Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 142 of 343
Found at i:47080368 original size:20 final size:20
Alignment explanation
Indices: 47080305--47080369 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
47080295 AGTTTTTCCC
* * * *
47080305 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
47080325 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
47080344 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
47080365 AGCTC
1 AGCTC
47080370 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:47081986 original size:13 final size:13
Alignment explanation
Indices: 47081970--47082018 Score: 55
Period size: 13 Copynumber: 3.6 Consensus size: 13
47081960 CAAAAAAAAT
47081970 AAAAAAAAATTCG
1 AAAAAAAAATTCG
*
47081983 AAAAAAAAATTTG
1 AAAAAAAAATTCG
47081996 ATTGAAAAAAAATTC-
1 A---AAAAAAAATTCG
47082011 AAAAAAAA
1 AAAAAAAA
47082019 GTGAAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
12 7 0.23
13 13 0.42
15 1 0.03
16 10 0.32
ACGTcount: A:0.71, C:0.04, G:0.06, T:0.18
Consensus pattern (13 bp):
AAAAAAAAATTCG
Found at i:47083090 original size:12 final size:11
Alignment explanation
Indices: 47083075--47083201 Score: 52
Period size: 11 Copynumber: 11.5 Consensus size: 11
47083065 AAAGAGAGCG
47083075 AGAAAAGAATAA
1 AGAAAAGAA-AA
47083087 AGAAAAG--AA
1 AGAAAAGAAAA
*
47083096 AG-AAAGAAAG
1 AGAAAAGAAAA
47083106 A-AAAAGAAAA
1 AGAAAAGAAAA
47083116 ATGTGAAAAGAGACAA
1 A---GAAAAGA-A-AA
* * *
47083132 AAAAAAGAGAG
1 AGAAAAGAAAA
*
47083143 TGAAAAGAAAA
1 AGAAAAGAAAA
* *
47083154 AGAGATGAAAA
1 AGAAAAGAAAA
*
47083165 AGAAATTG--AA
1 AGAAA-AGAAAA
*
47083175 AGAGAAGAAAA
1 AGAAAAGAAAA
47083186 AG-AAAGAAAAA
1 AGAAAAG-AAAA
47083197 AGAAA
1 AGAAA
47083202 TTGAAAGAGA
Statistics
Matches: 85, Mismatches: 16, Indels: 28
0.66 0.12 0.22
Matches are distributed among these distances:
8 4 0.05
9 5 0.06
10 19 0.22
11 30 0.35
12 11 0.13
13 6 0.07
14 6 0.07
15 1 0.01
16 3 0.04
ACGTcount: A:0.72, C:0.01, G:0.22, T:0.06
Consensus pattern (11 bp):
AGAAAAGAAAA
Found at i:47083188 original size:32 final size:32
Alignment explanation
Indices: 47083147--47083211 Score: 105
Period size: 32 Copynumber: 2.0 Consensus size: 32
47083137 AGAGAGTGAA
*
47083147 AAGAAAAAGAGATG-AAAAAGAAATTGAAAGAG
1 AAGAAAAAGA-AAGAAAAAAGAAATTGAAAGAG
47083179 AAGAAAAAGAAAGAAAAAAGAAATTGAAAGAG
1 AAGAAAAAGAAAGAAAAAAGAAATTGAAAGAG
47083211 A
1 A
47083212 GCTTGAAAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 2 0.06
32 29 0.94
ACGTcount: A:0.69, C:0.00, G:0.23, T:0.08
Consensus pattern (32 bp):
AAGAAAAAGAAAGAAAAAAGAAATTGAAAGAG
Found at i:47083201 original size:17 final size:16
Alignment explanation
Indices: 47083077--47083201 Score: 62
Period size: 17 Copynumber: 7.5 Consensus size: 16
47083067 AGAGAGCGAG
47083077 AAAAGAATAAAGAAA-A
1 AAAAGAA-AAAGAAAGA
*
47083093 GAAAG--AAAGAAAGA
1 AAAAGAAAAAGAAAGA
47083107 AAAAGAAAAATGTGAAAAGA
1 AAAAGAAAAA---G-AAAGA
* *
47083127 GACAAA-AAAAAGAGAGTG
1 -A-AAAGAAAAAGAAAG-A
*
47083145 AAAAGAAAAAGAGATGA
1 AAAAGAAAAAGA-AAGA
**
47083162 AAAAGAAATTGAAAG-
1 AAAAGAAAAAGAAAGA
*
47083177 AGAAGAAAAAGAAAGAA
1 AAAAGAAAAAGAAAG-A
47083194 AAAAGAAA
1 AAAAGAAA
47083202 TTGAAAGAGA
Statistics
Matches: 81, Mismatches: 14, Indels: 27
0.66 0.11 0.22
Matches are distributed among these distances:
13 7 0.09
14 5 0.06
15 12 0.15
16 12 0.15
17 28 0.35
18 2 0.02
19 1 0.01
20 5 0.06
21 6 0.07
22 3 0.04
ACGTcount: A:0.72, C:0.01, G:0.22, T:0.06
Consensus pattern (16 bp):
AAAAGAAAAAGAAAGA
Found at i:47085060 original size:20 final size:20
Alignment explanation
Indices: 47085037--47085090 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
47085027 AGTTTTTCCC
*
47085037 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
47085057 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
47085077 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
47085091 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:47085072 original size:30 final size:30
Alignment explanation
Indices: 47085037--47085110 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
47085027 AGTTTTTCCC
47085037 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
47085067 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
47085097 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
47085111 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:47085100 original size:20 final size:20
Alignment explanation
Indices: 47085037--47085101 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
47085027 AGTTTTTCCC
* * * *
47085037 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
47085057 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
47085076 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
47085097 AGCTC
1 AGCTC
47085102 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:47089509 original size:15 final size:15
Alignment explanation
Indices: 47089470--47089548 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
47089460 GTATCTTGGG
*
47089470 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
47089485 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
47089500 TTTCTTTATT-TGGG
1 TTTCTTTATTCTGGA
*
47089514 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
47089529 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
47089543 TTTCTT
1 TTTCTT
47089549 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
13 1 0.02
14 18 0.34
15 32 0.60
16 2 0.04
ACGTcount: A:0.10, C:0.16, G:0.14, T:0.59
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:47089529 original size:44 final size:43
Alignment explanation
Indices: 47089465--47089548 Score: 123
Period size: 44 Copynumber: 1.9 Consensus size: 43
47089455 GTATCGTATC
*
47089465 TTGGGTTTCTTTATCCTGGATCTCTTTATTCTGGATTTCTTTAT
1 TTGGGTTTCTCTATCCTGGATCTCTTTATTC-GGATTTCTTTAT
* * *
47089509 TTGGGTTTCTCTATCTTGGATTTCTTTATTCGGTTTTCTT
1 TTGGGTTTCTCTATCCTGGATCTCTTTATTCGGATTTCTT
47089549 GTTATCTTTG
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
43 8 0.22
44 28 0.78
ACGTcount: A:0.10, C:0.15, G:0.17, T:0.58
Consensus pattern (43 bp):
TTGGGTTTCTCTATCCTGGATCTCTTTATTCGGATTTCTTTAT
Found at i:47089533 original size:29 final size:29
Alignment explanation
Indices: 47089461--47089547 Score: 86
Period size: 29 Copynumber: 3.0 Consensus size: 29
47089451 CATAGTATCG
* * * *
47089461 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTAT-TTGGATTTCTC
*
47089491 TAT-TCTGGATTTCTTTATTTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTTGGATTTCTC
* *
47089520 TATCTTGGATTTCTTTATTCGGTTTTCT
1 TATCTTGGATTTCTTTATTTGGATTTCT
47089548 TGTTATCTTT
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
29 32 0.67
30 16 0.33
ACGTcount: A:0.10, C:0.16, G:0.16, T:0.57
Consensus pattern (29 bp):
TATCTTGGATTTCTTTATTTGGATTTCTC
Found at i:47091543 original size:91 final size:91
Alignment explanation
Indices: 47091433--47091600 Score: 284
Period size: 91 Copynumber: 1.8 Consensus size: 91
47091423 AGGATGTTTG
*
47091433 GGCATCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG-TCGAACTCGTTGAGT
1 GGCATCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTTCGAACTCGTTGAGT
47091497 TGAGTCCAGTTCGAGAGATGTAACTA
66 TGAGTCCAGTTCGAGAGATGTAACTA
* *
47091523 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTTCGAGCTCGTTGAG
1 GGCAT-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTTCGAACTCGTTGAG
*
47091588 TTGAGTCGAGTTC
65 TTGAGTCCAGTTC
47091601 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
90 5 0.07
91 42 0.58
92 25 0.35
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.29
Consensus pattern (91 bp):
GGCATCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTTCGAACTCGTTGAGT
TGAGTCCAGTTCGAGAGATGTAACTA
Found at i:47091579 original size:46 final size:46
Alignment explanation
Indices: 47091437--47091608 Score: 190
Period size: 46 Copynumber: 3.8 Consensus size: 46
47091427 TGTTTGGGCA
*
47091437 TCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG-
1 TCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGT
*** * * * * *
47091482 TCGAACTCGTTGAGTTGAGTCC-AGTTCGAGAGATGTA-ACTAGGCAT
1 TCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGA-ACGT
* *
47091528 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGT
1 TCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGT
*
47091574 TCGAGCTCGTTGAGTTGAGT-CGAGTTCACTTATGG
1 TCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
47091609 GCGGGTTACA
Statistics
Matches: 102, Mismatches: 20, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
44 7 0.07
45 42 0.41
46 46 0.45
47 7 0.07
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.30
Consensus pattern (46 bp):
TCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGT
Found at i:47093792 original size:23 final size:21
Alignment explanation
Indices: 47093756--47093802 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 21
47093746 ACTCTCTATA
*
47093756 GTAGTCCTAGAACCGACTAAACT
1 GTAGTCCTAAAACC-ACTAAA-T
*
47093779 GTAGTTCTAAAACCACTAAAT
1 GTAGTCCTAAAACCACTAAAT
47093800 GTA
1 GTA
47093803 ATACCCCTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 4 0.18
22 6 0.27
23 12 0.55
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (21 bp):
GTAGTCCTAAAACCACTAAAT
Found at i:47101133 original size:10 final size:10
Alignment explanation
Indices: 47101120--47101153 Score: 68
Period size: 10 Copynumber: 3.4 Consensus size: 10
47101110 TAAGCTCGGT
47101120 TGAGCTCAAA
1 TGAGCTCAAA
47101130 TGAGCTCAAA
1 TGAGCTCAAA
47101140 TGAGCTCAAA
1 TGAGCTCAAA
47101150 TGAG
1 TGAG
47101154 TTGAATTGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.21
Consensus pattern (10 bp):
TGAGCTCAAA
Found at i:47101163 original size:20 final size:20
Alignment explanation
Indices: 47101119--47101165 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
47101109 GTAAGCTCGG
47101119 TTGAGCTCAAATGAGCTCAA
1 TTGAGCTCAAATGAGCTCAA
* * *
47101139 ATGAGCTCAAATGAGTTGAA
1 TTGAGCTCAAATGAGCTCAA
47101159 TTGAGCT
1 TTGAGCT
47101166 GGATGGAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (20 bp):
TTGAGCTCAAATGAGCTCAA
Found at i:47109368 original size:39 final size:39
Alignment explanation
Indices: 47109181--47109357 Score: 291
Period size: 39 Copynumber: 4.5 Consensus size: 39
47109171 ACAAAGCATG
47109181 CGGGACCTTAAGCCCGGATATAATACCAGCACGAATGCCTT
1 CGGGA-CTT-AGCCCGGATATAATACCAGCACGAATGCCTT
* *
47109222 CAGGACTTAGCCCGGATATAATGCCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
**
47109261 CGGGACTTAGCCCGGATATAGCACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
*
47109300 CAGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
47109339 CGGGACTTAGCCCGGATAT
1 CGGGACTTAGCCCGGATAT
47109358 TTTTCCAGCA
Statistics
Matches: 126, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
