Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032255.1 Gossypioides kirkii chromosome KI_13
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: 42971368
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 77 of 143
Found at i:24920070 original size:56 final size:56
Alignment explanation
Indices: 24919930--24920075 Score: 174
Period size: 56 Copynumber: 2.6 Consensus size: 56
24919920 TATTAGGATT
* * * *
24919930 TTATTATGCGATATTATCTTCT-AGTAATTTAATTCTTAATGAGATATTATAAGATA
1 TTATTATGAGATATTATCTT-TAAGCAATTTGATTCATAATGAGATATTATAAGATA
24919986 TTATTATGAGATATTATCTCTTAA-CAATTTGATTCATAATG-GAATATTAT-AGAATA
1 TTATTATGAGATATTATCT-TTAAGCAATTTGATTCATAATGAG-ATATTATAAG-ATA
* *
24920042 TTATTATGGGATATCATCTTTAAGCAATTTGATT
1 TTATTATGAGATATTATCTTTAAGCAATTTGATT
24920076 TTTACGTAAC
Statistics
Matches: 79, Mismatches: 6, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
55 7 0.09
56 70 0.89
57 2 0.03
ACGTcount: A:0.36, C:0.08, G:0.12, T:0.45
Consensus pattern (56 bp):
TTATTATGAGATATTATCTTTAAGCAATTTGATTCATAATGAGATATTATAAGATA
Found at i:24921097 original size:3 final size:3
Alignment explanation
Indices: 24921045--24921082 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
24921035 GAGACTGACG
* *
24921045 CTT CTT CTT CTT CTT CTT CTT CTT CTT CCT CCT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
24921083 CCCTCTCCTC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (3 bp):
CTT
Found at i:24927876 original size:19 final size:20
Alignment explanation
Indices: 24927832--24927896 Score: 64
Period size: 20 Copynumber: 3.2 Consensus size: 20
24927822 ATATTAATTT
24927832 TTTTTACTATTTTTAAATAA
1 TTTTTACTATTTTTAAATAA
24927852 TATTTTA-TATTTTT-AATAAA
1 T-TTTTACTATTTTTAAAT-AA
* *
24927872 TTTTTTACAATATTTAAAT-A
1 -TTTTTACTATTTTTAAATAA
24927892 TTTTT
1 TTTTT
24927897 TTACAATTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
19 8 0.21
20 16 0.42
21 11 0.29
22 3 0.08
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTTTACTATTTTTAAATAA
Found at i:24927877 original size:20 final size:21
Alignment explanation
Indices: 24927831--24927905 Score: 82
Period size: 21 Copynumber: 3.6 Consensus size: 21
24927821 CATATTAATT
24927831 TTTTTTACTATTTTTAAATAA
1 TTTTTTACTATTTTTAAATAA
*
24927852 TATTTTA-TATTTTT-AATAAA
1 TTTTTTACTATTTTTAAAT-AA
* * *
24927872 TTTTTTACAATATTTAAATAT
1 TTTTTTACTATTTTTAAATAA
*
24927893 TTTTTTACAATTT
1 TTTTTTACTATTT
24927906 ATACATATTT
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
19 3 0.07
20 15 0.33
21 24 0.53
22 3 0.07
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTTTTACTATTTTTAAATAA
Found at i:24927905 original size:31 final size:31
Alignment explanation
Indices: 24927830--24927926 Score: 76
Period size: 31 Copynumber: 3.1 Consensus size: 31
24927820 CCATATTAAT
* * * *
24927830 TTTTTTTACTATTTTTAAATAATATTT-TATA
1 TTTTTTTACAATTTTT-TACAATATTTAAATA
*
24927861 TTTTTAATA-AATTTTTTACAATATTTAAATA
1 TTTTT-TTACAATTTTTTACAATATTTAAATA
*
24927892 TTTTTTTACAA-TTTATAC-ATATTTCTAAATA
1 TTTTTTTACAATTTTTTACAATA-TT-TAAATA
24927923 TTTT
1 TTTT
24927927 AATATTTTTA
Statistics
Matches: 54, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
29 3 0.06
30 18 0.33
31 31 0.57
32 2 0.04
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (31 bp):
TTTTTTTACAATTTTTTACAATATTTAAATA
Found at i:24927913 original size:21 final size:21
Alignment explanation
Indices: 24927872--24927935 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
24927862 TTTTAATAAA
24927872 TTTTTTACAATATTTAAATAT
1 TTTTTTACAATATTTAAATAT
*
24927893 TTTTTTACAAT-TTATACATA-
1 TTTTTTACAATATT-TAAATAT
* *
24927913 -TTTCTA-AATATTTTAATAT
1 TTTTTTACAATATTTAAATAT
24927932 TTTT
1 TTTT
24927936 AATATTTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
18 7 0.20
19 7 0.20
20 5 0.14
21 16 0.46
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.59
Consensus pattern (21 bp):
TTTTTTACAATATTTAAATAT
Found at i:24927944 original size:18 final size:18
Alignment explanation
Indices: 24927910--24927943 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
24927900 CAATTTATAC
24927910 ATATTTCTAAATATTTTA
1 ATATTTCTAAATATTTTA
*
24927928 ATATTT-TTAATATTTT
1 ATATTTCTAAATATTTT
24927944 TTACCATATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (18 bp):
ATATTTCTAAATATTTTA
Found at i:24928282 original size:31 final size:29
Alignment explanation
Indices: 24928242--24928311 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 29
24928232 TTAAATTAGT
* * *
24928242 AATGGTAAAATTATATTTTGACCCTCTTAAA
1 AATGATAAAATT-TAATTTAACCCT-TTAAA
24928273 AATGATAAAAATTTAATTTAACCCTTTAAA
1 AATGAT-AAAATTTAATTTAACCCTTTAAA
*
24928303 AATAATAAA
1 AATGATAAA
24928312 GATATAGAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
29 3 0.09
30 10 0.29
31 15 0.44
32 6 0.18
ACGTcount: A:0.49, C:0.10, G:0.06, T:0.36
Consensus pattern (29 bp):
AATGATAAAATTTAATTTAACCCTTTAAA
Found at i:24928304 original size:30 final size:32
Alignment explanation
Indices: 24928248--24928311 Score: 87
Period size: 30 Copynumber: 2.1 Consensus size: 32
24928238 TAGTAATGGT
* * *
24928248 AAAATTATATTTTGACCCTCTTAAAAATGATA
1 AAAATTATAATTTAACCCTCTTAAAAATAATA
24928280 AAAATT-TAATTTAACCCT-TTAAAAATAATA
1 AAAATTATAATTTAACCCTCTTAAAAATAATA
24928310 AA
1 AA
24928312 GATATAGAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 13 0.45
31 10 0.34
32 6 0.21
ACGTcount: A:0.50, C:0.11, G:0.03, T:0.36
Consensus pattern (32 bp):
AAAATTATAATTTAACCCTCTTAAAAATAATA
Found at i:24930183 original size:30 final size:30
Alignment explanation
Indices: 24930032--24930380 Score: 311
Period size: 30 Copynumber: 11.8 Consensus size: 30
24930022 GAGCATTTAT
*
24930032 GGTCAAAATGTAATTTT-GGAAAGTTTA-G
1 GGTCAAAATGTGATTTTGGGAAAGTTTAGG
* * *
24930060 GGTAAAAATGTGGTTTTGGGAAAGTTT-GA
1 GGTCAAAATGTGATTTTGGGAAAGTTTAGG
*
24930089 GGTCAAAATGTGGTTTTGGGAAAGTTTA-G
1 GGTCAAAATGTGATTTTGGGAAAGTTTAGG
* * *
24930118 GGTCAAAATGTGATTTTGGGAAAATGT-GA
1 GGTCAAAATGTGATTTTGGGAAAGTTTAGG
* * *
24930147 GGTCAAAATGTAATTTTAGAAAAGTTTAGG
1 GGTCAAAATGTGATTTTGGGAAAGTTTAGG
*
24930177 GGTCAAAATGTGATTTTAGGAAAGTTTAGG
1 GGTCAAAATGTGATTTTGGGAAAGTTTAGG
* ** * * *
24930207 TGTCAAAACATAATTTTGGAAAAGTTTAAG
1 GGTCAAAATGTGATTTTGGGAAAGTTTAGG
* **
24930237 GG-CTAAAATGTGATTTTAGGAAAGCATA-G
1 GGTC-AAAATGTGATTTTGGGAAAGTTTAGG
* * *
24930266 GGTTAAAATGTAATTTTGGAAAAGTTTAGG
1 GGTCAAAATGTGATTTTGGGAAAGTTTAGG
* * *
24930296 GGTTAAAATGTGATTTTTGGAAAGTTTAGA
1 GGTCAAAATGTGATTTTGGGAAAGTTTAGG
* * **
24930326 GGTTAAAAT-TTATTTTTGAAAAAGTTT-GAG
1 GGTCAAAATGTGA-TTTTGGGAAAGTTTAG-G
* *
24930356 GGTTAAAATGTGATTTTAGGAAAGT
1 GGTCAAAATGTGATTTTGGGAAAGT
24930381 GTGGGAAATT
Statistics
Matches: 258, Mismatches: 52, Indels: 20
0.78 0.16 0.06
Matches are distributed among these distances:
28 14 0.05
29 107 0.41
30 135 0.52
31 2 0.01
ACGTcount: A:0.36, C:0.03, G:0.27, T:0.35
Consensus pattern (30 bp):
GGTCAAAATGTGATTTTGGGAAAGTTTAGG
Found at i:24930274 original size:119 final size:117
Alignment explanation
Indices: 24930032--24930379 Score: 411
Period size: 119 Copynumber: 2.9 Consensus size: 117
24930022 GAGCATTTAT
* * *
24930032 GGTCAAAATGTAATTTTGGAAAGTTTA-GGGTAAAAATGTGGTTTTGGGAAAGTTT-GAGGTCAA
1 GGTCAAAATGTAATTTTGAAAAGTTTAGGGGTAAAAATGTGATTTTAGGAAAGTTTAGAGGTCAA
* ** * * *
24930095 AATGTGGTTTTGGGAAAGTTTAGGGTCAAAATGTGATTTTGGGAAA-ATGTGA
66 AATATAATTTTGGAAAAGTTTAGGGT-AAAATGTGATTTTAGGAAAGATGAGA
*
24930147 GGTCAAAATGTAATTTTAGAAAAGTTTAGGGGTCAAAATGTGATTTTAGGAAAGTTTAG-GTGTC
1 GGTCAAAATGTAATTTT-GAAAAGTTTAGGGGTAAAAATGTGATTTTAGGAAAGTTTAGAG-GTC
*
24930211 AAAACATAATTTTGGAAAAGTTTAAGGGCTAAAATGTGATTTTAGGAAAGCAT-AG-
64 AAAATATAATTTTGGAAAAGTTT-AGGG-TAAAATGTGATTTTAGGAAAG-ATGAGA
* * * *
24930266 GGTTAAAATGTAATTTTGGAAAAGTTTAGGGGTTAAAATGTGATTTTTGGAAAGTTTAGAGGTTA
1 GGTCAAAATGTAATTTT-GAAAAGTTTAGGGGTAAAAATGTGATTTTAGGAAAGTTTAGAGGTCA
* * *
24930331 AAATTTATTTTTGAAAAAGTTTGAGGGTTAAAATGTGATTTTAGGAAAG
65 AAATATAATTTTGGAAAAGTTT-AGGG-TAAAATGTGATTTTAGGAAAG
24930380 TGTGGGAAAT
Statistics
Matches: 202, Mismatches: 22, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
115 17 0.08
116 9 0.04
117 26 0.13
118 22 0.11
119 123 0.61
120 3 0.01
121 2 0.01
ACGTcount: A:0.36, C:0.03, G:0.27, T:0.35
Consensus pattern (117 bp):
GGTCAAAATGTAATTTTGAAAAGTTTAGGGGTAAAAATGTGATTTTAGGAAAGTTTAGAGGTCAA
AATATAATTTTGGAAAAGTTTAGGGTAAAATGTGATTTTAGGAAAGATGAGA
Found at i:24931820 original size:59 final size:58
Alignment explanation
Indices: 24931750--24931975 Score: 285
Period size: 59 Copynumber: 3.8 Consensus size: 58
24931740 TATGGATACC
* * *
24931750 CGGGGGCAAAATGGTAATTTTAGG-GTAATCGGGGTTTAAAAATGGTATTTTAAAAGATT
1 CGGGGGTAAAATGGTAATTTT-GGCGAAATCGGGG-TTAAAAATGGAATTTTAAAAGATT
* * * * * * *
24931809 CGAGGGTAAAATGGTAACTTTGGGGTAATCGAGGTTAAAAACGGAATTTTAGAAA-CTT
1 CGGGGGTAAAATGGTAATTTTGGCGAAATCGGGGTTAAAAATGGAATTTTA-AAAGATT
*
24931867 CGGGGGTAAAATGGTAATTTTTGGCGAAATCGGGGTTAAAAATGGAATTTTGAAAGATT
1 CGGGGGTAAAATGGTAA-TTTTGGCGAAATCGGGGTTAAAAATGGAATTTTAAAAGATT
*
24931926 CGGGGGTAAAATGGTAAATTTTGGTGAAATCGGGGTTAAAAATGGAATTT
1 CGGGGGTAAAATGGT-AATTTTGGCGAAATCGGGGTTAAAAATGGAATTT
24931976 AGGAGTTTTT
Statistics
Matches: 146, Mismatches: 16, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
58 38 0.26
59 106 0.73
60 2 0.01
ACGTcount: A:0.35, C:0.06, G:0.30, T:0.30
Consensus pattern (58 bp):
CGGGGGTAAAATGGTAATTTTGGCGAAATCGGGGTTAAAAATGGAATTTTAAAAGATT
Found at i:24931876 original size:29 final size:27
Alignment explanation
Indices: 24931844--24931975 Score: 83
Period size: 30 Copynumber: 4.5 Consensus size: 27
24931834 TAATCGAGGT
*
24931844 TAAAAACGGAATTTTAGAAACTTCGGGGG
1 TAAAAATGGAATTTT-GAAA-TTCGGGGG
*
24931873 T-AAAATGGTAATTTTTGGCGAAA-TCGGGGT
1 TAAAAATGG-AA-TTTT---GAAATTCGGGGG
24931903 TAAAAATGGAATTTTGAAAGATTCGGGGG
1 TAAAAATGGAATTTTG-AA-ATTCGGGGG
*
24931932 T-AAAATGGTAAATTTTGGTGAAA-TCGGGGT
1 TAAAAATGG--AA-TTT--TGAAATTCGGGGG
24931962 TAAAAATGGAATTT
1 TAAAAATGGAATTT
24931976 AGGAGTTTTT
Statistics
Matches: 84, Mismatches: 5, Indels: 29
0.71 0.04 0.25
Matches are distributed among these distances:
26 1 0.01
27 2 0.02
28 17 0.20
29 16 0.19
30 22 0.26
31 18 0.21
32 6 0.07
33 2 0.02
ACGTcount: A:0.36, C:0.05, G:0.28, T:0.30
Consensus pattern (27 bp):
TAAAAATGGAATTTTGAAATTCGGGGG
Found at i:24931907 original size:30 final size:29
Alignment explanation
Indices: 24931866--24931975 Score: 102
Period size: 30 Copynumber: 3.7 Consensus size: 29
24931856 TTTAGAAACT
24931866 TCGGGGGT-AAAATGGTAATTTTTGGCGAAA
1 TCGGGGGTAAAAATGG-AATTTTTGG-GAAA
* *
24931896 TCGGGGTTAAAAATGGAA-TTTT-GAAAGA
1 TCGGGGGTAAAAATGGAATTTTTGGGAA-A
*
24931924 TTCGGGGGT-AAAATGGTAAATTTTGGTGAAA
1 -TCGGGGGTAAAAATGG-AATTTTTGG-GAAA
*
24931955 TCGGGGTTAAAAATGGAATTT
1 TCGGGGGTAAAAATGGAATTT
24931976 AGGAGTTTTT
Statistics
Matches: 66, Mismatches: 6, Indels: 16
0.75 0.07 0.18
Matches are distributed among these distances:
27 2 0.03
28 9 0.14
29 13 0.20
30 24 0.36
31 16 0.24
32 2 0.03
ACGTcount: A:0.34, C:0.05, G:0.31, T:0.31
Consensus pattern (29 bp):
TCGGGGGTAAAAATGGAATTTTTGGGAAA
Found at i:24931924 original size:117 final size:118
Alignment explanation
Indices: 24931750--24931975 Score: 330
Period size: 117 Copynumber: 1.9 Consensus size: 118
24931740 TATGGATACC
* *
24931750 CGGGGGCAAAATGGTAATTTTAGGGTAATCGGGGTTTAAAAATGGTATTTTAAAAGATTCGAGGG
1 CGGGGGCAAAATGGTAATTTTAGGGAAATCGGGGTTTAAAAATGGAATTTTAAAAGATTCGAGGG
*
24931815 TAAAATGGT-AACTTTGGGGTAATCGAGGTTAAAAACGGAATTTTAGAAACTT
66 TAAAATGGTAAACTTTGGGGAAATCGAGGTTAAAAACGGAATTTTAGAAACTT
* * * *
24931867 CGGGGGTAAAATGGTAATTTTTGGCGAAATCGGGG-TTAAAAATGGAATTTTGAAAGATTCGGGG
1 CGGGGGCAAAATGGTAATTTTAGG-GAAATCGGGGTTTAAAAATGGAATTTTAAAAGATTCGAGG
* * * *
24931931 GTAAAATGGTAAATTTTGGTGAAATCGGGGTTAAAAATGGAATTT
65 GTAAAATGGTAAACTTTGGGGAAATCGAGGTTAAAAACGGAATTT
24931976 AGGAGTTTTT
Statistics
Matches: 96, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
117 58 0.60
118 38 0.40
ACGTcount: A:0.35, C:0.06, G:0.30, T:0.30
Consensus pattern (118 bp):
CGGGGGCAAAATGGTAATTTTAGGGAAATCGGGGTTTAAAAATGGAATTTTAAAAGATTCGAGGG
TAAAATGGTAAACTTTGGGGAAATCGAGGTTAAAAACGGAATTTTAGAAACTT
Found at i:24932032 original size:30 final size:30
Alignment explanation
Indices: 24931982--24932285 Score: 464
Period size: 30 Copynumber: 10.1 Consensus size: 30
24931972 ATTTAGGAGT
* *
24931982 TTTTTGGGTCAAAATATAATTTTGGAAAAG
1 TTTTGGGGTCAAAATGTAATTTTGGAAAAG
* *
24932012 TTTCGGGGTCGAAATGTAATTTTGGAAAAG
1 TTTTGGGGTCAAAATGTAATTTTGGAAAAG
*
24932042 TCTTGGGGTCAAAATGTAATTTTGGAAAAG
1 TTTTGGGGTCAAAATGTAATTTTGGAAAAG
* * *
24932072 TTTTAGGGTCGAAATGTAATTTTAGAAAAG
1 TTTTGGGGTCAAAATGTAATTTTGGAAAAG
*
24932102 TTTTAGGGTCAAAATGTAATTTTGGAAAAG
1 TTTTGGGGTCAAAATGTAATTTTGGAAAAG
*
24932132 TTTTAGGGTCAAAATGTAATTTTGGAAAAG
1 TTTTGGGGTCAAAATGTAATTTTGGAAAAG
*
24932162 TTTTGGGGTCAAAATATAATTTTGGAAAAG
1 TTTTGGGGTCAAAATGTAATTTTGGAAAAG
** *
24932192 TTTCAGGGTCAAAATGTAATTTTAGAAAAG
1 TTTTGGGGTCAAAATGTAATTTTGGAAAAG
* *
24932222 TTTTGGGGTCCAAATATAATTTTGGAAAAG
1 TTTTGGGGTCAAAATGTAATTTTGGAAAAG
24932252 TTTTGGGGTCAAAATGTAATTTTGGAAAAG
1 TTTTGGGGTCAAAATGTAATTTTGGAAAAG
24932282 TTTT
1 TTTT
24932286 AAGGTTTACA
Statistics
Matches: 248, Mismatches: 26, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 248 1.00
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.37
Consensus pattern (30 bp):
TTTTGGGGTCAAAATGTAATTTTGGAAAAG
Found at i:24932632 original size:30 final size:33
Alignment explanation
Indices: 24932568--24932633 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 33
24932558 CAAATAATTA
24932568 AAAAAATGCAGAAAGGACTAAATTGAAGCAAAT
1 AAAAAATGCAGAAAGGACTAAATTGAAGCAAAT
* * *
24932601 AAAAAATGC-GGAAGGAC-CAATTGCA-CAAAT
1 AAAAAATGCAGAAAGGACTAAATTGAAGCAAAT
24932631 AAA
1 AAA
24932634 CCATTTTCTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
30 8 0.27
31 6 0.20
32 7 0.23
33 9 0.30
ACGTcount: A:0.56, C:0.12, G:0.18, T:0.14
Consensus pattern (33 bp):
AAAAAATGCAGAAAGGACTAAATTGAAGCAAAT
Found at i:24933354 original size:19 final size:19
Alignment explanation
Indices: 24933322--24933369 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
24933312 TTAAAAGATT
24933322 TATTAATTAA-TATTATTAG
1 TATT-ATTAATTATTATTAG
*
