTAGAGGGGCAGATTGAAGTCGCAATGGTGAATCTC
1 ATACACCTAAAGCTGTAGAGGGGCAGATTGAAGCCGCAATGGTGAATCTC
* * *
17207785 ATACACCTAAAACTGTAGAGGGGCAGATTGAAGCCGCAAGGGTGAATCTT
1 ATACACCTAAAGCTGTAGAGGGGCAGATTGAAGCCGCAATGGTGAATCTC
*
17207835 ATACTCCTAAAG
1 ATACACCTAAAG
17207847 TTGGAAAAGG
Statistics
Matches: 99, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 99 1.00
ACGTcount: A:0.33, C:0.20, G:0.27, T:0.20
Consensus pattern (50 bp):
ATACACCTAAAGCTGTAGAGGGGCAGATTGAAGCCGCAATGGTGAATCTC
Found at i:17214193 original size:31 final size:31
Alignment explanation
Indices: 17214158--17214216 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
17214148 GATGTCAAGA
17214158 TTTAGAATGATGTTGGGTGCAGGGTTTATGG
1 TTTAGAATGATGTTGGGTGCAGGGTTTATGG
*
17214189 TTTAGAATGATGTTGGGTGTAGGGTTTA
1 TTTAGAATGATGTTGGGTGCAGGGTTTA
17214217 GCTATTTAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.20, C:0.02, G:0.37, T:0.41
Consensus pattern (31 bp):
TTTAGAATGATGTTGGGTGCAGGGTTTATGG
Found at i:17225166 original size:50 final size:50
Alignment explanation
Indices: 17225036--17225172 Score: 177
Period size: 50 Copynumber: 2.7 Consensus size: 50
17225026 GACCACTACA
* * * * * **
17225036 CCTTAAATCAGAAAATAGTAGCCACACACGATTTAGCACAAGCTTGTGTG
1 CCTTAAATAAAAAAATAGTAACCACACACGGTCTAGCACAAGCCCGTGTG
17225086 CCTTAAATAAAAAAATAGTAACCACACACGGTCTAGCACACA-CCCGTGTG
1 CCTTAAATAAAAAAATAGTAACCACACACGGTCTAGCACA-AGCCCGTGTG
* *
17225136 CCTTAAATAAAAAAACAGTAACCACACACGGGCTAGC
1 CCTTAAATAAAAAAATAGTAACCACACACGGTCTAGC
17225173 CACTGGCTAG
Statistics
Matches: 77, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
50 76 0.99
51 1 0.01
ACGTcount: A:0.40, C:0.26, G:0.15, T:0.19
Consensus pattern (50 bp):
CCTTAAATAAAAAAATAGTAACCACACACGGTCTAGCACAAGCCCGTGTG
Found at i:17226297 original size:7 final size:8
Alignment explanation
Indices: 17226277--17226301 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
17226267 TATTTAAATT
17226277 ATTTTTTA
1 ATTTTTTA
17226285 ATTTTTTA
1 ATTTTTTA
17226293 ATTTTTTA
1 ATTTTTTA
17226301 A
1 A
17226302 ATGTCAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (8 bp):
ATTTTTTA
Found at i:17227098 original size:18 final size:17
Alignment explanation
Indices: 17227071--17227106 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
17227061 ACTTTTATAC
17227071 TTTTAATTTTTAATATT
1 TTTTAATTTTTAATATT
*
17227088 TTTTAAATTTTTTATATT
1 TTTT-AATTTTTAATATT
17227106 T
1 T
17227107 AAAAATTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTTAATTTTTAATATT
Found at i:17227910 original size:38 final size:39
Alignment explanation
Indices: 17227868--17227941 Score: 105
Period size: 38 Copynumber: 1.9 Consensus size: 39
17227858 AAGTGTAAAT
* *
17227868 TTTAAAGGATAATATGATGTTAAAATAAAA-AAAAACTA
1 TTTAAAAGATAATATGATATTAAAATAAAATAAAAACTA
* *
17227906 TTTAAAAGATAATTTTATATTAAAATAAAATAAAAA
1 TTTAAAAGATAATATGATATTAAAATAAAATAAAAA
17227942 TAATTCAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
38 26 0.84
39 5 0.16
ACGTcount: A:0.59, C:0.01, G:0.07, T:0.32
Consensus pattern (39 bp):
TTTAAAAGATAATATGATATTAAAATAAAATAAAAACTA
Found at i:17228163 original size:15 final size:15
Alignment explanation
Indices: 17228124--17228165 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
17228114 TCTTAGTTTT
*
17228124 AATCAATTTAA-TTG
1 AATCAATTTAATTTC
* *
17228138 AATCGAGTTAATTTC
1 AATCAATTTAATTTC
17228153 AATCAATTTAATT
1 AATCAATTTAATT
17228166 CATCTAAAAT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.43
Consensus pattern (15 bp):
AATCAATTTAATTTC
Found at i:17228167 original size:14 final size:14
Alignment explanation
Indices: 17228124--17228167 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
17228114 TCTTAGTTTT
*
17228124 AATCAATTTAATTG
1 AATCAATTTAATTC
* *
17228138 AATCGAGTTAATTTC
1 AATCAATTTAA-TTC
17228153 AATCAATTTAATTC
1 AATCAATTTAATTC
17228167 A
1 A
17228168 TCTAAAATAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
14 13 0.54
15 11 0.46
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.41
Consensus pattern (14 bp):
AATCAATTTAATTC
Found at i:17243397 original size:33 final size:32
Alignment explanation
Indices: 17243303--17243411 Score: 110
Period size: 32 Copynumber: 3.4 Consensus size: 32
17243293 GTTACACTCG
** * *
17243303 CACCCTCCACTGCACCAATGTTGTCTCTCTCT
1 CACCCTCCACCACACCAATGTCGCCTCTCTCT
* *
17243335 CACCCTCCACCGCACCAATATCGCCTCTCTCT
1 CACCCTCCACCACACCAATGTCGCCTCTCTCT
** *
17243367 CACCCTCCATTACCCTCAATGTCGCCTCTCTCT
1 CACCCTCCACCACAC-CAATGTCGCCTCTCTCT
* *
17243400 CATCCTACACCA
1 CACCCTCCACCA
17243412 GTCAGATCAT
Statistics
Matches: 63, Mismatches: 13, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
32 39 0.62
33 24 0.38
ACGTcount: A:0.18, C:0.49, G:0.06, T:0.27
Consensus pattern (32 bp):
CACCCTCCACCACACCAATGTCGCCTCTCTCT
Found at i:17244228 original size:15 final size:16
Alignment explanation
Indices: 17244208--17244246 Score: 62
Period size: 15 Copynumber: 2.4 Consensus size: 16
17244198 TTAATTCTTC
17244208 TTTCTTTTTT-TTTTT
1 TTTCTTTTTTCTTTTT
17244223 TTTCTTTTTTCTTTTT
1 TTTCTTTTTTCTTTTT
17244239 TTGTCTTT
1 TT-TCTTT
17244247 CTGTGTTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 10 0.45
16 7 0.32
17 5 0.23
ACGTcount: A:0.00, C:0.10, G:0.03, T:0.87
Consensus pattern (16 bp):
TTTCTTTTTTCTTTTT
Found at i:17248054 original size:30 final size:30
Alignment explanation
Indices: 17248018--17248082 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
17248008 CAACTTAACA
* *
17248018 AACAAATGTCTCTAAAATAGTAACAAAATT
1 AACAAATGCCTCTAAAATAATAACAAAATT
*
17248048 AACAAATGCCTCTATAATAATAACAAAATT
1 AACAAATGCCTCTAAAATAATAACAAAATT
17248078 AACAA
1 AACAA
17248083 TAAAATAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.55, C:0.15, G:0.05, T:0.25
Consensus pattern (30 bp):
AACAAATGCCTCTAAAATAATAACAAAATT
Found at i:17249351 original size:25 final size:27
Alignment explanation
Indices: 17249292--17249351 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
17249282 ATGAAATATA
*
17249292 ATCTTTATTATTTAAAAAATATCATTT
1 ATCTTTATTATTCAAAAAATATCATTT
*
17249319 AT-TTTTTATATTCAAAAAATATCATTT
1 ATCTTTAT-TATTCAAAAAATATCATTT
17249346 A-CTTTA
1 ATCTTTA
17249352 AAATAGAGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
26 4 0.14
27 24 0.86
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (27 bp):
ATCTTTATTATTCAAAAAATATCATTT
Found at i:17251178 original size:17 final size:17
Alignment explanation
Indices: 17251156--17251189 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
17251146 TTTTAGTTAC
* *
17251156 TTTTCATTTTGAGAAAT
1 TTTTCAATTTGAAAAAT
17251173 TTTTCAATTTGAAAAAT
1 TTTTCAATTTGAAAAAT
17251190 AAAACAAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.06, G:0.09, T:0.50
Consensus pattern (17 bp):
TTTTCAATTTGAAAAAT
Found at i:17255113 original size:18 final size:18
Alignment explanation
Indices: 17255090--17255131 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
17255080 TTTCAGTTGC
17255090 AATTAATTTAAAATT-TTT
1 AATTAA-TTAAAATTATTT
*
17255108 AATTAATTAAATTTATTT
1 AATTAATTAAAATTATTT
17255126 AATTAA
1 AATTAA
17255132 AAATTTATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
AATTAATTAAAATTATTT
Found at i:17260071 original size:3 final size:3
Alignment explanation
Indices: 17260060--17260097 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
17260050 TAATAACAAT
* *
17260060 AGA AAA AGA AGA AGA AGA AGA AGA AGA GGA AG- AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
17260098 GACTGTAAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:17261605 original size:22 final size:22
Alignment explanation
Indices: 17261578--17261622 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
17261568 TTTTTAAAAT
*
17261578 TAAAAT-TTAATTATAAAATATA
1 TAAAATATCAATTA-AAAATATA
*
17261600 TAAAATATCAATTAAAAGTATA
1 TAAAATATCAATTAAAAATATA
17261622 T
1 T
17261623 TTTTAGTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (22 bp):
