Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 63 of 228
Found at i:18970771 original size:18 final size:18
Alignment explanation
Indices: 18970748--18970782 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
18970738 GTATTACAAG
*
18970748 TTTCCATTTTCATTTTTA
1 TTTCCATTTCCATTTTTA
18970766 TTTCCATTTCCATTTTT
1 TTTCCATTTCCATTTTT
18970783 GGAAACCTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.14, C:0.20, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTCCATTTCCATTTTTA
Found at i:18971824 original size:15 final size:13
Alignment explanation
Indices: 18971760--18971848 Score: 67
Period size: 13 Copynumber: 6.9 Consensus size: 13
18971750 TTTAATTAAA
*
18971760 ACATAAAAATAAT
1 ACATAAATATAAT
*
18971773 A-ATACATGATAAT
1 ACATAAAT-ATAAT
* * **
18971786 GCATGAATGCAAT
1 ACATAAATATAAT
18971799 ACATAAATATAAT
1 ACATAAATATAAT
18971812 ACAT-AATA-ATAT
1 ACATAAATATA-AT
* *
18971824 ATATAAATGTAAT
1 ACATAAATATAAT
18971837 ACATAAATATAA
1 ACATAAATATAA
18971849 CAAGGATAAG
Statistics
Matches: 56, Mismatches: 15, Indels: 10
0.69 0.19 0.12
Matches are distributed among these distances:
11 1 0.02
12 13 0.23
13 37 0.66
14 5 0.09
ACGTcount: A:0.57, C:0.08, G:0.06, T:0.29
Consensus pattern (13 bp):
ACATAAATATAAT
Found at i:18973669 original size:102 final size:102
Alignment explanation
Indices: 18973493--18973688 Score: 295
Period size: 102 Copynumber: 1.9 Consensus size: 102
18973483 GCTTCGCTGT
*
18973493 AACTTCAGGGAGATAAGGCTAGTGGCTTCAATCTACTCCACTGCAATTTCAGGAAGATAAGAGTC
1 AACTTCAGGGAGATAAGGCTAGTGGCTTCAATCTACTCCACTGCAACTTCAGGAAGATAAGAGTC
*
18973558 GCCATAATTTGTACCTTTAATCTGTTCCATCCGCTAC
66 ACCATAATTTGTACCTTTAATCTGTTCCATCCGCTAC
* * *
18973595 AACTTCAGGGAGATAAGGCTGGTGGCTTCAGTCTGCTCCACTGCAACTTCAGGAAGATAAG-GTT
1 AACTTCAGGGAGATAAGGCTAGTGGCTTCAATCTACTCCACTGCAACTTCAGGAAGATAAGAG-T
* * * *
18973659 CATCATAATTTTTAGCTTTAATCTTTTCCA
65 CACCATAATTTGTACCTTTAATCTGTTCCA
18973689 CTGCAATGCT
Statistics
Matches: 84, Mismatches: 9, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
101 1 0.01
102 83 0.99
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (102 bp):
AACTTCAGGGAGATAAGGCTAGTGGCTTCAATCTACTCCACTGCAACTTCAGGAAGATAAGAGTC
ACCATAATTTGTACCTTTAATCTGTTCCATCCGCTAC
Found at i:18973758 original size:143 final size:143
Alignment explanation
Indices: 18973587--18973937 Score: 472
Period size: 143 Copynumber: 2.5 Consensus size: 143
18973577 ATCTGTTCCA
*
18973587 TCCGCTACAACTTCAGGGAGATAAGGCTGGTGGCTTCAGTCTGCTCCACTGCAACTTCAGGAAGA
1 TCCGCTACAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGA
* * * * * * * ** *
18973652 TAAGGTTCATCATAATTTTTAGCTTTAATCTTTTCCACTGCAATGCTAGGGAAATAAGATTCGCT
66 TAAGATCCACCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAAAGAAATAAGATTCGAT
18973717 GTCTTTAGTCTGC
131 GTCTTTAGTCTGC
* * * **
18973730 TCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTACTACTTTTGGAAGA
1 TCCGCTACAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGA
* *
18973795 TAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGTAACGCCAAAGAAATAAGATTCGAT
66 TAAGATCCACCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAAAGAAATAAGATTCGAT
18973860 GTCTTTAGTCTGC
131 GTCTTTAGTCTGC
* * ** * *
18973873 TCCACTACAACTTCAGGGAGATAAGACT--TCACTTCAATCCGCTCCACTGCAACTTCAGGGAGA
1 TCCGCTACAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGA
18973936 TA
66 TA
18973938 GGATTATTGG
Statistics
Matches: 179, Mismatches: 29, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
141 29 0.16
143 150 0.84
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (143 bp):
TCCGCTACAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGA
TAAGATCCACCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAAAGAAATAAGATTCGAT
GTCTTTAGTCTGC
Found at i:18973779 original size:245 final size:245
Alignment explanation
Indices: 18973349--18973831 Score: 720
Period size: 245 Copynumber: 2.0 Consensus size: 245
18973339 TGCTCCACTG
18973349 CAACTTCAGGGAGATAAGGCTAGTGGCTTCGATATGCTCCACTGCAACTTCAGGAAGATAAGATC
1 CAACTTCAGGGAGATAAGGCTAGTGGCTTCGATATGCTCCACTGCAACTTCAGGAAGATAAGATC
* * *
18973414 CGCCATAACTTGTGGCTTTAATCTGTTCCACTGCAATGCCAGGGAAATAAGATTCGCTTTCTTCA
66 CACCATAACTTGTAGCTTTAATCTGTTCCACTGCAATGCCAGGGAAATAAGATTCGCTGTCTTCA
* * *
18973479 ATCTGCTTCGCTGTAACTTCAGGGAGATAAGGCTAGTGGCTTCAATCTACTCCACTGC-AATTTC
131 ATCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTAGTGGCTTCAATCTACTCCACTACTAATTT-
18973543 AGGAAGATAAGAGT-CGCCATAATTTGTACCTTTAATCTGTTCCATCCGCTA
195 AGGAAGATAAGA-TCCGCCATAATTTGTACCTTTAATCTGTTCCATCCGCTA
* * *
18973594 CAACTTCAGGGAGATAAGGCTGGTGGCTTC-AGTCTGCTCCACTGCAACTTCAGGAAGATAAGGT
1 CAACTTCAGGGAGATAAGGCTAGTGGCTTCGA-TATGCTCCACTGCAACTTCAGGAAGATAAGAT
* * * * * * *
18973658 TCATCATAATTTTTAGCTTTAATCTTTTCCACTGCAATGCTAGGGAAATAAGATTCGCTGTCTTT
65 CCACCATAACTTGTAGCTTTAATCTGTTCCACTGCAATGCCAGGGAAATAAGATTCGCTGTCTTC
* * * *
18973723 AGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTACTACTTT
130 AATCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTAGTGGCTTCAATCTACTCCACTACTAATTT
* *
18973788 TGGAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCA
195 AGGAAGATAAGATCCGCCATAATTTGTACCTTTAATCTGTTCCA
18973832 CTGTAACGCC
Statistics
Matches: 213, Mismatches: 22, Indels: 6
0.88 0.09 0.02
Matches are distributed among these distances:
244 2 0.01
245 207 0.97
246 4 0.02
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.31
Consensus pattern (245 bp):
CAACTTCAGGGAGATAAGGCTAGTGGCTTCGATATGCTCCACTGCAACTTCAGGAAGATAAGATC
CACCATAACTTGTAGCTTTAATCTGTTCCACTGCAATGCCAGGGAAATAAGATTCGCTGTCTTCA
ATCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTAGTGGCTTCAATCTACTCCACTACTAATTTA
GGAAGATAAGATCCGCCATAATTTGTACCTTTAATCTGTTCCATCCGCTA
Found at i:18973926 original size:42 final size:43
Alignment explanation
Indices: 18973871--18973985 Score: 133
Period size: 44 Copynumber: 2.7 Consensus size: 43
18973861 TCTTTAGTCT
* *
18973871 GCTCCACTACAACTTCAGGGAGATAAGA-CTTCACTTCAATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGATATTCACTTCAATCC
* ** * *
18973913 GCTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGA-TATTCACTTCAATCC
* *
18973957 ACTCGACTGCAACTTCAGGGAGATAAGAT
1 GCTCCACTGCAACTTCAGGGAGATAAGAT
18973986 TTGGCATAAT
Statistics
Matches: 61, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
42 26 0.43
43 1 0.02
44 34 0.56
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (43 bp):
GCTCCACTGCAACTTCAGGGAGATAAGATATTCACTTCAATCC
Found at i:18984006 original size:13 final size:13
Alignment explanation
Indices: 18983949--18984037 Score: 58
Period size: 13 Copynumber: 6.9 Consensus size: 13
18983939 TTTAATAAAA
*
18983949 ACATAAAAATAAT
1 ACATAAATATAAT
*
18983962 A-ATACATGATAAT
1 ACATAAAT-ATAAT
* * **
18983975 GCATGAATGCAAT
1 ACATAAATATAAT
*
18983988 AGATAAATATAAT
1 ACATAAATATAAT
18984001 ACAT-AATA-ATAT
1 ACATAAATATA-AT
* *
18984013 ATATAAATGTAAT
1 ACATAAATATAAT
18984026 ACATAAATATAA
1 ACATAAATATAA
18984038 CAAGGATAAG
Statistics
Matches: 54, Mismatches: 17, Indels: 10
0.67 0.21 0.12
Matches are distributed among these distances:
11 1 0.02
12 13 0.24
13 35 0.65
14 5 0.09
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.29
Consensus pattern (13 bp):
ACATAAATATAAT
Found at i:18985301 original size:12 final size:12
Alignment explanation
Indices: 18985286--18985326 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 12
18985276 ACTGTTAATG
18985286 TTTGTTTTTTTA
1 TTTGTTTTTTTA
*
18985298 TTTGGTTTTTTA
1 TTTGTTTTTTTA
18985310 TTTTGTTTTGTTTA
1 -TTTGTTTT-TTTA
18985324 TTT
1 TTT
18985327 AATCTGCATC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 11 0.44
13 10 0.40
14 4 0.16
ACGTcount: A:0.07, C:0.00, G:0.12, T:0.80
Consensus pattern (12 bp):
TTTGTTTTTTTA
Found at i:18991436 original size:14 final size:14
Alignment explanation
Indices: 18991417--18991447 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
18991407 TTCGTTGACG
18991417 ATGCAACTTGGGTT
1 ATGCAACTTGGGTT
18991431 ATGCAACTTGGGTT
1 ATGCAACTTGGGTT
18991445 ATG
1 ATG
18991448 AGTTGACCGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.23, C:0.13, G:0.29, T:0.35
Consensus pattern (14 bp):
ATGCAACTTGGGTT
Found at i:18995994 original size:13 final size:13
Alignment explanation
Indices: 18995976--18996026 Score: 63
Period size: 13 Copynumber: 4.1 Consensus size: 13
18995966 ATTTAAAAAT
18995976 AATAATTTTTAAA
1 AATAATTTTTAAA
18995989 AATAATTTTT-AA
1 AATAATTTTTAAA
18996001 AAT--TTTTTAAAA
1 AATAATTTTT-AAA
*
18996013 AATAATATTTAAA
1 AATAATTTTTAAA
18996026 A
1 A
18996027 TATTTAAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
10 5 0.15
12 10 0.30
13 14 0.42
14 4 0.12
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
AATAATTTTTAAA
Found at i:18996008 original size:24 final size:24
Alignment explanation
Indices: 18995981--18996067 Score: 81
Period size: 23 Copynumber: 3.7 Consensus size: 24
18995971 AAAATAATAA
*
18995981 TTTTT-AAAAATAATTTTTAAAAT
1 TTTTTAAAAAATAATATTTAAAAT
18996004 TTTTTAAAAAATAATATTTAAAA-
1 TTTTTAAAAAATAATATTTAAAAT
* * *
18996027 TATTTAAAATAT-ACATTTAAAAT
1 TTTTTAAAAAATAATATTTAAAAT
* *
18996050 ATTATAAACCAAATAATA
1 TTTTTAAA--AAATAATA
18996068 AATTTGAAAG
Statistics
Matches: 50, Mismatches: 9, Indels: 7
0.76 0.14 0.11
Matches are distributed among these distances:
22 9 0.18
23 20 0.40
24 16 0.32
25 3 0.06
26 2 0.04
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (24 bp):
TTTTTAAAAAATAATATTTAAAAT
Found at i:18996011 original size:23 final size:22
Alignment explanation
Indices: 18995979--18996044 Score: 78
Period size: 24 Copynumber: 2.8 Consensus size: 22
18995969 TAAAAATAAT
18995979 AATTTTTAAAAATAATTTTTAA
1 AATTTTTAAAAATAATTTTTAA
*
18996001 AATTTTTTAAAAAATAATATTTAA
1 AA-TTTTT-AAAAATAATTTTTAA
*
18996025 AATATTTAAAATATACATTT
1 AATTTTTAAAA-ATA-ATTT
18996045 AAAATATTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
22 6 0.16
23 12 0.32
24 19 0.51
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (22 bp):
AATTTTTAAAAATAATTTTTAA
Found at i:18996057 original size:23 final size:23
Alignment explanation
Indices: 18995986--18996057 Score: 74
Period size: 24 Copynumber: 3.1 Consensus size: 23
18995976 AATAATTTTT
** *
18995986 AAAAATAATTTTTAAAATTTTTTA
1 AAAAATAACATTTAAAA-TATTTA
*
18996010 AAAAATAATATTTAAAATATTTA
1 AAAAATAACATTTAAAATATTTA
*
18996033 AAATAT-ACATTTAAAATATTATA
1 AAAAATAACATTTAAAATATT-TA
18996056 AA
1 AA
18996058 CCAAATAATA
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
22 13 0.30
23 14 0.33
24 16 0.37
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (23 bp):
AAAAATAACATTTAAAATATTTA
Found at i:18996145 original size:22 final size:23
Alignment explanation
Indices: 18996111--18996177 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 23
18996101 TTTTAAATGT
*
18996111 TTTATAATATTAAAAA-AATATA
1 TTTAAAATATTAAAAATAATATA
*
18996133 TTTAAAATTTTAAAAATAATAT-
1 TTTAAAATATTAAAAATAATATA
* * * *
18996155 TATAAAACATTTAAAATATTATA
1 TTTAAAATATTAAAAATAATATA
18996178 AAACCAACAA
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
22 31 0.86
23 5 0.14
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (23 bp):
TTTAAAATATTAAAAATAATATA
Found at i:18996155 original size:21 final size:22
Alignment explanation
Indices: 18996124--18996181 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 22
18996114 ATAATATTAA
*
18996124 AAAAATATATT-TAAAA-TTTT
