Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167960.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_22, whole genome shotgun sequence
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: 19587844
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 68000 characters in sequence are not A, C, G, or T
File 103 of 105
Found at i:18751202 original size:28 final size:28
Alignment explanation
Indices: 18751145--18751204 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 28
18751135 TTTTTATTTG
*
18751145 TTTTATATTAAAAATTATAAAACTTTAA
1 TTTTATATTAAAAATTATAAAACTTAAA
*
18751173 TTTTAATATTAAATA-TATTAAAA-TTAAA
1 TTTT-ATATTAAAAATTA-TAAAACTTAAA
18751201 TTTT
1 TTTT
18751205 GTTTCTTAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 14 0.50
29 14 0.50
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (28 bp):
TTTTATATTAAAAATTATAAAACTTAAA
Found at i:18751586 original size:24 final size:25
Alignment explanation
Indices: 18751559--18751620 Score: 65
Period size: 24 Copynumber: 2.5 Consensus size: 25
18751549 TACGAAAACG
* *
18751559 ATATTAA-TTAAGATTACAAAAATA
1 ATATTAATTTAAAATTAAAAAAATA
18751583 ATA-TAATTTAAAATTAAAAAAATTA
1 ATATTAATTTAAAATTAAAAAAA-TA
*
18751608 TATATAAATTTAA
1 -ATATTAATTTAA
18751621 TAAAATTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
23 3 0.10
24 16 0.52
25 2 0.06
26 3 0.10
27 7 0.23
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (25 bp):
ATATTAATTTAAAATTAAAAAAATA
Found at i:18751858 original size:92 final size:92
Alignment explanation
Indices: 18751742--18751918 Score: 302
Period size: 92 Copynumber: 1.9 Consensus size: 92
18751732 AATGAACCAG
**
18751742 AAACCACTTCAACATAATGGTTGGT-GGGATAAGAAGCGACGTCTTTTTAAATTTTAGATTTGGA
1 AAACCACTTCAACATAATGGTTGGTGGGGATAAGAAGCGACGTCTTGCTAAATTTTA-ATTTGGA
18751806 CGGTTGAACCTTACGCGGTGGAAATCGA
65 CGGTTGAACCTTACGCGGTGGAAATCGA
* *
18751834 AAACCACTTCAATATAATGGTTGGTGGGGATAAGAAGCGATGTCTTGCTAAATTTTAATTTGGAC
1 AAACCACTTCAACATAATGGTTGGTGGGGATAAGAAGCGACGTCTTGCTAAATTTTAATTTGGAC
18751899 GGTTGAACCTTACGCGGTGG
66 GGTTGAACCTTACGCGGTGG
18751919 CAATTGAATT
Statistics
Matches: 80, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
92 52 0.65
93 28 0.35
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (92 bp):
AAACCACTTCAACATAATGGTTGGTGGGGATAAGAAGCGACGTCTTGCTAAATTTTAATTTGGAC
GGTTGAACCTTACGCGGTGGAAATCGA
Found at i:18752248 original size:28 final size:27
Alignment explanation
Indices: 18752190--18752249 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
18752180 CACATTTTTA
* *
18752190 TTTAAAAAAAAAATATAAATTAATATT
1 TTTAAAAAAAAAATATAAATTAACATC
*
18752217 TTTAAAAATAAAATATATAATCT-ACATC
1 TTTAAAAAAAAAATATA-AAT-TAACATC
18752245 TTTAA
1 TTTAA
18752250 TTTTTAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 16 0.57
28 11 0.39
29 1 0.04
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (27 bp):
TTTAAAAAAAAAATATAAATTAACATC
Found at i:18753823 original size:21 final size:22
Alignment explanation
Indices: 18753799--18753843 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
18753789 GTTTGAAAAA
*
18753799 TTATTCCTTG-ATTTATTT-TTT
1 TTATTCATTGCATTT-TTTGTTT
18753820 TTATTCATTGCATTTTTTGTTT
1 TTATTCATTGCATTTTTTGTTT
18753842 TT
1 TT
18753844 CCTTTAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.13, C:0.09, G:0.07, T:0.71
Consensus pattern (22 bp):
TTATTCATTGCATTTTTTGTTT
Found at i:18754567 original size:12 final size:12
Alignment explanation
Indices: 18754552--18754578 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
18754542 TATTATTAAG
18754552 TTTATTTTTTAT
1 TTTATTTTTTAT
18754564 TTTATTTTTTAT
1 TTTATTTTTTAT
18754576 TTT
1 TTT
18754579 TAGAGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTATTTTTTAT
Found at i:18756302 original size:16 final size:16
Alignment explanation
Indices: 18756283--18756340 Score: 55
Period size: 16 Copynumber: 3.6 Consensus size: 16
18756273 TTTTTAGAAG
18756283 TTTGAATTTTAGGGAT
1 TTTGAATTTTAGGGAT
* *
18756299 TTTGGATTTTTAGGG-G
1 TTT-GAATTTTAGGGAT
* *
18756315 TTTGGATTTTAGGAAT
1 TTTGAATTTTAGGGAT
*
18756331 TTTGGATTTT
1 TTTGAATTTT
18756341 TACAGGTTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
15 8 0.24
16 16 0.47
17 10 0.29
ACGTcount: A:0.19, C:0.00, G:0.28, T:0.53
Consensus pattern (16 bp):
TTTGAATTTTAGGGAT
Found at i:18756349 original size:32 final size:32
Alignment explanation
Indices: 18756271--18756349 Score: 113
Period size: 32 Copynumber: 2.5 Consensus size: 32
18756261 GTGTCCTTAT
* *
18756271 GATTTTTAGAAGTTTGAATTTTAGGGATTTTG
1 GATTTTTAGAGGTTTGAATTTTAGGAATTTTG
* *
18756303 GATTTTTAGGGGTTTGGATTTTAGGAATTTTG
1 GATTTTTAGAGGTTTGAATTTTAGGAATTTTG
*
18756335 GATTTTTACAGGTTT
1 GATTTTTAGAGGTTT
18756350 TAAAAACTTA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.22, C:0.01, G:0.27, T:0.51
Consensus pattern (32 bp):
GATTTTTAGAGGTTTGAATTTTAGGAATTTTG
Found at i:18757637 original size:24 final size:24
Alignment explanation
Indices: 18757610--18757665 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
18757600 CCAGAGATCT
18757610 GTTGAAGGA-AATTTCCAAAGAGAG
1 GTTGAAGGAGAA-TTCCAAAGAGAG
* * *
18757634 GTTGAATGAGGATTCCAAAGGGAG
1 GTTGAAGGAGAATTCCAAAGAGAG
*
18757658 ATTGAAGG
1 GTTGAAGG
18757666 GGATTCCGAG