24933341 TATTATTAATTATTATTAT
1 TATTATTAATTATTATTAG
*
24933360 TATCATTAAT
1 TATTATTAAT
24933370 GTCATTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 5 0.19
19 21 0.81
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (19 bp):
TATTATTAATTATTATTAG
Found at i:24934041 original size:17 final size:17
Alignment explanation
Indices: 24934021--24934098 Score: 90
Period size: 17 Copynumber: 4.8 Consensus size: 17
24934011 GTTTTTTATT
*
24934021 AATTTAAATTTTAATTA
1 AATTTAAATTTAAATTA
**
24934038 AATTTAAATTTAAAGCA
1 AATTTAAATTTAAATTA
24934055 AATTTAAATTT---TTA
1 AATTTAAATTTAAATTA
* *
24934069 CATTTAAATTTAAAATA
1 AATTTAAATTTAAATTA
24934086 AATTTAAATTTAA
1 AATTTAAATTTAA
24934099 CCATGAATTT
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
14 11 0.22
17 39 0.78
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.46
Consensus pattern (17 bp):
AATTTAAATTTAAATTA
Found at i:24934075 original size:48 final size:48
Alignment explanation
Indices: 24934022--24934115 Score: 136
Period size: 48 Copynumber: 1.9 Consensus size: 48
24934012 TTTTTTATTA
* * *
24934022 ATTTAAATTTTAATTAAATTTAAATTTAAAGCA-AATTTAAATTTTTAC
1 ATTTAAATTTAAAATAAATTTAAATTT-AACCAGAATTTAAATTTTTAC
24934070 ATTTAAATTTAAAATAAATTTAAATTTAACCATGAATTTAAATTTT
1 ATTTAAATTTAAAATAAATTTAAATTTAACCA-GAATTTAAATTTT
24934116 GTTCAAAACC
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
47 4 0.10
48 25 0.61
49 12 0.29
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (48 bp):
ATTTAAATTTAAAATAAATTTAAATTTAACCAGAATTTAAATTTTTAC
Found at i:24934109 original size:18 final size:17
Alignment explanation
Indices: 24934021--24934114 Score: 86
Period size: 17 Copynumber: 5.6 Consensus size: 17
24934011 GTTTTTTATT
* *
24934021 AATTTAAATTTTAATTA
1 AATTTAAATTTAAAATA
**
24934038 AATTTAAATTTAAAGCA
1 AATTTAAATTTAAAATA
*
24934055 AATTTAAATTT---TTA
1 AATTTAAATTTAAAATA
*
24934069 CATTTAAATTTAAAATA
1 AATTTAAATTTAAAATA
* *
24934086 AATTTAAATTTAACCATG
1 AATTTAAATTTAA-AATA
24934104 AATTTAAATTT
1 AATTTAAATTT
24934115 TGTTCAAAAC
Statistics
Matches: 63, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
14 11 0.17
17 39 0.62
18 13 0.21
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (17 bp):
AATTTAAATTTAAAATA
Found at i:24934114 original size:6 final size:6
Alignment explanation
Indices: 24934021--24934098 Score: 72
Period size: 6 Copynumber: 13.2 Consensus size: 6
24934011 GTTTTTTATT
* **
24934021 AATTTA AATTTT AA-TTA AATTTA AATTTA AA-GCA AATTTA AATTTTTA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AA--TTTA
* *
24934069 CATTTA AATTTA AA-ATA AATTTA AATTTA A
1 AATTTA AATTTA AATTTA AATTTA AATTTA A
24934099 CCATGAATTT
Statistics
Matches: 57, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
5 11 0.19
6 41 0.72
8 5 0.09
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.46
Consensus pattern (6 bp):
AATTTA
Found at i:24934554 original size:68 final size:68
Alignment explanation
Indices: 24934470--24935080 Score: 872
Period size: 68 Copynumber: 8.9 Consensus size: 68
24934460 GGAAATGATC
* * * *
24934470 TTGCTCTTACTTCAATTTTAGAGATAAAGACGTGTTATCCACTCTATTTCAATTTCGAGGGGATG
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATG
24934535 ACG
66 ACG
* * ** ** *
24934538 TTGCTTTTACTCCAATTTCAGAGATAAAGATTTAATATCCAACTCTACTTCAATTTCAAGAGGAC
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCC-ACTCTACTTCAATTTCAAGAGGAT
24934603 GACG
65 GACG
* *
24934607 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTTCAAGAGGA
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCC-ACTCTACTTCAA-TTTCAAGAGGA
24934672 TGACG
64 TGACG
* *
24934677 TTGCTCTTACTTCAATTTCAGAGATGAAGACGCGTTATCCACTCTACTTCAATTTCAAGAGGATG
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATG
**
24934742 AAA
66 ACG
* *
24934745 TTGCTCTTACTTCAATTTCAGAGATGGAA-ACGTGTTATCCACTCTACTTCAATTTCAAGGGGAT
1 TTGCTCTTACTTCAATTTCAGAGAT-AAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGAT
*
24934809 GACA
65 GACG
24934813 TTGCTCTTACTTCAATTTCAGAGATGAAA-ACGTGTTATCCACTCTACTTCAATTTCAAG-GGAA
1 TTGCTCTTACTTCAATTTCAGAGAT-AAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGG-A
24934876 TGACG
64 TGACG
* *
24934881 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTTCAAGAGGA
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCC-ACTCTACTTCAA-TTTCAAGAGGA
24934946 TGACG
64 TGACG
*
24934951 TTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATG
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATG
**
24935016 AAA
66 ACG
*
24935019 TTGCTCTTACTTCAATTTCAGAGATGGAA-ACGTGTTATCCACTCTACTTCAATTTCAA-AGGA
1 TTGCTCTTACTTCAATTTCAGAGAT-AAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGA
24935081 ACGATGTTGA
Statistics
Matches: 500, Mismatches: 34, Indels: 19
0.90 0.06 0.03
Matches are distributed among these distances:
67 9 0.02
68 273 0.55
69 115 0.23
70 101 0.20
71 2 0.00
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (68 bp):
TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATG
ACG
Found at i:24934593 original size:38 final size:37
Alignment explanation
Indices: 24934545--24934662 Score: 95
Period size: 38 Copynumber: 3.3 Consensus size: 37
24934535 ACGTTGCTTT
*
24934545 TACTCCAATTTCAGAGATAAAGATTTAATATCCAACTC
1 TACTTCAATTTCAGAGATAAAGA-TTAATATCCAACTC
** * ** * *
24934583 TACTTCAATTTCA-AGAGGACGA--CGT-TGC-TCT-
1 TACTTCAATTTCAGAGATAAAGATTAATATCCAACTC
*
24934614 TACTTCAATTTCAGAGATAAAGACTTGATATCCAACTC
1 TACTTCAATTTCAGAGATAAAGA-TTAATATCCAACTC
24934652 TACTTCAATTT
1 TACTTCAATTT
24934663 TCAAGAGGAT
Statistics
Matches: 58, Mismatches: 15, Indels: 14
0.67 0.17 0.16
Matches are distributed among these distances:
31 13 0.22
32 8 0.14
33 2 0.03
34 1 0.02
35 1 0.02
36 2 0.03
37 8 0.14
38 23 0.40
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.34
Consensus pattern (37 bp):
TACTTCAATTTCAGAGATAAAGATTAATATCCAACTC
Found at i:24934941 original size:206 final size:203
Alignment explanation
Indices: 24934470--24935081 Score: 899
Period size: 206 Copynumber: 3.0 Consensus size: 203
24934460 GGAAATGATC
* * * *
24934470 TTGCTCTTACTTCAATTTTAGAGATAAAGACGTGTTATCCACTCTATTTCAATTTCGAGGGGATG
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATG
* * *
24934535 ACGTTGCTTTTACTCCAATTTCAGAGAT-AAA-GATTTAATATCCAACTCTACTTCAATTTCAAG
66 ACGTTGCTCTTACTTCAATTTCAGAGATGAAACG-TGT--TATCC-ACTCTACTTCAATTTCAAG
* * * *
24934598 AGGACGACGTTGCTCTTACTTCAATTTCAGAGAT-AAAGACTTGATATCCAACTCTACTTCAATT
127 AGGATGACATTGCTCTTACTTCAATTTCAGAGATGAAA-ACGTGTTATCC-ACTCTACTTCAA-T
24934662 TTCAAGAGG-ATGACG
189 TTCAAG-GGAATGACG
* *
24934677 TTGCTCTTACTTCAATTTCAGAGATGAAGACGCGTTATCCACTCTACTTCAATTTCAAGAGGATG
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATG
** *
24934742 AAATTGCTCTTACTTCAATTTCAGAGATGGAAACGTGTTATCCACTCTACTTCAATTTCAAGGGG
66 ACGTTGCTCTTACTTCAATTTCAGAGAT-GAAACGTGTTATCCACTCTACTTCAATTTCAAGAGG
24934807 ATGACATTGCTCTTACTTCAATTTCAGAGATGAAAACGTGTTATCCACTCTACTTCAATTTCAAG
130 ATGACATTGCTCTTACTTCAATTTCAGAGATGAAAACGTGTTATCCACTCTACTTCAATTTCAAG
24934872 GGAATGACG
195 GGAATGACG
* *
24934881 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTTCAAGAGGA
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCC-ACTCTACTTCAA-TTTCAAGAGGA
24934946 TGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGA
64 TGACGTTGCTCTTACTTCAATTTCAGAGATGAA-ACGTGTTATCCACTCTACTTCAATTTCAAGA
* *
24935011 GGATGAAATTGCTCTTACTTCAATTTCAGAGATGGAAACGTGTTATCCACTCTACTTCAATTTCA
128 GGATGACATTGCTCTTACTTCAATTTCAGAGATGAAAACGTGTTATCCACTCTACTTCAATTTCA
*
24935076 AAGGAA
193 AGGGAA
24935082 CGATGTTGAG
Statistics
Matches: 371, Mismatches: 26, Indels: 17
0.90 0.06 0.04
Matches are distributed among these distances:
203 2 0.01
204 49 0.13
205 27 0.07
206 196 0.53
207 91 0.25
209 5 0.01
210 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (203 bp):
TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATG
ACGTTGCTCTTACTTCAATTTCAGAGATGAAACGTGTTATCCACTCTACTTCAATTTCAAGAGGA
TGACATTGCTCTTACTTCAATTTCAGAGATGAAAACGTGTTATCCACTCTACTTCAATTTCAAGG
GAATGACG
Found at i:24934960 original size:274 final size:275
Alignment explanation
Indices: 24934470--24935076 Score: 1042
Period size: 274 Copynumber: 2.2 Consensus size: 275
24934460 GGAAATGATC
* * * *
24934470 TTGCTCTTACTTCAATTTTAGAGAT-AAAGACGTGTTATCCACTCTATTTCAATTTCGAGGGGAT
1 TTGCTCTTACTTCAATTTCAGAGATGGAA-ACGTGTTATCCACTCTACTTCAATTTCAAGGGGAT
* * **
24934534 GACGTTGCTTTTACTCCAATTTCAGAGATAAAGATTTAATATCCAACTCTACTTCAATTTCAAGA
65 GACATTGCTCTTACTCCAATTTCAGAGATAAAGACGTAATATCCAACTCTACTTCAATTTCAAGA
24934599 GGACGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTT
130 GGACGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTT
24934664 CAAGAGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACGCGTTATCCACTCTACTTCAA
195 CAAGAGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACGCGTTATCCACTCTACTTCAA
24934729 TTTCAAGAGGATGAAA
260 TTTCAAGAGGATGAAA
24934745 TTGCTCTTACTTCAATTTCAGAGATGGAAACGTGTTATCCACTCTACTTCAATTTCAAGGGGATG
1 TTGCTCTTACTTCAATTTCAGAGATGGAAACGTGTTATCCACTCTACTTCAATTTCAAGGGGATG
* **
24934810 ACATTGCTCTTACTTCAATTTCAGAGATGAAA-ACGTGTTATCC-ACTCTACTTCAATTTCAAG-
66 ACATTGCTCTTACTCCAATTTCAGAGAT-AAAGACGTAATATCCAACTCTACTTCAATTTCAAGA
*
24934872 GGAATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTT
130 GG-ACGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTT
*
24934937 TCAAGAGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCA
194 TCAAGAGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACGCGTTATCCACTCTACTTCA
24935002 ATTTCAAGAGGATGAAA
259 ATTTCAAGAGGATGAAA
24935019 TTGCTCTTACTTCAATTTCAGAGATGGAAACGTGTTATCCACTCTACTTCAATTTCAA
1 TTGCTCTTACTTCAATTTCAGAGATGGAAACGTGTTATCCACTCTACTTCAATTTCAA
24935077 AGGAACGATG
Statistics
Matches: 316, Mismatches: 13, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
273 2 0.01
274 219 0.69
275 90 0.28
276 5 0.02
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.34
Consensus pattern (275 bp):
TTGCTCTTACTTCAATTTCAGAGATGGAAACGTGTTATCCACTCTACTTCAATTTCAAGGGGATG
ACATTGCTCTTACTCCAATTTCAGAGATAAAGACGTAATATCCAACTCTACTTCAATTTCAAGAG
GACGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTTC
AAGAGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACGCGTTATCCACTCTACTTCAAT
TTCAAGAGGATGAAA
Found at i:24946843 original size:59 final size:57
Alignment explanation
Indices: 24946768--24946935 Score: 176
Period size: 59 Copynumber: 2.8 Consensus size: 57
24946758 TTATGGATAC
* *
24946768 CGGGGGCAAAATGGTAATTTTAGG-GTAATTGGGGTTTAAAAATGGTATTTCAAAAGATT
1 CGGGGGTAAAATGGTAATTTT-GGCG-AATTGGGG-TTAAAAATGGAATTTCAAAAGATT
* * * **
24946827 CGGGGGTAAAACGGTAATTTTTGGCGAAATCGGGATTAAAAATGGAATTTTGAAAGATT
1 CGGGGGTAAAATGGTAA-TTTTGGCG-AATTGGGGTTAAAAATGGAATTTCAAAAGATT
* * *
24946886 CAGGGGTAAAATGGTAAATTTTGGTGAAATCGGGGTTAAAAATGGAATTT
1 CGGGGGTAAAATGGT-AATTTTGGCG-AATTGGGGTTAAAAATGGAATTT
24946936 AGGAGTTTTT
Statistics
Matches: 94, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
59 81 0.86
60 13 0.14
ACGTcount: A:0.35, C:0.05, G:0.29, T:0.30
Consensus pattern (57 bp):
CGGGGGTAAAATGGTAATTTTGGCGAATTGGGGTTAAAAATGGAATTTCAAAAGATT
Found at i:24946876 original size:30 final size:28
Alignment explanation
Indices: 24946842--24946935 Score: 68
Period size: 30 Copynumber: 3.2 Consensus size: 28
24946832 GTAAAACGGT
24946842 AATTTTTGGCGAAATCGGGATTAAAAATGG
1 AATTTTTGG-GAAATCGGG-TTAAAAATGG
* *
24946872 AA-TTTT-GAAAGATTCAGGGGT-AAAATGG
1 AATTTTTGGGAA-A-TC-GGGTTAAAAATGG
*
24946900 TAAATTTTGGTGAAATCGGGGTTAAAAATGG
1 -AATTTTTGG-GAAATC-GGGTTAAAAATGG
24946931 AATTT
1 AATTT
24946936 AGGAGTTTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 16
0.69 0.08 0.22
Matches are distributed among these distances:
27 2 0.04
28 9 0.18
29 9 0.18
30 19 0.38
31 9 0.18
32 2 0.04
ACGTcount: A:0.37, C:0.04, G:0.27, T:0.32
Consensus pattern (28 bp):
AATTTTTGGGAAATCGGGTTAAAAATGG
Found at i:24946934 original size:29 final size:28
Alignment explanation
Indices: 24946845--24946935 Score: 80
Period size: 29 Copynumber: 3.1 Consensus size: 28
24946835 AAACGGTAAT
*
24946845 TTTTGGCGAAATCGGGATTAAAAATGGAA
1 TTTTGG-GAAATCGGGGTTAAAAATGGAA
*
24946874 TTTT-GAAAGATTCAGGGG-T-AAAATGGTAAA
1 TTTTGGGAA-A-TC-GGGGTTAAAAATGG--AA
24946904 TTTTGGTGAAATCGGGGTTAAAAATGGAA
1 TTTTGG-GAAATCGGGGTTAAAAATGGAA
24946933 TTT
1 TTT
24946936 AGGAGTTTTT
Statistics
Matches: 50, Mismatches: 3, Indels: 18
0.70 0.04 0.25
Matches are distributed among these distances:
27 2 0.04
28 9 0.18
29 16 0.32
30 12 0.24
31 9 0.18
32 2 0.04
ACGTcount: A:0.36, C:0.04, G:0.27, T:0.32
Consensus pattern (28 bp):
TTTTGGGAAATCGGGGTTAAAAATGGAA
Found at i:24946956 original size:59 final size:59
Alignment explanation
Indices: 24946803--24946937 Score: 191
Period size: 59 Copynumber: 2.3 Consensus size: 59
24946793 TAATTGGGGT
* * * *
24946803 TTAAAAATGGTATTTCA-AAAGATTCGGGGGTAAAACGGTAATTTTTGGCGAAATCGGGA
1 TTAAAAATGGAATTT-AGAAAGATTCAGGGGTAAAATGGTAAATTTTGGCGAAATCGGGA
* * *
24946862 TTAAAAATGGAATTTTGAAAGATTCAGGGGTAAAATGGTAAATTTTGGTGAAATCGGGG
1 TTAAAAATGGAATTTAGAAAGATTCAGGGGTAAAATGGTAAATTTTGGCGAAATCGGGA
24946921 TTAAAAATGGAATTTAG
1 TTAAAAATGGAATTTAG
24946938 GAGTTTTTTG
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
59 67 1.00
ACGTcount: A:0.38, C:0.05, G:0.27, T:0.30
Consensus pattern (59 bp):
TTAAAAATGGAATTTAGAAAGATTCAGGGGTAAAATGGTAAATTTTGGCGAAATCGGGA
Found at i:24947191 original size:30 final size:30
Alignment explanation
Indices: 24946942--24947191 Score: 356
Period size: 30 Copynumber: 8.3 Consensus size: 30
24946932 ATTTAGGAGT
* * *
24946942 TTTTTGGGTTAAAATATAATTTTGGAAAAC
1 TTTTGGGGTTAAAATGTAATTTTGGAAAAG
** *
24946972 TTTTGGGGTCGAAATGTAATTTTAGAAAAG
1 TTTTGGGGTTAAAATGTAATTTTGGAAAAG
*
24947002 TCTTGGGGTTAAAATGTAATTTTGGAAAAG
1 TTTTGGGGTTAAAATGTAATTTTGGAAAAG
** *
24947032 TTTTGGGGTCGAAATGTAATTTTAGAAAAG
1 TTTTGGGGTTAAAATGTAATTTTGGAAAAG
**
24947062 TTTTAAGGTTAAAATGTAATTTTGGAAAAG
1 TTTTGGGGTTAAAATGTAATTTTGGAAAAG
*
24947092 TTTTGGGGTCAAAATGTAATTTTGGAAAAG
1 TTTTGGGGTTAAAATGTAATTTTGGAAAAG
* *
24947122 TTTTGGGGTCAAAATATAATTTTGGAAAAG
1 TTTTGGGGTTAAAATGTAATTTTGGAAAAG
*
24947152 TTTTAGGGTTAAAATGTAATTTTGGAAAAG
1 TTTTGGGGTTAAAATGTAATTTTGGAAAAG
24947182 TTTTGGGGTT
1 TTTTGGGGTT