1 AAAAATATATTATAAAACATTT
18996144 AAAAATAATATTATAAAACATTT
1 AAAAAT-ATATTATAAAACATTT
18996167 --AAA-ATATTATAAAAC
1 AAAAATATATTATAAAAC
18996182 CAACAATAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
19 12 0.35
20 6 0.18
21 8 0.24
22 5 0.15
23 3 0.09
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.36
Consensus pattern (22 bp):
AAAAATATATTATAAAACATTT
Found at i:18996167 original size:23 final size:20
Alignment explanation
Indices: 18996124--18996170 Score: 58
Period size: 23 Copynumber: 2.2 Consensus size: 20
18996114 ATAATATTAA
*
18996124 AAAAATATATTTAAAATTTT
1 AAAAATATATTTAAAAATTT
18996144 AAAAATAATATTATAAAACATTT
1 AAAAAT-ATATT-TAAAA-ATTT
18996167 AAAA
1 AAAA
18996171 TATTATAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 6 0.26
21 5 0.22
22 5 0.22
23 7 0.30
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (20 bp):
AAAAATATATTTAAAAATTT
Found at i:18996203 original size:24 final size:24
Alignment explanation
Indices: 18996175--18996228 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
18996165 TTAAAATATT
*
18996175 ATAAAACCAACAATA-AACAAATAA
1 ATAAAACAAACAA-AGAACAAATAA
* *
18996199 ATAAAACAAATAAAGGACAAATAA
1 ATAAAACAAACAAAGAACAAATAA
18996223 ATAAAA
1 ATAAAA
18996229 AAAAGTAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 1 0.04
24 25 0.96
ACGTcount: A:0.72, C:0.11, G:0.04, T:0.13
Consensus pattern (24 bp):
ATAAAACAAACAAAGAACAAATAA
Found at i:18996206 original size:20 final size:23
Alignment explanation
Indices: 18996191--18996237 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
18996181 CCAACAATAA
18996191 ACAAATAAATAAAACAAATAAAGG
1 ACAAATAAATAAAACAAATAAA-G
*
18996215 ACAAATAAATAAAAAAAAGTAAA
1 ACAAATAAATAAAACAAA-TAAA
18996238 AAACAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.74, C:0.06, G:0.06, T:0.13
Consensus pattern (23 bp):
ACAAATAAATAAAACAAATAAAG
Found at i:18996207 original size:13 final size:12
Alignment explanation
Indices: 18996189--18996253 Score: 53
Period size: 13 Copynumber: 5.2 Consensus size: 12
18996179 AACCAACAAT
18996189 AAACAAATAAATA
1 AAACAAATAAA-A
18996202 AAACAAAT-AAA
1 AAACAAATAAAA
**
18996213 GGACAAATAAATA
1 AAACAAATAAA-A
*
18996226 AAAAAAAGT-AAA
1 AAACAAA-TAAAA
18996238 AAACAAAATAAAA
1 AAAC-AAATAAAA
18996251 AAA
1 AAA
18996254 TGAAAAAGGA
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
11 7 0.17
12 9 0.22
13 24 0.59
14 1 0.02
ACGTcount: A:0.78, C:0.06, G:0.05, T:0.11
Consensus pattern (12 bp):
AAACAAATAAAA
Found at i:18996272 original size:26 final size:26
Alignment explanation
Indices: 18996210--18996281 Score: 73
Period size: 22 Copynumber: 2.9 Consensus size: 26
18996200 TAAAACAAAT
18996210 AAAGGACAAATAAATAAAAAAAAGTAA
1 AAAGGACAAA-AAATAAAAAAAAGTAA
*
18996237 AAA--AC--AAAATAAAAAAATG-AA
1 AAAGGACAAAAAATAAAAAAAAGTAA
*
18996258 AAAGGACAAAGAAATGAAAAAAAG
1 AAAGGACAAA-AAATAAAAAAAAG
18996282 AATCAGAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 11
0.73 0.06 0.22
Matches are distributed among these distances:
21 5 0.14
22 12 0.32
23 3 0.08
25 3 0.08
26 11 0.30
27 3 0.08
ACGTcount: A:0.75, C:0.04, G:0.12, T:0.08
Consensus pattern (26 bp):
AAAGGACAAAAAATAAAAAAAAGTAA
Found at i:18996279 original size:29 final size:30
Alignment explanation
Indices: 18996242--18996313 Score: 78
Period size: 32 Copynumber: 2.4 Consensus size: 30
18996232 AGTAAAAAAC
*
18996242 AAAATAAAAAAAT-GAAAAAGG-ACAAA-G
1 AAAAAAAAAAAATAGAAAAAGGAACAAATG
18996269 AAATGAAAAAAAGAATCAGAAAAAGGAACAAATG
1 AAA--AAAAAAA-AAT-AGAAAAAGGAACAAATG
18996303 AAAAAAAAAAA
1 AAAAAAAAAAA
18996314 TTCAGACTGT
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
27 3 0.08
29 6 0.16
30 3 0.08
31 1 0.03
32 15 0.41
33 5 0.14
34 4 0.11
ACGTcount: A:0.75, C:0.04, G:0.14, T:0.07
Consensus pattern (30 bp):
AAAAAAAAAAAATAGAAAAAGGAACAAATG
Found at i:19000548 original size:22 final size:23
Alignment explanation
Indices: 19000523--19000566 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
19000513 ATTATACACT
19000523 TTAAAATTT-TCAAATATTTTAA
1 TTAAAATTTCTCAAATATTTTAA
** *
19000545 TTAAGCTTTCTCAAATTTTTTA
1 TTAAAATTTCTCAAATATTTTA
19000567 TAAATTTTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.36, C:0.09, G:0.02, T:0.52
Consensus pattern (23 bp):
TTAAAATTTCTCAAATATTTTAA
Found at i:19016731 original size:25 final size:28
Alignment explanation
Indices: 19016689--19016740 Score: 65
Period size: 27 Copynumber: 1.9 Consensus size: 28
19016679 AGAACACCTA
*
19016689 TATATTATATAAAGAAAT-ATGTATATG
1 TATACTATATAAAGAAATCATGTATATG
19016716 TATACTATAT-AA-AAATGCATGTATA
1 TATACTATATAAAGAAAT-CATGTATA
19016741 AGTTTAGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
25 4 0.18
26 2 0.09
27 16 0.73
ACGTcount: A:0.48, C:0.04, G:0.10, T:0.38
Consensus pattern (28 bp):
TATACTATATAAAGAAATCATGTATATG
Found at i:19018353 original size:50 final size:49
Alignment explanation
Indices: 19018278--19018768 Score: 260
Period size: 50 Copynumber: 9.8 Consensus size: 49
19018268 TCTGCTCCAC
* * * * *
19018278 TGCAATGTCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
1 TGCAATGTTAGGAAACT-AGATCCGCCGTCGTAGCTTCAATCTTTTTAAT
* **
19018328 TGCAATGTTAGGAAAACTAGATCCGCCGTCGTAGCTTCAATCTATTCCAT
1 TGCAATGTTAGG-AAACTAGATCCGCCGTCGTAGCTTCAATCTTTTTAAT
* * ** *
19018378 TGCACTGTTAAGG-AAGTAAGATCCGCCGTTTTGGCTTCAATCTTTTTAAT
1 TGCAATGTT-AGGAAACT-AGATCCGCCGTCGTAGCTTCAATCTTTTTAAT
* * * *
19018428 TGCAATATTAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCT-AC
1 TGCAATGTTA-GGAAACTAGATCCGCCGTCGTAGCTTCAATCT-TTTTAAT
* * * * * * *
19018478 TGCATTGCTAAGG-AAGTAAGATCCGCCGTTGT-GACTTTAATCCTTTTGAT
1 TGCAATG-TTAGGAAACT-AGATCCGCCGTCGTAG-CTTCAATCTTTTTAAT
* * * * * ** *
19018528 TGCAATATCAGGGAAACCAGATCTGCCGTCATAGCTTCAAT-TTGTTCCAC
1 TGCAATGTTA-GGAAACTAGATCCGCCGTCGTAGCTTCAATCTT-TTTAAT
* * * * * *
19018578 TGCACTGCTAAGG-AAGTAAGATCCGCCGTTGT-GACTTCAATATTTTTGAT
1 TGCAATG-TTAGGAAACT-AGATCCGCCGTCGTAG-CTTCAATCTTTTTAAT
* * * * ** *
19018628 TGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCAC
1 TGCAATGTTA-GGAAACTAGATCCGCCGTCGTAGCTTCAATCTTTTTAAT
* * * * * * * *
19018678 TACACTGCTAAGG-AAGTAAGATCCGCTGTTGTGGCTTTAATCTTTTTAAT
1 TGCAATG-TTAGGAAACT-AGATCCGCCGTCGTAGCTTCAATCTTTTTAAT
* * *
19018728 TGCAATATTAGGGAAACCAGATCTGCCGTCGTAGCTTCAAT
1 TGCAATGTTA-GGAAACTAGATCCGCCGTCGTAGCTTCAAT
19018769 TTGTTCCACT
Statistics
Matches: 321, Mismatches: 95, Indels: 50
0.69 0.20 0.11
Matches are distributed among these distances:
49 22 0.07
50 272 0.85
51 27 0.08
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.32
Consensus pattern (49 bp):
TGCAATGTTAGGAAACTAGATCCGCCGTCGTAGCTTCAATCTTTTTAAT
Found at i:19018462 original size:100 final size:100
Alignment explanation
Indices: 19018289--19018795 Score: 780
Period size: 100 Copynumber: 5.1 Consensus size: 100
19018279 GCAATGTCAG
* * *
19018289 GGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTTAGGAAAACTAGATCCGC
1 GGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATATTAGGGAAACCAGATCCGC
* * *
19018354 CGTCGTAGCTTCAATCTATTCCATTGCACTGTTAA
66 CGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAA
*
19018389 GGAAGTAAGATCCGCCGTTTTGGCTTCAATCTTTTTAATTGCAATATTAGGGAAACCAGATCCGC
1 GGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATATTAGGGAAACCAGATCCGC
* *
19018454 CGTCGTAGCTTCAATCTGTTCTACTGCATTGCTAA
66 CGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAA
* * * * * *
19018489 GGAAGTAAGATCCGCCGTTGTGACTTTAATCCTTTTGATTGCAATATCAGGGAAACCAGATCTGC
1 GGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATATTAGGGAAACCAGATCCGC
* *
19018554 CGTCATAGCTTCAATTTGTTCCACTGCACTGCTAA
66 CGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAA
* * * *
19018589 GGAAGTAAGATCCGCCGTTGTGACTTCAATATTTTTGATTGCAATATCAGGGAAACCAGATCCGC
1 GGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATATTAGGGAAACCAGATCCGC
*
19018654 CGTCGTAGCTTCAATCTGTTCCACTACACTGCTAA
66 CGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAA
* * *
19018689 GGAAGTAAGATCCGCTGTTGTGGCTTTAATCTTTTTAATTGCAATATTAGGGAAACCAGATCTGC
1 GGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATATTAGGGAAACCAGATCCGC
*
19018754 CGTCGTAGCTTCAATTTGTTCCACTGCACTGCTAA
66 CGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAA
19018789 GGAAGTA
1 GGAAGTA
19018796 GAATTACTGC
Statistics
Matches: 371, Mismatches: 36, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
100 371 1.00
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.32
Consensus pattern (100 bp):
GGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATATTAGGGAAACCAGATCCGC
CGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAA
Found at i:19019230 original size:262 final size:262
Alignment explanation
Indices: 19018789--19019684 Score: 1384
Period size: 262 Copynumber: 3.4 Consensus size: 262
19018779 GCACTGCTAA
* *
19018789 GGAAGTAGAATTACT-GCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTT
1 GGAAGTAGAATTACTGGCTTCAATGTACTCCACTGCAACTACAGGGAGGTAAAATCTGCCATCTT
*
19018853 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTTATCTTTAATCTATTCCACTGCTGCCC
66 CGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGTTATCTTTAATCTATTCCACTGCTGCCC
* * * *
19018918 AGTGAGATAGAATTATTGGCTTCAATGTACTCTACTGTAACCTTAGGGAGGTAAAATCCACCATA
131 AGGGAGATAGAATTATTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATC
*
19018983 TTTGATCTGCTCTTCTACTGCTTAGGGAGATAAGATCTGTTCTTCAATCTATTCCGCTGCTGCCC
196 TTTGATCTGCTCCTCTACTGCTTAGGGAGATAAGATCTGTTCTTCAATCTATTCCGCTGCTGCCC
19019048 AG
261 AG
* * *
19019050 GAAAGTAGAATTACTGGCTTCAATGTACTCCACTGCAACTTCAGGGAGGTAAAATCCGCCATCTT
1 GGAAGTAGAATTACTGGCTTCAATGTACTCCACTGCAACTACAGGGAGGTAAAATCTGCCATCTT
*
19019115 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTTATCTTTAATCTATTCCACTGCTGCCC
66 CGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGTTATCTTTAATCTATTCCACTGCTGCCC
19019180 AGGGAGATAGAATTATTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATC
131 AGGGAGATAGAATTATTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATC
19019245 TTTGATCTGCTCCTCTACTGCTTAGGGAGATAAGATCTGTTCTTCAATCTATTCCGCTGCTGCCC
196 TTTGATCTGCTCCTCTACTGCTTAGGGAGATAAGATCTGTTCTTCAATCTATTCCGCTGCTGCCC
19019310 AG
261 AG
* *
19019312 GGAAGTAGAATTACTGGCTTCAATGTACTCCACTGCAACTTCAGGGAGGTAAAATCTGCCATATT
1 GGAAGTAGAATTACTGGCTTCAATGTACTCCACTGCAACTACAGGGAGGTAAAATCTGCCATCTT
* ** * **
19019377 CGATCTGCTCCACTACTGCTTAGGGAGGCAAGATCTGAAATCTTCAATCTATTCTGCTGCTGCCC
66 CGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGTTATCTTTAATCTATTCCACTGCTGCCC
* ** * * **
19019442 AGGGA-AGTAAAATTACCGGCTTCAATGTACTCCACGGTAACCACAGGGAGGTAAAATCTGCCAT
131 AGGGAGA-TAGAATTATTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCAT
* * * *
19019506 CTTTGACCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCGCTGCTG
195 CTTTGATCTGCTCCTCTACTGCTTAGGGAGATAAGATCTG--TTCTTCAATCTATTCCGCTGCTG
*
19019571 CCTAG
258 CCCAG
* * * *
19019576 GGAAGTAGAATTACCGGCTTCAATATACTCCACGGCAA-TCACAGGAAGGTAAAATCTGCCATCT
1 GGAAGTAGAATTACTGGCTTCAATGTACTCCACTGCAACT-ACAGGGAGGTAAAATCTGCCATCT
* * *
19019640 TTGATCTGCTCCACTACTGCTTAGAGAGACAAGATCTGCTATCTT
65 TCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGTTATCTT
19019685 CAACCTGCTC
Statistics
Matches: 587, Mismatches: 43, Indels: 7
0.92 0.07 0.01
Matches are distributed among these distances:
261 15 0.03
262 449 0.76
263 1 0.00
264 122 0.21
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (262 bp):