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 25 0.96
25 1 0.04
ACGTcount: A:0.38, C:0.07, G:0.34, T:0.21
Consensus pattern (24 bp):
GTTGAAGGAGAATTCCAAAGAGAG
Found at i:18758384 original size:109 final size:109
Alignment explanation
Indices: 18758193--18758393 Score: 269
Period size: 109 Copynumber: 1.8 Consensus size: 109
18758183 GATGACGTCG
** * ** ** * *
18758193 CAAGTCAAAAAATAATGAATCGATCGAGATAACATCGCGAATTGATTTTATGCCGGAGGTCTTAC
1 CAAGTCAAAAAATAAAAAATCGATCGAGATAACACCGCGAATCAAAATTATACCGGAGGTCTTAA
*
18758258 AAATCATACCTGGAGGTCTTACAGAATTGATTAAGATAACACCA
66 AAATCATACCCGGAGGTCTTACAGAATTGATTAAGATAACACCA
* *
18758302 CAAGTC-AAAAATAAAAAATCGATCGGGATAACACCGCGAATCAAAATTATACATGGAGGTCTTA
1 CAAGTCAAAAAATAAAAAATCGATCGAGATAACACCGCGAATCAAAATTATAC-CGGAGGTCTTA
*
18758366 AAAATCATGCCCGGAGGTCTTACAGAAT
65 AAAATCATACCCGGAGGTCTTACAGAAT
18758394 CATGCCCGGA
Statistics
Matches: 78, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
108 37 0.47
109 41 0.53
ACGTcount: A:0.40, C:0.18, G:0.18, T:0.23
Consensus pattern (109 bp):
CAAGTCAAAAAATAAAAAATCGATCGAGATAACACCGCGAATCAAAATTATACCGGAGGTCTTAA
AAATCATACCCGGAGGTCTTACAGAATTGATTAAGATAACACCA
Found at i:18758398 original size:23 final size:22
Alignment explanation
Indices: 18758356--18758416 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 22
18758346 AATTATACAT
*
18758356 GGAGGTCTTAAAAATCATGCCC
1 GGAGGTCTTAAGAATCATGCCC
18758378 GGAGGTCTTACAGAATCATGCCC
1 GGAGGTCTTA-AGAATCATGCCC
*
18758401 GGAGATCTTATAGAAT
1 GGAGGTCTTA-AGAAT
18758417 TGACTAGGAT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
22 10 0.29
23 25 0.71
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.25
Consensus pattern (22 bp):
GGAGGTCTTAAGAATCATGCCC
Found at i:18758596 original size:23 final size:23
Alignment explanation
Indices: 18758570--18758636 Score: 82
Period size: 22 Copynumber: 3.0 Consensus size: 23
18758560 AATCGAATTT
*
18758570 ATGCCCGGAGGTCTTACAGAATC
1 ATGCCCGAAGGTCTTACAGAATC
* *
18758593 ATGCCCAAAGGTCTTA-AAAATC
1 ATGCCCGAAGGTCTTACAGAATC
* *
18758615 ATGTCTGAAGGTCTTACAGAAT
1 ATGCCCGAAGGTCTTACAGAAT
18758637 TGACTGGGAT
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
22 18 0.50
23 18 0.50
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (23 bp):
ATGCCCGAAGGTCTTACAGAATC
Found at i:18758666 original size:220 final size:220
Alignment explanation
Indices: 18758266--18758834 Score: 775
Period size: 220 Copynumber: 2.6 Consensus size: 220
18758256 ACAAATCATA
* * *
18758266 CCTGGAGGTCTTACAGAATTGATT-AAGATAACACCACAAGTC-AAAAATAAAAAATCGATCGGG
1 CCTGGAGGTCTTACAGAATTGATTGGA-ATAACACCACAAGTCGAAAGATAAAGAATCGATCGGG
* * ** * *
18758329 ATAACACCGCGAATCAAAATTATACATGGAGGTCTTAAAAATCATGCCCGGAGGTCTTACAGAAT
65 ATAACACCGCGAATCAAATTTATGCCCGGAGGTCTTAAGAATCATGCCCGGAGGTCTTACAAAAT
* * ** *
18758394 CATGCCCGGAGATCTTATAGAATTGACTAGGATAACACTGCAAGTCAAAATTATAGAATTGATCG
130 CATGCCCGAAGATCTTACAGAATTGACTAGGATAACACCACAAGTCAAAATTATAGAATTGATCA
* *
18758459 GGATAACACCGCGGATCAAATTTATG
195 GAATAACACCGCGAATCAAATTTATG
* * *
18758485 CCTGAAGGTTTTACAGAATTGATTGGAATAACACCACAAGTCGAAAGACAAAGAATCGATCGGGA
1 CCTGGAGGTCTTACAGAATTGATTGGAATAACACCACAAGTCGAAAGATAAAGAATCGATCGGGA
* **
18758550 TAACACCGCGAATCGAATTTATGCCCGGAGGTCTTACAGAATCATGCCCAAAGGTCTTA-AAAAT
66 TAACACCGCGAATCAAATTTATGCCCGGAGGTCTTA-AGAATCATGCCCGGAGGTCTTACAAAAT
* * * * * *
18758614 CATGTCTGAAGGTCTTACAGAATTGACTGGGATAACACCATAAGTTAAAATTATAGAATTGATCA
130 CATGCCCGAAGATCTTACAGAATTGACTAGGATAACACCACAAGTCAAAATTATAGAATTGATCA
* *
18758679 GAATAACACTGCGAATCAATTTTATG
195 GAATAACACCGCGAATCAAATTTATG
* *
18758705 CCCGGAGATCTTACAGAATTGATTGGAATAACACCACAAGTCGAAAGATAAAGAATCGATCGGGA
1 CCTGGAGGTCTTACAGAATTGATTGGAATAACACCACAAGTCGAAAGATAAAGAATCGATCGGGA
* * *
18758770 TGATACCGCGAATCAAATTTATGCCCGGAGGTCTTATAGAATCATACCCGGAGGTCTTACAAAAT
66 TAACACCGCGAATCAAATTTATGCCCGGAGGTCTTA-AGAATCATGCCCGGAGGTCTTACAAAAT
18758835 TGATTGAAAT
Statistics
Matches: 304, Mismatches: 42, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
219 37 0.12
220 243 0.80
221 24 0.08
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (220 bp):
CCTGGAGGTCTTACAGAATTGATTGGAATAACACCACAAGTCGAAAGATAAAGAATCGATCGGGA
TAACACCGCGAATCAAATTTATGCCCGGAGGTCTTAAGAATCATGCCCGGAGGTCTTACAAAATC
ATGCCCGAAGATCTTACAGAATTGACTAGGATAACACCACAAGTCAAAATTATAGAATTGATCAG
AATAACACCGCGAATCAAATTTATG
Found at i:18758739 original size:87 final size:88
Alignment explanation
Indices: 18758626--18758811 Score: 223
Period size: 88 Copynumber: 2.1 Consensus size: 88
18758616 TGTCTGAAGG
* * * * * *
18758626 TCTTACAGAATTGACTGGGATAACACCATAAGT-TAAA-ATTATAGAATTGATCAGAATAACACT
1 TCTTACAGAATTGACTGGAATAACACCACAAGTCGAAAGA-TAAAGAATCGATCAGAATAACACC
*
18758689 GCGAATCAATTTTATGCCCGGAGA
65 GCGAATCAAATTTATGCCCGGAGA
* * * * *
18758713 TCTTACAGAATTGATTGGAATAACACCACAAGTCGAAAGATAAAGAATCGATCGGGATGATACCG
1 TCTTACAGAATTGACTGGAATAACACCACAAGTCGAAAGATAAAGAATCGATCAGAATAACACCG
*
18758778 CGAATCAAATTTATGCCCGGAGG
66 CGAATCAAATTTATGCCCGGAGA
*
18758801 TCTTATAGAAT
1 TCTTACAGAAT
18758812 CATACCCGGA
Statistics
Matches: 83, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
87 30 0.36
88 52 0.63
89 1 0.01
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.26
Consensus pattern (88 bp):
TCTTACAGAATTGACTGGAATAACACCACAAGTCGAAAGATAAAGAATCGATCAGAATAACACCG