24947192 TACAAAGCAA
Statistics
Matches: 193, Mismatches: 27, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 193 1.00
ACGTcount: A:0.34, C:0.02, G:0.24, T:0.39
Consensus pattern (30 bp):
TTTTGGGGTTAAAATGTAATTTTGGAAAAG
Found at i:24948255 original size:19 final size:19
Alignment explanation
Indices: 24948223--24948270 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
24948213 TTAAAAGATT
24948223 TATTAATTAA-TATTATTAG
1 TATT-ATTAATTATTATTAG
*
24948242 TATTATTAATTATTATTAT
1 TATTATTAATTATTATTAG
*
24948261 TATCATTAAT
1 TATTATTAAT
24948271 GTCATTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 5 0.19
19 21 0.81
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (19 bp):
TATTATTAATTATTATTAG
Found at i:24948942 original size:17 final size:17
Alignment explanation
Indices: 24948922--24948999 Score: 90
Period size: 17 Copynumber: 4.8 Consensus size: 17
24948912 GTTTTTTATT
*
24948922 AATTTAAATTTTAATTA
1 AATTTAAATTTAAATTA
**
24948939 AATTTAAATTTAAAGCA
1 AATTTAAATTTAAATTA
24948956 AATTTAAATTT---TTA
1 AATTTAAATTTAAATTA
* *
24948970 CATTTAAATTTAAAATA
1 AATTTAAATTTAAATTA
24948987 AATTTAAATTTAA
1 AATTTAAATTTAA
24949000 CCATGAATTT
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
14 11 0.22
17 39 0.78
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.46
Consensus pattern (17 bp):
AATTTAAATTTAAATTA
Found at i:24948976 original size:48 final size:48
Alignment explanation
Indices: 24948923--24949016 Score: 136
Period size: 48 Copynumber: 1.9 Consensus size: 48
24948913 TTTTTTATTA
* * *
24948923 ATTTAAATTTTAATTAAATTTAAATTTAAAGCA-AATTTAAATTTTTAC
1 ATTTAAATTTAAAATAAATTTAAATTT-AACCAGAATTTAAATTTTTAC
24948971 ATTTAAATTTAAAATAAATTTAAATTTAACCATGAATTTAAATTTT
1 ATTTAAATTTAAAATAAATTTAAATTTAACCA-GAATTTAAATTTT
24949017 GTTCAAAACC
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
47 4 0.10
48 25 0.61
49 12 0.29
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (48 bp):
ATTTAAATTTAAAATAAATTTAAATTTAACCAGAATTTAAATTTTTAC
Found at i:24949010 original size:18 final size:17
Alignment explanation
Indices: 24948922--24949015 Score: 86
Period size: 17 Copynumber: 5.6 Consensus size: 17
24948912 GTTTTTTATT
* *
24948922 AATTTAAATTTTAATTA
1 AATTTAAATTTAAAATA
**
24948939 AATTTAAATTTAAAGCA
1 AATTTAAATTTAAAATA
*
24948956 AATTTAAATTT---TTA
1 AATTTAAATTTAAAATA
*
24948970 CATTTAAATTTAAAATA
1 AATTTAAATTTAAAATA
* *
24948987 AATTTAAATTTAACCATG
1 AATTTAAATTTAA-AATA
24949005 AATTTAAATTT
1 AATTTAAATTT
24949016 TGTTCAAAAC
Statistics
Matches: 63, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
14 11 0.17
17 39 0.62
18 13 0.21
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (17 bp):
AATTTAAATTTAAAATA
Found at i:24949015 original size:6 final size:6
Alignment explanation
Indices: 24948922--24948999 Score: 72
Period size: 6 Copynumber: 13.2 Consensus size: 6
24948912 GTTTTTTATT
* **
24948922 AATTTA AATTTT AA-TTA AATTTA AATTTA AA-GCA AATTTA AATTTTTA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AA--TTTA
* *
24948970 CATTTA AATTTA AA-ATA AATTTA AATTTA A
1 AATTTA AATTTA AATTTA AATTTA AATTTA A
24949000 CCATGAATTT
Statistics
Matches: 57, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
5 11 0.19
6 41 0.72
8 5 0.09
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.46
Consensus pattern (6 bp):
AATTTA
Found at i:24950525 original size:19 final size:18
Alignment explanation
Indices: 24950488--24950523 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
24950478 ACATTTGGAC
24950488 AAAATAAATTTAAAATTT
1 AAAATAAATTTAAAATTT
*
24950506 AAAATAAATTTTAAATTT
1 AAAATAAATTTAAAATTT
24950524 TATTTCTGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
AAAATAAATTTAAAATTT
Found at i:24951287 original size:198 final size:198
Alignment explanation
Indices: 24950995--24951899 Score: 907
Period size: 198 Copynumber: 4.6 Consensus size: 198
24950985 TCGCCGTTGT
* * * * *
24950995 GGCCTCAACCTTTCCCTTCATATCTTCATGG-A-TTGGATTCGCCGTTGTGACCTCAATCC-TTC
1 GGCCTCAACCTTTCCCTTCAAATCTTCATGGTACTAGG-TTCACCATTGTGGCCTCAA-CCTTTC
** * *
24951057 CCATCGTATCTTCTAAGGTATCGGGTTCGCCGTTGCGACCTCAACCTTTCCCATCACATCTTCTT
64 CCATCACATCTTCTTAGGTATCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTT
* * * *
24951122 AGGTACCGGGTTCGTCGTTGCGGCCTCAATCTTTCCCTTCGTATCTTCATGGTACCGAGTTCACC
129 AGGTACCGGGTTCGCCGTTGCGACCTCAACCTTTCCCTTCATATCTTCATGGTACCGAGTTCACC
*
24951187 ATTAC
194 ATTGC
* ** * * *
24951192 GGCCTCAACCTTTCCCATCCTATCTCCGTGGTACTAGGTTCACCGTTGTGGCCTCAACCTTTCCC
1 GGCCTCAACCTTTCCCTTCAAATCTTCATGGTACTAGGTTCACCATTGTGGCCTCAACCTTTCCC
* * *
24951257 ATCACATCTTCTTAGGTATCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCATATCTTCAT-G
66 ATCACATCTTCTTAGGTATCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTTAG
** * * * * * **
24951321 GTACTAGGTTCGCCGTTGCGACCTCAACCTTTCCCATCACATCTTCTAAGGTATCGAATTCGTCA
131 GTACCGGGTTCGCCGTTGCGACCTCAACCTTTCCCTTCATATCTTC-ATGGTACCGAGTTCACCA
*
24951386 TCGC
195 TTGC
* * * *
24951390 GGCCTCAATCC-TTCCCTTCAAATCTTCATGGTACCAGGTTCTCCATTGTGGCCTTAACTTTTCC
1 GGCCTCAA-CCTTTCCCTTCAAATCTTCATGGTACTAGGTTCACCATTGTGGCCTCAACCTTTCC
* * *
24951454 CATCACATCTTCTTAGGTATTGGGTTCGCCGTTACGGCTTCAACCTTTCCCATCACATCTTC-TA
65 CATCACATCTTCTTAGGTATCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTTA
* * * * **
24951518 GGGTACCGAGTTCGCCATTGTGACCTTAACCTTTCCCTTTGTATCTTCATGGTACCGAGTTCACC
130 -GGTACCGGGTTCGCCGTTGCGACCTCAACCTTTCCCTTCATATCTTCATGGTACCGAGTTCACC
*
24951583 GTTGC
194 ATTGC
* * * * * * * *
24951588 AGCCTCAACCTTT-CCTATCACATCTTCTATGGTACCAGATTCACCATCGCGGCTTGAATCC-TT
1 GGCCTCAACCTTTCCCT-TCAAATCTTC-ATGGTACTAGGTTCACCATTGTGGCCTCAA-CCTTT
* * * * *
24951651 CCCTTCAAATCTTCAT-GGTAGCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCATCGCATCTTCT
63 CCCATCACATCTTCTTAGGTATCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCATCACATCTTCT
* * ** * * * * * *
24951715 AAGGTACCGGATTTACCGTCGCGGTCC-CAATGC-TTCCTTTCAAATCTTCATGGTA-CTAGATT
128 TAGGTACCGGGTTCGCCGTTGC-GACCTCAA-CCTTTCCCTTCATATCTTCATGGTACCGAG-TT
*
24951777 CACCGTTGC
190 CACCATTGC
* * **
24951786 GGCCTCAATCATTCCCTTCAAATCTTCATGGTACTAGGTTTGCCATTGTGGCCTCAACCTTTCCC
1 GGCCTCAACCTTTCCCTTCAAATCTTCATGGTACTAGGTTCACCATTGTGGCCTCAACCTTTCCC
* * * * *
24951851 ATCACATCTTCTAAGGTACCGAGTTCACTGTTGCGGCCTCAACCTTTCC
66 ATCACATCTTCTTAGGTATCGGGTTCGCCGTTGCGGCCTCAACCTTTCC
24951900 TTTCGTATCT
Statistics
Matches: 576, Mismatches: 114, Indels: 35
0.79 0.16 0.05
Matches are distributed among these distances:
196 2 0.00
197 113 0.20
198 371 0.64
199 89 0.15
200 1 0.00
ACGTcount: A:0.18, C:0.32, G:0.17, T:0.33
Consensus pattern (198 bp):
GGCCTCAACCTTTCCCTTCAAATCTTCATGGTACTAGGTTCACCATTGTGGCCTCAACCTTTCCC
ATCACATCTTCTTAGGTATCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTTAG
GTACCGGGTTCGCCGTTGCGACCTCAACCTTTCCCTTCATATCTTCATGGTACCGAGTTCACCAT
TGC
Found at i:24951327 original size:99 final size:99
Alignment explanation
Indices: 24950982--24951899 Score: 698
Period size: 99 Copynumber: 9.3 Consensus size: 99
24950972 TAAGGTGCTA
* * * *
24950982 GGTTCGCCGTTGTGGCCTCAACCTTTCCCTTCATATCTTCATGG-A-TTGGATTCGCCGTTGTGA
1 GGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATCTTCATGGTACTAGG-TTCGCCGTTGTGG
** *
24951045 CCTCAATCC-TTCCCATCGTATCTTCTAAGGTATCG
65 CCTCAA-CCTTTCCCATCACATCTTCTTAGGTATCG
* * * ** * *
24951080 GGTTCGCCGTTGCGACCTCAACCTTTCCCATCACATCTTCTTAGGTACCGGGTTCGTCGTTGCGG
1 GGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATCTTCAT-GGTACTAGGTTCGCCGTTGTGG
* * ** * *
24951145 CCTCAATCTTTCCCTTCGTATCTTCAT-GGTACCG
65 CCTCAACCTTTCCCATCACATCTTCTTAGGTATCG
* * * * * * * *
24951179 AGTTCACCATTACGGCCTCAACCTTTCCCATC-CTATCTCCGTGGTACTAGGTTCACCGTTGTGG
1 GGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCAC-ATCTTCATGGTACTAGGTTCGCCGTTGTGG
24951243 CCTCAACCTTTCCCATCACATCTTCTTAGGTATCG
65 CCTCAACCTTTCCCATCACATCTTCTTAGGTATCG
* * *
24951278 GGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCATATCTTCATGGTACTAGGTTCGCCGTTGCGAC
1 GGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATCTTCATGGTACTAGGTTCGCCGTTGTGGC
*
24951343 CTCAACCTTTCCCATCACATCTTCTAAGGTATCG
66 CTCAACCTTTCCCATCACATCTTCTTAGGTATCG
** * * * * * * *
24951377 AATTCGTCATCGCGGCCTCAATCC-TTCCCTTCAAATCTTCATGGTACCAGGTTCTCCATTGTGG
1 GGTTCGCCGTTGCGGCCTCAA-CCTTTCCCTTCACATCTTCATGGTACTAGGTTCGCCGTTGTGG
* * *
24951441 CCTTAACTTTTCCCATCACATCTTCTTAGGTATTG
65 CCTCAACCTTTCCCATCACATCTTCTTAGGTATCG
* * * * * *
24951476 GGTTCGCCGTTACGGCTTCAACCTTTCCCATCACATCTTCTAGGGTAC-CGAGTTCGCCATTGTG
1 GGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATCTTC-ATGGTACTAG-GTTCGCCGTTGTG
* * * *** * *
24951540 ACCTTAACCTTTCCCTTTGTATCTTCAT-GGTACCG
64 GCCTCAACCTTTCCCATCACATCTTCTTAGGTATCG
* * * * * * * * *
24951575 AGTTCACCGTTGCAGCCTCAACCTTT-CCTATCACATCTTCTATGGTACCAGATTCACCATCGCG
1 GGTTCGCCGTTGCGGCCTCAACCTTTCCCT-TCACATCTTC-ATGGTACTAGGTTCGCCGTTGTG
* * * * * *
24951639 GCTTGAATCC-TTCCCTTCAAATCTTCAT-GGTAGCG
64 GCCTCAA-CCTTTCCCATCACATCTTCTTAGGTATCG
* * * * ** * *
24951674 GGTTCGCCGTTGCGGCCTCAACCTTTCCCATCGCATCTTCTAAGGTAC-CGGATTTACCGTCGCG
1 GGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATCTTC-ATGGTACTAGG-TTCGCCGTTGTG
* ** * * *
24951738 GTCC-CAATGC-TTCCTTTCAAATCTTCAT-GGTA-CTA
64 G-CCTCAA-CCTTTCCCATCACATCTTCTTAGGTATC-G
* * * * * * *
24951773 GATTCACCGTTGCGGCCTCAATCATTCCCTTCAAATCTTCATGGTACTAGGTTTGCCATTGTGGC
1 GGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATCTTCATGGTACTAGGTTCGCCGTTGTGGC
* *
24951838 CTCAACCTTTCCCATCACATCTTCTAAGGTACCG
66 CTCAACCTTTCCCATCACATCTTCTTAGGTATCG
* * *
24951872 AGTTCACTGTTGCGGCCTCAACCTTTCC
1 GGTTCGCCGTTGCGGCCTCAACCTTTCC
24951900 TTTCGTATCT
Statistics
Matches: 657, Mismatches: 140, Indels: 45
0.78 0.17 0.05
Matches are distributed among these distances:
97 3 0.00
98 114 0.17
99 458 0.70
100 80 0.12
101 2 0.00
ACGTcount: A:0.17, C:0.32, G:0.17, T:0.33
Consensus pattern (99 bp):
GGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATCTTCATGGTACTAGGTTCGCCGTTGTGGC
CTCAACCTTTCCCATCACATCTTCTTAGGTATCG
Found at i:24951610 original size:248 final size:244
Alignment explanation
Indices: 24950935--24951869 Score: 834
Period size: 248 Copynumber: 3.8 Consensus size: 244
24950925 GGGTATAAGA
* * * * * * * * **
24950935 TTCACCATTGTGGCTTCAATCTTTCCCGTCACGT-TTCTAAGGTGCTAGGTTCGCCGTTGTGGCC
1 TTCACCATTGCGGCCTCAACCTTTCCCATC-CATCTTCTTAGGTACTAGGTTCACCGTTACGGCC
* * * ** *
24950999 TCAACCTTTCCCTTCATATCTTCAT-GG-ATTG-GATTCGCCGTTGTGACCTCAATCC-TTCCCA
65 TCAACCTTTCCCATCACATCTTCTTAGGTACCGAG-TTCGCCGTTGTGACCTCAA-CCTTTCCCT
* * *
24951060 TCGTATCTTCTAAGGTATCGGGTTCGCCGTTGCGACCTCAACCTTTCCCATCACATCTTCTTAGG
128 TCGTATCTTC-ATGGTA-CGAGTTCGCCGTTGCGACCTCAACCTTTCCCATCACATCTTCTAAGG
** * * * **
24951125 TACCGGGTTCGTCGTTGCGGCCTCAATCTTTCCCTTCGTATCTTCATGGTACCGAG
191 TA-CGAATTCGTCATCGCGGCCTCAATCCTTCCCTTCAAATCTTCATGGTACCG-G
* * * **
24951181 TTCACCATTACGGCCTCAACCTTTCCCATCCTATCTCCGT-GGTACTAGGTTCACCGTTGTGGCC
1 TTCACCATTGCGGCCTCAACCTTTCCCATCC-ATCTTCTTAGGTACTAGGTTCACCGTTACGGCC
* * * *
24951245 TCAACCTTTCCCATCACATCTTCTTAGGTATCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTC
65 TCAACCTTTCCCATCACATCTTCTTAGGTACCGAGTTCGCCGTTGTGACCTCAACCTTTCCCTTC
* *
24951310 ATATCTTCATGGTACTAGGTTCGCCGTTGCGACCTCAACCTTTCCCATCACATCTTCTAAGGTAT
130 GTATCTTCATGGTACGA-GTTCGCCGTTGCGACCTCAACCTTTCCCATCACATCTTCTAAGGTA-
24951375 CGAATTCGTCATCGCGGCCTCAATCCTTCCCTTCAAATCTTCATGGTACCAGG
193 CGAATTCGTCATCGCGGCCTCAATCCTTCCCTTCAAATCTTCATGGTACC-GG
* * * * * * * *
24951428 TTCTCCATTGTGGCCTTAACTTTTCCCATCACATCTTCTTAGGTATTGGGTTCGCCGTTACGGCT
1 TTCACCATTGCGGCCTCAACCTTTCCCATC-CATCTTCTTAGGTACTAGGTTCACCGTTACGGCC
* *
24951493 TCAACCTTTCCCATCACATCTTC-TAGGGTACCGAGTTCGCCATTGTGACCTTAACCTTTCCCTT
65 TCAACCTTTCCCATCACATCTTCTTA-GGTACCGAGTTCGCCGTTGTGACCTCAACCTTTCCCTT
* * * *
24951557 TGTATCTTCATGGTACCGAGTTCACCGTTGC-AGCCTCAACCTTTCCTATCACATCTTCTATGGT
129 CGTATCTTCATGGTA-CGAGTTCGCCGTTGCGA-CCTCAACCTTTCCCATCACATCTTCTAAGGT
* ** * * *
24951621 ACCAGATTCACCATCGCGGCTTGAATCCTTCCCTTCAAATCTTCATGGTAGCGGG
192 ACGA-ATTCGTCATCGCGGCCTCAATCCTTCCCTTCAAATCTTCATGGTA-CCGG
* * * * * **
24951676 TTCGCCGTTGCGGCCTCAACCTTTCCCATCGCATCTTCTAAGGTAC-CGGATTTACCGTCGCGGT
1 TTCACCATTGCGGCCTCAACCTTTCCCATC-CATCTTCTTAGGTACTAGG-TTCACCGTTACGG-
* ** * * * * * * * *
24951740 CC-CAATGC-TTCCTTTCAAATCTTCAT-GGTA-CTAGATTCACCGTTGCGGCCTCAATCATTCC
63 CCTCAA-CCTTTCCCATCACATCTTCTTAGGTACCGAG-TTCGCCGTTGTGACCTCAACCTTTCC
** * * * * *
24951801 CTTCAAATCTTCATGGTACTAGGTTTGCCATTGTGGCCTCAACCTTTCCCATCACATCTTCTAAG
126 CTTCGTATCTTCATGGTACGA-GTTCGCCGTTGCGACCTCAACCTTTCCCATCACATCTTCTAAG
24951866 GTAC
190 GTAC
24951870 CGAGTTCACT
Statistics
Matches: 568, Mismatches: 99, Indels: 43
0.80 0.14 0.06
Matches are distributed among these distances:
245 1 0.00
246 76 0.13
247 215 0.38
248 269 0.47
249 7 0.01
ACGTcount: A:0.17, C:0.32, G:0.17, T:0.34
Consensus pattern (244 bp):
TTCACCATTGCGGCCTCAACCTTTCCCATCCATCTTCTTAGGTACTAGGTTCACCGTTACGGCCT
CAACCTTTCCCATCACATCTTCTTAGGTACCGAGTTCGCCGTTGTGACCTCAACCTTTCCCTTCG
TATCTTCATGGTACGAGTTCGCCGTTGCGACCTCAACCTTTCCCATCACATCTTCTAAGGTACGA
ATTCGTCATCGCGGCCTCAATCCTTCCCTTCAAATCTTCATGGTACCGG
Found at i:24951943 original size:148 final size:148
Alignment explanation
Indices: 24950939--24951924 Score: 696
Period size: 148 Copynumber: 6.7 Consensus size: 148
24950929 ATAAGATTCA
* * * * * * * *
24950939 CCATTGTGGCTTCAATCTTTCCCGTCACGT-TTCTAAGGT-GCTAGGTTCGCCGTTGTGGCCTCA
1 CCATTGTGGCCTCAACCTTTCCCATCACATCTTCTAAGGTACCGA-GTTCACCGTTGCGGCCTCA
* * * * * **
24951002 ACCTTTCCCTTCATATCTTCATGG-A-TTGGATTCGCCGTTGTGACCTCAATCC-TTCCCATCGT
65 ACCTTTCCCTTCATATCTCCATGGTACTAGG-TTCACCGTTGCGGCCTCAA-CCTTTCCCATCAA
* *
24951064 ATCTTCTAAGGTA-TCGGGTTCG
128 ATCTTC-ATGGTACT-AGGTTCG
* * * * * **
24951086 CCGTTGCGACCTCAACCTTTCCCATCACATCTTCTTAGGTACCGGGTTCGTCGTTGCGGCCTCAA
1 CCATTGTGGCCTCAACCTTTCCCATCACATCTTCTAAGGTACCGAGTTCACCGTTGCGGCCTCAA
* * * * * * **
24951151 TCTTTCCCTTCGTATCTTCATGGTAC-CGAGTTCACCATTACGGCCTCAACCTTTCCCATCCTAT
66 CCTTTCCCTTCATATCTCCATGGTACTAG-GTTCACCGTTGCGGCCTCAACCTTTCCCATCAAAT
* * *
24951215 CTCCGTGGTACTAGGTTCA
130 CTTCATGGTACTAGGTTCG
* * * * *
24951234 CCGTTGTGGCCTCAACCTTTCCCATCACATCTTCTTAGGTATCGGGTTCGCCGTTGCGGCCTCAA
1 CCATTGTGGCCTCAACCTTTCCCATCACATCTTCTAAGGTACCGAGTTCACCGTTGCGGCCTCAA