GGAAGTAGAATTACTGGCTTCAATGTACTCCACTGCAACTACAGGGAGGTAAAATCTGCCATCTT
CGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGTTATCTTTAATCTATTCCACTGCTGCCC
AGGGAGATAGAATTATTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATC
TTTGATCTGCTCCTCTACTGCTTAGGGAGATAAGATCTGTTCTTCAATCTATTCCGCTGCTGCCC
AG
Found at i:19019507 original size:394 final size:394
Alignment explanation
Indices: 19018789--19019687 Score: 1297
Period size: 394 Copynumber: 2.3 Consensus size: 394
19018779 GCACTGCTAA
19018789 GGAAGTAGAATTACT-GCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTT
1 GGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTT
* * *
19018853 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTTATCTTTAATCTATTCCACTGCTGCCC
66 TGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCTATCTTCAATCTATTCCACTGCTGCCC
* * * *
19018918 AGTGAGATAGAATTATTGGCTTCAATGTACTCTACTGTAACCTTAGGGAGGTAAAATCCACCATA
131 AGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGCAACCTTAGGGAGGTAAAATCCACCATA
* ** * *
19018983 TTTGATCTGCTCTTCTACTGCTTAGGGAGATAAGATCTGTTCTTCAATCTATTCCGCTGCTGCCC
196 TTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGATCTTCAATCTATTCCGCTGCTGCCC
* * * **
19019048 AGGAAAGTAGAATTACTGGCTTCAATGTACTCCACTGCAACTTCAGGGAGGTAAAATCCGCCATC
261 AGGAAAGTAAAATTACCGGCTTCAATGTACTCCACGGCAACCACAGGGAGGTAAAATCCGCCATC
* * ** *
19019113 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTTATCTTTAATCTATTCCACTGCTGC
326 TTCGACCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGC
19019178 CCAG
391 CCAG
* * **
19019182 GG-AGATAGAATTATTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATCT
1 GGAAG-TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCT
* *
19019246 TTGATCTGCTCCTCTACTGCTTAGGGAGATAAGATCTG-T-TCTTCAATCTATTCCGCTGCTGCC
65 TTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCTATCTTCAATCTATTCCACTGCTGCC
**
19019309 CAGGGA-AGTAGAATTACTGGCTTCAATGTACTCCACTGCAA-CTTCAGGGAGGTAAAATCTGCC
130 CAGGGAGA-TAGAATTACTGGCTTCAATGTACTCCACTGCAACCTT-AGGGAGGTAAAATCCACC
* *
19019372 ATATTCGATCTGCTCCACTACTGCTTAGGGAGGCAAGATCTGAAATCTTCAATCTATTCTGCTGC
193 ATATTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTG--ATCTTCAATCTATTCCGCTGC
* * *
19019437 TGCCCAGGGAAGTAAAATTACCGGCTTCAATGTACTCCACGGTAACCACAGGGAGGTAAAATCTG
256 TGCCCAGGAAAGTAAAATTACCGGCTTCAATGTACTCCACGGCAACCACAGGGAGGTAAAATCCG
* *
19019502 CCATCTTTGACCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCGCT
321 CCATCTTCGACCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACT
*
19019567 GCTGCCTAG
386 GCTGCCCAG
* * * * * *
19019576 GGAAGTAGAATTACCGGCTTCAATATACTCCACGGCAATCACAGGAAGGTAAAATCTGCCATCTT
1 GGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTT
* *
19019641 TGATCTGCTCCACTACTGCTTAGAGAGACAAGATCTGCTATCTTCAA
66 TGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCTATCTTCAA
19019688 CCTGCTCCCC
Statistics
Matches: 447, Mismatches: 50, Indels: 15
0.87 0.10 0.03
Matches are distributed among these distances:
391 4 0.01
392 112 0.25
393 12 0.03
394 309 0.69
395 3 0.01
396 7 0.02
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (394 bp):
GGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTT
TGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCTATCTTCAATCTATTCCACTGCTGCCC
AGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGCAACCTTAGGGAGGTAAAATCCACCATA
TTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGATCTTCAATCTATTCCGCTGCTGCCC
AGGAAAGTAAAATTACCGGCTTCAATGTACTCCACGGCAACCACAGGGAGGTAAAATCCGCCATC
TTCGACCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGC
CCAG
Found at i:19019710 original size:132 final size:131
Alignment explanation
Indices: 19018789--19019687 Score: 1259
Period size: 132 Copynumber: 6.8 Consensus size: 131
19018779 GCACTGCTAA
*
19018789 GGAAGTAGAATTACT-GCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTT
1 GGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTT
* * *
19018853 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTTATCTTTAATCTATTCCACTGCTGCCC
66 TGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG-TATCTTCAATCTATTCCGCTGCTGCCC
19018918 AG
130 AG
* * * * ** *
19018920 TG-AGATAGAATTATTGGCTTCAATGTACTCTACTGTAACCTTAGGGAGGTAAAATCCACCATAT
1 GGAAG-TAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCT
**
19018984 TTGATCTGCTCTTCTACTGCTTAGGGAGATAAGATCTGT-TCTTCAATCTATTCCGCTGCTGCCC
65 TTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTATCTTCAATCTATTCCGCTGCTGCCC
19019048 AG
130 AG
* * * *
19019050 GAAAGTAGAATTACTGGCTTCAATGTACTCCACTGCAACTTCAGGGAGGTAAAATCCGCCATCTT
1 GGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTT
* * *
19019115 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTTATCTTTAATCTATTCCACTGCTGCCC
66 TGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG-TATCTTCAATCTATTCCGCTGCTGCCC
19019180 AG
130 AG
* **
19019182 GG-AGATAGAATTATTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATCT
1 GGAAG-TAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCT
*
19019246 TTGATCTGCTCCTCTACTGCTTAGGGAGATAAGATCTGT-TCTTCAATCTATTCCGCTGCTGCCC
65 TTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTATCTTCAATCTATTCCGCTGCTGCCC
19019310 AG
130 AG
* * *
19019312 GGAAGTAGAATTACTGGCTTCAATGTACTCCACTGCAACTTCAGGGAGGTAAAATCTGCCATATT
1 GGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTT
* ** * *
19019377 CGATCTGCTCCACTACTGCTTAGGGAGGCAAGATCTGAAATCTTCAATCTATTCTGCTGCTGCCC
66 TGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG-TATCTTCAATCTATTCCGCTGCTGCCC
19019442 AG
130 AG
* * * *
19019444 GGAAGTAAAATTACCGGCTTCAATGTACTCCACGGTAACCACAGGGAGGTAAAATCTGCCATCTT
1 GGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTT
* * * *
19019509 TGACCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCGCTGCTGCCT
66 TGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG-TATCTTCAATCTATTCCGCTGCTGCCC
19019574 AG
130 AG
* * * * * * *
19019576 GGAAGTAGAATTACCGGCTTCAATATACTCCACGGCAATCACAGGAAGGTAAAATCTGCCATCTT
1 GGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTT
* *
19019641 TGATCTGCTCCACTACTGCTTAGAGAGACAAGATCTGCTATCTTCAA
66 TGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG-TATCTTCAA
19019688 CCTGCTCCCC
Statistics
Matches: 690, Mismatches: 69, Indels: 17
0.89 0.09 0.02
Matches are distributed among these distances:
130 228 0.33
131 19 0.03
132 443 0.64
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (131 bp):
GGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTT
TGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTATCTTCAATCTATTCCGCTGCTGCCCA
G
Found at i:19021018 original size:7 final size:7
Alignment explanation
Indices: 19021004--19021036 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
19020994 TCCATTTTAT
19021004 TTTTTCA
1 TTTTTCA
*
19021011 TTTCTCA
1 TTTTTCA
19021018 TTTTTCA
1 TTTTTCA
19021025 TTTTTCA
1 TTTTTCA
19021032 TTTTT
1 TTTTT
19021037 TCACATCACT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTTTCA
Found at i:19021022 original size:15 final size:15
Alignment explanation
Indices: 19021002--19021039 Score: 60
Period size: 14 Copynumber: 2.6 Consensus size: 15
19020992 TCTCCATTTT
19021002 ATTTTTTCATTTCTC
1 ATTTTTTCATTTCTC
*
19021017 A-TTTTTCATTTTTC
1 ATTTTTTCATTTCTC
19021031 ATTTTTTCA
1 ATTTTTTCA
19021040 CATCACTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 13 0.62
15 8 0.38
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (15 bp):
ATTTTTTCATTTCTC
Found at i:19026344 original size:25 final size:28
Alignment explanation
Indices: 19026302--19026353 Score: 65
Period size: 27 Copynumber: 1.9 Consensus size: 28
19026292 AGAACACCTA
*
19026302 TATATTATATAAAGAAAT-ATGTATATG
1 TATACTATATAAAGAAATCATGTATATG
19026329 TATACTATAT-AA-AAATGCATGTATA
1 TATACTATATAAAGAAAT-CATGTATA
19026354 AGTTTAGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
25 4 0.18
26 2 0.09
27 16 0.73
ACGTcount: A:0.48, C:0.04, G:0.10, T:0.38
Consensus pattern (28 bp):
TATACTATATAAAGAAATCATGTATATG
Found at i:19031603 original size:19 final size:19
Alignment explanation
Indices: 19031566--19031604 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
19031556 ATTGCGTGTC
* * *
19031566 TGAATAGAAAAGAACGAAA
1 TGAATAAAAAAAAAAGAAA
19031585 TGAATAAAAAAAAAAGAAA
1 TGAATAAAAAAAAAAGAAA
19031604 T
1 T
19031605 AGGAAACATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.69, C:0.03, G:0.15, T:0.13
Consensus pattern (19 bp):
TGAATAAAAAAAAAAGAAA
Found at i:19031887 original size:26 final size:26
Alignment explanation
Indices: 19031853--19031925 Score: 94
Period size: 26 Copynumber: 2.8 Consensus size: 26
19031843 AATTTTCTCC
19031853 AAATTTTATCGAGGGTAAAATCATCA
1 AAATTTTATCGAGGGTAAAATCATCA
* * *
19031879 AAATTTTATTGAAGGCAAAATCATCA
1 AAATTTTATCGAGGGTAAAATCATCA
*
19031905 AAATTTTA-CTGGGGGTAAAAT
1 AAATTTTATC-GAGGGTAAAAT
19031926 TGCCAAAATT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.42, C:0.10, G:0.16, T:0.32
Consensus pattern (26 bp):
AAATTTTATCGAGGGTAAAATCATCA
Found at i:19032457 original size:43 final size:43
Alignment explanation
Indices: 19032391--19032556 Score: 197
Period size: 43 Copynumber: 3.9 Consensus size: 43
19032381 AACACATAGT
* * * *
19032391 TCGCCTATTGGCGAATACAATACACAAGCAGACTTCATACAAC
1 TCGCCCATTGGCGAATACTATACACAAGCAAACTTTATACAAC
* *
19032434 TCGCCCATTGACGAATATTATACACAAGCAAACTTTATACAAC
1 TCGCCCATTGGCGAATACTATACACAAGCAAACTTTATACAAC
* * * **
19032477 TTGCCTATTGGTGAATACTATACACAATTAAACTTTATACAAC
1 TCGCCCATTGGCGAATACTATACACAAGCAAACTTTATACAAC
* ** *
19032520 TCTCCCATTGGTAAATATTATACACAAGCAAACTTTA
1 TCGCCCATTGGCGAATACTATACACAAGCAAACTTTA
19032557 CAGCAGACTT
Statistics
Matches: 103, Mismatches: 20, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 103 1.00
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.28
Consensus pattern (43 bp):
TCGCCCATTGGCGAATACTATACACAAGCAAACTTTATACAAC
Found at i:19032500 original size:86 final size:86
Alignment explanation
Indices: 19032393--19032556 Score: 238
Period size: 86 Copynumber: 1.9 Consensus size: 86
19032383 CACATAGTTC
* *
19032393 GCCTATTGGCGAATACAATACACAAGCAGACTTCATACAACTCGCCCATTGACGAATATTATACA
1 GCCTATTGGCGAATACAATACACAAGCAAACTTCATACAACTCGCCCATTGACAAATATTATACA
19032458 CAAGCAAACTTTATACAACTT
66 CAAGCAAACTTTATACAACTT
* * ** * * **
19032479 GCCTATTGGTGAATACTATACACAATTAAACTTTATACAACTCTCCCATTGGTAAATATTATACA
1 GCCTATTGGCGAATACAATACACAAGCAAACTTCATACAACTCGCCCATTGACAAATATTATACA
19032544 CAAGCAAACTTTA
66 CAAGCAAACTTTA
19032557 CAGCAGACTT
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
86 68 1.00
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.28
Consensus pattern (86 bp):
GCCTATTGGCGAATACAATACACAAGCAAACTTCATACAACTCGCCCATTGACAAATATTATACA
CAAGCAAACTTTATACAACTT
Found at i:19035679 original size:21 final size:21
Alignment explanation
Indices: 19035638--19035679 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
19035628 TTAGAAATGC
* *
19035638 TTTTGTCCTAAAAGTAATTTT
1 TTTTGTCCCAAAACTAATTTT
*
19035659 TTTTGTCCCAAAACTACTTTT
1 TTTTGTCCCAAAACTAATTTT
19035680 GAGAAGCATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.26, C:0.17, G:0.07, T:0.50
Consensus pattern (21 bp):
TTTTGTCCCAAAACTAATTTT
Found at i:19042615 original size:47 final size:46
Alignment explanation
Indices: 19042529--19042621 Score: 114
Period size: 47 Copynumber: 2.0 Consensus size: 46
19042519 ATCTAATGCT
* * * *