39 119 0.94
40 3 0.02
41 4 0.03
ACGTcount: A:0.28, C:0.29, G:0.24, T:0.20
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
Found at i:47109393 original size:39 final size:39
Alignment explanation
Indices: 47109350--47109442 Score: 143
Period size: 39 Copynumber: 2.4 Consensus size: 39
47109340 GGGACTTAGC
* *
47109350 CCGGATATTTTTCCAGCACT-TAGCCTGCGGACTTTAAGT
1 CCGGATATTTTTCCAGCA-TAAAGCCTGCGGACTTCAAGT
*
47109389 CCGGATATATTTCCAGCATAAAGCCTGCGGACTTCAAGT
1 CCGGATATTTTTCCAGCATAAAGCCTGCGGACTTCAAGT
47109428 CCGGATATTTTTCCA
1 CCGGATATTTTTCCA
47109443 ATACCATGCA
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
38 1 0.02
39 48 0.98
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (39 bp):
CCGGATATTTTTCCAGCATAAAGCCTGCGGACTTCAAGT
Found at i:47109393 original size:78 final size:78
Alignment explanation
Indices: 47109181--47109442 Score: 271
Period size: 78 Copynumber: 3.3 Consensus size: 78
47109171 ACAAAGCATG
** * * *
47109181 CGGGACCTTAAGCCCGGATATAATACCAGCACGAATGCCTTCAGGACTTAGCCCGGATATAATGC
1 CGGGA-CTT-AGCCCGGATATTTTTCCAGCACGAATGCCTGCAGGACTTAGCCCGGATATAATAC
47109246 CAGCACGAATGCCTT
64 CAGCACGAATGCCTT
**** *
47109261 CGGGACTTAGCCCGGATATAGCACCAGCACGAATGCCTTCAGGACTTAGCCCGGATATAATACCA
1 CGGGACTTAGCCCGGATATTTTTCCAGCACGAATGCCTGCAGGACTTAGCCCGGATATAATACCA
47109326 GCACGAATGCCTT
66 GCACGAATGCCTT
** * * *
47109339 CGGGACTTAGCCCGGATATTTTTCCAGCACTTA-GCCTGC-GGACTTTAAGTCCGGATATATTTC
1 CGGGACTTAGCCCGGATATTTTTCCAGCACGAATGCCTGCAGGAC-TT-AGCCCGGATATAATAC
* * *
47109402 CAGCA-TAAAGCCTG
64 CAGCACGAATGCCTT
*
47109416 C-GGACTTCAAGTCCGGATATTTTTCCA
1 CGGGACTT--AGCCCGGATATTTTTCCA
47109443 ATACCATGCA
Statistics
Matches: 161, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
76 10 0.06
77 14 0.09
78 129 0.80
79 3 0.02
80 5 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (78 bp):
CGGGACTTAGCCCGGATATTTTTCCAGCACGAATGCCTGCAGGACTTAGCCCGGATATAATACCA
GCACGAATGCCTT
Found at i:47115106 original size:39 final size:39
Alignment explanation
Indices: 47115058--47115224 Score: 289
Period size: 39 Copynumber: 4.3 Consensus size: 39
47115048 TGGGACTTTA
47115058 AGCCCGGATATAATACCAGCACGAATGCCTTCAGGACTT
1 AGCCCGGATATAATACCAGCACGAATGCCTTCAGGACTT
* *
47115097 AGCCCGGATATAATGCCAGCACGAATGCCTTCGGGACTT
1 AGCCCGGATATAATACCAGCACGAATGCCTTCAGGACTT
**
47115136 AGCCCGGATATAGCACCAGCACGAATGCCTTCAGGACTT
1 AGCCCGGATATAATACCAGCACGAATGCCTTCAGGACTT
*
47115175 AGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTT
1 AGCCCGGATATAATACCAGCACGAATGCCTTCAGGACTT
47115214 AGCCCGGATAT
1 AGCCCGGATAT
47115225 TTTTCCAGCA
Statistics
Matches: 119, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 119 1.00
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (39 bp):
AGCCCGGATATAATACCAGCACGAATGCCTTCAGGACTT
Found at i:47115260 original size:39 final size:39
Alignment explanation
Indices: 47115217--47115309 Score: 143
Period size: 39 Copynumber: 2.4 Consensus size: 39
47115207 GGGACTTAGC
* *
47115217 CCGGATATTTTTCCAGCACT-TAGCCTGCGGACTTTAAGT
1 CCGGATATTTTTCCAGCA-TAAAGCCTGCGGACTTCAAGT
*
47115256 CCGGATATATTTCCAGCATAAAGCCTGCGGACTTCAAGT
1 CCGGATATTTTTCCAGCATAAAGCCTGCGGACTTCAAGT
47115295 CCGGATATTTTTCCA
1 CCGGATATTTTTCCA
47115310 ATACCATGCA
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
38 1 0.02
39 48 0.98
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (39 bp):
CCGGATATTTTTCCAGCATAAAGCCTGCGGACTTCAAGT
Found at i:47115260 original size:78 final size:78
Alignment explanation
Indices: 47115049--47115309 Score: 269
Period size: 78 Copynumber: 3.3 Consensus size: 78
47115039 CAAAGCATGT
** * * *
47115049 GGGACTTTAAGCCCGGATATAATACCAGCACGAATGCCTTCAGGACTTAGCCCGGATATAATGCC
1 GGGAC-TT-AGCCCGGATATTTTTCCAGCACGAATGCCTGCAGGACTTAGCCCGGATATAATACC
47115114 AGCACGAATGCCTTC
64 AGCACGAATGCCTTC
**** *
47115129 GGGACTTAGCCCGGATATAGCACCAGCACGAATGCCTTCAGGACTTAGCCCGGATATAATACCAG
1 GGGACTTAGCCCGGATATTTTTCCAGCACGAATGCCTGCAGGACTTAGCCCGGATATAATACCAG
47115194 CACGAATGCCTTC
66 CACGAATGCCTTC
** * * *
47115207 GGGACTTAGCCCGGATATTTTTCCAGCACTTA-GCCTGC-GGACTTTAAGTCCGGATATATTTCC
1 GGGACTTAGCCCGGATATTTTTCCAGCACGAATGCCTGCAGGAC-TT-AGCCCGGATATAATACC
* * *
47115270 AGCA-TAAAGCCTGC
64 AGCACGAATGCCTTC
*
47115284 -GGACTTCAAGTCCGGATATTTTTCCA
1 GGGACTT--AGCCCGGATATTTTTCCA
47115310 ATACCATGCA
Statistics
Matches: 160, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
76 10 0.06
77 14 0.09
78 129 0.81
79 2 0.01
80 5 0.03
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (78 bp):
GGGACTTAGCCCGGATATTTTTCCAGCACGAATGCCTGCAGGACTTAGCCCGGATATAATACCAG
CACGAATGCCTTC
Found at i:47115299 original size:117 final size:118
Alignment explanation
Indices: 47115050--47115302 Score: 300
Period size: 117 Copynumber: 2.2 Consensus size: 118
47115040 AAAGCATGTG
47115050 GGACTTTAAGCCCGGATATAATACCAGCACGAATGCCTTCAGGACTTAGCCCGGATATAATGCCA
1 GGAC-TTAAGCCCGGATATAATACCAGCACGAATGCCTTCAGGACTTAGCCCGGATATAATGCCA
* * *
47115115 GCACGAATGCCTTCGGGACTTAGCCCGGATATAGCACCAGCACGAATGCCTTCA
65 GCACGAATGCCTGCGGGACTTAGCCCGGATATAGCACCAGCACGAAAGCCTGCA
* ** *
47115169 GGACTT-AGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATTTTTCCAG
1 GGACTTAAGCCCGGATATAATACCAGCACGAATGCCTTCAGGACTTAGCCCGGATATAATGCCAG
** * *** *
47115233 CACTTA-GCCTGC-GGACTTTAAGTCCGGATATATTTCCAGCA-TAAAGCCTGC-
66 CACGAATGCCTGCGGGAC-TT-AGCCCGGATATAGCACCAGCACGAAAGCCTGCA
*
47115284 GGACTTCAAGTCCGGATAT
1 GGACTT-AAGCCCGGATAT
47115303 TTTTCCAATA
Statistics
Matches: 115, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
115 10 0.09
116 14 0.12
117 85 0.74
118 2 0.02
119 4 0.03
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (118 bp):
GGACTTAAGCCCGGATATAATACCAGCACGAATGCCTTCAGGACTTAGCCCGGATATAATGCCAG
CACGAATGCCTGCGGGACTTAGCCCGGATATAGCACCAGCACGAAAGCCTGCA
Found at i:47126792 original size:30 final size:30
Alignment explanation
Indices: 47126757--47126817 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
47126747 TCCTTAACTC
*
47126757 AAACTTTTGCAAAATTACAATTTTGCCCCT
1 AAACTTTTCCAAAATTACAATTTTGCCCCT
* * * *
47126787 AAACTTTTCCATATTTATACTTTTGCCCCT
1 AAACTTTTCCAAAATTACAATTTTGCCCCT
47126817 A
1 A
47126818 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.25, G:0.05, T:0.41
Consensus pattern (30 bp):
AAACTTTTCCAAAATTACAATTTTGCCCCT
Found at i:47128091 original size:15 final size:14
Alignment explanation
Indices: 47128060--47128103 Score: 52
Period size: 15 Copynumber: 3.0 Consensus size: 14
47128050 CGAGTGTTGA
*
47128060 TGAAAAAGAAATGAG
1 TGAAAAAGAAA-AAG
47128075 TGAAAAAGAAGAAAG
1 TGAAAAAGAA-AAAG
*
47128090 TGAACAAGAAAAAG
1 TGAAAAAGAAAAAG
47128104 CGAGGAGTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
14 4 0.15
15 21 0.81
16 1 0.04
ACGTcount: A:0.64, C:0.02, G:0.25, T:0.09
Consensus pattern (14 bp):
TGAAAAAGAAAAAG
Found at i:47129787 original size:50 final size:52
Alignment explanation
Indices: 47129730--47129847 Score: 168
Period size: 50 Copynumber: 2.3 Consensus size: 52
47129720 TAATAAAGTT
* *
47129730 ATGCATTATGTAACTCTCATGTAAGTT-AAGTTTGCATCA-TAAATTATGAC
1 ATGCATTATGTAACTCCCATGTAAGTTAAAGTTTGCATCATTAAATTAAGAC
* * *
47129780 ATGCATTATGAAACTCCCATGTTAGTTAAAGTTTGCATCATTAAATTAAGTC
1 ATGCATTATGTAACTCCCATGTAAGTTAAAGTTTGCATCATTAAATTAAGAC
*
47129832 ATGCATTAAGTAACTC
1 ATGCATTATGTAACTC
47129848 ATTTGTTCAT
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
50 24 0.41
51 12 0.20
52 23 0.39
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.36
Consensus pattern (52 bp):
ATGCATTATGTAACTCCCATGTAAGTTAAAGTTTGCATCATTAAATTAAGAC
Found at i:47129847 original size:52 final size:51
Alignment explanation
Indices: 47129716--47129847 Score: 167
Period size: 50 Copynumber: 2.6 Consensus size: 51
47129706 ATGTGTTCTG
* * * *
47129716 CATTTAATAAAGTTATGCATTATGTAACTCTCATGTAAGTTAAGTTTGCAT
1 CATTAAATTAAGTCATGCATTATGTAACTCCCATGTAAGTTAAGTTTGCAT
* * * *
47129767 CA-TAAATTATGACATGCATTATGAAACTCCCATGTTAGTTAAAGTTTGCAT
1 CATTAAATTAAGTCATGCATTATGTAACTCCCATGTAAGTT-AAGTTTGCAT
*
47129818 CATTAAATTAAGTCATGCATTAAGTAACTC
1 CATTAAATTAAGTCATGCATTATGTAACTC
47129848 ATTTGTTCAT
Statistics
Matches: 67, Mismatches: 12, Indels: 3
0.82 0.15 0.04
Matches are distributed among these distances:
50 30 0.45
51 14 0.21
52 23 0.34
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.37
Consensus pattern (51 bp):
CATTAAATTAAGTCATGCATTATGTAACTCCCATGTAAGTTAAGTTTGCAT
Found at i:47131784 original size:17 final size:16
Alignment explanation
Indices: 47131742--47131790 Score: 53
Period size: 17 Copynumber: 3.0 Consensus size: 16
47131732 AGAAATTAAG
*
47131742 AGAAGTAAAAAAGAAA
1 AGAAATAAAAAAGAAA
* * *
47131758 TGATAGAAAAAAGTAAA
1 AGAAATAAAAAAG-AAA
47131775 AGAAATAAAAAAGAAA
1 AGAAATAAAAAAGAAA
47131791 GTGTATGAGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
16 12 0.48
17 13 0.52
ACGTcount: A:0.73, C:0.00, G:0.16, T:0.10
Consensus pattern (16 bp):
AGAAATAAAAAAGAAA
Found at i:47131821 original size:18 final size:18
Alignment explanation
Indices: 47131800--47131836 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
47131790 AGTGTATGAG
47131800 AAAAGAGAATGAAAAAGA
1 AAAAGAGAATGAAAAAGA
* *
47131818 AAAAGAGACTGAAAGAGA
1 AAAAGAGAATGAAAAAGA
47131836 A
1 A
47131837 TGTGAGCTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.68, C:0.03, G:0.24, T:0.05
Consensus pattern (18 bp):
AAAAGAGAATGAAAAAGA
Found at i:47133538 original size:50 final size:52
Alignment explanation
Indices: 47133474--47133572 Score: 157
Period size: 50 Copynumber: 1.9 Consensus size: 52
47133464 TTAATAAAGT
* *
47133474 CATGTATTATGTAACTCTCATGTTAGTT-AAGTTTGCATCA-TAAATTATGA
1 CATGCATTATGTAACTCCCATGTTAGTTAAAGTTTGCATCATTAAATTATGA
*
47133524 CATGCATTATGTAACTCCCATGTTAGTTAAAGTTTGCATTATTAAATTA
1 CATGCATTATGTAACTCCCATGTTAGTTAAAGTTTGCATCATTAAATTA
47133573 AGTCATACAT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
50 26 0.59
51 11 0.25
52 7 0.16
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.41
Consensus pattern (52 bp):
CATGCATTATGTAACTCCCATGTTAGTTAAAGTTTGCATCATTAAATTATGA
Found at i:47133592 original size:52 final size:50
Alignment explanation
Indices: 47133486--47133592 Score: 133
Period size: 52 Copynumber: 2.1 Consensus size: 50
47133476 TGTATTATGT
* * * * *
47133486 AACTCTCATGTTAGTTAAGTTTGCATCATAAATTATGACATGCATTATGT
1 AACTCCCATGTTAGTTAAGTTTGCATCATAAATTAAGACATACATTAAGG
* *
47133536 AACTCCCATGTTAGTTAAAGTTTGCATTATTAAATTAAGTCATACATTAAGG
1 AACTCCCATGTTAGTT-AAGTTTGCATCA-TAAATTAAGACATACATTAAGG
47133588 AACTC
1 AACTC
47133593 ATTTTTTCAT
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
50 15 0.31
51 11 0.23
52 22 0.46
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (50 bp):
AACTCCCATGTTAGTTAAGTTTGCATCATAAATTAAGACATACATTAAGG
Found at i:47136370 original size:17 final size:16