* * * *
24951299 CCTTTCCCTTCATATCTTCATGGTACTAGGTTCGCCGTTGCGACCTCAACCTTTCCCATCACATC
66 CCTTTCCCTTCATATCTCCATGGTACTAGGTTCACCGTTGCGGCCTCAACCTTTCCCATCAAATC
* * *
24951364 TTCTAAGGTA-TCGAATTCG
131 TTC-ATGGTACTAG-GTTCG
* * * * * * * * * *
24951383 TCATCGCGGCCTCAATCC-TTCCCTTCAAATCTTC-ATGGTACC-AGGTTCTCCATTGTGGCCTT
1 CCATTGTGGCCTCAA-CCTTTCCCATCACATCTTCTAAGGTACCGA-GTTCACCGTTGCGGCCTC
* * * * * * * * * * *
24951445 AACTTTTCCCATCACATCTTCTTAGGTATTGGGTTCGCCGTTACGGCTTCAACCTTTCCCATCAC
64 AACCTTTCCCTTCATATCTCCAT-GGTACTAGGTTCACCGTTGCGGCCTCAACCTTTCCCATCAA
* *
24951510 ATCTTCTAGGGTAC-CGAGTTCG
128 ATCTTC-ATGGTACTAG-GTTCG
* * * *** * *
24951532 CCATTGTGACCTTAACCTTTCCCTTTGTATCTTC-ATGGTACCGAGTTCACCGTTGCAGCCTCAA
1 CCATTGTGGCCTCAACCTTTCCCATCACATCTTCTAAGGTACCGAGTTCACCGTTGCGGCCTCAA
* * * * * * * * *
24951596 CCTTT-CCTATCACATCTTCTATGGTACCAGATTCACCATCGCGGCTTGAATCC-TTCCCTTCAA
66 CCTTTCCCT-TCATATC-TCCATGGTACTAGGTTCACCGTTGCGGCCTCAA-CCTTTCCCATCAA
*
24951659 ATCTTCATGGTAGC-GGGTTCG
128 ATCTTCATGGTA-CTAGGTTCG
* * * * *
24951680 CCGTTGCGGCCTCAACCTTTCCCATCGCATCTTCTAAGGTACCG-GATTTACCGTCGCGGTCC-C
1 CCATTGTGGCCTCAACCTTTCCCATCACATCTTCTAAGGTACCGAG-TTCACCGTTGCGG-CCTC
* * * * * * * *
24951743 AATGC-TTCCTTTCAAATCTTCATGGTACTAGATTCACCGTTGCGGCCTCAATCATTCCCTTCAA
64 AA-CCTTTCCCTTCATATCTCCATGGTACTAGGTTCACCGTTGCGGCCTCAACCTTTCCCATCAA
*
24951807 ATCTTCATGGTACTAGGTTTG
128 ATCTTCATGGTACTAGGTTCG
*
24951828 CCATTGTGGCCTCAACCTTTCCCATCACATCTTCTAAGGTACCGAGTTCACTGTTGCGGCCTCAA
1 CCATTGTGGCCTCAACCTTTCCCATCACATCTTCTAAGGTACCGAGTTCACCGTTGCGGCCTCAA
* * * *
24951893 CCTTTCCTTTCGTATCTCCAGGGTATTAGGTT
66 CCTTTCCCTTCATATCTCCATGGTACTAGGTT
24951925 TGTCGTTGCA
Statistics
Matches: 670, Mismatches: 139, Indels: 59
0.77 0.16 0.07
Matches are distributed among these distances:
147 28 0.04
148 387 0.58
149 242 0.36
150 13 0.02
ACGTcount: A:0.17, C:0.32, G:0.18, T:0.34
Consensus pattern (148 bp):
CCATTGTGGCCTCAACCTTTCCCATCACATCTTCTAAGGTACCGAGTTCACCGTTGCGGCCTCAA
CCTTTCCCTTCATATCTCCATGGTACTAGGTTCACCGTTGCGGCCTCAACCTTTCCCATCAAATC
TTCATGGTACTAGGTTCG
Found at i:24951955 original size:148 final size:147
Alignment explanation
Indices: 24951648--24951955 Score: 363
Period size: 148 Copynumber: 2.1 Consensus size: 147
24951638 GGCTTGAATC
* * *
24951648 CTTCCCTTCAAATCTTCATGGTAGCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCATCGCATCTT
1 CTTCCCTTCAAATCTTCATGGTAGCAGGTTCGCCATTGCGGCCTCAACCTTTCCCATCACATCTT
* * * *
24951713 CTAAGGTACCGGATTTACCGTCGCGGTCCCAATGCTTCCTTTCAAATCTTCATGGTACTAGATTC
66 CTAAGGTACCGGATTCACCGTCGCGGTCCCAATCCTTCCTTTCAAATCTCCAGGGTACTAGATTC
*
24951778 ACCGTTGCGGCCTCAAT
131 ACCGTTGCAGCCTCAAT
* *
24951795 CATTCCCTTCAAATCTTCATGGTA-CTAGGTTTGCCATTGTGGCCTCAACCTTTCCCATCACATC
1 C-TTCCCTTCAAATCTTCATGGTAGC-AGGTTCGCCATTGCGGCCTCAACCTTTCCCATCACATC
* * ** *
24951859 TTCTAAGGTACC-GAGTTCACTGTTGCGG-CCTCAA-CCTTTCCTTTCGTATCTCCAGGGTATTA
64 TTCTAAGGTACCGGA-TTCACCGTCGCGGTCC-CAATCC-TTCCTTTCAAATCTCCAGGGTACTA
* ***
24951921 GGTTTGTCGTTGCAGCCTCAAT
126 GATTCACCGTTGCAGCCTCAAT
24951943 CTTCCCTGTCAAA
1 CTTCCCT-TCAAA
24951956 CCTGTAAAAT
Statistics
Matches: 136, Mismatches: 19, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
147 13 0.10
148 123 0.90
ACGTcount: A:0.18, C:0.31, G:0.18, T:0.33
Consensus pattern (147 bp):
CTTCCCTTCAAATCTTCATGGTAGCAGGTTCGCCATTGCGGCCTCAACCTTTCCCATCACATCTT
CTAAGGTACCGGATTCACCGTCGCGGTCCCAATCCTTCCTTTCAAATCTCCAGGGTACTAGATTC
ACCGTTGCAGCCTCAAT
Found at i:24960219 original size:30 final size:29
Alignment explanation
Indices: 24960125--24960441 Score: 183
Period size: 30 Copynumber: 10.7 Consensus size: 29
24960115 TTTGGAAGTA
* * * *
24960125 AAAATGCAGTTTTGGGAAAGTTTAGGGTC
1 AAAATGTAATTTTGGGAAAGTTGAGGGTT
* ** *
24960154 AAAATATGGTTTTGGGAAAGTTCGA-GGTC
1 AAAATGTAATTTTGGGAAAGTT-GAGGGTT
*
24960183 AAAATGTGATTTTGGGAAAGTGTGAGGGTT
1 AAAATGTAATTTTGGGAAAGT-TGAGGGTT
* ** * *
24960213 AAAATGTAAATTTAGAAAAATTTGGGGGTT
1 AAAATGT-AATTTTGGGAAAGTTGAGGGTT
* * *
24960243 AAAATGTGATTTTAGGAAAGTTTAGAGGTT
1 AAAATGTAATTTTGGGAAAGTTGAG-GGTT
** ** * *
24960273 AAAACATAATTTTGAAAAAGTTTAAGGGCT
1 AAAATGTAATTTTGGGAAAG-TTGAGGGTT
* *
24960303 AAAATGTGATTTTGGGAAA-TAT-AGGGTC
1 AAAATGTAATTTTGGGAAAGT-TGAGGGTT
** * **
24960331 AAAATGTAATTTTGCAAAAGTTTAGGGGCC
1 AAAATGTAATTTTGGGAAAGTTGA-GGGTT
* *
24960361 AAAATATAATTTTAGGAAAGTTTG-GGTGTT
1 AAAATGTAATTTTGGGAAAG-TTGAGG-GTT
* *
24960391 AAAATGTAATTTTGGAAAAGTTTGAGGGAT
1 AAAATGTAATTTTGGGAAAG-TTGAGGGTT
* * *
24960421 AAAATGTGATATTAGGAAAGT
1 AAAATGTAATTTTGGGAAAGT
24960442 GTGGGGAACT
Statistics
Matches: 220, Mismatches: 55, Indels: 26
0.73 0.18 0.09
Matches are distributed among these distances:
28 22 0.10
29 60 0.27
30 121 0.55
31 17 0.08
ACGTcount: A:0.38, C:0.03, G:0.26, T:0.33
Consensus pattern (29 bp):
AAAATGTAATTTTGGGAAAGTTGAGGGTT
Found at i:24960254 original size:60 final size:59
Alignment explanation
Indices: 24960183--24960444 Score: 253
Period size: 60 Copynumber: 4.4 Consensus size: 59
24960173 GTTCGAGGTC
* * ** *
24960183 AAAATGTGATTTTGGGAAAGTGTGAGGGTTAAAATGTAAATTTAGAAAAATTTGGGGGTT
1 AAAATGTGATTTTAGGAAAGTGTGAGGGTTAAAATGT-AATTTTGAAAAATTTAAGGGCT
* **
24960243 AAAATGTGATTTTAGGAAAGT-TTAGAGGTTAAAACATAATTTTGAAAAAGTTTAAGGGCT
1 AAAATGTGATTTTAGGAAAGTGTGAG-GGTTAAAATGTAATTTTGAAAAA-TTTAAGGGCT
* * * * * *
24960303 AAAATGTGATTTTGGGAAA-TAT-AGGGTCAAAATGTAATTTTGCAAAAGTTTAGGGGCC
1 AAAATGTGATTTTAGGAAAGTGTGAGGGTTAAAATGTAATTTTG-AAAAATTTAAGGGCT
* * * * * *
24960361 AAAATATAATTTTAGGAAAGTTTG-GGTGTTAAAATGTAATTTTGGAAAAGTTTGAGGGAT
1 AAAATGTGATTTTAGGAAAGTGTGAGG-GTTAAAATGTAATTTT-GAAAAATTTAAGGGCT
*
24960421 AAAATGTGATATTAGGAAAGTGTG
1 AAAATGTGATTTTAGGAAAGTGTG
24960445 GGGAACTATT
Statistics
Matches: 166, Mismatches: 28, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
58 39 0.23
59 25 0.15
60 101 0.61
61 1 0.01
ACGTcount: A:0.39, C:0.02, G:0.26, T:0.33
Consensus pattern (59 bp):
AAAATGTGATTTTAGGAAAGTGTGAGGGTTAAAATGTAATTTTGAAAAATTTAAGGGCT
Found at i:24960365 original size:118 final size:120
Alignment explanation
Indices: 24960183--24960441 Score: 319
Period size: 118 Copynumber: 2.2 Consensus size: 120
24960173 GTTCGAGGTC
* * * **
24960183 AAAATGTGATTTTGGGAAAGTGTGAGGGTTAAAATGTAAATTTAGAAAAATTTGGGGGTTAAAAT
1 AAAATGTGATTTTGGGAAAGTATGAGGGTCAAAATGTAAATTTAGAAAAATTTAGGGGCCAAAAT
* * *
24960248 GTGATTTTAGGAAAGTTTAGAG-GTTAAAACATAATTTTGAAAAAGTTTAAGGGCT
66 ATAATTTTAGGAAAGTTT-GAGTGTTAAAACATAATTTTGAAAAAGTTTAAGGGAT
* *
24960303 AAAATGTGATTTTGGGAAA-TAT-AGGGTCAAAATGT-AATTTTGCAAAAGTTTAGGGGCCAAAA
1 AAAATGTGATTTTGGGAAAGTATGAGGGTCAAAATGTAAATTTAG-AAAAATTTAGGGGCCAAAA
* ** * *
24960365 TATAATTTTAGGAAAGTTTGGGTGTTAAAATGTAATTTTGGAAAAGTTTGAGGGAT
65 TATAATTTTAGGAAAGTTTGAGTGTTAAAACATAATTTTGAAAAAGTTTAAGGGAT
* *
24960421 AAAATGTGATATTAGGAAAGT
1 AAAATGTGATTTTGGGAAAGT
24960442 GTGGGGAACT
Statistics
Matches: 119, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
117 8 0.07
118 89 0.75
119 3 0.03
120 19 0.16
ACGTcount: A:0.39, C:0.02, G:0.25, T:0.33
Consensus pattern (120 bp):
AAAATGTGATTTTGGGAAAGTATGAGGGTCAAAATGTAAATTTAGAAAAATTTAGGGGCCAAAAT
ATAATTTTAGGAAAGTTTGAGTGTTAAAACATAATTTTGAAAAAGTTTAAGGGAT
Found at i:24961847 original size:18 final size:19
Alignment explanation
Indices: 24961824--24961861 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
24961814 TTGGACAAAC
24961824 TAAATTTTAAA-TTTATTT
1 TAAATTTTAAATTTTATTT
24961842 TAAATTTTAAATTTTATTT
1 TAAATTTTAAATTTTATTT
24961861 T
1 T
24961862 TGGGTTCAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
TAAATTTTAAATTTTATTT
Found at i:24966957 original size:34 final size:34
Alignment explanation
Indices: 24966918--24967034 Score: 171
Period size: 34 Copynumber: 3.4 Consensus size: 34
24966908 ATTACAATGT
*
24966918 CATTTGGTGTGCTGGATGGATTGGCTCATACGAG
1 CATTTGGTGTGCTGGATGGACTGGCTCATACGAG
*
24966952 CATTTGGTATGCTGGATGGACTGGCTCATACGAG
1 CATTTGGTGTGCTGGATGGACTGGCTCATACGAG
* * *
24966986 CATTTGATGTACTGGATGGACTGGCTTATACGAG
1 CATTTGGTGTGCTGGATGGACTGGCTCATACGAG
* *
24967020 CATCTGGTGTTCTGG
1 CATTTGGTGTGCTGG
24967035 TTGGTTAACA
Statistics
Matches: 74, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 74 1.00
ACGTcount: A:0.19, C:0.16, G:0.32, T:0.32
Consensus pattern (34 bp):
CATTTGGTGTGCTGGATGGACTGGCTCATACGAG
Found at i:24971779 original size:297 final size:296
Alignment explanation
Indices: 24971281--24972044 Score: 774
Period size: 297 Copynumber: 2.6 Consensus size: 296
24971271 AAATATTATT
* * * * * * * * *
24971281 ATATGTATGTTTTTATTGATTTTTGTTAAAATAAAAAAAACTAAAATACCCTCGATTAGTATAAT
1 ATATGTATATTTTTATTGGTTTTTGTTAAAAT-AAAAAGATTAAAATATCATCGAATAATATAAC
* * * * * *
24971346 TTATTTTAATTACAAAAGGATATTTTTATAATTTTCCTAACCGAATTGATGACCCGGTTGTAGAT
65 TTATTTTAATTACGAAATGATATTTCTATAATTTTCCTAACCAAATTGATGACCCGATTGTAGAG
* * * * * ** *
24971411 GACACAAAGTTAGTAAAACATTTAATAAATAGTATAGATATACAACTGAGAAAAGTAATAAAGTG
130 GACACAAACTCAATAAAACAATTAATAAATAATATAGATATACAACAAAGAAAAGTAATAAAGTA
* * *
24971476 TTCATAATAAAATAAAAATATATACAAA-TATCAAAATGAA-GCTTTGGTTGATTGGTAAATTTA
195 TTCATAATAAAATAAAAATATATACAAACT-TCAAAATGAATG-TTTGATTGAGTGATAAATTTA
* *
24971539 A-AGTTTTACTAATCCAATTGAAAT-TA-GTTTAAATCTTACC
258 AGA-TTTTACTAATCCAATTG--ATGTAGGTTCAAAT-TCACC
* *
24971579 ATATGTATATTTTTATTGGTTTTTGTTAAAATAAAAAGATTAAAATATCATTGAATGATATAACT
1 ATATGTATATTTTTATTGGTTTTTGTTAAAATAAAAAGATTAAAATATCATCGAATAATATAACT
* * * * * *
24971644 TATTTTAATTATGAAATGACATTTCTATAATTTTTCTAATCAAATTGATGACCTGATTGTGGAGG
66 TATTTTAATTACGAAATGATATTTCTATAATTTTCCTAACCAAATTGATGACCCGATTGTAGAGG
* * * *
24971709 ACACCAACTCAATAAAATAATTAATAAATAATATAGATATACAACAAATGGAGA-TAATAAA-TA
131 ACACAAACTCAATAAAACAATTAATAAATAATATAGATATACAACAAA-GAAAAGTAATAAAGT-
* * * * * *
24971772 ATTCATAATAAAATAAAAATGTTTACAAACTTTATAATGAATGTTTGATTGAGTGATAACTTTAC
194 ATTCATAATAAAATAAAAATATATACAAACTTCAAAATGAATGTTTGATTGAGTGATAAATTTAA
* * * *
24971837 GATTTTATTAATTCAATTGGTGTAGGTTCAAATTCATC
259 GATTTTACTAATCCAATTGATGTAGGTTCAAATTCACC
*
24971875 TTATGTATATTTTTATTGGTTTTTGTTAAAAATAAAAAGATTAAAATATCATCGAATAATATAAC
1 ATATGTATATTTTTATTGGTTTTTGTT-AAAATAAAAAGATTAAAATATCATCGAATAATATAAC
* * * * * * * *
24971940 TTATTTTAATTACGAAATGATATTT-TCGTAATTTTCCTTACCGAATTGGTGGCTCAATT-AAGG
65 TTATTTTAATTACGAAATGATATTTCT-ATAATTTTCCTAACCAAATTGATGACCCGATTGTA-G
* * * *
24972003 ATGACACCAAC-CTAATAAAACACTTAATAAATAGTATAGATA
128 AGGACACAAACTC-AATAAAACAATTAATAAATAATATAGATA
24972045 ATAATGCAAT
Statistics
Matches: 384, Mismatches: 71, Indels: 23
0.80 0.15 0.05
Matches are distributed among these distances:
295 1 0.00
296 34 0.09
297 313 0.82
298 36 0.09
ACGTcount: A:0.42, C:0.09, G:0.12, T:0.38
Consensus pattern (296 bp):
ATATGTATATTTTTATTGGTTTTTGTTAAAATAAAAAGATTAAAATATCATCGAATAATATAACT
TATTTTAATTACGAAATGATATTTCTATAATTTTCCTAACCAAATTGATGACCCGATTGTAGAGG
ACACAAACTCAATAAAACAATTAATAAATAATATAGATATACAACAAAGAAAAGTAATAAAGTAT
TCATAATAAAATAAAAATATATACAAACTTCAAAATGAATGTTTGATTGAGTGATAAATTTAAGA
TTTTACTAATCCAATTGATGTAGGTTCAAATTCACC
Found at i:24978442 original size:21 final size:23
Alignment explanation
Indices: 24978416--24978457 Score: 70
Period size: 21 Copynumber: 1.9 Consensus size: 23
24978406 TAATACAATA
24978416 AACACAAAGAC-A-CCTAAGATT
1 AACACAAAGACAATCCTAAGATT
24978437 AACACAAAGACAATCCTAAGA
1 AACACAAAGACAATCCTAAGA
24978458 AACAACCCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 11 0.58
22 1 0.05
23 7 0.37
ACGTcount: A:0.55, C:0.24, G:0.10, T:0.12
Consensus pattern (23 bp):
AACACAAAGACAATCCTAAGATT
Found at i:24978461 original size:21 final size:19
Alignment explanation
Indices: 24978415--24978461 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 19
24978405 TTAATACAAT
24978415 AAACACAAAGACACCTAAG
1 AAACACAAAGACACCTAAG
24978434 ATTAACACAAAGACAATCCTAAG
1 A--AACACAAAGAC-A-CCTAAG
24978457 AAACA
1 AAACA
24978462 ACCCTTGACA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
19 1 0.04
21 15 0.62
22 1 0.04
23 7 0.29
ACGTcount: A:0.57, C:0.23, G:0.09, T:0.11
Consensus pattern (19 bp):
AAACACAAAGACACCTAAG
Found at i:24982843 original size:24 final size:24
Alignment explanation
Indices: 24982794--24982850 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
24982784 AAAAGTAGGT
* *
24982794 TATA-TATTATTTTTCTAATATTA
1 TATATTATAATTTTTCTAATATCA
24982817 TATATTATAATTTTTACTAAT-TCA
1 TATATTATAATTTTT-CTAATATCA
24982841 TAT-TT-TAATT
1 TATATTATAATT
24982851 ATAATTATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
22 5 0.17
23 6 0.20
24 14 0.47
25 5 0.17
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (24 bp):
TATATTATAATTTTTCTAATATCA
Found at i:24982868 original size:10 final size:10
Alignment explanation
Indices: 24982848--24982960 Score: 60
Period size: 10 Copynumber: 11.3 Consensus size: 10
24982838 TCATATTTTA
24982848 ATTATAATTAT
1 ATTA-AATTAT
24982859 ATTAAATTATT
1 ATTAAATTA-T
24982870 ATTAAATTAT
1 ATTAAATTAT
* *
24982880 A-TATTATTTT
1 ATTA-AATTAT
24982890 ATTAAA-TAGT
1 ATTAAATTA-T
*
24982900 ATTTAA-TA-
1 ATTAAATTAT
24982908 A-T-AATTAT
1 ATTAAATTAT
* *
24982916 GTTAAAATAT
1 ATTAAATTAT
24982926 AATTAAATTA-
1 -ATTAAATTAT
*
24982936 ATTAATATTTTT
1 ATTAA-A-TTAT
24982948 ATTAAATTAT
1 ATTAAATTAT
24982958 ATT
1 ATT
24982961 TAATAATAAT
Statistics
Matches: 79, Mismatches: 11, Indels: 25
0.69 0.10 0.22
Matches are distributed among these distances:
6 2 0.03
7 3 0.04
8 1 0.01
9 9 0.11
10 33 0.42
11 26 0.33
12 5 0.06
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (10 bp):
ATTAAATTAT
Found at i:24982868 original size:16 final size:16
Alignment explanation
Indices: 24982846--24982958 Score: 58
Period size: 16 Copynumber: 7.1 Consensus size: 16
24982836 ATTCATATTT
*
24982846 TAATTATAATTATATTA
1 TAATTAT-ATTAAATTA
24982863 -AATTATTATTAAATTA
1 TAATTA-TATTAAATTA
*
24982879 TATATTAT-TT-TATTA
1 TA-ATTATATTAAATTA
* *
24982894 -AA-TAGTATTTAATAA
1 TAATTA-TATTAAATTA
* *
24982909 TAATTATGTTAAAATA
1 TAATTATATTAAATTA
*
24982925 TAATTAAATT-AATTAA
1 TAATTATATTAAATT-A
* *
24982941 TATTTTTATTAAATTA
1 TAATTATATTAAATTA
24982957 TA
1 TA
24982959 TTTAATAATA
Statistics
Matches: 72, Mismatches: 14, Indels: 21
0.67 0.13 0.20
Matches are distributed among these distances:
12 2 0.03
13 2 0.03
14 3 0.04
15 10 0.14
16 42 0.58
17 9 0.12
18 4 0.06