19042529 AAATGGATGTCCATACCCCCAAATTTATCCTATTGTAACCCTTAAA
1 AAATGAATGTCCATACCCCCAAATTTATCATATTATAACCCCTAAA
* * *
19042575 AAATGAATGTCCATAACCCCTAAATTTATTATTTTATAACCCCTAAA
1 AAATGAATGTCCAT-ACCCCCAAATTTATCATATTATAACCCCTAAA
19042622 TTACTTATAG
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
46 13 0.33
47 26 0.67
ACGTcount: A:0.38, C:0.24, G:0.06, T:0.32
Consensus pattern (46 bp):
AAATGAATGTCCATACCCCCAAATTTATCATATTATAACCCCTAAA
Found at i:19046718 original size:37 final size:37
Alignment explanation
Indices: 19046668--19046742 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
19046658 AAGGTATTTT
19046668 AATTCAAACAAGGTTGACTCATTGTGTTATAAAATTG
1 AATTCAAACAAGGTTGACTCATTGTGTTATAAAATTG
19046705 AATTCAAACAAGGTTGACTCATTGTGTTATAAAATTG
1 AATTCAAACAAGGTTGACTCATTGTGTTATAAAATTG
19046742 A
1 A
19046743 GGCTGTAGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.35
Consensus pattern (37 bp):
AATTCAAACAAGGTTGACTCATTGTGTTATAAAATTG
Found at i:19046969 original size:8 final size:8
Alignment explanation
Indices: 19046958--19046982 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
19046948 TAAAATGTTG
19046958 AAATCTGA
1 AAATCTGA
19046966 AAATCTGA
1 AAATCTGA
19046974 AAATCTGA
1 AAATCTGA
19046982 A
1 A
19046983 TAGTTAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.52, C:0.12, G:0.12, T:0.24
Consensus pattern (8 bp):
AAATCTGA
Found at i:19057625 original size:35 final size:36
Alignment explanation
Indices: 19057561--19057631 Score: 110
Period size: 35 Copynumber: 2.0 Consensus size: 36
19057551 TTTAATTATA
19057561 TTATTGTTAACAAATTTAACTTATATAAACAAAATT
1 TTATTGTTAACAAATTTAACTTATATAAACAAAATT
*
19057597 TTATTGTTAA-AAATTTAA-TTAATTTAAACAAAATT
1 TTATTGTTAACAAATTTAACTT-ATATAAACAAAATT
19057632 GAAATATAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
34 2 0.06
35 21 0.64
36 10 0.30
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.44
Consensus pattern (36 bp):
TTATTGTTAACAAATTTAACTTATATAAACAAAATT
Found at i:19060962 original size:18 final size:17
Alignment explanation
Indices: 19060939--19060988 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
19060929 TAAGCCTAAA
19060939 GCTTTCTCTTGCTCTTTC
1 GCTTTCTCTT-CTCTTTC
* *
19060957 GCTTTCACTT-TCCTTTT
1 GCTTTCTCTTCT-CTTTC
19060974 GCTTT-TCTTCTCTTT
1 GCTTTCTCTTCTCTTT
19060989 TCTTAACAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
16 8 0.30
17 10 0.37
18 9 0.33
ACGTcount: A:0.02, C:0.30, G:0.08, T:0.60
Consensus pattern (17 bp):
GCTTTCTCTTCTCTTTC
Found at i:19063697 original size:25 final size:25
Alignment explanation
Indices: 19063664--19063721 Score: 91
Period size: 25 Copynumber: 2.4 Consensus size: 25
19063654 TTCAAGGATC
* *
19063664 AAAA-TGAATTTAGTTGCCAAATTT
1 AAAAGTGAATCTAATTGCCAAATTT
19063688 AAAAGTGAATCTAATTGCCAAATTT
1 AAAAGTGAATCTAATTGCCAAATTT
19063713 AAAAGTGAA
1 AAAAGTGAA
19063722 AAAAAATTAC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
24 4 0.13
25 27 0.87
ACGTcount: A:0.47, C:0.09, G:0.14, T:0.31
Consensus pattern (25 bp):
AAAAGTGAATCTAATTGCCAAATTT
Found at i:19064327 original size:19 final size:19
Alignment explanation
Indices: 19064291--19064330 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
19064281 TAATTCGAAA
**
19064291 CAAAACAGAAAAGTAAGGT
1 CAAAACAGAAAACAAAGGT
*
19064310 CAAAACATAAAACAAAGGT
1 CAAAACAGAAAACAAAGGT
19064329 CA
1 CA
19064331 TACGGCCGTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.60, C:0.15, G:0.15, T:0.10
Consensus pattern (19 bp):
CAAAACAGAAAACAAAGGT
Found at i:19072090 original size:18 final size:18
Alignment explanation
Indices: 19072053--19072091 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
19072043 TGTATTTGTC
*
19072053 AAACTGTGCTTATTCGTT
1 AAACTGTGCTTATTCCTT
19072071 AAACTGTGCTCT-TTCCTT
1 AAACTGTGCT-TATTCCTT
19072089 AAA
1 AAA
19072092 TCCTTACAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 18 0.95
19 1 0.05
ACGTcount: A:0.26, C:0.21, G:0.13, T:0.41
Consensus pattern (18 bp):
AAACTGTGCTTATTCCTT
Found at i:19074973 original size:6 final size:5
Alignment explanation
Indices: 19074948--19074985 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
19074938 TGGGGATGAA
*
19074948 TTTAT TTTAT TTTAT TTTATT TTTAT TTT-T GTTAT TTT
1 TTTAT TTTAT TTTAT TTTA-T TTTAT TTTAT TTTAT TTT
19074986 GTTATTTTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
4 3 0.10
5 21 0.72
6 5 0.17
ACGTcount: A:0.16, C:0.00, G:0.03, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:19083143 original size:32 final size:32
Alignment explanation
Indices: 19083104--19083245 Score: 107
Period size: 31 Copynumber: 4.5 Consensus size: 32
19083094 GCCCTCAAAA
*
19083104 TTTTTGAAAATTTTAATTAGACCCTTTAAATT
1 TTTTTGAAAATTTTAATTAAACCCTTTAAATT
* *
19083136 TTTTTGAAAATTATT-ATTAAA-CTTTTGAAA-A
1 TTTTTGAAAATT-TTAATTAAACCCTTT-AAATT
* * *
19083167 TTTTT-AAAATTTTCAATTAAACTC-TTGACTT
1 TTTTTGAAAATTTT-AATTAAACCCTTTAAATT
* * * * *
19083198 TTTTTTAAAATTTTCA-TAAAACCTCTAATTT
1 TTTTTGAAAATTTTAATTAAACCCTTTAAATT
*
19083229 TTTTTCAAAATTTTAAT
1 TTTTTGAAAATTTTAAT
19083246 CAGACCTATC
Statistics
Matches: 85, Mismatches: 16, Indels: 18
0.71 0.13 0.15
Matches are distributed among these distances:
29 2 0.02
30 12 0.14
31 41 0.48
32 28 0.33
33 2 0.02
ACGTcount: A:0.36, C:0.09, G:0.04, T:0.51
Consensus pattern (32 bp):
TTTTTGAAAATTTTAATTAAACCCTTTAAATT
Found at i:19086069 original size:27 final size:27
Alignment explanation
Indices: 19086038--19086096 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 27
19086028 CACATAGTGT
19086038 TAGTGACAATTCAGTGCAATTAAATGA
1 TAGTGACAATTCAGTGCAATTAAATGA
* ** * * *
19086065 TAGTGGCGCTTCGGTGCAATTTAGTGA
1 TAGTGACAATTCAGTGCAATTAAATGA
19086092 TAGTG
1 TAGTG
19086097 GCTCATTGGA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.29, C:0.12, G:0.27, T:0.32
Consensus pattern (27 bp):
TAGTGACAATTCAGTGCAATTAAATGA
Found at i:19089420 original size:16 final size:17
Alignment explanation
Indices: 19089399--19089430 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
19089389 AAATATGCAA
19089399 TCACATAA-TTCATATT
1 TCACATAACTTCATATT
19089415 TCACATAACTTCATAT
1 TCACATAACTTCATAT
19089431 CATCAATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.38, C:0.22, G:0.00, T:0.41
Consensus pattern (17 bp):
TCACATAACTTCATATT
Found at i:19089653 original size:43 final size:43
Alignment explanation
Indices: 19089591--19089753 Score: 145
Period size: 43 Copynumber: 3.8 Consensus size: 43
19089581 CAATGCCAAC
* * *
19089591 GTCCCAGACGTGGTCTTACATGTAATCACATATCGATGCTAAT
1 GTCCCAGACATGGTCTTACATGAAAACACATATCGATGCTAAT
* * * * *
19089634 ATCCCAGACATGGTCTTACA-CAAATCAAATA-CGATGCCAAT
1 GTCCCAGACATGGTCTTACATGAAAACACATATCGATGCTAAT
* * * *
19089675 GTCCTAGACATGGTCTTACACGTAAACACA-AGTCGATG-TCAAC
1 GTCCCAGACATGGTCTTACATGAAAACACATA-TCGATGCT-AAT
** *
19089718 GTCCCAGATGTGGTCTTACATGAAAACACGTATCGA
1 GTCCCAGACATGGTCTTACATGAAAACACATATCGA
19089754 AATCCTATGT
Statistics
Matches: 95, Mismatches: 20, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
41 28 0.29
42 13 0.14
43 53 0.56
44 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.25
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACATGAAAACACATATCGATGCTAAT
Found at i:19089684 original size:41 final size:42
Alignment explanation
Indices: 19089583--19089695 Score: 138
Period size: 41 Copynumber: 2.7 Consensus size: 42
19089573 GACTCGTACA
* * ** *
19089583 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACA-CAAATCAAATATCG
* *
19089626 ATGCTAATATCCCAGACATGGTCTTACACAAATCAAATA-CG
1 ATGCCAATGTCCCAGACATGGTCTTACACAAATCAAATATCG
*
19089667 ATGCCAATGTCCTAGACATGGTCTTACAC
1 ATGCCAATGTCCCAGACATGGTCTTACAC
19089696 GTAAACACAA
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
41 28 0.47
42 8 0.13
43 24 0.40
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.26
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATGGTCTTACACAAATCAAATATCG
Found at i:19089724 original size:84 final size:84
Alignment explanation
Indices: 19089583--19089737 Score: 197
Period size: 84 Copynumber: 1.8 Consensus size: 84
19089573 GACTCGTACA
* * * *
19089583 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCGATGCTAATATCCCAGACATGGT
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATATCGATGCTAACATCCCAGACATGGT
19089648 CTTACACAAATCAAATACG
66 CTTACACAAATCAAATACG
* * * **
19089667 ATGCCAATGTCCTAGACATGGTCTTACACGTAAACACA-AGTCGATG-TCAACGTCCCAGATGTG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATA-TCGATGCT-AACATCCCAGACATG
19089730 GTCTTACA
64 GTCTTACA
19089738 TGAAAACACG
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
83 2 0.03
84 58 0.97
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (84 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATATCGATGCTAACATCCCAGACATGGT
CTTACACAAATCAAATACG
Found at i:19090057 original size:244 final size:244
Alignment explanation
Indices: 19089692--19090182 Score: 982
Period size: 244 Copynumber: 2.0 Consensus size: 244
19089682 ACATGGTCTT
19089692 ACACGTAAACACAAGTCGATGTCAACGTCCCAGATGTGGTCTTACATGAAAACACGTATCGAAAT
1 ACACGTAAACACAAGTCGATGTCAACGTCCCAGATGTGGTCTTACATGAAAACACGTATCGAAAT
19089757 CCTATGTCATAACATATGTATCCTAACTATTCCTAAGGCTCATACGGGGCTTTTGGACGTCGTAA
66 CCTATGTCATAACATATGTATCCTAACTATTCCTAAGGCTCATACGGGGCTTTTGGACGTCGTAA
19089822 CTCAGTCGAAACAAATTCATAAACATAGCTGCCAAGCTTGTACACATTCGGCTAATACATATATT
131 CTCAGTCGAAACAAATTCATAAACATAGCTGCCAAGCTTGTACACATTCGGCTAATACATATATT
19089887 TATTCACATATTCACTTCAGCACATATAATTCACATTTAATTAAAATTA
196 TATTCACATATTCACTTCAGCACATATAATTCACATTTAATTAAAATTA
19089936 ACACGTAAACACAAGTCGATGTCAACGTCCCAGATGTGGTCTTACATGAAAACACGTATCGAAAT
1 ACACGTAAACACAAGTCGATGTCAACGTCCCAGATGTGGTCTTACATGAAAACACGTATCGAAAT
19090001 CCTATGTCATAACATATGTATCCTAACTATTCCTAAGGCTCATACGGGGCTTTTGGACGTCGTAA
66 CCTATGTCATAACATATGTATCCTAACTATTCCTAAGGCTCATACGGGGCTTTTGGACGTCGTAA
19090066 CTCAGTCGAAACAAATTCATAAACATAGCTGCCAAGCTTGTACACATTCGGCTAATACATATATT
131 CTCAGTCGAAACAAATTCATAAACATAGCTGCCAAGCTTGTACACATTCGGCTAATACATATATT
19090131 TATTCACATATTCACTTCAGCACATATAATTCACATTTAATTAAAATTA
196 TATTCACATATTCACTTCAGCACATATAATTCACATTTAATTAAAATTA
19090180 ACA
1 ACA
19090183 ACGTCTATTT
Statistics
Matches: 247, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
244 247 1.00
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.29
Consensus pattern (244 bp):
ACACGTAAACACAAGTCGATGTCAACGTCCCAGATGTGGTCTTACATGAAAACACGTATCGAAAT
CCTATGTCATAACATATGTATCCTAACTATTCCTAAGGCTCATACGGGGCTTTTGGACGTCGTAA
CTCAGTCGAAACAAATTCATAAACATAGCTGCCAAGCTTGTACACATTCGGCTAATACATATATT
TATTCACATATTCACTTCAGCACATATAATTCACATTTAATTAAAATTA
Found at i:19095985 original size:13 final size:12
Alignment explanation
Indices: 19095949--19096009 Score: 54
Period size: 12 Copynumber: 5.2 Consensus size: 12
19095939 AAAATCTTTT
19095949 AAAATTATAAAA
1 AAAATTATAAAA
*
19095961 GAAAA-TACAAAA
1 -AAAATTATAAAA
*
19095973 AAAATTATTAAA
1 AAAATTATAAAA
*
19095985 AAAA-TATAAAT
1 AAAATTATAAAA
* *
19095996 AGAATTGTAAAA
1 AAAATTATAAAA
19096008 AA
1 AA
19096010 TCCTATATGG
Statistics
Matches: 37, Mismatches: 9, Indels: 5
0.73 0.18 0.10
Matches are distributed among these distances:
11 12 0.32
12 21 0.57
13 4 0.11
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.23
Consensus pattern (12 bp):
AAAATTATAAAA
Found at i:19097173 original size:49 final size:49
Alignment explanation
Indices: 19097101--19097200 Score: 200