Alignment explanation
Indices: 47136331--47136378 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
47136321 AATATAAAAA
*
47136331 AAGTAAAAAAAAATCG
1 AAGTGAAAAAAAATCG
* *
47136347 AAGTGAAAAAAATTTG
1 AAGTGAAAAAAAATCG
47136363 AAGTTGAACAAAAAAT
1 AAG-TGAA-AAAAAAT
47136379 TGTAAAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
16 16 0.62
17 4 0.15
18 6 0.23
ACGTcount: A:0.62, C:0.04, G:0.15, T:0.19
Consensus pattern (16 bp):
AAGTGAAAAAAAATCG
Found at i:47144425 original size:18 final size:20
Alignment explanation
Indices: 47144389--47144435 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
47144379 AGTTGTAAGT
47144389 ATATATATGTGAATAATTTG
1 ATATATATGTGAATAATTTG
* *
47144409 ATAT-TATGTGACTATTTTG
1 ATATATATGTGAATAATTTG
47144428 ATGATATA
1 AT-ATATA
47144436 ACATGTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.36, C:0.02, G:0.15, T:0.47
Consensus pattern (20 bp):
ATATATATGTGAATAATTTG
Found at i:47144915 original size:51 final size:50
Alignment explanation
Indices: 47144786--47145163 Score: 168
Period size: 50 Copynumber: 7.8 Consensus size: 50
47144776 CCGTTGTGAG
* * * *
47144786 TCACATGTGTAGTACTAAGTGCCGGCTACTATGTGTACCAGATTGATAGG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATTAATAGA
* * * * *
47144836 TCGCATGTGTAGTACTAAATGCAAGCTACTATGCGTACCCG-TTAACTTTGA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATTAA--TAGA
* * ** * *
47144887 TCACATATGTAGTACTAAGTGTAGGCTACTATTTGTATC--A--AAT-GG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATTAATAGA
* * * * * * * *
47144932 TTA-A-GT-CA-CACTAAGTGCAGGCTACTACGTGCACCAGATTGATAGG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATTAATAGA
* * *
47144978 TCGCATGTGTAGTACTAAGTCCAGGCTACTATGCGTA-CACG-TTAACTTTGA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCA-GATTAA--TAGA
* * * *** * *
47145029 TCACGTGTGTAGTACAAAGTGGAGGCTACTACATGTATCAGATGGTTA-AG-
1 TCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGAT--TAATAGA
* * * * * *
47145079 TCACGTGTGTAGTACTAAGTGTAGG-------GTGTACCAGGTTGATAGG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATTAATAGA
* *
47145122 TCGCATGTGTAGTATTAAGTGCAGGCTACTATGCGTACCAGA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
47145164 GAGCTTCGGT
Statistics
Matches: 239, Mismatches: 61, Indels: 56
0.67 0.17 0.16
Matches are distributed among these distances:
41 23 0.10
42 3 0.01
43 31 0.13
44 1 0.00
45 5 0.02
46 4 0.02
47 1 0.00
48 4 0.02
49 9 0.04
50 87 0.36
51 66 0.28
52 3 0.01
54 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.30
Consensus pattern (50 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATTAATAGA
Found at i:47145055 original size:142 final size:142
Alignment explanation
Indices: 47144799--47145159 Score: 467
Period size: 142 Copynumber: 2.5 Consensus size: 142
47144789 CATGTGTAGT
* * * *
47144799 ACTAAGTGCCGGCTACTATGTGTACCAGATTGATAGGTCGCATGTGTAGTACTAAATGCAAGCTA
1 ACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTA
* * * **
47144864 CTATGCGTACCCGTTAACTTTGATCACATATGTAGTACTAAGTGTAGGCTACTATTTGTATCAAA
66 CTATGCGTACACGTTAACTTTGATCACATATGTAGTACAAAGTGGAGGCTACTACATGTATCAAA
47144929 TGGTTAAGTCAC
131 TGGTTAAGTCAC
* *
47144941 ACTAAGTGCAGGCTACTACGTGCACCAGATTGATAGGTCGCATGTGTAGTACTAAGTCCAGGCTA
1 ACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTA
* * *
47145006 CTATGCGTACACGTTAACTTTGATCACGTGTGTAGTACAAAGTGGAGGCTACTACATGTATCAGA
66 CTATGCGTACACGTTAACTTTGATCACATATGTAGTACAAAGTGGAGGCTACTACATGTATCAAA
47145071 TGGTTAAGTCAC
131 TGGTTAAGTCAC
* * * * * * *
47145083 -GT--GTGTAGTACTAAGTGTAGGGTGTACCAGGTTGATAGGTCGCATGTGTAGTATTAAGTGCA
1 ACTAAGTGCAG-GCT-A--CTA-CGTGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCA
47145145 GGCTACTATGCGTAC
61 GGCTACTATGCGTAC
47145160 CAGAGAGCTT
Statistics
Matches: 191, Mismatches: 23, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
139 5 0.03
140 2 0.01
141 2 0.01
142 128 0.67
143 2 0.01
144 52 0.27
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (142 bp):
ACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTA
CTATGCGTACACGTTAACTTTGATCACATATGTAGTACAAAGTGGAGGCTACTACATGTATCAAA
TGGTTAAGTCAC
Found at i:47148466 original size:27 final size:27
Alignment explanation
Indices: 47148436--47149004 Score: 670
Period size: 27 Copynumber: 21.1 Consensus size: 27
47148426 AAGTACTCCT
*
47148436 GATTTACAGAATTACTGTTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTC
47148463 GATTTACAGAATTACCGTTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTC
*
47148490 -AGTTTACAGAATTACTGTTTT-CCCTC
1 GA-TTTACAGAATTACCGTTTTACCCTC
*
47148516 GATTTATAGAATTACCGTTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTC
** *
47148543 GATTTGTAAAATTACCGTTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTC
**
47148570 -AGTTTACAGAATTACTATTTTACCCTC
1 GA-TTTACAGAATTACCGTTTTACCCTC
*
47148597 GATTTACAGAATTACCATTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTC
47148624 GATTTACAGAATTACCGTTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTC
* * *
47148651 AATTTATAGAATTACCATTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTC
*
47148678 GATTTACAGAATTACTGTTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTC
* *
47148705 -AGTTTGCAGAATTACTGTTTTACCCTC
1 GA-TTTACAGAATTACCGTTTTACCCTC
47148732 GATTTACAGAATTACCGTTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTC
**
47148759 -AGTTTACAGAATTATTGTTTT-CCCTC
1 GA-TTTACAGAATTACCGTTTTACCCTC
* *
47148785 GATTTATAGAATTATCGTTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTC
** *
47148812 GATTTGTAAAATTACCGTTTTACCCT-
1 GATTTACAGAATTACCGTTTTACCCTC
* * * **
47148838 TAGTTTAAAAAATTACTATTTTACCCTC
1 GA-TTTACAGAATTACCGTTTTACCCTC
*
47148866 GATTTACAAAATTACCGTTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTC
** * * *
47148893 GATTTGTAAAATTACCATTTTACCCTT
1 GATTTACAGAATTACCGTTTTACCCTC
* *
47148920 GATTTATAGAATTACTAG-TTTACCCTC
1 GATTTACAGAATTAC-CGTTTTACCCTC
* *
47148947 -AGTTTACAAAATTATCGTTTTACCCTC
1 GA-TTTACAGAATTACCGTTTTACCCTC
*
47148974 GATTTACAGAATTACCGTTTTACCCTT
1 GATTTACAGAATTACCGTTTTACCCTC
47149001 GATT
1 GATT
47149005 GTGAAATTAC
Statistics
Matches: 471, Mismatches: 55, Indels: 32
0.84 0.10 0.06
Matches are distributed among these distances:
26 51 0.11
27 416 0.88
28 4 0.01
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.41
Consensus pattern (27 bp):
GATTTACAGAATTACCGTTTTACCCTC
Found at i:47149039 original size:27 final size:27
Alignment explanation
Indices: 47149009--47149203 Score: 189
Period size: 27 Copynumber: 7.2 Consensus size: 27
47148999 TTGATTGTGA
*
47149009 AATTACTGAAATACCCCTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
47149036 AATTTCCGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
47149063 AATTACTAAAATACCCTTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
47149090 AATTACCGAAATACTCCC-GTAGGGTAG
1 AATTACTGAAATAC-CCCTGTAGGGTAG
* *
47149117 AATTA-TCGAAATACCCTTGTAGGGTGG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* *
47149144 AAATA-TCGAAATACTCCTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* ** * *
47149171 AATTACTGAGATACCTTTGTGGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
47149198 AATTAC
1 AATTAC
47149204 CATTTTGCCC
Statistics
Matches: 138, Mismatches: 26, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
26 2 0.01
27 133 0.96
28 3 0.02
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.28
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:47149077 original size:54 final size:54
Alignment explanation
Indices: 47149009--47149201 Score: 221
Period size: 54 Copynumber: 3.6 Consensus size: 54
47148999 TTGATTGTGA
* * *
47149009 AATTACTGAAATACCCCTGTAAGGTAGAATTTCCGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTTCCGAAATACCCCTGTAGGGTAG
* * *
47149063 AATTACTAAAATACCCTTATAGGGTAGAATTACCGAAATACTCCC-GTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTTCCGAAATAC-CCCTGTAGGGTAG
* * *
47149117 AATTA-TCGAAATACCCTTGTAGGGTGGAAATAT-CGAAATACTCCTGTAGGGTAG
1 AATTACT-GAAATACCCTTGTAGGGTAG-AATTTCCGAAATACCCCTGTAGGGTAG
* * * *
47149171 AATTACTGAGATACCTTTGTGGGGTAAAATT
1 AATTACTGAAATACCCTTGTAGGGTAGAATT
47149202 ACCATTTTGC
Statistics
Matches: 116, Mismatches: 18, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
53 6 0.05
54 103 0.89
55 7 0.06
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.28
Consensus pattern (54 bp):
AATTACTGAAATACCCTTGTAGGGTAGAATTTCCGAAATACCCCTGTAGGGTAG
Found at i:47149441 original size:27 final size:26
Alignment explanation
Indices: 47149403--47149485 Score: 121
Period size: 27 Copynumber: 3.1 Consensus size: 26
47149393 CGGAGGAAGC
*
47149403 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
47149430 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* *
47149456 GTATTTGGTGACTCTGCCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
47149483 GTT
1 GTT
47149486 GACCGATCGA
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
26 10 0.19
27 42 0.81
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:47149845 original size:27 final size:27
Alignment explanation
Indices: 47149796--47149866 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 27
47149786 TAGGTGGGTT
* * *
47149796 TGCCACATTATCTGATTCTGGTGGCTC
1 TGCCACAATATCTGATTCCGGTGACTC
47149823 TGCCACAATATCTG-TATCCGGTGACTC
1 TGCCACAATATCTGAT-TCCGGTGACTC
* *
47149850 TGTCACGATATCT-ATTC
1 TGCCACAATATCTGATTC
47149867 TGGCAGCCAT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
26 3 0.08
27 34 0.92
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.35
Consensus pattern (27 bp):
TGCCACAATATCTGATTCCGGTGACTC
Found at i:47149996 original size:6 final size:6
Alignment explanation
Indices: 47149987--47150088 Score: 68
Period size: 6 Copynumber: 16.8 Consensus size: 6
47149977 TTGCATTCAC
* * *
47149987 ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTTTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * *
47150036 -TTACTA ATAT-TG ATTCTG ATTGTA ATTCTG -TTACTG GTTCTG ATTCTG
1 ATT-CTG AT-TCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG
47150084 ATTCT
1 ATTCT
47150089 CATTTTGGTT
Statistics
Matches: 74, Mismatches: 13, Indels: 18
0.70 0.12 0.17
Matches are distributed among these distances:
5 6 0.08
6 61 0.82
7 5 0.07
8 2 0.03
ACGTcount: A:0.20, C:0.16, G:0.15, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:47150050 original size:30 final size:30
Alignment explanation
Indices: 47149987--47150088 Score: 125
Period size: 30 Copynumber: 3.4 Consensus size: 30
47149977 TTGCATTCAC
*
47149987 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTA-CTAATTCTG
*
47150018 ATTTTGATTCTGATTCTGTTACTAATAT-TG
1 ATTCTGATTCTGATTCTGTTACTAAT-TCTG
* * **
47150048 ATTCTGATTGTAATTCTGTTACTGGTTCTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
