Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032247.1 Gossypioides kirkii chromosome KI_05
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: 50980411
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 142 of 171
Found at i:43459993 original size:24 final size:24
Alignment explanation
Indices: 43459966--43460055 Score: 110
Period size: 24 Copynumber: 3.7 Consensus size: 24
43459956 TATATTAAGA
43459966 TTTTATTAAATTATATATTATTAT
1 TTTTATTAAATTATATATTATTAT
*
43459990 TTTTATTAAATTATAT-TTAATAATAA
1 TTTTATTAAATTATATATT-AT--TAT
* * *
43460016 TTATATTAAATTATTTATTATCAT
1 TTTTATTAAATTATATATTATTAT
43460040 TTTTATTAAATTATAT
1 TTTTATTAAATTATAT
43460056 TTAATAATAT
Statistics
Matches: 55, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
23 2 0.04
24 33 0.60
26 18 0.33
27 2 0.04
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (24 bp):
TTTTATTAAATTATATATTATTAT
Found at i:43460027 original size:50 final size:50
Alignment explanation
Indices: 43459969--43460064 Score: 174
Period size: 50 Copynumber: 1.9 Consensus size: 50
43459959 ATTAAGATTT
*
43459969 TATTAAATTATATATTATTATTTTTATTAAATTATATTTAATAATAATTA
1 TATTAAATTATATATTATCATTTTTATTAAATTATATTTAATAATAATTA
*
43460019 TATTAAATTATTTATTATCATTTTTATTAAATTATATTTAATAATA
1 TATTAAATTATATATTATCATTTTTATTAAATTATATTTAATAATA
43460065 TCCTATTATA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 44 1.00
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (50 bp):
TATTAAATTATATATTATCATTTTTATTAAATTATATTTAATAATAATTA
Found at i:43460078 original size:26 final size:25
Alignment explanation
Indices: 43459969--43460065 Score: 94
Period size: 24 Copynumber: 3.9 Consensus size: 25
43459959 ATTAAGATTT
* *
43459969 TATTAAATTATATATT-ATTAT-TTT
1 TATTAAATTATAT-TTAATAATATTA
43459993 TATTAAATTATATTTAATAATAATTA
1 TATTAAATTATATTTAATAAT-ATTA
* * *
43460019 TATTAAATTAT-TTATTATCAT-TTT
1 TATTAAATTATATT-TAATAATATTA
43460043 TATTAAATTATATTTAATAATAT
1 TATTAAATTATATTTAATAATAT
43460066 CCTATTATAA
Statistics
Matches: 60, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
23 2 0.03
24 35 0.58
25 5 0.08
26 18 0.30
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (25 bp):
TATTAAATTATATTTAATAATATTA
Found at i:43460078 original size:50 final size:50
Alignment explanation
Indices: 43459969--43460078 Score: 168
Period size: 50 Copynumber: 2.2 Consensus size: 50
43459959 ATTAAGATTT
* *
43459969 TATTAAATTATATATTATTATTTTTATTAAATTATATTTAATAATAATTA
1 TATTAAATTATATATTATCATTTTTATTAAATTATATTTAATAATAATCA
* *
43460019 TATTAAATTATTTATTATCATTTTTATTAAATTATATTTAATAAT-ATCC
1 TATTAAATTATATATTATCATTTTTATTAAATTATATTTAATAATAATCA
43460068 TATTATAATTA
1 TATTA-AATTA
43460079 ATAACAATAA
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
49 7 0.13
50 48 0.87
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (50 bp):
TATTAAATTATATATTATCATTTTTATTAAATTATATTTAATAATAATCA
Found at i:43460159 original size:25 final size:26
Alignment explanation
Indices: 43460130--43460181 Score: 97
Period size: 25 Copynumber: 2.0 Consensus size: 26
43460120 AATGGTACAA
43460130 TGGTCATTTTAGCTTTTTT-TTATAT
1 TGGTCATTTTAGCTTTTTTCTTATAT
43460155 TGGTCATTTTAGCTTTTTTCTTATAT
1 TGGTCATTTTAGCTTTTTTCTTATAT
43460181 T
1 T
43460182 ATTACAACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 19 0.73
26 7 0.27
ACGTcount: A:0.15, C:0.10, G:0.12, T:0.63
Consensus pattern (26 bp):
TGGTCATTTTAGCTTTTTTCTTATAT
Found at i:43460313 original size:16 final size:16
Alignment explanation
Indices: 43460268--43460321 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
43460258 TGAATTACTG
*
43460268 ATTACAGTTTTATTCC
1 ATTACAGTCTTATTCC
* *
43460284 ATTATA-ACTCTATTCC
1 ATTACAGTCT-TATTCC
43460300 ATTACAGTCTTATTCC
1 ATTACAGTCTTATTCC
43460316 ATTACA
1 ATTACA
43460322 ATCCTATTCA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
15 1 0.03
16 28 0.90
17 2 0.06
ACGTcount: A:0.30, C:0.22, G:0.04, T:0.44
Consensus pattern (16 bp):
ATTACAGTCTTATTCC
Found at i:43460329 original size:16 final size:16
Alignment explanation
Indices: 43460278--43460330 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
43460268 ATTACAGTTT
*
43460278 TATTCCATTATAA-CTC
1 TATTCCATTACAATC-C
* *
43460294 TATTCCATTACAGTCT
1 TATTCCATTACAATCC
43460310 TATTCCATTACAATCC
1 TATTCCATTACAATCC
43460326 TATTC
1 TATTC
43460331 AATTCCAGTG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
16 30 0.97
17 1 0.03
ACGTcount: A:0.28, C:0.26, G:0.02, T:0.43
Consensus pattern (16 bp):
TATTCCATTACAATCC
Found at i:43460329 original size:32 final size:32
Alignment explanation
Indices: 43460268--43460339 Score: 92
Period size: 32 Copynumber: 2.2 Consensus size: 32
43460258 TGAATTACTG
* * *
43460268 ATTACAGTTTTATTCCATTATAACTCTATTCC
1 ATTACAGTCTTATTCCATTACAACTCTATTCA
43460300 ATTACAGTCTTATTCCATTACAA-TCCTATTCA
1 ATTACAGTCTTATTCCATTACAACT-CTATTCA
*
43460332 ATTCCAGT
1 ATTACAGT
43460340 GAACCAAAAG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 1 0.03
32 34 0.97
ACGTcount: A:0.29, C:0.24, G:0.04, T:0.43
Consensus pattern (32 bp):
ATTACAGTCTTATTCCATTACAACTCTATTCA
Found at i:43463916 original size:138 final size:138
Alignment explanation
Indices: 43463658--43463949 Score: 428
Period size: 138 Copynumber: 2.1 Consensus size: 138
43463648 GTTTGTTCAC
*
43463658 AATCAGCAATAAGAAAGAAAAATCTGGAATACCCACAAAGGGATTATGGGTAAACAAGTCGATTC
1 AATCAGCAATAAGAAAGAAAAATCTGGAACACCCACAAAGGGATTATGGGTAAACAAGTCGATTC
* *
43463723 AGATGAGAAAAAATCGGATTATGAAACCAATTATTCAAAAACCTAGAATAACCACAAAGGTAAAT
66 AGATCAGAAAAAATCGGATTATGAAACCAATTATTCAAAAACCTAGAATAACCACAAAAGTAAAT
43463788 CAACACAA
131 CAACACAA
* * * * *
43463796 AATCAGCAATAAGAAAGAAAAATCTGGAACACCTACAAAGTGTTTGTGGGTAAACAAGTTGATT-
1 AATCAGCAATAAGAAAGAAAAATCTGGAACACCCACAAAGGGATTATGGGTAAACAAGTCGATTC
* * *
43463860 AGGATCAGAAAAAATCGGATTGA-GAAACCAATTATT-AAAGAACCTGGAGTACCCACAAAAGTA
66 A-GATCAGAAAAAATCGGATT-ATGAAACCAATTATTCAAA-AACCTAGAATAACCACAAAAGTA
43463923 AATCAACACAA
128 AATCAACACAA
*
43463934 AATCAACAATAAGAAA
1 AATCAGCAATAAGAAA
43463950 AATCTACAAT
Statistics
Matches: 139, Mismatches: 12, Indels: 6
0.89 0.08 0.04
Matches are distributed among these distances:
137 4 0.03
138 134 0.96
139 1 0.01
ACGTcount: A:0.50, C:0.15, G:0.16, T:0.18
Consensus pattern (138 bp):
AATCAGCAATAAGAAAGAAAAATCTGGAACACCCACAAAGGGATTATGGGTAAACAAGTCGATTC
AGATCAGAAAAAATCGGATTATGAAACCAATTATTCAAAAACCTAGAATAACCACAAAAGTAAAT
CAACACAA
Found at i:43464035 original size:134 final size:135
Alignment explanation
Indices: 43463671--43464035 Score: 414
Period size: 138 Copynumber: 2.7 Consensus size: 135
43463661 CAGCAATAAG
* * * *
43463671 AAAGAAAAATCTGGAATACCCACAAAGGGATTATGGGTAAAC-AAGTCGATTCAGATGAGAAAAA
1 AAAGAAAAATCTGGAATACCCACAAAGGGATTGTGGGTAAACAAACT-GATTTAGATCAGAAAAA
* *
43463735 ATCGGATT-ATGAAACCAATTATTCAAAAACCTAGAATAACCACAAAGGTAAATCAACACAAAAT
65 ATCGGATTGA-GAAACCAATTATTCAAGAACCTAGAATAACCACAAAAGTAAATCAACACAAAAT
*
43463799 CAGCAAT
129 CAACAAT
* * * * **
43463806 AAGAAAGAAAAATCTGGAACACCTACAAAGTGTTTGTGGGTAAACAAGTTGA-TTAGGATCAGAA
1 ---AAAGAAAAATCTGGAATACCCACAAAGGGATTGTGGGTAAACAAACTGATTTA-GATCAGAA
* * * *
43463870 AAAATCGGATTGAGAAACCAATTATTAAAGAACCTGGAGTACCCACAAAAGTAAATCAACACAAA
62 AAAATCGGATTGAGAAACCAATTATTCAAGAACCTAGAATAACCACAAAAGTAAATCAACACAAA
43463935 ATCAACAAT
127 ATCAACAAT
** ***
43463944 -AAGAAAAATCTACAATACCCACAAAGGGATTGTGAACAAACAAACTGATTTAGATCAGAAAAAA
1 AAAGAAAAATCTGGAATACCCACAAAGGGATTGTGGGTAAACAAACTGATTTAGATCAGAAAAAA
* ** *
43464008 TCGAATTGAGAAATAAACTATTCAAGAA
66 TCGGATTGAGAAACCAATTATTCAAGAA
43464036 TCATGAAAGA
Statistics
Matches: 191, Mismatches: 32, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
134 72 0.38
135 3 0.02
137 2 0.01
138 111 0.58
139 3 0.02
ACGTcount: A:0.50, C:0.15, G:0.16, T:0.19
Consensus pattern (135 bp):
AAAGAAAAATCTGGAATACCCACAAAGGGATTGTGGGTAAACAAACTGATTTAGATCAGAAAAAA
TCGGATTGAGAAACCAATTATTCAAGAACCTAGAATAACCACAAAAGTAAATCAACACAAAATCA
ACAAT
Found at i:43464263 original size:14 final size:14
Alignment explanation
Indices: 43464244--43464271 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
43464234 GTTTAAAATT
43464244 TTTATTTAATTAAA
1 TTTATTTAATTAAA
43464258 TTTATTTAATTAAA
1 TTTATTTAATTAAA
43464272 ATTCTATTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTATTTAATTAAA
Found at i:43464409 original size:20 final size:20
Alignment explanation
Indices: 43464384--43464421 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
43464374 TGATCACTTC
43464384 GTAACAAAATA-GTAACATAA
1 GTAACAAAA-ACGTAACATAA
43464404 GTAACAAAAACGTAACAT
1 GTAACAAAAACGTAACAT
43464422 TTCAAACATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.58, C:0.13, G:0.11, T:0.18
Consensus pattern (20 bp):
GTAACAAAAACGTAACATAA
Found at i:43465897 original size:29 final size:28
Alignment explanation
Indices: 43465865--43466182 Score: 145
Period size: 29 Copynumber: 11.0 Consensus size: 28
43465855 TGGAAATTTA
* *
43465865 AGGGCAAAATGGTGATTTTTGGATGCTTG
1 AGGGCAAAATGGTAATTTTTGGAAG-TTG
*
43465894 AGGGCAAAATGGTAATTTTTGGATA-TCCG
1 AGGGCAAAATGGTAATTTTTGGA-AGT-TG
43465923 AGGGCAGAAAT-GTAATTTTTGGAAGTTCG
1 AGGGCA-AAATGGTAATTTTTGGAAGTT-G
* *
43465952 AGGGTAAAAAT-GTCATTTTTGGAAGTTTG
1 AGGG-CAAAATGGTAATTTTTGGAAG-TTG
*
43465981 AGGGCAAAAATGGTAATTTTT--AA-ATG
1 AGGGC-AAAATGGTAATTTTTGGAAGTTG
* * * *
43466007 CCCGGAGTTAAAATGGAAAATTTT-GAATGTTCG
1 --AGG-G-CAAAATGGTAATTTTTGGAA-GTT-G
* * *
43466040 AGGGTAAAATGGTAATTTTTGGATGCTCG
1 AGGGCAAAATGGTAATTTTTGGAAG-TTG
* *
43466069 GGGGTAAAATGGTAA-TTTTGGAAGTTCGG
1 AGGGCAAAATGGTAATTTTTGGAAGTT--G
** * * *
43466098 AGGTAAAAAT-ATATTTTTTAAGAAGTTCG
1 AGGGCAAAATGGTAATTTTT-GGAAGTT-G
* * *
43466127 AGGGTCAAAAT-GTGATTTTGGGAAAGTTT
1 AGGG-CAAAATGGTAATTTTTGG-AAGTTG
*
43466156 AGGGGAAAAT-GTAATTTTTGAGAAGTT
1 AGGGCAAAATGGTAATTTTTG-GAAGTT
43466183 TAGGTGTAAA
Statistics
Matches: 223, Mismatches: 40, Indels: 53
0.71 0.13 0.17
Matches are distributed among these distances:
26 2 0.01
27 1 0.00
28 34 0.15
29 140 0.63
30 42 0.19
31 2 0.01
32 1 0.00
33 1 0.00
ACGTcount: A:0.32, C:0.06, G:0.29, T:0.33
Consensus pattern (28 bp):
AGGGCAAAATGGTAATTTTTGGAAGTTG
Found at i:43465941 original size:58 final size:58
Alignment explanation
Indices: 43465865--43466087 Score: 211
Period size: 58 Copynumber: 3.8 Consensus size: 58
43465855 TGGAAATTTA
* * * *
43465865 AGGGCAAAATGGTGATTTTTGGATGCTTGAGGGCAAAATGGTAATTTTTGGATATCCG
1 AGGGCAAAATGGTAATTTTTGGATGCTCGAGGGTAAAATGGTAATTTTTGGATATTCG
* * * *
43465923 AGGGCAGAAAT-GTAATTTTTGGAAGTTCGAGGGTAAAAAT-GTCATTTTTGGA-AGTTTG
1 AGGGCA-AAATGGTAATTTTTGGATGCTCGAGGGT-AAAATGGTAATTTTTGGATA-TTCG
** * * * * * *
43465981 AGGGCAAAAATGGTAATTTTTAAATGCCCG-GAGTTAAAATGGAAAATTTTGAATGTTCG
1 AGGGC-AAAATGGTAATTTTTGGATGCTCGAG-GGTAAAATGGTAATTTTTGGATATTCG
* *
43466040 AGGGTAAAATGGTAATTTTTGGATGCTCGGGGGTAAAATGGTAATTTT
1 AGGGCAAAATGGTAATTTTTGGATGCTCGAGGGTAAAATGGTAATTTT
43466088 GGAAGTTCGG
Statistics
Matches: 129, Mismatches: 27, Indels: 18
0.74 0.16 0.10
Matches are distributed among these distances:
57 1 0.01
58 87 0.67
59 41 0.32
ACGTcount: A:0.31, C:0.07, G:0.29, T:0.33
Consensus pattern (58 bp):
AGGGCAAAATGGTAATTTTTGGATGCTCGAGGGTAAAATGGTAATTTTTGGATATTCG
Found at i:43466107 original size:87 final size:86
Alignment explanation
Indices: 43465865--43466138 Score: 200
Period size: 87 Copynumber: 3.1 Consensus size: 86
43465855 TGGAAATTTA
* * * * * *
43465865 AGGGCAAAATGGTGATTTTTGGATGCTTGAGGGCAAAATGGTAATTTTTGG-A-TATCCGAGGGC
1 AGGGTAAAATGGTAATTTTTGGATGCTTGGGGGAAAAATGGTAA-TTTTGGAAGT-TCGGA-GGT
* * *
43465928 AGAAATGTAATTTTTGGAAGTTCG
63 AAAAATGAAAATTTTGGAAGTTCG
* * * * ** **
43465952 AGGGTAAAAAT-GTCATTTTTGGAAGTTTGAGGGCAAAAATGGTAATTTTTAAATGCCCGGA-GT
1 AGGGT-AAAATGGTAATTTTTGGATGCTTG-GGGGAAAAATGGTAATTTTGGAA-GTTCGGAGGT
*
43466015 TAAAATGGAAAATTTT-GAATGTTCG
63 AAAAAT-GAAAATTTTGGAA-GTTCG
* *
43466040 AGGGTAAAATGGTAATTTTTGGATGCTCGGGGGTAAAATGGTAATTTTGGAAGTTCGGAGGTAAA
1 AGGGTAAAATGGTAATTTTTGGATGCTTGGGGGAAAAATGGTAATTTTGGAAGTTCGGAGGTAAA
** *
43466105 AAT-ATATTTTTTAAGAAGTTCG
66 AATGA-AAATTTT-GGAAGTTCG
43466127 AGGGTCAAAATG
1 AGGGT-AAAATG
43466139 TGATTTTGGG
Statistics
Matches: 144, Mismatches: 30, Indels: 25
0.72 0.15 0.13
Matches are distributed among these distances:
85 1 0.01
86 10 0.07
87 72 0.50
88 58 0.40
89 3 0.02
ACGTcount: A:0.32, C:0.07, G:0.28, T:0.32
Consensus pattern (86 bp):
AGGGTAAAATGGTAATTTTTGGATGCTTGGGGGAAAAATGGTAATTTTGGAAGTTCGGAGGTAAA
AATGAAAATTTTGGAAGTTCG
Found at i:43466165 original size:58 final size:58
Alignment explanation
Indices: 43466103--43466218 Score: 137
Period size: 58 Copynumber: 2.0 Consensus size: 58
43466093 TTCGGAGGTA
* * * *
43466103 AAAATATATTTTTTAAGAAGTTCGAGG-GTCAAAATGTGATTTTGGGA-AAGTTTAGGGG
1 AAAATATAATTTTTAAGAAGTT-GAGGTGTAAAAATGTAATTTT-AGATAAGTTTAGGGG
* * *
43466161 AAAATGTAATTTTTGAGAAGTTTAGGTGTAAAAATGTAATTTTAGATAAGTTTAGGGG
1 AAAATATAATTTTTAAGAAGTTGAGGTGTAAAAATGTAATTTTAGATAAGTTTAGGGG
43466219 CCGAAATATG
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
57 5 0.10
58 44 0.90
ACGTcount: A:0.36, C:0.02, G:0.26, T:0.36
Consensus pattern (58 bp):
AAAATATAATTTTTAAGAAGTTGAGGTGTAAAAATGTAATTTTAGATAAGTTTAGGGG
Found at i:43466172 original size:28 final size:28
Alignment explanation
Indices: 43466133--43466218 Score: 93
Period size: 30 Copynumber: 3.0 Consensus size: 28
43466123 TTCGAGGGTC
* *
43466133 AAAATGTGATTTT-GGGAAAGTTTAGGGG
1 AAAATGTAATTTTAGAG-AAGTTTAGGGG
* *
43466161 AAAATGTAATTTTTGAGAAGTTTAGGTGTA
1 AAAATGTAATTTTAGAGAAGTTTAGG-G-G
*
43466191 AAAATGTAATTTTAGATAAGTTTAGGGG
1 AAAATGTAATTTTAGAGAAGTTTAGGGG