CGAATCAAATTTATGCCCGGAGA
Found at i:18759010 original size:110 final size:110
Alignment explanation
Indices: 18758702--18759171 Score: 557
Period size: 111 Copynumber: 4.3 Consensus size: 110
18758692 AATCAATTTT
* * * * *
18758702 ATGCCCGGAGATCTTACAGAATTGATTGGAATAACACCACAAGTCGAAAGATAAAGAATCGATCG
1 ATGCCCGGAGGTCTTACAAAATTGACTGGAATAACACCATAAGTCAAAAGATAAAGAATCGATCG
* * * *
18758767 GGATGATACCGCGAATCAAATTTATGCCCGGAGGTCTTATAGAATC
66 GGATAACACCGCGAATCAAATTTATACCCGGAGGTCTTA-AAAATC
* * * *
18758813 ATACCCGGAGGTCTTACAAAATTGATTGAAATAACACCATAAGTCGAAAGATAAAGAATCGATCG
1 ATGCCCGGAGGTCTTACAAAATTGACTGGAATAACACCATAAGTCAAAAGATAAAGAATCGATCG
* * * * * *
18758878 GGATAACATCGTGAATCGAATTTATACCTGGAGATCTTAGAAATC
66 GGATAACACCGCGAATCAAATTTATACCCGGAGGTCTTAAAAATC
* * * *
18758923 ATGCCCGGAGGTCTTACAAAATTGACTGGGATAACACCGTAAGTCAAAATTATAGAA-AATTGAT
1 ATGCCCGGAGGTCTTACAAAATTGACTGGAATAACACCATAAGTCAAAA-GATA-AAGAATCGAT
* * * * *
18758987 CGGAATAACACCGCGAATCAATTTTACACCCAGAGGTCTTACAAATC
64 CGGGATAACACCGCGAATCAAATTTATACCCGGAGGTCTTAAAAATC
* * * * * *
18759034 ATGTCCGGAGGTTTTACAGAATTGACTAGG-ATAACACCGTAAGTCAAAAAATAAAGAATTGATC
1 ATGCCCGGAGGTCTTACAAAATTGACT-GGAATAACACCATAAGTCAAAAGATAAAGAATCGATC
** *
18759098 GGGATAACACCGTAAATCAAATTTATACTCGGAGGTCTTAAAAATC
65 GGGATAACACCGCGAATCAAATTTATACCCGGAGGTCTTAAAAATC
18759144 ATGCCCGGAGGTCTTACAAAATTGACTG
1 ATGCCCGGAGGTCTTACAAAATTGACTG
18759172 AAGGTCTTAA
Statistics
Matches: 307, Mismatches: 48, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
109 3 0.01
110 120 0.39
111 180 0.59
112 4 0.01
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (110 bp):
ATGCCCGGAGGTCTTACAAAATTGACTGGAATAACACCATAAGTCAAAAGATAAAGAATCGATCG
GGATAACACCGCGAATCAAATTTATACCCGGAGGTCTTAAAAATC
Found at i:18759090 original size:221 final size:221
Alignment explanation
Indices: 18758702--18759171 Score: 588
Period size: 221 Copynumber: 2.1 Consensus size: 221
18758692 AATCAATTTT
* * * *
18758702 ATGCCCGGAGATCTTACAGAATTGATTGGAATAACACCACAAGTCGAAAGATAAAGAATCGATCG
1 ATGCCCGGAGGTCTTACAAAATTGACTGGAATAACACCACAAGTCAAAAGATAAAGAATCGATCG
* * * ** * *
18758767 GGATGATACCGCGAATCAAATTTATGCCCGGAGGTCTTATAGAATCATACCCGGAGGTCTTACAA
66 GAATAACACCGCGAATCAAATTTACACCCAGAGGTCTTACAGAATCATACCCGGAGGTCTTACAA
* * * * * *
18758832 AATTGATTGAAATAACACCATAAGTCGAAAGATAAAGAATCGATCGGGATAACATCGTGAATCGA
131 AATTGATAGAAATAACACCATAAGTCAAAAAATAAAGAATCGATCGGGATAACACCGTAAATCAA
*
18758897 ATTTATAC-CTGGAGATCTTAGAAATC
196 ATTTATACTC-GGAGATCTTAAAAATC
* ** * *
18758923 ATGCCCGGAGGTCTTACAAAATTGACTGGGATAACACCGTAAGTCAAAATTATAGAA-AATTGAT
1 ATGCCCGGAGGTCTTACAAAATTGACTGGAATAACACCACAAGTCAAAA-GATA-AAGAATCGAT
* ** *
18758987 CGGAATAACACCGCGAATCAATTTTACACCCAGAGGTCTTACA-AATCATGTCCGGAGGTTTTAC
64 CGGAATAACACCGCGAATCAAATTTACACCCAGAGGTCTTACAGAATCATACCCGGAGGTCTTAC
* * * *
18759051 AGAATTGACTAG-GATAACACCGTAAGTCAAAAAATAAAGAATTGATCGGGATAACACCGTAAAT
129 AAAATTGA-TAGAAATAACACCATAAGTCAAAAAATAAAGAATCGATCGGGATAACACCGTAAAT
*
18759115 CAAATTTATACTCGGAGGTCTTAAAAATC
193 CAAATTTATACTCGGAGATCTTAAAAATC
18759144 ATGCCCGGAGGTCTTACAAAATTGACTG
1 ATGCCCGGAGGTCTTACAAAATTGACTG
18759172 AAGGTCTTAA
Statistics
Matches: 213, Mismatches: 32, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
221 164 0.77
222 47 0.22
223 2 0.01
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (221 bp):
ATGCCCGGAGGTCTTACAAAATTGACTGGAATAACACCACAAGTCAAAAGATAAAGAATCGATCG
GAATAACACCGCGAATCAAATTTACACCCAGAGGTCTTACAGAATCATACCCGGAGGTCTTACAA
AATTGATAGAAATAACACCATAAGTCAAAAAATAAAGAATCGATCGGGATAACACCGTAAATCAA
ATTTATACTCGGAGATCTTAAAAATC
Found at i:18759152 original size:22 final size:22
Alignment explanation
Indices: 18759127--18759199 Score: 78
Period size: 22 Copynumber: 3.4 Consensus size: 22
18759117 AATTTATACT
18759127 CGGAGGTCTTAAAAATCATGCC
1 CGGAGGTCTTAAAAATCATGCC
*
18759149 CGGAGGTCTTACAAAAT--TGAC
1 CGGAGGTCTTA-AAAATCATGCC
* * *
18759170 TGAAGGTCTTAAAAATCATGCT
1 CGGAGGTCTTAAAAATCATGCC
*
18759192 TGGAGGTC
1 CGGAGGTC
18759200 ATATAGAATT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
20 5 0.12
21 12 0.29
22 20 0.48
23 5 0.12
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.26
Consensus pattern (22 bp):
CGGAGGTCTTAAAAATCATGCC
Found at i:18759180 original size:43 final size:43
Alignment explanation
Indices: 18759130--18759214 Score: 125
Period size: 43 Copynumber: 2.0 Consensus size: 43
18759120 TTATACTCGG
*
18759130 AGGTCTTAAAAATCATGCCCGGAGGTCTTACAAAATTGACTGA
1 AGGTCTTAAAAATCATGCCCGGAGGTCATACAAAATTGACTGA
** * *
18759173 AGGTCTTAAAAATCATGCTTGGAGGTCATATAGAATTGACTG
1 AGGTCTTAAAAATCATGCCCGGAGGTCATACAAAATTGACTG
18759215 GGATAACACC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.28
Consensus pattern (43 bp):
AGGTCTTAAAAATCATGCCCGGAGGTCATACAAAATTGACTGA
Found at i:18760009 original size:27 final size:28
Alignment explanation
Indices: 18759951--18760009 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
18759941 CTTGCTCTAC
***
18759951 TTTTTTTTATGAAAAATTTTTGTTTTTG
1 TTTTTTTTATGAAAAATTTTTGTTTAAA
*
18759979 TTTTTTTTTTGAAAAA-TTTTGTTTAAA
1 TTTTTTTTATGAAAAATTTTTGTTTAAA
18760006 TTTT
1 TTTT
18760010 CATTGTTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
27 12 0.44
28 15 0.56
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (28 bp):