47150078 ATTCTGATTCT
1 ATTCTGATTCT
47150089 CATTTTGGTT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
29 1 0.02
30 40 0.66
31 20 0.33
ACGTcount: A:0.20, C:0.16, G:0.15, T:0.50
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACTAATTCTG
Found at i:47150097 original size:24 final size:23
Alignment explanation
Indices: 47150012--47150109 Score: 63
Period size: 24 Copynumber: 4.1 Consensus size: 23
47150002 CTGTCACCTA
47150012 ATTCTGATTTTGATTCTGATTCTG
1 ATTCT-ATTTTGATTCTGATTCTG
* * *
47150036 -TTACTAATATTGATTCTGATTGTA
1 ATT-CT-ATTTTGATTCTGATTCTG
* * *
47150060 ATTCTGTTACTGGTTCTGATTCTG
1 ATTCTATT-TTGATTCTGATTCTG
* **
47150084 ATTCTCATTTTGGTTCCAATTCTG
1 ATTCT-ATTTTGATTCTGATTCTG
47150108 AT
1 AT
47150110 AATGTTTCTT
Statistics
Matches: 56, Mismatches: 14, Indels: 8
0.72 0.18 0.10
Matches are distributed among these distances:
23 3 0.05
24 49 0.88
25 4 0.07
ACGTcount: A:0.19, C:0.14, G:0.15, T:0.51
Consensus pattern (23 bp):
ATTCTATTTTGATTCTGATTCTG
Found at i:47151886 original size:15 final size:15
Alignment explanation
Indices: 47151866--47151904 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
47151856 TATAATATTG
*
47151866 TATCTTGGATTTCCT
1 TATCTTGGATTTCCC
47151881 TATCTTGGATTTCCC
1 TATCTTGGATTTCCC
47151896 TATCTTGGA
1 TATCTTGGA
47151905 GATCCTAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.15, C:0.21, G:0.15, T:0.49
Consensus pattern (15 bp):
TATCTTGGATTTCCC
Found at i:47152296 original size:41 final size:41
Alignment explanation
Indices: 47152223--47152399 Score: 214
Period size: 41 Copynumber: 4.3 Consensus size: 41
47152213 TTAGCAAAAC
* * * *
47152223 AAACACCGCTAAAAA-TAGAGCAATAGCGGCGCTTTC-GATA
1 AAACGCCGCTAAAAACCAGAGCATTAGCGGCACTTTCTG-TA
* * * *
47152263 AAACGCCGCTAAAAACTAGAGCATTAGCAGCGCTTTCGGTA
1 AAACGCCGCTAAAAACCAGAGCATTAGCGGCACTTTCTGTA
**
47152304 AAACGCCATTAAAAACCAGAGCATTAGCGGCACTTTCTGTA
1 AAACGCCGCTAAAAACCAGAGCATTAGCGGCACTTTCTGTA
**
47152345 AAACGCCATTAAAAACCAGAGCATTAGCGGCACTTTCTGTA
1 AAACGCCGCTAAAAACCAGAGCATTAGCGGCACTTTCTGTA
*
47152386 AAATGCCGCTAAAA
1 AAACGCCGCTAAAA
47152400 GTTATATAAC
Statistics
Matches: 123, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
40 14 0.11
41 108 0.88
42 1 0.01
ACGTcount: A:0.38, C:0.24, G:0.19, T:0.20
Consensus pattern (41 bp):
AAACGCCGCTAAAAACCAGAGCATTAGCGGCACTTTCTGTA
Found at i:47152652 original size:14 final size:14
Alignment explanation
Indices: 47152630--47152853 Score: 66
Period size: 14 Copynumber: 15.8 Consensus size: 14
47152620 TTAATTATCA
*
47152630 TTATAGTTTAGGGT
1 TTATGGTTTAGGGT
*
47152644 TTATGGTTTAGGGC
1 TTATGGTTTAGGGT
* *
47152658 ATATGGTTAAGGGT
1 TTATGGTTTAGGGT
* *
47152672 TTAAGGTTTATGAGT
1 TTATGGTTTA-GGGT
* *
47152687 TACTAT--TTTAAGTT
1 T--TATGGTTTAGGGT
*
47152701 TTATGGATTATGGGT
1 TTATGGTTTA-GGGT
* * * *
47152716 TTAGGGATTATGAT
1 TTATGGTTTAGGGT
* *
47152730 TTAAGAG-TTGGGGT
1 TTATG-GTTTAGGGT
*
47152744 TTAAGGTTTAGGG-
1 TTATGGTTTAGGGT
*
47152757 TTATGGGTTAAGGG-
1 TTAT-GGTTTAGGGT
* * *
47152771 TTAGGGGTCTA-GGA
1 TTA-TGGTTTAGGGT
* * *
47152785 TTAAGAGTTTATGTT
1 TTATG-GTTTAGGGT
47152800 TTA-GGATTTAGGGT
1 TTATGG-TTTAGGGT
*
47152814 TTATGGTTTAGGGA
1 TTATGGTTTAGGGT
* *
47152828 TTAAGGATTAGGAGT
1 TTATGGTTTAGG-GT
*
47152843 TTAGGGTTTAG
1 TTATGGTTTAG
47152854 TTAATTAGTT
Statistics
Matches: 153, Mismatches: 41, Indels: 31
0.68 0.18 0.14
Matches are distributed among these distances:
12 3 0.02
13 8 0.05
14 104 0.68
15 36 0.24
17 2 0.01
ACGTcount: A:0.24, C:0.01, G:0.33, T:0.42
Consensus pattern (14 bp):
TTATGGTTTAGGGT
Found at i:47152804 original size:21 final size:21
Alignment explanation
Indices: 47152780--47152832 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
47152770 GTTAGGGGTC
*
47152780 TAGGATTAAGAGTTTATGTTT
1 TAGGATTAAGAGTTTATGGTT
* *
47152801 TAGGATTTAGGGTTTATGGTT
1 TAGGATTAAGAGTTTATGGTT
47152822 TAGGGATTAAG
1 TA-GGATTAAG
47152833 GATTAGGAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
21 20 0.74
22 7 0.26
ACGTcount: A:0.26, C:0.00, G:0.30, T:0.43
Consensus pattern (21 bp):
TAGGATTAAGAGTTTATGGTT
Found at i:47153444 original size:19 final size:21
Alignment explanation
Indices: 47153404--47153449 Score: 69
Period size: 19 Copynumber: 2.3 Consensus size: 21
47153394 ATATTAGATT
*
47153404 TAAAAAACATTGATAAATAAA
1 TAAAAAACATTGATAAACAAA
47153425 TAAAAAA-ATTGAT-AACAAA
1 TAAAAAACATTGATAAACAAA
47153444 TAAAAA
1 TAAAAA
47153450 TGAAATACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 11 0.46
20 6 0.25
21 7 0.29
ACGTcount: A:0.70, C:0.04, G:0.04, T:0.22
Consensus pattern (21 bp):
TAAAAAACATTGATAAACAAA
Found at i:47153463 original size:19 final size:19
Alignment explanation
Indices: 47153441--47153480 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
47153431 AATTGATAAC
*
47153441 AAATAAAAATGAAATACAA
1 AAATAAAAATAAAATACAA
*
47153460 AAATAAAAATAAAATATAA
1 AAATAAAAATAAAATACAA
47153479 AA
1 AA
47153481 TAGATATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.17
Consensus pattern (19 bp):
AAATAAAAATAAAATACAA
Found at i:47158516 original size:15 final size:16
Alignment explanation
Indices: 47158496--47158526 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
47158486 GTTTTTGTCT
47158496 TATATATGAT-TAAAA
1 TATATATGATCTAAAA
47158511 TATATATGATCTAAAA
1 TATATATGATCTAAAA
47158527 GCAAGAGAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.52, C:0.03, G:0.06, T:0.39
Consensus pattern (16 bp):
TATATATGATCTAAAA
Found at i:47160038 original size:43 final size:43
Alignment explanation
Indices: 47159967--47160122 Score: 141
Period size: 43 Copynumber: 3.6 Consensus size: 43
47159957 AATAATATTT
* * * * *
47159967 TAAAGGTTATGATTTTTAGCGACATTTGTGAGAAAAGTGCCGC
1 TAAAGGTCAAGATTTTTAGCGGCGTTTGTGAGAAAAGCGCCGC
* * * * *
47160010 TAAATGTCAAGATTTTTAGTGGCGTTTGTGGGAAAAGCGTCAC
1 TAAAGGTCAAGATTTTTAGCGGCGTTTGTGAGAAAAGCGCCGC
* * * *
47160053 TAAAGGTCATGCTCTTTAGCGGCGTTTGTGAAAAAAGCGCCGC
1 TAAAGGTCAAGATTTTTAGCGGCGTTTGTGAGAAAAGCGCCGC
** * * *
47160096 TAAAATTCATGGTCTTTAGCGGCGTTT
1 TAAAGGTCAAGATTTTTAGCGGCGTTT
47160123 TTTAAATAAA
Statistics
Matches: 91, Mismatches: 22, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
43 91 1.00
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (43 bp):
TAAAGGTCAAGATTTTTAGCGGCGTTTGTGAGAAAAGCGCCGC
Found at i:47162068 original size:38 final size:38
Alignment explanation
Indices: 47161953--47162070 Score: 121
Period size: 39 Copynumber: 3.0 Consensus size: 38
47161943 TCCAATTTCT
* * *
47161953 AGCACAAAGCCTACGGGATTTAACCCGGATATCTATTACC
1 AGCACTAAGCCTGCGGGATTTAACCCGGATA--TAATACC
* * * *
47161993 AGCACTAGGCCTG-TGGACTATAAGTCCGGATATAATACC
1 AGCACTAAGCCTGCGGGA-TTTAA-CCCGGATATAATACC
*
47162032 AGCATTAAGCCTGCGGGATTTAACCCGGATATAATACC
1 AGCACTAAGCCTGCGGGATTTAACCCGGATATAATACC
47162070 A
1 A
47162071 CATAAATTTT
Statistics
Matches: 63, Mismatches: 12, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
38 15 0.24
39 24 0.38
40 17 0.27
41 7 0.11
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (38 bp):
AGCACTAAGCCTGCGGGATTTAACCCGGATATAATACC
Found at i:47170246 original size:40 final size:39
Alignment explanation
Indices: 47170201--47170315 Score: 114
Period size: 39 Copynumber: 3.0 Consensus size: 39
47170191 TCTAGCACAA
*
47170201 AGCCTGCGGGATTTAACCCGGATATCTATTACCAGCACTAG
1 AGCCTGCGGGATTTAACCCGGATAT-TAATACCAGCA-TAG
* * * *
47170242 -GCCTGC-GGACTATAAGTCCGGATA-TAATATCAGCATTG
1 AGCCTGCGGGA-TTTAA-CCCGGATATTAATACCAGCATAG
47170280 AGCCTGCGGGATTTAACCCGGATA-TAATACCA-CATA
1 AGCCTGCGGGATTTAACCCGGATATTAATACCAGCATA
47170316 AATTTTGCCT
Statistics
Matches: 61, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
37 3 0.05
38 16 0.26
39 22 0.36
40 13 0.21
41 7 0.11
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (39 bp):
AGCCTGCGGGATTTAACCCGGATATTAATACCAGCATAG
Found at i:47174345 original size:18 final size:20
Alignment explanation
Indices: 47174309--47174355 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
47174299 AGTTGTAAGT
47174309 ATATATATGTGAATAATTTG
1 ATATATATGTGAATAATTTG
* *
47174329 ATAT-TATGTGATTATTTTG
1 ATATATATGTGAATAATTTG
47174348 ATGATATA
1 AT-ATATA
47174356 ACATGTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
ATATATATGTGAATAATTTG
Found at i:47174786 original size:50 final size:50
Alignment explanation
Indices: 47174703--47174982 Score: 294
Period size: 50 Copynumber: 5.6 Consensus size: 50
47174693 ATCCGTTGTG
47174703 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTA
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTA
* * * * * * * *
47174753 AGCCACGTCTGTGGTACTAAGTGCAGACCACTACGTGTACCAGATTGATA
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTA
* * * * * **
47174803 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTA-CACGTTAACTT-
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCA-GAT-GGTTA
*
47174853 TGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTA
1 AG-TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTA
* * * * * *
47174904 AGTCACATGTGTAGTACTAAGTGTAGGCTACTACATGTACCAGATTGATA
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTA
* * *
47174954 GGTCACATGTGTAGTACTAAGTGTAGGCT
1 AGTCACGTGTGTAGTACTAAGTGCAGGCT
47174983 CTTATGCTTA
Statistics
Matches: 189, Mismatches: 36, Indels: 10
0.80 0.15 0.04
Matches are distributed among these distances:
49 2 0.01
50 147 0.78
51 38 0.20
52 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (50 bp):
AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTA
Found at i:47174943 original size:101 final size:101
Alignment explanation
Indices: 47174703--47174943 Score: 272
Period size: 101 Copynumber: 2.4 Consensus size: 101
47174693 ATCCGTTGTG
* * *** * *
47174703 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCA-G--ATGGTTAAGCCACGTCTGT
1 AGTCACATGTGTAGTACTAAGTGCAGGCTACTACATGTA-CACGTTAACTTTGA-TCACGTCTGT
* *
47174765 GGTACTAAGTGCAGACCACTACGTGTACCAGATTGATA
64 AGTACTAAGTGCAGACCACTACGTGTACCAGATGGATA
* * ** *
47174803 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACACGTTAACTTTGATCACGTGTGTAG
1 AGTCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACACGTTAACTTTGATCACGTCTGTAG
* * * *
47174868 TACTAAGTGCAGGCTACTACGTGTATCAGATGGTTA
66 TACTAAGTGCAGACCACTACGTGTACCAGATGGATA
*
47174904 AGTCACATGTGTAGTACTAAGTGTAGGCTACTACATGTAC
1 AGTCACATGTGTAGTACTAAGTGCAGGCTACTACATGTAC
47174944 CAGATTGATA
Statistics
Matches: 117, Mismatches: 21, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
99 2 0.02
100 36 0.31
101 75 0.64
102 4 0.03
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (101 bp):
AGTCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACACGTTAACTTTGATCACGTCTGTAG
TACTAAGTGCAGACCACTACGTGTACCAGATGGATA
Found at i:47174982 original size:151 final size:151
Alignment explanation