TAAAATATCAATTAAAAATATA
Found at i:17274787 original size:29 final size:29
Alignment explanation
Indices: 17274743--17274809 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
17274733 ATGACTGTTT
** *
17274743 TAATAATAAATGTTAATAA-ATATTTTTAA
1 TAATAATAAACATTAATAATA-ATGTTTAA
17274772 TAATAATAAACATTAATAATAATGTTTAA
1 TAATAATAAACATTAATAATAATGTTTAA
*
17274801 TATTAATAA
1 TAATAATAA
17274810 TAATAATATA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 32 0.97
30 1 0.03
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (29 bp):
TAATAATAAACATTAATAATAATGTTTAA
Found at i:17274791 original size:19 final size:19
Alignment explanation
Indices: 17274769--17274817 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
17274759 TAAATATTTT
17274769 TAATAATAATAAACATTAA
1 TAATAATAATAAACATTAA
** * *
17274788 TAATAATGTTTAATATTAA
1 TAATAATAATAAACATTAA
17274807 TAATAATAATA
1 TAATAATAATA
17274818 TAAAAAAGAG
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (19 bp):
TAATAATAATAAACATTAA
Found at i:17275927 original size:29 final size:30
Alignment explanation
Indices: 17275892--17276237 Score: 153
Period size: 29 Copynumber: 11.8 Consensus size: 30
17275882 CAAAACTTCT
* * *
17275892 AAAAAATACATTTTTACCCTCGAGCTTTTC
1 AAAAATTACATTTTTACCCTCGAACTTTCC
17275922 AAAAATTACATTTTTACCCTCGAACTTTCC
1 AAAAATTACATTTTTACCCTCGAACTTTCC
**
17275952 -AAAATCCCATTTTTGACCC-CG-A-TTTCACC
1 AAAAATTACATTTTT-ACCCTCGAACTTT--CC
17275981 AAAAATTACCA-TTTTA-CCTCCGAACTTT-C
1 AAAAATTA-CATTTTTACCCT-CGAACTTTCC
* *
17276010 TAAAATTCCATTTTTGACCCT-G-A-TTTCACC
1 AAAAATTACATTTTT-ACCCTCGAACTTT--CC
* *
17276040 AAAAATTACCA-TTTTACCCCCGAGCTTTCC
1 AAAAATTA-CATTTTTACCCTCGAACTTTCC
* * *
17276070 -AAAATTCCATTTTAACCC-C-TA-TTTCACC
1 AAAAATTACATTTTTACCCTCGAACTTT--CC
* *
17276098 AAAATTTACCA-TTTTATCCTCGAACTTTCC
1 AAAAATTA-CATTTTTACCCTCGAACTTTCC
* * * *
17276128 -AAAATTCCA-TTTTAACCTCG-ATTTTACA
1 AAAAATTACATTTTTACCCTCGAACTTT-CC
** * *
17276156 AAAAATTACCCTTTTGCCC-CGAACCTTCC
1 AAAAATTACATTTTTACCCTCGAACTTTCC
* *
17276185 -AAAA-TCCTATTTTTAACCC-CGAATTTTCC
1 AAAAATTAC-ATTTTT-ACCCTCGAACTTTCC
* * *
17276214 CAAAATTACATTTTTGCCCCCGAA
1 AAAAATTACATTTTTACCCTCGAA
17276238 AGTCAAAAGT
Statistics
Matches: 238, Mismatches: 42, Indels: 72
0.68 0.12 0.20
Matches are distributed among these distances:
26 3 0.01
27 12 0.05
28 32 0.13
29 86 0.36
30 85 0.36
31 11 0.05
32 9 0.04
ACGTcount: A:0.31, C:0.29, G:0.05, T:0.35
Consensus pattern (30 bp):
AAAAATTACATTTTTACCCTCGAACTTTCC
Found at i:17275963 original size:59 final size:57
Alignment explanation
Indices: 17275900--17276227 Score: 287
Period size: 59 Copynumber: 5.6 Consensus size: 57
17275890 CTAAAAAATA
*
17275900 CATTTTT-ACCCTCGAGCTTTTCAAAAATTA-CATTTTTACCCTCGAACTTTCCAAAATCC
1 CATTTTTGACCC-CGA--TTTTCAAAAATTACCA-TTTTACCCTCGAACTTTCCAAAATTC
* *
17275959 CATTTTTGACCCCGATTTCACCAAAAATTACCATTTTA-CCTCCGAACTTTCTAAAATTC
1 CATTTTTGACCCCGATTT--TCAAAAATTACCATTTTACCCT-CGAACTTTCCAAAATTC
* * * *
17276018 CATTTTTGACCCTGATTTCACCAAAAATTACCATTTTACCCCCGAGCTTTCCAAAATTC
1 CATTTTTGACCCCGATTT--TCAAAAATTACCATTTTACCCTCGAACTTTCCAAAATTC
* * *
17276077 CA-TTTTAACCCCTA-TTTCACCAAAATTTACCATTTTATCCTCGAACTTTCCAAAATTC
1 CATTTTTGACCCCGATTTTCA--AAAA-TTACCATTTTACCCTCGAACTTTCCAAAATTC
* * * * *
17276135 CA-TTTTAACCTCGATTTTACAAAAAATTACCCTTTTGCCC-CGAACCTTCCAAAA-TC
1 CATTTTTGACCCCGATTTT-C-AAAAATTACCATTTTACCCTCGAACTTTCCAAAATTC
* *
17276191 CTATTTTTAACCCCGAATTTTCCCAAAATTA-CATTTT
1 C-ATTTTTGACCCCG-ATTTT-CAAAAATTACCATTTT
17276228 TGCCCCCGAA
Statistics
Matches: 230, Mismatches: 24, Indels: 32
0.80 0.08 0.11
Matches are distributed among these distances:
55 2 0.01
56 3 0.01
57 28 0.12
58 81 0.35
59 106 0.46
60 9 0.04
61 1 0.00
ACGTcount: A:0.30, C:0.29, G:0.05, T:0.36
Consensus pattern (57 bp):
CATTTTTGACCCCGATTTTCAAAAATTACCATTTTACCCTCGAACTTTCCAAAATTC
Found at i:17276126 original size:58 final size:59
Alignment explanation
Indices: 17275921--17276227 Score: 362
Period size: 58 Copynumber: 5.3 Consensus size: 59
17275911 TCGAGCTTTT
* *
17275921 CAAAAATTA-CATTTTTACCCTCGAACTTTCCAAAATCCCATTTTTGACCCCGATTTCAC
1 CAAAAATTACCA-TTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCAC
* * *
17275980 CAAAAATTACCATTTTA-CCTCCGAACTTTCTAAAATTCCATTTTTGACCCTGATTTCAC
1 CAAAAATTACCATTTTACCCT-CGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCAC
* * *
17276039 CAAAAATTACCATTTTACCCCCGAGCTTTCCAAAATTCCA-TTTTAACCCCTATTTCAC
1 CAAAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCAC
* * * *
17276097 CAAAATTTACCATTTTATCCTCGAACTTTCCAAAATTCCA-TTTTAACCTCGATTTTAC
1 CAAAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCAC
* * * *
17276155 AAAAAATTACCCTTTTGCCC-CGAACCTTCCAAAA-TCCTATTTTTAACCCCGAATTTTC-C
1 CAAAAATTACCATTTTACCCTCGAACTTTCCAAAATTCC-ATTTTTAACCCCG-A-TTTCAC
17276214 C-AAAATTA-CATTTT
1 CAAAAATTACCATTTT
17276228 TGCCCCCGAA
Statistics
Matches: 215, Mismatches: 26, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
56 3 0.01
57 19 0.09
58 101 0.47
59 85 0.40
60 7 0.03
ACGTcount: A:0.31, C:0.29, G:0.04, T:0.36
Consensus pattern (59 bp):
CAAAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCAC
Found at i:17276133 original size:117 final size:117
Alignment explanation
Indices: 17275921--17276227 Score: 371
Period size: 117 Copynumber: 2.6 Consensus size: 117
17275911 TCGAGCTTTT
* * *
17275921 CAAAAATTA-CATTTTTACCCTCGAACTTTCCAAAATCCCATTTTTGACCCCGATTTCACCAAAA
1 CAAAAATTACCA-TTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAA
* *
17275985 ATTACCATTTTACCTCCGAACTTTCTAAAATTCCATTTTTGACC-CTGATTTCAC
65 ATTACCATTTTACCTCCGAACTTTCCAAAATTCCA-TTTTAACCTC-GATTTCAC
* * *
17276039 CAAAAATTACCATTTTACCCCCGAGCTTTCCAAAATTCCA-TTTTAACCCCTATTTCACCAAAAT
1 CAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAA
*
17276103 TTACCATTTTATCCT-CGAACTTTCCAAAATTCCATTTTAACCTCGATTTTAC
66 TTACCATTTTA-CCTCCGAACTTTCCAAAATTCCATTTTAACCTCGATTTCAC
* * * *
17276155 AAAAAATTACCCTTTT-GCCCCGAACCTTCCAAAA-TCCTATTTTTAACCCCGAATTTTC-CC-A
1 CAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCC-ATTTTTAACCCCG-A-TTTCACCAA
17276216 AAATTA-CATTTT
63 AAATTACCATTTT
17276228 TGCCCCCGAA
Statistics
Matches: 166, Mismatches: 16, Indels: 17
0.83 0.08 0.09
Matches are distributed among these distances:
114 3 0.02
115 22 0.13
116 44 0.27
117 54 0.33
118 41 0.25
119 2 0.01
ACGTcount: A:0.31, C:0.29, G:0.04, T:0.36
Consensus pattern (117 bp):
CAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAA
TTACCATTTTACCTCCGAACTTTCCAAAATTCCATTTTAACCTCGATTTCAC
Found at i:17276227 original size:30 final size:29
Alignment explanation
Indices: 17275893--17276237 Score: 139
Period size: 30 Copynumber: 11.8 Consensus size: 29
17275883 AAAACTTCTA
* * *
17275893 AAAAATACATTTTT-ACCCTCGAGCTTTTCA
1 AAAATTACATTTTTAACCC-CGAAC-TTTCC
17275923 AAAATTACATTTTT-ACCCTCGAACTTTCC
1 AAAATTACATTTTTAACCC-CGAACTTTCC
** *
17275952 AAAATCCCATTTTTGACCCCG-A-TTTCACC
1 AAAATTACATTTTTAACCCCGAACTTT--CC
*
17275981 AAAAATTACCA-TTTT-ACCTCCGAACTTTCT
1 -AAAATTA-CATTTTTAACC-CCGAACTTTCC
* * *
17276011 AAAATTCCATTTTTGACCCTG-A-TTTCACC
1 AAAATTACATTTTTAACCCCGAACTTT--CC
* *
17276040 AAAAATTACCA-TTTTACCCCCGAGCTTTCC
1 -AAAATTA-CATTTTTAACCCCGAACTTTCC
* *
17276070 AAAATTCCA-TTTTAACCCC-TA-TTTCACC
1 AAAATTACATTTTTAACCCCGAACTTT--CC
* *
17276098 AAAATTTACCA-TTTTATCCTCGAACTTTCC
1 AAAA-TTA-CATTTTTAACCCCGAACTTTCC
* * * *
17276128 AAAATTCCA-TTTTAACCTCG-ATTTTACAA
1 AAAATTACATTTTTAACCCCGAACTTT-C-C
** * *
17276157 AAAATTACCCTTTT-GCCCCGAACCTTCC
1 AAAATTACATTTTTAACCCCGAACTTTCC
* *
17276185 AAAA-TCCTATTTTTAACCCCGAATTTTCCC
1 AAAATTAC-ATTTTTAACCCCGAACTTT-CC
**
17276215 AAAATTACATTTTTGCCCCCGAA
1 AAAATTACATTTTTAACCCCGAA
17276238 AGTCAAAAGT
Statistics
Matches: 241, Mismatches: 44, Indels: 60
0.70 0.13 0.17
Matches are distributed among these distances:
26 3 0.01
27 12 0.05
28 42 0.17
29 67 0.28
30 100 0.41
31 8 0.03
32 9 0.04
ACGTcount: A:0.31, C:0.29, G:0.05, T:0.35
Consensus pattern (29 bp):