43466219 CCGAAATATG
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
28 21 0.43
29 4 0.08
30 24 0.49
ACGTcount: A:0.36, C:0.00, G:0.28, T:0.36
Consensus pattern (28 bp):
AAAATGTAATTTTAGAGAAGTTTAGGGG
Found at i:43466197 original size:30 final size:29
Alignment explanation
Indices: 43465930--43466217 Score: 116
Period size: 29 Copynumber: 9.9 Consensus size: 29
43465920 CCGAGGGCAG
*
43465930 AAATGTAATTTTTG-GAAGTTCGAGGGTAA
1 AAATGTAATTTTTGAGAAGTT-TAGGGTAA
* *
43465959 AAATGTCATTTTTG-GAAGTTTGAGGGCAA
1 AAATGTAATTTTTGAGAAGTTT-AGGGTAA
*** *
43465988 AAATGGTAATTTTT-A-AA-TGCCCGGAGTTA
1 AAAT-GTAATTTTTGAGAAGT-TTAGG-GTAA
* * * *
43466017 AAATGGAAAATTTTGA-ATGTTCGAGGGT-A
1 AAAT-GTAATTTTTGAGAAGTT-TAGGGTAA
* ***
43466046 AAATGGTAATTTTTG-GATGCTCGGGGGT-A
1 AAAT-GTAATTTTTGAGAAG-TTTAGGGTAA
**
43466075 AAATGGTAA-TTTTG-GAAGTTCGGAGGTAA
1 AAAT-GTAATTTTTGAGAAGTTTAG-GGTAA
* * * * *
43466104 AAATATATTTTTTAAGAAGTTCGAGGGTCA
1 AAATGTAATTTTTGAGAAGTT-TAGGGTAA
* * *
43466134 AAATGTGA-TTTTGGGAAAGTTTAGGG-GA
1 AAATGTAATTTTTGAG-AAGTTTAGGGTAA
43466162 AAATGTAATTTTTGAGAAGTTTAGGTGTAA
1 AAATGTAATTTTTGAGAAGTTTAGG-GTAA
* *
43466192 AAATGTAATTTTAGATAAGTTTAGGG
1 AAATGTAATTTTTGAGAAGTTTAGGG
43466218 GCCGAAATAT
Statistics
Matches: 200, Mismatches: 40, Indels: 38
0.72 0.14 0.14
Matches are distributed among these distances:
27 3 0.01
28 33 0.17
29 103 0.51
30 57 0.28
31 4 0.02
ACGTcount: A:0.34, C:0.04, G:0.27, T:0.35
Consensus pattern (29 bp):
AAATGTAATTTTTGAGAAGTTTAGGGTAA
Found at i:43468118 original size:39 final size:39
Alignment explanation
Indices: 43468092--43469388 Score: 870
Period size: 39 Copynumber: 33.3 Consensus size: 39
43468082 CTAGGCTTAA
* * *
43468092 GGTAAGATATTAGCTGATGGTGATCTGCCCCAAGCTCGG
1 GGTAAGAGATTGGCTGATGGTGATCTGCCCTAAGCTCGG
*
43468131 GGTAAGAGATTGGCTGATGGTGATCTGCCCTAGGCTCGG
1 GGTAAGAGATTGGCTGATGGTGATCTGCCCTAAGCTCGG
* * ** * * ** * * *
43468170 GGTAAAAGATCGAATGGTTGCAATCTGCCCTAGGTTCAG
1 GGTAAGAGATTGGCTGATGGTGATCTGCCCTAAGCTCGG
* *
43468209 GGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGA
1 GGTAAGAGATTGGCTGATGGTGATCTGCCCTAAGCTCGG
* *
43468248 GGTAAGAGATTGGCTGATGATGATTTGCCCTAAGCTCGG
1 GGTAAGAGATTGGCTGATGGTGATCTGCCCTAAGCTCGG
* * * *
43468287 GGTAAGAGATTGGATGGCT-ATAATCTGCCCTAAGCTCGG
1 GGTAAGAGATTGGCT-GATGGTGATCTGCCCTAAGCTCGG
*
43468326 GGTAAGAGATTGGCTGATGGTGATCTGCCCTAGGCTCGG
1 GGTAAGAGATTGGCTGATGGTGATCTGCCCTAAGCTCGG
* ** * *
43468365 GGTAAGAG-CT--CAAATGGCTGCAATCT-ACCTCAAGCTCAG
1 GGTAAGAGATTGGCTGATGG-TG--ATCTGCCCT-AAGCTCGG
* * * * *
43468404 GGTAAGAGATTGGATGATGATGATCTACCCCAGGCTCGG
1 GGTAAGAGATTGGCTGATGGTGATCTGCCCTAAGCTCGG
* ** * * * *
43468443 GGTAAGAGATCGAATGGCT-GTAATCTACCCTAGGCTCGG
1 GGTAAGAGATTGGCT-GATGGTGATCTGCCCTAAGCTCGG
* * * *
43468482 GATAAGAGATTGGCTAATGGTGATCT-ACCTCAGGCTCGG
1 GGTAAGAGATTGGCTGATGGTGATCTGCCCT-AAGCTCGG
* *
43468521 GGTAAGAGA-T--CAGATGGCTGTACTCTTTCCC-AAGCTCGG
1 GGTAAGAGATTGGCTGATGG-TG-A-TC-TGCCCTAAGCTCGG
* * *
43468560 GGTAAGAGATTGGCTGATGGTGATCTTCCCCAAGCTCGA
1 GGTAAGAGATTGGCTGATGGTGATCTGCCCTAAGCTCGG
* * *
43468599 GGTAAGAGATTGGCTGATGGTGATCTACTAC-AAGCTCAG
1 GGTAAGAGATTGGCTGATGGTGATCTGC-CCTAAGCTCGG
* * ** ** * *
43468638 GCTAAGAGATCGAATGACT-GCAATCTGCCCCAGGCTCGG
1 GGTAAGAGATTGGCTGA-TGGTGATCTGCCCTAAGCTCGG
* * * *
43468677 GGTAAGTGATTGGTTGATGGTGATCTGCCCTAGGCTCAG
1 GGTAAGAGATTGGCTGATGGTGATCTGCCCTAAGCTCGG
* * * * ** *
43468716 GGTAAGAGATCGGATGGTTGCAATCTGCCCTAGGCTCGG
1 GGTAAGAGATTGGCTGATGGTGATCTGCCCTAAGCTCGG
* * ** * * ** * *
43468755 GGTAAAAGATCGAATGGTTGCAATCTGCCCTAGGTTCGG
1 GGTAAGAGATTGGCTGATGGTGATCTGCCCTAAGCTCGG
* * *
43468794 GGTAAGAGATTGGCTGATGGTGATTTGCCCCAAGCTCGT
1 GGTAAGAGATTGGCTGATGGTGATCTGCCCTAAGCTCGG
* * *
43468833 GGTAAGACATTGGCTGATAGTGATCTGCCCCAAGCTCGG
1 GGTAAGAGATTGGCTGATGGTGATCTGCCCTAAGCTCGG
* * * *
43468872 GGTAAGAGATTAGATGGCT-GTAATCTGCCCTAAGCTCGG
1 GGTAAGAGATTGGCT-GATGGTGATCTGCCCTAAGCTCGG
* * *
43468911 GGTAAGAGATTGCCTGATGGTGATCTGCCTTAGGCTCGG
1 GGTAAGAGATTGGCTGATGGTGATCTGCCCTAAGCTCGG
* *
43468950 GGTAAGAGA-T--CAGATGGCTGCAATCTG-CCTCAAGCTTGG
1 GGTAAGAGATTGGCTGATGG-TG--ATCTGCCCT-AAGCTCGG
* * *
43468989 GGTAAGAGATTGGCTGATAGTGATCTACCCTAGGCTCGG
1 GGTAAGAGATTGGCTGATGGTGATCTGCCCTAAGCTCGG
* * *
43469028 GGTAAGAGA-T--CGGATGGCTGCAATCTACCCTAGGCTCGG
1 GGTAAGAGATTGGCTGATGG-TG--ATCTGCCCTAAGCTCGG
* * * *
43469067 GGTAAGAGAGTGGCTAATGGTGATCT-ACCTCAGGCTCGG
1 GGTAAGAGATTGGCTGATGGTGATCTGCCCT-AAGCTCGG
* * * * *
43469106 GGTAAGAGA-T--CGGATGGCTGCAATCTTCCCCAGGCTCGA
1 GGTAAGAGATTGGCTGATGG-TG--ATCTGCCCTAAGCTCGG
** * * *
43469145 GGTAAGAGATTGATTGATGGTGATCTACCCCAAGCTCGA
1 GGTAAGAGATTGGCTGATGGTGATCTGCCCTAAGCTCGG
* *
43469184 GGTAAGAGATTGGCTGATGGTGATCTACTCC-AAGCTCAG
1 GGTAAGAGATTGGCTGATGGTGATCTGC-CCTAAGCTCGG
* * ** ** * * *
43469223 GCTAAGAGATCGAATGACT-GCAATCTACCCCAGGCTCGG
1 GGTAAGAGATTGGCTGA-TGGTGATCTGCCCTAAGCTCGG
*
43469262 GGTAAGAGATTGGCTGATGGTGATCTGCCCTAGGCTCGG
1 GGTAAGAGATTGGCTGATGGTGATCTGCCCTAAGCTCGG
* * * * *
43469301 GGTAAGAGATCGGAT-A-GCTGCAATCTGCCCCAGGCTCGG
1 GGTAAGAGATTGGCTGATGGTG--ATCTGCCCTAAGCTCGG
* * * * **
43469340 GGTAAGAGATTGGCTAATGGTGATCTACCTTAGGCTCAA
1 GGTAAGAGATTGGCTGATGGTGATCTGCCCTAAGCTCGG
43469379 GGTAAGAGAT
1 GGTAAGAGAT
43469389 CGAATGGCTA
Statistics
Matches: 1005, Mismatches: 195, Indels: 116
0.76 0.15 0.09
Matches are distributed among these distances:
36 26 0.03
37 13 0.01
38 33 0.03
39 868 0.86
40 26 0.03
41 15 0.01
42 24 0.02
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (39 bp):
GGTAAGAGATTGGCTGATGGTGATCTGCCCTAAGCTCGG
Found at i:43468277 original size:117 final size:117
Alignment explanation
Indices: 43468055--43469349 Score: 1126
Period size: 117 Copynumber: 11.1 Consensus size: 117
43468045 TTTTTTCTTT
* * * *** * *
43468055 TAAGAGATTGGATGGTTGCAATCTGCCCTAGGCTTAAGGTAAGATATTAGCTGATGGTGATCTGC
1 TAAGAGATCGAATGGCTGCAATCTGCCCTAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGC
* * *
43468120 CCCAAGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCTAGGCTCGGGG
66 CCTAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCTAAGCTCGGGG
* * * *
43468172 TAAAAGATCGAATGGTTGCAATCTGCCCTAGGTTCAGGGTAAGAGATTGGCTGATGGTGATCTGC
1 TAAGAGATCGAATGGCTGCAATCTGCCCTAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGC
* * * * *
43468237 CCCAAGCTCGAGGTAAGAGATTGGCTGATGATGATTTGCCCTAAGCTCGGGG
66 CCTAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCTAAGCTCGGGG
* * ** *
43468289 TAAGAGATTGGATGGCTATAATCTGCCCTAAGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGC
1 TAAGAGATCGAATGGCTGCAATCTGCCCTAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGC
* ** * *
43468354 CCTAGGCTCGGGGTAAGAG-CT--CAAATGGCTGCAATCT-ACCTCAAGCTCAGGG
66 CCTAGGCTCGGGGTAAGAGATTGGCTGATGG-TG--ATCTGCCCT-AAGCTCGGGG
* * * * * * ** * *
43468406 TAAGAGATTGGAT-GATG-ATGATCTACCCCAGGCTCGGGGTAAGAGATCGAATGGCT-GTAATC
1 TAAGAGATCGAATGGCTGCA--ATCTGCCCTAGGCTCGGGGTAAGAGATTGGCT-GATGGTGATC
* * * * *
43468468 TACCCTAGGCTCGGGATAAGAGATTGGCTAATGGTGATCT-ACCTCAGGCTCGGGG
63 TGCCCTAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCT-AAGCTCGGGG
* * * *
43468523 TAAGAGATC-AGATGGCTGTACTCTTTCCC-AAGCTCGGGGTAAGAGATTGGCTGATGGTGATCT
1 TAAGAGATCGA-ATGGCTGCAATC-TGCCCTAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCT
* * * * * * * *
43468586 TCCCCAAGCTCGAGGTAAGAGATTGGCTGATGGTGATCTACTAC-AAGCTCAGGC
64 GCCCTAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGC-CCTAAGCTCGGGG
* * * *
43468640 TAAGAGATCGAATGACTGCAATCTGCCCCAGGCTCGGGGTAAGTGATTGGTTGATGGTGATCTGC
1 TAAGAGATCGAATGGCTGCAATCTGCCCTAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGC
* * * * * ** *
43468705 CCTAGGCTCAGGGTAAGAGATCGGATGGTTGCAATCTGCCCTAGGCTCGGGG
66 CCTAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCTAAGCTCGGGG
* * * *
43468757 TAAAAGATCGAATGGTTGCAATCTGCCCTAGGTTCGGGGTAAGAGATTGGCTGATGGTGATTTGC
1 TAAGAGATCGAATGGCTGCAATCTGCCCTAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGC
* * * * * *
43468822 CCCAAGCTCGTGGTAAGACATTGGCTGATAGTGATCTGCCCCAAGCTCGGGG
66 CCTAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCTAAGCTCGGGG
* * * *
43468874 TAAGAGAT-TAGATGGCTGTAATCTGCCCTAAGCTCGGGGTAAGAGATTGCCTGATGGTGATCTG
1 TAAGAGATCGA-ATGGCTGCAATCTGCCCTAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTG
* * *
43468938 CCTTAGGCTCGGGGTAAGAGA-T--CAGATGGCTGCAATCTG-CCTCAAGCTTGGGG
65 CCCTAGGCTCGGGGTAAGAGATTGGCTGATGG-TG--ATCTGCCCT-AAGCTCGGGG
* ** * ** * *
43468991 TAAGAGATTGGCT-GATAGTGATCTACCCTAGGCTCGGGGTAAGAGA-T--CGGATGGCTGCAAT
1 TAAGAGATCGAATGGCT-GCAATCTGCCCTAGGCTCGGGGTAAGAGATTGGCTGATGG-TG--AT
* * * * *
43469052 CTACCCTAGGCTCGGGGTAAGAGAGTGGCTAATGGTGATCT-ACCTCAGGCTCGGGG
62 CTGCCCTAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCT-AAGCTCGGGG
* * * * ** *
43469108 TAAGAGATCGGATGGCTGCAATCTTCCCCAGGCTCGAGGTAAGAGATTGATTGATGGTGATCTAC
1 TAAGAGATCGAATGGCTGCAATCTGCCCTAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGC
* * * * * *
43469173 CCCAAGCTCGAGGTAAGAGATTGGCTGATGGTGATCTACTCC-AAGCTCAGGC
66 CCTAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGC-CCTAAGCTCGGGG
* * *
43469225 TAAGAGATCGAATGACTGCAATCTACCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGC
1 TAAGAGATCGAATGGCTGCAATCTGCCCTAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGC
* * * * *
43469290 CCTAGGCTCGGGGTAAGAGATCGGAT-A-GCTGCAATCTGCCCCAGGCTCGGGG
66 CCTAGGCTCGGGGTAAGAGATTGGCTGATGGTG--ATCTGCCCTAAGCTCGGGG
43469342 TAAGAGAT
1 TAAGAGAT
43469350 TGGCTAATGG
Statistics
Matches: 955, Mismatches: 180, Indels: 86
0.78 0.15 0.07
Matches are distributed among these distances:
114 15 0.02
115 10 0.01
116 23 0.02
117 866 0.91
118 15 0.02
119 10 0.01
120 16 0.02
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (117 bp):
TAAGAGATCGAATGGCTGCAATCTGCCCTAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGC
CCTAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCTAAGCTCGGGG
Found at i:43469743 original size:50 final size:50
Alignment explanation
Indices: 43469689--43470227 Score: 425
Period size: 50 Copynumber: 10.9 Consensus size: 50
43469679 TCTTCTTGTT
*
43469689 TTCTAAGGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCATATC
1 TTCTAAGGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATC
* * ** * * *
43469739 TTCTAAGGTACCAGGTTTGTTGCTGCAGCCTCAACCTTTTCCTT-ACAATC
1 TTCTAAGGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCAC-ATC
* * * *
43469789 TTC-ATGGTACCGGGTTCGCCATTGCGACCTCAACCTTTCCCATCACAT-
1 TTCTAAGGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATC
* ** * * * *
43469837 TTC-ATGGTACCGAATTTGCCATTGCGGCCTCAATCTTTCCCATCACATC
1 TTCTAAGGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATC
* * * * * *
43469886 TTCTGAGGTACCGGGTTCACCAG-TACGACCTCAACCTTTCTCGTCACATC
1 TTCTAAGGTACCGGGTTCGCC-GTTGCGGCCTCAACCTTTCCCTTCACATC
* * * * *
43469936 TTTTAAGGTACCTGGTTCGCCATTGCAGCCAT-AACCTTTCCCTTCAAATC
1 TTCTAAGGTACCGGGTTCGCCGTTGCGGCC-TCAACCTTTCCCTTCACATC
* * * * * * *
43469986 TTC-ATGGTACTGGATTCGCCATTGCAGCCTCAACCTTTCCCATCAC-TT
1 TTCTAAGGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATC
* * * * * *
43470034 TTC-ATGGTACCGGATTCGTCGTTGCGACCTCAATCTTTCCCATCACATC
1 TTCTAAGGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATC
* * * * * * * *
43470083 TTCTGAGGTATCGGATTCACCGTCGCAGTCTCAATCC-TTCCCTTCAAATC
1 TTCTAAGGTACCGGGTTCGCCGTTGCGGCCTCAA-CCTTTCCCTTCACATC
* * * * *
43470133 TTC-ATGGTACCAGGTTCGCCGTTGCGACCTCAACCTTTCCCGTCACATT
1 TTCTAAGGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATC
* ** *
43470182 TTCTAAAGTACCAAGTTCGCCGTTGTGGCCTCAACCTTTCCCTTCA
1 TTCTAAGGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCA
43470228 AATTTTCATG
Statistics
Matches: 383, Mismatches: 93, Indels: 26
0.76 0.19 0.05
Matches are distributed among these distances:
48 87 0.23
49 107 0.28
50 187 0.49
51 2 0.01
ACGTcount: A:0.19, C:0.33, G:0.16, T:0.32
Consensus pattern (50 bp):
TTCTAAGGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATC
Found at i:43469992 original size:197 final size:197
Alignment explanation
Indices: 43469689--43470173 Score: 556
Period size: 197 Copynumber: 2.5 Consensus size: 197
43469679 TCTTCTTGTT
* * * * * *
43469689 TTCTAAGGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCATATCTTCTAAGGTACCAGG
1 TTCTGAGGTACCGGGTTCACCGTTACGACCTCAACCTTTCCCGTCACATCTTCTAAGGTACCAGG
* *** * *
43469754 TTTGTTGCTGCAGCCTCAACCTTTTCCTTACAATCTTCATGGTACCGGGTTCGCCATTGC-GACC
66 TTCGCCACTGCAGCCTCAACCTTTCCCTTACAATCTTCATGGTACCGGATTCGCCATTGCAG-CC
* *
43469818 TCAACCTTTCCCATCACATTTCATGGTACCGAATTTGCCATTGCGGCCTCAATCTTTCCCATCAC
130 TCAACCTTTCCCATCACATTTCATGGTACCGAATTCGCCATTGCGACCTCAATCTTTCCCATCAC
43469883 ATC
195 ATC
* * *
43469886 TTCTGAGGTACCGGGTTCACCAG-TACGACCTCAACCTTTCTCGTCACATCTTTTAAGGTACCTG
1 TTCTGAGGTACCGGGTTCACC-GTTACGACCTCAACCTTTCCCGTCACATCTTCTAAGGTACCAG
* *
43469950 GTTCGCCATTGCAGCCAT-AACCTTTCCCTT-CAAATCTTCATGGTACTGGATTCGCCATTGCAG
65 GTTCGCCACTGCAGCC-TCAACCTTTCCCTTAC-AATCTTCATGGTACCGGATTCGCCATTGCAG
* * * *
43470013 CCTCAACCTTTCCCATCACTTTTCATGGTACCGGATTCGTCGTTGCGACCTCAATCTTTCCCATC
128 CCTCAACCTTTCCCATCACATTTCATGGTACCGAATTCGCCATTGCGACCTCAATCTTTCCCATC
43470078 ACATC
193 ACATC
* * * * * *
43470083 TTCTGAGGTATCGGATTCACCG-T-CGCAGTCTCAATCC-TTCCCTTCAAATCTTC-ATGGTACC
1 TTCTGAGGTACCGGGTTCACCGTTACG-A-CCTCAA-CCTTTCCCGTCACATCTTCTAAGGTACC
**
43470144 AGGTTCGCCGTTGC-GACCTCAACCTTTCCC
63 AGGTTCGCCACTGCAG-CCTCAACCTTTCCC
43470174 GTCACATTTT
Statistics
Matches: 246, Mismatches: 33, Indels: 19
0.83 0.11 0.06
Matches are distributed among these distances:
195 4 0.02
196 35 0.14
197 202 0.82
198 5 0.02