Indices: 47174705--47174982 Score: 466
Period size: 151 Copynumber: 1.8 Consensus size: 151
47174695 CCGTTGTGAG
* *
47174705 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAAGCCACGTCTGTGGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAAGCCACATCTGTAGTAC
* *
47174770 TAAGTGCAGACCACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACT
66 TAAGTGCAGACCACTACATGTACCAGATTGATAGGTCACATGTGTAGTACTAAGTGCAGGCTACT
47174835 ATGTGTACACGTTAACTTTGA
131 ATGTGTACACGTTAACTTTGA
* *
47174856 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAAGTCACATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAAGCCACATCTGTAGTAC
* * * *
47174921 TAAGTGTAGGCTACTACATGTACCAGATTGATAGGTCACATGTGTAGTACTAAGTGTAGGCT
66 TAAGTGCAGACCACTACATGTACCAGATTGATAGGTCACATGTGTAGTACTAAGTGCAGGCT
47174983 CTTATGCTTA
Statistics
Matches: 117, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
151 117 1.00
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.30
Consensus pattern (151 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAAGCCACATCTGTAGTAC
TAAGTGCAGACCACTACATGTACCAGATTGATAGGTCACATGTGTAGTACTAAGTGCAGGCTACT
ATGTGTACACGTTAACTTTGA
Found at i:47175218 original size:16 final size:16
Alignment explanation
Indices: 47175197--47175228 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
47175187 AGAATGGAGT
47175197 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
47175213 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
47175229 TAAAACAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:47176420 original size:13 final size:13
Alignment explanation
Indices: 47176402--47176426 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47176392 AAATTGATGT
47176402 TATAATGTGTGTC
1 TATAATGTGTGTC
47176415 TATAATGTGTGT
1 TATAATGTGTGT
47176427 AAGTATGGGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.04, G:0.24, T:0.48
Consensus pattern (13 bp):
TATAATGTGTGTC
Found at i:47177983 original size:34 final size:34
Alignment explanation
Indices: 47177919--47177983 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 34
47177909 CTTAGGCCGT
* * *
47177919 ACTGCTACTGATAATGAAATGGGTTCAGGCCCAG
1 ACTGCTACTGATAATGAAATAGGCTAAGGCCCAG
* *
47177953 ACTGCTACTGTTATTGAAATAGGCTAAGGCC
1 ACTGCTACTGATAATGAAATAGGCTAAGGCC
47177984 TAACTGATAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 26 1.00
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (34 bp):
ACTGCTACTGATAATGAAATAGGCTAAGGCCCAG
Found at i:47179974 original size:8 final size:8
Alignment explanation
Indices: 47179963--47179998 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
47179953 CGAAAAACCC
47179963 GAAAAGCT
1 GAAAAGCT
47179971 GAAAAGCT
1 GAAAAGCT
* *
47179979 GAAATGCC
1 GAAAAGCT
47179987 GAAAAGCT
1 GAAAAGCT
47179995 GAAA
1 GAAA
47179999 GTTGGGCTAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.50, C:0.14, G:0.25, T:0.11
Consensus pattern (8 bp):
GAAAAGCT
Found at i:47180236 original size:29 final size:28
Alignment explanation
Indices: 47180203--47180281 Score: 86
Period size: 29 Copynumber: 2.8 Consensus size: 28
47180193 GCATGAGTAT
47180203 AATATGATTTGGGCCTAATGGGCCATAAG
1 AATATGA-TTGGGCCTAATGGGCCATAAG
* * **
47180232 AATATGAACTGGGCCAAATGGGCCATTTG
1 AATATG-ATTGGGCCTAATGGGCCATAAG
* *
47180261 AATAAGATTGGGCCTAGTGGG
1 AATATGATTGGGCCTAATGGG
47180282 TATATGCATG
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
28 12 0.29
29 28 0.68
30 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.30, T:0.25
Consensus pattern (28 bp):
AATATGATTGGGCCTAATGGGCCATAAG
Found at i:47195812 original size:20 final size:20
Alignment explanation
Indices: 47195762--47195818 Score: 53
Period size: 20 Copynumber: 2.7 Consensus size: 20
47195752 GAAAATGGCA
47195762 AAAAATAAAAGAAATTGAGAG
1 AAAAA-AAAAGAAATTGAGAG
* *
47195783 AAGTAAAAAATAAA-TGAGAG
1 AA-AAAAAAAGAAATTGAGAG
47195803 AAAAAGAAAAGGAAAT
1 AAAAA-AAAA-GAAAT
47195819 AAAAAGAGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 7
0.72 0.10 0.18
Matches are distributed among these distances:
19 2 0.07
20 12 0.43
21 12 0.43
22 2 0.07
ACGTcount: A:0.68, C:0.00, G:0.19, T:0.12
Consensus pattern (20 bp):
AAAAAAAAAGAAATTGAGAG
Found at i:47195945 original size:26 final size:26
Alignment explanation
Indices: 47195916--47195969 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
47195906 AATTGAAAAA
47195916 AGTGCAAGAGAGAAGAAAAAGAAAGT
1 AGTGCAAGAGAGAAGAAAAAGAAAGT
47195942 AGTGCAAGAGAGAAGAAAAAGAAAGT
1 AGTGCAAGAGAGAAGAAAAAGAAAGT
47195968 AG
1 AG
47195970 ACTTGAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.57, C:0.04, G:0.31, T:0.07
Consensus pattern (26 bp):
AGTGCAAGAGAGAAGAAAAAGAAAGT
Found at i:47197711 original size:50 final size:49
Alignment explanation
Indices: 47197581--47197711 Score: 149
Period size: 50 Copynumber: 2.6 Consensus size: 49
47197571 TTTTTTGGAT
* * *
47197581 TTAATAAAGTCATGCATTATGTAACTCTCATGTTAGTTAAGTTTGCATCA
1 TTAATTAAGTCATGCATTATGTAAC-CTCATGTTAGTTAAATTTGCATGA
* *
47197631 -TAATTTATTACATGCATTATGTAACTCTCATGTTAGTTAAATCTTGCATGA
1 TTAATTAAGT-CATGCATTATGTAAC-CTCATGTTAGTTAAAT-TTGCATGA
*
47197682 TTAAATTAAGTCATGCATTAAGTAA-CTCAT
1 TT-AATTAAGTCATGCATTATGTAACCTCAT
47197712 TTGTTCATTT
Statistics
Matches: 69, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
49 6 0.09
50 36 0.52
51 7 0.10
52 14 0.20
53 6 0.09
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.40
Consensus pattern (49 bp):
TTAATTAAGTCATGCATTATGTAACCTCATGTTAGTTAAATTTGCATGA
Found at i:47208811 original size:51 final size:49
Alignment explanation
Indices: 47208767--47208864 Score: 151
Period size: 51 Copynumber: 2.0 Consensus size: 49
47208757 TAATTGCTGA
* *
47208767 AATTATTTAAGCAGCTAAAGAAAATTAAAAAACAACTTAATTAATTAAAAT
1 AATTATTTAAACAACTAAAGAAAATT--AAAACAACTTAATTAATTAAAAT
*
47208818 AATTATTTAAACAACTAAAGACAATTAAAACAACTTAATTAATTAAA
1 AATTATTTAAACAACTAAAGAAAATTAAAACAACTTAATTAATTAAA
47208865 CTAGAATAAC
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
49 21 0.48
51 23 0.52
ACGTcount: A:0.57, C:0.09, G:0.04, T:0.30
Consensus pattern (49 bp):
AATTATTTAAACAACTAAAGAAAATTAAAACAACTTAATTAATTAAAAT
Found at i:47209733 original size:13 final size:13
Alignment explanation
Indices: 47209715--47209739 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47209705 AGATAGGGAG
47209715 CCTTGACCTGTTA
1 CCTTGACCTGTTA
47209728 CCTTGACCTGTT
1 CCTTGACCTGTT
47209740 CGAGGTGCTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.32, G:0.16, T:0.40
Consensus pattern (13 bp):
CCTTGACCTGTTA
Found at i:47211545 original size:43 final size:43
Alignment explanation
Indices: 47211471--47211593 Score: 178
Period size: 42 Copynumber: 2.9 Consensus size: 43
47211461 TCTGAACTCA
* **
47211471 TTCACCGGCATT-TTGCCTGCTAGGCTTGAAGCCCGATATCAT
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
*
47211513 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGA-ATTAT
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
* *
47211555 CTCACCGACATTATAGCCTGCTAGGCCCGAAGCCCGATA
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATA
47211594 ATATTATTCA
Statistics
Matches: 73, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
42 51 0.70
43 22 0.30
ACGTcount: A:0.23, C:0.32, G:0.21, T:0.24
Consensus pattern (43 bp):
TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
Found at i:47293151 original size:18 final size:18
Alignment explanation
Indices: 47293111--47293151 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 18
47293101 GCCCATTCCG
* *
47293111 AAGTATATATATACATAT
1 AAGTATGTATATACACAT
47293129 -A-TATGTATATACACAT
1 AAGTATGTATATACACAT
47293145 AAGTATG
1 AAGTATG
47293152 CCCATTCGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 4
0.76 0.08 0.16
Matches are distributed among these distances:
16 13 0.68
17 2 0.11
18 4 0.21
ACGTcount: A:0.46, C:0.07, G:0.10, T:0.37
Consensus pattern (18 bp):
AAGTATGTATATACACAT
Found at i:47293659 original size:28 final size:28
Alignment explanation
Indices: 47293619--47293772 Score: 265
Period size: 28 Copynumber: 5.5 Consensus size: 28
47293609 TAAATTGTAC
47293619 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
47293647 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
47293675 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
47293703 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
47293731 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
47293758 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
47293773 GACTTAATAT
Statistics
Matches: 122, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
27 24 0.20
28 98 0.80
ACGTcount: A:0.26, C:0.12, G:0.29, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:47293786 original size:56 final size:56
Alignment explanation
Indices: 47293594--47293772 Score: 270
Period size: 56 Copynumber: 3.2 Consensus size: 56
47293584 GAGATTGGCG
* * * * *
47293594 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAGCTTGATTATGTAGCA
*
47293651 CTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGCTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGCTTGATTATGTAGCA
*
47293707 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGCTTGATTATGTAGCA
*
47293762 CTGAGTGTGCG
1 CTAAGTGTGCG
47293773 GACTTAATAT
Statistics
Matches: 113, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
55 23 0.20
56 75 0.66
57 15 0.13
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.34
Consensus pattern (56 bp):
CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGCTTGATTATGTAGCA
Found at i:47301434 original size:18 final size:18
Alignment explanation
Indices: 47301394--47301434 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 18
47301384 GCCCATTCCG
* *
47301394 AAGTATATATATACATAT
1 AAGTATGTATATACACAT
47301412 -A-TATGTATATACACAT
1 AAGTATGTATATACACAT
47301428 AAGTATG
1 AAGTATG
47301435 CCCATTCGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 4
0.76 0.08 0.16
Matches are distributed among these distances:
16 13 0.68
17 2 0.11
18 4 0.21
ACGTcount: A:0.46, C:0.07, G:0.10, T:0.37
Consensus pattern (18 bp):
AAGTATGTATATACACAT
Found at i:47301921 original size:28 final size:28
Alignment explanation
Indices: 47301878--47302027 Score: 205
Period size: 28 Copynumber: 5.4 Consensus size: 28
47301868 GAGATTGGCG
* * *
47301878 CTAAGTGTGCGGGTTTAAATT-TACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
47301906 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
* *
47301934 CTAAGTGTGCGAGCTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
47301962 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
47301990 CTAACTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
47302017 CTGAGTGTGCG
1 CTAAGTGTGCG
47302028 GACTTAATAT
Statistics
Matches: 111, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