AAAATTACATTTTTAACCCCGAACTTTCC
Found at i:17288588 original size:200 final size:200
Alignment explanation
Indices: 17288245--17288888 Score: 927
Period size: 200 Copynumber: 3.2 Consensus size: 200
17288235 TAACAAGACG
* * * * *
17288245 GCGAGGCGGTCATCTTTCTAATGAGATACAGAGAAGAATACCAATTCAACGCTCAACA-CAAGCC
1 GCGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAAATCAACGCTCAA-AGCGAGCA
* * *
17288309 AATCTTCATACCCAGCTTCCTGATGAGACACTGAGAAGCAAGTCGAAACAATAAAATGGTTAGCT
65 AATCTTCGTACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAACAATAAAATAGTTAGCT
17288374 TCCTGATGAGATACAGAGAAGTGGACCAAATTCGTCTTCTTGAGGAGATCCAGAGAAGCGAATTA
130 TCCTGATGAGATACAGAGAAGTGGACCAAATTCGTCTTCTTGAGGAGATCCAGAGAAGCGAATTA
17288439 AAACAA
195 AAACAA
* *
17288445 GCGAGGCGGTCATCTTCCTGATGAGATATAGAGAAGAATACCAAATCAACGCTTAAAGCGAGCAA
1 GCGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAAATCAACGCTCAAAGCGAGCAA
17288510 ATCTTCGTACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAACAATAAAATAGTTAGCTT
66 ATCTTCGTACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAACAATAAAATAGTTAGCTT
* * * *
17288575 CCTAATGAGATACAGAGAAGCGGACCAAATTTGTCTTCTTGAGGAGATCCAGAGAAGCAAATTAA
131 CCTGATGAGATACAGAGAAGTGGACCAAATTCGTCTTCTTGAGGAGATCCAGAGAAGCGAATTAA
17288640 AACAA
196 AACAA
* *
17288645 -CAGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAACGCGAGCA
1 GC-GAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAAATCAACGCTCAAAGCGAGCA
* * * * *
17288709 AATCTTCGAACCCAGCTCCCTGATGAGATACTGAGAAGAAGGTCGAAGCAATAAAA-AGGTTAGC
65 AATCTTCGTACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAACAATAAAATA-GTTAGC
* * * ** *
17288773 TTCTTGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAAAAGATCCAGAGAAACGAATT
129 TTCCTGATGAGATACAGAGAAGTGGACCAAATTCGTCTTCTTGAGGAGATCCAGAGAAGCGAATT
17288838 AAAAC-A
194 AAAACAA
* * * * *
17288844 GATGATTGCGGTCATCTTCTTGATGAGACACAGAGAAGAAGACCA
1 G-CGA-GGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCA
17288889 GGTCAATGAA
Statistics
Matches: 400, Mismatches: 38, Indels: 11
0.89 0.08 0.02
Matches are distributed among these distances:
199 4 0.01
200 361 0.90
201 35 0.09
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.20
Consensus pattern (200 bp):
GCGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAAATCAACGCTCAAAGCGAGCAA
ATCTTCGTACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAACAATAAAATAGTTAGCTT
CCTGATGAGATACAGAGAAGTGGACCAAATTCGTCTTCTTGAGGAGATCCAGAGAAGCGAATTAA
AACAA
Found at i:17290058 original size:29 final size:29
Alignment explanation
Indices: 17290021--17290088 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
17290011 GATGACTGTT
** *
17290021 ATAATAATAAATGTTAATAAAT-ATTTTTA
1 ATAATAATAAACATTAAT-AATCATGTTTA
17290050 ATAATAATAAACATTAATAATCATGTTTA
1 ATAATAATAAACATTAATAATCATGTTTA
*
17290079 ATATTAATAA
1 ATAATAATAA
17290089 TAATATAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (29 bp):
ATAATAATAAACATTAATAATCATGTTTA
Found at i:17291196 original size:29 final size:31
Alignment explanation
Indices: 17291136--17291232 Score: 94
Period size: 30 Copynumber: 3.2 Consensus size: 31
17291126 CCCTATACTG
* *
17291136 TTCAAAAATTATAATTATGACCC-CGAAAC-T
1 TTCAAAAATTAT-ATTTTTACCCTCGAAACTT
*
17291166 TTCAAAAATTATATTTTTACCCTC-AAGCTT
1 TTCAAAAATTATATTTTTACCCTCGAAACTT
** *
17291196 TTCAAAAATTACGTTTTTACCCTTG-AACTT
1 TTCAAAAATTATATTTTTACCCTCGAAACTT
*
17291226 TCCAAAA
1 TTCAAAA
17291233 TCCCATTTTT
Statistics
Matches: 56, Mismatches: 8, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
29 11 0.20
30 45 0.80
ACGTcount: A:0.37, C:0.21, G:0.05, T:0.37
Consensus pattern (31 bp):
TTCAAAAATTATATTTTTACCCTCGAAACTT
Found at i:17291233 original size:29 final size:28
Alignment explanation
Indices: 17291162--17291422 Score: 108
Period size: 30 Copynumber: 8.9 Consensus size: 28
17291152 ATGACCCCGA
*
17291162 AACTTTCAAAAATTATATTTTTACCCTC
1 AACTTTCAAAAATTACATTTTTACCCTC
* *
17291190 AAGCTTTTCAAAAATTACGTTTTTACCCTTG
1 AA-C-TTTCAAAAATTACATTTTTACCC-TC
* ** * *
17291221 AACTTTCCAAAATCCCATTTTTAACTTC
1 AACTTTCAAAAATTACATTTTTACCCTC
*
17291249 GA-TTTCACCAAAAATTACCA-TTTTACCC-C
1 AACTTT---CAAAAATTA-CATTTTTACCCTC
* *
17291278 TAACTTTCTAAAATTTCATTTTTAACACCT-
1 -AACTTTCAAAAATTACATTTTT-AC-CCTC
*
17291308 -A-TTTCACCAAAAATTACCA-TTTTACCCCC
1 AACTTT---CAAAAATTA-CATTTTTACCCTC
* *
17291337 AAGCTTTCCAAAATTCCATTTTTGACCCT-
1 AA-CTTTCAAAAATTACATTTTT-ACCCTC
* *
17291366 AATTTTACCAAAAATTACCA-TTTTACCCCC
1 AACTTT--CAAAAATTA-CATTTTTACCCTC
* * *
17291396 AAACTTTCTAAAATTCCATTTTAACCC
1 -AACTTTCAAAAATTACATTTTTACCC
17291423 CGATTTTACC
Statistics
Matches: 171, Mismatches: 33, Indels: 57
0.66 0.13 0.22
Matches are distributed among these distances:
27 8 0.05
28 25 0.15
29 54 0.32
30 64 0.37
31 17 0.10
32 3 0.02
ACGTcount: A:0.33, C:0.26, G:0.02, T:0.38
Consensus pattern (28 bp):
AACTTTCAAAAATTACATTTTTACCCTC
Found at i:17291302 original size:58 final size:57
Alignment explanation
Indices: 17291198--17291480 Score: 309
Period size: 59 Copynumber: 4.9 Consensus size: 57
17291188 TCAAGCTTTT
** ** * *
17291198 CAAAAATTACGTTTTTACCCTTGAACTTTCCAAAATCCCATTTTTAACTTCGATTTCAC
1 CAAAAATTACCATTTTACCC-CAAACTTTCCAAAATTCCATTTTTAAC-CCGATTTCAC
* * * *
17291257 CAAAAATTACCATTTTACCCCTAACTTTCTAAAATTTCATTTTTAACACCTATTTCAC
1 CAAAAATTACCATTTTACCCCAAACTTTCCAAAATTCCATTTTTAAC-CCGATTTCAC
* * * *
17291315 CAAAAATTACCATTTTACCCCCAAGCTTTCCAAAATTCCATTTTTGACCCTAATTTTAC
1 CAAAAATTACCATTTTA-CCCCAAACTTTCCAAAATTCCATTTTTAACCC-GATTTCAC
* *
17291374 CAAAAATTACCATTTTACCCCCAAACTTTCTAAAATTCCA-TTTTAACCCCGATTTTAC
1 CAAAAATTACCATTTTA-CCCCAAACTTTCCAAAATTCCATTTTTAA-CCCGATTTCAC
* * *
17291432 CAAAAATTTCCATTTTGCCCCAAACCTTCCAAAA-TCCTATTTTTAACCC
1 CAAAAATTACCATTTTACCCCAAACTTTCCAAAATTCC-ATTTTTAACCC
17291481 CGAATTTTCC
Statistics
Matches: 194, Mismatches: 25, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
56 3 0.02
57 19 0.10
58 82 0.42
59 90 0.46
ACGTcount: A:0.33, C:0.28, G:0.02, T:0.36
Consensus pattern (57 bp):
CAAAAATTACCATTTTACCCCAAACTTTCCAAAATTCCATTTTTAACCCGATTTCAC
Found at i:17291376 original size:117 final size:115
Alignment explanation
Indices: 17291221--17291504 Score: 333
Period size: 117 Copynumber: 2.4 Consensus size: 115
17291211 TTTACCCTTG
* * * * * *
17291221 AACTTTCCAAAATCCCATTTTTAACTTCGATTTCACCAAAAATTACCATTTTA-CCCCTAACTTT
1 AACTTTCCAAAATTCCATTTTTACCCT-AATTTTACCAAAAATTACCATTTTACCCCCAAACTTT
* *
17291285 CTAAAATTTCATTTTTAACACCTATTTCACCAAAAATTACCATTTTACCCCCA
65 CTAAAATTCCA-TTTTAACACCGATTTCACCAAAAATTACCATTTT-CCCCCA
*
17291338 AGCTTTCCAAAATTCCATTTTTGACCCTAATTTTACCAAAAATTACCATTTTACCCCCAAACTTT
1 AACTTTCCAAAATTCCATTTTT-ACCCTAATTTTACCAAAAATTACCATTTTACCCCCAAACTTT
* * * *
17291403 CTAAAATTCCATTTTAACCCCGATTTTACCAAAAATTTCCATTTTGCCCCA
65 CTAAAATTCCATTTTAACACCGATTTCACCAAAAATTACCATTTTCCCCCA
* * *
17291454 AACCTTCCAAAA-TCCTATTTTTAACCCCGAATTTT-CCTAAAATTA-CATTTT
1 AACTTTCCAAAATTCC-ATTTTT-A-CCCTAATTTTACCAAAAATTACCATTTT
17291505 TTCCCTCGAA
Statistics
Matches: 145, Mismatches: 18, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
115 9 0.06
116 31 0.21
117 82 0.57
118 23 0.16
ACGTcount: A:0.33, C:0.28, G:0.02, T:0.37
Consensus pattern (115 bp):
AACTTTCCAAAATTCCATTTTTACCCTAATTTTACCAAAAATTACCATTTTACCCCCAAACTTTC
TAAAATTCCATTTTAACACCGATTTCACCAAAAATTACCATTTTCCCCCA
Found at i:17291423 original size:29 final size:29
Alignment explanation
Indices: 17291315--17291466 Score: 105
Period size: 28 Copynumber: 5.2 Consensus size: 29
17291305 CCTATTTCAC
*
17291315 CAAAAATTACCATTTTACCCCCAAGCTTT
1 CAAAAATTACCATTTTACCCCCAAACTTT
* *** * *
17291344 CCAAAATT-CCATTTTTGACCCTAATTTT
1 CAAAAATTACCATTTTACCCCCAAACTTT
17291372 ACCAAAAATTACCATTTTACCCCCAAACTTT
1 --CAAAAATTACCATTTTACCCCCAAACTTT
* * * *
17291403 CTAAAATT-CCATTTTAACCCC-GATTTT
1 CAAAAATTACCATTTTACCCCCAAACTTT
* * *
17291430 ACCAAAAATTTCCATTTT-GCCCCAAACCTT
1 --CAAAAATTACCATTTTACCCCCAAACTTT
*
17291460 CCAAAAT
1 CAAAAAT
17291467 CCTATTTTTA
Statistics