Period size: 49 Copynumber: 2.0 Consensus size: 49
19097091 CACTGACGTG
19097101 GTAAACTTGCACCAATAGGCTATCATCATAGAACGCTTGGGGGAAGTAC
1 GTAAACTTGCACCAATAGGCTATCATCATAGAACGCTTGGGGGAAGTAC
19097150 GTAAACTTGCACCAATAGGCTATCATCATAGAACGCTTGGGGGAAGTAC
1 GTAAACTTGCACCAATAGGCTATCATCATAGAACGCTTGGGGGAAGTAC
19097199 GT
1 GT
19097201 GATGGGACTT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (49 bp):
GTAAACTTGCACCAATAGGCTATCATCATAGAACGCTTGGGGGAAGTAC
Found at i:19109406 original size:2 final size:2
Alignment explanation
Indices: 19109399--19109442 Score: 61
Period size: 2 Copynumber: 22.0 Consensus size: 2
19109389 ATTTTTATTT
* **
19109399 CA CA CA CA CA CA CA CA CA CA CG TG CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
19109441 CA
1 CA
19109443 AACCTTGCAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.45, C:0.48, G:0.05, T:0.02
Consensus pattern (2 bp):
CA
Found at i:19109845 original size:16 final size:16
Alignment explanation
Indices: 19109826--19109856 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19109816 TTAGGGACTT
*
19109826 CAATACCCTTTTTACA
1 CAATAACCTTTTTACA
19109842 CAATAACCTTTTTAC
1 CAATAACCTTTTTAC
19109857 CGCACTAAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.29, G:0.00, T:0.39
Consensus pattern (16 bp):
CAATAACCTTTTTACA
Found at i:19118329 original size:105 final size:101
Alignment explanation
Indices: 19118148--19118364 Score: 265
Period size: 105 Copynumber: 2.1 Consensus size: 101
19118138 AATTGGTAGA
* * * * *
19118148 TAAGATCATGGTTGGACCATGGCAGTGTTTAAATGTAAGACCATAGCTGAGTTATGGAATTTTAA
1 TAAGACCATGGTTGGACCATGACAGTATTTAAATGTAAGACCATAGCTGAGCTATGGAATTCTAA
* **
19118213 TGAAAATACCATAACTGGGTTATGGCACCT-TGAACG
66 TGAAAAGACCATAACTGGGTTATGGCA-CTACAAACG
* * *
19118249 TAAGACCATGGTTGGACCATGACAGTATATATACATGTGTAAGACCATAGCTGGGCTATGGCATT
1 TAAGACCATGGTTGGACCATGACAGTAT-T-TA-A-ATGTAAGACCATAGCTGAGCTATGGAATT
* *
19118314 CTGATGATAAGACCATAACTGGGTTATGGCACTACAAACG
62 CTAATGAAAAGACCATAACTGGGTTATGGCACTACAAACG
19118354 TAAGACCATGG
1 TAAGACCATGG
19118365 CAGACTCATG
Statistics
Matches: 98, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
101 25 0.26
102 1 0.01
103 2 0.02
104 3 0.03
105 67 0.68
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (101 bp):
TAAGACCATGGTTGGACCATGACAGTATTTAAATGTAAGACCATAGCTGAGCTATGGAATTCTAA
TGAAAAGACCATAACTGGGTTATGGCACTACAAACG
Found at i:19119515 original size:23 final size:21
Alignment explanation
Indices: 19119488--19119543 Score: 58
Period size: 23 Copynumber: 2.6 Consensus size: 21
19119478 TTTATATCAG
19119488 TTTTAATATTTTTAATAATTTT
1 TTTTAATATTTTT-ATAATTTT
* * *
19119510 TATTTAAAAATTTTATGATTTT
1 T-TTTAATATTTTTATAATTTT
*
19119532 TTATAATATTTT
1 TTTTAATATTTT
19119544 AAGCATTCTT
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
21 8 0.30
22 9 0.33
23 10 0.37
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (21 bp):
TTTTAATATTTTTATAATTTT
Found at i:19119582 original size:20 final size:21
Alignment explanation
Indices: 19119559--19119608 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
19119549 TTCTTATATG
19119559 TTTTTATAAAATTT-CAAATT
1 TTTTTATAAAATTTACAAATT
* * *
19119579 TTTTTATTAATTTTATAAATT
1 TTTTTATAAAATTTACAAATT
*
19119600 TTGTTATAA
1 TTTTTATAA
19119609 TTTATTAGAT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 12 0.50
21 12 0.50
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (21 bp):
TTTTTATAAAATTTACAAATT
Found at i:19149494 original size:37 final size:37
Alignment explanation
Indices: 19149420--19149500 Score: 92
Period size: 37 Copynumber: 2.2 Consensus size: 37
19149410 ATGGAGAAAT
* * *
19149420 ATGAAA-CATTTGGAAATTATTAAGGTTTTATTAAAA
1 ATGAAATCATTTGGAAATGAATAAGGTTTTATCAAAA
* * *
19149456 ATGAAATCATTTGGAAATGAATATGGTTTTCTCCAAA
1 ATGAAATCATTTGGAAATGAATAAGGTTTTATCAAAA
19149493 ATGGAAAT
1 AT-GAAAT
19149501 GAAAATGAGA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
36 6 0.16
37 26 0.70
38 5 0.14
ACGTcount: A:0.42, C:0.06, G:0.16, T:0.36
Consensus pattern (37 bp):
ATGAAATCATTTGGAAATGAATAAGGTTTTATCAAAA
Found at i:19149515 original size:7 final size:7
Alignment explanation
Indices: 19149491--19149529 Score: 64
Period size: 7 Copynumber: 5.9 Consensus size: 7
19149481 GTTTTCTCCA
19149491 AAATG-G
1 AAATGAG
19149497 AAATGA-
1 AAATGAG
19149503 AAATGAG
1 AAATGAG
19149510 AAATGAG
1 AAATGAG
19149517 AAATGAG
1 AAATGAG
19149524 AAATGA
1 AAATGA
19149530 ATTTATTTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 11 0.35
7 20 0.65
ACGTcount: A:0.59, C:0.00, G:0.26, T:0.15
Consensus pattern (7 bp):
AAATGAG
Found at i:19156692 original size:22 final size:23
Alignment explanation
Indices: 19156638--19156693 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
19156628 TACACCACAC
*
19156638 CAGTAGGCACCGAAGTACTTATA
1 CAGTAGGCACCGAAATACTTATA
* *
19156661 CAGTAAGCACCGAAAT-GTTGA-A
1 CAGTAGGCACCGAAATACTT-ATA
19156683 CAGTAGGCACC
1 CAGTAGGCACC
19156694 ATAGTGCAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
22 13 0.46
23 15 0.54
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (23 bp):
CAGTAGGCACCGAAATACTTATA
Found at i:19156708 original size:22 final size:22
Alignment explanation
Indices: 19156683--19156727 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
19156673 AAATGTTGAA
*
19156683 CAGTAGGCACCATAGTGCAAAT
1 CAGTAGGCACCATAGTGAAAAT
19156705 CAGTAGGCACCATAGTGAAAAT
1 CAGTAGGCACCATAGTGAAAAT
19156727 C
1 C
19156728 CTGTACAAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (22 bp):
CAGTAGGCACCATAGTGAAAAT
Found at i:19182751 original size:7 final size:7
Alignment explanation
Indices: 19182739--19182765 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
19182729 CTATAGATAC
19182739 GATTGAT
1 GATTGAT
19182746 GATTGAT
1 GATTGAT
19182753 GATTGAT
1 GATTGAT
19182760 GATTGA
1 GATTGA
19182766 ATTAATATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.30, T:0.41
Consensus pattern (7 bp):
GATTGAT
Found at i:19183995 original size:20 final size:19
Alignment explanation
Indices: 19183972--19184041 Score: 90
Period size: 20 Copynumber: 3.7 Consensus size: 19
19183962 AAATTACAAA
19183972 AAAAATTCAAAATAATTTT
1 AAAAATTCAAAATAATTTT
19183991 CAAAAATTCAAAATAATTTT
1 -AAAAATTCAAAATAATTTT
* *
19184011 TAAAATTCAAAA-AA-TAT
1 AAAAATTCAAAATAATTTT
19184028 AAAAATTCCAAAAT
1 AAAAATT-CAAAAT
19184042 TTATTTTTTA
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
17 8 0.18
18 7 0.16
19 11 0.24
20 19 0.42
ACGTcount: A:0.60, C:0.09, G:0.00, T:0.31
Consensus pattern (19 bp):
AAAAATTCAAAATAATTTT
Found at i:19184016 original size:39 final size:38
Alignment explanation
Indices: 19183973--19184056 Score: 100
Period size: 39 Copynumber: 2.2 Consensus size: 38
19183963 AATTACAAAA
*
19183973 AAAATTCAAAATAATTTTCAAAAATT-CAAAA-TAATTTTT
1 AAAATTCAAAA-AA-TAT-AAAAATTCCAAAATTAATTTTT
*
19184012 AAAATTCAAAAAATATAAAAATTCCAAAATTTATTTTTT
1 AAAATTCAAAAAATATAAAAATTCCAAAA-TTAATTTTT
19184051 AAAATT
1 AAAATT
19184057 ATAAGAATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
36 7 0.17
37 7 0.17
38 2 0.05
39 24 0.60
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (38 bp):
AAAATTCAAAAAATATAAAAATTCCAAAATTAATTTTT
Found at i:19192231 original size:5 final size:6
Alignment explanation
Indices: 19192198--19192253 Score: 52
Period size: 5 Copynumber: 10.3 Consensus size: 6
19192188 ACATACAGAG
* *
19192198 AGAGAA AGAGAG AG-GAG AGA-AA AGAGAA AG-GAA AGAGAA A-AG-A
1 AGAGAA AGAGAA AGAGAA AGAGAA AGAGAA AGAGAA AGAGAA AGAGAA
19192241 AGAG-A AGAGAA AG
1 AGAGAA AGAGAA AG
19192254 GGGTTTTTTC
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
4 2 0.05
5 23 0.53
6 18 0.42
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (6 bp):
AGAGAA
Found at i:19194851 original size:25 final size:25
Alignment explanation
Indices: 19194817--19194880 Score: 119
Period size: 25 Copynumber: 2.6 Consensus size: 25
19194807 TTTAAAAGAA
19194817 CAAGGTAAATTCAATAACAGACTTG
1 CAAGGTAAATTCAATAACAGACTTG
*
19194842 CAAGGTAAATTCAATAAGAGACTTG
1 CAAGGTAAATTCAATAACAGACTTG
19194867 CAAGGTAAATTCAA
1 CAAGGTAAATTCAA
19194881 CAAAAGACGC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.45, C:0.14, G:0.17, T:0.23
Consensus pattern (25 bp):
CAAGGTAAATTCAATAACAGACTTG
Found at i:19194888 original size:25 final size:25
Alignment explanation
Indices: 19194817--19194888 Score: 117
Period size: 25 Copynumber: 2.9 Consensus size: 25
19194807 TTTAAAAGAA
*
19194817 CAAGGTAAATTCAATAACAGACTTG
1 CAAGGTAAATTCAATAAAAGACTTG
*
19194842 CAAGGTAAATTCAATAAGAGACTTG
1 CAAGGTAAATTCAATAAAAGACTTG
*
19194867 CAAGGTAAATTCAACAAAAGAC
1 CAAGGTAAATTCAATAAAAGAC
19194889 GCTTTACCTC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.47, C:0.15, G:0.17, T:0.21
Consensus pattern (25 bp):
CAAGGTAAATTCAATAAAAGACTTG
Found at i:19200572 original size:31 final size:31
Alignment explanation
Indices: 19200530--19200590 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
19200520 ATTCAACATC
* *
19200530 GGTACATAGTACCTGATATAATATAAACACT
1 GGTACAAAGTACCTGATATAACATAAACACT
* *
19200561 GGTACAAAGTACTTGCTATAACATAAACAC
1 GGTACAAAGTACCTGATATAACATAAACAC
19200591 CGATACATAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.43, C:0.18, G:0.13, T:0.26
Consensus pattern (31 bp):
GGTACAAAGTACCTGATATAACATAAACACT
Found at i:19223419 original size:3 final size:3
Alignment explanation
Indices: 19223411--19223447 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
19223401 GTAATAGATT
*
19223411 TAA TAA TAA TAA TAA TAA CAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
19223448 TTGATAAGAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:19224355 original size:12 final size:12
Alignment explanation
Indices: 19224338--19224367 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
19224328 CAGAATTGTA
19224338 TCAAGGTGGCCT
1 TCAAGGTGGCCT
19224350 TCAAGGTGGCCT
1 TCAAGGTGGCCT
19224362 TCAAGG
1 TCAAGG
19224368 CTCTGCAGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.20, C:0.23, G:0.33, T:0.23
Consensus pattern (12 bp):
TCAAGGTGGCCT
Found at i:19230983 original size:25 final size:24
Alignment explanation
Indices: 19230948--19231042 Score: 91
Period size: 25 Copynumber: 3.8 Consensus size: 24
19230938 AAGGCTTTTT
* * *
19230948 CAGAGATTTCGCCACAATAACTTTA
1 CAGAGAGTTCACCACAA-AGCTTTA
** * *
19230973 CAGAGAGTTCGTCATAAGGGCTTTA
1 CAGAGAGTTCACCACAA-AGCTTTA
*
19230998 CAGAGAGTTCACCATAAAGGCTTTA
1 CAGAGAGTTCACCACAAA-GCTTTA
19231023 CAGAGAGTTCACCACAAAGC
1 CAGAGAGTTCACCACAAAGC
19231043 CTTGGTTTAG
Statistics
Matches: 59, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
24 2 0.03
25 57 0.97
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (24 bp):
CAGAGAGTTCACCACAAAGCTTTA
Found at i:19235612 original size:23 final size:22
Alignment explanation
Indices: 19235573--19235630 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
19235563 AAAAGGTATC
* *
19235573 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
19235594 TACAGAATCATATCTTCTAAGAT
1 TACA-AATCATATCTTCTAAGAT
* *
19235617 TGCATATCATATCT
1 TACAAATCATATCT
19235631 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 4 0.13
22 16 0.52
23 11 0.35
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:19235665 original size:24 final size:19
Alignment explanation
Indices: 19235609--19235681 Score: 128
Period size: 19 Copynumber: 3.8 Consensus size: 19
19235599 AATCATATCT