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
TAATTATATTAAATTA
Found at i:24982914 original size:57 final size:58
Alignment explanation
Indices: 24982826--24982970 Score: 172
Period size: 57 Copynumber: 2.5 Consensus size: 58
24982816 ATATATTATA
* * * * *
24982826 ATTTTTACT-AATTCATATTTTAATTATAATTATATTAAATTATTATTAAATT-ATATATT
1 ATTTTTATTAAATT-ATA-TTTAATAATAATTATATTAAAATATAATTAAATTAAT-TAAT
*
24982885 A-TTTTATTAAA-TAGTATTTAATAATAATTATGTTAAAATATAATTAAATTAATTAAT
1 ATTTTTATTAAATTA-TATTTAATAATAATTATATTAAAATATAATTAAATTAATTAAT
24982942 ATTTTTATTAAATTATATTTAATAATAAT
1 ATTTTTATTAAATTATATTTAATAATAAT
24982971 CATTAAAATT
Statistics
Matches: 75, Mismatches: 6, Indels: 11
0.82 0.07 0.12
Matches are distributed among these distances:
57 35 0.47
58 35 0.47
59 5 0.07
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (58 bp):
ATTTTTATTAAATTATATTTAATAATAATTATATTAAAATATAATTAAATTAATTAAT
Found at i:24982995 original size:20 final size:20
Alignment explanation
Indices: 24982958--24982995 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
24982948 ATTAAATTAT
* *
24982958 ATTTAATAATAATCATTAAA
1 ATTTAATAACAATAATTAAA
24982978 ATTTAATAACAATAATTA
1 ATTTAATAACAATAATTA
24982996 TCTAACTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.39
Consensus pattern (20 bp):
ATTTAATAACAATAATTAAA
Found at i:24983175 original size:16 final size:16
Alignment explanation
Indices: 24983156--24983195 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
24983146 GTCTTGTTCT
24983156 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
* *
24983172 ATTACACCTCTATTTC
1 ATTACAGCTCTATTCC
24983188 ATTACAGC
1 ATTACAGC
24983196 GAACCAAATG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.28, C:0.30, G:0.05, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:24984358 original size:17 final size:16
Alignment explanation
Indices: 24984330--24984392 Score: 90
Period size: 17 Copynumber: 3.8 Consensus size: 16
24984320 AAATTTTAAA
*
24984330 AATTTTAATTTATTTT
1 AATTTAAATTTATTTT
24984346 AAGTTTAAATTTATTTT
1 AA-TTTAAATTTATTTT
24984363 AAATTTAAATTTATTTT
1 -AATTTAAATTTATTTT
24984380 GAATTTAAATTTA
1 -AATTTAAATTTA
24984393 AAGTTTAATT
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
16 2 0.05
17 39 0.91
18 2 0.05
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (16 bp):
AATTTAAATTTATTTT
Found at i:24984369 original size:23 final size:24
Alignment explanation
Indices: 24984329--24984400 Score: 69
Period size: 23 Copynumber: 3.1 Consensus size: 24
24984319 CAAATTTTAA
* *
24984329 AAATTTTAATTT-ATTTTAAGTTT
1 AAATTTGAATTTAAATTTAAGTTT
* *
24984352 AAATTT-ATTTTAAATTTAAATTT
1 AAATTTGAATTTAAATTTAAGTTT
*
24984375 -ATTTTGAATTTAAATTTAAAGTTT
1 AAATTTGAATTTAAATTT-AAGTTT
24984399 AA
1 AA
24984401 TTAAAAGTCC
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
22 8 0.21
23 25 0.64
24 5 0.13
25 1 0.03
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (24 bp):
AAATTTGAATTTAAATTTAAGTTT
Found at i:24984399 original size:7 final size:6
Alignment explanation
Indices: 24984329--24984400 Score: 60
Period size: 6 Copynumber: 12.3 Consensus size: 6
24984319 CAAATTTTAA
* * * *
24984329 AAATTT TAATTT -ATTTT AAGTTT AAATTT -ATTTT AAATTT AAATTT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT
* *
24984375 -ATTTT GAATTT AAATTT AAAGTTT AA
1 AAATTT AAATTT AAATTT AAA-TTT AA
24984401 TTAAAAGTCC
Statistics
Matches: 53, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
5 12 0.23
6 36 0.68
7 5 0.09
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (6 bp):
AAATTT
Found at i:24985071 original size:10 final size:10
Alignment explanation
Indices: 24985056--24985096 Score: 55
Period size: 10 Copynumber: 3.9 Consensus size: 10
24985046 GCATTCAATA
24985056 AATAATAAAT
1 AATAATAAAT
24985066 AATAATAAAT
1 AATAATAAAT
*
24985076 ATAGTATTAAAT
1 A-A-TAATAAAT
24985088 AATAATAAA
1 AATAATAAA
24985097 AAGAGGAGGG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 17 0.63
11 2 0.07
12 8 0.30
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (10 bp):
AATAATAAAT
Found at i:24986249 original size:28 final size:28
Alignment explanation
Indices: 24986178--24986480 Score: 209
Period size: 29 Copynumber: 10.6 Consensus size: 28
24986168 CCAAAACCCT
*
24986178 CAAAAATTAC-ATTTTCACCCTCGAACTTC
1 CAAAAATTACAATTTTC-CCC-CAAACTTC
*
24986207 TCCAAAATTAC-ATTTTCCCCCAAACTTC
1 -CAAAAATTACAATTTTCCCCCAAACTTC
* * **
24986235 CAAAAATCACAA-TTTCTCTTAAACTTC
1 CAAAAATTACAATTTTCCCCCAAACTTC
* *
24986262 CAAAAATTACATTTTTACCCCTAAACTTC
1 CAAAAATTACAATTTT-CCCCCAAACTTC
* * * *
24986291 TCCAAAATTACATTTTTACCCTAAACTTC
1 -CAAAAATTACAATTTTCCCCCAAACTTC
* **
24986320 TCCAAAATTACAATTTTGCCCTAAAACTTC
1 -CAAAAATTACAATTTT-CCCCCAAACTTC
* * * *
24986350 TAAAAATCACATTTTTACCCTCAAACTTC
1 CAAAAATTACAATTTT-CCCCCAAACTTC
*
24986379 CAAAAATTACACTTTTCCCCCAAACTTC
1 CAAAAATTACAATTTTCCCCCAAACTTC
* * * * * *
24986407 CAAAAATCACATTTTTTCCTCGAACATC
1 CAAAAATTACAATTTTCCCCCAAACTTC
** *
24986435 CAAAAAGTT-CAATTTTAATCCCAAATTTTC
1 CAAAAA-TTACAATTTT-CCCCCAAA-CTTC
*
24986465 CAAAAATTTCAATTTT
1 CAAAAATTACAATTTT
24986481 GATCCCCAAA
Statistics
Matches: 223, Mismatches: 41, Indels: 18
0.79 0.15 0.06
Matches are distributed among these distances:
27 30 0.13
28 56 0.25
29 83 0.37
30 54 0.24
ACGTcount: A:0.37, C:0.28, G:0.01, T:0.34
Consensus pattern (28 bp):
CAAAAATTACAATTTTCCCCCAAACTTC
Found at i:24986306 original size:29 final size:27
Alignment explanation
Indices: 24986178--24986421 Score: 227
Period size: 29 Copynumber: 8.6 Consensus size: 27
24986168 CCAAAACCCT
*
24986178 CAAAAATTACATTTTCACCCTCGAACTTC
1 CAAAAATTACATTTTC-CCCT-AAACTTC
* *
24986207 TCCAAAATTACATTTTCCCCCAAACTTC
1 -CAAAAATTACATTTTCCCCTAAACTTC
* * * *
24986235 CAAAAATCACAATTTCTCTTAAACTTC
1 CAAAAATTACATTTTCCCCTAAACTTC
24986262 CAAAAATTACATTTTTACCCCTAAACTTC
1 CAAAAATTACA-TTTT-CCCCTAAACTTC
* *
24986291 TCCAAAATTACATTTTTACCCTAAACTTC
1 -CAAAAATTACA-TTTTCCCCTAAACTTC
* *
24986320 TCCAAAATTACAATTTTGCCCTAAAACTTC
1 -CAAAAATTAC-ATTTTCCCCT-AAACTTC
* * *
24986350 TAAAAATCACATTTTTACCCTCAAACTTC
1 CAAAAATTACA-TTTTCCCCT-AAACTTC
*
24986379 CAAAAATTACACTTTTCCCCCAAACTTC
1 CAAAAATTACA-TTTTCCCCTAAACTTC
*
24986407 CAAAAATCACATTTT
1 CAAAAATTACATTTT
24986422 TTCCTCGAAC
Statistics
Matches: 181, Mismatches: 27, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
27 35 0.19
28 27 0.15
29 81 0.45
30 38 0.21
ACGTcount: A:0.37, C:0.29, G:0.01, T:0.33
Consensus pattern (27 bp):
CAAAAATTACATTTTCCCCTAAACTTC
Found at i:24986317 original size:58 final size:57
Alignment explanation
Indices: 24986178--24986422 Score: 275
Period size: 57 Copynumber: 4.3 Consensus size: 57
24986168 CCAAAACCCT
* * * *
24986178 CAAAAATTACATTTTCACCCTCGAACTTCTCCAAAATTACATTTTCCCCCAAACTTC
1 CAAAAATCACATTTTTACCCTCAAACTTCTCAAAAATTACATTTTCCCCCAAACTTC
* * * *
24986235 CAAAAATCACA-ATTT-CTCTTAAACTTC-CAAAAATTACATTTTTACCCCTAAACTTC
1 CAAAAATCACATTTTTACCCTCAAACTTCTCAAAAATTACA-TTTT-CCCCCAAACTTC
* * * **
24986291 TCCAAAATTACATTTTTACCCT-AAACTTCTCCAAAATTACAATTTTGCCCTAAAACTTC
1 -CAAAAATCACATTTTTACCCTCAAACTTCTCAAAAATTAC-ATTTT-CCCCCAAACTTC
*
24986350 TAAAAATCACATTTTTACCCTCAAACTTC-CAAAAATTACACTTTTCCCCCAAACTTC
1 CAAAAATCACATTTTTACCCTCAAACTTCTCAAAAATTACA-TTTTCCCCCAAACTTC
24986407 CAAAAATCACATTTTT
1 CAAAAATCACATTTTT
24986423 TCCTCGAACA
Statistics
Matches: 156, Mismatches: 23, Indels: 18
0.79 0.12 0.09
Matches are distributed among these distances:
54 10 0.06
55 13 0.08
56 13 0.08
57 45 0.29
58 41 0.26
59 33 0.21
60 1 0.01
ACGTcount: A:0.37, C:0.29, G:0.01, T:0.33
Consensus pattern (57 bp):
CAAAAATCACATTTTTACCCTCAAACTTCTCAAAAATTACATTTTCCCCCAAACTTC
Found at i:24986423 original size:58 final size:57
Alignment explanation
Indices: 24986178--24986471 Score: 269
Period size: 57 Copynumber: 5.1 Consensus size: 57
24986168 CCAAAACCCT
* * * *
24986178 CAAAAATTACATTTTCACCCTCGAACTTCTCCAAAATTACATTTT-CCCCCAAACTTC
1 CAAAAATCACATTTTTACCCTCAAACTTC-CAAAAATTACATTTTACCCCCAAACTTC
* * * *
24986235 CAAAAATCACA-ATTT-CTCTTAAACTTCCAAAAATTACATTTTTACCCCTAAACTTC
1 CAAAAATCACATTTTTACCCTCAAACTTCCAAAAATTACA-TTTTACCCCCAAACTTC
* * * * **
24986291 TCCAAAATTACATTTTTACCCT-AAACTTCTCCAAAATTACAATTTTGCCCTAAAACTTC
1 -CAAAAATCACATTTTTACCCTCAAACTTC-CAAAAATTAC-ATTTTACCCCCAAACTTC
*
24986350 TAAAAATCACATTTTTACCCTCAAACTTCCAAAAATTACACTTTT-CCCCCAAACTTC
1 CAAAAATCACATTTTTACCCTCAAACTTCCAAAAATTACA-TTTTACCCCCAAACTTC
* * * ** *
24986407 CAAAAATCACATTTTT-TCCTCGAACATCCAAAAAGTT-CAATTTTAATCCCAAATTTTC
1 CAAAAATCACATTTTTACCCTCAAACTTCCAAAAA-TTAC-ATTTTACCCCCAAA-CTTC
24986465 CAAAAAT
1 CAAAAAT
24986472 TTCAATTTTG
Statistics
Matches: 195, Mismatches: 29, Indels: 25
0.78 0.12 0.10
Matches are distributed among these distances:
54 10 0.05
55 13 0.07
56 33 0.17
57 54 0.28
58 51 0.26
59 33 0.17
60 1 0.01
ACGTcount: A:0.37, C:0.28, G:0.01, T:0.33
Consensus pattern (57 bp):
CAAAAATCACATTTTTACCCTCAAACTTCCAAAAATTACATTTTACCCCCAAACTTC
Found at i:24986458 original size:57 final size:57
Alignment explanation
Indices: 24986178--24986471 Score: 249
Period size: 58 Copynumber: 5.1 Consensus size: 57
24986168 CCAAAACCCT
* * * * * *
24986178 CAAAAATTACATTTTCACCCTCGAACTTCTCCAAAATTAC-ATTTTCCCCCAAACTTC
1 CAAAAATCACATTTTTACCCTCAAACATC-CAAAAATTACAATTTTACCCCAAACTTC
* * * * *
24986235 CAAAAATCACA-ATTT-CTCTTAAACTTCCAAAAATTACATTTTTACCCCTAAACTTC
1 CAAAAATCACATTTTTACCCTCAAACATCCAAAAATTACAATTTTACCCC-AAACTTC
* * * * * *
24986291 TCCAAAATTACATTTTTACCCT-AAACTTCTCCAAAATTACAATTTTGCCCTAAAACTTC
1 -CAAAAATCACATTTTTACCCTCAAACATC-CAAAAATTACAATTTTACCC-CAAACTTC
* * * *
24986350 TAAAAATCACATTTTTACCCTCAAACTTCCAAAAATTACACTTTTCCCCCAAACTTC
1 CAAAAATCACATTTTTACCCTCAAACATCCAAAAATTACAATTTTACCCCAAACTTC
* * * *
24986407 CAAAAATCACATTTTT-TCCTCGAACATCCAAAAAGTT-CAATTTTAATCCCAAATTTTC
1 CAAAAATCACATTTTTACCCTCAAACATCCAAAAA-TTACAATTTT-ACCCCAAA-CTTC
24986465 CAAAAAT
1 CAAAAAT
24986472 TTCAATTTTG
Statistics
Matches: 194, Mismatches: 32, Indels: 21
0.79 0.13 0.09
Matches are distributed among these distances:
54 9 0.05
55 17 0.09
56 30 0.15
57 49 0.25
58 55 0.28
59 34 0.18
ACGTcount: A:0.37, C:0.28, G:0.01, T:0.33
Consensus pattern (57 bp):
CAAAAATCACATTTTTACCCTCAAACATCCAAAAATTACAATTTTACCCCAAACTTC
Found at i:24986469 original size:30 final size:31
Alignment explanation
Indices: 24986433--24986492 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
24986423 TCCTCGAACA
24986433 TCCAAAAAGTTCAATTTTAAT-CCCAAATTT
1 TCCAAAAAGTTCAATTTTAATCCCCAAATTT
* *
24986463 TCCAAAAATTTCAATTTTGATCCCCAAATT
1 TCCAAAAAGTTCAATTTTAATCCCCAAATT
24986493 CCTTGAAAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 19 0.70
31 8 0.30
ACGTcount: A:0.38, C:0.22, G:0.03, T:0.37
Consensus pattern (31 bp):
TCCAAAAAGTTCAATTTTAATCCCCAAATTT
Found at i:24998637 original size:39 final size:39
Alignment explanation
Indices: 24998574--24999189 Score: 328
Period size: 39 Copynumber: 15.8 Consensus size: 39
24998564 CCCAAGTCTA
* *
24998574 GGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCTTG
1 GGGCAGATCACCAGCATCCAATCTCTTACCCCGAGCTTG
* * * * * * *
24998613 GGGCAGGTTA-CAGCAATTCGATCTCTTACCTCGAGCCTA
1 GGGCAGATCACCAGC-ATCCAATCTCTTACCCCGAGCTTG
* * * * ** *
24998652 GGGCAGATCACCATCAGCCAATCCCTAACCCTAAGCCTG
1 GGGCAGATCACCAGCATCCAATCTCTTACCCCGAGCTTG
* * * * * * *
24998691 GGGTAGATTA-CAGCCGTTCAATCTCTTATCCCGAGCCTA
1 GGGCAGATCACCAG-CATCCAATCTCTTACCCCGAGCTTG
* * *
24998730 GGGCAAATCACCATCACCCAATCTCTTACCCCGAGCTTG
1 GGGCAGATCACCAGCATCCAATCTCTTACCCCGAGCTTG
*** * * * *
24998769 GGGCAGAT-TGTAGCCATTCAATTTTTTACCCCAAGCTTG
1 GGGCAGATCACCAG-CATCCAATCTCTTACCCCGAGCTTG
* * *
24998808 GGGCAAATCACCATCAGCCAATCTCTTACCCCGAGCTTG
1 GGGCAGATCACCAGCATCCAATCTCTTACCCCGAGCTTG
** * * *
24998847 GGGCAGAT-TGCAGCCATTCGATCTCTTACCCCAAGCTTG
1 GGGCAGATCACCAG-CATCCAATCTCTTACCCCGAGCTTG
* * *
24998886 GGGCAGATCACCATCAACCAATCTCTTACCCCGAGCCTG
1 GGGCAGATCACCAGCATCCAATCTCTTACCCCGAGCTTG
* * * *
24998925 GGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTA
1 GGGCAGATCACCAGCATCCAATCTCTTACCCCGAGCTTG
** * * *
24998964 GGGCAGAT-TGCAGCCATTCGATCTTTTACCCCGAGCTTG
1 GGGCAGATCACCAG-CATCCAATCTCTTACCCCGAGCTTG
* * * * ** * *
24999003 GGGTAAATCACCATCAACCAATCTCTTACCTTGAGCCTA
1 GGGCAGATCACCAGCATCCAATCTCTTACCCCGAGCTTG
**** * * * * *
24999042 GGGCAGATTGTAACCGTTCGATCTCTTACCCCGAGGTTG
1 GGGCAGATCACCAGCATCCAATCTCTTACCCCGAGCTTG
* * ** * * * * *
24999081 GGGCAAATCACCATCAGT-TGATCTTTTCCCCCGACCCTA
1 GGGCAGATCACCAGCA-TCCAATCTCTTACCCCGAGCTTG
*** * * *
24999120 GGGCAGAT-TGTAGCCATCCGATCTTTTACCCCGAGCCTG
1 GGGCAGATCACCAG-CATCCAATCTCTTACCCCGAGCTTG
* * *
24999159 GGGCAAATCACCATCAGCCAATCTCTTACCC
1 GGGCAGATCACCAGCATCCAATCTCTTACCC
24999190 TAAGCCTAGG
Statistics
Matches: 413, Mismatches: 150, Indels: 28
0.70 0.25 0.05
Matches are distributed among these distances:
38 12 0.03
39 389 0.94
40 12 0.03
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.24
Consensus pattern (39 bp):
GGGCAGATCACCAGCATCCAATCTCTTACCCCGAGCTTG
Found at i:24998702 original size:78 final size:78
Alignment explanation
Indices: 24998571--24998971 Score: 489
Period size: 78 Copynumber: 5.1 Consensus size: 78
24998561 TTCCCCAAGT
* * *
24998571 CTAGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCTTGGGGCAGGTTACAGCAATTCGATC
1 CTAGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCTTGGGGCAGATTACAGCCATTCAATC
*
24998636 TCTTACCTCGAGC
66 TCTTACCCCGAGC
* * ** * * *
24998649 CTAGGGCAGATCACCATCAGCCAATCCCTAACCCTAAGCCTGGGGTAGATTACAGCCGTTCAATC
1 CTAGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCTTGGGGCAGATTACAGCCATTCAATC
*
24998714 TCTTATCCCGAGC
66 TCTTACCCCGAGC
* * ** *
24998727 CTAGGGCAAATCACCATCACCCAATCTCTTACCCCGAGCTTGGGGCAGATTGTAGCCATTCAATT
1 CTAGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCTTGGGGCAGATTACAGCCATTCAATC
* *
24998792 TTTTACCCCAAGC
66 TCTTACCCCGAGC
* * * * *
24998805 TTGGGGCAAATCACCATCAGCCAATCTCTTACCCCGAGCTTGGGGCAGATTGCAGCCATTCGATC
1 CTAGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCTTGGGGCAGATTACAGCCATTCAATC
*
24998870 TCTTACCCCAAGC
66 TCTTACCCCGAGC
* * * * * * **
24998883 TTGGGGCAGATCACCATCAACCAATCTCTTACCCCGAGCCTGGGGCAGATCACCA-TCAGCCAAT
1 CTAGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCTTGGGGCAGATTA-CAGCCATTCAAT