Matches: 93, Mismatches: 23, Indels: 15
0.71 0.18 0.11
Matches are distributed among these distances:
27 4 0.04
28 32 0.34
29 25 0.27
30 17 0.18
31 15 0.16
ACGTcount: A:0.34, C:0.30, G:0.03, T:0.34
Consensus pattern (29 bp):
CAAAAATTACCATTTTACCCCCAAACTTT
Found at i:17291481 original size:58 final size:58
Alignment explanation
Indices: 17291198--17291504 Score: 318
Period size: 58 Copynumber: 5.3 Consensus size: 58
17291188 TCAAGCTTTT
** *** ** *
17291198 CAAAAATTACGTTTTTACCCTTGAACTTTCCAAAATCCCATTTTTAACTTCGATTTCAC
1 CAAAAATTACCATTTTACCCCCAAACTTTCCAAAAT-CCATTTTTAACCCCGATTTTAC
* * * * * *
17291257 CAAAAATTACCATTTTA-CCCCTAACTTTCTAAAATTTCATTTTTAACACCTATTTCAC
1 CAAAAATTACCATTTTACCCCCAAACTTTCCAAAA-TCCATTTTTAACCCCGATTTTAC
* * **
17291315 CAAAAATTACCATTTTACCCCCAAGCTTTCCAAAATTCCATTTTTGACCCTAATTTTAC
1 CAAAAATTACCATTTTACCCCCAAACTTTCCAAAA-TCCATTTTTAACCCCGATTTTAC
*
17291374 CAAAAATTACCATTTTACCCCCAAACTTTCTAAAATTCCA-TTTTAACCCCGATTTTAC
1 CAAAAATTACCATTTTACCCCCAAACTTTCCAAAA-TCCATTTTTAACCCCGATTTTAC
* * *
17291432 CAAAAATTTCCATTTT-GCCCCAAACCTTCCAAAATCCTATTTTTAACCCCGAATTTT-C
1 CAAAAATTACCATTTTACCCCCAAACTTTCCAAAATCC-ATTTTTAACCCCG-ATTTTAC
*
17291490 CTAAAATTA-CATTTT
1 CAAAAATTACCATTTT
17291505 TTCCCTCGAA
Statistics
Matches: 213, Mismatches: 30, Indels: 12
0.84 0.12 0.05
Matches are distributed among these distances:
56 3 0.01
57 22 0.10
58 97 0.46
59 91 0.43
ACGTcount: A:0.33, C:0.27, G:0.03, T:0.37
Consensus pattern (58 bp):
CAAAAATTACCATTTTACCCCCAAACTTTCCAAAATCCATTTTTAACCCCGATTTTAC
Found at i:17291551 original size:28 final size:28
Alignment explanation
Indices: 17291502--17291561 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
17291492 AAAATTACAT
* *
17291502 TTTTTCCCTCGAAAGTCAAAAGTTACCA
1 TTTTACCCTCGAAAGTCAAAAGGTACCA
* * * *
17291530 TTTTACCCTCGGATGTCCAAAGGTCCCA
1 TTTTACCCTCGAAAGTCAAAAGGTACCA
17291558 TTTT
1 TTTT
17291562 CAATCCCAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.25, C:0.27, G:0.13, T:0.35
Consensus pattern (28 bp):
TTTTACCCTCGAAAGTCAAAAGGTACCA
Found at i:17295513 original size:15 final size:15
Alignment explanation
Indices: 17295493--17295533 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
17295483 AGTGCTCAAA
17295493 GAAAGAATTTGAAAT
1 GAAAGAATTTGAAAT
17295508 GAAAGAATTTGAAAT
1 GAAAGAATTTGAAAT
*
17295523 GAAAGACTTTG
1 GAAAGAATTTG
17295534 GAAAAACAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.49, C:0.02, G:0.22, T:0.27
Consensus pattern (15 bp):
GAAAGAATTTGAAAT
Found at i:17295890 original size:11 final size:11
Alignment explanation
Indices: 17295874--17295931 Score: 55
Period size: 11 Copynumber: 5.2 Consensus size: 11
17295864 ATCCAAATTG
17295874 AATTTATTTTA
1 AATTTATTTTA
*
17295885 AATTTAAATTT-
1 AATTT-ATTTTA
* *
17295896 ATTTTAAGTTTA
1 AATTT-ATTTTA
17295908 AATTTATTTTA
1 AATTTATTTTA
*
17295919 AATTTATCTTA
1 AATTTATTTTA
17295930 AA
1 AA
17295932 GTCCAAATTA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
11 31 0.79
12 8 0.21
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (11 bp):
AATTTATTTTA
Found at i:17295896 original size:17 final size:17
Alignment explanation
Indices: 17295874--17295924 Score: 93
Period size: 17 Copynumber: 3.0 Consensus size: 17
17295864 ATCCAAATTG
17295874 AATTTATTTTAAATTTA
1 AATTTATTTTAAATTTA
*
17295891 AATTTATTTTAAGTTTA
1 AATTTATTTTAAATTTA
17295908 AATTTATTTTAAATTTA
1 AATTTATTTTAAATTTA
17295925 TCTTAAAGTC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (17 bp):
AATTTATTTTAAATTTA
Found at i:17302359 original size:18 final size:16
Alignment explanation
Indices: 17302336--17302377 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 16
17302326 GGATTCAATG
17302336 AAGAAAAAATAAATAGAA
1 AAGAAAAAA-AAAT-GAA
17302354 AAGAAAGAAAAAATGAA
1 AAGAAA-AAAAAATGAA
17302371 AA-AAAAA
1 AAGAAAAA
17302378 TGAAAAAGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 2 0.09
16 3 0.13
17 5 0.22
18 10 0.43
19 3 0.13
ACGTcount: A:0.81, C:0.00, G:0.12, T:0.07
Consensus pattern (16 bp):
AAGAAAAAAAAATGAA
Found at i:17302377 original size:22 final size:23
Alignment explanation
Indices: 17302332--17302382 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
17302322 ACTCGGATTC
*
17302332 AATG-AAGAAAAAATAAATAGAA
1 AATGAAAGAAAAAATAAATAAAA
17302354 AA-GAAAGAAAAAATGAAA-AAAA
1 AATGAAAGAAAAAAT-AAATAAAA
17302376 AATGAAA
1 AATGAAA
17302383 AAGGGAAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 1 0.04
22 17 0.68
23 7 0.28
ACGTcount: A:0.76, C:0.00, G:0.14, T:0.10
Consensus pattern (23 bp):
AATGAAAGAAAAAATAAATAAAA
Found at i:17302383 original size:11 final size:11
Alignment explanation
Indices: 17302332--17302384 Score: 56
Period size: 11 Copynumber: 4.8 Consensus size: 11
17302322 ACTCGGATTC
*
17302332 AATGAAGAAAA
1 AATGAAAAAAA
*
17302343 AAT-AAATAGAA
1 AATGAAA-AAAA
17302354 AA-GAAAGAAAA
1 AATGAAA-AAAA
17302365 AATGAAAAAAA
1 AATGAAAAAAA
17302376 AATGAAAAA
1 AATGAAAAA
17302385 GGGAAAAGGG
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
10 2 0.06
11 29 0.83
12 4 0.11
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.09
Consensus pattern (11 bp):
AATGAAAAAAA
Found at i:17303694 original size:50 final size:50
Alignment explanation
Indices: 17303381--17304111 Score: 447
Period size: 49 Copynumber: 14.8 Consensus size: 50
17303371 AGATTTAAAG
* * ** ** **
17303381 GGAAAGGTTAAGGCCGTAACGGAAAACCCGGCACCTTAGAAGATGTGACG
1 GGAAAGGTTGAGGCCGCAACGGCGAACCCGATACCTTAGAAGATGTGATA
* * * * * * * * *
17303431 GGAAAGGTTAAGGTCACAATGGTGAACCCGGTACC-AAGAAAATTTGA-A
1 GGAAAGGTTGAGGCCGCAACGGCGAACCCGATACCTTAGAAGATGTGATA
* * * * * * * *
17303479 GGGAAAGGTTGATGCCGTAATGGCGAACCTGGTACCTCA-AAAATGTGATG
1 -GGAAAGGTTGAGGCCGCAACGGCGAACCCGATACCTTAGAAGATGTGATA
* * * * * * *
17303529 GGAAAGATTGAGGCCGTAATGGCGAATCCGGTACCAT-GAA-ATGTGATG
1 GGAAAGGTTGAGGCCGCAACGGCGAACCCGATACCTTAGAAGATGTGATA
* * *
17303577 GGAAAGGTTGAGGCCGCAACGGTGAACCCGATACCATA-AAGATTTGA-A
1 GGAAAGGTTGAGGCCGCAACGGCGAACCCGATACCTTAGAAGATGTGATA
* * *
17303625 GGGAAAGGTTGAGGTCGCAATGGCGAACCCGATACCTTAAAAGATGTGATA
1 -GGAAAGGTTGAGGCCGCAACGGCGAACCCGATACCTTAGAAGATGTGATA
* * ** * * * *
17303676 GGAAAAGTTGAAGCCGCAACGGTAAACCC-AGTACCAT-GAAAATTTGAAA
1 GGAAAGGTTGAGGCCGCAACGGCGAACCCGA-TACCTTAGAAGATGTGATA
* * * * * * * *
17303725 GGAAGGGTTGAGACCGCGATGACGAATCTGATACCTCAGAAGATGTGATTA
1 GGAAAGGTTGAGGCCGCAACGGCGAACCCGATACCTTAGAAGATGTGA-TA
* * * * * * *
17303776 -GAAAGATTGAGGCCACAACGACAAATCCGATACCAT-GAAGATTTGA-A
1 GGAAAGGTTGAGGCCGCAACGGCGAACCCGATACCTTAGAAGATGTGATA
* * * *
17303823 GGGAAAGGTTGAGGCCGCAACGGCAAACGCGATACCTTAAAAGATGTGA-C
1 -GGAAAGGTTGAGGCCGCAACGGCGAACCCGATACCTTAGAAGATGTGATA
** * *
17303873 GGAAAAGGTTGAGGCCGCAACGATGAACCCGATACCTGAGAAGATATGATA
1 GG-AAAGGTTGAGGCCGCAACGGCGAACCCGATACCTTAGAAGATGTGATA
* * * * ** * * *
17303924 GGAAAGATTGAGGTCGCAATGGTGAGTCC-AGTACCAT-GAA-ATATGATG
1 GGAAAGGTTGAGGCCGCAACGGCGAACCCGA-TACCTTAGAAGATGTGATA
* * * * *
17303972 GGAAAGGTTGAGGTCGCAATGGCGAACCCGATACCAT-GAAGATTTTA-A
1 GGAAAGGTTGAGGCCGCAACGGCGAACCCGATACCTTAGAAGATGTGATA
* * *
17304020 GGGAAAGGTTGAGGCCGCAACGGCGAA-CCTAGTACCTTAGAAGATATGAAA
1 -GGAAAGGTTGAGGCCGCAACGGCGAACCCGA-TACCTTAGAAGATGTGATA
** *
17304071 GGAAAGGTTGAGGCCGCAACGATGAACCCGGTACCTTAGAA
1 GGAAAGGTTGAGGCCGCAACGGCGAACCCGATACCTTAGAA
17304112 AACAAGATGG
Statistics
Matches: 534, Mismatches: 121, Indels: 52
0.76 0.17 0.07
Matches are distributed among these distances:
47 1 0.00
48 85 0.16
49 227 0.43
50 214 0.40
51 7 0.01
ACGTcount: A:0.35, C:0.17, G:0.30, T:0.18
Consensus pattern (50 bp):
GGAAAGGTTGAGGCCGCAACGGCGAACCCGATACCTTAGAAGATGTGATA
Found at i:17303697 original size:99 final size:99
Alignment explanation
Indices: 17303528--17304105 Score: 509
Period size: 99 Copynumber: 5.9 Consensus size: 99
17303518 AAAATGTGAT
* * * * * *
17303528 GGGAAAGATTGAGGCCGTAATGGCGAATCCGGTACCAT-GAA-ATGTGATGGGAAAGGTTGAGGC
1 GGGAAAGGTTGAGGCCGCAATGGCGAATCCGATACCTTAGAAGATGTGATAGGAAAAGTTGAGGC
*
17303591 CGCAACGGTGAACCCGATACCATAAAGATTTGAA