TTTTTTTTATGAAAAATTTTTGTTTAAA
Found at i:18761274 original size:10 final size:9
Alignment explanation
Indices: 18761254--18761279 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
18761244 TGAATATGTC
18761254 TTTTTTATT
1 TTTTTTATT
18761263 TTTTTTATT
1 TTTTTTATT
18761272 TTTTTTAT
1 TTTTTTAT
18761280 GCCCCATCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (9 bp):
TTTTTTATT
Found at i:18766334 original size:31 final size:32
Alignment explanation
Indices: 18766268--18766334 Score: 100
Period size: 32 Copynumber: 2.1 Consensus size: 32
18766258 TATCCCAGGA
*
18766268 GTTTGGATTTTAGGGAATTTCGATTTTTAGGG
1 GTTTGGATTTTAGGGAATTTCGATTTTTAGAG
* *
18766300 GTTTGGATTTTAGGGATTTTGGA-TTTTAGAG
1 GTTTGGATTTTAGGGAATTTCGATTTTTAGAG
18766331 GTTT
1 GTTT
18766335 TAAAAACTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
31 11 0.34
32 21 0.66
ACGTcount: A:0.18, C:0.01, G:0.31, T:0.49
Consensus pattern (32 bp):
GTTTGGATTTTAGGGAATTTCGATTTTTAGAG
Found at i:18766335 original size:16 final size:16
Alignment explanation
Indices: 18766269--18766328 Score: 77
Period size: 16 Copynumber: 3.8 Consensus size: 16
18766259 ATCCCAGGAG
*
18766269 TTTGGATTTTAGGGAA
1 TTTGGATTTTAGGGAT
* *
18766285 TTTCGATTTTTAGGG-G
1 TTTGGA-TTTTAGGGAT
18766301 TTTGGATTTTAGGGAT
1 TTTGGATTTTAGGGAT
18766317 TTTGGATTTTAG
1 TTTGGATTTTAG
18766329 AGGTTTTAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
15 8 0.21
16 22 0.58
17 8 0.21
ACGTcount: A:0.18, C:0.02, G:0.30, T:0.50
Consensus pattern (16 bp):
TTTGGATTTTAGGGAT
Found at i:18766766 original size:37 final size:36
Alignment explanation
Indices: 18766696--18766766 Score: 83
Period size: 37 Copynumber: 1.9 Consensus size: 36
18766686 ATTTTCTTGC
* *
18766696 ATAAATATAAAAAATATATTTAAAATAACAAAAATA
1 ATAAATATAAAAAATATATTGAAAATAAAAAAAATA
18766732 ATAATATATAAAAAA-A-ATTAGAAAATTAAAAAAAA
1 ATAA-ATATAAAAAATATATT-GAAAA-TAAAAAAAA
18766767 AATTTTTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
35 3 0.10
36 9 0.30
37 18 0.60
ACGTcount: A:0.72, C:0.01, G:0.01, T:0.25
Consensus pattern (36 bp):
ATAAATATAAAAAATATATTGAAAATAAAAAAAATA
Found at i:18767578 original size:24 final size:24
Alignment explanation
Indices: 18767540--18767622 Score: 68
Period size: 22 Copynumber: 3.6 Consensus size: 24
18767530 AGATCTGTTA
* *
18767540 AAGGGAATTTCCAGAGACAGGTTG
1 AAGGGGATTTCCAGAGACAGATTG
**
18767564 AATGGGGATTT-CAGAGGGAGATTG
1 AA-GGGGATTTCCAGAGACAGATTG
*
18767588 AAGGGGA-TTCC-GAGAGCTG-TTG
1 AAGGGGATTTCCAGAGA-CAGATTG
18767610 AAGGGGA-TTCCAG
1 AAGGGGATTTCCAG
18767623 CCAGCCTCCA
Statistics
Matches: 48, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
22 19 0.40
23 8 0.17
24 14 0.29
25 7 0.15
ACGTcount: A:0.29, C:0.11, G:0.39, T:0.22
Consensus pattern (24 bp):
AAGGGGATTTCCAGAGACAGATTG
Found at i:18767798 original size:12 final size:12
Alignment explanation
Indices: 18767778--18767812 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
18767768 GCCGTAGGGT
18767778 GGCTGGTCGGGA
1 GGCTGGTCGGGA
*
18767790 GGCTAGTCGGGA
1 GGCTGGTCGGGA
18767802 GGCTGGTCGGG
1 GGCTGGTCGGG
18767813 TAGTTGGTCG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.09, C:0.17, G:0.57, T:0.17
Consensus pattern (12 bp):
GGCTGGTCGGGA
Found at i:18767822 original size:24 final size:24
Alignment explanation
Indices: 18767778--18767836 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
18767768 GCCGTAGGGT
*
18767778 GGCTGGTCGGG-AGGCTAGTCGGG
1 GGCTGGTCGGGTAGGCTAGTCGAG
* *
18767801 AGGCTGGTCGGGTA-GTTGGTCGAG
1 -GGCTGGTCGGGTAGGCTAGTCGAG
*
18767825 GGTTGGTCGGGT
1 GGCTGGTCGGGT
18767837 TGCTCGATGT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
23 11 0.37
24 18 0.60
25 1 0.03
ACGTcount: A:0.08, C:0.14, G:0.54, T:0.24
Consensus pattern (24 bp):
GGCTGGTCGGGTAGGCTAGTCGAG
Found at i:18767915 original size:3 final size:3
Alignment explanation
Indices: 18767889--18767939 Score: 50
Period size: 3 Copynumber: 17.0 Consensus size: 3
18767879 TTTTTTTAAT
* * *
18767889 TTA TAA TTA ATA TATA TT- TTA TTA TTA TTG TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
18767934 GTA TTA
1 TTA TTA
18767940 ATATACTTAA
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
2 2 0.05
3 33 0.87
4 3 0.08
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:18768669 original size:21 final size:21
Alignment explanation
Indices: 18768636--18768675 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
18768626 TAAAAAAAAA
* *
18768636 TATTTTTATTATTATTTTTGT
1 TATTTTAAGTATTATTTTTGT
*
18768657 TATTTTAAGTATTTTTTTT
1 TATTTTAAGTATTATTTTT
18768676 AATATTGATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.05, T:0.75
Consensus pattern (21 bp):
TATTTTAAGTATTATTTTTGT
Found at i:18768681 original size:21 final size:21
Alignment explanation
Indices: 18768634--18768681 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 21
18768624 GGTAAAAAAA
* *
18768634 AATATTTTTATTATTATTTTT
1 AATATTTTAAGTATTATTTTT
** *
18768655 GTTATTTTAAGTATTTTTTTT
1 AATATTTTAAGTATTATTTTT
18768676 AATATT
1 AATATT
18768682 GATTCATGAT
Statistics
Matches: 20, Mismatches: 7, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (21 bp):
AATATTTTAAGTATTATTTTT
Found at i:18769095 original size:16 final size:16
Alignment explanation