27 26 0.23
28 85 0.77
ACGTcount: A:0.26, C:0.13, G:0.27, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:47313722 original size:40 final size:40
Alignment explanation
Indices: 47313678--47313860 Score: 262
Period size: 40 Copynumber: 4.6 Consensus size: 40
47313668 GCCACTTGCT
* **
47313678 CAAATGCCTTCGGGACTTAGCCC-GTATATAGTAGTTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
47313718 CAAATGCCTTTGGGACTTAGACCGG-ATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
47313758 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* *
47313798 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
47313838 CAAATGCCTTCGGGGCTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
47313861 CGTTATCATC
Statistics
Matches: 132, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
40 129 0.98
41 3 0.02
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:47313797 original size:80 final size:80
Alignment explanation
Indices: 47313645--47313860 Score: 285
Period size: 80 Copynumber: 2.7 Consensus size: 80
47313635 AAACCAAGTA
* * * * *
47313645 CCTTCGGGATTTA-ACCGGATATAGCCACTTGCTCAAATGCCTTCGGGACTTAGCCCGTATATAG
1 CCTTCGGGACTTAGACCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGAATATAG
**
47313709 TAGTTCGCACAAATG
66 TAACTCGCACAAATG
* * *
47313724 CCTTTGGGACTTAGACCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TA
1 CCTTCGGGACTTAGACCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCC-GAATATA
47313788 GTAACTCGCACAAATG
65 GTAACTCGCACAAATG
* *
47313804 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATGCCTTCGGGGCTTAGCCC
1 CCTTCGGGACTTAGACCGGATA-TAGTCACTAGCACAAATGCCTTCGGGACTTAGCCC
47313861 CGTTATCATC
Statistics
Matches: 120, Mismatches: 14, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
79 12 0.10
80 105 0.88
81 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
CCTTCGGGACTTAGACCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGAATATAG
TAACTCGCACAAATG
Found at i:47316787 original size:26 final size:26
Alignment explanation
Indices: 47316758--47316842 Score: 68
Period size: 26 Copynumber: 3.3 Consensus size: 26
47316748 GTGAGAACAC
*
47316758 ATGTGTAGTACTATGTGCAGGCTACT
1 ATGTGTAGTACTAAGTGCAGGCTACT
* * * **
47316784 ATGTGT-TTAATACGGTTTTAGG-TCAC-
1 ATGTGTAGTACTA-AG-TGCAGGCT-ACT
47316810 ATGTGTAGTACTAAGTGCAGGCTACT
1 ATGTGTAGTACTAAGTGCAGGCTACT
47316836 ATGTGTA
1 ATGTGTA
47316843 CCAGATTGTT
Statistics
Matches: 43, Mismatches: 10, Indels: 12
0.66 0.15 0.18
Matches are distributed among these distances:
25 10 0.23
26 23 0.53
27 10 0.23
ACGTcount: A:0.25, C:0.13, G:0.26, T:0.36
Consensus pattern (26 bp):
ATGTGTAGTACTAAGTGCAGGCTACT
Found at i:47316874 original size:50 final size:50
Alignment explanation
Indices: 47316755--47317048 Score: 347
Period size: 50 Copynumber: 5.8 Consensus size: 50
47316745 ATTGTGAGAA
* ** *
47316755 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAATACGGTT-TTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTG--TACCA-GATTGTTAGGT
47316807 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGT
* * * * * * *
47316857 CGCATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCCGATAGCTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTG-TTAGGT
* * * * *
47316908 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCTGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGT
* * * * *
47316958 CACATGTGTAGTACTAAGTACAAGCTACTACGTGTACTAGATTGCTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGT
*
47317008 CACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA
47317049 GAGCTTAGAT
Statistics
Matches: 206, Mismatches: 34, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
49 3 0.01
50 130 0.63
51 40 0.19
52 33 0.16
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGT
Found at i:47316943 original size:101 final size:100
Alignment explanation
Indices: 47316806--47317048 Score: 333
Period size: 101 Copynumber: 2.4 Consensus size: 100
47316796 CGGTTTTAGG
* * *
47316806 TCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGGTTAGGTCACATGTGTAGTAC
** * * * *
47316871 TAAGTGTAGGCTACTATGCGTACCCGATAGCTTCGA
66 TAAGTACAAGCTACTACGCGTACCAGATAGC-TAGA
* * *
47316907 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCTGATGGTTAGGTCACATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGGTTAGGTCACATGTGTAGTAC
* * * *
47316972 TAAGTACAAGCTACTACGTGTACTAGATTGCTAGG
66 TAAGTACAAGCTACTACGCGTACCAGATAGCTAGA
47317007 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA
47317049 GAGCTTAGAT
Statistics
Matches: 123, Mismatches: 19, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
100 41 0.33
101 82 0.67
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGGTTAGGTCACATGTGTAGTAC
TAAGTACAAGCTACTACGCGTACCAGATAGCTAGA
Found at i:47317035 original size:151 final size:151
Alignment explanation
Indices: 47316759--47317054 Score: 416
Period size: 151 Copynumber: 1.9 Consensus size: 151
47316749 TGAGAACACA
* *
47316759 TGTGTAGTACTATGTGCAGGCTACTATGTGTTTAATACGGTTTTAGGTCACATGTGTAGTACTAA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTTTAATA-GG-TTTAGGTCACATGTGTAGTACTAA
* * * * * *
47316824 GTGCAGGCTACTATGTGTACCAGATTGTTAGGTCGCATGTGTAGTACTAAGTGTAGGCTACTATG
64 GTACAAGCTACTACGTGTACCAGATTGCTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATG
* *
47316889 CGTACCCGATAGCTTCGATCACG
129 CGTACCAGAGAGCTTCGATCACG
*
47316912 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCTGAT-GG-TTAGGTCACATGTGTAGTACTAA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGT-T-TAATAGGTTTAGGTCACATGTGTAGTACTAA
* *
47316975 GTACAAGCTACTACGTGTACTAGATTGCTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATG
64 GTACAAGCTACTACGTGTACCAGATTGCTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATG
*
47317040 TGTACCAGAGAGCTT
129 CGTACCAGAGAGCTT
47317055 AGATTACAAG
Statistics
Matches: 127, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
151 92 0.72
153 31 0.24
154 1 0.01
155 3 0.02
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (151 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTTTAATAGGTTTAGGTCACATGTGTAGTACTAAGT
ACAAGCTACTACGTGTACCAGATTGCTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCG
TACCAGAGAGCTTCGATCACG
Found at i:47321080 original size:10 final size:10
Alignment explanation
Indices: 47321067--47321102 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
47321057 TACTCAACTC
47321067 AGCTCATTTG
1 AGCTCATTTG
*
47321077 AGCTCATTTT
1 AGCTCATTTG
47321087 AGCTCATTTG
1 AGCTCATTTG
*
47321097 ATCTCA
1 AGCTCA
47321103 CCTTTATTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.22, C:0.22, G:0.14, T:0.42
Consensus pattern (10 bp):
AGCTCATTTG
Found at i:47321082 original size:20 final size:20
Alignment explanation
Indices: 47321059--47321102 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
47321049 CTTCGTTCTA
47321059 CTCAACTCAGCTCATTTGAG
1 CTCAACTCAGCTCATTTGAG
** * *
47321079 CTCATTTTAGCTCATTTGAT
1 CTCAACTCAGCTCATTTGAG
47321099 CTCA
1 CTCA
47321103 CCTTTATTTC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.23, C:0.27, G:0.11, T:0.39
Consensus pattern (20 bp):
CTCAACTCAGCTCATTTGAG
Found at i:47328514 original size:24 final size:23
Alignment explanation
Indices: 47328440--47328528 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 23
47328430 ATTGATGGAT
*
47328440 AGTAAGCTCTATTGAGCT-AAAAC
1 AGTAAGCTCTA-CGAGCTGAAAAC
* *
47328463 GGTAAGCTCTAACGAGTTG--AAC
1 AGTAAGCTCT-ACGAGCTGAAAAC
*
47328485 AATAAGCTCATACGAGCTGAAAAC
1 AGTAAGCTC-TACGAGCTGAAAAC
47328509 AGTAAGCTCTTACGAGCTGA
1 AGTAAGCTC-TACGAGCTGA
47328529 TCTATCGATA
Statistics
Matches: 53, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
22 17 0.32
23 14 0.26
24 22 0.42
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.22
Consensus pattern (23 bp):
AGTAAGCTCTACGAGCTGAAAAC
Found at i:47335848 original size:9 final size:10
Alignment explanation
Indices: 47335836--47335892 Score: 57
Period size: 9 Copynumber: 5.8 Consensus size: 10
47335826 TACGTGGGAT
47335836 ATGATAT-AC
1 ATGATATGAC
*
47335845 ATGAT-TGAT
1 ATGATATGAC
47335854 ATGATATGCAC
1 ATGATATG-AC
*
47335865 ATGATATG-T
1 ATGATATGAC
47335874 ATGATATGCAC
1 ATGATATG-AC
47335885 ATGATATG
1 ATGATATG
47335893 TATGAAATGC
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
8 1 0.03
9 19 0.49
10 2 0.05
11 17 0.44
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (10 bp):
ATGATATGAC
Found at i:47335868 original size:20 final size:20
Alignment explanation
Indices: 47335835--47335909 Score: 111
Period size: 20 Copynumber: 3.9 Consensus size: 20
47335825 ATACGTGGGA
47335835 TATGATAT--ACATGAT-TG
1 TATGATATGCACATGATATG
47335852 ATATGATATGCACATGATATG
1 -TATGATATGCACATGATATG
47335873 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
47335893 TATGAAATGCACATGAT
1 TATGATATGCACATGAT
47335910 GAATTCATAA
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
18 8 0.15
20 43 0.81
21 2 0.04
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (20 bp):
TATGATATGCACATGATATG
Found at i:47335870 original size:11 final size:11
Alignment explanation
Indices: 47335854--47335909 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
47335844 CATGATTGAT
47335854 ATGATATGCAC
1 ATGATATGCAC
*
47335865 ATGATATG--T
1 ATGATATGCAC
47335874 ATGATATGCAC
1 ATGATATGCAC
*
47335885 ATGATATG--T
1 ATGATATGCAC
*
47335894 ATGAAATGCAC
1 ATGATATGCAC
47335905 ATGAT
1 ATGAT
47335910 GAATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:47335988 original size:26 final size:26
Alignment explanation
Indices: 47335959--47336046 Score: 140
Period size: 26 Copynumber: 3.4 Consensus size: 26
47335949 AAGGAAGTGC
47335959 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* **
47335985 AAAAGGGCTTATGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
47336011 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
47336037 AAAAAGGCTT
1 AAAAGGGCTT
47336047 TGTAACACTC
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:47337778 original size:39 final size:39
Alignment explanation
Indices: 47337735--47337816 Score: 137
Period size: 39 Copynumber: 2.1 Consensus size: 39
47337725 AATTATGTTA
*
47337735 CCAGCACAAAGCCTGTGGGACTTTAGCCCGGATACATTT
1 CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTT
* *
47337774 CCAGCACGAAGCCTGCGGGTCTTTAGCCCGGATACATTT
1 CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTT
47337813 CCAG
1 CCAG
47337817 TGTCTTGCTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.23, C:0.30, G:0.24, T:0.22
Consensus pattern (39 bp):
CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTT
Found at i:47348926 original size:25 final size:25
Alignment explanation
Indices: 47348875--47348930 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