ACGTcount: A:0.19, C:0.33, G:0.16, T:0.32
Consensus pattern (197 bp):
TTCTGAGGTACCGGGTTCACCGTTACGACCTCAACCTTTCCCGTCACATCTTCTAAGGTACCAGG
TTCGCCACTGCAGCCTCAACCTTTCCCTTACAATCTTCATGGTACCGGATTCGCCATTGCAGCCT
CAACCTTTCCCATCACATTTCATGGTACCGAATTCGCCATTGCGACCTCAATCTTTCCCATCACA
TC
Found at i:43470165 original size:99 final size:97
Alignment explanation
Indices: 43469816--43470237 Score: 322
Period size: 99 Copynumber: 4.3 Consensus size: 97
43469806 GCCATTGCGA
* * * * * *
43469816 CCTCAACCTTTCCCATCACAT-TTCATGGTACCGAATTTGCCATTGCGGCCTCAATCTTTCCCAT
1 CCTCAACCTTTCCCATCAAATCTTCATGGTACCG-GTTCGCCGTTGCGACCTCAACCTTTCCCAT
*
43469880 CACATCTTCTGAGGTACCGGGTTCACCAGTACG-A-
65 CACATCTTCTGAGGTA-CGGATTCACC-GT-CGCAG
* * * * * *
43469914 CCTCAACCTTTCTCGTCACATCTTTTAAGGTACCTGGTTCGCCATTGC-AGCCAT-AACCTTTCC
1 CCTCAACCTTTCCCATCAAATC-TTCATGGTACC-GGTTCGCCGTTGCGA-CC-TCAACCTTTCC
* * * * *
43469977 CTTCAAATCTTC--ATGGTACTGGATTCGCCATTGCAG
62 CATCACATCTTCTGA-GGTAC-GGATTCACCGTCGCAG
* * * *
43470013 CCTCAACCTTTCCCATC-ACTTTTCATGGTACCGGATTCGTCGTTGCGACCTCAATCTTTCCCAT
1 CCTCAACCTTTCCCATCAAATCTTCATGGTACCGG-TTCGCCGTTGCGACCTCAACCTTTCCCAT
43470077 CACATCTTCTGAGGTATCGGATTCACCGTCGCAG
65 CACATCTTCTGAGGTA-CGGATTCACCGTCGCAG
* * *
43470111 TCTCAATCC-TTCCCTTCAAATCTTCATGGTACCAGGTTCGCCGTTGCGACCTCAACCTTTCCCG
1 CCTCAA-CCTTTCCCATCAAATCTTCATGGTACC-GGTTCGCCGTTGCGACCTCAACCTTTCCCA
* * * ** * * **
43470175 TCACATTTTCTAAAGTACCAAGTTCGCCGTTGTGG
64 TCACATCTTCTGAGGTACGGA-TTCACCGTCGCAG
* *
43470210 CCTCAACCTTTCCCTTCAAATTTTCATG
1 CCTCAACCTTTCCCATCAAATCTTCATG
43470238 TTTTACTCAG
Statistics
Matches: 257, Mismatches: 47, Indels: 39
0.75 0.14 0.11
Matches are distributed among these distances:
96 3 0.01
97 39 0.15
98 58 0.23
99 114 0.44
100 41 0.16
101 2 0.01
ACGTcount: A:0.20, C:0.33, G:0.15, T:0.32
Consensus pattern (97 bp):
CCTCAACCTTTCCCATCAAATCTTCATGGTACCGGTTCGCCGTTGCGACCTCAACCTTTCCCATC
ACATCTTCTGAGGTACGGATTCACCGTCGCAG
Found at i:43470215 original size:197 final size:196
Alignment explanation
Indices: 43469802--43470237 Score: 488
Period size: 197 Copynumber: 2.2 Consensus size: 196
43469792 ATGGTACCGG
* * * *
43469802 GTTCGCCATTGCGACCTCAACCTTTCCCATCACATTTCATGGTACCGAATTTGCCATTGCGGCCT
1 GTTCGCCATTGCGGCCTCAACCTTTCCCATCACTTTTCATGGTACCGAATTCGCCATTGCGACCT
* *
43469867 CAATCTTTCCCATCACATCTTCTGAGGTACCGGGTTCACCAGTACGACCTCAACCTTTCTCGTCA
66 CAATCTTTCCCATCACATCTTCTGAGGTACCGGATTCACCAGTACGACCTCAACCTTTCCCGTCA
* * * * ** *
43469932 CATCTTTTAAGGTACCTGGTTCGCCATTGCAGCCATAACCTTTCCCTTCAAATCTTCATGGTACT
131 AATCTTTCAAGGTACCAGGTTCGCCATTGCAGCCATAACCTTTCCCGTCAAATCTTCAAAGTACA
*
43469997 G
196 A
* * * *
43469998 GATTCGCCATTGCAGCCTCAACCTTTCCCATCACTTTTCATGGTACCGGATTCGTCGTTGCGACC
1 G-TTCGCCATTGCGGCCTCAACCTTTCCCATCACTTTTCATGGTACCGAATTCGCCATTGCGACC
* *
43470063 TCAATCTTTCCCATCACATCTTCTGAGGTATCGGATTCACC-GT-CGCAGTCTCAATCC-TTCCC
65 TCAATCTTTCCCATCACATCTTCTGAGGTACCGGATTCACCAGTACG-A-CCTCAA-CCTTTCCC
* * * * *
43470125 TTCAAATC-TTCATGGTACCAGGTTCGCCGTTGC-GACC-TCAACCTTTCCCGTCACATTTTCTA
127 GTCAAATCTTTCAAGGTACCAGGTTCGCCATTGCAG-CCAT-AACCTTTCCCGTCAAATCTTC-A
43470187 AAGTACCAA
189 AAGTA-CAA
* * * *
43470196 GTTCGCCGTTGTGGCCTCAACCTTTCCCTTCAAATTTTCATG
1 GTTCGCCATTGCGGCCTCAACCTTTCCCATC-ACTTTTCATG
43470238 TTTTACTCAG
Statistics
Matches: 201, Mismatches: 30, Indels: 16
0.81 0.12 0.06
Matches are distributed among these distances:
195 4 0.02
196 45 0.22
197 139 0.69
198 13 0.06
ACGTcount: A:0.20, C:0.33, G:0.15, T:0.32
Consensus pattern (196 bp):
GTTCGCCATTGCGGCCTCAACCTTTCCCATCACTTTTCATGGTACCGAATTCGCCATTGCGACCT
CAATCTTTCCCATCACATCTTCTGAGGTACCGGATTCACCAGTACGACCTCAACCTTTCCCGTCA
AATCTTTCAAGGTACCAGGTTCGCCATTGCAGCCATAACCTTTCCCGTCAAATCTTCAAAGTACA
A
Found at i:43471221 original size:24 final size:22
Alignment explanation
Indices: 43471198--43471261 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 22
43471188 CCCATTTTTC
43471198 CTTTTTTCTTTTTTCTTTTCTTT
1 CTTTTTT-TTTTTTCTTTTCTTT
*
43471221 CTTTCCTTTTTCTTTCTTTTCTTT
1 CTTT--TTTTTTTTTCTTTTCTTT
*
43471245 CTTTTTTATTTATTCTT
1 CTTTTTT-TTTTTTCTT
43471262 CATTGGATCA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
22 3 0.09
23 11 0.31
24 18 0.51
25 3 0.09
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.78
Consensus pattern (22 bp):
CTTTTTTTTTTTTCTTTTCTTT
Found at i:43471223 original size:4 final size:4
Alignment explanation
Indices: 43471198--43471248 Score: 54
Period size: 4 Copynumber: 13.0 Consensus size: 4
43471188 CCCATTTTTC
*
43471198 CTTT -TTT CTTT -TTT CTTTT CTTT CTTT CCTT -TTT CTTT CTTTT CTTT
1 CTTT CTTT CTTT CTTT C-TTT CTTT CTTT CTTT CTTT CTTT C-TTT CTTT
43471245 CTTT
1 CTTT
43471249 TTTATTTATT
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
3 8 0.20
4 24 0.60
5 8 0.20
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (4 bp):
CTTT
Found at i:43471225 original size:20 final size:20
Alignment explanation
Indices: 43471193--43471251 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
43471183 TTTTTCCCAT
43471193 TTTTCCTTT-TTTCTTTTTTC
1 TTTT-CTTTCTTTCTTTTTTC
*
43471213 TTTTCTTTCTTTCCTTTTTC
1 TTTTCTTTCTTTCTTTTTTC
43471233 -TTTCTTTTCTTTCTTTTTT
1 TTTTC-TTTCTTTCTTTTTT
43471252 ATTTATTCTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.23
20 27 0.77
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (20 bp):
TTTTCTTTCTTTCTTTTTTC
Found at i:43471236 original size:15 final size:15
Alignment explanation
Indices: 43471194--43471244 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 15
43471184 TTTTCCCATT
43471194 TTTCCTTTTTTCTTT-
1 TTTCC-TTTTTCTTTC
43471209 TTT-C-TTTTCTTTC
1 TTTCCTTTTTCTTTC
43471222 TTTCCTTTTTCTTTC
1 TTTCCTTTTTCTTTC
*
43471237 TTTTCTTT
1 TTTCCTTT
43471245 CTTTTTTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
12 8 0.25
13 3 0.09
14 2 0.06
15 19 0.59
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTCCTTTTTCTTTC
Found at i:43477079 original size:29 final size:28
Alignment explanation
Indices: 43477046--43477102 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
43477036 GATGAATTTG
*
43477046 GGGATCAAAATCAAATTTTTTGGAAAATT
1 GGGATCAAAATCAAA-CTTTTGGAAAATT
**
43477075 GGGATTTAAATCAAACTTTTGGAAAATT
1 GGGATCAAAATCAAACTTTTGGAAAATT
43477103 TGAGGGTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 12 0.48
29 13 0.52
ACGTcount: A:0.40, C:0.07, G:0.18, T:0.35
Consensus pattern (28 bp):
GGGATCAAAATCAAACTTTTGGAAAATT
Found at i:43477151 original size:29 final size:29
Alignment explanation
Indices: 43477110--43477171 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
43477100 ATTTGAGGGT
**
43477110 AAAATGGTGATTTTTAAATGCTCGGGGGC
1 AAAATGGAAATTTTTAAATGCTCGGGGGC
** * *
43477139 AAAATGGAAATTTTTGGATGTTTGGGGGC
1 AAAATGGAAATTTTTAAATGCTCGGGGGC
43477168 AAAA
1 AAAA
43477172 ATGTAATTTT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.32, C:0.06, G:0.31, T:0.31
Consensus pattern (29 bp):
AAAATGGAAATTTTTAAATGCTCGGGGGC
Found at i:43480663 original size:27 final size:28
Alignment explanation
Indices: 43480623--43480681 Score: 77
Period size: 27 Copynumber: 2.1 Consensus size: 28
43480613 AAAATACATG
* *
43480623 AAAAATAAAAAAATTAG-GG-CTAATTT
1 AAAAATAAAAAAATGAGAGGACTAAATT
43480649 AAAAGATAAAAAAATGAGAGGACTAAATT
1 AAAA-ATAAAAAAATGAGAGGACTAAATT
43480678 AAAA
1 AAAA
43480682 CCAAAACAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 4 0.14
27 12 0.43
28 2 0.07
29 10 0.36
ACGTcount: A:0.63, C:0.03, G:0.14, T:0.20
Consensus pattern (28 bp):
AAAAATAAAAAAATGAGAGGACTAAATT
Found at i:43482973 original size:49 final size:49
Alignment explanation
Indices: 43482920--43483270 Score: 256
Period size: 49 Copynumber: 7.2 Consensus size: 49
43482910 TTGCGGCCTC
43482920 AACCTTTCCCTTCATGTTTCTGAGGTACAAGGTTCGCCGTTGCGACTTA
1 AACCTTTCCCTTCATGTTTCTGAGGTACAAGGTTCGCCGTTGCGACTTA
* * * * * *
43482969 AACCTTTCCCTTCA--TATCTGCATGGTACTAGATTCGTCGTTGTGGCTTA
1 AACCTTTCCCTTCATGTTTCTG-A-GGTACAAGGTTCGCCGTTGCGACTTA
* * *
43483018 AATCTTTCCCTTCATGTTTCTGAGGTACAAGGTTCACGGTTGCGACTTA
1 AACCTTTCCCTTCATGTTTCTGAGGTACAAGGTTCGCCGTTGCGACTTA
* * * * * * ** *
43483067 AACCTTTCCC-TCATATCTTC-GTGGTACTAGATTTGCCATTAAGGCTTA
1 AACCTTTCCCTTCATGT-TTCTGAGGTACAAGGTTCGCCGTTGCGACTTA
* * * * * *
43483115 AATCC-TTCACTTCATTTTTTTGAGGTATAAGGTTTGCCGTTGTGACTTA
1 AA-CCTTTCCCTTCATGTTTCTGAGGTACAAGGTTCGCCGTTGCGACTTA
* * * **
43483164 AACCTTTCCC-TCATATCTTC-GTGGTACTGAA--TTCGTCGTTGTAACTTA
1 AACCTTTCCCTTCATGT-TTCTGAGGTAC--AAGGTTCGCCGTTGCGACTTA
** * *
43483212 AATCC-TTCCCTTCATGTTTCTGAGGTGTAAGGTTCGTCGTTACGACTTA
1 AA-CCTTTCCCTTCATGTTTCTGAGGTACAAGGTTCGCCGTTGCGACTTA
43483261 AA-CTTTCCCT
1 AACCTTTCCCT
43483271 CCATATCTTC
Statistics
Matches: 231, Mismatches: 53, Indels: 37
0.72 0.17 0.12
Matches are distributed among these distances:
47 8 0.03
48 74 0.32
49 141 0.61
50 3 0.01
51 5 0.02
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.39
Consensus pattern (49 bp):
AACCTTTCCCTTCATGTTTCTGAGGTACAAGGTTCGCCGTTGCGACTTA
Found at i:43483147 original size:97 final size:97
Alignment explanation
Indices: 43482925--43483289 Score: 459
Period size: 97 Copynumber: 3.8 Consensus size: 97
43482915 GCCTCAACCT
*
43482925 TTCCCTTCATGTTTCTGAGGTACAAGGTTCGCCGTTGCGACTTAAACCTTTCCCTTCATATCTGC
1 TTCCCTTCATGTTTCTGAGGTACAAGGTTCGCCGTTGCGACTTAAACCTTTCCC-TCATATCTTC
* * * ** *
43482990 ATGGTACTAGATTCGTCGTTGTGGCTTAAATCT
65 GTGGTACTAGATTCGCCATTAAGGCTTAAATCC
* *
43483023 TTCCCTTCATGTTTCTGAGGTACAAGGTTCACGGTTGCGACTTAAACCTTTCCCTCATATCTTCG
1 TTCCCTTCATGTTTCTGAGGTACAAGGTTCGCCGTTGCGACTTAAACCTTTCCCTCATATCTTCG
*
43483088 TGGTACTAGATTTGCCATTAAGGCTTAAATCC
66 TGGTACTAGATTCGCCATTAAGGCTTAAATCC
* * * * * *
43483120 TTCACTTCATTTTTTTGAGGTATAAGGTTTGCCGTTGTGACTTAAACCTTTCCCTCATATCTTCG
1 TTCCCTTCATGTTTCTGAGGTACAAGGTTCGCCGTTGCGACTTAAACCTTTCCCTCATATCTTCG
**
43483185 TGGTACT-GAATTCGTCGTTGTAA--CTTAAATCC
66 TGGTACTAG-ATTCG-CCAT-TAAGGCTTAAATCC
** * *
43483217 TTCCCTTCATGTTTCTGAGGTGTAAGGTTCGTCGTTACGACTTAAA-CTTTCCCTCCATATCTTC
1 TTCCCTTCATGTTTCTGAGGTACAAGGTTCGCCGTTGCGACTTAAACCTTTCCCT-CATATCTTC
43483281 GTGGTACTA
65 GTGGTACTA
43483290 AAACCTATAG
Statistics
Matches: 233, Mismatches: 29, Indels: 10
0.86 0.11 0.04
Matches are distributed among these distances:
96 9 0.04
97 167 0.72
98 54 0.23
99 3 0.01
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.39
Consensus pattern (97 bp):
TTCCCTTCATGTTTCTGAGGTACAAGGTTCGCCGTTGCGACTTAAACCTTTCCCTCATATCTTCG
TGGTACTAGATTCGCCATTAAGGCTTAAATCC
Found at i:43483278 original size:194 final size:195
Alignment explanation
Indices: 43482929--43483289 Score: 541
Period size: 194 Copynumber: 1.9 Consensus size: 195
43482919 CAACCTTTCC
43482929 CTTCATGTTTCTGAGGTACAAGGTTCGCCGTTGCGACTTAAACCTTTCCCTTCATATCTGCATGG
1 CTTCATGTTTCTGAGGTACAAGGTTCGCCGTTGCGACTTAAACCTTTCCCTTCATATCTGCATGG
** *
43482994 TACTAGATTCGTCGTTGTGGCTTAAATCTTTCCCTTCATGTTTCTGAGGTACAAGGTTCACGGTT
66 TACTAGATTCGTCGTTGTAACTTAAATCCTTCCCTTCATGTTTCTGAGGTACAAGGTTCACGGTT
*
43483059 GCGACTTAAACCTTTCCCTCATATCTTCGTGGTACTAGATTTGCCATTAAGGCTTAAATCCTTCA
131 ACGACTTAAACCTTTCCCTCATATCTTCGTGGTACTAGATTTGCCATTAAGGCTTAAATCCTTCA
* * * * * * *
43483124 CTTCATTTTTTTGAGGTATAAGGTTTGCCGTTGTGACTTAAACCTTTCCC-TCATATCTTCGTGG
1 CTTCATGTTTCTGAGGTACAAGGTTCGCCGTTGCGACTTAAACCTTTCCCTTCATATCTGCATGG
** *
43483188 TACT-GAATTCGTCGTTGTAACTTAAATCCTTCCCTTCATGTTTCTGAGGTGTAAGGTTCGTC-G
66 TACTAG-ATTCGTCGTTGTAACTTAAATCCTTCCCTTCATGTTTCTGAGGTACAAGGTTC-ACGG
43483251 TTACGACTTAAA-CTTTCCCTCCATATCTTCGTGGTACTA
129 TTACGACTTAAACCTTTCCCT-CATATCTTCGTGGTACTA
43483290 AAACCTATAG
Statistics
Matches: 149, Mismatches: 14, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
193 9 0.06
194 94 0.63
195 46 0.31
ACGTcount: A:0.20, C:0.23, G:0.18, T:0.39
Consensus pattern (195 bp):
CTTCATGTTTCTGAGGTACAAGGTTCGCCGTTGCGACTTAAACCTTTCCCTTCATATCTGCATGG
TACTAGATTCGTCGTTGTAACTTAAATCCTTCCCTTCATGTTTCTGAGGTACAAGGTTCACGGTT
ACGACTTAAACCTTTCCCTCATATCTTCGTGGTACTAGATTTGCCATTAAGGCTTAAATCCTTCA
Found at i:43495834 original size:26 final size:27
Alignment explanation
Indices: 43495795--43495853 Score: 77
Period size: 26 Copynumber: 2.2 Consensus size: 27
43495785 TAAAAGCAAG
43495795 TTTTTAAACCAAAAAAA-TCATTTCTTC
1 TTTTTAAACCAAAAAAACTCATTTC-TC
* *
43495822 TTTTTAAA-TAAAAAAACTCCTTTCTC
1 TTTTTAAACCAAAAAAACTCATTTCTC
43495848 TTTTTA
1 TTTTTA
43495854 TTTTTCTCTC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 15 0.52
27 14 0.48
ACGTcount: A:0.37, C:0.17, G:0.00, T:0.46
Consensus pattern (27 bp):
TTTTTAAACCAAAAAAACTCATTTCTC
Found at i:43495835 original size:27 final size:26
Alignment explanation
Indices: 43495795--43495853 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
43495785 TAAAAGCAAG
*
43495795 TTTTTAAACCAAAAAAATCATTTCTTC
1 TTTTTAAACAAAAAAAATCATTTC-TC
* * *
43495822 TTTTTAAATAAAAAAACTCCTTTCTC
1 TTTTTAAACAAAAAAAATCATTTCTC
43495848 TTTTTA
1 TTTTTA
43495854 TTTTTCTCTC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.37, C:0.17, G:0.00, T:0.46
Consensus pattern (26 bp):
TTTTTAAACAAAAAAAATCATTTCTC
Found at i:43498980 original size:29 final size:29
Alignment explanation
Indices: 43498888--43499156 Score: 130
Period size: 29 Copynumber: 9.2 Consensus size: 29
43498878 TAAAAATTAA
*
43498888 AATTTTTGGAAAATTT-AGGATTAAAATCG-
1 AATTTTTGG-AAATTTGAGGGTTAAAAT-GT
** * *
43498917 AACCTTTGGAAAATTTTA-GGTCGAAAATGT
1 AATTTTTGG-AAATTTGAGGGT-TAAAATGT
*
43498947 GATTTTTGGAAATTTGAGGG-TAAAATGAT
1 AATTTTTGGAAATTTGAGGGTTAAAATG-T
*
43498976 AATTTTTGG--ATGTTCAGGGTTAAAATGGT
1 AATTTTTGGAAAT-TTGAGGGTTAAAAT-GT
* ** **
43499005 AATTTTTAGATGTTTGAGGGCAAAAATGT
1 AATTTTTGGAAATTTGAGGGTTAAAATGT
*