24998947 CTCTTACCCCGAGC
65 CTCTTACCCCGAGC
24998961 CTAGGGCAGAT
1 CTAGGGCAGAT
24998972 TGCAGCCATT
Statistics
Matches: 276, Mismatches: 46, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
78 274 0.99
79 2 0.01
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.22
Consensus pattern (78 bp):
CTAGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCTTGGGGCAGATTACAGCCATTCAATC
TCTTACCCCGAGC
Found at i:24998993 original size:78 final size:78
Alignment explanation
Indices: 24998906--24999285 Score: 492
Period size: 78 Copynumber: 4.9 Consensus size: 78
24998896 CCATCAACCA
* *
24998906 ATCTCTTACCCCGAGCCTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTAGGGCAGA
1 ATCTTTTACCCCGAGCCTGGGGCAAATCACCATCAGCCAATCTCTTACCCCGAGCCTAGGGCAGA
*
24998971 TTGCAGCCATTCG
66 TTGTAGCCATTCG
* * * **
24998984 ATCTTTTACCCCGAGCTTGGGGTAAATCACCATCAACCAATCTCTTACCTTGAGCCTAGGGCAGA
1 ATCTTTTACCCCGAGCCTGGGGCAAATCACCATCAGCCAATCTCTTACCCCGAGCCTAGGGCAGA
* *
24999049 TTGTAACCGTTCG
66 TTGTAGCCATTCG
* ** *** * * *
24999062 ATCTCTTACCCCGAGGTTGGGGCAAATCACCATCAGTTGATCTTTTCCCCCGACCCTAGGGCAGA
1 ATCTTTTACCCCGAGCCTGGGGCAAATCACCATCAGCCAATCTCTTACCCCGAGCCTAGGGCAGA
*
24999127 TTGTAGCCATCCG
66 TTGTAGCCATTCG
**
24999140 ATCTTTTACCCCGAGCCTGGGGCAAATCACCATCAGCCAATCTCTTACCCTAAGCCTAGGGCAGA
1 ATCTTTTACCCCGAGCCTGGGGCAAATCACCATCAGCCAATCTCTTACCCCGAGCCTAGGGCAGA
24999205 TTGTAGCCATTCG
66 TTGTAGCCATTCG
* * ** * *
24999218 ATCTTTTACCCCGAGCCTGAGACAGGTCACCATCAGTCAATCTCTTACCCCGA-CCCAGAGGCAG
1 ATCTTTTACCCCGAGCCTGGGGCAAATCACCATCAGCCAATCTCTTACCCCGAGCCTAG-GGCAG
24999282 ATTG
65 ATTG
24999286 CAACCATCCA
Statistics
Matches: 256, Mismatches: 45, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
77 4 0.02
78 252 0.98
ACGTcount: A:0.23, C:0.32, G:0.20, T:0.24
Consensus pattern (78 bp):
ATCTTTTACCCCGAGCCTGGGGCAAATCACCATCAGCCAATCTCTTACCCCGAGCCTAGGGCAGA
TTGTAGCCATTCG
Found at i:24998993 original size:156 final size:153
Alignment explanation
Indices: 24998552--24999292 Score: 451
Period size: 156 Copynumber: 4.7 Consensus size: 153
24998542 ATTGAAGATC
* *
24998552 CGATCTTCTTTCCCCAAGTCTAGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCTTGGGGC
1 CGATC-TCTTACCCCAAGCCTAGGGCAGATCACCATCA-CCAATCTCTTACCCCGAGCTTGGGGC
* * * * * * *
24998617 AGGTTA-CAGCAATTCGATCTCTTACCTCGAGCCTAGGGCAGA-T-CACCA-TCAGCCAATCCCT
64 AGATCACCATC-AGTCAATCTCTTACCCCGAGCCTAGGGCAGATTGCACCATTCAG-C-ATCTCT
* ** * * *
24998678 AACCCTAAGCCTGGGGTAGATTACAGCCGTT
126 TACCCCGAGCCTGGGGCA-AAT-CA-CCATT
* * * *
24998709 CAATCTCTTATCCCGAGCCTAGGGCAAATCACCATCACCCAATCTCTTACCCCGAGCTTGGGGCA
1 CGATCTCTTACCCCAAGCCTAGGGCAGATCACCATCA-CCAATCTCTTACCCCGAGCTTGGGGCA
* * * * * * *
24998774 GATTGTAGCCAT---TCAATTTTTTACCCCAAGCTTGGGGCA-AAT-CACCA-TCAGCCAATCTC
65 GA-T-CA-CCATCAGTCAATCTCTTACCCCGAGCCTAGGGCAGATTGCACCATTCAG-C-ATCTC
* *
24998833 TTACCCCGAGCTTGGGGCAGATTGCAGCCATT
125 TTACCCCGAGCCTGGGGCA-AAT-CA-CCATT
* * *
24998865 CGATCTCTTACCCCAAGCTTGGGGCAGATCACCATCAACCAATCTCTTACCCCGAGCCTGGGGCA
1 CGATCTCTTACCCCAAGCCTAGGGCAGATCACCATC-ACCAATCTCTTACCCCGAGCTTGGGGCA
* *
24998930 GATCACCATCAGCCAATCTCTTACCCCGAGCCTAGGGCAGATTGCAGCCATTC-G-ATCTTTTAC
65 GATCACCATCAGTCAATCTCTTACCCCGAGCCTAGGGCAGATTGCA-CCATTCAGCATCTCTTAC
* * *
24998993 CCCGAGCTTGGGGTAAATCACCATCAAC
129 CCCGAGCCTGGGGCAAATCACCAT---T
* *** * * * * *
24999021 CAATCTCTTACCTTGAGCCTAGGGCAGATTGTAACCGT--TCGATCTCTTACCCCGAGGTTGGGG
1 CGATCTCTTACCCCAAGCCTAGGGCAGA---TCACCATCACCAATCTCTTACCCCGAGCTTGGGG
* ** * * * * * *
24999084 CAAATCACCATCAGTTGATCTTTTCCCCCGACCCTAGGGCAGATTGTAGCCA-TCCG-ATCTTTT
63 CAGATCACCATCAGTCAATCTCTTACCCCGAGCCTAGGGCAGATTGCA-CCATTCAGCATCTCTT
24999147 ACCCCGAGCCTGGGGCAAATCACCA-T
127 ACCCCGAGCCTGGGGCAAATCACCATT
* * * * * *
24999173 CAGCCAATCTCTTACCCTAAGCCTAGGGCAGATTGTAGCCAT--TCGATCTTTTACCCCGAGCCT
1 C-G---ATCTCTTACCCCAAGCCTAGGGCAGA-T-CA-CCATCACCAATCTCTTACCCCGAGCTT
* * * *
24999236 GAGACAGGTCACCATCAGTCAATCTCTTACCCCGA-CCCAGAGGCAGATTGCAACCAT
59 GGGGCAGATCACCATCAGTCAATCTCTTACCCCGAGCCTAG-GGCAGATTGC-ACCAT
24999293 CCAATATCCT
Statistics
Matches: 470, Mismatches: 85, Indels: 58
0.77 0.14 0.09
Matches are distributed among these distances:
152 1 0.00
153 8 0.02
154 4 0.01
155 11 0.02
156 420 0.89
157 9 0.02
158 4 0.01
159 9 0.02
160 4 0.01
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.24
Consensus pattern (153 bp):
CGATCTCTTACCCCAAGCCTAGGGCAGATCACCATCACCAATCTCTTACCCCGAGCTTGGGGCAG
ATCACCATCAGTCAATCTCTTACCCCGAGCCTAGGGCAGATTGCACCATTCAGCATCTCTTACCC
CGAGCCTGGGGCAAATCACCATT
Found at i:24999039 original size:117 final size:116
Alignment explanation
Indices: 24998574--24999270 Score: 509
Period size: 117 Copynumber: 6.0 Consensus size: 116
24998564 CCCAAGTCTA
* * * * *
24998574 GGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCTTGGGGCAGGTTACAGCAATTCGATCTCT
1 GGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTAGGGCAGATTGCAGCCATTCGATCTCT
* * * * * * **
24998639 TACCTCGAGCCTAGGGCAGATCACCATCAGCCAATCCCTAACCCTAAGCCTG
66 TACCCCGAGCTTGGGGCAAATCACCATCA-CCAATCTCTTACCCCGAGCCTG
* * * * * * * * *
24998691 GGGTAGATTA-CAGCCGTTCAATCTCTTATCCCGAGCCTAGGGCA-AAT-CA-CCATCACCCAAT
1 GGGCAGATCACCATCAG-CCAATCTCTTACCCCGAGCCTAGGGCAGATTGCAGCCAT---TCGAT
* * * * * * *
24998752 CTCTTACCCCGAGCTTGGGGCAGATTGTAGCCAT--TCAATTTTTTACCCCAAGCTTG
62 CTCTTACCCCGAGCTTGGGGCA-AAT-CA-CCATCACCAATCTCTTACCCCGAGCCTG
* * *
24998808 GGGCAAATCACCATCAGCCAATCTCTTACCCCGAGCTTGGGGCAGATTGCAGCCATTCGATCTCT
1 GGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTAGGGCAGATTGCAGCCATTCGATCTCT
* *
24998873 TACCCCAAGCTTGGGGCAGATCACCATCAACCAATCTCTTACCCCGAGCCTG
66 TACCCCGAGCTTGGGGCAAATCACCATC-ACCAATCTCTTACCCCGAGCCTG
*
24998925 GGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTAGGGCAGATTGCAGCCATTCGATCTTT
1 GGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTAGGGCAGATTGCAGCCATTCGATCTCT
* ** *
24998990 TACCCCGAGCTTGGGGTAAATCACCATCAACCAATCTCTTACCTTGAGCCTA
66 TACCCCGAGCTTGGGGCAAATCACCATC-ACCAATCTCTTACCCCGAGCCTG
*** * * * * ** * * *
24999042 GGGCAGAT-TGTAACCGTTCGATCTCTTACCCCGAGGTTGGGGCA-AAT-CA-CCATCAGTTGAT
1 GGGCAGATCACCATCAG-CCAATCTCTTACCCCGAGCCTAGGGCAGATTGCAGCCAT---TCGAT
* * * * * * * * *
24999103 CTTTTCCCCCGACCCTAGGGCAGATTGTAGCCAT--CCGATCTTTTACCCCGAGCCTG
62 CTCTTACCCCGAGCTTGGGGCA-AAT-CA-CCATCACCAATCTCTTACCCCGAGCCTG
* ** * *
24999159 GGGCAAATCACCATCAGCCAATCTCTTACCCTAAGCCTAGGGCAGATTGTAGCCATTCGATCTTT
1 GGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTAGGGCAGATTGCAGCCATTCGATCTCT
* * * ** *
24999224 TACCCCGAGCCTGAGACAGGTCACCATCAGTCAATCTCTTACCCCGA
66 TACCCCGAGCTTGGGGCAAATCACCATCA-CCAATCTCTTACCCCGA
24999271 CCCAGAGGCA
Statistics
Matches: 444, Mismatches: 108, Indels: 56
0.73 0.18 0.09
Matches are distributed among these distances:
114 15 0.03
115 6 0.01
116 12 0.03
117 376 0.85
118 14 0.03
119 5 0.01
120 16 0.04
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.24
Consensus pattern (116 bp):
GGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTAGGGCAGATTGCAGCCATTCGATCTCT
TACCCCGAGCTTGGGGCAAATCACCATCACCAATCTCTTACCCCGAGCCTG
Found at i:24999227 original size:39 final size:39
Alignment explanation
Indices: 24999100--24999235 Score: 109
Period size: 39 Copynumber: 3.5 Consensus size: 39
24999090 ACCATCAGTT
* * * *
24999100 GATCTTTTCCCCCGACCCTAGGGCAGATTGTAGCCATCC
1 GATCTTTTACCCCAAGCCTAGGGCAGATTGTAGCCATTC
* * * *
24999139 GATCTTTTACCCCGAGCCTGGGGCA-AAT-CA-CCA-TC
1 GATCTTTTACCCCAAGCCTAGGGCAGATTGTAGCCATTC
* *
24999174 AGCCAATCTCTTACCCTAAGCCTAGGGCAGATTGTAGCCATTC
1 -G---ATCTTTTACCCCAAGCCTAGGGCAGATTGTAGCCATTC
*
24999217 GATCTTTTACCCCGAGCCT
1 GATCTTTTACCCCAAGCCT
24999236 GAGACAGGTC
Statistics
Matches: 74, Mismatches: 15, Indels: 16
0.70 0.14 0.15
Matches are distributed among these distances:
35 1 0.01
36 4 0.05
37 1 0.01
38 2 0.03
39 57 0.77
40 2 0.03
41 1 0.01
42 4 0.05
43 2 0.03
ACGTcount: A:0.21, C:0.34, G:0.19, T:0.26
Consensus pattern (39 bp):
GATCTTTTACCCCAAGCCTAGGGCAGATTGTAGCCATTC
Found at i:24999293 original size:156 final size:155
Alignment explanation
Indices: 24998906--24999294 Score: 544
Period size: 156 Copynumber: 2.5 Consensus size: 155
24998896 CCATCAACCA
* *
24998906 ATCTCTTACCCCGAGCCTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTAGGGCAGA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCATCAGTCAATCTCTTACCCCGA-CCCAGGGCAGA
* * * * *
24998971 TTGCAGCCATTCGATCTTTTACCCCGAGCTTGGGGTAAATCACCATCAACCAATCTCTTACCTTG
65 TTGCAGCCATCCGATCTTTTACCCCGAGCCTGGGGCAAATCACCATCAACCAATCTCTTACCCTA
*
24999036 AGCCTAGGGCAGATTGTAACCGTTCG
130 AGCCTAGGGCAGATTGTAACCATTCG
** * ** * *
24999062 ATCTCTTACCCCGAGGTTGGGGCAAATCACCATCAGTTGATCTTTTCCCCCGACCCTAGGGCAGA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCATCAGTCAATCTCTTACCCCGACCC-AGGGCAGA
* *
24999127 TTGTAGCCATCCGATCTTTTACCCCGAGCCTGGGGCAAATCACCATCAGCCAATCTCTTACCCTA
65 TTGCAGCCATCCGATCTTTTACCCCGAGCCTGGGGCAAATCACCATCAACCAATCTCTTACCCTA
*
24999192 AGCCTAGGGCAGATTGTAGCCATTCG
130 AGCCTAGGGCAGATTGTAACCATTCG
* * * *
24999218 ATCTTTTACCCCGAGCCTGAGACAGGTCACCATCAGTCAATCTCTTACCCCGACCCAGAGGCAGA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCATCAGTCAATCTCTTACCCCGACCCAG-GGCAGA
*
24999283 TTGCAACCATCC
65 TTGCAGCCATCC
24999295 AATATCCTAA
Statistics
Matches: 200, Mismatches: 31, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
155 4 0.02
156 196 0.98
ACGTcount: A:0.23, C:0.33, G:0.20, T:0.24
Consensus pattern (155 bp):
ATCTCTTACCCCGAGCCTGGGGCAGATCACCATCAGTCAATCTCTTACCCCGACCCAGGGCAGAT
TGCAGCCATCCGATCTTTTACCCCGAGCCTGGGGCAAATCACCATCAACCAATCTCTTACCCTAA
GCCTAGGGCAGATTGTAACCATTCG
Found at i:24999783 original size:7 final size:7
Alignment explanation
Indices: 24999771--24999795 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
24999761 AATTGAACCC
24999771 AATTTTA
1 AATTTTA
24999778 AATTTTA
1 AATTTTA
24999785 AATTTTA
1 AATTTTA
24999792 AATT
1 AATT
24999796 ATTTTAAGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
AATTTTA
Found at i:24999799 original size:17 final size:18
Alignment explanation
Indices: 24999779--24999898 Score: 83
Period size: 17 Copynumber: 7.1 Consensus size: 18
24999769 CCAATTTTAA
*
24999779 ATTTTAAATTTTAAA-TT
1 ATTTTAAAGTTTAAATTT
24999796 ATTTT-AAGTTTAAATTT
1 ATTTTAAAGTTTAAATTT
* *
24999813 ATTTTAAA-ATTAAACTT
1 ATTTTAAAGTTTAAATTT
***
24999830 A-TTCCGAGTTTAAATTT
1 ATTTTAAAGTTTAAATTT
* *
24999847 ATTTTAAA-ATTAAACTT
1 ATTTTAAAGTTTAAATTT
***
24999864 A-TTCCGAGTTTAAATTT
1 ATTTTAAAGTTTAAATTT
*
24999881 ATTTTGAA-TTTAAATTT
1 ATTTTAAAGTTTAAATTT
24999898 A
1 A
24999899 AAGTTTAATT
Statistics
Matches: 76, Mismatches: 21, Indels: 12
0.70 0.19 0.11
Matches are distributed among these distances:
16 14 0.18
17 54 0.71
18 8 0.11
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.52
Consensus pattern (18 bp):
ATTTTAAAGTTTAAATTT
Found at i:24999832 original size:34 final size:34
Alignment explanation
Indices: 24999802--24999894 Score: 168
Period size: 34 Copynumber: 2.7 Consensus size: 34
24999792 AATTATTTTA
24999802 AGTTTAAATTTATTTTAAAATTAAACTTATTCCG
1 AGTTTAAATTTATTTTAAAATTAAACTTATTCCG
24999836 AGTTTAAATTTATTTTAAAATTAAACTTATTCCG
1 AGTTTAAATTTATTTTAAAATTAAACTTATTCCG
* *
24999870 AGTTTAAATTTATTTTGAATTTAAA
1 AGTTTAAATTTATTTTAAAATTAAA
24999895 TTTAAAGTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 57 1.00
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.48
Consensus pattern (34 bp):
AGTTTAAATTTATTTTAAAATTAAACTTATTCCG
Found at i:25000566 original size:10 final size:10
Alignment explanation
Indices: 25000551--25000594 Score: 61
Period size: 10 Copynumber: 4.2 Consensus size: 10
25000541 ATATTCAATG
25000551 AATAATAATA
1 AATAATAATA
25000561 AATAATAATA
1 AATAATAATA
*
25000571 AATATAGTATTA
1 AATA-A-TAATA
25000583 AATAATAATA
1 AATAATAATA
25000593 AA
1 AA
25000595 AAGAGGAGGG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 20 0.67
11 2 0.07
12 8 0.27
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (10 bp):
AATAATAATA
Found at i:25001726 original size:29 final size:29
Alignment explanation
Indices: 25001672--25001727 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
25001662 CCGAACCTTC
* *
25001672 CAAAAATCACGTTTTGACCTTCGAACTCT
1 CAAAAATCACATTTTCACCTTCGAACTCT
*
25001701 CAAAAATTACATTTTCACCCTT-GAACT
1 CAAAAATCACATTTTCA-CCTTCGAACT
25001728 TCTTTTAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 19 0.83
30 4 0.17
ACGTcount: A:0.34, C:0.27, G:0.07, T:0.32
Consensus pattern (29 bp):
CAAAAATCACATTTTCACCTTCGAACTCT
Found at i:25001775 original size:29 final size:29
Alignment explanation
Indices: 25001741--25002002 Score: 242
Period size: 29 Copynumber: 9.0 Consensus size: 29
25001731 TTTAAATTAT
*
25001741 ATTTTTGCCCCCAAACTTCCAAAAATCAC
1 ATTTTTACCCCCAAACTTCCAAAAATCAC
* * *
25001770 ATTTTTACTCTCAAACTTCCAAAAATCAA
1 ATTTTTACCCCCAAACTTCCAAAAATCAC
* *
25001799 ATTTTTACCCCCAGACTTATCC-AAAATAAC
1 ATTTTTACCCCCAAAC-T-TCCAAAAATCAC
* *
25001829 ATTTTTACCCCTAAACTTCAAAAAATCAC
1 ATTTTTACCCCCAAACTTCCAAAAATCAC
* * * *
25001858 ATTTTTACCCTCGAACATCCAAAAATGAC
1 ATTTTTACCCCCAAACTTCCAAAAATCAC
* *
25001887 -TTTTTTCCCCCTAAACTTTCCAAAAATTAC
1 ATTTTTACCCCC-AAAC-TTCCAAAAATCAC
* * *
25001917 ATTTTTGCCCCTAAACTTCCAAAAATTAC
1 ATTTTTACCCCCAAACTTCCAAAAATCAC
** * *
25001946 ATTTTTACCCCTGAACATCCAAAAATTACC
1 ATTTTTACCCCCAAACTTCCAAAAATCA-C
* * *
25001976 A-TTTTGCCCTCAAATTTCCAAAAATCA
1 ATTTTTACCCCCAAACTTCCAAAAATCA
25002003 AATCTTCAAC
Statistics
Matches: 190, Mismatches: 36, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
28 11 0.06
29 129 0.68
30 38 0.20
31 12 0.06
ACGTcount: A:0.37, C:0.29, G:0.03, T:0.32
Consensus pattern (29 bp):
ATTTTTACCCCCAAACTTCCAAAAATCAC
Found at i:25001803 original size:88 final size:84
Alignment explanation
Indices: 25001668--25001971 Score: 266
Period size: 88 Copynumber: 3.5 Consensus size: 84
25001658 GTCTCCGAAC
* * * * * **
25001668 CTTCCAAAAATCACGTTTTGACCTTCGAACTCTCAAAAATTACATTTTCACCCTTGAACTTCTTT
1 CTTCCAAAAATCACATTTTTACC-TCGAACTC-CAAAAATCAAATTTTCACCC-TAAACTT-TCA
* * *
25001733 TAAATTATATTTTTGCCCCCAAA
62 AAAATTACATTTTTGCCCCTAAA
* * * * *
25001756 CTTCCAAAAATCACATTTTTACTCTCAAACTTCCAAAAATCAAATTTTTACCCCCAGACTTATCC
1 CTTCCAAAAATCACATTTTTAC-CTCGAAC-TCCAAAAATCAAATTTTCA-CCCTAAACTT-TCA
* *