19235609 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
19235628 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
* *
19235647 TCTAAGATTACATGTCATA
1 TCTAAGATTGCATATCATA
19235666 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
19235682 CTTGAAGATT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 50 1.00
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:19236306 original size:45 final size:44
Alignment explanation
Indices: 19236193--19236434 Score: 169
Period size: 45 Copynumber: 5.5 Consensus size: 44
19236183 TTCTAATCCA
* ** * *
19236193 CTCCACTACAACTTTAGGGAGATGGGATTTGTTTATTTAGTCTG
1 CTCCACTGCAACTTTAGGGAGATAAGACTTGTTTATTGAGTCTG
* * * *
19236237 CCCCGCTGCAA-TTTCAAGGG-GATAAGACTTGATTTCTTGAGTTTG
1 CTCCACTGCAACTTT--AGGGAGATAAGACTTG-TTTATTGAGTCTG
* *
19236282 CTCCACTGCAACTTTAGGGAGATAAGACTCGCTTTTTTGAGTCTG
1 CTCCACTGCAACTTTAGGGAGATAAGACTTG-TTTATTGAGTCTG
* ** *
19236327 CTCCACTGCAACTTCAGGGAGATAAGACCCG-ATA-TGA-TCTG
1 CTCCACTGCAACTTTAGGGAGATAAGACTTGTTTATTGAGTCTG
* * * * **
19236368 CT-CTCTGCAACTTCAGAGAGATAAGA-TATGTGATT-TT-AATCCA
1 CTCCACTGCAACTTTAGGGAGATAAGACT-TGT--TTATTGAGTCTG
19236411 CTCCACTGCAACTTTAGGGAGATA
1 CTCCACTGCAACTTTAGGGAGATA
19236435 GGATTATTGG
Statistics
Matches: 157, Mismatches: 29, Indels: 24
0.75 0.14 0.11
Matches are distributed among these distances:
40 23 0.15
41 6 0.04
42 4 0.03
43 10 0.06
44 38 0.24
45 73 0.46
46 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.31
Consensus pattern (44 bp):
CTCCACTGCAACTTTAGGGAGATAAGACTTGTTTATTGAGTCTG
Found at i:19236424 original size:44 final size:43
Alignment explanation
Indices: 19236372--19236482 Score: 141
Period size: 44 Copynumber: 2.5 Consensus size: 43
19236362 GATCTGCTCT
19236372 CTGCAACTTCAGAGAGATAAGATATGTGATTTTAATCCACTCCA
1 CTGCAACTTCAGAGAGATAAGATAT-TGATTTTAATCCACTCCA
* * * * ***
19236416 CTGCAACTTTAGGGAGATAGGATTATTGGTTTTAATCTGTTCCA
1 CTGCAACTTCAGAGAGATAAGA-TATTGATTTTAATCCACTCCA
19236460 CTGCAACTTCAGAGAGATAAGAT
1 CTGCAACTTCAGAGAGATAAGAT
19236483 TCGCCATCTT
Statistics
Matches: 56, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
43 1 0.02
44 52 0.93
45 3 0.05
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.32
Consensus pattern (43 bp):
CTGCAACTTCAGAGAGATAAGATATTGATTTTAATCCACTCCA
Found at i:19236651 original size:44 final size:44
Alignment explanation
Indices: 19236592--19236700 Score: 112
Period size: 44 Copynumber: 2.5 Consensus size: 44
19236582 CTGCTCTCTG
** * *
19236592 CAACTTCAGATAGATAAGATCT-GTGATTTTAATCTGCTCCACTA
1 CAACTTCAGGGAGATAAGAT-TAGTGACTTTAATCTACTCCACTA
* * * * *
19236636 CGACTTCAGGGAGATAGGATTATTGGCTTTAATCTACTCCACTG
1 CAACTTCAGGGAGATAAGATTAGTGACTTTAATCTACTCCACTA
*
19236680 TAACTTCAGGGAGATAAGATT
1 CAACTTCAGGGAGATAAGATT
19236701 CGCCATCTTC
Statistics
Matches: 52, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
43 1 0.02
44 51 0.98
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.32
Consensus pattern (44 bp):
CAACTTCAGGGAGATAAGATTAGTGACTTTAATCTACTCCACTA
Found at i:19236996 original size:50 final size:50
Alignment explanation
Indices: 19236893--19236996 Score: 145
Period size: 50 Copynumber: 2.1 Consensus size: 50
19236883 TCCAAGCGTT
* * *
19236893 AACGCCAGGGAGATAAGATTCTCCGTCGTGGCTTCAATCTGCTCCGTTAC
1 AACGCCAGGGAAATAAGATTCGCCGTCGTGGCTTCAATCTGCTCCATTAC
* ** *
19236943 AACGCCAGGGAAATAAGATTCGCCGTTGTGGCTTCAATCTTTTCCATTGC
1 AACGCCAGGGAAATAAGATTCGCCGTCGTGGCTTCAATCTGCTCCATTAC
19236993 AACG
1 AACG
19236997 TCAAGGCGAT
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (50 bp):
AACGCCAGGGAAATAAGATTCGCCGTCGTGGCTTCAATCTGCTCCATTAC
Found at i:19237009 original size:50 final size:50
Alignment explanation
Indices: 19236893--19237010 Score: 137
Period size: 50 Copynumber: 2.4 Consensus size: 50
19236883 TCCAAGCGTT
* * *
19236893 AACGCCAGGGAGATAAGATTCTCCGTCGTGGCTTCAATCTGCTCCGTTAC
1 AACGCCAAGGAGATAAGATTCGCCGTCGTGGCTTCAATCTGCTCCATTAC
* * * ** *
19236943 AACGCCAGGGAAATAAGATTCGCCGTTGTGGCTTCAATCTTTTCCATTGC
1 AACGCCAAGGAGATAAGATTCGCCGTCGTGGCTTCAATCTGCTCCATTAC
* *
19236993 AACGTCAAGGCGATAAGA
1 AACGCCAAGGAGATAAGA
19237011 CTGATGTCTT
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 57 1.00
ACGTcount: A:0.26, C:0.25, G:0.24, T:0.25
Consensus pattern (50 bp):
AACGCCAAGGAGATAAGATTCGCCGTCGTGGCTTCAATCTGCTCCATTAC
Found at i:19237135 original size:44 final size:43
Alignment explanation
Indices: 19237064--19237185 Score: 165
Period size: 44 Copynumber: 2.8 Consensus size: 43
19237054 ATCTGCTATT
* * * *
19237064 TTCAACCTACTCTACTGTTGCTTAGGGAGATAGGA-TTCACAATC
1 TTCAACCTATTCCACTGCTG-TCAGGGAGATAGGACTT-ACAATC
19237108 TTCAACCTATTCCACTGCTGATCAGGGAGATAGGACTTACAATC
1 TTCAACCTATTCCACTGCTG-TCAGGGAGATAGGACTTACAATC
19237152 TTCAACCTATTCCACTGCTGTCTAGGGAGATAGG
1 TTCAACCTATTCCACTGCTGTC-AGGGAGATAGG
19237186 GTTGGGGTCA
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
43 2 0.03
44 67 0.94
45 2 0.03
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.30
Consensus pattern (43 bp):
TTCAACCTATTCCACTGCTGTCAGGGAGATAGGACTTACAATC
Found at i:19237311 original size:88 final size:88
Alignment explanation
Indices: 19237196--19237762 Score: 875
Period size: 88 Copynumber: 6.4 Consensus size: 88
19237186 GTTGGGGTCA
* * *
19237196 TCGATCTGCTTCGCTGTCGGTACAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTACAAC
19237261 CCAGGGAGGCAAGGCTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
* * * * **
19237284 TCGATCTACTTCGCTGTTGGTGCAGGAAGGCAAGATGTGCTATTTTTAACCTGCTCCGCTGTAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTACAAC
19237349 CCAGGGAGGCAAGGCTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
* *
19237372 TCGATCTGCTTCGCT-TGCGGTGCAGGAAGGAAAGATCTGCTATTTTTAACCTGCTCCGCTACAA
1 TCGATCTGCTTCGCTGT-CGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTACAA
** *
19237436 CTGAAGGAGGCAAGGCTGGTGTCT
65 CCCAGGGAGGCAAGGCTGGTGTCT
* * * *
19237460 TCGATCTACTTCGCTGTCGGTACAGGAATGCAAGATCTGCAATTTTTAACCTGCTCCACTACAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTACAAC
*
19237525 CCAGGGAGGCAAGGCTGGTGTTT
66 CCAGGGAGGCAAGGCTGGTGTCT
* * *
19237548 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGTAATATCTGCTATTTTTAACCTGCTCCACTGCAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTACAAC
*
19237613 CCAGGGAGGCAAGGCTAGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
*
19237636 TCGATCTGCTTCGCTGTTGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTACAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTACAAC
* *
19237701 CCAAGGAGGCAAGGTTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
*
19237724 TCGATTTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTG
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTG
19237763 TTATCTTCAC
Statistics
Matches: 435, Mismatches: 42, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
87 1 0.00
88 433 1.00
89 1 0.00
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.28
Consensus pattern (88 bp):
TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTACAAC
CCAGGGAGGCAAGGCTGGTGTCT
Found at i:19237359 original size:44 final size:44
Alignment explanation
Indices: 19237218--19237361 Score: 112
Period size: 44 Copynumber: 3.3 Consensus size: 44
19237208 GCTGTCGGTA
* *
19237218 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACC
1 CAGGAAGGCAAGATGTGCTATTTTTAACCTGCTCCGCTGTAACC
* * * * ** * * * ****
19237262 CAGGGAGGCAAG--GCTGGTGTCTTCGATCTACTTCGCTGTTGGTG
1 CAGGAAGGCAAGATG-TGCTATTTTTAACCTGCTCCGCTG-TAACC
19237306 CAGGAAGGCAAGATGTGCTATTTTTAACCTGCTCCGCTGTAACC
1 CAGGAAGGCAAGATGTGCTATTTTTAACCTGCTCCGCTGTAACC
*
19237350 CAGGGAGGCAAG
1 CAGGAAGGCAAG
19237362 GCTGGTGTCT
Statistics
Matches: 67, Mismatches: 29, Indels: 8
0.64 0.28 0.08
Matches are distributed among these distances:
43 16 0.24
44 34 0.51
45 16 0.24
46 1 0.01
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.25
Consensus pattern (44 bp):
CAGGAAGGCAAGATGTGCTATTTTTAACCTGCTCCGCTGTAACC
Found at i:19239985 original size:26 final size:25
Alignment explanation
Indices: 19239951--19240017 Score: 80
Period size: 26 Copynumber: 2.6 Consensus size: 25
19239941 AAGAAAATCC
**
19239951 AAAAGAATGAAAGAATAATTATTTCA
1 AAAAGAATGAAAGAAT-ATTAGCTCA
*
19239977 AAAAGAATGAAAAAATATTAGCTCA
1 AAAAGAATGAAAGAATATTAGCTCA
19240002 AAAATGAATGTAAAGA
1 AAAA-GAATG-AAAGA
19240018 TGTATTTTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
25 11 0.31
26 20 0.57
27 4 0.11
ACGTcount: A:0.60, C:0.04, G:0.13, T:0.22
Consensus pattern (25 bp):
AAAAGAATGAAAGAATATTAGCTCA
Found at i:19241111 original size:47 final size:46
Alignment explanation
Indices: 19241005--19241169 Score: 152
Period size: 47 Copynumber: 3.5 Consensus size: 46
19240995 CAACCTTGTT
* * ** *
19241005 TTGGACAGCAATTATTCATCAAATTGGACAGCAATAATATGTTCTAAA
1 TTGGACAGC-ATTATACATCAAATTGGACAGCTA-AATATACTCAAAA
* * *
19241053 -TGGACAACATTATACATCGAATTAGACAGCTTAAATATACTCAAAA
1 TTGGACAGCATTATACATCAAATTGGACAGC-TAAATATACTCAAAA
* * * * *
19241099 TTGGACAGCATTATACATTAAAATGGACAACATCAATATACTTAAAA
1 TTGGACAGCATTATACATCAAATTGGACAGC-TAAATATACTCAAAA
* *
19241146 TTTGACAGCATTATACATTAAATT
1 TTGGACAGCATTATACATCAAATT
19241170 TATAACAAAA
Statistics
Matches: 96, Mismatches: 19, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
46 29 0.30
47 67 0.70
ACGTcount: A:0.43, C:0.15, G:0.12, T:0.30
Consensus pattern (46 bp):
TTGGACAGCATTATACATCAAATTGGACAGCTAAATATACTCAAAA
Found at i:19241125 original size:22 final size:23
Alignment explanation
Indices: 19241095--19241167 Score: 87
Period size: 22 Copynumber: 3.1 Consensus size: 23
19241085 AAATATACTC
19241095 AAAATTGGACAGCATTATACATT
1 AAAATTGGACAGCATTATACATT
*
19241118 AAAA-TGGACAACATCAATATAC-TT
1 AAAATTGGACAGCAT---TATACATT
*
19241142 AAAATTTGACAGCATTATACATT
1 AAAATTGGACAGCATTATACATT
19241165 AAA
1 AAA
19241168 TTTATAACAA
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
22 14 0.33
23 9 0.21
24 6 0.14
25 13 0.31
ACGTcount: A:0.48, C:0.14, G:0.10, T:0.29
Consensus pattern (23 bp):
AAAATTGGACAGCATTATACATT
Found at i:19241152 original size:25 final size:24
Alignment explanation
Indices: 19241086--19241152 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 24
19241076 AGACAGCTTA
* *
19241086 AATATACTCAAAATTGGACAGCAT
1 AATATACTTAAAATTGGACAACAT
19241110 --TATACATTAAAA-TGGACAACAT
1 AATATAC-TTAAAATTGGACAACAT
*
19241132 CAATATACTTAAAATTTGACA
1 -AATATACTTAAAATTGGACA
19241153 GCATTATACA
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
22 14 0.40
23 5 0.14
24 6 0.17
25 10 0.29
ACGTcount: A:0.48, C:0.15, G:0.09, T:0.28
Consensus pattern (24 bp):
AATATACTTAAAATTGGACAACAT
Found at i:19242167 original size:28 final size:28
Alignment explanation
Indices: 19242105--19242201 Score: 97
Period size: 28 Copynumber: 3.5 Consensus size: 28
19242095 TTAATAAGTA
* *
19242105 CGCACACTTAGTGC-TTAATAATCAAACT
1 CGCACACTTAGTGCATT-ACAATTAAACT
* * ** *
19242133 AGCACACTTAGTGCCTTACCCTTATACT
1 CGCACACTTAGTGCATTACAATTAAACT
* *
19242161 CGTACACTTAGTGCATTTCAATTAAACT
1 CGCACACTTAGTGCATTACAATTAAACT
19242189 CGCACACTTAGTG
1 CGCACACTTAGTG
19242202 TTGGAAGTCA
Statistics
Matches: 54, Mismatches: 14, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
28 52 0.96
29 2 0.04
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.31
Consensus pattern (28 bp):
CGCACACTTAGTGCATTACAATTAAACT
Found at i:19247002 original size:3 final size:3
Alignment explanation