Indices: 18769076--18769127 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
18769066 CTAAGTTTCT
18769076 AAAATCTCTAAAATCC
1 AAAATCTCTAAAATCC
*
18769092 AAAATCTCCTAAAATCT
1 AAAATCT-CTAAAATCC
* * *
18769109 GAAACCCCTAAAATCC
1 AAAATCTCTAAAATCC
18769125 AAA
1 AAA
18769128 CCCTTAAATT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
16 17 0.59
17 12 0.41
ACGTcount: A:0.50, C:0.27, G:0.02, T:0.21
Consensus pattern (16 bp):
AAAATCTCTAAAATCC
Found at i:18769169 original size:29 final size:28
Alignment explanation
Indices: 18769137--18769231 Score: 75
Period size: 30 Copynumber: 3.2 Consensus size: 28
18769127 ACCCTTAAAT
*
18769137 TAAAACCCCAAATTTTAAAATCGAAACCC
1 TAAAACCCCAAACTTTAAAATC-AAACCC
** * *
18769166 TAAAATCTTCAAACTCTAAAATCAAAATCC
1 TAAAA-CCCCAAACTTTAAAATC-AAACCC
* *
18769196 T-AAACCTTCCATACCTTAAAATCAAACCC
1 TAAAACC--CCAAACTTTAAAATCAAACCC
18769225 TAAAACC
1 TAAAACC
18769232 TTCAAAAATT
Statistics
Matches: 50, Mismatches: 12, Indels: 7
0.72 0.17 0.10
Matches are distributed among these distances:
28 1 0.02
29 14 0.28
30 35 0.70
ACGTcount: A:0.47, C:0.28, G:0.01, T:0.23
Consensus pattern (28 bp):
TAAAACCCCAAACTTTAAAATCAAACCC
Found at i:18769243 original size:29 final size:30
Alignment explanation
Indices: 18769151--18769259 Score: 100
Period size: 30 Copynumber: 3.7 Consensus size: 30
18769141 ACCCCAAATT
* *
18769151 TTAAAATCGAAACCCTAAAATCTTC-AAAC
1 TTAAAATCAAAACCCTAAAACCTTCAAAAC
* * *
18769180 TCTAAAATCAAAATCCT-AAACCTTCCATACC
1 T-TAAAATCAAAACCCTAAAACCTT-CAAAAC
*
18769211 TTAAAATC-AAACCCTAAAACCTTCAAAAA
1 TTAAAATCAAAACCCTAAAACCTTCAAAAC
*
18769240 TT-AAATCTAAACCCTCAAAA
1 TTAAAATCAAAACCCT-AAAA
18769260 TTCGAATCTT
Statistics
Matches: 65, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
28 5 0.08
29 25 0.38
30 32 0.49
31 3 0.05
ACGTcount: A:0.49, C:0.27, G:0.01, T:0.24
Consensus pattern (30 bp):
TTAAAATCAAAACCCTAAAACCTTCAAAAC
Found at i:18769375 original size:15 final size:16
Alignment explanation
Indices: 18769355--18769385 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
18769345 TGTGTGAAAA
18769355 TTTT-AAAATTAGAAT
1 TTTTAAAAATTAGAAT
18769370 TTTTAAAAATTAGAAT
1 TTTTAAAAATTAGAAT
18769386 GCCATATGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.45
Consensus pattern (16 bp):
TTTTAAAAATTAGAAT
Found at i:18772610 original size:86 final size:87
Alignment explanation
Indices: 18772520--18772688 Score: 313
Period size: 86 Copynumber: 2.0 Consensus size: 87
18772510 AAAACGGAGT
*
18772520 TATGTGCGATTGGCCACTTATTAAAATTTATCCTTTTAATAAGATTTTAAAATTAATTAAAATTT
1 TATGTGCGATTGGCCACCTATTAAAATTTATCCTTTTAATAAGATTTTAAAATTAATTAAAATTT
18772585 ATTAAAAAAA-AATTTTTTAGC
66 ATTAAAAAAATAATTTTTTAGC
*
18772606 TATGTGCGATTGGTCACCTATTAAAATTTATCCTTTTAATAAGATTTTAAAATTAATTAAAATTT
1 TATGTGCGATTGGCCACCTATTAAAATTTATCCTTTTAATAAGATTTTAAAATTAATTAAAATTT
18772671 ATTAAAAAAATAATTTTT
66 ATTAAAAAAATAATTTTT
18772689 ATTGTATACG
Statistics
Matches: 80, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
86 73 0.91
87 7 0.09
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.44
Consensus pattern (87 bp):
TATGTGCGATTGGCCACCTATTAAAATTTATCCTTTTAATAAGATTTTAAAATTAATTAAAATTT
ATTAAAAAAATAATTTTTTAGC
Found at i:18773607 original size:12 final size:12
Alignment explanation
Indices: 18773592--18773618 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
18773582 TATTATTAAG
18773592 TTTATTTTTTAT
1 TTTATTTTTTAT
18773604 TTTATTTTTTAT
1 TTTATTTTTTAT
18773616 TTT
1 TTT
18773619 TTAGAGTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTATTTTTTAT
Found at i:18775057 original size:17 final size:17
Alignment explanation
Indices: 18775021--18775100 Score: 83
Period size: 17 Copynumber: 4.7 Consensus size: 17
18775011 AAACCCCTCC
*
18775021 CATGGTTTGC-A-AGCA
1 CATGGTTTGCAACAGAA
18775036 CATGGTTTGCAACAGAA
1 CATGGTTTGCAACAGAA
* *
18775053 CATGGTTTCGAAAACAGCA
1 CATGGTTT-G-CAACAGAA
* *
18775072 CATGGTTTGTAACAAAA
1 CATGGTTTGCAACAGAA
18775089 CATGGTTTGCAA
1 CATGGTTTGCAA
18775101 GTTGCAACAG
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
15 10 0.19
16 1 0.02
17 27 0.50
18 2 0.04
19 14 0.26
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (17 bp):
CATGGTTTGCAACAGAA
Found at i:18777050 original size:84 final size:83
Alignment explanation
Indices: 18776949--18777118 Score: 295
Period size: 84 Copynumber: 2.0 Consensus size: 83
18776939 GCAATGTATC
*
18776949 AATAATAATTATTATTGCTACTAAAAAAGAAAAATTGAAGAAGATCTATACTTTTTTATTAAATA
1 AATAATAATTATTATTGCTACTAAAAAAGAAAAATTGAAGAAGATATATAC-TTTTTATTAAATA
18777014 AGTGATAACATTGCTTAAT
65 AGTGATAACATTGCTTAAT
* *
18777033 AATAATAATTATTATTGCTACTTAAAAAGAAAAATTGAAGGAGATATATACTTTTTATTAAATAA
1 AATAATAATTATTATTGCTACTAAAAAAGAAAAATTGAAGAAGATATATACTTTTTATTAAATAA
*
18777098 GTGATAATATTGCTTAAT
66 GTGATAACATTGCTTAAT
18777116 AAT
1 AAT
18777119 TTTTATATTA
Statistics
Matches: 82, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
83 34 0.41
84 48 0.59
ACGTcount: A:0.46, C:0.06, G:0.10, T:0.38
Consensus pattern (83 bp):
AATAATAATTATTATTGCTACTAAAAAAGAAAAATTGAAGAAGATATATACTTTTTATTAAATAA
GTGATAACATTGCTTAAT
Found at i:18778699 original size:47 final size:47
Alignment explanation
Indices: 18778648--18778764 Score: 114
Period size: 48 Copynumber: 2.5 Consensus size: 47