25001821 AAAATAACATTTTTACCCCTAAA
62 AAAATTACATTTTTGCCCCTAAA
* * ** *
25001844 CTTCAAAAAATCACATTTTTACCCTCGAACATCCAAAAATGACTTTTTTCCCCCTAAACTTTCCA
1 CTTCCAAAAATCACATTTTTA-CCTCGAAC-TCCAAAAATCA-AATTTTCACCCTAAACTTT-CA
25001909 AAAATTACATTTTTGCCCCTAAA
62 AAAATTACATTTTTGCCCCTAAA
* *
25001932 CTTCCAAAAATTACATTTTTACCCCTGAACATCCAAAAAT
1 CTTCCAAAAATCACATTTTTACCTC-GAAC-TCCAAAAAT
25001972 TACCATTTTG
Statistics
Matches: 176, Mismatches: 33, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
87 4 0.02
88 161 0.91
89 11 0.06
ACGTcount: A:0.36, C:0.28, G:0.03, T:0.34
Consensus pattern (84 bp):
CTTCCAAAAATCACATTTTTACCTCGAACTCCAAAAATCAAATTTTCACCCTAAACTTTCAAAAA
TTACATTTTTGCCCCTAAA
Found at i:25001979 original size:59 final size:58
Alignment explanation
Indices: 25001701--25002000 Score: 250
Period size: 59 Copynumber: 5.1 Consensus size: 58
25001691 TTCGAACTCT
* * * *** * *
25001701 CAAAAATTACATTTTCACCCTTGAACTTCTTTTAAATTATATTTTTGCCCCCAAACTTC
1 CAAAAATTACATTTTTACCCCTAAACTTC-CAAAAATTACATTTTTGCCCCTAAACTTC
* * * * * * *
25001760 CAAAAATCACATTTTTA-CTCTCAAACTTCCAAAAATCAAATTTTTACCCCCAGACTTATC
1 CAAAAATTACATTTTTACCCCT-AAACTTCCAAAAATTACATTTTTGCCCCTAAAC-T-TC
* * * * * *
25001820 C-AAAATAACATTTTTACCCCTAAACTTCAAAAAATCACATTTTT-ACCCTCGAACATC
1 CAAAAATTACATTTTTACCCCTAAACTTCCAAAAATTACATTTTTGCCCCT-AAACTTC
* * *
25001877 CAAAAATGACTTTTTTCCCCCTAAACTTTCCAAAAATTACATTTTTGCCCCTAAACTTC
1 CAAAAATTACATTTTTACCCCTAAAC-TTCCAAAAATTACATTTTTGCCCCTAAACTTC
* * *
25001936 CAAAAATTACATTTTTACCCCTGAACATCCAAAAATTACCA-TTTTG-CCCTCAAATTTC
1 CAAAAATTACATTTTTACCCCTAAACTTCCAAAAATTA-CATTTTTGCCCCT-AAACTTC
25001994 CAAAAAT
1 CAAAAAT
25002001 CAAATCTTCA
Statistics
Matches: 196, Mismatches: 35, Indels: 21
0.78 0.14 0.08
Matches are distributed among these distances:
57 7 0.04
58 74 0.38
59 105 0.54
60 10 0.05
ACGTcount: A:0.36, C:0.27, G:0.03, T:0.34
Consensus pattern (58 bp):
CAAAAATTACATTTTTACCCCTAAACTTCCAAAAATTACATTTTTGCCCCTAAACTTC
Found at i:25003601 original size:12 final size:12
Alignment explanation
Indices: 25003580--25003619 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
25003570 ATGTTTCTAA
25003580 AAATGAAAATGG
1 AAATGAAAATGG
* *
25003592 AAATGGAAATGA
1 AAATGAAAATGG
*
25003604 AAATAAAAATGG
1 AAATGAAAATGG
25003616 AAAT
1 AAAT
25003620 AATCCATTTG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.62, C:0.00, G:0.20, T:0.17
Consensus pattern (12 bp):
AAATGAAAATGG
Found at i:25003603 original size:18 final size:18
Alignment explanation
Indices: 25003580--25003619 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
25003570 ATGTTTCTAA
**
25003580 AAATGAAAATGGAAATGG
1 AAATGAAAATAAAAATGG
25003598 AAATGAAAATAAAAATGG
1 AAATGAAAATAAAAATGG
25003616 AAAT
1 AAAT
25003620 AATCCATTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.20, T:0.17
Consensus pattern (18 bp):
AAATGAAAATAAAAATGG
Found at i:25003805 original size:26 final size:26
Alignment explanation
Indices: 25003769--25003827 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
25003759 TATTTTCTCG
25003769 AAATTTTACC-AGGGACAAAATCATCA
1 AAATTTTACCAAGGG-CAAAATCATCA
* * *
25003795 AAATTTTACCAATGGTAAAATTATCA
1 AAATTTTACCAAGGGCAAAATCATCA
25003821 AAATTTT
1 AAATTTT
25003828 GGTGGGGGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 26 0.90
27 3 0.10
ACGTcount: A:0.46, C:0.14, G:0.08, T:0.32
Consensus pattern (26 bp):
AAATTTTACCAAGGGCAAAATCATCA
Found at i:25006216 original size:27 final size:27
Alignment explanation
Indices: 25006159--25006320 Score: 155
Period size: 28 Copynumber: 5.9 Consensus size: 27
25006149 GTGCCATTGC
* * **
25006159 TTTTCAGATTTTACAGTTGTTACTGCT-
1 TTTTCAGATTTTATAGTT-TTGCCACTA
*
25006186 TTTTCAGATTTTATAGTTTTCCCACTA
1 TTTTCAGATTTTATAGTTTTGCCACTA
* * *
25006213 TTTTCAGATTTCAGATTTTTGCCACTA
1 TTTTCAGATTTTATAGTTTTGCCACTA
* *
25006240 TTTTTTAGATTTTATAGTTTTGCCACTGC
1 -TTTTCAGATTTTATAGTTTTGCCACT-A
* *
25006269 TTTTCAAATTTTACAGTTTTGCCACTA
1 TTTTCAGATTTTATAGTTTTGCCACTA
* *
25006296 CTTTTCAAATTTTATAGTTTGGCCA
1 -TTTTCAGATTTTATAGTTTTGCCA
25006321 TTAATTATCA
Statistics
Matches: 112, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
26 5 0.04
27 40 0.36
28 67 0.60
ACGTcount: A:0.22, C:0.17, G:0.11, T:0.51
Consensus pattern (27 bp):
TTTTCAGATTTTATAGTTTTGCCACTA
Found at i:25006260 original size:28 final size:28
Alignment explanation
Indices: 25006186--25006320 Score: 164
Period size: 28 Copynumber: 4.9 Consensus size: 28
25006176 TGTTACTGCT
*
25006186 TTTTCAGATTTTATAGTTTTCCCACTA-
1 TTTTCAGATTTTATAGTTTTGCCACTAC
* * * *
25006213 TTTTCAGATTTCAGATTTTTGCCACTAT
1 TTTTCAGATTTTATAGTTTTGCCACTAC
* *
25006241 TTTTTAGATTTTATAGTTTTGCCACTGC
1 TTTTCAGATTTTATAGTTTTGCCACTAC
* *
25006269 TTTTCAAATTTTACAGTTTTGCCACTAC
1 TTTTCAGATTTTATAGTTTTGCCACTAC
* *
25006297 TTTTCAAATTTTATAGTTTGGCCA
1 TTTTCAGATTTTATAGTTTTGCCA
25006321 TTAATTATCA
Statistics
Matches: 91, Mismatches: 16, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
27 23 0.25
28 68 0.75
ACGTcount: A:0.22, C:0.17, G:0.10, T:0.50
Consensus pattern (28 bp):
TTTTCAGATTTTATAGTTTTGCCACTAC
Found at i:25006290 original size:56 final size:56
Alignment explanation
Indices: 25006185--25006344 Score: 187
Period size: 56 Copynumber: 2.9 Consensus size: 56
25006175 TTGTTACTGC
* * * * *
25006185 TTTTTCAGATTTTATAGTTTTCCCACT-ATTTTCAGATTTCAGATTTTTGCCACTA
1 TTTTTCAGATTTTATAGTTTTGCCACTGATTTTCAAATTTTACAGTTTTGCCACTA
* *
25006240 TTTTTTAGATTTTATAGTTTTGCCACTGCTTTTCAAATTTTACAGTTTTGCCACTA
1 TTTTTCAGATTTTATAGTTTTGCCACTGATTTTCAAATTTTACAGTTTTGCCACTA
* * * * * * *
25006296 CTTTTCAAATTTTATAGTTTGGCCATTAATTATCAAATTTTACAATTTT
1 TTTTTCAGATTTTATAGTTTTGCCACTGATTTTCAAATTTTACAGTTTT
25006345 TCCCAAAATT
Statistics
Matches: 88, Mismatches: 16, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
55 25 0.28
56 63 0.72
ACGTcount: A:0.24, C:0.16, G:0.09, T:0.51
Consensus pattern (56 bp):
TTTTTCAGATTTTATAGTTTTGCCACTGATTTTCAAATTTTACAGTTTTGCCACTA
Found at i:25006331 original size:28 final size:28
Alignment explanation
Indices: 25006186--25006337 Score: 162
Period size: 28 Copynumber: 5.5 Consensus size: 28
25006176 TGTTACTGCT
* *
25006186 TTTTCAGATTTTATAGTTTTCCCACTA-
1 TTTTCAAATTTTATAGTTTTGCCACTAC
* * * * *
25006213 TTTTCAGATTTCAGATTTTTGCCACTAT
1 TTTTCAAATTTTATAGTTTTGCCACTAC
* * *
25006241 TTTTTAGATTTTATAGTTTTGCCACTGC
1 TTTTCAAATTTTATAGTTTTGCCACTAC
*
25006269 TTTTCAAATTTTACAGTTTTGCCACTAC
1 TTTTCAAATTTTATAGTTTTGCCACTAC
* * *
25006297 TTTTCAAATTTTATAGTTTGGCCATTAA
1 TTTTCAAATTTTATAGTTTTGCCACTAC
*
25006325 TTATCAAATTTTA
1 TTTTCAAATTTTA
25006338 CAATTTTTCC
Statistics
Matches: 105, Mismatches: 19, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
27 23 0.22
28 82 0.78
ACGTcount: A:0.24, C:0.16, G:0.09, T:0.51
Consensus pattern (28 bp):
TTTTCAAATTTTATAGTTTTGCCACTAC
Found at i:25007806 original size:30 final size:29
Alignment explanation
Indices: 25007772--25007862 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 29
25007762 GTTCTAGGGC
*
25007772 CAAATTCAAATTTTTTGAAAGTATGGGGGT
1 CAAATTAAAATTTTTTGAAAGT-TGGGGGT
* * *
25007802 CAAATTAAAAATTTTTGAATGTTTGAGGGT
1 CAAATTAAAATTTTTTGAAAG-TTGGGGGT
** *
25007832 CAAATTTGAATTTTTGGAAAGTTCGGGGGT
1 CAAATTAAAATTTTTTGAAAGTT-GGGGGT
25007862 C
1 C
25007863 GAAACATAAT
Statistics
Matches: 49, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
29 2 0.04
30 46 0.94
31 1 0.02
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.37
Consensus pattern (29 bp):
CAAATTAAAATTTTTTGAAAGTTGGGGGT
Found at i:25007836 original size:60 final size:60
Alignment explanation
Indices: 25007749--25007920 Score: 154
Period size: 60 Copynumber: 2.9 Consensus size: 60
25007739 GGTCAAAAAC
*
25007749 AAAATTTTGGAAAGTTCTAGGGCCAAATTCAAATTTTTTGAAAGTAT-GGGGGTCAAATTA
1 AAAATTTTGGAAAGTTCTAGGGCCAAATTCAAATTTTTGGAAAGT-TCGGGGGTCAAATTA
* * * ** *
25007809 AAAATTTTTGAATGTT-TGAGGGTCAAATTTGAATTTTTGGAAAGTTCGGGGGTCGAAA-CA
1 AAAATTTTGGAAAGTTCT-AGGGCCAAATTCAAATTTTTGGAAAGTTCGGGGGTC-AAATTA
* * * * * * *
25007869 TAATTTTTGAAAAGTTCAAGGGCTAAA-ACATAATTTTTGGAAAGTTTGGGGG
1 AAAATTTTGGAAAGTTCTAGGGCCAAATTCA-AATTTTTGGAAAGTTCGGGGG
25007921 CTAAAACATA
Statistics
Matches: 88, Mismatches: 19, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
59 2 0.02
60 83 0.94
61 3 0.03
ACGTcount: A:0.34, C:0.07, G:0.24, T:0.34
Consensus pattern (60 bp):
AAAATTTTGGAAAGTTCTAGGGCCAAATTCAAATTTTTGGAAAGTTCGGGGGTCAAATTA
Found at i:25007874 original size:30 final size:30
Alignment explanation
Indices: 25007840--25007966 Score: 157
Period size: 30 Copynumber: 4.2 Consensus size: 30
25007830 GTCAAATTTG
*
25007840 AATTTTTGGAAAGTTCGGGGG-TCGAAACAT
1 AATTTTTGGAAAGTTCGGGGGCT-AAAACAT
* **
25007870 AATTTTTGAAAAGTTCAAGGGCTAAAACAT
1 AATTTTTGGAAAGTTCGGGGGCTAAAACAT
*
25007900 AATTTTTGGAAAGTTTGGGGGCTAAAACAT
1 AATTTTTGGAAAGTTCGGGGGCTAAAACAT
* * * *
25007930 AATTTTTAGAAAGGTCGGGGGCCAAAAGAT
1 AATTTTTGGAAAGTTCGGGGGCTAAAACAT
25007960 AATTTTT
1 AATTTTT
25007967 AAAGATTTGA
Statistics
Matches: 83, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
30 82 0.99
31 1 0.01
ACGTcount: A:0.35, C:0.09, G:0.24, T:0.31
Consensus pattern (30 bp):
AATTTTTGGAAAGTTCGGGGGCTAAAACAT
Found at i:25009758 original size:48 final size:48
Alignment explanation
Indices: 25009687--25009778 Score: 148
Period size: 48 Copynumber: 1.9 Consensus size: 48
25009677 TTGAGCTCCG
* * *
25009687 CTTCATTGTTTTGGTCCACTTCTCTGTGTCTCATAAGGAAGATGACCA
1 CTTCATTGTTTTGATCCACTTCTCTCTATCTCATAAGGAAGATGACCA
*
25009735 CTTCATTGTTTTGATCCACTTCTCTCTATCTCATCAGGAAGATG
1 CTTCATTGTTTTGATCCACTTCTCTCTATCTCATAAGGAAGATG
25009779 GGGTTTGAAG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 40 1.00
ACGTcount: A:0.21, C:0.24, G:0.16, T:0.39
Consensus pattern (48 bp):
CTTCATTGTTTTGATCCACTTCTCTCTATCTCATAAGGAAGATGACCA
Found at i:25009851 original size:123 final size:123
Alignment explanation
Indices: 25009619--25010274 Score: 953
Period size: 123 Copynumber: 5.4 Consensus size: 123
25009609 CAGCTTAATC
* * **
25009619 TTTTGGTCCACTTCTCTGTATCACATCAGGAAGATGGGGTTTGAAGTTTCACTTTCTATTGAGCT
1 TTTTGATCCACTTCTCTGTATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCAC-ATTGAGCT
* * * *
25009684 CCGCTTCATTGTTTTGGTCCACTTCTCTGTGTCTCATAAGGAAGATGACCACTTCATTG
65 TCGCTTCATTGTTTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTG
*
25009743 TTTTGATCCACTTCTCTCTATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTT
1 TTTTGATCCACTTCTCTGTATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTT
** * *
25009808 CAATTCATTGTTTTGGTTCACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCGTTG
66 CGCTTCATTGTTTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTG
* * * *
25009866 TTTTGTTCCACTACTCTGTATCTCATTAGGAAGATGGGGTTTGAAGTTTCACTCACATTAAGCTT
1 TTTTGATCCACTTCTCTGTATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTT
* * ** *
25009931 CGCTTCATTGTTTTGGTTCACTTTTCTGTATCTCATCAGGAAGATGGTCGCTTCATTA
66 CGCTTCATTGTTTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTG
* *
25009989 TTTTGATCCACTTCTCTATATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCACATTGAACTT
1 TTTTGATCCACTTCTCTGTATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTT
* * * *
25010054 CGCTTCATTATTTTGGTCCACTTCTCTGTATCTCATCAGAAAGATGACTGTTTCATTG
66 CGCTTCATTGTTTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTG
*
25010112 TTTTGATCCACTTCTCTGTATGTCATCAGGAAGATGGGGTTTGAAGTTTCACT--C--TGAGCTT
1 TTTTGATCCACTTCTCTGTATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTT
* ** *
25010173 CGCTTCATTGTTTTGGTCCACTTCTCTGTATCTCATTAGGAAGATGATTGCTTCATTA
66 CGCTTCATTGTTTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTG
*
25010231 TTTTGATTCACTTC-CTTGTATCTCATCAGGAAGATGGGGTTTGA
1 TTTTGATCCACTTCTC-TGTATCTCATCAGGAAGATGGGGTTTGA
25010275 TCCGACCTAC
Statistics
Matches: 480, Mismatches: 51, Indels: 7
0.89 0.09 0.01
Matches are distributed among these distances:
118 1 0.00
119 98 0.20
121 1 0.00
123 329 0.69
124 51 0.11
ACGTcount: A:0.20, C:0.20, G:0.19, T:0.40
Consensus pattern (123 bp):
TTTTGATCCACTTCTCTGTATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTT
CGCTTCATTGTTTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTG
Found at i:25010001 original size:48 final size:48
Alignment explanation
Indices: 25009930--25010025 Score: 147
Period size: 48 Copynumber: 2.0 Consensus size: 48
25009920 ACATTAAGCT
* * * * *
25009930 TCGCTTCATTGTTTTGGTTCACTTTTCTGTATCTCATCAGGAAGATGG
1 TCGCTTCATTATTTTGATCCACTTCTCTATATCTCATCAGGAAGATGG
25009978 TCGCTTCATTATTTTGATCCACTTCTCTATATCTCATCAGGAAGATGG
1 TCGCTTCATTATTTTGATCCACTTCTCTATATCTCATCAGGAAGATGG
25010026 GGTTTGAAGT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.20, C:0.21, G:0.18, T:0.42
Consensus pattern (48 bp):
TCGCTTCATTATTTTGATCCACTTCTCTATATCTCATCAGGAAGATGG
Found at i:25010251 original size:48 final size:48
Alignment explanation
Indices: 25010174--25010266 Score: 134
Period size: 48 Copynumber: 1.9 Consensus size: 48
25010164 TCTGAGCTTC
* * *
25010174 GCTTCATTGTTTTGGTCCACTTCTCTGTATCTCATTAGGAAGATGATT
1 GCTTCATTATTTTGATCCACTTCTCTGTATCTCATCAGGAAGATGATT
*
25010222 GCTTCATTATTTTGATTCACTTC-CTTGTATCTCATCAGGAAGATG
1 GCTTCATTATTTTGATCCACTTCTC-TGTATCTCATCAGGAAGATG
25010267 GGGTTTGATC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
47 1 0.03
48 39 0.98
ACGTcount: A:0.20, C:0.19, G:0.17, T:0.43
Consensus pattern (48 bp):
GCTTCATTATTTTGATCCACTTCTCTGTATCTCATCAGGAAGATGATT
Found at i:25018427 original size:17 final size:15
Alignment explanation
Indices: 25018399--25018439 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
25018389 TCATGGAATT
25018399 AAATGCATGTTTAATG
1 AAATGCATGTTT-ATG
25018415 AAATGCGATGTTTATG
1 AAATGC-ATGTTTATG
25018431 -AATGCATGT
1 AAATGCATGT
25018440 ATGCAAAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 4 0.17
15 5 0.21
16 9 0.38
17 6 0.25
ACGTcount: A:0.34, C:0.07, G:0.22, T:0.37
Consensus pattern (15 bp):
AAATGCATGTTTATG
Found at i:25020966 original size:90 final size:90
Alignment explanation
Indices: 25020857--25021111 Score: 259
Period size: 91 Copynumber: 2.8 Consensus size: 90
25020847 TTAAGTGTAT
* * * * *
25020857 AAAAA-ACCCTTAAACTTTTTCAAAAAAAGTAATTAATTC-TCTACTTTTTTTTTGCATTCAATT
1 AAAAAGACCCTCAAACTTTTTCAAAAAAAGAAATTAA-GCATCTACATTTTTTTTGCACTCAATT