66 CGCAACGATGAACCCGATACCATAAAGATTTGAA
* * * *
17303625 GGGAAAGGTTGAGGTCGCAATGGCGAACCCGATACCTTAAAAGATGTGATAGGAAAAGTTGAAGC
1 GGGAAAGGTTGAGGCCGCAATGGCGAATCCGATACCTTAGAAGATGTGATAGGAAAAGTTGAGGC
* *
17303690 CGCAACGGTAAACCC-AGTACCATGAAA-ATTTGAA
66 CGCAACGATGAACCCGA-TACCAT-AAAGATTTGAA
* * * * * * *
17303724 AGGAAGGGTTGAGACCGCGATGACGAATCTGATACCTCAGAAGATGTGATTA-G-AAAGATTGAG
1 GGGAAAGGTTGAGGCCGCAATGGCGAATCCGATACCTTAGAAGATGTGA-TAGGAAAAG-TTGAG
* ** * *
17303787 GCCACAACGACAAATCCGATACCATGAAGATTTGAA
64 GCCGCAACGATGAACCCGATACCATAAAGATTTGAA
* * * *
17303823 GGGAAAGGTTGAGGCCGCAACGGC-AAACGCGATACCTTAAAAGATGTGA-CGGAAAAGGTTGAG
1 GGGAAAGGTTGAGGCCGCAATGGCGAATC-CGATACCTTAGAAGATGTGATAGGAAAA-GTTGAG
*
17303886 GCCGCAACGATGAACCCGATACC-TGAGAAGATATGATA
64 GCCGCAACGATGAACCCGATACCAT-A-AAGATTTGA-A
* * * * * * * *
17303924 -GGAAAGATTGAGGTCGCAATGGTGAGTCC-AGTACCAT-GAA-ATATGATGGGAAAGGTTGAGG
1 GGGAAAGGTTGAGGCCGCAATGGCGAATCCGA-TACCTTAGAAGATGTGATAGGAAAAGTTGAGG
* * ** * *
17303985 TCGCAATGGCGAACCCGATACCATGAAGATTTTAA
65 CCGCAACGATGAACCCGATACCATAAAGATTTGAA
* * * * *
17304020 GGGAAAGGTTGAGGCCGCAACGGCGAA-CCTAGTACCTTAGAAGATATGAAAGGAAAGGTTGAGG
1 GGGAAAGGTTGAGGCCGCAATGGCGAATCCGA-TACCTTAGAAGATGTGATAGGAAAAGTTGAGG
*
17304084 CCGCAACGATGAACCCGGTACC
65 CCGCAACGATGAACCCGATACC
17304106 TTAGAAAACA
Statistics
Matches: 383, Mismatches: 75, Indels: 44
0.76 0.15 0.09
Matches are distributed among these distances:
96 3 0.01
97 67 0.17
98 47 0.12
99 223 0.58
100 40 0.10
101 3 0.01
ACGTcount: A:0.35, C:0.17, G:0.30, T:0.18
Consensus pattern (99 bp):
GGGAAAGGTTGAGGCCGCAATGGCGAATCCGATACCTTAGAAGATGTGATAGGAAAAGTTGAGGC
CGCAACGATGAACCCGATACCATAAAGATTTGAA
Found at i:17304357 original size:39 final size:38
Alignment explanation
Indices: 17304308--17304527 Score: 178
Period size: 39 Copynumber: 5.7 Consensus size: 38
17304298 AAAGATTTCG
* *
17304308 ATCTTTTACCCCGAGCCTAGGGCAGATCTTAATCAGCCA
1 ATCTCTTACCCCAAGCCTAGGGCAGATCTT-ATCAGCCA
** * * * * *
17304347 ATCTCTTACCCTGAGTCTGGGGCAGAT-TGCAGTCATCCG
1 ATCTCTTACCCCAAGCCTAGGGCAGATCT-TA-TCAGCCA
* * * * **
17304386 ATCTTTTACCCCAAGCTTAGAGCATATCACCATCAGCCA
1 ATCTCTTACCCCAAGCCTAGGGCAGATC-TTATCAGCCA
* *
17304425 ATCTCTTACCCCAAGCCTAAGGCAAATAAC-TATCAGCCA
1 ATCTCTTACCCCAAGCCTAGGGCAGAT--CTTATCAGCCA
*
17304464 ATCTCTTACCCCAAGCCTAGGGCAGATCACTATCAGCCA
1 ATCTCTTACCCCAAGCCTAGGGCAGATC-TTATCAGCCA
*
17304503 ATCTCTTACCCCGAGCC--GGGCAGAT
1 ATCTCTTACCCCAAGCCTAGGGCAGAT
17304528 TGCAACCATC
Statistics
Matches: 146, Mismatches: 27, Indels: 18
0.76 0.14 0.09
Matches are distributed among these distances:
37 9 0.06
38 2 0.01
39 132 0.90
40 2 0.01
41 1 0.01
ACGTcount: A:0.27, C:0.33, G:0.17, T:0.24
Consensus pattern (38 bp):
ATCTCTTACCCCAAGCCTAGGGCAGATCTTATCAGCCA
Found at i:17304421 original size:78 final size:76
Alignment explanation
Indices: 17304306--17304543 Score: 244
Period size: 78 Copynumber: 3.1 Consensus size: 76
17304296 ATAAAGATTT
* ** * *
17304306 CGATCTTTTACCCCGAGCCTAGGGCAGATCTTAATCAGCCAATCTCTTACCCTGAGTCTGGGGCA
1 CGATCTTTTACCCCAAGCCTAGGGCAGATCACAATCAGCCAATCTCTTACCCCGAG-CTAGGGCA
17304371 GATTGCAGTCATC
65 GATTGCA-TCATC
* * * * * *
17304384 CGATCTTTTACCCCAAGCTTAGAGCATATCACCATCAGCCAATCTCTTACCCCAAGCCTAAGGCA
1 CGATCTTTTACCCCAAGCCTAGGGCAGATCACAATCAGCCAATCTCTTACCCCGAG-CTAGGGCA
* ** *
17304449 AATAACTATCAGC
65 GATTGC-ATCATC
* * * *
17304462 CAATCTCTTACCCCAAGCCTAGGGCAGATCACTATCAGCCAATCTCTTACCCCGAGC-CGGGCAG
1 CGATCTTTTACCCCAAGCCTAGGGCAGATCACAATCAGCCAATCTCTTACCCCGAGCTAGGGCAG
*
17304526 ATTGCAACCATC
66 ATTGC-ATCATC
17304538 CGATCT
1 CGATCT
17304544 CTTTTAAAAC
Statistics
Matches: 127, Mismatches: 32, Indels: 4
0.78 0.20 0.02
Matches are distributed among these distances:
76 16 0.13
77 1 0.01
78 109 0.86
79 1 0.01
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.24
Consensus pattern (76 bp):
CGATCTTTTACCCCAAGCCTAGGGCAGATCACAATCAGCCAATCTCTTACCCCGAGCTAGGGCAG
ATTGCATCATC
Found at i:17306932 original size:21 final size:20
Alignment explanation
Indices: 17306904--17306942 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
17306894 ATTCTTGATT
17306904 CTTGTTATTGTTGTGTTTGA
1 CTTGTTATTGTTGTGTTTGA
*
17306924 CTTGATTATTGTTTTGTTT
1 CTTG-TTATTGTTGTGTTT
17306943 CATTTTCAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.10, C:0.05, G:0.21, T:0.64
Consensus pattern (20 bp):
CTTGTTATTGTTGTGTTTGA
Found at i:17308761 original size:30 final size:31
Alignment explanation
Indices: 17308725--17308784 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
17308715 CTTAAAACTC
17308725 TAAAATTCTCA-AAAATTATAAAAAAAAAAT
1 TAAAATTCTCATAAAATTATAAAAAAAAAAT
* * *
17308755 TAAAATTTTCATAAAGTTGTAAAAAAAAAA
1 TAAAATTCTCATAAAATTATAAAAAAAAAA
17308785 AAACACCAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 10 0.38
31 16 0.62
ACGTcount: A:0.63, C:0.05, G:0.03, T:0.28
Consensus pattern (31 bp):
TAAAATTCTCATAAAATTATAAAAAAAAAAT
Found at i:17308912 original size:6 final size:6
Alignment explanation
Indices: 17308903--17308927 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
17308893 TGAATTTGGG
17308903 TTTATT TTTATT TTTATT TTTATT T
1 TTTATT TTTATT TTTATT TTTATT T
17308928 ATCACATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTATT
Found at i:17309509 original size:21 final size:21
Alignment explanation
Indices: 17309474--17309523 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
17309464 ATAATAGCAT
* *
17309474 AATCCAAATATAAAGTTTAGA
1 AATCTAAACATAAAGTTTAGA
* *
17309495 AATTTAAACATAAAGTTTATA
1 AATCTAAACATAAAGTTTAGA
17309516 AATCTAAA
1 AATCTAAA
17309524 TTACATAATC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.54, C:0.08, G:0.06, T:0.32
Consensus pattern (21 bp):
AATCTAAACATAAAGTTTAGA
Found at i:17310298 original size:38 final size:38
Alignment explanation
Indices: 17310246--17310331 Score: 163
Period size: 38 Copynumber: 2.3 Consensus size: 38
17310236 CCGGCCCGAG
*
17310246 CCCGACCTGTGAACCCGTAAAAAATAGCGGGTCGGGTA
1 CCCGACCTGAGAACCCGTAAAAAATAGCGGGTCGGGTA
17310284 CCCGACCTGAGAACCCGTAAAAAATAGCGGGTCGGGTA
1 CCCGACCTGAGAACCCGTAAAAAATAGCGGGTCGGGTA
17310322 CCCGACCTGA
1 CCCGACCTGA
17310332 ATTTTTTTTT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 47 1.00
ACGTcount: A:0.29, C:0.29, G:0.28, T:0.14
Consensus pattern (38 bp):
CCCGACCTGAGAACCCGTAAAAAATAGCGGGTCGGGTA
Found at i:17311927 original size:119 final size:119
Alignment explanation
Indices: 17311769--17312008 Score: 480
Period size: 119 Copynumber: 2.0 Consensus size: 119
17311759 CCCACGATCG
17311769 ATACCTCTCTCACTCATTTATATATATATATATATATTTTTTGATGTTGTTTTAAACTTCTTCTT
1 ATACCTCTCTCACTCATTTATATATATATATATATATTTTTTGATGTTGTTTTAAACTTCTTCTT
17311834 TTTTAATGAATATTTTTAATATGTTAGCTTCCTTAGTTAAATGATTAAATAAAA
66 TTTTAATGAATATTTTTAATATGTTAGCTTCCTTAGTTAAATGATTAAATAAAA
17311888 ATACCTCTCTCACTCATTTATATATATATATATATATTTTTTGATGTTGTTTTAAACTTCTTCTT
1 ATACCTCTCTCACTCATTTATATATATATATATATATTTTTTGATGTTGTTTTAAACTTCTTCTT
17311953 TTTTAATGAATATTTTTAATATGTTAGCTTCCTTAGTTAAATGATTAAATAAAA
66 TTTTAATGAATATTTTTAATATGTTAGCTTCCTTAGTTAAATGATTAAATAAAA
17312007 AT
1 AT
17312009 GATTTTATCC
Statistics
Matches: 121, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
119 121 1.00
ACGTcount: A:0.32, C:0.11, G:0.07, T:0.50
Consensus pattern (119 bp):
ATACCTCTCTCACTCATTTATATATATATATATATATTTTTTGATGTTGTTTTAAACTTCTTCTT
TTTTAATGAATATTTTTAATATGTTAGCTTCCTTAGTTAAATGATTAAATAAAA
Found at i:17312182 original size:144 final size:144
Alignment explanation
Indices: 17311945--17312234 Score: 438
Period size: 144 Copynumber: 2.0 Consensus size: 144
17311935 TGTTTTAAAC
* * * * *
17311945 TTCTTCTTTTTTAATGAATATTTTTAATATGTTAGCTTCCTTAGTTAAATGATTAAATAAAAATG
1 TTCTTCTTTTTTAATGAATATTTTTAACATATCAGCTTCCTTAGTTAAATAACTAAATAAAAATG
*
17312010 ATTTTATCCTTGAGACCCAAGTTCAATTCCCCTTTCCTAAACACATTTATAATTTTTATTTCATA
66 ATTTTATCATTGAGACCCAAGTTCAATTCCCCTTTCCTAAACACATTTATAATTTTTATTTCATA
*
17312075 TTGTTTTAAATTTT
131 TTGTTTCAAATTTT
* *