43499034 -ATTTTTGGAAAAGTTT-AGGGTTAAAATGC
1 AATTTTTGG-AAA-TTTGAGGGTTAAAATGT
* *
43499063 AA-TTTTGGAAAAGGTT-AGGGTTAAAAAGGT
1 AATTTTTGG-AAA-TTTGAGGGTT-AAAATGT
* * * *
43499093 AATTTTT--AGATGTTCAAGGTCAAAATGGT
1 AATTTTTGGAAAT-TTGAGGGTTAAAAT-GT
* * *
43499122 AATTTTTGGATATTCGAGGGTAAAAATGT
1 AATTTTTGGAAATTTGAGGGTTAAAATGT
43499151 AATTTT
1 AATTTT
43499157 AGAAAAGTTC
Statistics
Matches: 185, Mismatches: 35, Indels: 40
0.71 0.13 0.15
Matches are distributed among these distances:
27 2 0.01
28 27 0.15
29 101 0.55
30 47 0.25
31 8 0.04
ACGTcount: A:0.35, C:0.04, G:0.23, T:0.38
Consensus pattern (29 bp):
AATTTTTGGAAATTTGAGGGTTAAAATGT
Found at i:43499031 original size:117 final size:117
Alignment explanation
Indices: 43498910--43499149 Score: 263
Period size: 117 Copynumber: 2.1 Consensus size: 117
43498900 ATTTAGGATT
* * * *
43498910 AAAATCGAACCTTTGGAAAATTTTA-GGTCGAAAATGTGATTTTTGG-AAA-TTTGAGGG-TAAA
1 AAAAT-GAACCTTTGGAAAAGTTTAGGGT-GAAAATG-CAATTTTGGAAAAGGTT-AGGGTTAAA
* * * * * *
43498971 ATGATAATTTTTGGATGTTCAGGGTTAAAATGGTAATTTTTAGATGTTTGAGGGCA
62 AAGATAATTTTTAGATGTTCAAGGTCAAAATGGTAATTTTTAGATATTCGAGGGCA
* ** * *
43499027 AAAATGTATTTTTGGAAAAGTTTAGGGTTAAAATGCAATTTTGGAAAAGGTTAGGGTTAAAAAGG
1 AAAATGAACCTTTGGAAAAGTTTAGGGTGAAAATGCAATTTTGGAAAAGGTTAGGGTTAAAAAGA
* *
43499092 TAATTTTTAGATGTTCAAGGTCAAAATGGTAATTTTTGGATATTCGAGGGTA
66 TAATTTTTAGATGTTCAAGGTCAAAATGGTAATTTTTAGATATTCGAGGGCA
43499144 AAAATG
1 AAAATG
43499150 TAATTTTAGA
Statistics
Matches: 102, Mismatches: 17, Indels: 8
0.80 0.13 0.06
Matches are distributed among these distances:
115 7 0.07
116 28 0.27
117 67 0.66
ACGTcount: A:0.35, C:0.04, G:0.25, T:0.36
Consensus pattern (117 bp):
AAAATGAACCTTTGGAAAAGTTTAGGGTGAAAATGCAATTTTGGAAAAGGTTAGGGTTAAAAAGA
TAATTTTTAGATGTTCAAGGTCAAAATGGTAATTTTTAGATATTCGAGGGCA
Found at i:43499058 original size:59 final size:59
Alignment explanation
Indices: 43498921--43499235 Score: 211
Period size: 58 Copynumber: 5.4 Consensus size: 59
43498911 AAATCGAACC
* * * ** *
43498921 TTTGGAAAATTTTA-GGTCGAAAAT-GTGATTTTTGGAAATTTGAGGGT-AAAATGATAATT
1 TTTGGAAAAGTTTAGGGTC-AAAATGGTAATTTTTAGATGTTCGAGGGTAAAAATG-TAA-T
* * * * * *
43498980 TTTGG--ATGTTCAGGGTTAAAATGGTAATTTTTAGATGTTTGAGGGCAAAAATGTATT
1 TTTGGAAAAGTTTAGGGTCAAAATGGTAATTTTTAGATGTTCGAGGGTAAAAATGTAAT
* * * * * *
43499037 TTTGGAAAAGTTTAGGGTTAAAAT-GCAATTTTGGAAAAGGTT--AGGGTTAAAAAGGTAAT
1 TTTGGAAAAGTTTAGGGTCAAAATGGTAATTTT--TAGATGTTCGAGGG-TAAAAATGTAAT
* * * * * * *
43499096 TTT-TAGATGTTCAAGGTCAAAATGGTAATTTTTGGATATTCGAGGGTAAAAATGTAAT
1 TTTGGAAAAGTTTAGGGTCAAAATGGTAATTTTTAGATGTTCGAGGGTAAAAATGTAAT
* * * *
43499154 TTTAGAAAAG-TTCGTGGTCAAAATGGTAATTTTTGGATGTTCGAGAG-AAAAATGTAAT
1 TTTGGAAAAGTTTAG-GGTCAAAATGGTAATTTTTAGATGTTCGAGGGTAAAAATGTAAT
* *
43499212 TTTGGAAAAGTTTAAGGTGAAAAT
1 TTTGGAAAAGTTTAGGGTCAAAAT
43499236 ATGATTTTGG
Statistics
Matches: 198, Mismatches: 44, Indels: 29
0.73 0.16 0.11
Matches are distributed among these distances:
57 18 0.09
58 91 0.46
59 84 0.42
60 5 0.03
ACGTcount: A:0.36, C:0.03, G:0.25, T:0.37
Consensus pattern (59 bp):
TTTGGAAAAGTTTAGGGTCAAAATGGTAATTTTTAGATGTTCGAGGGTAAAAATGTAAT
Found at i:43499059 original size:88 final size:86
Alignment explanation
Indices: 43498940--43499333 Score: 288
Period size: 88 Copynumber: 4.5 Consensus size: 86
43498930 TTTTAGGTCG
* *
43498940 AAAATGTGATTTTTGGAAATTTGAGGG-TAAAATGATAATTTTTGGATGTTCAGGGTTAAAATGG
1 AAAATGTAATTTTTGGAAATTT-AGGGTTAAAATG-TAATTTTTGGAAGTTCAGGGTTAAAATGG
*
43499004 TAATTTTTAGATGTTTGAGGGCA
64 TAATTTTTAGATGTTCGAGGGCA
*
43499027 AAAATGT-ATTTTTGGAAAAGTTTAGGGTTAAAATGCAA-TTTTGGAAAAGGTT-AGGGTTAAAA
1 AAAATGTAATTTTTGG-AAA-TTTAGGGTTAAAATGTAATTTTTGG--AA-GTTCAGGGTTAAAA
* * *
43499089 AGGTAATTTTTAGATGTTCAAGGTC-
61 TGGTAATTTTTAGATGTTCGAGGGCA
* * * * * *
43499114 AAAATGGTAATTTTTGGATATTCGAGGGTAAAAATGTAATTTTAGAAAAGTTC-GTGGTCAAAAT
1 AAAAT-GTAATTTTTGGAAATT-TAGGGTTAAAATGTAATTTTTG-GAAGTTCAG-GGTTAAAAT
* *
43499178 GGTAATTTTTGGATGTTCGAGAG-A
62 GGTAATTTTTAGATGTTCGAGGGCA
* * * * * *
43499202 AAAATGTAA-TTTTGGAAAAGTTTAAGGTGAAAATATGA-TTTTGGAAAAGTTCAAGAGTCAAAA
1 AAAATGTAATTTTTGG-AAA-TTTAGGGTTAAAATGTAATTTTTGG--AAGTTC-AGGGTTAAAA
* * * *
43499265 T-CTAATTTTGGAGAAGTTCGAGGTC-
61 TGGTAATTTT-TAGATGTTCGAGGGCA
** *
43499290 AAAATGTAATTTTTGGAAAGTTCTAGGGTCCAAATGTGATTTTT
1 AAAATGTAATTTTTGGAAA-TT-TAGGGTTAAAATGTAATTTTT
43499334 AAGAAGTTTA
Statistics
Matches: 245, Mismatches: 37, Indels: 47
0.74 0.11 0.14
Matches are distributed among these distances:
86 24 0.10
87 57 0.23
88 126 0.51
89 34 0.14
90 4 0.02
ACGTcount: A:0.36, C:0.04, G:0.24, T:0.36
Consensus pattern (86 bp):
AAAATGTAATTTTTGGAAATTTAGGGTTAAAATGTAATTTTTGGAAGTTCAGGGTTAAAATGGTA
ATTTTTAGATGTTCGAGGGCA
Found at i:43499176 original size:29 final size:29
Alignment explanation
Indices: 43499027--43499332 Score: 189
Period size: 29 Copynumber: 10.4 Consensus size: 29
43499017 TTTGAGGGCA
* * *
43499027 AAAATGTATTTTTGGAAAAGTT-TAGGGTT
1 AAAATGTAATTTTGGAAAAGTTCGA-GGTC
* * *
43499056 AAAATGCAATTTTGGAAAAGGTTAG-GGTTA
1 AAAATGTAATTTTGGAAAA-GTTCGAGG-TC
* * * * *
43499086 AAAAGGTAATTTT-TAGATGTTCAAGGTC
1 AAAATGTAATTTTGGAAAAGTTCGAGGTC
* *
43499114 AAAATGGTAATTTTTGG-ATA-TTCGAGGGTA
1 AAAAT-GTAA-TTTTGGAAAAGTTCGA-GGTC
* *
43499144 AAAATGTAATTTTAGAAAAGTTCGTGGTC
1 AAAATGTAATTTTGGAAAAGTTCGAGGTC
* *
43499173 AAAATGGTAATTTTTGG--ATGTTCGAGAG-A
1 AAAAT-GTAA-TTTTGGAAAAGTTCGAG-GTC
** *
43499202 AAAATGTAATTTTGGAAAAGTTTAAGGTG
1 AAAATGTAATTTTGGAAAAGTTCGAGGTC
* * *
43499231 AAAATATGATTTTGGAAAAGTTCAAGAGTC
1 AAAATGTAATTTTGGAAAAGTTCGAG-GTC
* *
43499261 AAAATCTAATTTTGGAGAAGTTCGAGGTC
1 AAAATGTAATTTTGGAAAAGTTCGAGGTC
*
43499290 AAAATGTAATTTTTGG-AAAGTTCTAGGGTC
1 AAAATGTAA-TTTTGGAAAAGTTCGA-GGTC
* *
43499320 CAAATGTGATTTT
1 AAAATGTAATTTT
43499333 TAAGAAGTTT
Statistics
Matches: 214, Mismatches: 44, Indels: 38
0.72 0.15 0.13
Matches are distributed among these distances:
27 6 0.03
28 18 0.08
29 108 0.50
30 77 0.36
31 5 0.02
ACGTcount: A:0.37, C:0.05, G:0.24, T:0.35
Consensus pattern (29 bp):
AAAATGTAATTTTGGAAAAGTTCGAGGTC
Found at i:43499332 original size:59 final size:60
Alignment explanation
Indices: 43498921--43499312 Score: 253
Period size: 59 Copynumber: 6.7 Consensus size: 60
43498911 AAATCGAACC
** * * *
43498921 TTTGGAAAA-TTTTAGGTCGAAAAT-GTGATTTTTGGAAA-TTTGAGGGT-AAAATGATAATT
1 TTTGGAAAAGTTCAAGGTC-AAAATGGTAATTTTTGGAAAGTTCGAGAGTAAAAATG-TAA-T
* * * * * * * * *
43498980 TTTGG--ATGTTCAGGGTTAAAATGGTAATTTTTAG-ATGTTTGAGGGCAAAAATGTATT
1 TTTGGAAAAGTTCAAGGTCAAAATGGTAATTTTTGGAAAGTTCGAGAGTAAAAATGTAAT
* * * * * *
43499037 TTTGGAAAAGTTTAGGGTTAAAAT-GCAA-TTTTGGAAAAGGTT--AGGGTTAAAAAGGTAAT
1 TTTGGAAAAGTTCAAGGTCAAAATGGTAATTTTTGG-AAA-GTTCGAGAG-TAAAAATGTAAT
* * * * *
43499096 TTT-TAGATGTTCAAGGTCAAAATGGTAATTTTTGGATA-TTCGAGGGTAAAAATGTAAT
1 TTTGGAAAAGTTCAAGGTCAAAATGGTAATTTTTGGAAAGTTCGAGAGTAAAAATGTAAT
* ** *
43499154 TTTAGAAAAGTTCGTGGTCAAAATGGTAATTTTTGG-ATGTTCGAGAG-AAAAATGTAAT
1 TTTGGAAAAGTTCAAGGTCAAAATGGTAATTTTTGGAAAGTTCGAGAGTAAAAATGTAAT
* * * * * * *
43499212 TTTGGAAAAGTTTAAGGTGAAAAT-ATGA-TTTTGGAAAAGTTCAAGAGTCAAAATCTAAT
1 TTTGGAAAAGTTCAAGGTCAAAATGGTAATTTTTGG-AAAGTTCGAGAGTAAAAATGTAAT
* *
43499271 TTTGGAGAAGTTCGAGGTCAAAAT-GTAATTTTTGGAAAGTTC
1 TTTGGAAAAGTTCAAGGTCAAAATGGTAATTTTTGGAAAGTTC
43499313 TAGGGTCCAA
Statistics
Matches: 261, Mismatches: 52, Indels: 40
0.74 0.15 0.11
Matches are distributed among these distances:
56 6 0.02
57 22 0.08
58 98 0.38
59 120 0.46
60 15 0.06
ACGTcount: A:0.36, C:0.04, G:0.24, T:0.36
Consensus pattern (60 bp):
TTTGGAAAAGTTCAAGGTCAAAATGGTAATTTTTGGAAAGTTCGAGAGTAAAAATGTAAT
Found at i:43499333 original size:30 final size:30
Alignment explanation
Indices: 43498934--43499341 Score: 173
Period size: 29 Copynumber: 13.9 Consensus size: 30
43498924 GGAAAATTTT
* *
43498934 AGGTCGAAAATGTGATTTTTGGA-AA-TTTG
1 AGGTC-AAAATGTAATTTTTGGAGAAGTTCG
*
43498963 AGGGT-AAAATGATAATTTTT-G-GATGTTC-
1 A-GGTCAAAATG-TAATTTTTGGAGAAGTTCG
* * *
43498991 AGGGTTAAAATGGTAATTTTT--AGATGTTTG
1 A-GGTCAAAAT-GTAATTTTTGGAGAAGTTCG
* * *
43499021 AGGGCAAAAATGT-ATTTTTGGAAAAGTT-T
1 AGGTC-AAAATGTAATTTTTGGAGAAGTTCG
* * * *
43499050 AGGGTTAAAATGCAA-TTTTGGAAAAGGTTAG
1 A-GGTCAAAATGTAATTTTTGGAGAA-GTTCG
* * * *
43499081 -GGTTAAAAAGGTAATTTTT--AGATGTTCA
1 AGG-TCAAAATGTAATTTTTGGAGAAGTTCG
*
43499109 AGGTCAAAATGGTAATTTTTGGA-TA-TTCG
1 AGGTCAAAAT-GTAATTTTTGGAGAAGTTCG
* * *
43499138 AGGGTAAAAATGTAA-TTTTAGAAAAGTTCG
1 A-GGTCAAAATGTAATTTTTGGAGAAGTTCG
* *
43499168 TGGTCAAAATGGTAATTTTT-G-GATGTTCG
1 AGGTCAAAAT-GTAATTTTTGGAGAAGTTCG
* * **
43499197 AGAG-AAAAATGTAA-TTTTGGAAAAGTTTA
1 AG-GTCAAAATGTAATTTTTGGAGAAGTTCG
* * * * *
43499226 AGGTGAAAATATGA-TTTTGGAAAAGTTCA
1 AGGTCAAAATGTAATTTTTGGAGAAGTTCG
*
43499255 AGAGTCAAAATCTAA-TTTTGGAGAAGTTCG
1 AG-GTCAAAATGTAATTTTTGGAGAAGTTCG
*
43499285 AGGTCAAAATGTAATTTTTGGA-AAGTTCT
1 AGGTCAAAATGTAATTTTTGGAGAAGTTCG
* * *
43499314 AGGGTCCAAATGTGATTTTT-AAGAAGTT
1 A-GGTCAAAATGTAATTTTTGGAGAAGTT
43499342 TAGGGGTCAA
Statistics
Matches: 293, Mismatches: 52, Indels: 67
0.71 0.13 0.16
Matches are distributed among these distances:
27 4 0.01
28 39 0.13
29 142 0.48
30 99 0.34
31 9 0.03
ACGTcount: A:0.36, C:0.04, G:0.25, T:0.36
Consensus pattern (30 bp):
AGGTCAAAATGTAATTTTTGGAGAAGTTCG
Found at i:43501145 original size:30 final size:30
Alignment explanation
Indices: 43501038--43501138 Score: 132
Period size: 30 Copynumber: 3.3 Consensus size: 30
43501028 AAAATTTTGA
* *
43501038 GGTCGAAAATGTGATTTT-TAGAAAGTTTAGG
1 GGTC-AAAATGTAATTTTGGAG-AAGTTTAGG
* *
43501069 GGTTAAAATGTAATTTTGGAGAAGTTTAAG
1 GGTCAAAATGTAATTTTGGAGAAGTTTAGG
*
43501099 GGTCAAAATGTAATTTTGGAGAAGTTTGGG
1 GGTCAAAATGTAATTTTGGAGAAGTTTAGG
43501129 GGTCAAAATG
1 GGTCAAAATG
43501139 GGATTTTTAA
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
30 57 0.92
31 5 0.08
ACGTcount: A:0.34, C:0.03, G:0.30, T:0.34
Consensus pattern (30 bp):
GGTCAAAATGTAATTTTGGAGAAGTTTAGG
Found at i:43503119 original size:16 final size:17
Alignment explanation
Indices: 43503100--43503138 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
43503090 TAAAAAACCT
43503100 AAAATTATA-AAAATAC
1 AAAATTATAGAAAATAC
* *
43503116 AAAACTATAGAAAATAT
1 AAAATTATAGAAAATAC
43503133 AAAATT
1 AAAATT
43503139 TTACTAAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.67, C:0.05, G:0.03, T:0.26
Consensus pattern (17 bp):
AAAATTATAGAAAATAC
Found at i:43503596 original size:18 final size:18
Alignment explanation
Indices: 43503567--43503607 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
43503557 TTATAATTTT
43503567 ATAA-TTTTTATTTTTAA
1 ATAATTTTTTATTTTTAA
43503584 ATAATTTTTTATTTTTAA
1 ATAATTTTTTATTTTTAA
*
43503602 ACAATT
1 ATAATT
43503608 ATATATTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (18 bp):
ATAATTTTTTATTTTTAA
Found at i:43503614 original size:18 final size:18
Alignment explanation
Indices: 43503575--43503615 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
43503565 TTATAATTTT
* * *
43503575 TATTTTTAAATAATTTTT
1 TATTTTTAAACAATTATA
43503593 TATTTTTAAACAATTATA
1 TATTTTTAAACAATTATA
43503611 TATTT
1 TATTT
43503616 ATTATTTAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (18 bp):
TATTTTTAAACAATTATA
Found at i:43503937 original size:2 final size:2
Alignment explanation
Indices: 43503930--43504010 Score: 162
Period size: 2 Copynumber: 40.5 Consensus size: 2
43503920 AAATAAATAA
43503930 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
43503972 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
43504011 AAAATGTATG
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 79 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:43504809 original size:29 final size:31
Alignment explanation
Indices: 43504771--43504829 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 31
43504761 ATTTAATGTA
* *
43504771 CAATTCTATACATGAACTT-TAATT-TGGTG
1 CAATTATATACATGAAATTCTAATTATGGTG
*
43504800 CAATTATATACTTGAAATTCTAATTATGGT
1 CAATTATATACATGAAATTCTAATTATGGT
43504830 TTAAATGTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 16 0.64
30 5 0.20
31 4 0.16
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.42
Consensus pattern (31 bp):
CAATTATATACATGAAATTCTAATTATGGTG
Found at i:43504841 original size:31 final size:31
Alignment explanation
Indices: 43504806--43504864 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
43504796 GGTGCAATTA
*
43504806 TATACTTGAAATTCTAATTATGGTTTAAATG
1 TATACTTGAAATTCTAATTATGATTTAAATG
* *
43504837 TATACTTGAAATTTTAATTTTGATTTAA
1 TATACTTGAAATTCTAATTATGATTTAA
43504865 TCATACGCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.36, C:0.05, G:0.10, T:0.49
Consensus pattern (31 bp):
TATACTTGAAATTCTAATTATGATTTAAATG
Found at i:43507767 original size:18 final size:19
Alignment explanation
Indices: 43507727--43507770 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
43507717 ATAGAAGTAA
43507727 TAAAATGTGCATAAAAAAAT
1 TAAAATGT-CATAAAAAAAT
* *
43507747 TAAAATGT-ATAAGAAATT
1 TAAAATGTCATAAAAAAAT
43507765 TAAAAT
1 TAAAAT
43507771 AAAATTTTGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 14 0.64
20 8 0.36
ACGTcount: A:0.59, C:0.02, G:0.09, T:0.30
Consensus pattern (19 bp):
TAAAATGTCATAAAAAAAT
Found at i:43512388 original size:48 final size:49
Alignment explanation
Indices: 43512315--43512460 Score: 157
Period size: 48 Copynumber: 3.1 Consensus size: 49
43512305 ACACTAGCGC
*
43512315 GCTCTCTGT--TTAGCACGTC-TCGTGCTCTCTGTTATTAGCACTGTGTGT
1 GCTCTCTGTGATTAGCACTTCGT-GTGCTCTCTG-TATTAGCACTGTGTGT
*
43512363 GCTCT-T-TGATTAGCACTGT-GTGTGCTCTCTGT-TTAGCAC-GTCTCGT