* *
25020920 -AGGTACTTGAACTACCAAAATGCATC
65 GA-ATACTTGAACTACCAAAATACATC
**
25020946 AAAAAGACCCTCAAACTTTTTTCTGAAAAAGAAATTAAGCATCTACATTTTTTTTGCACTCAATT
1 AAAAAGACCCTCAAAC-TTTTTCAAAAAAAGAAATTAAGCATCTACATTTTTTTTGCACTCAATT
* **
25021011 GAATACTTTAACTTTCAAAATACATC
65 GAATACTTGAACTACCAAAATACATC
* * * * *
25021037 AAAAAGATCCTCAAAATTTTTC-AAAAAAGAAAATTAAGCACCTGA-TTTTTTTTTTCACTCAAT
1 AAAAAGACCCTCAAACTTTTTCAAAAAAAG-AAATTAAGCATCT-ACATTTTTTTTGCACTCAAT
**
25021100 TGGGTACTTGAA
64 TGAATACTTGAA
25021112 TCACCTCTAA
Statistics
Matches: 139, Mismatches: 21, Indels: 11
0.81 0.12 0.06
Matches are distributed among these distances:
89 11 0.08
90 53 0.38
91 74 0.53
92 1 0.01
ACGTcount: A:0.39, C:0.17, G:0.08, T:0.36
Consensus pattern (90 bp):
AAAAAGACCCTCAAACTTTTTCAAAAAAAGAAATTAAGCATCTACATTTTTTTTGCACTCAATTG
AATACTTGAACTACCAAAATACATC
Found at i:25021196 original size:18 final size:18
Alignment explanation
Indices: 25021173--25021207 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
25021163 GGCATGTGGC
*
25021173 AAAAATGATAAAAATTAA
1 AAAAATAATAAAAATTAA
*
25021191 AAAAATAATGAAAATTA
1 AAAAATAATAAAAATTA
25021208 TTAAATTTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (18 bp):
AAAAATAATAAAAATTAA
Found at i:25021260 original size:28 final size:29
Alignment explanation
Indices: 25021190--25021261 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
25021180 ATAAAAATTA
25021190 AAAAAATAATGAAAATTATTAAATTTTAAT
1 AAAAAAT-ATGAAAATTATTAAATTTTAAT
* *
25021220 AAAAACTATGAAAA-TATTTAAATTTTATT
1 AAAAAATATGAAAATTA-TTAAATTTTAAT
25021249 AAAAAATA-GAAAA
1 AAAAAATATGAAAA
25021262 AAATATAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
28 7 0.18
29 25 0.66
30 6 0.16
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.33
Consensus pattern (29 bp):
AAAAAATATGAAAATTATTAAATTTTAAT
Found at i:25021262 original size:29 final size:30
Alignment explanation
Indices: 25021190--25021271 Score: 89
Period size: 29 Copynumber: 2.8 Consensus size: 30
25021180 ATAAAAATTA
*
25021190 AAAAAATAATGAAAATTA-TTAAATTTTAAT
1 AAAAAAT-ATGAAAAATATTTAAATTTTAAT
* *
25021220 AAAAACTATG-AAAATATTTAAATTTTATT
1 AAAAAATATGAAAAATATTTAAATTTTAAT
* *
25021249 AAAAAATA-GAAAAAAATATAAAT
1 AAAAAATATGAAAAATATTTAAAT
25021272 ATCGTAAAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
28 6 0.14
29 32 0.73
30 6 0.14
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.33
Consensus pattern (30 bp):
AAAAAATATGAAAAATATTTAAATTTTAAT
Found at i:25021300 original size:30 final size:30
Alignment explanation
Indices: 25021248--25021346 Score: 98
Period size: 30 Copynumber: 3.4 Consensus size: 30
25021238 TAAATTTTAT
* *
25021248 TAAAAAA-TAGAAAA-AAATATAAATATCG
1 TAAAAAATTATAAAATATATATAAATATCG
*
25021276 TAAAAAATTATAAAATATATATAAATATAG
1 TAAAAAATTATAAAATATATATAAATATCG
* * * *
25021306 AAAAAAATTATAAAAT-TTTATAGA-GTCG
1 TAAAAAATTATAAAATATATATAAATATCG
25021334 TAAGAAAATTATA
1 TAA-AAAATTATA
25021347 GAAAATGTAA
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 11 0.19
29 21 0.36
30 27 0.46
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.29
Consensus pattern (30 bp):
TAAAAAATTATAAAATATATATAAATATCG
Found at i:25021617 original size:20 final size:19
Alignment explanation
Indices: 25021592--25021656 Score: 71
Period size: 19 Copynumber: 3.4 Consensus size: 19
25021582 TTTTATAATG
25021592 TTTATAAAAGTTTACA-ATTT
1 TTTATAAAA-TTT-CATATTT
25021612 TTTATAAAATTTCATA-TT
1 TTTATAAAATTTCATATTT
* *
25021630 TTTATTAAAATTTAATAATT
1 TTTA-TAAAATTTCATATTT
25021650 TTTATAA
1 TTTATAA
25021657 TTTTTATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
18 8 0.20
19 18 0.44
20 15 0.37
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.54
Consensus pattern (19 bp):
TTTATAAAATTTCATATTT
Found at i:25021662 original size:19 final size:18
Alignment explanation
Indices: 25021640--25021678 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
25021630 TTTATTAAAA
25021640 TTTAATAATTTTTATAATT
1 TTTAATAATTTTTAT-ATT
* *
25021659 TTTATTTATTTTTATATT
1 TTTAATAATTTTTATATT
25021677 TT
1 TT
25021679 ATAGTTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTAATAATTTTTATATT
Found at i:25021673 original size:10 final size:10
Alignment explanation
Indices: 25021627--25021673 Score: 51
Period size: 10 Copynumber: 4.8 Consensus size: 10
25021617 AAAATTTCAT
25021627 ATTTTTATTA
1 ATTTTTATTA
** *
25021637 AAATTTAATA
1 ATTTTTATTA
25021647 ATTTTTA-TA
1 ATTTTTATTA
*
25021656 ATTTTTATTT
1 ATTTTTATTA
25021666 ATTTTTAT
1 ATTTTTAT
25021674 ATTTTATAGT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
9 9 0.30
10 21 0.70
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (10 bp):
ATTTTTATTA
Found at i:25028749 original size:16 final size:16
Alignment explanation
Indices: 25028730--25028763 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
25028720 CGTTGGAATC
25028730 AAAAGGGAAGAAGATG
1 AAAAGGGAAGAAGATG
25028746 AAAAGGGAAGAAGATG
1 AAAAGGGAAGAAGATG
25028762 AA
1 AA
25028764 GATGAAGAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.59, C:0.00, G:0.35, T:0.06
Consensus pattern (16 bp):
AAAAGGGAAGAAGATG
Found at i:25029172 original size:12 final size:12
Alignment explanation
Indices: 25029157--25029232 Score: 64
Period size: 12 Copynumber: 6.4 Consensus size: 12
25029147 AAACAGTAGC
*
25029157 AAAAATAACAGT
1 AAAAATAACAAT
25029169 -AAAATAACAAT
1 AAAAATAACAAT
* * *
25029180 AAAAACAGCAAC
1 AAAAATAACAAT
*
25029192 AAAAATAACAGT
1 AAAAATAACAAT
* * *
25029204 AAAAACAGCAAC
1 AAAAATAACAAT
*
25029216 AAAAATAACAGT
1 AAAAATAACAAT
25029228 AAAAA
1 AAAAA
25029233 CAATACCAAA
Statistics
Matches: 47, Mismatches: 16, Indels: 2
0.72 0.25 0.03
Matches are distributed among these distances:
11 10 0.21
12 37 0.79
ACGTcount: A:0.70, C:0.13, G:0.07, T:0.11
Consensus pattern (12 bp):
AAAAATAACAAT
Found at i:25029185 original size:35 final size:35
Alignment explanation
Indices: 25029134--25029207 Score: 121
Period size: 35 Copynumber: 2.1 Consensus size: 35
25029124 CCAAACAACC
* * *
25029134 AAAATAACAATCAAAACAGTAGCAAAAATAACAGT
1 AAAATAACAATAAAAACAGCAACAAAAATAACAGT
25029169 AAAATAACAATAAAAACAGCAACAAAAATAACAGT
1 AAAATAACAATAAAAACAGCAACAAAAATAACAGT
25029204 AAAA
1 AAAA
25029208 ACAGCAACAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.68, C:0.14, G:0.07, T:0.12
Consensus pattern (35 bp):
AAAATAACAATAAAAACAGCAACAAAAATAACAGT
Found at i:25029243 original size:24 final size:24
Alignment explanation
Indices: 25029169--25029234 Score: 123
Period size: 24 Copynumber: 2.8 Consensus size: 24
25029159 AAATAACAGT
*
25029169 AAAATAACAATAAAAACAGCAACA
1 AAAATAACAGTAAAAACAGCAACA
25029193 AAAATAACAGTAAAAACAGCAACA
1 AAAATAACAGTAAAAACAGCAACA
25029217 AAAATAACAGTAAAAACA
1 AAAATAACAGTAAAAACA
25029235 ATACCAAAAC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.70, C:0.15, G:0.06, T:0.09
Consensus pattern (24 bp):
AAAATAACAGTAAAAACAGCAACA
Found at i:25029247 original size:20 final size:21
Alignment explanation
Indices: 25029198--25029273 Score: 73
Period size: 21 Copynumber: 3.5 Consensus size: 21
25029188 CAACAAAAAT
**
25029198 AACAGTAAAAACAGCAACAAAAA
1 AACAGT-AAAA-AGCAACACCAA
*
25029221 TAACAGTAAAAA-CAATACCAA
1 -AACAGTAAAAAGCAACACCAA
* *
25029242 AACAGTAAAAAGTAGCACCAA
1 AACAGTAAAAAGCAACACCAA
25029263 AACAGTAAAAA
1 AACAGTAAAAA
25029274 ACATCAATCA
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
20 11 0.24
21 23 0.51
22 1 0.02
23 4 0.09
24 6 0.13
ACGTcount: A:0.64, C:0.17, G:0.09, T:0.09
Consensus pattern (21 bp):
AACAGTAAAAAGCAACACCAA
Found at i:25034857 original size:12 final size:12
Alignment explanation
Indices: 25034842--25034872 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
25034832 TGCAACTGAG
25034842 CTTGCACTTGTT
1 CTTGCACTTGTT
*
25034854 CTTGCTCTTGTT
1 CTTGCACTTGTT
25034866 CTTGCAC
1 CTTGCAC
25034873 ATCCCTTTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.06, C:0.29, G:0.16, T:0.48
Consensus pattern (12 bp):
CTTGCACTTGTT
Found at i:25037589 original size:90 final size:91
Alignment explanation
Indices: 25037487--25037699 Score: 240
Period size: 91 Copynumber: 2.4 Consensus size: 91
25037477 TATAAAAAAC
* * ** * *
25037487 CCTT-AAACTTTTTCAAAAAAAGTAATTAATTC-TCTACTTTTTTTTTGCATTCAATT-AGGTAC
1 CCTTCAAACTTTTTCAAAAAAAGAAATTAA-GCATCTAAATTTTTTTTGCACTCAATTGA-ATAC
*
25037549 TTGAACTTCCAAAATGCATCAAAAAGA-
64 TTGAACTTCCAAAATACATCAAAAAGAT
**
25037576 CCTTCAAACTTTTTTCTGAAAAAGAAATTAAGCATCTAAATTTTTTTTGCACTCAATTGAATACT
1 CCTTCAAAC-TTTTTCAAAAAAAGAAATTAAGCATCTAAATTTTTTTTGCACTCAATTGAATACT
* *
25037641 TTAACTTTCAAAATACATCAAAAAGAT
65 TGAACTTCCAAAATACATCAAAAAGAT
*
25037668 CC-TCAAAATTTTTC-AAAAAAGAAAATTAAGCA
1 CCTTCAAACTTTTTCAAAAAAAG-AAATTAAGCA
25037700 CCTGATCTTT
Statistics
Matches: 105, Mismatches: 13, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
89 10 0.10
90 21 0.20
91 71 0.68
92 3 0.03
ACGTcount: A:0.41, C:0.16, G:0.07, T:0.36
Consensus pattern (91 bp):
CCTTCAAACTTTTTCAAAAAAAGAAATTAAGCATCTAAATTTTTTTTGCACTCAATTGAATACTT
GAACTTCCAAAATACATCAAAAAGAT
Found at i:25037824 original size:18 final size:18
Alignment explanation
Indices: 25037801--25037835 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
25037791 GGCATGTGGC
*
25037801 AAAAATGATAAAAATTAA
1 AAAAATAATAAAAATTAA
*
25037819 AAAAATAATGAAAATTA
1 AAAAATAATAAAAATTA
25037836 TTACATTATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (18 bp):
AAAAATAATAAAAATTAA
Found at i:25037898 original size:29 final size:29
Alignment explanation
Indices: 25037844--25037899 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
25037834 TATTACATTA
* *
25037844 TTAAATTTTAATAAAAACTACGAAAATAT
1 TTAAATTTTAATAAAAAATACGAAAAAAT
*
25037873 TTAAATTTTATTAAAAAATA-GAAAAAA
1 TTAAATTTTAATAAAAAATACGAAAAAA
25037900 ATATAAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 6 0.25
29 18 0.75
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.34
Consensus pattern (29 bp):
TTAAATTTTAATAAAAAATACGAAAAAAT
Found at i:25037906 original size:29 final size:29
Alignment explanation
Indices: 25037845--25037907 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
25037835 ATTACATTAT
* * *
25037845 TAAATTTTAATAAAAACTACGAAAATATT
1 TAAATTTTAATAAAAAATACGAAAAAATA
*
25037874 TAAATTTTATTAAAAAATA-GAAAAAAATA
1 TAAATTTTAATAAAAAATACG-AAAAAATA
25037903 TAAAT
1 TAAAT
25037908 ATCGTAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 1 0.03
29 28 0.97
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.33
Consensus pattern (29 bp):
TAAATTTTAATAAAAAATACGAAAAAATA
Found at i:25038249 original size:20 final size:19
Alignment explanation
Indices: 25038225--25038311 Score: 86
Period size: 19 Copynumber: 4.5 Consensus size: 19
25038215 GCATTTTATA
25038225 ATTTTTATAAAAGTTTAAATT
1 ATTTTTATAAAA-TTTAAA-T
* *
25038246 TTTTTTATAAAATTT-CAT
1 ATTTTTATAAAATTTAAAT
*
25038264 ATTTTTATTAAAATTTAAAA
1 ATTTTTA-TAAAATTTAAAT
* **
25038284 ATTTTTATAAATTTTATTT
1 ATTTTTATAAAATTTAAAT
25038303 ATTTTTATA
1 ATTTTTATA
25038312 TTTTATAGTT
Statistics
Matches: 55, Mismatches: 9, Indels: 6
0.79 0.13 0.09
Matches are distributed among these distances:
18 7 0.13
19 26 0.47
20 11 0.20
21 11 0.20
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.59
Consensus pattern (19 bp):
ATTTTTATAAAATTTAAAT
Found at i:25038306 original size:39 final size:41
Alignment explanation
Indices: 25038217--25038310 Score: 108
Period size: 39 Copynumber: 2.4 Consensus size: 41
25038207 TTTTTGATGC
* **
25038217 ATTTTATAATTTTTA-TAAAAGTTTAAATTTTTTTTATAAA
1 ATTTTATTATTTTTATTAAAAGTTTAAATAATTTTTATAAA
*
25038257 ATTTCA-TATTTTTATTAAAA-TTTAAA-AATTTTTAT-AA
1 ATTTTATTATTTTTATTAAAAGTTTAAATAATTTTTATAAA
25038294 ATTTTATTTATTTTTAT
1 ATTTTA-TTATTTTTAT
25038311 ATTTTATAGT
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
37 7 0.15
38 7 0.15
39 22 0.48
40 10 0.22
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.60
Consensus pattern (41 bp):
ATTTTATTATTTTTATTAAAAGTTTAAATAATTTTTATAAA
Found at i:25047455 original size:22 final size:21
Alignment explanation
Indices: 25047429--25047475 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
25047419 TTTTTAAAAA
*
25047429 AATATTT-ATATTATATTATTTT
1 AATATTTAATATT-TAATA-TTT
25047451 AATATTTAATATTTAATATTT
1 AATATTTAATATTTAATATTT
25047472 AATA
1 AATA
25047476 GTTTTATACA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 7 0.30
22 11 0.48
23 5 0.22
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
AATATTTAATATTTAATATTT
Found at i:25047460 original size:7 final size:7
Alignment explanation
Indices: 25047429--25047475 Score: 60
Period size: 7 Copynumber: 6.6 Consensus size: 7
25047419 TTTTTAAAAA
25047429 AATATTT
1 AATATTT
25047436 -ATATTAT
1 AATATT-T
*
25047443 ATTATTTT
1 AATA-TTT
25047451 AATATTT
1 AATATTT
25047458 AATATTT
1 AATATTT
25047465 AATATTT
1 AATATTT
25047472 AATA
1 AATA
25047476 GTTTTATACA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
6 5 0.14
7 22 0.63
8 6 0.17
9 2 0.06
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
AATATTT
Found at i:25049253 original size:44 final size:44
Alignment explanation
Indices: 25049179--25049267 Score: 124
Period size: 44 Copynumber: 2.0 Consensus size: 44
25049169 TTGTTACTAG
* *
25049179 TCTTCCAAACGTTGTGGTTGACAATACCTTTGATGTAATCACCC
1 TCTTCCAAACGTTGTGGTTGACAACACCTTTGATATAATCACCC
* * * *
25049223 TCTTTCAAACGTTGTGGTTGACGACGCCTTTTATATAATCACCC
1 TCTTCCAAACGTTGTGGTTGACAACACCTTTGATATAATCACCC
25049267 T
1 T
25049268 TCAATTGAGC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.36
Consensus pattern (44 bp):
TCTTCCAAACGTTGTGGTTGACAACACCTTTGATATAATCACCC
Found at i:25052339 original size:27 final size:27
Alignment explanation
Indices: 25052309--25052374 Score: 89
Period size: 27 Copynumber: 2.4 Consensus size: 27
25052299 AAAAAATTAC
* *
25052309 AAAAATATAAAATTGTAAAAACTC-TTT
1 AAAAATATAAAATT-AAAAAAATCATTT
*
25052336 AAAAATAAAAAATTAAAAAAATCATTT
1 AAAAATATAAAATTAAAAAAATCATTT
25052363 AAAAATATAAAA
1 AAAAATATAAAA
25052375 AAATTATTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
26 7 0.21
27 27 0.79
ACGTcount: A:0.67, C:0.05, G:0.02, T:0.27
Consensus pattern (27 bp):
AAAAATATAAAATTAAAAAAATCATTT
Done.