17312089 TTCTT-TTTTTTAAATGAATGTTTTTAACATATCAGCTTCCTTAGTTAAATAACTAAATAATAAT
1 TTCTTCTTTTTT-AATGAATATTTTTAACATATCAGCTTCCTTAGTTAAATAACTAAATAAAAAT
* * * *
17312153 GATTTTATCATTGAGACCCAAGTTCAATTCTCCTTTTCTAAACATATTTGTAATTTTTATTTCAT
65 GATTTTATCATTGAGACCCAAGTTCAATTCCCCTTTCCTAAACACATTTATAATTTTTATTTCAT
*
17312218 ATTGTTTCAAGTTTT
130 ATTGTTTCAAATTTT
17312233 TT
1 TT
17312235 TATTTAAATT
Statistics
Matches: 131, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
143 6 0.05
144 125 0.95
ACGTcount: A:0.30, C:0.13, G:0.07, T:0.49
Consensus pattern (144 bp):
TTCTTCTTTTTTAATGAATATTTTTAACATATCAGCTTCCTTAGTTAAATAACTAAATAAAAATG
ATTTTATCATTGAGACCCAAGTTCAATTCCCCTTTCCTAAACACATTTATAATTTTTATTTCATA
TTGTTTCAAATTTT
Found at i:17312518 original size:13 final size:15
Alignment explanation
Indices: 17312487--17312523 Score: 53
Period size: 13 Copynumber: 2.7 Consensus size: 15
17312477 TATACGTGGA
17312487 GAAA-ATAAATATTT
1 GAAATATAAATATTT
17312501 GAAATATAAATA-TT
1 GAAATATAAATATTT
17312515 -AAATATAAA
1 GAAATATAAA
17312524 GAAAAATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 9 0.41
14 6 0.27
15 7 0.32
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.32
Consensus pattern (15 bp):
GAAATATAAATATTT
Found at i:17313567 original size:28 final size:31
Alignment explanation
Indices: 17313523--17313594 Score: 105
Period size: 28 Copynumber: 2.4 Consensus size: 31
17313513 CAAATGTTTT
* *
17313523 TAAAATTGTTAACATTA-TTTTTT-AAAT-A
1 TAAAATTATTAAAATTATTTTTTTGAAATAA
17313551 TAAAATTATTAAAATTATTTTTTTGAAATAA
1 TAAAATTATTAAAATTATTTTTTTGAAATAA
17313582 TAAAATTATTAAA
1 TAAAATTATTAAA
17313595 TAATTTACAA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
28 15 0.38
29 6 0.15
30 4 0.10
31 14 0.36
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (31 bp):
TAAAATTATTAAAATTATTTTTTTGAAATAA
Found at i:17314744 original size:31 final size:29
Alignment explanation
Indices: 17314709--17314780 Score: 101
Period size: 28 Copynumber: 2.4 Consensus size: 29
17314699 ATTAAAATTA
17314709 TTTAATAATTTTATTATTTCAAAAAAATAAT
1 TTTAATAATTTTA-TATTT-AAAAAAATAAT
*
17314740 TTTAATAA-TTTATATTTTAAAAAATAAT
1 TTTAATAATTTTATATTTAAAAAAATAAT
*
17314768 TTTAGTAATTTTA
1 TTTAATAATTTTA
17314781 AAATCATTTG
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
28 17 0.45
29 9 0.24
30 4 0.11
31 8 0.21
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (29 bp):
TTTAATAATTTTATATTTAAAAAAATAAT
Found at i:17317898 original size:24 final size:24
Alignment explanation
Indices: 17317871--17317943 Score: 119
Period size: 24 Copynumber: 3.0 Consensus size: 24
17317861 TTTGACTCAG
*
17317871 ACAAATAAATAAAGTTTAATTGAA
1 ACAAATAAATAGAGTTTAATTGAA
17317895 ACAAATAAATAGAGTTTAATTGAA
1 ACAAATAAATAGAGTTTAATTGAA
* *
17317919 ACAATTAAACAGAGTTTAATTGAA
1 ACAAATAAATAGAGTTTAATTGAA
17317943 A
1 A
17317944 GATTATTTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 46 1.00
ACGTcount: A:0.55, C:0.05, G:0.11, T:0.29
Consensus pattern (24 bp):
ACAAATAAATAGAGTTTAATTGAA
Found at i:17319040 original size:30 final size:30
Alignment explanation
Indices: 17319006--17319062 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
17318996 ACCAAAATAG
*
17319006 TTAATTAAGGTTAATG-TTAATAAATTAGGA
1 TTAATTAA-GTTAAGGATTAATAAATTAGGA
*
17319036 TTAATTAAGTTAAGGATTAATTAATTA
1 TTAATTAAGTTAAGGATTAATAAATTA
17319063 ATAAACTAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 6 0.25
30 18 0.75
ACGTcount: A:0.44, C:0.00, G:0.14, T:0.42
Consensus pattern (30 bp):
TTAATTAAGTTAAGGATTAATAAATTAGGA
Found at i:17319053 original size:16 final size:16
Alignment explanation
Indices: 17319006--17319063 Score: 61
Period size: 16 Copynumber: 3.8 Consensus size: 16
17318996 ACCAAAATAG
*
17319006 TTAATTAAGGTTAATG-
1 TTAATTAA-GTTAAGGA
*
17319022 TTAA-TAAATT-AGGA
1 TTAATTAAGTTAAGGA
17319036 TTAATTAAGTTAAGGA
1 TTAATTAAGTTAAGGA
17319052 TTAATTAA-TTAA
1 TTAATTAAGTTAA
17319064 TAAACTAACT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
13 2 0.06
14 6 0.17
15 12 0.33
16 16 0.44
ACGTcount: A:0.45, C:0.00, G:0.14, T:0.41
Consensus pattern (16 bp):
TTAATTAAGTTAAGGA
Found at i:17320168 original size:46 final size:46
Alignment explanation
Indices: 17320101--17320208 Score: 135
Period size: 46 Copynumber: 2.3 Consensus size: 46
17320091 TTATGTTACA
* * * *
17320101 GGTGATCAGGCACTATTATGTTATTCGTATAGGTTCAACCCTAATG
1 GGTGACCAAGCACTATTATGTTATTCATATAGGTTCAACCCTAACG
* * *
17320147 GGTGACCAAGCACTATTATGTTATTCATGTAGGTTTAACCCTAGCG
1 GGTGACCAAGCACTATTATGTTATTCATATAGGTTCAACCCTAACG
* *
17320193 GGTAACCAAACACTAT
1 GGTGACCAAGCACTAT
17320209 GATTTCTTAT
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
46 53 1.00
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.31
Consensus pattern (46 bp):
GGTGACCAAGCACTATTATGTTATTCATATAGGTTCAACCCTAACG
Found at i:17321203 original size:25 final size:25
Alignment explanation
Indices: 17321155--17321203 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
17321145 TATGTGTGCT
* *
17321155 ACACGTTCAGGTTGATTTTTAGTTC
1 ACACGTTCAAGTTGATTTTGAGTTC
17321180 ACACGTTCAAGTTG-TTTATGAGTT
1 ACACGTTCAAGTTGATTT-TGAGTT
17321204 AGAAAGCTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 3 0.14
25 18 0.86
ACGTcount: A:0.22, C:0.14, G:0.20, T:0.43
Consensus pattern (25 bp):
ACACGTTCAAGTTGATTTTGAGTTC
Found at i:17321385 original size:31 final size:30
Alignment explanation
Indices: 17321350--17321413 Score: 105
Period size: 28 Copynumber: 2.2 Consensus size: 30
17321340 GTGTGCAATG
17321350 TATTTTGTCACTACACTCAATACTTAATGAT
1 TATTTT-TCACTACACTCAATACTTAATGAT
17321381 TA--TTTCACTACACTCAATACTTAATGAT
1 TATTTTTCACTACACTCAATACTTAATGAT
17321409 TATTT
1 TATTT
17321414 CAAATATATA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
28 26 0.84
29 2 0.06
30 1 0.03
31 2 0.06
ACGTcount: A:0.33, C:0.19, G:0.05, T:0.44
Consensus pattern (30 bp):
TATTTTTCACTACACTCAATACTTAATGAT
Found at i:17321389 original size:28 final size:28
Alignment explanation
Indices: 17321357--17321415 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
17321347 ATGTATTTTG
17321357 TCACTACACTCAATACTTAATGATTATT
1 TCACTACACTCAATACTTAATGATTATT
17321385 TCACTACACTCAATACTTAATGATTATT
1 TCACTACACTCAATACTTAATGATTATT
17321413 TCA
1 TCA
17321416 AATATATATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.36, C:0.22, G:0.03, T:0.39
Consensus pattern (28 bp):
TCACTACACTCAATACTTAATGATTATT
Found at i:17326555 original size:6 final size:6
Alignment explanation
Indices: 17326546--17326586 Score: 82
Period size: 6 Copynumber: 6.8 Consensus size: 6
17326536 GTGTTATGTT
17326546 TATTTA TATTTA TATTTA TATTTA TATTTA TATTTA TATTT
1 TATTTA TATTTA TATTTA TATTTA TATTTA TATTTA TATTT
17326587 TTTTACACCC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TATTTA
Found at i:17331139 original size:18 final size:17
Alignment explanation
Indices: 17331096--17331142 Score: 58
Period size: 18 Copynumber: 2.7 Consensus size: 17
17331086 GTATACATAT
17331096 GTATTTAAAAAATACAA
1 GTATTTAAAAAATACAA
* * *
17331113 TTATATAAATAAATATAA
1 GTATTTAAA-AAATACAA
17331131 GTATTTAAAAAA
1 GTATTTAAAAAA
17331143 GAAAAAGTGA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
17 10 0.42
18 14 0.58
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (17 bp):
GTATTTAAAAAATACAA
Found at i:17333825 original size:23 final size:23
Alignment explanation
Indices: 17333799--17333843 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
17333789 AGACTTTTGC
17333799 TTTTTTTTTCATTTAAATTAAAG
1 TTTTTTTTTCATTTAAATTAAAG
17333822 TTTTTTTTTCATTTAAATTAAA
1 TTTTTTTTTCATTTAAATTAAA
17333844 CTTCATTCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.62
Consensus pattern (23 bp):
TTTTTTTTTCATTTAAATTAAAG
Found at i:17334411 original size:31 final size:31
Alignment explanation
Indices: 17334362--17334424 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 31
17334352 TTTTAATGAT
* *
17334362 AAAATTACACTTTGATCCTTTCAAAAATGATAA