47348865 CAACTCTTTC
*
47348875 GAGCTATGAACAGTAAGCTCCTCTT
1 GAGCTATGAACAGTAAGCTCCTATT
* *
47348900 GAGCTGATGGACAGTAAGCT-GTATT
1 GAGCT-ATGAACAGTAAGCTCCTATT
47348925 GAGCTA
1 GAGCTA
47348931 AAATGGTAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 1 0.04
25 13 0.48
26 13 0.48
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.27
Consensus pattern (25 bp):
GAGCTATGAACAGTAAGCTCCTATT
Found at i:47354246 original size:53 final size:54
Alignment explanation
Indices: 47354063--47354270 Score: 204
Period size: 53 Copynumber: 3.9 Consensus size: 54
47354053 CATTAGGGTT
* * * * *
47354063 CAAGGATACCAAGTAAGACCATGCCAAGGA-ATGACATTGGTAAATTCTACAAGG
1 CAAGGATACCATGTAAGACCATGCCAA-GACATGGCAATGGTAAGTTCTATAAGG
* * * * * * * *
47354117 CAAGGAAATCATGTAAGACCATGTCAAGATATGGCATTGATAAACTACTATAAGG
1 CAAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTCTATAAGG
* * * * * *
47354172 GAAAGATCCCATGTAACACCATGCCAAGGCATGGCAATGGTGAGTTC-ATAAGG
1 CAAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGG
*
47354225 CAAGGATACCATGTAAGACCATGCCAAGACATGGAAATGGTAAGTT
1 CAAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
47354271 TAAAAAGAAA
Statistics
Matches: 122, Mismatches: 30, Indels: 5
0.78 0.19 0.03
Matches are distributed among these distances:
53 47 0.39
54 35 0.29
55 40 0.33
ACGTcount: A:0.39, C:0.18, G:0.23, T:0.20
Consensus pattern (54 bp):
CAAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGG
Found at i:47360694 original size:34 final size:34
Alignment explanation
Indices: 47360646--47360710 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
47360636 TATTGCATTT
* *
47360646 CTGTTACTGTTACTGAATTGGGCTAAGGCCCACA
1 CTGTTACTGATACTGAATTAGGCTAAGGCCCACA
*
47360680 CTGTTACTGATACTGTATTAGGCTAAGGCCC
1 CTGTTACTGATACTGAATTAGGCTAAGGCCC
47360711 TAACTGATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (34 bp):
CTGTTACTGATACTGAATTAGGCTAAGGCCCACA
Found at i:47362187 original size:45 final size:43
Alignment explanation
Indices: 47362135--47362334 Score: 212
Period size: 43 Copynumber: 4.7 Consensus size: 43
47362125 TGTGTTTTCG
*
47362135 TGTAAGACCACGTCTGGGACGTTGGCATCGATATATGTGTTTACA
1 TGTAAGACCACGTCTGGGACGTTGGCATCG--ATATGTGATTACA
* *
47362180 TGTAAGACCACGTCTGGGACGTTGGCATTGATATGTGGTTACGA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTAC-A
* * * * *
47362224 -GTAAGACCATGTCTGGGACATCGGCATCG-TATTTGATT-CG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACA
** * *
47362264 TGTAAGACCGTGTCTGGGACAG-TGGCATCGATATGAT-ATAAAA
1 TGTAAGACCACGTCTGGGAC-GTTGGCATCGATATG-TGATTACA
47362307 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
47362335 TGTTTGATAT
Statistics
Matches: 130, Mismatches: 18, Indels: 16
0.79 0.11 0.10
Matches are distributed among these distances:
41 26 0.20
42 13 0.10
43 61 0.47
44 1 0.01
45 29 0.22
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.28
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACA
Found at i:47362334 original size:84 final size:88
Alignment explanation
Indices: 47362135--47362334 Score: 225
Period size: 84 Copynumber: 2.3 Consensus size: 88
47362125 TGTGTTTTCG
*
47362135 TGTAAGACCACGTCTGGGACGTTGGCATCGATATATGTGTTTACATGTAAGACCACGTCTGGGAC
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATATGTGATTACATGTAAGACCACGTCTGGGAC
* * **
47362200 GTTGGCATTGATATGTGGTTACGA
66 GTTGGCATCGATATGT-GATAAAA
* * * * **
47362224 -GTAAGACCATGTCTGGGACATCGGCATCG-TAT-T-TGATT-CGTGTAAGACCGTGTCTGGGAC
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATATGTGATTACATGTAAGACCACGTCTGGGAC
47362284 AG-TGGCATCGATATGAT-ATAAAA
66 -GTTGGCATCGATATG-TGATAAAA
47362307 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
47362335 TGTTTGATAT
Statistics
Matches: 94, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
83 3 0.03
84 55 0.59
85 6 0.06
86 1 0.01
87 3 0.03
88 26 0.28
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.28
Consensus pattern (88 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATATATGTGATTACATGTAAGACCACGTCTGGGAC
GTTGGCATCGATATGTGATAAAA
Found at i:47377170 original size:40 final size:40
Alignment explanation
Indices: 47377103--47377279 Score: 234
Period size: 40 Copynumber: 4.5 Consensus size: 40
47377093 ACCCAAGTAT
*
47377103 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
*
47377142 CCTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
47377182 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* *
47377222 CTTCGGGACATAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
47377262 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
47377280 TTATCATCCG
Statistics
Matches: 119, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.01
39 12 0.10
40 104 0.87
41 2 0.02
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:47382450 original size:40 final size:40
Alignment explanation
Indices: 47382369--47382501 Score: 223
Period size: 40 Copynumber: 3.3 Consensus size: 40
47382359 TATTCGGATG
47382369 ATATCCGGGCTAAGACCCGAAGGCATTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCA-TTTGTGCTAGTGACT
*
47382410 ATATCCGGGCTAAGACCTGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* *
47382450 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
47382490 ATATCC-GGCTAA
1 ATATCCGGGCTAA
47382502 ATCCTGAAGG
Statistics
Matches: 88, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
39 6 0.07
40 58 0.66
41 24 0.27
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
Found at i:47384725 original size:18 final size:18
Alignment explanation
Indices: 47384687--47384725 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
47384677 GTGTGGACTA
*
47384687 CCCGTGTGGACCCACATG
1 CCCGTGTGGACCCACAGG
47384705 CCCGTGTGG-CCCACACGG
1 CCCGTGTGGACCCACA-GG
47384723 CCC
1 CCC
47384726 AAATCAGTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.13, C:0.46, G:0.28, T:0.13
Consensus pattern (18 bp):
CCCGTGTGGACCCACAGG
Found at i:47389022 original size:22 final size:22
Alignment explanation
Indices: 47388974--47389025 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
47388964 GCACTAAGTC
*
47388974 AACAGGACGGCTCAACGTAGTA
1 AACAGGACGGCTCAACGCAGTA
* *
47388996 GACAGGATGGCTCAACGCCA-TA
1 AACAGGACGGCTCAACG-CAGTA
47389018 AACAGGAC
1 AACAGGAC
47389026 AGCTAAAGGC
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
22 23 0.96
23 1 0.04
ACGTcount: A:0.37, C:0.25, G:0.27, T:0.12
Consensus pattern (22 bp):
AACAGGACGGCTCAACGCAGTA
Found at i:47392094 original size:22 final size:22
Alignment explanation
Indices: 47392067--47392153 Score: 102
Period size: 22 Copynumber: 4.0 Consensus size: 22
47392057 CACTAAGTCA
47392067 ACAGGACGGCTCAACGCCGTAG
1 ACAGGACGGCTCAACGCCGTAG
* * *
47392089 ATAGGACGGCTTAATGCCGTAG
1 ACAGGACGGCTCAACGCCGTAG
** *
47392111 ACAAAATGGCTCAACGCCGTAG
1 ACAGGACGGCTCAACGCCGTAG
* *
47392133 ACAGGACGGCTAAAGGCCGTA
1 ACAGGACGGCTCAACGCCGTA
47392154 AATATCATAG
Statistics
Matches: 51, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 51 1.00
ACGTcount: A:0.31, C:0.25, G:0.30, T:0.14
Consensus pattern (22 bp):
ACAGGACGGCTCAACGCCGTAG
Found at i:47401730 original size:16 final size:16
Alignment explanation
Indices: 47401709--47401742 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
47401699 TTATTTTTTT
47401709 TGCTGGAACAATTTCA
1 TGCTGGAACAATTTCA
*
47401725 TGCTGGAATAATTTCA
1 TGCTGGAACAATTTCA
47401741 TG
1 TG
47401743 TGTCTAGCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (16 bp):
TGCTGGAACAATTTCA
Found at i:47401844 original size:28 final size:28
Alignment explanation
Indices: 47401813--47401880 Score: 68
Period size: 28 Copynumber: 2.4 Consensus size: 28
47401803 ATTGTAGTGT
* *
47401813 TTAATGTGTCTTAGTTTAATGCATG-TTA
1 TTAATGTGTCTTAGCTTAATACA-GATTA
* *
47401841 TTAATATGT-TCTAGCTTAATACAGATTT
1 TTAATGTGTCT-TAGCTTAATACAGATTA
47401869 TTAATGTGTCTT
1 TTAATGTGTCTT
47401881 GGCTGCTGCT
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
27 2 0.06
28 29 0.91
29 1 0.03
ACGTcount: A:0.26, C:0.09, G:0.15, T:0.50
Consensus pattern (28 bp):
TTAATGTGTCTTAGCTTAATACAGATTA
Found at i:47403888 original size:20 final size:18
Alignment explanation
Indices: 47403841--47403888 Score: 53
Period size: 17 Copynumber: 2.6 Consensus size: 18
47403831 AATACGATTT
*
47403841 ACATTCAATAATCAATTA
1 ACATTCAATAATCAAGTA
*
47403859 A-ATTCCATAATTACAAGTA
1 ACATTCAATAA-T-CAAGTA
47403878 ACATTCAATAA
1 ACATTCAATAA
47403889 AACCTAAGTG
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
17 8 0.33
18 2 0.08
19 6 0.25
20 8 0.33
ACGTcount: A:0.50, C:0.17, G:0.02, T:0.31
Consensus pattern (18 bp):
ACATTCAATAATCAAGTA
Found at i:47405792 original size:22 final size:22
Alignment explanation
Indices: 47405767--47405818 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
47405757 TTCTTGGCAA
47405767 CTTCCTAGAACATCCCTTGAAG
1 CTTCCTAGAACATCCCTTGAAG
* ** *
47405789 CTTCCTTGAAGGTTCCTTGAAG
1 CTTCCTAGAACATCCCTTGAAG
*
47405811 TTTCCTAG
1 CTTCCTAG
47405819 CATGGGAGAC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.21, C:0.27, G:0.17, T:0.35
Consensus pattern (22 bp):
CTTCCTAGAACATCCCTTGAAG
Found at i:47405797 original size:11 final size:11
Alignment explanation
Indices: 47405781--47405816 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
47405771 CTAGAACATC
47405781 CCTTGAAGCTT
1 CCTTGAAGCTT
*
47405792 CCTTGAAGGTT
1 CCTTGAAGCTT
*
47405803 CCTTGAAGTTT
1 CCTTGAAGCTT
47405814 CCT
1 CCT
47405817 AGCATGGGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.17, C:0.25, G:0.19, T:0.39
Consensus pattern (11 bp):
CCTTGAAGCTT
Found at i:47406626 original size:18 final size:17
Alignment explanation
Indices: 47406602--47406646 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
47406592 ATGCTAAAAA
*
47406602 TACTTAAACATATTAAT
1 TACTTAAACACATTAAT
*
47406619 TAACTTAAGACACATTAGT
1 T-ACTTAA-ACACATTAAT
47406638 TACTTAAAC
1 TACTTAAAC
47406647 TAAATTAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 3 0.12
18 12 0.50
19 9 0.38
ACGTcount: A:0.44, C:0.16, G:0.04, T:0.36
Consensus pattern (17 bp):
TACTTAAACACATTAAT
Found at i:47406653 original size:18 final size:17
Alignment explanation
Indices: 47406602--47406654 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 17
47406592 ATGCTAAAAA
*
47406602 TACTTAAACATATTAAT
1 TACTTAAACAAATTAAT
* *
47406619 TAACTTAAGACACATTAGT
1 T-ACTTAA-ACAAATTAAT
47406638 TACTTAAACTAAATTAA
1 TACTTAAAC-AAATTAA
47406655 CTAAATAACT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
17 3 0.10
18 17 0.59
19 9 0.31
ACGTcount: A:0.47, C:0.13, G:0.04, T:0.36
Consensus pattern (17 bp):
TACTTAAACAAATTAAT
Found at i:47414287 original size:46 final size:46
Alignment explanation
Indices: 47414234--47414409 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
47414224 TATTTGGGCA