1 GCTCTCTGTGATTAGCACT-TCGTGTGCTCTCTGTATTAGCACTGTGT-GT
* *
43512409 GCTCTCTGTTATTAGCACTTCGTGTGCTCTCTG-ATTAGCACTTTGTGT
1 GCTCTCTGTGATTAGCACTTCGTGTGCTCTCTGTATTAGCACTGTGTGT
43512457 GCTC
1 GCTC
43512461 AGTACTTTGT
Statistics
Matches: 83, Mismatches: 5, Indels: 20
0.77 0.05 0.19
Matches are distributed among these distances:
45 3 0.04
46 15 0.18
47 4 0.05
48 57 0.69
49 4 0.05
ACGTcount: A:0.11, C:0.25, G:0.23, T:0.42
Consensus pattern (49 bp):
GCTCTCTGTGATTAGCACTTCGTGTGCTCTCTGTATTAGCACTGTGTGT
Found at i:43512403 original size:71 final size:71
Alignment explanation
Indices: 43512315--43512460 Score: 258
Period size: 71 Copynumber: 2.1 Consensus size: 71
43512305 ACACTAGCGC
*
43512315 GCTCTCTGTTTAGCACGTCTCGTGCTCTCTGTTATTAGCACTGT-GTGTGCTCTTTGATTAGCAC
1 GCTCTCTGTTTAGCACGTCTCGTGCTCTCTGTTATTAGCACT-TCGTGTGCTCTCTGATTAGCAC
43512379 TGTGTGT
65 TGTGTGT
43512386 GCTCTCTGTTTAGCACGTCTCGTGCTCTCTGTTATTAGCACTTCGTGTGCTCTCTGATTAGCACT
1 GCTCTCTGTTTAGCACGTCTCGTGCTCTCTGTTATTAGCACTTCGTGTGCTCTCTGATTAGCACT
*
43512451 TTGTGT
66 GTGTGT
43512457 GCTC
1 GCTC
43512461 AGTACTTTGT
Statistics
Matches: 72, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
70 1 0.01
71 71 0.99
ACGTcount: A:0.11, C:0.25, G:0.23, T:0.42
Consensus pattern (71 bp):
GCTCTCTGTTTAGCACGTCTCGTGCTCTCTGTTATTAGCACTTCGTGTGCTCTCTGATTAGCACT
GTGTGT
Found at i:43512450 original size:23 final size:23
Alignment explanation
Indices: 43512315--43512460 Score: 138
Period size: 23 Copynumber: 6.2 Consensus size: 23
43512305 ACACTAGCGC
* *
43512315 GCTCTCTGTTTAGCACGTC-TCGT
1 GCTCTCTGATTAGCACTTCGT-GT
43512338 GCTCTCTGTTATTAGCACTGT-GTGT
1 GCTCTCTG--ATTAGCACT-TCGTGT
*
43512363 GCTCTTTGATTAGCACTGT-GTGT
1 GCTCTCTGATTAGCACT-TCGTGT
* *
43512386 GCTCTCTGTTTAGCACGTC-TCGT
1 GCTCTCTGATTAGCACTTCGT-GT
43512409 GCTCTCTGTTATTAGCACTTCGTGT
1 GCTCTCTG--ATTAGCACTTCGTGT
*
43512434 GCTCTCTGATTAGCACTTTGTGT
1 GCTCTCTGATTAGCACTTCGTGT
43512457 GCTC
1 GCTC
43512461 AGTACTTTGT
Statistics
Matches: 105, Mismatches: 9, Indels: 18
0.80 0.07 0.14
Matches are distributed among these distances:
22 2 0.02
23 65 0.62
25 35 0.33
26 3 0.03
ACGTcount: A:0.11, C:0.25, G:0.23, T:0.42
Consensus pattern (23 bp):
GCTCTCTGATTAGCACTTCGTGT
Found at i:43512489 original size:39 final size:39
Alignment explanation
Indices: 43512425--43512538 Score: 192
Period size: 39 Copynumber: 2.9 Consensus size: 39
43512415 TGTTATTAGC
* * *
43512425 ACTTCGTGTGCTCTCTGATTAGCACTTTGTGTGCTCAGT
1 ACTTTGTGTACTCTCTGTTTAGCACTTTGTGTGCTCAGT
*
43512464 ACTTTGTGTACTCTCTGTTTAGCACTTTGTGTGCTCATT
1 ACTTTGTGTACTCTCTGTTTAGCACTTTGTGTGCTCAGT
43512503 ACTTTGTGTACTCTCTGTTTAGCACTTTGTGTGCTC
1 ACTTTGTGTACTCTCTGTTTAGCACTTTGTGTGCTC
43512539 TCTGTTGCCC
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 71 1.00
ACGTcount: A:0.12, C:0.22, G:0.20, T:0.46
Consensus pattern (39 bp):
ACTTTGTGTACTCTCTGTTTAGCACTTTGTGTGCTCAGT
Found at i:43512494 original size:23 final size:23
Alignment explanation
Indices: 43512464--43512544 Score: 86
Period size: 23 Copynumber: 3.8 Consensus size: 23
43512454 TGTGCTCAGT
43512464 ACTTTGTGTACTCTCTGTTTAGC
1 ACTTTGTGTACTCTCTGTTTAGC
* *
43512487 ACTTTGTGT--GCTC--ATT---
1 ACTTTGTGTACTCTCTGTTTAGC
43512503 ACTTTGTGTACTCTCTGTTTAGC
1 ACTTTGTGTACTCTCTGTTTAGC
*
43512526 ACTTTGTGTGCTCTCTGTT
1 ACTTTGTGTACTCTCTGTT
43512545 GCCCAGCACT
Statistics
Matches: 46, Mismatches: 5, Indels: 14
0.71 0.08 0.22
Matches are distributed among these distances:
16 9 0.20
18 3 0.07
19 2 0.04
20 2 0.04
21 3 0.07
23 27 0.59
ACGTcount: A:0.11, C:0.21, G:0.19, T:0.49
Consensus pattern (23 bp):
ACTTTGTGTACTCTCTGTTTAGC
Found at i:43518577 original size:48 final size:47
Alignment explanation
Indices: 43518504--43518649 Score: 167
Period size: 48 Copynumber: 3.1 Consensus size: 47
43518494 ACACTAGCGC
* *
43518504 GCTCTCTGTTTAGCAC-GTCTCGTGCTCTCTGTTATTAGCACTGTGTGT
1 GCTCTCTGATTAGCACTGTGT-GTGCTCTCTG-TATTAGCACTGTGTGT
*
43518552 GCTCTCTGATTAGCACTGTGTGTGCTCTCTGT-TTAGCAC-GTCTCGT
1 GCTCTCTGATTAGCACTGTGTGTGCTCTCTGTATTAGCACTGTGT-GT
*
43518598 GCTCTCTGTTATTAGCACT-TCGTGTGCTCTCTG-ATTAGCACTTTGTGT
1 GCTCTCTG--ATTAGCACTGT-GTGTGCTCTCTGTATTAGCACTGTGTGT
43518646 GCTC
1 GCTC
43518650 AATACTTTGT
Statistics
Matches: 86, Mismatches: 5, Indels: 14
0.82 0.05 0.13
Matches are distributed among these distances:
45 3 0.03
46 17 0.20
47 2 0.02
48 59 0.69
49 5 0.06
ACGTcount: A:0.11, C:0.25, G:0.23, T:0.41
Consensus pattern (47 bp):
GCTCTCTGATTAGCACTGTGTGTGCTCTCTGTATTAGCACTGTGTGT
Found at i:43518592 original size:71 final size:71
Alignment explanation
Indices: 43518504--43518649 Score: 267
Period size: 71 Copynumber: 2.1 Consensus size: 71
43518494 ACACTAGCGC
43518504 GCTCTCTGTTTAGCACGTCTCGTGCTCTCTGTTATTAGCACTGT-GTGTGCTCTCTGATTAGCAC
1 GCTCTCTGTTTAGCACGTCTCGTGCTCTCTGTTATTAGCACT-TCGTGTGCTCTCTGATTAGCAC
43518568 TGTGTGT
65 TGTGTGT
43518575 GCTCTCTGTTTAGCACGTCTCGTGCTCTCTGTTATTAGCACTTCGTGTGCTCTCTGATTAGCACT
1 GCTCTCTGTTTAGCACGTCTCGTGCTCTCTGTTATTAGCACTTCGTGTGCTCTCTGATTAGCACT
*
43518640 TTGTGT
66 GTGTGT
43518646 GCTC
1 GCTC
43518650 AATACTTTGT
Statistics
Matches: 73, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
70 1 0.01
71 72 0.99
ACGTcount: A:0.11, C:0.25, G:0.23, T:0.41
Consensus pattern (71 bp):
GCTCTCTGTTTAGCACGTCTCGTGCTCTCTGTTATTAGCACTTCGTGTGCTCTCTGATTAGCACT
GTGTGT
Found at i:43518639 original size:23 final size:23
Alignment explanation
Indices: 43518504--43518649 Score: 147
Period size: 23 Copynumber: 6.2 Consensus size: 23
43518494 ACACTAGCGC
* *
43518504 GCTCTCTGTTTAGCACGTC-TCGT
1 GCTCTCTGATTAGCACTTCGT-GT
43518527 GCTCTCTGTTATTAGCACTGT-GTGT
1 GCTCTCTG--ATTAGCACT-TCGTGT
43518552 GCTCTCTGATTAGCACTGT-GTGT
1 GCTCTCTGATTAGCACT-TCGTGT
* *
43518575 GCTCTCTGTTTAGCACGTC-TCGT
1 GCTCTCTGATTAGCACTTCGT-GT
43518598 GCTCTCTGTTATTAGCACTTCGTGT
1 GCTCTCTG--ATTAGCACTTCGTGT
*
43518623 GCTCTCTGATTAGCACTTTGTGT
1 GCTCTCTGATTAGCACTTCGTGT
43518646 GCTC
1 GCTC
43518650 AATACTTTGT
Statistics
Matches: 107, Mismatches: 7, Indels: 18
0.81 0.05 0.14
Matches are distributed among these distances:
22 2 0.02
23 66 0.62
25 36 0.34
26 3 0.03
ACGTcount: A:0.11, C:0.25, G:0.23, T:0.41
Consensus pattern (23 bp):
GCTCTCTGATTAGCACTTCGTGT
Found at i:43518678 original size:39 final size:39
Alignment explanation
Indices: 43518614--43518727 Score: 192
Period size: 39 Copynumber: 2.9 Consensus size: 39
43518604 TGTTATTAGC
* * *
43518614 ACTTCGTGTGCTCTCTGATTAGCACTTTGTGTGCTCAAT
1 ACTTTGTGTACTCTCTGTTTAGCACTTTGTGTGCTCAAT
*
43518653 ACTTTGTGTACTCTCTGTTTAGCACTTTGTGTGCTCAGT
1 ACTTTGTGTACTCTCTGTTTAGCACTTTGTGTGCTCAAT
43518692 ACTTTGTGTACTCTCTGTTTAGCACTTTGTGTGCTC
1 ACTTTGTGTACTCTCTGTTTAGCACTTTGTGTGCTC
43518728 TCTGTTGCCC
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 71 1.00
ACGTcount: A:0.13, C:0.22, G:0.20, T:0.45
Consensus pattern (39 bp):
ACTTTGTGTACTCTCTGTTTAGCACTTTGTGTGCTCAAT
Found at i:43518683 original size:23 final size:23
Alignment explanation
Indices: 43518653--43518733 Score: 86
Period size: 23 Copynumber: 3.8 Consensus size: 23
43518643 TGTGCTCAAT
43518653 ACTTTGTGTACTCTCTGTTTAGC
1 ACTTTGTGTACTCTCTGTTTAGC
* *
43518676 ACTTTGTGT--GCTC-----AGT
1 ACTTTGTGTACTCTCTGTTTAGC
43518692 ACTTTGTGTACTCTCTGTTTAGC
1 ACTTTGTGTACTCTCTGTTTAGC
*
43518715 ACTTTGTGTGCTCTCTGTT
1 ACTTTGTGTACTCTCTGTT
43518734 GCCCAGCACT
Statistics
Matches: 46, Mismatches: 5, Indels: 14
0.71 0.08 0.22
Matches are distributed among these distances:
16 11 0.24
18 3 0.07
21 3 0.07
23 29 0.63
ACGTcount: A:0.11, C:0.21, G:0.20, T:0.48
Consensus pattern (23 bp):
ACTTTGTGTACTCTCTGTTTAGC
Found at i:43523105 original size:40 final size:41
Alignment explanation
Indices: 43523060--43523156 Score: 119
Period size: 40 Copynumber: 2.4 Consensus size: 41
43523050 TGAACTGACT
*
43523060 GTGACACTGTTAACACT-GCAAGATTTCAACTGAACCGGCA
1 GTGACACTGTTAACACTGGCAAGATTACAACTGAACCGGCA
* **
43523100 GTGACACTGTAAACA-TGGCAAGATTACAACTGAATTGGCA
1 GTGACACTGTTAACACTGGCAAGATTACAACTGAACCGGCA
*
43523140 GTAACACT-TTAAACACT
1 GTGACACTGTT-AACACT
43523157 ACGATGTGTC
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
39 2 0.04
40 45 0.94
41 1 0.02
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.24
Consensus pattern (41 bp):
GTGACACTGTTAACACTGGCAAGATTACAACTGAACCGGCA
Found at i:43523306 original size:29 final size:29
Alignment explanation
Indices: 43523242--43523300 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 29
43523232 CGGATGGGGA
43523242 TATCATGTCTGCATCTGTAACTGTATCTG
1 TATCATGTCTGCATCTGTAACTGTATCTG
*
43523271 TATCATGTCTGCATGC-GTAATTGTATCTG
1 TATCATGTCTGCAT-CTGTAACTGTATCTG
43523300 T
1 T
43523301 GACATGACTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 27 0.96
30 1 0.04
ACGTcount: A:0.20, C:0.19, G:0.19, T:0.42
Consensus pattern (29 bp):
TATCATGTCTGCATCTGTAACTGTATCTG
Found at i:43523381 original size:23 final size:22
Alignment explanation
Indices: 43523319--43523381 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 22
43523309 TGTATGTATA
*
43523319 ACTATATCTATATATGTGACATG
1 ACTATATCTATA-CTGTGACATG
*
43523342 ACTGTATTTCTAT-CTGTGACATG
1 AC--TATATCTATACTGTGACATG
43523365 ACTATATCTATGACTGT
1 ACTATATCTAT-ACTGT
43523382 ATCTATGGCA
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
21 8 0.24
23 17 0.52
25 8 0.24
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (22 bp):
ACTATATCTATACTGTGACATG
Found at i:43524750 original size:65 final size:65
Alignment explanation
Indices: 43524646--43524775 Score: 206
Period size: 65 Copynumber: 2.0 Consensus size: 65
43524636 GTGGTGATCT
* *
43524646 GTATAAATGAGAATATTACAAATTTTATGATTCAAGGACTAATAGGATAGTGAGAATTTCGAGGA
1 GTATAAATGAGAATATTACAAATTCTATGATTCAAGGACTAATAGGATAGTAAGAATTTCGAGGA
* * * *
43524711 GTATAAATGAGAATATTCCAAATTCTGTGATTCAAGGACTGATAGGATAGTAAGAATTTTGAGGA
1 GTATAAATGAGAATATTACAAATTCTATGATTCAAGGACTAATAGGATAGTAAGAATTTCGAGGA
43524776 TGAAATTCTT
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
65 59 1.00
ACGTcount: A:0.40, C:0.07, G:0.22, T:0.31
Consensus pattern (65 bp):
GTATAAATGAGAATATTACAAATTCTATGATTCAAGGACTAATAGGATAGTAAGAATTTCGAGGA
Found at i:43525786 original size:53 final size:53
Alignment explanation
Indices: 43525689--43525798 Score: 141
Period size: 53 Copynumber: 2.1 Consensus size: 53
43525679 CACACAGAGT
* * *
43525689 TGTGTTAGGGTGTGTGTATATTGTTCTGAGGTACACGGGCTGACACATGGGCA
1 TGTGTCAGGGTGCGTGTATATTGTTCTGAGGCACACGGGCTGACACATGGGCA
* * * *
43525742 TGTGTCAGGGTGCGTGTATATTGTTCT-AGGGCACATGGGTTGACACATTGGCG
1 TGTGTCAGGGTGCGTGTATATTGTTCTGA-GGCACACGGGCTGACACATGGGCA
43525795 TGTG
1 TGTG
43525799 ACATGGTGTA
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
52 1 0.02
53 48 0.98
ACGTcount: A:0.17, C:0.14, G:0.36, T:0.33
Consensus pattern (53 bp):
TGTGTCAGGGTGCGTGTATATTGTTCTGAGGCACACGGGCTGACACATGGGCA
Found at i:43526335 original size:40 final size:40
Alignment explanation
Indices: 43526239--43526337 Score: 101
Period size: 40 Copynumber: 2.5 Consensus size: 40
43526229 GAGAATATTT
** *
43526239 ATTGAACTAACAGTGACACTATTAACACTGCAAGATTTCA
1 ATTGAACTGGCAGTGACACTATAAACACTGCAAGATTTCA
* * * * *
43526279 ATTGAACTTGCGGTGACACTGTAAACATTGTAAGATTAT-A
1 ATTGAACTGGCAGTGACACTATAAACACTGCAAGATT-TCA
*
43526319 ATTGAACTGGTAGTGACAC
1 ATTGAACTGGCAGTGACAC
43526338 CTTCTAGAGT
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
40 47 0.98
41 1 0.02
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.29
Consensus pattern (40 bp):
ATTGAACTGGCAGTGACACTATAAACACTGCAAGATTTCA
Found at i:43526433 original size:29 final size:29
Alignment explanation
Indices: 43526401--43526460 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 29
43526391 AACAGATGGG
*
43526401 GTATCATGCCTGCATCTATAACTGTATCT
1 GTATCATGCCTGCATCCATAACTGTATCT
* ** *
43526430 GTATTATGTTTGCATCCGTAACTGTATCT
1 GTATCATGCCTGCATCCATAACTGTATCT
43526459 GT
1 GT
43526461 GATATGGCTG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.22, C:0.20, G:0.17, T:0.42
Consensus pattern (29 bp):
GTATCATGCCTGCATCCATAACTGTATCT
Found at i:43533804 original size:2 final size:2
Alignment explanation
Indices: 43533797--43533829 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
43533787 TAGGGAAGAA
43533797 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
43533830 AAGTTTATCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:43534315 original size:21 final size:21
Alignment explanation
Indices: 43534291--43534334 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
43534281 AAAATTACTT
*
43534291 AAAAATTATAAAAAATACAAA
1 AAAAACTATAAAAAATACAAA
* *
43534312 AAAAACTATATAAAATATAAA
1 AAAAACTATAAAAAATACAAA
43534333 AA
1 AA
43534335 TTTACTAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.75, C:0.05, G:0.00, T:0.20
Consensus pattern (21 bp):
AAAAACTATAAAAAATACAAA
Found at i:43535219 original size:29 final size:29
Alignment explanation
Indices: 43535186--43535256 Score: 97
Period size: 29 Copynumber: 2.4 Consensus size: 29
43535176 TCTTATTGTT
43535186 TATTATATTATTAAAATTTTTATTTTAAA
1 TATTATATTATTAAAATTTTTATTTTAAA
* * *
43535215 TATTATTTTATTGAATTTTTTATTTTAAA
1 TATTATATTATTAAAATTTTTATTTTAAA
*
43535244 TATTTTTATTATT
1 TA-TTATATTATT
43535257 TATAACATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 28 0.78
30 8 0.22
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.65
Consensus pattern (29 bp):
TATTATATTATTAAAATTTTTATTTTAAA
Found at i:43535250 original size:17 final size:17
Alignment explanation
Indices: 43535202--43535257 Score: 50
Period size: 17 Copynumber: 3.5 Consensus size: 17
43535192 ATTATTAAAA