1 AAAATTACACTTTAATCC-TT-AAAAATCATAA
17334395 AAAATTA-A-TTTAATCCTTAAAAATCATAA
1 AAAATTACACTTTAATCCTTAAAAATCATAA
17334424 A
1 A
17334425 TATATAGACC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 11 0.39
30 2 0.07
31 7 0.25
32 1 0.04
33 7 0.25
ACGTcount: A:0.51, C:0.13, G:0.03, T:0.33
Consensus pattern (31 bp):
AAAATTACACTTTAATCCTTAAAAATCATAA
Found at i:17334908 original size:22 final size:22
Alignment explanation
Indices: 17334883--17334926 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
17334873 ATAAATTTCG
17334883 AATTTAATTTTTGTGTTTTTTT
1 AATTTAATTTTTGTGTTTTTTT
* * *
17334905 AATTTAGTTTTTTTTTTTTTTT
1 AATTTAATTTTTGTGTTTTTTT
17334927 TAAAATTTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.07, T:0.77
Consensus pattern (22 bp):
AATTTAATTTTTGTGTTTTTTT
Found at i:17338177 original size:32 final size:32
Alignment explanation
Indices: 17338141--17338208 Score: 95
Period size: 32 Copynumber: 2.2 Consensus size: 32
17338131 AAAAGGAGTT
17338141 GTTTATGAGTATTATTT-AAGAATAAAATTATA
1 GTTTATGAGTATT-TTTGAAGAATAAAATTATA
* *
17338173 GTTTATGAGTGTTTTTGAAGAATGAAATTATA
1 GTTTATGAGTATTTTTGAAGAATAAAATTATA
17338205 -TTTA
1 GTTTA
17338209 GGTTTAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
31 7 0.21
32 26 0.79
ACGTcount: A:0.38, C:0.00, G:0.16, T:0.46
Consensus pattern (32 bp):
GTTTATGAGTATTTTTGAAGAATAAAATTATA
Found at i:17338489 original size:14 final size:14
Alignment explanation
Indices: 17338472--17338498 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
17338462 TTCGTTTAAC
17338472 TCGAATAATTCGAT
1 TCGAATAATTCGAT
17338486 TCGAATAATTCGA
1 TCGAATAATTCGA
17338499 AATTCAAAAA
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:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (14 bp):
TCGAATAATTCGAT
Found at i:17340232 original size:19 final size:19
Alignment explanation
Indices: 17340194--17340233 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
17340184 CGCCAGATCA
*
17340194 TCTTCGATTCTTCTTGATT
1 TCTTCGATTCTTCTTCATT
* *
17340213 TCTTCGATTTTTTTTCATT
1 TCTTCGATTCTTCTTCATT
17340232 TC
1 TC
17340234 ACCACTCAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.10, C:0.20, G:0.07, T:0.62
Consensus pattern (19 bp):
TCTTCGATTCTTCTTCATT
Found at i:17352214 original size:21 final size:23
Alignment explanation
Indices: 17352189--17352244 Score: 80
Period size: 21 Copynumber: 2.5 Consensus size: 23
17352179 AACTTGAGTT
*
17352189 GTATCAGTAGTTAAATTAT-G-A
1 GTATCGGTAGTTAAATTATAGAA
*
17352210 GTATCGGTAGTTATATTATAGAA
1 GTATCGGTAGTTAAATTATAGAA
17352233 GTATCGGTAGTT
1 GTATCGGTAGTT
17352245 TGCATGCTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
21 17 0.55
22 1 0.03
23 13 0.42
ACGTcount: A:0.32, C:0.05, G:0.23, T:0.39
Consensus pattern (23 bp):
GTATCGGTAGTTAAATTATAGAA
Found at i:17352707 original size:20 final size:20
Alignment explanation
Indices: 17352661--17352699 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
17352651 CCAAGTAAAA
**
17352661 AAGTATCGATACTTTTTGTC
1 AAGTATCGATAAATTTTGTC
17352681 AAGTATCGATAAATTTTGT
1 AAGTATCGATAAATTTTGT
17352700 TGAGTATCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.44
Consensus pattern (20 bp):
AAGTATCGATAAATTTTGTC
Found at i:17358788 original size:25 final size:25
Alignment explanation
Indices: 17358754--17358801 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
17358744 ATCACATAAG
*
17358754 ACTTGGTAAATTGATGAA-CTTACGA
1 ACTTGGTAAACT-ATGAAGCTTACGA
*
17358779 ACTTGTTAAACTATGAAGCTTAC
1 ACTTGGTAAACTATGAAGCTTAC
17358802 CAGTGAACTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (25 bp):
ACTTGGTAAACTATGAAGCTTACGA
Found at i:17362160 original size:59 final size:58
Alignment explanation
Indices: 17362097--17362209 Score: 149
Period size: 59 Copynumber: 1.9 Consensus size: 58
17362087 AACGATGGTT
*
17362097 GACACC-CTCTTTTTTAGATACCAAAGAA-ATATTTTTTGGGTGATTGTCAACCCATAGTC
1 GACACCTC-CTTTTTTAGATACCAAA-AATAT-TTTTTTGGGTGATTGACAACCCATAGTC
* * *
17362156 GACACCTCCTTTTTTAGATGCCAAAATTATTTTTTTGGGTGTTTGACAACCCAT
1 GACACCTCCTTTTTTAGATACCAAAAATATTTTTTTGGGTGATTGACAACCCAT
17362210 GACAGACACC
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
58 23 0.48
59 24 0.50
60 1 0.02
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.38
Consensus pattern (58 bp):
GACACCTCCTTTTTTAGATACCAAAAATATTTTTTTGGGTGATTGACAACCCATAGTC
Found at i:17362206 original size:58 final size:59
Alignment explanation
Indices: 17362097--17362209 Score: 151
Period size: 58 Copynumber: 1.9 Consensus size: 59
17362087 AACGATGGTT
*
17362097 GACACCCTCTTTTTTAGATACCAAAGAAATATTTTTTGGGTGATTGTCAACCCATAGTC
1 GACACCCTCTTTTTTAGATACCAAAGAAATATTTTTTGGGTGATTGACAACCCATAGTC
* * *
17362156 GACA-CCTCCTTTTTTAGATGCC-AA-AATTATTTTTTTGGGTGTTTGACAACCCAT
1 GACACCCT-CTTTTTTAGATACCAAAGAAATA-TTTTTTGGGTGATTGACAACCCAT
17362210 GACAGACACC
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
57 4 0.08
58 27 0.56
59 17 0.35
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.38
Consensus pattern (59 bp):
GACACCCTCTTTTTTAGATACCAAAGAAATATTTTTTGGGTGATTGACAACCCATAGTC
Found at i:17362308 original size:60 final size:59
Alignment explanation
Indices: 17362224--17362353 Score: 138
Period size: 60 Copynumber: 2.2 Consensus size: 59
17362214 GACACCCAAA
* * * * * *
17362224 AATAAAAAAAT-TATATTTTGGTGTTTGTCATCTAATG-GCTGACACCCACAAATAATACG
1 AATAAAAAAATATATATTTTCGTGTTTGACAACCAATGATC-GAAACCCACAAA-AATACG
* * *
17362283 AATAAAAAAATATTTTTTTTCGTGTTTGACAACCAATGATCGAAACCCATAAAAATACG
1 AATAAAAAAATATATATTTTCGTGTTTGACAACCAATGATCGAAACCCACAAAAATACG
*
17362342 AATTAAAAAATA
1 AATAAAAAAATA
17362354 AATTTTTTGG
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
59 28 0.47
60 30 0.51
61 1 0.02
ACGTcount: A:0.45, C:0.14, G:0.11, T:0.31
Consensus pattern (59 bp):
AATAAAAAAATATATATTTTCGTGTTTGACAACCAATGATCGAAACCCACAAAAATACG
Found at i:17362591 original size:30 final size:31
Alignment explanation
Indices: 17362552--17362634 Score: 114
Period size: 30 Copynumber: 2.7 Consensus size: 31
17362542 GAATTTCTGG
* *
17362552 GTTGAATTATATACTATCATGTATAGCCGGA
1 GTTGAATTATATACTGTCATGTATAGCCGAA
* * *
17362583 GTTG-ATTATATACTGTCTTGTATTGTCGAA
1 GTTGAATTATATACTGTCATGTATAGCCGAA
17362613 GTTGAATTATATACTGTCATGT
1 GTTGAATTATATACTGTCATGT
17362635 GAAGCAGCAA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
30 25 0.56
31 20 0.44
ACGTcount: A:0.28, C:0.11, G:0.19, T:0.42
Consensus pattern (31 bp):
GTTGAATTATATACTGTCATGTATAGCCGAA
Found at i:17364308 original size:22 final size:22
Alignment explanation
Indices: 17364214--17364348 Score: 134
Period size: 22 Copynumber: 6.2 Consensus size: 22
17364204 TTTCATTTGT
17364214 AAAAAATATTTCGAAAATGTAA
1 AAAAAATATTTCGAAAATGTAA
* **
17364236 ACAAAA-ATTTCGAAAATACAAA
1 AAAAAATATTTCGAAAAT-GTAA
** **
17364258 AAATATAATATTTTTAATTTGT--
1 AAA-A-AATATTTCGAAAATGTAA
*
17364280 AAAAAATATTTCCAAAATGTAA
1 AAAAAATATTTCGAAAATGTAA
17364302 AAAAAATATTTCGAAAATGTAA
1 AAAAAATATTTCGAAAATGTAA
*
17364324 AAAAAATATTT-GAAAATATAA
1 AAAAAATATTTCGAAAATGTAA
17364345 AAAA
1 AAAA
17364349 TATTTTTTAA
Statistics
Matches: 91, Mismatches: 16, Indels: 13
0.76 0.13 0.11
Matches are distributed among these distances:
20 12 0.13
21 25 0.27
22 44 0.48
23 1 0.01
24 2 0.02
25 7 0.08
ACGTcount: A:0.59, C:0.05, G:0.06, T:0.30
Consensus pattern (22 bp):
AAAAAATATTTCGAAAATGTAA
Found at i:17364326 original size:66 final size:64
Alignment explanation
Indices: 17364208--17364334 Score: 184
Period size: 66 Copynumber: 2.0 Consensus size: 64
17364198 AAAATATTTC
* *
17364208 ATTTGTAAAAAATATTTCGAAAATGTAAACAAAAATTTCGAAAATACAAAAAATATAATATTTTT
1 ATTTGTAAAAAATATTTCCAAAATGTAAAAAAAAATTTCGAAAATACAAAAAA-A-AATATTTTT
17364273 A
64 A
**
17364274 ATTTGTAAAAAATATTTCCAAAATGTAAAAAAAATATTTCGAAAAT-GTAAAAAAAATATTT
1 ATTTGTAAAAAATATTTCCAAAATGTAAAAAAAA-ATTTCGAAAATACAAAAAAAAATATTT
17364335 GAAAATATAA
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
64 7 0.12
65 1 0.02
66 37 0.66