18778638 TTTCAAGAAA
* ** ** *
18778648 ATTTTATTTTTATTAAAATTTTT-TGAATTTTTTATTTGATTTTATAT
1 ATTTTATTTTTATTAAAATTTTTATAAATTTTAAAAAT-ATTTCATAT
*
18778695 ATTTT-TTATTTTTTAAAAGTTTTTATAAATTTTAAAAATATTTCATAT
1 ATTTTATT-TTTATTAAAA-TTTTTATAAATTTTAAAAATATTTCATAT
18778743 ATTTTAATTTTTA-TAAAATTTT
1 ATTTT-ATTTTTATTAAAATTTT
18778765 AAAATATTTC
Statistics
Matches: 57, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
46 2 0.04
47 18 0.32
48 23 0.40
49 12 0.21
50 2 0.04
ACGTcount: A:0.33, C:0.01, G:0.03, T:0.63
Consensus pattern (47 bp):
ATTTTATTTTTATTAAAATTTTTATAAATTTTAAAAATATTTCATAT
Found at i:18778771 original size:27 final size:26
Alignment explanation
Indices: 18778741--18778802 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
18778731 AATATTTCAT
**
18778741 ATATTTTAATTTTTATAAAATTTTAAA
1 ATATTTTAACCTTT-TAAAATTTTAAA
*
18778768 ATATTTCAAACCTTTTAAAATTTTAAA
1 ATATTT-TAACCTTTTAAAATTTTAAA
*
18778795 ATTTTTTA
1 ATATTTTA
18778803 GAAATTTCCT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
26 1 0.03
27 23 0.79
28 5 0.17
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (26 bp):
ATATTTTAACCTTTTAAAATTTTAAA
Found at i:18778784 original size:36 final size:37
Alignment explanation
Indices: 18778714--18778799 Score: 106
Period size: 36 Copynumber: 2.4 Consensus size: 37
18778704 TTTTTAAAAG
* *
18778714 TTTTTAT-AAATTTTAAAAATATTTCATATATTTTAA
1 TTTTTATAAAATTTTAAAAATATTTCAAACATTTTAA
*
18778750 TTTTTATAAAATTTT-AAAATATTTCAAACCTTTTAA
1 TTTTTATAAAATTTTAAAAATATTTCAAACATTTTAA
**
18778786 AATTT-TAAAATTTT
1 TTTTTATAAAATTTT
18778800 TTAGAAATTT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
35 9 0.20
36 28 0.64
37 7 0.16
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (37 bp):
TTTTTATAAAATTTTAAAAATATTTCAAACATTTTAA
Found at i:18779316 original size:7 final size:7
Alignment explanation
Indices: 18779306--18779340 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
18779296 AAAAGTTAAG
18779306 TTTTTTA
1 TTTTTTA
18779313 TTTTTTA
1 TTTTTTA
18779320 TTTTTTA
1 TTTTTTA
*
18779327 TACTTTTA
1 T-TTTTTA
18779335 TTTTTT
1 TTTTTT
18779341 CAAACCAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 19 0.76
8 6 0.24
ACGTcount: A:0.14, C:0.03, G:0.00, T:0.83
Consensus pattern (7 bp):
TTTTTTA
Found at i:18779333 original size:15 final size:14
Alignment explanation
Indices: 18779306--18779340 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
18779296 AAAAGTTAAG
*
18779306 TTTTTTATTTTTTA
1 TTTTTTATCTTTTA
18779320 TTTTTTATACTTTTA
1 TTTTTTAT-CTTTTA
18779335 TTTTTT
1 TTTTTT
18779341 CAAACCAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.42
15 11 0.58
ACGTcount: A:0.14, C:0.03, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTTTATCTTTTA
Found at i:18802858 original size:2 final size:2
Alignment explanation
Indices: 18802851--18802875 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
18802841 ACATACGTAC
18802851 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
18802876 GGAATTTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:18811621 original size:6 final size:6
Alignment explanation
Indices: 18811612--18811645 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
18811602 TAATATAATA
*
18811612 TTAAAT TTAAAT TTAAAT TT-AAT TTTAAT TTAAA
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAA
18811646 ATTTGAAACT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (6 bp):
TTAAAT
Found at i:18811629 original size:12 final size:12
Alignment explanation
Indices: 18811612--18811645 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
18811602 TAATATAATA
18811612 TTAAATTTAAAT
1 TTAAATTTAAAT
18811624 TTAAATTT-AAT
1 TTAAATTTAAAT
*
18811635 TTTAATTTAAA
1 TTAAATTTAAA
18811646 ATTTGAAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
TTAAATTTAAAT
Found at i:18811647 original size:18 final size:18
Alignment explanation
Indices: 18811601--18811649 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 18
18811591 CGAATTTGAA
* * *
18811601 TTAATATAATATTAAATT
1 TTAATTTAAAATTTAATT
*
18811619 TAAATTT-AAATTTAATT
1 TTAATTTAAAATTTAATT
18811636 TTAATTTAAAATTT
1 TTAATTTAAAATTT
18811650 GAAACTCAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
17 14 0.56
18 11 0.44
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TTAATTTAAAATTTAATT
Found at i:18811867 original size:18 final size:19
Alignment explanation
Indices: 18811819--18811867 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
18811809 AAGATATTTT
18811819 ATTAATTAAAATAATAAAA
1 ATTAATTAAAATAATAAAA
*
18811838 A-TATATTTAAAT-ATAAAA
1 ATTA-ATTAAAATAATAAAA
*
18811856 ATTAATTGAAAT
1 ATTAATTAAAAT
18811868 TCATGAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 16 0.62
19 10 0.38
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (19 bp):
ATTAATTAAAATAATAAAA
Found at i:18813762 original size:2 final size:2
Alignment explanation
Indices: 18813755--18813784 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
18813745 TGTTGCCTAC
18813755 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18813785 TTATCAAAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18832975 original size:16 final size:18
Alignment explanation
Indices: 18832954--18832987 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