Indices: 19246994--19247023 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
19246984 GCGCATGAAT
19246994 ATA ATA ATA ATA ATAA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA AT
19247024 GATACAAGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:19247014 original size:13 final size:13
Alignment explanation
Indices: 19246991--19247022 Score: 55
Period size: 13 Copynumber: 2.4 Consensus size: 13
19246981 CATGCGCATG
19246991 AATATAATAATAAT
1 AATA-AATAATAAT
19247005 AATAAATAATAAT
1 AATAAATAATAAT
19247018 AATAA
1 AATAA
19247023 TGATACAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 14 0.78
14 4 0.22
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AATAAATAATAAT
Found at i:19247519 original size:19 final size:19
Alignment explanation
Indices: 19247495--19247548 Score: 81
Period size: 19 Copynumber: 2.8 Consensus size: 19
19247485 AATCATATAT
19247495 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
* *
19247514 TCTAAGATTACATATTATA
1 TCTAAGATTGCATATCATA
*
19247533 TCCAAGATTGCATATC
1 TCTAAGATTGCATATC
19247549 CTTGAATATT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:19247674 original size:19 final size:19
Alignment explanation
Indices: 19247650--19247687 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
19247640 AATTTTCGAC
*
19247650 TTTATT-TTGTTATTTTGAG
1 TTTATTATT-TTATTATGAG
19247669 TTTATTATTTTATTATGAG
1 TTTATTATTTTATTATGAG
19247688 CTCGGACTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.88
20 2 0.12
ACGTcount: A:0.21, C:0.00, G:0.13, T:0.66
Consensus pattern (19 bp):
TTTATTATTTTATTATGAG
Found at i:19248859 original size:19 final size:19
Alignment explanation
Indices: 19248835--19248875 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
19248825 AAAATTATGA
19248835 TGTTTTC-CTATTGTTTTCT
1 TGTTTTCTC-ATTGTTTTCT
*
19248854 TGTTTTCTCATTGTTTTGT
1 TGTTTTCTCATTGTTTTCT
19248873 TGT
1 TGT
19248876 CATTTTACTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 19 0.95
20 1 0.05
ACGTcount: A:0.05, C:0.12, G:0.15, T:0.68
Consensus pattern (19 bp):
TGTTTTCTCATTGTTTTCT
Found at i:19251571 original size:14 final size:14
Alignment explanation
Indices: 19251548--19251584 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
19251538 GCTCAACCCG
19251548 TATTAATTTTTT-TA
1 TATT-ATTTTTTATA
19251562 TATTATTTTTTATA
1 TATTATTTTTTATA
19251576 TATT-TTTTT
1 TATTATTTTT
19251585 AAAAATATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (14 bp):
TATTATTTTTTATA
Found at i:19251579 original size:11 final size:12
Alignment explanation
Indices: 19251555--19251583 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
19251545 CCGTATTAAT
19251555 TTTTTTATATTA
1 TTTTTTATATTA
19251567 TTTTTTATA-TA
1 TTTTTTATATTA
19251578 TTTTTT
1 TTTTTT
19251584 TAAAAATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 8 0.47
12 9 0.53
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTTTATATTA
Found at i:19251584 original size:12 final size:12
Alignment explanation
Indices: 19251553--19251585 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
19251543 ACCCGTATTA
19251553 ATTTTTTTATAT
1 ATTTTTTTATAT
19251565 -TATTTTTTATAT
1 AT-TTTTTTATAT
19251577 ATTTTTTTA
1 ATTTTTTTA
19251586 AAAATATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 1 0.05
12 17 0.89
13 1 0.05
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
ATTTTTTTATAT
Found at i:19252582 original size:58 final size:58
Alignment explanation
Indices: 19252510--19252619 Score: 141
Period size: 58 Copynumber: 1.9 Consensus size: 58
19252500 CTTTTTATCT
* * *
19252510 AATTTGGTATCTAAATTTGACAATTTTTCTTAAGTTAGTA-CTTAATCTTTTTGGGTTC
1 AATTTGGTACCTAAACTTGACAATTTTTCCTAAGTTAGTATC-TAATCTTTTTGGGTTC
** * *
19252568 AATTTGGTACCTAAACTTGACTCTTTTTCCTAATTTGGTATCTAATCTTTTT
1 AATTTGGTACCTAAACTTGACAATTTTTCCTAAGTTAGTATCTAATCTTTTT
19252620 TCTTTTGTTT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
58 43 0.98
59 1 0.02
ACGTcount: A:0.25, C:0.14, G:0.12, T:0.50
Consensus pattern (58 bp):
AATTTGGTACCTAAACTTGACAATTTTTCCTAAGTTAGTATCTAATCTTTTTGGGTTC
Found at i:19261836 original size:18 final size:18
Alignment explanation
Indices: 19261814--19261854 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
19261804 ATCCACTGCC
19261814 CCTTCTTCATCAATTGCA
1 CCTTCTTCATCAATTGCA
* *
19261832 TCTTCTTCCTCAATTGCA
1 CCTTCTTCATCAATTGCA
19261850 CCTTC
1 CCTTC
19261855 ATTGTTATAT
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:0.17, C:0.37, G:0.05, T:0.41
Consensus pattern (18 bp):
CCTTCTTCATCAATTGCA
Found at i:19264125 original size:26 final size:26
Alignment explanation
Indices: 19264078--19264134 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
19264068 TTTCACTCTT
*
19264078 AAAAACCTAAACCTTAATTCCTAACAA
1 AAAAACCTAAACCCTAATTCCTAA-AA
19264105 AAAAACTCT-AACCCTAA-TCCTAAAA
1 AAAAAC-CTAAACCCTAATTCCTAAAA
19264130 AAAAA
1 AAAAA
19264135 GCTGGGCGCG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 7 0.25
26 6 0.21
27 13 0.46
28 2 0.07
ACGTcount: A:0.56, C:0.25, G:0.00, T:0.19
Consensus pattern (26 bp):
AAAAACCTAAACCCTAATTCCTAAAA
Found at i:19265415 original size:18 final size:20
Alignment explanation
Indices: 19265389--19265428 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
19265379 GTTGAACCAG
19265389 AATT-TTTTTTATTTTT-TA
1 AATTATTTTTTATTTTTATA
19265407 AATTATTTTTTATTTTTATA
1 AATTATTTTTTATTTTTATA
19265427 AA
1 AA
19265429 ATTTTAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 4 0.20
19 12 0.60
20 4 0.20
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (20 bp):
AATTATTTTTTATTTTTATA
Found at i:19265417 original size:19 final size:19
Alignment explanation
Indices: 19265389--19265433 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 19
19265379 GTTGAACCAG
19265389 AATTTTTTTTATTTTT-TA
1 AATTTTTTTTATTTTTATA
19265407 AATTATTTTTTATTTTTATAA
1 AATT-TTTTTTATTTTTAT-A
19265428 AATTTT
1 AATTTT
19265434 AATTATTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.17
19 12 0.50
20 3 0.12
21 5 0.21
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (19 bp):
AATTTTTTTTATTTTTATA
Found at i:19265430 original size:21 final size:18
Alignment explanation
Indices: 19265389--19265447 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 18
19265379 GTTGAACCAG
19265389 AATTTTTTTTATTTTTTA
1 AATTTTTTTTATTTTTTA
19265407 AATTATTTTTTATTTTTATAA
1 AATT-TTTTTTATTTTT-T-A
**
19265428 AATTTTAATTATTTATTTA
1 AATTTTTTTTATTT-TTTA
19265447 A
1 A
19265448 TTGGATTGGA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
18 4 0.11
19 14 0.40
20 10 0.29
21 7 0.20
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
AATTTTTTTTATTTTTTA
Found at i:19265432 original size:18 final size:18
Alignment explanation
Indices: 19265393--19265447 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 18
19265383 AACCAGAATT
19265393 TTTTTTATTTTTTAAATTA
1 TTTTTTATTTTTTAAA-TA
19265412 TTTTTTATTTTTATAAA-A
1 TTTTTTATTTTT-TAAATA
19265430 TTTTAATTATTTATTTAA
1 TTTT--TTATTT-TTTAA
19265448 TTGGATTGGA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
18 5 0.16
19 12 0.38
20 13 0.41
21 2 0.06
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTTTTATTTTTTAAATA
Found at i:19275862 original size:5 final size:5
Alignment explanation
Indices: 19275854--19275879 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
19275844 GAGATGGAAT
19275854 TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA T
19275880 ATATTTGTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:19275879 original size:26 final size:26
Alignment explanation
Indices: 19275828--19275879 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
19275818 TGAAGTTTTC
* * *
19275828 TCGAATCGAGTCGAGTGAGATGGAAT
1 TCGAATCGAATCGAATGAGATCGAAT
19275854 TCGAATCGAATCGAATCGA-ATCGAAT
1 TCGAATCGAATCGAAT-GAGATCGAAT
19275880 ATATTTGTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 20 0.91
27 2 0.09
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.23
Consensus pattern (26 bp):
TCGAATCGAATCGAATGAGATCGAAT
Found at i:19276563 original size:30 final size:31
Alignment explanation
Indices: 19276524--19276583 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
19276514 AGAGGTGAGA
*
19276524 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
19276555 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
19276584 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:19276809 original size:9 final size:9
Alignment explanation
Indices: 19276795--19276831 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
19276785 TATAGTTTGA
19276795 TATTCGAAT
1 TATTCGAAT
19276804 TATTCGAAT
1 TATTCGAAT
*
19276813 TATTCGAGT
1 TATTCGAAT
19276822 TATTCGAAT
1 TATTCGAAT
19276831 T
1 T
19276832 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:19276902 original size:9 final size:9
Alignment explanation
Indices: 19276875--19276917 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
19276865 AAACAAAAGT
*
19276875 TCGAGTTAAT
1 TCGA-TTAAC
*
19276885 TCGAATAAC
1 TCGATTAAC
19276894 TCGATTAAC
1 TCGATTAAC
*
19276903 TCGAATAAC
1 TCGATTAAC
19276912 TCGATT
1 TCGATT
19276918 CGTTTAACTC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
9 24 0.86
10 4 0.14
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.33
Consensus pattern (9 bp):
TCGATTAAC
Found at i:19276906 original size:18 final size:18
Alignment explanation
Indices: 19276875--19276917 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 18
19276865 AAACAAAAGT
*
19276875 TCGAGTTAATTCGAATAAC
1 TCGA-TTAACTCGAATAAC
19276894 TCGATTAACTCGAATAAC
1 TCGATTAACTCGAATAAC
19276912 TCGATT
1 TCGATT
19276918 CGTTTAACTC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.33
Consensus pattern (18 bp):
TCGATTAACTCGAATAAC
Found at i:19278863 original size:38 final size:37
Alignment explanation
Indices: 19278809--19278894 Score: 111
Period size: 37 Copynumber: 2.3 Consensus size: 37
19278799 ACCCTTATTG
19278809 AAGGGTTGGGAAAGACCTAGTC-AAGGCCAACCTTTAAA
1 AAGGGTTGGGAAAGACC-AGTCTAAGG-CAACCTTTAAA
* *
19278847 AAGGGTTGGGATAGACCAGTCTAAGGTAACCTTTAAA
1 AAGGGTTGGGAAAGACCAGTCTAAGGCAACCTTTAAA
* *
19278884 AAAGATTGGGA
1 AAGGGTTGGGA
19278895 CAGAATTGTC
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
37 23 0.53
38 20 0.47
ACGTcount: A:0.37, C:0.14, G:0.28, T:0.21
Consensus pattern (37 bp):
AAGGGTTGGGAAAGACCAGTCTAAGGCAACCTTTAAA
Found at i:19281849 original size:37 final size:36
Alignment explanation
Indices: 19281757--19282635 Score: 716
Period size: 37 Copynumber: 23.9 Consensus size: 36
19281747 TACAAGAATC
* * *
19281757 TCTAAGGCAACC-TTAAATAGGTTGGTATAGATCTTG
1 TCTAAGGCAACCTTTAAAAAGGTTGGGATAGA-CCTG
* * * **
19281793 TCTAAGGCAACATTTAAAAAAGTTGGGATATACCAA
1 TCTAAGGCAACCTTTAAAAAGGTTGGGATAGACCTG
* *
19281829 TCTAAGGCAACCTTTAAAAAAGTTGGGATAGACTTTG
1 TCTAAGGCAACCTTTAAAAAGGTTGGGATAGAC-CTG
*
19281866 TCTAAGGCAACCTTTAAAATTATTGAAGGGTTGGGAAAGACCTAG
1 TCTAAGGCAACCTTT--AA--A---AA-GGTTGGGATAGACCT-G
*
19281911 TC-AAGGCCAACCTTTAAAAAGGGTTGGGATTGACCTAG
1 TCTAAGG-CAACCTTTAAAAA-GGTTGGGATAGACCT-G
* *
19281949 TC-AAGGCCAACCTTTGAAAAAGGTTGTGATAGACCTA
1 TCTAAGG-CAACCTTT-AAAAAGGTTGGGATAGACCTG
*
19281986 TCTAAGGCAACC-TTAACAAGGTTGGGATAGA-CTAG
1 TCTAAGGCAACCTTTAAAAAGGTTGGGATAGACCT-G
** * *
19282021 TCTAAGATAACCTTTTAAAAAAGTTGGGATAGACCTTA
1 TCTAAGGCAACC-TTTAAAAAGGTTGGGATAGACC-TG
* * *
19282059 TCTAAGGCAACATTTAAAAAAAGTTGGGATAGACATTG