43535202 TTTTTATTTTAAATATT
1 TTTTTATTTTAAATATT
* *
43535219 ATTTTA--TT-GA-A-T
1 TTTTTATTTTAAATATT
43535231 TTTTTATTTTAAATATT
1 TTTTTATTTTAAATATT
43535248 TTTATTATTT
1 TTT-TTATTT
43535258 ATAACATTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 11
0.66 0.09 0.25
Matches are distributed among these distances:
12 6 0.21
13 1 0.03
14 3 0.10
15 3 0.10
16 1 0.03
17 9 0.31
18 6 0.21
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.70
Consensus pattern (17 bp):
TTTTTATTTTAAATATT
Found at i:43535258 original size:17 final size:17
Alignment explanation
Indices: 43535191--43535258 Score: 55
Period size: 15 Copynumber: 4.5 Consensus size: 17
43535181 TTGTTTATTA
43535191 TATTA-TTAAA-ATTTT
1 TATTATTTAAATATTTT
*
43535206 TA-T-TTTAAATATTAT
1 TATTATTTAAATATTTT
*
43535221 T-TTA-TTGAAT-TTTT
1 TATTATTTAAATATTTT
43535235 TA-T-TTTAAATATTTT
1 TATTATTTAAATATTTT
43535250 TATTATTTA
1 TATTATTTA
43535259 TAACATTTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 16
0.67 0.07 0.27
Matches are distributed among these distances:
14 16 0.40
15 19 0.47
16 1 0.03
17 4 0.10
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.65
Consensus pattern (17 bp):
TATTATTTAAATATTTT
Found at i:43548118 original size:20 final size:20
Alignment explanation
Indices: 43548081--43548119 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
43548071 AATAATCACA
* *
43548081 TTCATACGCACATGTATATT
1 TTCACACGCACATATATATT
*
43548101 TTCACACGCATATATATAT
1 TTCACACGCACATATATAT
43548120 ATGTATATGC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.33, C:0.21, G:0.08, T:0.38
Consensus pattern (20 bp):
TTCACACGCACATATATATT
Found at i:43557505 original size:22 final size:23
Alignment explanation
Indices: 43557480--43557532 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 23
43557470 GAGCACTGAG
*
43557480 GTGCTAAACGAAGAGCACAAT-T
1 GTGCTAAACGAAGAGCACAATAC
* *
43557502 GTGCTAATCGGAGAGCACAATAC
1 GTGCTAAACGAAGAGCACAATAC
43557525 GTGCTAAA
1 GTGCTAAA
43557533 TAAATGGAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
22 19 0.73
23 7 0.27
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.19
Consensus pattern (23 bp):
GTGCTAAACGAAGAGCACAATAC
Found at i:43559062 original size:29 final size:28
Alignment explanation
Indices: 43559030--43559172 Score: 98
Period size: 29 Copynumber: 4.9 Consensus size: 28
43559020 TGGTCACTCG
43559030 AGGGT-AAAATGGTAATTTTAGGGAAAGTT
1 AGGGTAAAAAT-GTAATTTT-GGGAAAGTT
*
43559059 AGGGGTCAAAAATGGAATTTT-GG-AAGTTT
1 A-GGGT-AAAAATGTAATTTTGGGAAAG-TT
* *
43559088 AGGAGTAAAAATGTAATTTTTGGAAAAATT
1 AGG-GTAAAAATGTAA-TTTTGGGAAAGTT
* *
43559118 AGGGTTAAAAATGTAATTTTTGG-AAGATCG
1 AGGG-TAAAAATGTAATTTTGGGAAAG-T-T
*
43559148 AGGGT-AAAATAGTAATTTTTGGAAA
1 AGGGTAAAAAT-GTAATTTTGGGAAA
43559173 AATCGAGGTC
Statistics
Matches: 93, Mismatches: 8, Indels: 25
0.74 0.06 0.20
Matches are distributed among these distances:
28 21 0.23
29 31 0.33
30 27 0.29
31 9 0.10
32 5 0.05
ACGTcount: A:0.40, C:0.01, G:0.27, T:0.32
Consensus pattern (28 bp):
AGGGTAAAAATGTAATTTTGGGAAAGTT
Found at i:43559096 original size:59 final size:58
Alignment explanation
Indices: 43559031--43559283 Score: 233
Period size: 59 Copynumber: 4.3 Consensus size: 58
43559021 GGTCACTCGA
* * *
43559031 GGGTAAAATGGTAATTTTAGGGAAAGTTAGGGGTCAAAAATGGAA-TTTTGGAAGTTTAG
1 GGGTAAAATGGTAATTTT-GGAAAAATTA-AGGTCAAAAATGGAATTTTTGGAAGTTTAG
* * * * * *
43559090 GAGTAAAAAT-GTAATTTTTGGAAAAATTAGGGTTAAAAATGTAATTTTTGGAAG-ATCG
1 GGGT-AAAATGGTAA-TTTTGGAAAAATTAAGGTCAAAAATGGAATTTTTGGAAGTTTAG
* ** *
43559148 AGGGTAAAATAGTAATTTTTGGAAAAATCGAGGTCAAAAATGGAATTTTTGGAAGTTTGG
1 -GGGTAAAATGGTAA-TTTTGGAAAAATTAAGGTCAAAAATGGAATTTTTGGAAGTTTAG
* ** * * * **
43559208 GGGTAAAATGATAAGTTTTGGAAAACGTAAGTTAAAAAATGGAATTTTTGAAAGTTCGG
1 GGGTAAAATGGTAA-TTTTGGAAAAATTAAGGTCAAAAATGGAATTTTTGGAAGTTTAG
43559267 GGGTAAAATGGTAATTT
1 GGGTAAAATGGTAATTT
43559284 CTAGACTGTT
Statistics
Matches: 161, Mismatches: 27, Indels: 13
0.80 0.13 0.06
Matches are distributed among these distances:
58 23 0.14
59 127 0.79
60 11 0.07
ACGTcount: A:0.39, C:0.02, G:0.27, T:0.32
Consensus pattern (58 bp):
GGGTAAAATGGTAATTTTGGAAAAATTAAGGTCAAAAATGGAATTTTTGGAAGTTTAG
Found at i:43559127 original size:30 final size:30
Alignment explanation
Indices: 43559035--43559201 Score: 123
Period size: 30 Copynumber: 5.6 Consensus size: 30
43559025 ACTCGAGGGT
* * * *
43559035 AAAATGGTAATTTTAGGGAAAGTTAGGGGTCA
1 AAAAT-GTAATTTTTGGAAAAATTA-GGGTTA
* **
43559067 AAAATGGAA-TTTTGG-AAGTTTAGGAG-TA
1 AAAATGTAATTTTTGGAAAAATTAGG-GTTA
43559095 AAAATGTAATTTTTGGAAAAATTAGGGTTA
1 AAAATGTAATTTTTGGAAAAATTAGGGTTA
* *
43559125 AAAATGTAATTTTTGG-AAGATCGAGGG-T-
1 AAAATGTAATTTTTGGAAAAAT-TAGGGTTA
* *
43559153 AAAATAGTAATTTTTGGAAAAA-TCGAGGTCA
1 AAAAT-GTAATTTTTGGAAAAATTAG-GGTTA
*
43559184 AAAATGGAATTTTTGGAA
1 AAAATGTAATTTTTGGAA
43559202 GTTTGGGGGT
Statistics
Matches: 110, Mismatches: 15, Indels: 22
0.75 0.10 0.15
Matches are distributed among these distances:
28 17 0.15
29 31 0.28
30 49 0.45
31 8 0.07
32 5 0.05
ACGTcount: A:0.41, C:0.02, G:0.25, T:0.32
Consensus pattern (30 bp):
AAAATGTAATTTTTGGAAAAATTAGGGTTA
Found at i:43559196 original size:29 final size:30
Alignment explanation
Indices: 43559092--43559201 Score: 138
Period size: 30 Copynumber: 3.7 Consensus size: 30
43559082 AAGTTTAGGA
*
43559092 GTAAAAATGTAATTTTTGGAAAAAT-TAGG
1 GTAAAAATGTAATTTTTGGAAAAATCGAGG
*
43559121 GTTAAAAATGTAATTTTTGG-AAGATCGAGG
1 G-TAAAAATGTAATTTTTGGAAAAATCGAGG
43559151 GT-AAAATAGTAATTTTTGGAAAAATCGA-G
1 GTAAAAAT-GTAATTTTTGGAAAAATCGAGG
*
43559180 GTCAAAAATGGAATTTTTGGAA
1 GT-AAAAATGTAATTTTTGGAA
43559202 GTTTGGGGGT
Statistics
Matches: 71, Mismatches: 4, Indels: 11
0.83 0.05 0.13
Matches are distributed among these distances:
28 5 0.07
29 20 0.28
30 41 0.58
31 5 0.07
ACGTcount: A:0.42, C:0.03, G:0.23, T:0.33
Consensus pattern (30 bp):
GTAAAAATGTAATTTTTGGAAAAATCGAGG
Found at i:43559215 original size:118 final size:118
Alignment explanation
Indices: 43559027--43559283 Score: 322
Period size: 118 Copynumber: 2.2 Consensus size: 118
43559017 TTTTGGTCAC
** *
43559027 TCGAGGGTAAAATGGTAATTTTAGGGAAAGTTAGGGGTCAAAAATGGAATTTTGGAAGTTTAGGA
1 TCGAGGGTAAAATGGTAATTTTAGGGAAAAATAGAGGTCAAAAATGGAATTTTGGAAGTTTAGGA
* * * * *
43559092 GTAAAAATG-TAATTTTTGGAAAAATTAGGGTT-AAAAATGTAATTTTTGGAAGA
66 GT-AAAATGATAAGTTTTGGAAAAAGTA-AGTTAAAAAATGGAATTTTTGAAAGA
* * * *
43559145 TCGAGGGTAAAATAGTAATTTT-TGGAAAAATCGAGGTCAAAAATGGAATTTTTGGAAGTTTGGG
1 TCGAGGGTAAAATGGTAATTTTAGGGAAAAATAGAGGTCAAAAATGGAA-TTTTGGAAGTTTAGG
* * *
43559209 GGTAAAATGATAAGTTTTGGAAAACGTAAGTTAAAAAATGGAATTTTTGAAAGT
65 AGTAAAATGATAAGTTTTGGAAAAAGTAAGTTAAAAAATGGAATTTTTGAAAGA
*
43559263 TCGGGGGTAAAATGGTAATTT
1 TCGAGGGTAAAATGGTAATTT
43559284 CTAGACTGTT
Statistics
Matches: 119, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
117 30 0.25
118 89 0.75
ACGTcount: A:0.39, C:0.03, G:0.27, T:0.32
Consensus pattern (118 bp):
TCGAGGGTAAAATGGTAATTTTAGGGAAAAATAGAGGTCAAAAATGGAATTTTGGAAGTTTAGGA
GTAAAATGATAAGTTTTGGAAAAAGTAAGTTAAAAAATGGAATTTTTGAAAGA
Found at i:43559274 original size:29 final size:29
Alignment explanation
Indices: 43559052--43559283 Score: 77
Period size: 30 Copynumber: 7.9 Consensus size: 29
43559042 TAATTTTAGG
*
43559052 GAAAGTT-AGGGGTCAAAAATGGAA-TTTT
1 GAAAGTTCGGGGGT-AAAAATGGAATTTTT
* ** * *
43559080 GGAAGTTTAGGAGTAAAAATGTAATTTTT
1 GAAAGTTCGGGGGTAAAAATGGAATTTTT
* * * *
43559109 GGAAAAATT-AGGGTTAAAAATGTAATTTTT
1 -G-AAAGTTCGGGGGTAAAAATGGAATTTTT
* * * *
43559139 GGAAGATCGAGGGT-AAAATAGTAATTTTT
1 GAAAGTTCGGGGGTAAAAAT-GGAATTTTT
** *
43559168 GGAAAAATC-GAGGTCAAAAATGGAATTTTT
1 -GAAAGTTCGGGGGT-AAAAATGGAATTTTT
* * * *
43559198 GGAAGTTTGGGGGT-AAAATGATAAGTTTTG
1 GAAAGTTCGGGGGTAAAAATG-GAA-TTTTT
* ** *
43559228 GAAA--ACGTAAGTTAAAAAATGGAATTTTT
1 GAAAGTTCG-GGGGT-AAAAATGGAATTTTT
43559257 GAAAGTTCGGGGGT-AAAATGGTAATTT
1 GAAAGTTCGGGGGTAAAAATGG-AATTT
43559284 CTAGACTGTT
Statistics
Matches: 149, Mismatches: 37, Indels: 35
0.67 0.17 0.16
Matches are distributed among these distances:
28 37 0.25
29 46 0.31
30 49 0.33
31 17 0.11
ACGTcount: A:0.39, C:0.03, G:0.26, T:0.32
Consensus pattern (29 bp):
GAAAGTTCGGGGGTAAAAATGGAATTTTT
Found at i:43560313 original size:3 final size:3
Alignment explanation
Indices: 43560307--43560391 Score: 82
Period size: 3 Copynumber: 28.0 Consensus size: 3
43560297 AAAATAAATG
* *
43560307 TTA TTA TTA TTA ATA TTA TCA TTA TTA TTA -TA TTTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA
** ** *
43560352 TTA TTA TTA TTA AAA CAA TTA TTA TTA TTA ATA TTTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA
43560392 CGAACAATGT
Statistics
Matches: 68, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
2 2 0.03
3 62 0.91
4 4 0.06
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:43561213 original size:6 final size:6
Alignment explanation
Indices: 43561199--43561251 Score: 72
Period size: 6 Copynumber: 8.8 Consensus size: 6
43561189 GTTTAAAATT
* *
43561199 ATTTCAA ATTTAA ATTTAA ATTTAA ATTTAC A-GTAA ATTTAA ATTTAA
1 ATTT-AA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA
43561247 ATTTA
1 ATTTA
43561252 GAAATAAATC
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
5 3 0.07
6 34 0.83
7 4 0.10
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (6 bp):
ATTTAA
Found at i:43561259 original size:12 final size:11
Alignment explanation
Indices: 43561209--43561281 Score: 65
Period size: 11 Copynumber: 6.4 Consensus size: 11
43561199 ATTTCAAATT
*
43561209 TAAATTTAAATT
1 TAAATTTAAA-A
* *
43561221 TAAATTTACAG
1 TAAATTTAAAA
*
43561232 TAAATTTAAATT
1 TAAATTTAAA-A
43561244 TAAATTTAGAAA
1 TAAATTTA-AAA
*
43561256 TAAATCTAAAA
1 TAAATTTAAAA
*
43561267 TAAATTTAAAC
1 TAAATTTAAAA
43561278 TAAA
1 TAAA
43561282 AAGTAAAAGT
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
11 25 0.49
12 24 0.47
13 2 0.04
ACGTcount: A:0.55, C:0.04, G:0.03, T:0.38
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:43561260 original size:35 final size:35
Alignment explanation
Indices: 43561199--43561276 Score: 95
Period size: 35 Copynumber: 2.2 Consensus size: 35
43561189 GTTTAAAATT
* * * *
43561199 ATTTCAAATTTAAATTTAAATTTAAATTTACAGTAA
1 ATTT-AAATTTAAATTTAAATATAAATCTAAAATAA
43561235 ATTTAAATTTAAATTTAGAA-ATAAATCTAAAATAA
1 ATTTAAATTTAAATTTA-AATATAAATCTAAAATAA
43561270 ATTTAAA
1 ATTTAAA
43561277 CTAAAAAGTA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
35 31 0.84
36 6 0.16
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.41
Consensus pattern (35 bp):
ATTTAAATTTAAATTTAAATATAAATCTAAAATAA
Found at i:43561847 original size:48 final size:48
Alignment explanation
Indices: 43561775--43561976 Score: 287
Period size: 48 Copynumber: 4.2 Consensus size: 48
43561765 CGACTTAAAC
* * *
43561775 CTTTCTCCTCGTGTCTTCGTGGTACTGGATCTGCCGTCGCGTCTTAGAT
1 CTTTC-CCTTGTGTCTTCGTGGTACTGGATCCGCCGTCGCGGCTTAGAT
*
43561824 CTTTCCCTTGTGTCTTCGTGGTACTGGATCCGCCGTCGCGGCATAGAT
1 CTTTCCCTTGTGTCTTCGTGGTACTGGATCCGCCGTCGCGGCTTAGAT
* ** * *
43561872 CTTTCCCTTGTGTCTTCATGGTACTGGATCCATCGTTGCAGCTTAGAT
1 CTTTCCCTTGTGTCTTCGTGGTACTGGATCCGCCGTCGCGGCTTAGAT
* * *
43561920 CTTTCCCTTGTGTCTTTGTGGTACTGGATCCGCCGTCGTGGGTTAGAT
1 CTTTCCCTTGTGTCTTCGTGGTACTGGATCCGCCGTCGCGGCTTAGAT
43561968 CTTTCCCTT
1 CTTTCCCTT
43561977 CATGTCTTAT
Statistics
Matches: 135, Mismatches: 18, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
48 130 0.96
49 5 0.04
ACGTcount: A:0.10, C:0.27, G:0.24, T:0.39
Consensus pattern (48 bp):
CTTTCCCTTGTGTCTTCGTGGTACTGGATCCGCCGTCGCGGCTTAGAT
Found at i:43562634 original size:34 final size:34
Alignment explanation
Indices: 43562596--43562661 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 34
43562586 CCCTTTTTTA
* * *
43562596 TTTTTATTC-TTGTTTTTCCTCTTTTTTCTTTGC
1 TTTTTTTTCTTTGTCTTTCCTCTTCTTTCTTTGC
*
43562629 TTTTTTTTCTTTGTCTTTCTTCTTCTTTCTTTG
1 TTTTTTTTCTTTGTCTTTCCTCTTCTTTCTTTG
43562662 TCATTCTTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 8 0.29
34 20 0.71
ACGTcount: A:0.02, C:0.18, G:0.06, T:0.74
Consensus pattern (34 bp):
TTTTTTTTCTTTGTCTTTCCTCTTCTTTCTTTGC
Found at i:43562636 original size:14 final size:14
Alignment explanation
Indices: 43562617--43562660 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
43562607 GTTTTTCCTC
43562617 TTTTTTCTTTGCTT
1 TTTTTTCTTTGCTT
43562631 TTTTTTCTTTGTCTT
1 TTTTTTCTTTG-CTT
*
43562646 TCTTCTTCTTT-CTT
1 T-TTTTTCTTTGCTT
43562660 T
1 T
43562661 GTCATTCTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
14 15 0.56
15 4 0.15
16 8 0.30
ACGTcount: A:0.00, C:0.18, G:0.05, T:0.77
Consensus pattern (14 bp):
TTTTTTCTTTGCTT
Found at i:43567997 original size:58 final size:56
Alignment explanation
Indices: 43567917--43568074 Score: 163
Period size: 59 Copynumber: 2.7 Consensus size: 56
43567907 AGATGGTACT
* *
43567917 TTTTGGAAGAATCAGGGTCAAAAATGTAATTTTTGGAAGTTAAAGGAAAAATGGTCA
1 TTTTGGAAAAATCAGGGTCAAAAATG-AATTTTTGGAAGTTAAAGGAAAAATGGTAA
* * * * *
43567974 TTTTGGGAAAAATCGGGGTCAAAAATAGATTTTTTGGAAGTTTGAGGGTAAAATGGTAA
1 TTTT-GGAAAAATCAGGGTCAAAAAT-GAATTTTTGGAAG-TTAAAGGAAAAATGGTAA
* ** *
43568033 TTGTTGAAAAAATCAATGTCAAAAATGGAATTTTAGGAAGTT
1 TT-TTGGAAAAATCAGGGTCAAAAAT-GAATTTTTGGAAGTT
43568075 TGGGGATAAA
Statistics
Matches: 83, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
57 4 0.05
58 32 0.39
59 45 0.54
60 2 0.02
ACGTcount: A:0.39, C:0.04, G:0.25, T:0.32
Consensus pattern (56 bp):
TTTTGGAAAAATCAGGGTCAAAAATGAATTTTTGGAAGTTAAAGGAAAAATGGTAA
Found at i:43569083 original size:3 final size:3
Alignment explanation