18832944 AAAGGTTAAA
18832954 AATAAAAT-T-TTAATTT
1 AATAAAATATATTAATTT
18832970 AATAAAATATATTAATTT
1 AATAAAATATATTAATTT
18832988 TATTTTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 1 0.06
18 7 0.44
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
AATAAAATATATTAATTT
Found at i:18833953 original size:74 final size:74
Alignment explanation
Indices: 18833832--18833980 Score: 280
Period size: 74 Copynumber: 2.0 Consensus size: 74
18833822 TGTTCACACC
*
18833832 AGCTGAAAAATGAGAGCATGAAGATGGATGGGCTTATGGTTAAATTCATGGATGAATCTAGACAC
1 AGCTGAAAAATGAGAGCATGAAGATAGATGGGCTTATGGTTAAATTCATGGATGAATCTAGACAC
18833897 CAAATATTA
66 CAAATATTA
*
18833906 AGCTGAAAAATGAGAGCATGAAGATAGATGTGCTTATGGTTAAATTCATGGATGAATCTAGACAC
1 AGCTGAAAAATGAGAGCATGAAGATAGATGGGCTTATGGTTAAATTCATGGATGAATCTAGACAC
18833971 CAAATATTA
66 CAAATATTA
18833980 A
1 A
18833981 ATACATTATC
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
74 73 1.00
ACGTcount: A:0.40, C:0.11, G:0.23, T:0.26
Consensus pattern (74 bp):
AGCTGAAAAATGAGAGCATGAAGATAGATGGGCTTATGGTTAAATTCATGGATGAATCTAGACAC
CAAATATTA
Found at i:18849831 original size:2 final size:2
Alignment explanation
Indices: 18849826--18849851 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
18849816 CTCTCTCTCT
18849826 CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA
18849852 GACATAGCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:18856897 original size:41 final size:42
Alignment explanation
Indices: 18856824--18856903 Score: 99
Period size: 41 Copynumber: 1.9 Consensus size: 42
18856814 ATCATTTAAT
** * **
18856824 ATTTATTTTAAATTAAATTTTAACTTGCAAATTT-AAATTTA
1 ATTTATTTTAAATTAAATTCCAAATAACAAATTTCAAATTTA
*
18856865 ATTTATTTTAAATTAAATTCCAAATAATAAATTTCAAAT
1 ATTTATTTTAAATTAAATTCCAAATAACAAATTTCAAAT
18856904 CGAGATCCAA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
41 28 0.88
42 4 0.12
ACGTcount: A:0.45, C:0.06, G:0.01, T:0.47
Consensus pattern (42 bp):
ATTTATTTTAAATTAAATTCCAAATAACAAATTTCAAATTTA
Found at i:18857490 original size:23 final size:22
Alignment explanation
Indices: 18857456--18857509 Score: 74
Period size: 23 Copynumber: 2.5 Consensus size: 22
18857446 AAATTTAAAT
18857456 TTAAATACTTTACATTTAGACC
1 TTAAATACTTTACATTTAGACC
* *
18857478 TTAAATCACTTTATATTTAGACT
1 TTAAAT-ACTTTACATTTAGACC
18857501 TTAAA-ACTT
1 TTAAATACTT
18857510 AACCACTTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 4 0.14
22 6 0.21
23 19 0.66
ACGTcount: A:0.37, C:0.15, G:0.04, T:0.44
Consensus pattern (22 bp):
TTAAATACTTTACATTTAGACC
Found at i:18857740 original size:17 final size:17
Alignment explanation
Indices: 18857706--18857753 Score: 57
Period size: 16 Copynumber: 2.9 Consensus size: 17
18857696 TTACAGATTT
18857706 AAAAAAATATT-TTT-TG
1 AAAAAAAT-TTATTTATG
18857722 AAAAAAATTTATTTATG
1 AAAAAAATTTATTTATG
*
18857739 AATAAAA-TTATTTAT
1 AAAAAAATTTATTTAT
18857754 TAATACTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 2 0.07
16 19 0.66
17 8 0.28
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (17 bp):
AAAAAAATTTATTTATG
Found at i:18857752 original size:16 final size:17
Alignment explanation
Indices: 18857720--18857758 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
18857710 AAATATTTTT
*
18857720 TGAAAAAAATTTATTTA
1 TGAATAAAATTTATTTA
18857737 TGAATAAAA-TTATTTA
1 TGAATAAAATTTATTTA
*
18857753 TTAATA
1 TGAATA
18857759 CTTTTAGGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (17 bp):
TGAATAAAATTTATTTA
Found at i:18857809 original size:15 final size:15
Alignment explanation
Indices: 18857786--18857815 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
18857776 ACTTATAAAT
*
18857786 AATATTATATTAATA
1 AATAATATATTAATA
18857801 AATAATATATTAATA
1 AATAATATATTAATA
18857816 TATTAATAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
AATAATATATTAATA
Found at i:18857816 original size:8 final size:8
Alignment explanation
Indices: 18857791--18857823 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
18857781 TAAATAATAT
18857791 TATATTAA
1 TATATTAA
*
18857799 TA-AATAA
1 TATATTAA
18857806 TATATTAA
1 TATATTAA
18857814 TATATTAA
1 TATATTAA
18857822 TA
1 TA
18857824 AAGAATATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
7 6 0.27
8 16 0.73
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (8 bp):
TATATTAA
Found at i:18862459 original size:118 final size:118
Alignment explanation
Indices: 18862249--18862488 Score: 444
Period size: 118 Copynumber: 2.0 Consensus size: 118
18862239 GTTCCCCCAT
* *
18862249 ATTGTTTTCTGACTGAACGGTGAAGAAGAACACACAAAATCATTTATAAAAAATGCCGCTGAGCC
1 ATTGTTTTCTGACTGAACGGTGAAGAAGAACACACAAAATCATTTACAAAAAATGCCACTGAGCC
* *
18862314 TGAGGCATATATGCAGCAAGGATTGCACTAAATTCATAGTGTTGGCGATCATG
66 TGAGGCATACATGCAGCAAGGACTGCACTAAATTCATAGTGTTGGCGATCATG
18862367 ATTGTTTTCTGACTGAACGGTGAAGAAGAACACACAAAATCATTTACAAAAAATGCCACTGAGCC
1 ATTGTTTTCTGACTGAACGGTGAAGAAGAACACACAAAATCATTTACAAAAAATGCCACTGAGCC
18862432 TGAGGCATACATGCAGCAAGGACTGCACTAAATTCATAGTGTTGGCGATCATG
66 TGAGGCATACATGCAGCAAGGACTGCACTAAATTCATAGTGTTGGCGATCATG
18862485 ATTG
1 ATTG
18862489 AGATAGTACA
Statistics
Matches: 118, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
118 118 1.00
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (118 bp):