1 TCTAAGGCAACCTTT-AAAAAGGTTGGGATAGAC-CTG
* *
19282097 TCTAAGGCAACCTTTAAAAAAGATTGGGATAGA-ATCG
1 TCTAAGGCAACCTTT-AAAAAGGTTGGGATAGACCT-G
* * *
19282134 TCTAAGGCAACC-TTAAATAGGTTGGTATAAACCTTG
1 TCTAAGGCAACCTTTAAAAAGGTTGGGATAGACC-TG
*
19282170 TCTAAGGCAACCTTTAAAAAAGGTTGGGATAGACCAG
1 TCTAAGGCAACCTTT-AAAAAGGTTGGGATAGACCTG
* * *
19282207 TCTAAGGCAACCTTTTAAAAATGTTGGGATAGAGCAG
1 TCTAAGGCAACC-TTTAAAAAGGTTGGGATAGACCTG
* * * *
19282244 TCTAAGGTAACATTTTAAAAATGTTAGGATAGACCTTG
1 TCTAAGGCAAC-CTTTAAAAAGGTTGGGATAGACC-TG
*
19282282 TCTAAGGCAA-CTTTAAAAAAAGGTTGGGATAGACTTG
1 TCTAAGGCAACCTTT--AAAAAGGTTGGGATAGACCTG
* * * *
19282319 TGTAAGGAAACCTTCAAAAAAGGTTGGGATAGACTTG
1 TCTAAGGCAACCTT-TAAAAAGGTTGGGATAGACCTG
* *
19282356 TCTAAAGCAACC-TTAAAAAGGTTGGGATAGA-TTAG
1 TCTAAGGCAACCTTTAAAAAGGTTGGGATAGACCT-G
*
19282391 TCTAAGGTAACC-TTAAAAAGGTTGGGATAGACCTTG
1 TCTAAGGCAACCTTTAAAAAGGTTGGGATAGACC-TG
* * *
19282427 TCTAAGGTAACTTTTAGAAAAGGTTGGGATTGACCTG
1 TCTAAGGCAACCTTTA-AAAAGGTTGGGATAGACCTG
* * *
19282464 TCTAAGACAACC-TTAAAAATGTTGGGATAGACCCG
1 TCTAAGGCAACCTTTAAAAAGGTTGGGATAGACCTG
* * *
19282499 TTTAAAGCAACC-TTAAAAAGGTTGGGATA-AGCCTTT
1 TCTAAGGCAACCTTTAAAAAGGTTGGGATAGA-CC-TG
* * * ** *
19282535 TCCAAGGCAA-CTTCAAAAAAGTTGAAATAAACTCT-
1 TCTAAGGCAACCTTTAAAAAGGTTGGGATAGAC-CTG
* *
19282570 TCTAAGGCAACC-TTAAAAAGGTTAAGG-TAAACCTG
1 TCTAAGGCAACCTTTAAAAAGGTT-GGGATAGACCTG
* * *
19282605 TCTAAGGAAAAC-TTAAAAAGGTTGGAATAGA
1 TCTAAGGCAACCTTTAAAAAGGTTGGGATAGA
19282636 TCTTTGTCTC
Statistics
Matches: 695, Mismatches: 101, Indels: 95
0.78 0.11 0.11
Matches are distributed among these distances:
34 8 0.01
35 177 0.25
36 103 0.15
37 192 0.28
38 174 0.25
39 8 0.01
41 2 0.00
43 2 0.00
44 7 0.01
45 22 0.03
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.27
Consensus pattern (36 bp):
TCTAAGGCAACCTTTAAAAAGGTTGGGATAGACCTG
Found at i:19281860 original size:73 final size:71
Alignment explanation
Indices: 19281757--19282635 Score: 745
Period size: 73 Copynumber: 11.9 Consensus size: 71
19281747 TACAAGAATC
* * *
19281757 TCTAAGGCAACCTTAAATAGGTTGGTATAGATCTTGTCTAAGGCAACATTTAAAAAAGTTGGGAT
1 TCTAAGGCAACCTTAAAAAGGTTGGGATAGA-CTTGTCTAAGGCAACCTTTAAAAAAGTTGGGAT
* **
19281822 ATACCAA
65 AGACCTG
*
19281829 TCTAAGGCAACCTTTAAAAAAGTTGGGATAGACTTTGTCTAAGGCAACCTTTAAAATTATTGAAG
1 TCTAAGGCAACC-TTAAAAAGGTTGGGATAGAC-TTGTCTAAGGCAACCTTT-AAA--A---AA-
*
19281894 GGTTGGGAAAGACCTAG
57 -GTTGGGATAGACCT-G
* * *
19281911 TC-AAGGCCAACCTTTAAAAAGGGTTGGGATTGACCTAGTC-AAGGCCAACCTTTGAAAAAGGTT
1 TCTAAGG-CAACC-TTAAAAA-GGTTGGGATAGA-CTTGTCTAAGG-CAACCTTT-AAAAAAGTT
* *
19281974 GTGATAGACCTA
60 GGGATAGACCTG
* * **
19281986 TCTAAGGCAACCTTAACAAGGTTGGGATAGACTAGTCTAAGATAACCTTTTAAAAAAGTTGGGAT
1 TCTAAGGCAACCTTAAAAAGGTTGGGATAGACTTGTCTAAGGCAACC-TTTAAAAAAGTTGGGAT
*
19282051 AGACCTTA
65 AGACC-TG
* *
19282059 TCTAAGGCAACATTTAAAAAAAGTTGGGATAGACATTGTCTAAGGCAACCTTTAAAAAAGATTGG
1 TCTAAGGCAAC-CTT-AAAAAGGTTGGGATAGAC-TTGTCTAAGGCAACCTTTAAAAAAG-TTGG
*
19282124 GATAGA-ATCG
62 GATAGACCT-G
* * *
19282134 TCTAAGGCAACCTTAAATAGGTTGGTATAAACCTTGTCTAAGGCAACCTTTAAAAAAGGTTGGGA
1 TCTAAGGCAACCTTAAAAAGGTTGGGATAGA-CTTGTCTAAGGCAACCTTTAAAAAA-GTTGGGA
*
19282199 TAGACCAG
64 TAGACCTG
* * * * * *
19282207 TCTAAGGCAACCTTTTAAAAATGTTGGGATAGAGC-AGTCTAAGGTAACATTTTAAAAATGTTAG
1 TCTAAGGCAACC--TTAAAAAGGTTGGGATAGA-CTTGTCTAAGGCAAC-CTTTAAAAAAGTTGG
19282271 GATAGACCTTG
62 GATAGACC-TG
* * * *
19282282 TCTAAGGCAACTTTAAAAAAAGGTTGGGATAGACTTGTGTAAGGAAACCTTCAAAAAAGGTTGGG
1 TCTAAGGCAACCTT--AAAAAGGTTGGGATAGACTTGTCTAAGGCAACCTTTAAAAAA-GTTGGG
*
19282347 ATAGACTTG
63 ATAGACCTG
* * *
19282356 TCTAAAGCAACCTTAAAAAGGTTGGGATAGA-TTAGTCTAAGGTAACC-TTAAAAAGGTTGGGAT
1 TCTAAGGCAACCTTAAAAAGGTTGGGATAGACTT-GTCTAAGGCAACCTTTAAAAAAGTTGGGAT
19282419 AGACCTTG
65 AGACC-TG
* * * * * *
19282427 TCTAAGGTAACTTTTAGAAAAGGTTGGGATTGACCTGTCTAAGACAACC-TTAAAAATGTTGGGA
1 TCTAAGGCAAC-CTTA-AAAAGGTTGGGATAGACTTGTCTAAGGCAACCTTTAAAAAAGTTGGGA
*
19282491 TAGACCCG
64 TAGACCTG
* * * * * * **
19282499 TTTAAAGCAACCTTAAAAAGGTTGGGATAAGCCTTTTCCAAGGCAA-CTTCAAAAAAGTTGAAAT
1 TCTAAGGCAACCTTAAAAAGGTTGGGAT-AGACTTGTCTAAGGCAACCTTTAAAAAAGTTGGGAT
*
19282563 AAACTCT-
65 AGAC-CTG
* * * * * * *
19282570 TCTAAGGCAACCTTAAAAAGGTTAAGG-TAAACCTGTCTAAGGAAAAC-TTAAAAAGGTTGGAAT
1 TCTAAGGCAACCTTAAAAAGGTT-GGGATAGACTTGTCTAAGGCAACCTTTAAAAAAGTTGGGAT
19282633 AGA
65 AGA
19282636 TCTTTGTCTC
Statistics
Matches: 659, Mismatches: 103, Indels: 92
0.77 0.12 0.11
Matches are distributed among these distances:
70 52 0.08
71 71 0.11
72 83 0.13
73 171 0.26
74 62 0.09
75 117 0.18
76 39 0.06
78 1 0.00
79 2 0.00
81 16 0.02
82 19 0.03
83 25 0.04
84 1 0.00
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.27
Consensus pattern (71 bp):
TCTAAGGCAACCTTAAAAAGGTTGGGATAGACTTGTCTAAGGCAACCTTTAAAAAAGTTGGGATA
GACCTG
Found at i:19281946 original size:38 final size:37
Alignment explanation
Indices: 19281894--19282635 Score: 631
Period size: 35 Copynumber: 20.3 Consensus size: 37
19281884 ATTATTGAAG
*
19281894 GGTTGGGAAAGACCTAGTC-AAGGCCAACCTTTAAAAA
1 GGTTGGGATAGACCTAGTCTAAGG-CAACCTTTAAAAA
*
19281931 GGGTTGGGATTGACCTAGTC-AAGGCCAACCTTTGAAAAA
1 -GGTTGGGATAGACCTAGTCTAAGG-CAACCTTT-AAAAA
* *
19281970 GGTTGTGATAGACCTA-TCTAAGGCAACC-TTAACAA
1 GGTTGGGATAGACCTAGTCTAAGGCAACCTTTAAAAA
**
19282005 GGTTGGGATAGA-CTAGTCTAAGATAACCTTTTAAAAA
1 GGTTGGGATAGACCTAGTCTAAGGCAACC-TTTAAAAA
* *
19282042 AGTTGGGATAGACCTTA-TCTAAGGCAACATTTAAAAAA
1 GGTTGGGATAGACC-TAGTCTAAGGCAACCTTT-AAAAA
* * *
19282080 AGTTGGGATAGACATTGTCTAAGGCAACCTTTAAAAAA
1 GGTTGGGATAGACCTAGTCTAAGGCAACCTTT-AAAAA
* * * *
19282118 GATTGGGATAGA-ATCGTCTAAGGCAACC-TTAAATA
1 GGTTGGGATAGACCTAGTCTAAGGCAACCTTTAAAAA
* * *
19282153 GGTTGGTATAAACCTTGTCTAAGGCAACCTTTAAAAAA
1 GGTTGGGATAGACCTAGTCTAAGGCAACCTTT-AAAAA
19282191 GGTTGGGATAGACC-AGTCTAAGGCAACCTTTTAAAAA
1 GGTTGGGATAGACCTAGTCTAAGGCAACC-TTTAAAAA
* * * *
19282228 TGTTGGGATAGAGC-AGTCTAAGGTAACATTTTAAAAA
1 GGTTGGGATAGACCTAGTCTAAGGCAAC-CTTTAAAAA
* * *
19282265 TGTTAGGATAGACCTTGTCTAAGGCAA-CTTTAAAAAAA
1 GGTTGGGATAGACCTAGTCTAAGGCAACCTTT--AAAAA
* * * *
19282303 GGTTGGGATAGA-CTTGTGTAAGGAAACCTTCAAAAAA
1 GGTTGGGATAGACCTAGTCTAAGGCAACCTT-TAAAAA
* *
19282340 GGTTGGGATAGA-CTTGTCTAAAGCAACC-TTAAAAA
1 GGTTGGGATAGACCTAGTCTAAGGCAACCTTTAAAAA
* *
19282375 GGTTGGGATAGA-TTAGTCTAAGGTAACC-TTAAAAA
1 GGTTGGGATAGACCTAGTCTAAGGCAACCTTTAAAAA
* * *
19282410 GGTTGGGATAGACCTTGTCTAAGGTAACTTTTAGAAAA
1 GGTTGGGATAGACCTAGTCTAAGGCAACCTTTA-AAAA
* *
19282448 GGTTGGGATTGACCT-GTCTAAGACAACC-TTAAAAA
1 GGTTGGGATAGACCTAGTCTAAGGCAACCTTTAAAAA
* * * *
19282483 TGTTGGGATAGACC-CGTTTAAAGCAACC-TTAAAAA
1 GGTTGGGATAGACCTAGTCTAAGGCAACCTTTAAAAA
** * *
19282518 GGTTGGGATA-AGCCTTTTCCAAGGCAA-CTTCAAAAA
1 GGTTGGGATAGA-CCTAGTCTAAGGCAACCTTTAAAAA
* ** *
19282554 AGTTGAAATAAACTCT--TCTAAGGCAACC-TTAAAAA
1 GGTTGGGATAGAC-CTAGTCTAAGGCAACCTTTAAAAA
* * * *
19282589 GGTTAAGG-TAAACCT-GTCTAAGGAAAAC-TTAAAAA
1 GGTT-GGGATAGACCTAGTCTAAGGCAACCTTTAAAAA
*
19282624 GGTTGGAATAGA
1 GGTTGGGATAGA
19282636 TCTTTGTCTC
Statistics
Matches: 588, Mismatches: 84, Indels: 67
0.80 0.11 0.09
Matches are distributed among these distances:
34 7 0.01
35 178 0.30
36 60 0.10
37 165 0.28
38 171 0.29
39 7 0.01
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.26
Consensus pattern (37 bp):
GGTTGGGATAGACCTAGTCTAAGGCAACCTTTAAAAA
Found at i:19282963 original size:75 final size:75
Alignment explanation
Indices: 19282825--19282975 Score: 203
Period size: 75 Copynumber: 2.0 Consensus size: 75
19282815 TAGTAATTTA
* * * * *
19282825 TATACAAAATCCTAATAGAAGCAGTCAACAAGTTGCGAACATGTTGTCGACCTATTTCACATGAC
1 TATACAAAATCCTAATAGAAGCAGTCAACAAGTTGCAAACATGATGCCAACCTATTTCACATGAA
*
19282890 ATCCAAAAAT
66 ATCAAAAAAT
* * * * *
19282900 TATACAAAATCCTAATAGAAGCAGTTAACACGTTGCAAACATGATGCCAACTTGTTTCCCATGAA
1 TATACAAAATCCTAATAGAAGCAGTCAACAAGTTGCAAACATGATGCCAACCTATTTCACATGAA
19282965 ATCAAAAAAT
66 ATCAAAAAAT
19282975 T
1 T
19282976 TTGGGACAAC
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
75 65 1.00
ACGTcount: A:0.41, C:0.21, G:0.13, T:0.26
Consensus pattern (75 bp):
TATACAAAATCCTAATAGAAGCAGTCAACAAGTTGCAAACATGATGCCAACCTATTTCACATGAA
ATCAAAAAAT
Found at i:19283951 original size:10 final size:10
Alignment explanation
Indices: 19283936--19283961 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
19283926 ATTGATGTCA
19283936 AAATAAATAT
1 AAATAAATAT
19283946 AAATAAATAT
1 AAATAAATAT
19283956 AAATAA
1 AAATAA
19283962 TACTCATTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (10 bp):
AAATAAATAT
Found at i:19286547 original size:18 final size:19
Alignment explanation
Indices: 19286524--19286564 Score: 75
Period size: 18 Copynumber: 2.2 Consensus size: 19
19286514 ACTTAATCAT
19286524 AGAAAGAATAAGTACCAG-
1 AGAAAGAATAAGTACCAGC
19286542 AGAAAGAATAAGTACCAGC
1 AGAAAGAATAAGTACCAGC
19286561 AGAA
1 AGAA
19286565 GGTAATAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 18 0.82
19 4 0.18
ACGTcount: A:0.56, C:0.12, G:0.22, T:0.10
Consensus pattern (19 bp):
AGAAAGAATAAGTACCAGC
Found at i:19287146 original size:8 final size:8
Alignment explanation
Indices: 19287133--19287200 Score: 59
Period size: 8 Copynumber: 8.5 Consensus size: 8
19287123 TTCCAGATTT
19287133 TATAAATA
1 TATAAATA
19287141 TATAAATA
1 TATAAATA
*
19287149 TAT--ATG
1 TATAAATA
*
19287155 TAAAAATA
1 TATAAATA
19287163 TATAAATA
1 TATAAATA
*
19287171 TATAAAAGCA
1 TAT-AAA-TA
* *
19287181 TATAATTT
1 TATAAATA
19287189 TATAAATA
1 TATAAATA
19287197 TATA
1 TATA
19287201 TTATAAAAAA
Statistics
Matches: 46, Mismatches: 10, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
6 4 0.09
8 33 0.72
9 5 0.11
10 4 0.09
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.38
Consensus pattern (8 bp):
TATAAATA
Found at i:19287176 original size:18 final size:18
Alignment explanation
Indices: 19287136--19287201 Score: 51
Period size: 18 Copynumber: 3.4 Consensus size: 18
19287126 CAGATTTTAT
19287136 AAATATATAAATATATATGTAA
1 AAATATAT-AA-ATATA--TAA
19287158 AAATATATAAATATATAA
1 AAATATATAAATATATAA
** * *
19287176 AAGCATATAATTTTATAA
1 AAATATATAAATATATAA
*
19287194 ATATATAT
1 AAATATAT
19287202 TATAAAAAAT
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
18 22 0.59
20 5 0.14
21 2 0.05
22 8 0.22
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.38
Consensus pattern (18 bp):
AAATATATAAATATATAA
Found at i:19287237 original size:22 final size:22
Alignment explanation
Indices: 19287206--19287253 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
19287196 ATATATTATA
*
19287206 AAAAATTATATATATAAGTTTAC
1 AAAAATTATAT-TATAAATTTAC
*
19287229 AAAAA-TATATTATAAATTTAG
1 AAAAATTATATTATAAATTTAC
19287250 AAAA
1 AAAA
19287254 TATGTATTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 13 0.57
22 5 0.22
23 5 0.22
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.35
Consensus pattern (22 bp):
AAAAATTATATTATAAATTTAC
Found at i:19287248 original size:21 final size:23
Alignment explanation
Indices: 19287188--19287253 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 23
19287178 GCATATAATT
* *
19287188 TTATAAATATATATTATA-AAAAA
1 TTATATATATAAATT-TACAAAAA
*
19287211 TTATATATATAAGTTTACAAAAA
1 TTATATATATAAATTTACAAAAA
*
19287234 -TATAT-TATAAATTTAGAAAA
1 TTATATATATAAATTTACAAAA
19287254 TATGTATTTG
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 13 0.35
22 7 0.19
23 17 0.46
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (23 bp):
TTATATATATAAATTTACAAAAA
Done.