Indices: 43569077--43569128 Score: 61
Period size: 3 Copynumber: 17.0 Consensus size: 3
43569067 AAAATAAATG
* *
43569077 TTA TTA TTA TTA ATA TTA TCA TTA TTA TTA -TA TTTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA
43569122 TTTA TTA
1 -TTA TTA
43569129 CGAACAATGT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
2 2 0.05
3 35 0.83
4 5 0.12
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:43569961 original size:17 final size:17
Alignment explanation
Indices: 43569936--43570006 Score: 70
Period size: 17 Copynumber: 4.1 Consensus size: 17
43569926 GTTTAAAATT
43569936 ATTTCAAATTTAAACTAA
1 ATTT-AAATTTAAACTAA
* *
43569954 ATTTAAATTTACAGTAA
1 ATTTAAATTTAAACTAA
*
43569971 ATTTAAATTTAGAAATAA
1 ATTTAAATTTA-AACTAA
* * *
43569989 ATCTAAAATTAATCTAA
1 ATTTAAATTTAAACTAA
43570006 A
1 A
43570007 CTAAAAAGTA
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
17 27 0.61
18 17 0.39
ACGTcount: A:0.52, C:0.07, G:0.03, T:0.38
Consensus pattern (17 bp):
ATTTAAATTTAAACTAA
Found at i:43580521 original size:34 final size:35
Alignment explanation
Indices: 43580480--43580564 Score: 109
Period size: 36 Copynumber: 2.4 Consensus size: 35
43580470 TATATTTTGG
* * *
43580480 ATCAGAATATCATATTTTCATAA-ACATATATCAT
1 ATCAGAATGTCATATTTTAAGAACACATATATCAT
*
43580514 ATCAGAATGTCATGTTTTAAGAAGCACATATATCAT
1 ATCAGAATGTCATATTTTAAGAA-CACATATATCAT
*
43580550 ATCAAAATGTCATAT
1 ATCAGAATGTCATAT
43580565 CAAACCAGAA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
34 19 0.44
36 24 0.56
ACGTcount: A:0.42, C:0.14, G:0.08, T:0.35
Consensus pattern (35 bp):
ATCAGAATGTCATATTTTAAGAACACATATATCAT
Found at i:43580706 original size:6 final size:6
Alignment explanation
Indices: 43580674--43580796 Score: 105
Period size: 6 Copynumber: 21.0 Consensus size: 6
43580664 TGGACTTTTC
* * *
43580674 ATTT-A ATTTAA AGTTAA A-TTGA TTTTAA ATTT-- ATTTAA ATTTAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA
* *
43580718 ATTT-A TTTTAA ATTTAA ATTTAA TTATTTAA ATTT-A ATTTGA ATTTAA
1 ATTTAA ATTTAA ATTTAA ATTTAA --ATTTAA ATTTAA ATTTAA ATTTAA
** *
43580766 ATTTAA ATAAAA ATTAAA ATATTAA ATTTAA
1 ATTTAA ATTTAA ATTTAA AT-TTAA ATTTAA
43580797 CATTAAAAAA
Statistics
Matches: 97, Mismatches: 12, Indels: 17
0.77 0.10 0.13
Matches are distributed among these distances:
4 4 0.04
5 16 0.16
6 66 0.68
7 5 0.05
8 6 0.06
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.50
Consensus pattern (6 bp):
ATTTAA
Found at i:43580709 original size:27 final size:27
Alignment explanation
Indices: 43580674--43580733 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
43580664 TGGACTTTTC
43580674 ATTTAATTTAAAGTTAAATTGATTTTAA
1 ATTT-ATTTAAAGTTAAATTGATTTTAA
* *
43580702 ATTTATTTAAATTTAAATTTATTTTAA
1 ATTTATTTAAAGTTAAATTGATTTTAA
43580729 ATTTA
1 ATTTA
43580734 AATTTAATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 26 0.87
28 4 0.13
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (27 bp):
ATTTATTTAAAGTTAAATTGATTTTAA
Found at i:43580765 original size:11 final size:11
Alignment explanation
Indices: 43580674--43580773 Score: 75
Period size: 11 Copynumber: 9.2 Consensus size: 11
43580664 TGGACTTTTC
43580674 ATTTAATTTAA
1 ATTTAATTTAA
* * *
43580685 AGTTAAATTGA
1 ATTTAATTTAA
*
43580696 TTTTAAATTT--
1 ATTT-AATTTAA
43580706 ATTTAAATTTAA
1 ATTT-AATTTAA
*
43580718 ATTTATTTTAA
1 ATTTAATTTAA
43580729 ATTTAAATTT-A
1 ATTT-AATTTAA
43580740 A-TT-ATTTAA
1 ATTTAATTTAA
*
43580749 ATTTAATTTGA
1 ATTTAATTTAA
43580760 ATTTAAATTTAA
1 ATTT-AATTTAA
43580772 AT
1 AT
43580774 AAAAATTAAA
Statistics
Matches: 70, Mismatches: 11, Indels: 15
0.73 0.11 0.16
Matches are distributed among these distances:
8 4 0.06
9 2 0.03
10 13 0.19
11 31 0.44
12 20 0.29
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (11 bp):
ATTTAATTTAA
Found at i:43580771 original size:17 final size:16
Alignment explanation
Indices: 43580674--43580771 Score: 103
Period size: 17 Copynumber: 6.1 Consensus size: 16
43580664 TGGACTTTTC
*
43580674 ATTTAATTTAAAGTTAA
1 ATTTAATTTAAA-TTTA
* *
43580691 ATTGATTTTAAATTT-
1 ATTTAATTTAAATTTA
43580706 ATTTAAATTTAAATTTA
1 ATTT-AATTTAAATTTA
*
43580723 TTTTAAATTTAAATTTA
1 ATTT-AATTTAAATTTA
43580740 A-TT-ATTTAAATTTA
1 ATTTAATTTAAATTTA
43580754 ATTTGAATTTAAATTTA
1 ATTT-AATTTAAATTTA
43580771 A
1 A
43580772 ATAAAAATTA
Statistics
Matches: 69, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
14 12 0.17
15 5 0.07
16 14 0.20
17 38 0.55
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (16 bp):
ATTTAATTTAAATTTA
Found at i:43580794 original size:31 final size:30
Alignment explanation
Indices: 43580724--43580796 Score: 76
Period size: 31 Copynumber: 2.4 Consensus size: 30
43580714 TTAAATTTAT
** *
43580724 TTTAAATTTAAATTTAATTATTTAAATTTAA
1 TTTAAATTTAAATTTAA-TATAAAAATTAAA
*
43580755 TTTGAATTTAAATTTAA-ATAAAAATTAAAA
1 TTTAAATTTAAATTTAATATAAAAATT-AAA
43580785 TATTAAATTTAA
1 T-TTAAATTTAA
43580797 CATTAAAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
29 7 0.20
30 3 0.09
31 25 0.71
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (30 bp):
TTTAAATTTAAATTTAATATAAAAATTAAA
Found at i:43580794 original size:37 final size:36
Alignment explanation
Indices: 43580710--43580796 Score: 97
Period size: 37 Copynumber: 2.4 Consensus size: 36
43580700 AAATTTATTT
* ** *
43580710 AAATTTAAATTTATTTTAAATTTAAATTTAATTATTT
1 AAATTTAAATTTAATTTAAATTTAAA-TTAAAAATTA
43580747 AAATTT-AATTTGAATTTAAATTTAAA-TAAAAATTA
1 AAATTTAAATTT-AATTTAAATTTAAATTAAAAATTA
43580782 AAATATTAAATTTAA
1 AAAT-TTAAATTTAA
43580797 CATTAAAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
35 10 0.23
36 9 0.21
37 24 0.56
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (36 bp):
AAATTTAAATTTAATTTAAATTTAAATTAAAAATTA
Found at i:43581629 original size:10 final size:10
Alignment explanation
Indices: 43581611--43581648 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
43581601 TAATAAATGC
*
43581611 AATACTAATA
1 AATAATAATA
*
43581621 AATATTAAT-
1 AATAATAATA
43581630 AATAATAATA
1 AATAATAATA
43581640 AATAATAAT
1 AATAATAAT
43581649 TTAATAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
9 8 0.32
10 17 0.68
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (10 bp):
AATAATAATA
Found at i:43581633 original size:19 final size:19
Alignment explanation
Indices: 43581611--43581648 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
43581601 TAATAAATGC
* *
43581611 AATACTAATAAATATTAAT
1 AATAATAATAAATAATAAT
43581630 AATAATAATAAATAATAAT
1 AATAATAATAAATAATAAT
43581649 TTAATAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (19 bp):
AATAATAATAAATAATAAT
Found at i:43582003 original size:13 final size:13
Alignment explanation
Indices: 43581981--43582015 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
43581971 TTATATATAT
*
43581981 AAGAATAAAAATA
1 AAGAACAAAAATA
*
43581994 AAGAACAAAAATG
1 AAGAACAAAAATA
43582007 AAGAACAAA
1 AAGAACAAA
43582016 GAACAAAGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.74, C:0.06, G:0.11, T:0.09
Consensus pattern (13 bp):
AAGAACAAAAATA
Found at i:43582644 original size:162 final size:161
Alignment explanation
Indices: 43582467--43582784 Score: 557
Period size: 162 Copynumber: 2.0 Consensus size: 161
43582457 GCTTTCAATT
*
43582467 TAGTCATTTGACTGTTTGACTGTACCAGAGGCTGACACGTGTTACTTTTTGGCTTATTTATGCAT
1 TAGTCATTTGACTGTTTGACTGTACCAGAGGCTGACACGTGTCACTTTTTGGCTTATTTATGCAT
43582532 TTAGTCCTTTTTATTTTTAATTTGTTTTAATTTAATCCTCAAATCAAC-TTTATTTTAATTACGA
66 TTAGTCCTTTTTATTTTTAATTTGTTTTAATTTAATCC-CAAATCAACTTTTA-TTTAATTACGA
* * *
43582596 AATTGGCCCAATAATTTTTCAAGGTTTATAAAC
129 AATTGGCCCAAGAAGTTTTCAAGATTTATAAAC
* *
43582629 TAGTCCTTTGACTGTTTGACTGTACCAGAGGCTGCCACGTGTCACTTTTTGGCTTATTTATGCAT
1 TAGTCATTTGACTGTTTGACTGTACCAGAGGCTGACACGTGTCACTTTTTGGCTTATTTATGCAT
43582694 TTAGTCCTTTTTATTTTTAATTTGTTTTAATTTAATCCCAAATCAACTTTTATTTAATTACGAAA
66 TTAGTCCTTTTTATTTTTAATTTGTTTTAATTTAATCCCAAATCAACTTTTATTTAATTACGAAA
43582759 TTGGCCCAAGAAGTTTTCAAGATTTA
131 TTGGCCCAAGAAGTTTTCAAGATTTA
43582785 CAATTTAATC
Statistics
Matches: 149, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
161 45 0.30
162 104 0.70
ACGTcount: A:0.26, C:0.16, G:0.14, T:0.45
Consensus pattern (161 bp):
TAGTCATTTGACTGTTTGACTGTACCAGAGGCTGACACGTGTCACTTTTTGGCTTATTTATGCAT
TTAGTCCTTTTTATTTTTAATTTGTTTTAATTTAATCCCAAATCAACTTTTATTTAATTACGAAA
TTGGCCCAAGAAGTTTTCAAGATTTATAAAC
Found at i:43582917 original size:28 final size:30
Alignment explanation
Indices: 43582876--43582981 Score: 111
Period size: 28 Copynumber: 3.7 Consensus size: 30
43582866 AAACAGTCCA
43582876 AAAATTACCA-TTTT-ACCCTCGAACTTCC
1 AAAATTACCATTTTTAACCCTCGAACTTCC
*
43582904 AAAATT-CCATTTTTAACCC-CG-ATTTCACC
1 AAAATTACCATTTTTAACCCTCGAACTT--CC
*
43582933 AAAAATTACC-GTTTT-ACCCTCGAACTTCC
1 -AAAATTACCATTTTTAACCCTCGAACTTCC
43582962 AAAATT-CCATTTTTAACCCT
1 AAAATTACCATTTTTAACCCT
43582982 GATTCCACCA
Statistics
Matches: 64, Mismatches: 4, Indels: 19
0.74 0.05 0.22
Matches are distributed among these distances:
27 8 0.12
28 22 0.34
29 17 0.27
30 12 0.19
31 5 0.08
ACGTcount: A:0.32, C:0.30, G:0.04, T:0.34
Consensus pattern (30 bp):
AAAATTACCATTTTTAACCCTCGAACTTCC
Found at i:43582992 original size:29 final size:31
Alignment explanation
Indices: 43582904--43583005 Score: 99
Period size: 30 Copynumber: 3.5 Consensus size: 31
43582894 TCGAACTTCC
* *
43582904 AAAATT-CCATTTTTAACCCCGATTTCACCA
1 AAAATTACCATTTTTAACCCTGATTCCACCA
* * **
43582934 AAAATTACC-GTTTT-ACCCTCGA-ACTTCC-
1 AAAATTACCATTTTTAACCCT-GATTCCACCA
43582962 AAAATT-CCATTTTTAACCCTGATTCCACCA
1 AAAATTACCATTTTTAACCCTGATTCCACCA
43582992 AAAATTACCATTTT
1 AAAATTACCATTTT
43583006 ACCCCCGGGT
Statistics
Matches: 55, Mismatches: 10, Indels: 13
0.71 0.13 0.17
Matches are distributed among these distances:
27 2 0.04
28 12 0.22
29 14 0.25
30 18 0.33
31 9 0.16
ACGTcount: A:0.33, C:0.28, G:0.04, T:0.34
Consensus pattern (31 bp):
AAAATTACCATTTTTAACCCTGATTCCACCA
Found at i:43583009 original size:29 final size:29
Alignment explanation
Indices: 43582873--43583009 Score: 106
Period size: 29 Copynumber: 4.7 Consensus size: 29
43582863 CCCAAACAGT
**
43582873 CCAAAAATTACCATTTTACCCTCGAACTT
1 CCAAAAATTACCATTTTACCCTCGAACCA
**
43582902 CC-AAAATT-CCATTTTTAACCC-CGATTTCA
1 CCAAAAATTACCA-TTTT-ACCCTCGA-ACCA
* **
43582931 CCAAAAATTACCGTTTTACCCTCGAACTT
1 CCAAAAATTACCATTTTACCCTCGAACCA
*
43582960 CC-AAAATT-CCATTTTTAACCCT-GATTCCA
1 CCAAAAATTACCA-TTTT-ACCCTCGA-ACCA
43582989 CCAAAAATTACCATTTTACCC
1 CCAAAAATTACCATTTTACCC
43583010 CCGGGTATCC
Statistics
Matches: 84, Mismatches: 13, Indels: 22
0.71 0.11 0.18
Matches are distributed among these distances:
27 5 0.06
28 25 0.30
29 26 0.31
30 23 0.27
31 5 0.06
ACGTcount: A:0.33, C:0.31, G:0.04, T:0.32
Consensus pattern (29 bp):
CCAAAAATTACCATTTTACCCTCGAACCA
Found at i:43583023 original size:58 final size:58
Alignment explanation
Indices: 43582873--43583009 Score: 247
Period size: 58 Copynumber: 2.4 Consensus size: 58
43582863 CCCAAACAGT
*
43582873 CCAAAAATTACCATTTTACCCTCGAACTTCCAAAATTCCATTTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCTCGAACTTCCAAAATTCCATTTTTAACCCCGATTCCA
* *
43582931 CCAAAAATTACCGTTTTACCCTCGAACTTCCAAAATTCCATTTTTAACCCTGATTCCA
1 CCAAAAATTACCATTTTACCCTCGAACTTCCAAAATTCCATTTTTAACCCCGATTCCA
43582989 CCAAAAATTACCATTTTACCC
1 CCAAAAATTACCATTTTACCC
43583010 CCGGGTATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 75 1.00
ACGTcount: A:0.33, C:0.31, G:0.04, T:0.32
Consensus pattern (58 bp):
CCAAAAATTACCATTTTACCCTCGAACTTCCAAAATTCCATTTTTAACCCCGATTCCA
Found at i:43595875 original size:108 final size:108
Alignment explanation
Indices: 43595745--43595941 Score: 290
Period size: 108 Copynumber: 1.8 Consensus size: 108
43595735 GGAGTTTGGA
* * * * *
43595745 AAAATTAAAAGGAAAAACATACCTTCTAAATTGTTGCCATATAGATCTA-TTCCTTGAAGCACAT
1 AAAATTAAAAGGAAAAACATACCTTCTAAACTGTTGCCAAACAGATCTATTTCCTCG-AGCACAG
43595809 TTGAATTAAAAATACTTGATGGAATTTGACCTGCGACATAGTCG
65 TTGAATTAAAAATACTTGATGGAATTTGACCTGCGACATAGTCG
* * *
43595853 AAAATT-AAAGTGAAAAACATACCTTCTAAACTGTTGTCAAACAGATCTATTTTCTCGAGCATAG
1 AAAATTAAAAG-GAAAAACATACCTTCTAAACTGTTGCCAAACAGATCTATTTCCTCGAGCACAG
43595917 TTGAATTAAAAATACTTGATGGAAT
65 TTGAATTAAAAATACTTGATGGAAT
43595942 GCTACCACAT
Statistics
Matches: 79, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
107 4 0.05
108 70 0.89
109 5 0.06
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.31
Consensus pattern (108 bp):
AAAATTAAAAGGAAAAACATACCTTCTAAACTGTTGCCAAACAGATCTATTTCCTCGAGCACAGT
TGAATTAAAAATACTTGATGGAATTTGACCTGCGACATAGTCG
Found at i:43600810 original size:59 final size:56
Alignment explanation
Indices: 43600654--43600848 Score: 201
Period size: 59 Copynumber: 3.3 Consensus size: 56
43600644 TGGGTTTTTA
* * *
43600654 GGGGTAAAATGGTAATTTTTGTGAAATCGGGGCTAAAAATGAAATTTGGAAAGTTT
1 GGGGTAAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGAATTTTGGAAAGTTT
** * ** *
43600710 GGGGAATAAAATGGTAAATTTTGGCAAAAACAAGGTCAAAAATGATATTTTGGAAAGTTT
1 GGGG--TAAAATGGT-AATTTTGGTGAAATCGGGGTTAAAAATGA-ATTTTGGAAAGTTT
* * * *
43600770 GGAGGCAAAACGGTAAGTTTTGGTGAAATCGGGGTTAAAAATGAGATTTAGGGAAGTTT
1 GG-GGTAAAATGGTAA-TTTTGGTGAAATCGGGGTTAAAAATGA-ATTTTGGAAAGTTT
43600829 GGGGGTAAAATGGTAATTTT
1 -GGGGTAAAATGGTAATTTT
43600849 TAAAGTTTCG
Statistics
Matches: 110, Mismatches: 22, Indels: 12
0.76 0.15 0.08
Matches are distributed among these distances:
56 4 0.04
58 15 0.14
59 72 0.65
60 17 0.15
61 2 0.02
ACGTcount: A:0.37, C:0.04, G:0.29, T:0.30
Consensus pattern (56 bp):
GGGGTAAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGAATTTTGGAAAGTTT
Found at i:43600957 original size:90 final size:88
Alignment explanation
Indices: 43600823--43601115 Score: 349
Period size: 90 Copynumber: 3.3 Consensus size: 88
43600813 AGATTTAGGG
*
43600823 AAGTTTGGGGGT-AAAATGGTAATTTTT-AAAGTTTCGGGGTCAAAATAAAATTTTAGAAAAGTT
1 AAGTTTTGGGGTCAAAAT-GTAATTTTTGAAAGTTTCGGGGTCAAAATAAAATTTTAGAAAAGTT
* * *
43600886 TTGGAGTCAAAATGTATTTTTGGA
65 TTGGGGTTAAAATATATTTTTGGA
* * *
43600910 GAACTTTTGGGGTCAAAATGTAATTTTTAGAAAGTATCGGGGTCAAAATATAATTTTTAG-AAAG
1 -AAGTTTTGGGGTCAAAATGTAATTTTT-GAAAGTTTCGGGGTCAAAATA-AAATTTTAGAAAAG
*
43600974 TTTTGGGGTTAAAATATAATTTTGGAA
63 TTTTGGGGTTAAAATATATTTTTGG-A
* * * * * * *
43601001 AAGTTTTGGGGTCGACATGTAATTTTGGAAAAGTTTTGGAGTCAAAATATAATTTTGGAAAAGTT
1 AAGTTTTGGGGTCAAAATGTAATTTTTG-AAAGTTTCGGGGTCAAAATAAAATTTTAGAAAAGTT
*
43601066 TTGGGGTTAAAATATAATTTTTAGA
65 TTGGGGTTAAAATAT-ATTTTTGGA
*
43601091 AAGTTTTGGGGTCGAAATGTAATTT
1 AAGTTTTGGGGTCAAAATGTAATTT
43601116 CTGGACAATT
Statistics
Matches: 176, Mismatches: 21, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
88 19 0.11
89 12 0.07
90 130 0.74
91 15 0.09
ACGTcount: A:0.35, C:0.04, G:0.24, T:0.38
Consensus pattern (88 bp):
AAGTTTTGGGGTCAAAATGTAATTTTTGAAAGTTTCGGGGTCAAAATAAAATTTTAGAAAAGTTT
TGGGGTTAAAATATATTTTTGGA
Found at i:43601114 original size:30 final size:30
Alignment explanation
Indices: 43600823--43601115 Score: 278
Period size: 30 Copynumber: 9.8 Consensus size: 30
43600813 AGATTTAGGG
*
43600823 AAGTTTGGGGGT-AAAATGGTAATTTTT--A
1 AAGTTTTGGGGTCAAAAT-GTAATTTTTAGA
* * *
43600851 AAGTTTCGGGGTCAAAAT-AAAATTTTAGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTTAG-A
* *
43600881 AAGTTTTGGAGTCAAAATGT-ATTTTTGGA
1 AAGTTTTGGGGTCAAAATGTAATTTTTAGA
*
43600910 GAACTTTTGGGGTCAAAATGTAATTTTTAGA
1 -AAGTTTTGGGGTCAAAATGTAATTTTTAGA
* * *
43600941 AAGTATCGGGGTCAAAATATAATTTTTAGA
1 AAGTTTTGGGGTCAAAATGTAATTTTTAGA
* * *
43600971 AAGTTTTGGGGTTAAAATATAA-TTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTTAG-A
* * *
43601001 AAGTTTTGGGGTCGACATGTAA-TTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTTAG-A
* * *
43601031 AAGTTTTGGAGTCAAAATATAA-TTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTTAG-A
* *
43601061 AAGTTTTGGGGTTAAAATATAATTTTTAGA
1 AAGTTTTGGGGTCAAAATGTAATTTTTAGA
*
43601091 AAGTTTTGGGGTCGAAATGTAATTT
1 AAGTTTTGGGGTCAAAATGTAATTT
43601116 CTGGACAATT
Statistics
Matches: 223, Mismatches: 33, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
27 6 0.03
28 11 0.05
29 11 0.05
30 182 0.82
31 13 0.06
ACGTcount: A:0.35, C:0.04, G:0.24, T:0.38
Consensus pattern (30 bp):
AAGTTTTGGGGTCAAAATGTAATTTTTAGA
Found at i:43601114 original size:60 final size:60
Alignment explanation
Indices: 43600823--43601120 Score: 320
Period size: 60 Copynumber: 5.0 Consensus size: 60
43600813 AGATTTAGGG
* * * *
43600823 AAGTTTGGGGGT-AAAATGGTAATTTTT--AAAGTTTCGGGGTCAAAATAAAATTTTAGAA
1 AAGTTTTGGGGTCAAAAT-GTAATTTTTAGAAAGTTTTGGGGTCAAAATATAATTTTGGAA
* * * * *
43600881 AAGTTTTGGAGTCAAAATGT-ATTTTTGGAGAACTTTTGGGGTCAAAATGTAATTTT-TAGA
1 AAGTTTTGGGGTCAAAATGTAATTTTTAGA-AAGTTTTGGGGTCAAAATATAATTTTGGA-A
* * * *
43600941 AAGTATCGGGGTCAAAATATAATTTTTAGAAAGTTTTGGGGTTAAAATATAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTTAGAAAGTTTTGGGGTCAAAATATAATTTTGGAA
* * * *
43601001 AAGTTTTGGGGTCGACATGTAA-TTTTGGAAAAGTTTTGGAGTCAAAATATAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTTAG-AAAGTTTTGGGGTCAAAATATAATTTTGGAA
* * * *
43601061 AAGTTTTGGGGTTAAAATATAATTTTTAGAAAGTTTTGGGGTCGAAATGTAATTTCTGGA
1 AAGTTTTGGGGTCAAAATGTAATTTTTAGAAAGTTTTGGGGTCAAAATATAATTT-TGGA
43601121 CAATTTAGGG
Statistics
Matches: 198, Mismatches: 32, Indels: 17
0.80 0.13 0.07
Matches are distributed among these distances:
57 6 0.03
58 12 0.06
59 12 0.06
60 150 0.76
61 18 0.09
ACGTcount: A:0.35, C:0.04, G:0.24, T:0.38
Consensus pattern (60 bp):
AAGTTTTGGGGTCAAAATGTAATTTTTAGAAAGTTTTGGGGTCAAAATATAATTTTGGAA
Found at i:43601397 original size:162 final size:162
Alignment explanation
Indices: 43601214--43601521 Score: 433
Period size: 162 Copynumber: 1.9 Consensus size: 162
43601204 TTGAAAATCA
**
43601214 TGAAAAATTTTCGGACCAATTTTGTAATTAAATAAAAGTTAATTTAAGGACTAAATTAAAATTAA
1 TGAAAAATTTTCGGACCAATTTTGTAATTAAATAAAAGTTAATTTAAGGACTAAATTAAAACAAA
* * *
43601279 TTAAAAATAG-AAAGGACTAAATGCATAAATAGGCCAAAAAACGACACGTGGCAGCCTCTGGTGC
66 TTAAAAAT-GTAAAGGACTAAATGCAGAAATAAGCAAAAAAACGACACGTGGCAGCCTCTGGT-C
43601343 -AGTCAAACAGTCAAAGGGCTATTTTATAAACCT
129 TAGTCAAACAGTCAAAGGGCTATTTTATAAACCT
* * * * *
43601376 TGAAAAATTATT-GGGCCAATTTTGTAATTAAATAAAAGTTGATTTAGGGATTAAATTGAAACAA
1 TGAAAAATT-TTCGGACCAATTTTGTAATTAAATAAAAGTTAATTTAAGGACTAAATTAAAACAA
* * * * *
43601440 ATTAAAAATGTCAGGGACTAAATGTAGGAATAAGCAAAAAAAGGACACGTGGCAGCCTCTGGTCT
65 ATTAAAAATGTAAAGGACTAAATGCAGAAATAAGCAAAAAAACGACACGTGGCAGCCTCTGGTCT
43601505 AGTCAAACAGTCAAAGG
130 AGTCAAACAGTCAAAGG
43601522 ATTATATTGA
Statistics
Matches: 128, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
161 2 0.02
162 124 0.97
163 2 0.02
ACGTcount: A:0.43, C:0.12, G:0.19, T:0.26
Consensus pattern (162 bp):
TGAAAAATTTTCGGACCAATTTTGTAATTAAATAAAAGTTAATTTAAGGACTAAATTAAAACAAA
TTAAAAATGTAAAGGACTAAATGCAGAAATAAGCAAAAAAACGACACGTGGCAGCCTCTGGTCTA
GTCAAACAGTCAAAGGGCTATTTTATAAACCT
Found at i:43601547 original size:162 final size:162
Alignment explanation
Indices: 43601189--43601535 Score: 425
Period size: 162 Copynumber: 2.1 Consensus size: 162
43601179 GGCATCCAGA
* * * *
43601189 AGTCAAGGGACTAATTTGA-AAATCATGAAAAATT-TTCGGACCAATTTTGTAATTAAATAAAAG
1 AGTCAAAGGACT-ATTTGATAAACCTTGAAAAATTATT-GGGCCAATTTTGTAATTAAATAAAAG
** * * *
43601252 TTAATTTAAGGACTAAATTAAAATTAATTAAAAATAGAAAGGACTAAATGCATAAATAGGCCAAA
64 TTAATTTAAGGACTAAATTAAAACAAATTAAAAATAGAAAGGACTAAATGCAGAAATAAGCAAAA
43601317 AAACGACACGTGGCAGCCTCTGGTGCAGTCAAAC
129 AAACGACACGTGGCAGCCTCTGGTGCAGTCAAAC
* *
43601351 AGTCAAAGGGCTATTTTATAAACCTTGAAAAATTATTGGGCCAATTTTGTAATTAAATAAAAGTT
1 AGTCAAAGGACTATTTGATAAACCTTGAAAAATTATTGGGCCAATTTTGTAATTAAATAAAAGTT
* * * * * * * *
43601416 GATTTAGGGATTAAATTGAAACAAATTAAAAAT-GTCAGGGACTAAATGTAGGAATAAGCAAAAA
66 AATTTAAGGACTAAATTAAAACAAATTAAAAATAG-AAAGGACTAAATGCAGAAATAAGCAAAAA
*
43601480 AAGGACACGTGGCAGCCTCTGGT-CTAGTCAAAC
130 AACGACACGTGGCAGCCTCTGGTGC-AGTCAAAC
*
43601513 AGTCAAAGGATTATATTGA-AAAC
1 AGTCAAAGGACTAT-TTGATAAAC
43601536 TAATTAAAAT
Statistics
Matches: 157, Mismatches: 23, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
161 7 0.04
162 145 0.92
163 5 0.03
ACGTcount: A:0.44, C:0.12, G:0.18, T:0.26
Consensus pattern (162 bp):
AGTCAAAGGACTATTTGATAAACCTTGAAAAATTATTGGGCCAATTTTGTAATTAAATAAAAGTT
AATTTAAGGACTAAATTAAAACAAATTAAAAATAGAAAGGACTAAATGCAGAAATAAGCAAAAAA
ACGACACGTGGCAGCCTCTGGTGCAGTCAAAC
Found at i:43602350 original size:14 final size:14
Alignment explanation
Indices: 43602331--43602360 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
43602321 CAGTCCCTTC
*
43602331 TATTTTTTTATTAT
1 TATTTTTTTATCAT
43602345 TATTTTTTTATCAT
1 TATTTTTTTATCAT
43602359 TA
1 TA
43602361 ATAATATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.73
Consensus pattern (14 bp):
TATTTTTTTATCAT
Found at i:43602430 original size:20 final size:21
Alignment explanation
Indices: 43602405--43602443 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
43602395 ATTACCAATA
*
43602405 TTTATT-AATGTTATTATTTT
1 TTTATTAAAAGTTATTATTTT
43602425 TTTATTAAAAGTTATTATT
1 TTTATTAAAAGTTATTATT
43602444 ATCAATATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (21 bp):
TTTATTAAAAGTTATTATTTT
Found at i:43603192 original size:6 final size:6
Alignment explanation
Indices: 43603183--43603266 Score: 73
Period size: 6 Copynumber: 13.8 Consensus size: 6
43603173 TTTTTTAATG
* ** * *
43603183 TTAAAT TTAATAT TTTAAT TTTTAT TTAAAT TTAAAT TCAAA- GTAAAT
1 TTAAAT TTAA-AT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
*
43603231 TTAAAT AATTAAAT TTAAAT TTAAA- ATAAAT TTAAA
1 TTAAAT --TTAAAT TTAAAT TTAAAT TTAAAT TTAAA
43603267 ATCAATGTAA
Statistics
Matches: 63, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
5 7 0.11
6 45 0.71
7 5 0.08
8 6 0.10
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (6 bp):
TTAAAT
Found at i:43603243 original size:31 final size:31
Alignment explanation
Indices: 43603208--43603266 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
43603198 TAATTTTTAT
*
43603208 TTAAATTTAAATTCAAAGTAAATTTAAATAA
1 TTAAATTTAAATTCAAAATAAATTTAAATAA
*
43603239 TTAAATTTAAATTTAAAATAAATTTAAA
1 TTAAATTTAAATTCAAAATAAATTTAAA
43603267 ATCAATGTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (31 bp):
TTAAATTTAAATTCAAAATAAATTTAAATAA
Found at i:43603260 original size:11 final size:11
Alignment explanation
Indices: 43603215--43603268 Score: 51
Period size: 11 Copynumber: 5.1 Consensus size: 11
43603205 TATTTAAATT
* *
43603215 TAAATTCAAAG
1 TAAATTTAAAA
43603226 TAAATTT-AAA
1 TAAATTTAAAA
*
43603236 T-AA-TTAAATT
1 TAAATTTAAA-A
43603246 TAAATTTAAAA
1 TAAATTTAAAA
43603257 TAAATTTAAAA
1 TAAATTTAAAA
43603268 T
1 T
43603269 CAATGTAACT
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
8 2 0.06
9 4 0.11
10 4 0.11
11 20 0.57
12 5 0.14
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:43603775 original size:38 final size:36
Alignment explanation
Indices: 43603733--43604314 Score: 210
Period size: 38 Copynumber: 16.6 Consensus size: 36
43603723 ATATCCAGTT
43603733 TTACTTCAATTTCAAGAGGATAGGAAACGATGTTACTC
1 TTACTTCAATTTCAAGAGGATA-GAAACG-TGTTACTC
* *
43603771 TTACTTCAATTTC-AGA-GAT-GAAGACTTGTTATCCAAC
1 TTACTTCAATTTCAAGAGGATAGAA-ACGTGTTA--C-TC
*
43603808 TCTACTTCAATTTCAAGAGGAT-G--AC--GTTGCTC
1 T-TACTTCAATTTCAAGAGGATAGAAACGTGTTACTC
*
43603840 TTACTTCAATTTC-AGA-GATA-AAGACGTGTTATCCAC
1 TTACTTCAATTTCAAGAGGATAGAA-ACGTGTTA--CTC
* *
43603876 TCTACTTCAATTTCAAGTGGAT-G--AC--GTTGCTC
1 T-TACTTCAATTTCAAGAGGATAGAAACGTGTTACTC
* * *
43603908 TTACTTCAATTTC-AGA-GATA-AAGACTTGATATCCAGTT
1 TTACTTCAATTTCAAGAGGATAGAA-ACGTG-T-T--ACTC
43603946 TTACTTCAATTTCAAGAGGATAGGAAACGATGTTACTC
1 TTACTTCAATTTCAAGAGGATA-GAAACG-TGTTACTC
* *
43603984 TTACTTCAATTTC-AGA-GAT-GAAGACTTGTTATCCAAC
1 TTACTTCAATTTCAAGAGGATAGAA-ACGTGTTA--C-TC
*
43604021 TCTACTTCAATTTCAAGAGGAT-G--AC--GTTGCTC
1 T-TACTTCAATTTCAAGAGGATAGAAACGTGTTACTC
*
43604053 TTACTTCAATTTC-AGA-GATA-AAGACGTGTTATCCAC
1 TTACTTCAATTTCAAGAGGATAGAA-ACGTGTTA--CTC
* *
43604089 TCTACTTCAATTTCAAGTGGAT-G--AC--GTTGCTC
1 T-TACTTCAATTTCAAGAGGATAGAAACGTGTTACTC
*
43604121 TTACTTCAATTTC-AGA-GATA-AAGACGTGTTATCCAC
1 TTACTTCAATTTCAAGAGGATAGAA-ACGTGTTA--CTC
* *
43604157 TCTACTTCAATTTCAAGGGGAT-G--AC--GTTGCTC
1 T-TACTTCAATTTCAAGAGGATAGAAACGTGTTACTC
* *
43604189 TTACTTCAATTTC-AGA-GATA-AAGCCGTGTTATCCAC
1 TTACTTCAATTTCAAGAGGATAGAA-ACGTGTTA--CTC
* *
43604225 TCTACTTCAATTTCAAGGGGAT-G--AC--GTTGCTC
1 T-TACTTCAATTTCAAGAGGATAGAAACGTGTTACTC
* * *
43604257 TTACTTCAATTTC-GGA-GATA-AAGACATGTTATCCAC
1 TTACTTCAATTTCAAGAGGATAGAA-ACGTGTTA--CTC
43604293 TCTACTTCAATTTCAAGAGGAT
1 T-TACTTCAATTTCAAGAGGAT
43604315 GACGTTGCTC
Statistics
Matches: 412, Mismatches: 44, Indels: 175
0.65 0.07 0.28
Matches are distributed among these distances:
29 18 0.04
30 13 0.03
31 72 0.17
32 27 0.07
33 2 0.00
34 44 0.11
35 11 0.03
36 31 0.08
37 74 0.18
38 76 0.18
39 24 0.06
40 13 0.03
41 3 0.01
42 4 0.01
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (36 bp):
TTACTTCAATTTCAAGAGGATAGAAACGTGTTACTC
Found at i:43603910 original size:68 final size:68
Alignment explanation
Indices: 43603768--43604381 Score: 958
Period size: 68 Copynumber: 8.9 Consensus size: 68
43603758 AACGATGTTA
* *
43603768 CTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATGAC
1 CTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCC-ACTCTACTTCAATTTCAAGAGGATGAC
43603833 GTTG
65 GTTG
*
43603837 CTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGTGGATGACG
1 CTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATGACG
43603902 TTG
66 TTG
* * * *
43603905 CTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGTTTTACTTCAATTTCAAGAGGATAGG
1 CTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCA-CTCTACTTCAATTTCAAGAGGAT--G
*
43603970 AAACGATGTTA
63 --AC---GTTG
* *
43603981 CTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATGAC
1 CTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCC-ACTCTACTTCAATTTCAAGAGGATGAC
43604046 GTTG
65 GTTG
*
43604050 CTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGTGGATGACG
1 CTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATGACG
43604115 TTG
66 TTG
*
43604118 CTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACG
1 CTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATGACG
43604183 TTG
66 TTG
* *
43604186 CTCTTACTTCAATTTCAGAGATAAAGCCGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACG
1 CTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATGACG
43604251 TTG
66 TTG
* *
43604254 CTCTTACTTCAATTTCGGAGATAAAGACATGTTATCCACTCTACTTCAATTTCAAGAGGATGACG
1 CTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATGACG
43604319 TTG
66 TTG
* * * *
43604322 CTCTTACTTTAAATTCAGAGATAAAGACATGTTATCCGCTCTACTTCAATTTCAAGAGGA
1 CTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGA
43604382 CGAAATGATC
Statistics
Matches: 509, Mismatches: 27, Indels: 19
0.92 0.05 0.03
Matches are distributed among these distances:
68 350 0.69
69 93 0.18
71 1 0.00
72 2 0.00
73 2 0.00
74 1 0.00
76 59 0.12
77 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.34
Consensus pattern (68 bp):
CTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATGACG
TTG
Done.