67 11 0.20
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.33
Consensus pattern (64 bp):
ATTTGTAAAAAATATTTCCAAAATGTAAAAAAAAATTTCGAAAATACAAAAAAAAATATTTTTA
Found at i:17365788 original size:22 final size:21
Alignment explanation
Indices: 17365761--17365832 Score: 63
Period size: 21 Copynumber: 3.3 Consensus size: 21
17365751 TTTTGAAAAC
*
17365761 ATTTTATTTTTTTATTATTTGA
1 ATTTTATTTATTT-TTATTTGA
*
17365783 ATTTTAAATATATTTTTATTTGA
1 ATTTT--ATTTATTTTTATTTGA
* * **
17365806 ATTTAAATCGTTTTTATTTGA
1 ATTTTATTTATTTTTATTTGA
17365827 ATTTTA
1 ATTTTA
17365833 AAATTTTTTT
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
21 17 0.43
22 5 0.12
23 12 0.30
24 6 0.15
ACGTcount: A:0.29, C:0.01, G:0.06, T:0.64
Consensus pattern (21 bp):
ATTTTATTTATTTTTATTTGA
Found at i:17365805 original size:23 final size:23
Alignment explanation
Indices: 17365775--17365842 Score: 88
Period size: 22 Copynumber: 3.1 Consensus size: 23
17365765 TATTTTTTTA
17365775 TTATTTGAATTTTAAATATATTT
1 TTATTTGAATTTTAAATATATTT
**
17365798 TTATTTGAA-TTTAAAT-CGTTT
1 TTATTTGAATTTTAAATATATTT
*
17365819 TTATTTGAATTTTAAA-ATTTTT
1 TTATTTGAATTTTAAATATATTT
17365841 TT
1 TT
17365843 TCACATCTGA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
21 12 0.31
22 18 0.46
23 9 0.23
ACGTcount: A:0.31, C:0.01, G:0.06, T:0.62
Consensus pattern (23 bp):
TTATTTGAATTTTAAATATATTT
Found at i:17365840 original size:21 final size:22
Alignment explanation
Indices: 17365775--17365842 Score: 86
Period size: 21 Copynumber: 3.1 Consensus size: 22
17365765 TATTTTTTTA
17365775 TTATTTGAATTTTAAATATATTT
1 TTATTTGAATTTTAAA-ATATTT
*
17365798 TTATTTGAA-TTT-AAATCGTTT
1 TTATTTGAATTTTAAAAT-ATTT
*
17365819 TTATTTGAATTTTAAAATTTTT
1 TTATTTGAATTTTAAAATATTT
17365841 TT
1 TT
17365843 TCACATCTGA
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
20 2 0.05
21 14 0.35
22 11 0.28
23 13 0.32
ACGTcount: A:0.31, C:0.01, G:0.06, T:0.62
Consensus pattern (22 bp):
TTATTTGAATTTTAAAATATTT
Found at i:17365843 original size:23 final size:22
Alignment explanation
Indices: 17365768--17365843 Score: 91
Period size: 23 Copynumber: 3.4 Consensus size: 22
17365758 AACATTTTAT
17365768 TTTTTTATTATTTGAATTTTAAA
1 TTTTTT-TTATTTGAATTTTAAA
*
17365791 TATATTTTTATTTGAA-TTTAAA
1 T-TTTTTTTATTTGAATTTTAAA
**
17365813 TCGTTTTTATTTGAATTTTAAAA
1 TTTTTTTTATTTGAATTTT-AAA
17365836 TTTTTTTT
1 TTTTTTTT
17365844 CACATCTGAC
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
21 12 0.27
22 10 0.22
23 19 0.42
24 4 0.09
ACGTcount: A:0.29, C:0.01, G:0.05, T:0.64
Consensus pattern (22 bp):
TTTTTTTTATTTGAATTTTAAA
Found at i:17366102 original size:25 final size:25
Alignment explanation
Indices: 17366073--17366162 Score: 82
Period size: 25 Copynumber: 3.6 Consensus size: 25
17366063 ATTTAAAATA
17366073 TATTTAAATTTTAAATATTTTTTAT
1 TATTTAAATTTTAAATATTTTTTAT
* *
17366098 CATTTTAATTTT-AAT-TTTAATTT-T
1 TATTTAAATTTTAAATATTT--TTTAT
*
17366122 TAGTTTAAATTTCAAATATATTTTTAT
1 TA-TTTAAATTTTAAATAT-TTTTTAT
17366149 TATTT-AA-TTTAAAT
1 TATTTAAATTTTAAAT
17366163 TTAAATTTTT
Statistics
Matches: 52, Mismatches: 6, Indels: 15
0.71 0.08 0.21
Matches are distributed among these distances:
23 3 0.06
24 11 0.21
25 23 0.44
26 9 0.17
27 4 0.08
28 2 0.04
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.61
Consensus pattern (25 bp):
TATTTAAATTTTAAATATTTTTTAT
Found at i:17366129 original size:50 final size:50
Alignment explanation
Indices: 17366075--17366219 Score: 150
Period size: 50 Copynumber: 2.9 Consensus size: 50
17366065 TTAAAATATA
* * *
17366075 TTTAAATTTTAAATAT-TTTTTATCATTTTAATTTTAATTTTAATTTTTAG
1 TTTAAATTTCAAATATATTTTTATCA-TTTAATTTAAATTTAAATTTTTAG
* *
17366125 TTTAAATTTCAAATATATTTTTATTATTTAATTTAAATTTAAATTTTTAA
1 TTTAAATTTCAAATATATTTTTATCATTTAATTTAAATTTAAATTTTTAG
* * ** * * * *
17366175 TTTCATTTTCATTTAAATTTTAATC-TTTAATTTTAATTTCAATTT
1 TTTAAATTTCAAATATATTTTTATCATTTAATTTAAATTTAAATTT
17366220 CAATTTCATT
Statistics
Matches: 80, Mismatches: 14, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
49 18 0.22
50 54 0.68
51 8 0.10
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (50 bp):
TTTAAATTTCAAATATATTTTTATCATTTAATTTAAATTTAAATTTTTAG
Found at i:17366290 original size:35 final size:35
Alignment explanation
Indices: 17366151--17366425 Score: 275
Period size: 35 Copynumber: 7.7 Consensus size: 35
17366141 ATTTTTATTA
* * *
17366151 TTTAATTTAAATTTAAATTTTTAATTTCATTTTCAT
1 TTTAATTTTAATTTTAA-TTTTAATTTCAATTTCAT
* *
17366187 TTAAATTTTAATCTTTAATTTTAATTTCAATTTCAA
1 TTTAATTTTAAT-TTTAATTTTAATTTCAATTTCAT
* *
17366223 TTTCATTTTAATTTTAATTTTTAATTTCAATTTCAA
1 TTTAATTTTAATTTTAA-TTTTAATTTCAATTTCAT
* *
17366259 TTTCATTTTAATTTTAATTTTAATTTTAATTTCAAT
1 TTTAATTTTAATTTTAATTTTAATTTCAATTTC-AT
* * * *
17366295 TTCAA-TTTCATTTTCATTTTCATTAT-AATTTCAAT
1 TTTAATTTTAATTTTAATTTTAATT-TCAATTTC-AT
* * *
17366330 TTTAATTTCAATTTCAATTTCAATTTCAATTTCAT
1 TTTAATTTTAATTTTAATTTTAATTTCAATTTCAT
* ** **
17366365 TTTAATTTCAATTTCGATTTCGATTTCAATTTCAT
1 TTTAATTTTAATTTTAATTTTAATTTCAATTTCAT
* *
17366400 TTTAGTTTAAATTTTAATTTTAATTT
1 TTTAATTTTAATTTTAATTTTAATTT
17366426 TTATATCTTA
Statistics
Matches: 204, Mismatches: 29, Indels: 13
0.83 0.12 0.05
Matches are distributed among these distances:
35 105 0.51
36 95 0.47
37 4 0.02
ACGTcount: A:0.31, C:0.09, G:0.01, T:0.59
Consensus pattern (35 bp):
TTTAATTTTAATTTTAATTTTAATTTCAATTTCAT
Found at i:17366299 original size:47 final size:47
Alignment explanation
Indices: 17366175--17366426 Score: 291
Period size: 47 Copynumber: 5.4 Consensus size: 47
17366165 AAATTTTTAA
* * * * *
17366175 TTTCATTTTCATTTAAATTTTAATCTTTAATTTTAATTTCAATTTCAA
1 TTTCATTTTAATTTTAATTTTAAT-TTCAATTTCAATTTCAATTTCAT
17366223 TTTCATTTTAATTTTAA--TT--TTT-AATTTCAATTTCAATTTCAT
1 TTTCATTTTAATTTTAATTTTAATTTCAATTTCAATTTCAATTTCAT
* *
17366265 TTTAATTTTAATTTTAATTTTAATTTCAATTTCAATTTCATTTTCAT
1 TTTCATTTTAATTTTAATTTTAATTTCAATTTCAATTTCAATTTCAT
* * *
17366312 TTTCATTATAATTTCAATTTTAATTTCAATTTCAATTTCAATTTCAA
1 TTTCATTTTAATTTTAATTTTAATTTCAATTTCAATTTCAATTTCAT
* ** * *
17366359 TTTCATTTTAATTTCAATTTCGATTTCGATTTCAATTTC-ATTTTAGT
1 TTTCATTTTAATTTTAATTTTAATTTCAATTTCAATTTCAATTTCA-T
**
17366406 TTAAATTTTAATTTTAATTTT
1 TTTCATTTTAATTTTAATTTT
17366427 TATATCTTAA
Statistics
Matches: 177, Mismatches: 21, Indels: 13
0.84 0.10 0.06
Matches are distributed among these distances:
42 34 0.19
43 2 0.01
44 3 0.02
46 10 0.06
47 113 0.64
48 15 0.08
ACGTcount: A:0.30, C:0.10, G:0.01, T:0.59
Consensus pattern (47 bp):
TTTCATTTTAATTTTAATTTTAATTTCAATTTCAATTTCAATTTCAT
Found at i:17366428 original size:7 final size:6
Alignment explanation
Indices: 17366099--17366426 Score: 218
Period size: 6 Copynumber: 54.8 Consensus size: 6
17366089 ATTTTTTATC
* * * * * *
17366099 ATTTTA ATTTTA ATTTTA ATTTTTA GTTTAA ATTTCA AATATA TTTTTA
1 ATTTTA ATTTTA ATTTTA A-TTTTA ATTTTA ATTTTA ATTTTA ATTTTA
* * * * * *
17366148 TTATTTA ATTTAA ATTTAA ATTTTTA A-TTTC ATTTTC ATTTAA ATTTTA
1 AT-TTTA ATTTTA ATTTTA A-TTTTA ATTTTA ATTTTA ATTTTA ATTTTA
* * *
17366197 ATCTTTA ATTTTA ATTTCA ATTTCA A-TTTC ATTTTA ATTTTA ATTTTTA
1 AT-TTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA A-TTTTA
* * * *
17366246 ATTTCA ATTTCA A-TTTC ATTTTA ATTTTA ATTTTA ATTTTA ATTTCA
1 ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA
* * * * * * *
17366293 ATTTCA A-TTTC ATTTTC ATTTTC ATTATA ATTTCA ATTTTA ATTTCA
1 ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA
* * * * * ** **
17366340 ATTTCA ATTTCA ATTTCA A-TTTC ATTTTA ATTTCA ATTTCG ATTTCG
1 ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA
* * * *
17366387 ATTTCA A-TTTC ATTTTA GTTTAA ATTTTA ATTTTA ATTTT
1 ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTTT
17366427 TATATCTTAA
Statistics
Matches: 264, Mismatches: 47, Indels: 22
0.79 0.14 0.07
Matches are distributed among these distances:
5 19 0.07
6 218 0.83
7 27 0.10
ACGTcount: A:0.31, C:0.08, G:0.01, T:0.59
Consensus pattern (6 bp):
ATTTTA
Done.