47414234 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*** * *
47414280 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA--
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATG
* *
47414327 TCCGAGCTCGTTGAGTTTAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
47414373 CCCGAGCTCATTGAGTTGAGTCCGAGTTCATTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
47414410 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 66 0.62
47 31 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:47414389 original size:93 final size:93
Alignment explanation
Indices: 47414230--47414401 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
47414220 AGGATATTTG
* *
47414230 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCATTGAG
47414295 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
47414323 GGCATCCGAGCTCGTTGAGTTTAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCATTGAG
47414388 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
47414402 ATTTATGGGC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCATTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:47417741 original size:28 final size:27
Alignment explanation
Indices: 47417676--47417853 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
47417666 ATATTGAGTC
* * *
47417676 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAAAT
*
47417703 CGCACACTTAGTGCTACGTAATCCAAAT
1 CGCACACTTAGTGCTACATAAT-CAAAT
*
47417731 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAA-T
** ** *
47417759 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAAAT
* **
47417786 CGCA-ACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAAAT
* *
47417812 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
47417839 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
47417854 GTACAATTTA
Statistics
Matches: 128, Mismatches: 18, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
26 21 0.16
27 59 0.46
28 48 0.38
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAAAT
Found at i:47421865 original size:27 final size:27
Alignment explanation
Indices: 47421835--47422010 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
47421825 ATATTGAGTC
* *
47421835 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
47421862 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
47421889 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
47421917 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* *
47421944 CGCACACTTAGTGC-ATCATATTC-ATT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
47421970 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
47421997 CGCACACTTA-TGCT
1 CGCACACTTAGTGCT
47422011 GTACAATTTA
Statistics
Matches: 128, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
26 26 0.20
27 79 0.62
28 23 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:47421927 original size:55 final size:54
Alignment explanation
Indices: 47421835--47422010 Score: 205
Period size: 55 Copynumber: 3.3 Consensus size: 54
47421825 ATATTGAGTC
* * * * *
47421835 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
* ** * *
47421889 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACTCGCACACTTAGTGCAACATAGTCAAAT
* *
47421944 CGCACACTTAGTGC-ATCATATTC-ATTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
47421997 CGCACACTTA-TGCT
1 CGCACACTTAGTGCT
47422011 GTACAATTTA
Statistics
Matches: 104, Mismatches: 15, Indels: 7
0.83 0.12 0.06
Matches are distributed among these distances:
52 3 0.03
53 35 0.34
54 21 0.20
55 45 0.43
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:47433504 original size:14 final size:13
Alignment explanation
Indices: 47433484--47433516 Score: 57
Period size: 14 Copynumber: 2.5 Consensus size: 13
47433474 AATATTTGAC
47433484 TTGTTCTTAATTA
1 TTGTTCTTAATTA
47433497 TGTGTTCTTAATTA
1 T-TGTTCTTAATTA
47433511 TTGTTC
1 TTGTTC
47433517 CAGGATATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.18, C:0.09, G:0.12, T:0.61
Consensus pattern (13 bp):
TTGTTCTTAATTA
Found at i:47434898 original size:4 final size:4
Alignment explanation
Indices: 47434889--47434924 Score: 72
Period size: 4 Copynumber: 9.0 Consensus size: 4
47434879 TTGGAAGGCT
47434889 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
47434925 AAGAGAAGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:47436977 original size:45 final size:43
Alignment explanation
Indices: 47436890--47437051 Score: 132
Period size: 45 Copynumber: 3.7 Consensus size: 43
47436880 ATAGGATCCG
* * * * **
47436890 ATATGTGTTTTCGTGTAAGTCTATGTCTGGGACGTTGGCATCGAT
1 ATATGTG-ATTCGTGTAAGACCATGTCTGGGACATTAACATCG-T
*
47436935 ATATGTGGTTACGTGTAAGACCATGTCTGGGACATTAACATCGT
1 ATATGTGATT-CGTGTAAGACCATGTCTGGGACATTAACATCGT
* * * **
47436979 AT-T-TGATTCGTGTAAGACCCTGTCTGGGATAGTGGCATCG-
1 ATATGTGATTCGTGTAAGACCATGTCTGGGACATTAACATCGT
* * *
47437019 ATATGAGATAGCATGTAAGACCATGTCTGGGAC
1 ATATGTGAT-TCGTGTAAGACCATGTCTGGGAC
47437052 GTTAGCATTG
Statistics
Matches: 96, Mismatches: 17, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
40 2 0.02
41 28 0.29
42 7 0.07
43 20 0.21
44 5 0.05
45 34 0.35
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.33
Consensus pattern (43 bp):
ATATGTGATTCGTGTAAGACCATGTCTGGGACATTAACATCGT
Found at i:47437018 original size:41 final size:43
Alignment explanation
Indices: 47436946--47437051 Score: 117
Period size: 41 Copynumber: 2.5 Consensus size: 43
47436936 TATGTGGTTA
* ** *
47436946 CGTGTAAGACCATGTCTGGGACATTAACATCG-TATTTGAT-T
1 CGTGTAAGACCATGTCTGGGACAGTAACATCGATATGAGATAG
* * **
47436987 CGTGTAAGACCCTGTCTGGGATAGTGGCATCGATATGAGATAG
1 CGTGTAAGACCATGTCTGGGACAGTAACATCGATATGAGATAG
*
47437030 CATGTAAGACCATGTCTGGGAC
1 CGTGTAAGACCATGTCTGGGAC
47437052 GTTAGCATTG
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
41 27 0.52
42 6 0.12
43 19 0.37
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.28
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTGGGACAGTAACATCGATATGAGATAG
Found at i:47438442 original size:30 final size:29
Alignment explanation
Indices: 47438408--47438471 Score: 110
Period size: 30 Copynumber: 2.2 Consensus size: 29
47438398 ATGAATCCGG
*
47438408 AGCTTTGGCATTAAGTGTGGGATTTAAACT
1 AGCTTTGGCACTAAGTGTGGGATTT-AACT
47438438 AGCTTTGGCACTAAGTGTGGGATTTAACT
1 AGCTTTGGCACTAAGTGTGGGATTTAACT
47438467 AGCTT
1 AGCTT
47438472 CGGCTACTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 9 0.27
30 24 0.73
ACGTcount: A:0.25, C:0.12, G:0.27, T:0.36
Consensus pattern (29 bp):
AGCTTTGGCACTAAGTGTGGGATTTAACT
Found at i:47440870 original size:121 final size:122
Alignment explanation
Indices: 47440656--47440895 Score: 464
Period size: 121 Copynumber: 2.0 Consensus size: 122
47440646 TTCATTTTGA
*
47440656 CAAGCTTGTTATAATGGTATGTTTTGTATATGCGTATTTTTATGAATTAGCTTAAATGAAGTTAA
1 CAAGCTTGTTATAATGGTATGTTTTGTATATGCATATTTTTATGAATTAGCTTAAATGAAGTTAA
47440721 GCATGGTTGATGGATATATATTTATATGTAAA-ATTTCAATTATAAATTAATATGGT
66 GCATGGTTGATGGATATATATTTATATGTAAATATTTCAATTATAAATTAATATGGT
47440777 CAAGCTTGTTATAATGGTATGTTTTGTATATGCATATTTTTATGAATTAGCTTAAATGAAGTTAA
1 CAAGCTTGTTATAATGGTATGTTTTGTATATGCATATTTTTATGAATTAGCTTAAATGAAGTTAA
47440842 GCATGGTTGATGGATATATATTTATATGTAAATATTTCAATTATAAATTAATAT
66 GCATGGTTGATGGATATATATTTATATGTAAATATTTCAATTATAAATTAATAT
47440896 TGGCTTATTT
Statistics
Matches: 117, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
121 96 0.82
122 21 0.18
ACGTcount: A:0.35, C:0.05, G:0.16, T:0.44
Consensus pattern (122 bp):
CAAGCTTGTTATAATGGTATGTTTTGTATATGCATATTTTTATGAATTAGCTTAAATGAAGTTAA
GCATGGTTGATGGATATATATTTATATGTAAATATTTCAATTATAAATTAATATGGT
Found at i:47443165 original size:29 final size:29
Alignment explanation
Indices: 47443122--47443246 Score: 153
Period size: 29 Copynumber: 4.3 Consensus size: 29
47443112 GAAAGCATGT
* *
47443122 ATATGAAAGTGATTTTGGCCTAATGGGCC
1 ATATGAATGTGATTTAGGCCTAATGGGCC
* *
47443151 GTATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTAGGCCTAATGGGCC
*
47443180 ATACGAATGTGATTTAGGCCTAATGGGCC
1 ATATGAATGTGATTTAGGCCTAATGGGCC
* * * *
47443209 ATATGAATGAGA-TTGGGCCTAGTAGGCC
1 ATATGAATGTGATTTAGGCCTAATGGGCC
*
47443237 ATATGCATGT
1 ATATGAATGT
47443247 ATGTAGACTT
Statistics
Matches: 83, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
28 21 0.25
29 62 0.75
ACGTcount: A:0.26, C:0.14, G:0.30, T:0.30
Consensus pattern (29 bp):
ATATGAATGTGATTTAGGCCTAATGGGCC
Found at i:47451716 original size:45 final size:42
Alignment explanation
Indices: 47451640--47451764 Score: 119
Period size: 41 Copynumber: 2.9 Consensus size: 42
47451630 GATATGTTTT
* ** *
47451640 TTCGTGTAAGACCACGTCTGGGATGTTGGCATCGATATATGTGG
1 TTCGTGTAAGACCATGTCTGGGA-CATGGCATCGATATAT-TGA
*
47451684 TTACGTGTAACACCATGTCTGGGACATCGGCATCG-TAT-TTGA
1 TT-CGTGTAAGACCATGTCTGGGACAT-GGCATCGATATATTGA
* * *
47451726 TTCGTGTAAGACCCTATATGGGACAGTGGCATCGATATA
1 TTCGTGTAAGACCATGTCTGGGACA-TGGCATCGATATA
47451765 AGATAGCATG
Statistics
Matches: 67, Mismatches: 9, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
41 26 0.39
42 8 0.12
43 1 0.01
44 6 0.09
45 26 0.39
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.30
Consensus pattern (42 bp):
TTCGTGTAAGACCATGTCTGGGACATGGCATCGATATATTGA
Found at i:47453766 original size:22 final size:22
Alignment explanation
Indices: 47453740--47453790 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
47453730 TCTTGGCAAT
47453740 TTCCTAGAACG-TCTCTTGAAGC
1 TTCCTAGAACGTTC-CTTGAAGC
* * *
47453762 TTCCTTGAAGGTTCCTTGAAGT
1 TTCCTAGAACGTTCCTTGAAGC
47453784 TTCCTAG
1 TTCCTAG
47453791 TATGAAAGAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
22 22 0.92
23 2 0.08
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.37
Consensus pattern (22 bp):
TTCCTAGAACGTTCCTTGAAGC
Found at i:47453770 original size:11 final size:11
Alignment explanation
Indices: 47453754--47453788 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
47453744 TAGAACGTCT
47453754 CTTGAAGCTTC
1 CTTGAAGCTTC
*
47453765 CTTGAAGGTTC
1 CTTGAAGCTTC
*
47453776 CTTGAAGTTTC
1 CTTGAAGCTTC
47453787 CT
1 CT
47453789 AGTATGAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.17, C:0.23, G:0.20, T:0.40
Consensus pattern (11 bp):
CTTGAAGCTTC
Found at i:47455958 original size:28 final size:27
Alignment explanation
Indices: 47455893--47455977 Score: 111
Period size: 27 Copynumber: 3.1 Consensus size: 27
47455883 AGGAAGCGTC
*
47455893 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCAC-ATTATCTGTAT
47455920 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTAT
* *
47455948 CTGGTGACTCTGTCACATTATCTGT-T
1 CTGGTGGCTCTGCCACATTATCTGTAT
47455974 CTGG
1 CTGG
47455978 CCGCCATGCT
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 5 0.09
27 32 0.60
28 16 0.30
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATTATCTGTAT
Done.