ATTGTTTTCTGACTGAACGGTGAAGAAGAACACACAAAATCATTTACAAAAAATGCCACTGAGCC
TGAGGCATACATGCAGCAAGGACTGCACTAAATTCATAGTGTTGGCGATCATG
Found at i:18873196 original size:21 final size:21
Alignment explanation
Indices: 18873171--18873223 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
18873161 TGATTAGACG
**
18873171 TTTGCAAAATGGATCAATCCA
1 TTTGCAAAAAAGATCAATCCA
* *
18873192 TTTGCAAAAAAGATCGATCTA
1 TTTGCAAAAAAGATCAATCCA
18873213 TTTGCAAAAAA
1 TTTGCAAAAAA
18873224 ATTATCTTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.43, C:0.15, G:0.13, T:0.28
Consensus pattern (21 bp):
TTTGCAAAAAAGATCAATCCA
Found at i:18875332 original size:6 final size:6
Alignment explanation
Indices: 18875321--18875373 Score: 83
Period size: 6 Copynumber: 9.0 Consensus size: 6
18875311 GATATATAAC
18875321 AATTAT AATTAT AATTAT AATTAT AATTAT AATTAT -A-TAT AATTAT
1 AATTAT AATTAT AATTAT AATTAT AATTAT AATTAT AATTAT AATTAT
18875367 ATATTAT
1 A-ATTAT
18875374 TTTTCTAGAT
Statistics
Matches: 44, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
4 3 0.07
5 2 0.05
6 34 0.77
7 5 0.11
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (6 bp):
AATTAT
Found at i:18876595 original size:5 final size:5
Alignment explanation
Indices: 18876582--18876614 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
18876572 CACTGAACTT
*
18876582 AACCT AACCC AACCC AACCC AACCC AACCC AAC
1 AACCC AACCC AACCC AACCC AACCC AACCC AAC
18876615 GCTCGTTTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.42, C:0.55, G:0.00, T:0.03
Consensus pattern (5 bp):
AACCC
Found at i:18877447 original size:24 final size:23
Alignment explanation
Indices: 18877416--18877461 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
18877406 TGAAAGATAA
18877416 AAAAAAAAAAGGAAAATCATCCC
1 AAAAAAAAAAGGAAAATCATCCC
18877439 AAAAAAAAAAGGAAAATCATCCC
1 AAAAAAAAAAGGAAAATCATCCC
18877462 TTCCTTTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.65, C:0.17, G:0.09, T:0.09
Consensus pattern (23 bp):
AAAAAAAAAAGGAAAATCATCCC
Found at i:18877850 original size:11 final size:11
Alignment explanation
Indices: 18877834--18877859 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
18877824 ATAATATAAA
18877834 TAATTAAAAAT
1 TAATTAAAAAT
18877845 TAATTAAAAAT
1 TAATTAAAAAT
18877856 TAAT
1 TAAT
18877860 AAATAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
TAATTAAAAAT
Found at i:18879336 original size:32 final size:34
Alignment explanation
Indices: 18879262--18879336 Score: 82
Period size: 35 Copynumber: 2.2 Consensus size: 34
18879252 AGATGATGAT
* *
18879262 AATTTATTAACAAATAAATATTAATTTTTACAATA
1 AATTTATAAACAAATAAATATTAATTATTA-AATA
* *
18879297 AATTTTATAAATAAA-AAATATTAATTATT-ATTA
1 AA-TTTATAAACAAATAAATATTAATTATTAAATA
18879330 AATTTAT
1 AATTTAT
18879337 TTTATTAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
32 5 0.14
33 5 0.14
35 15 0.43
36 10 0.29
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (34 bp):
AATTTATAAACAAATAAATATTAATTATTAAATA
Found at i:18879341 original size:17 final size:17
Alignment explanation
Indices: 18879293--18879359 Score: 59
Period size: 17 Copynumber: 4.0 Consensus size: 17
18879283 TAATTTTTAC
* *
18879293 AATAAATT-TTATAAAT
1 AATAAATTATTATTATT
*
18879309 AA-AAAATATTAATTATT
1 AATAAATTATT-ATTATT
*
18879326 ATTAAATTTATT-TTATT
1 AATAAA-TTATTATTATT
18879343 AATAAATTATTATTATT
1 AATAAATTATTATTATT
18879360 TGATTCATTG
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
15 4 0.10
16 9 0.22
17 20 0.50
18 3 0.08
19 4 0.10
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
AATAAATTATTATTATT
Found at i:18879347 original size:37 final size:36
Alignment explanation
Indices: 18879264--18879349 Score: 95
Period size: 37 Copynumber: 2.4 Consensus size: 36
18879254 ATGATGATAA
*
18879264 TTTATTAACAAATAAATATTAATTTTTACAATAAAT
1 TTTATTAATAAATAAATATTAATTTTTACAATAAAT
* **
18879300 TTTATAAATAAA-AAATATTAATTATTATTA-AATTTAT
1 TTTATTAATAAATAAATATTAA-T-TT-TTACAATAAAT
18879337 TTTATTAATAAAT
1 TTTATTAATAAAT
18879350 TATTATTATT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
35 9 0.22
36 11 0.27
37 18 0.44
38 3 0.07
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (36 bp):
TTTATTAATAAATAAATATTAATTTTTACAATAAAT
Found at i:18880092 original size:18 final size:19
Alignment explanation
Indices: 18880053--18880090 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
18880043 TTATATATTA
* *
18880053 TATTTTAAATTATTAAATT
1 TATTTAAAATTAATAAATT
18880072 TATTTAAAATTAATAAATT
1 TATTTAAAATTAATAAATT
18880091 ATGTATTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TATTTAAAATTAATAAATT
Found at i:18885428 original size:72 final size:69
Alignment explanation
Indices: 18885311--18885449 Score: 208
Period size: 72 Copynumber: 2.0 Consensus size: 69
18885301 ATATGTCATC
* * *
18885311 TCTGTCTGTTGTGTTTATAAGAAAAATAAATACTAATGGAACAATGGAAAATGTGTTTCTCTTTG
1 TCTGTCTGTTATGTTTATAAGAAAAATAAATACTAATGAAACAATGGAAAA---GTCTCTCTTTG
18885376 GAGATAA
63 GAGATAA
18885383 TCTGTCTGTTATGTTTATAAGAAAAATAAATACTAAT-AAAGCAATGGAAAAGTCTCTCTTTGGA
1 TCTGTCTGTTATGTTTATAAGAAAAATAAATACTAATGAAA-CAATGGAAAAGTCTCTCTTTGGA
18885447 GAT
65 GAT
18885450 TGCAGCATTC
Statistics
Matches: 63, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
69 15 0.24
71 2 0.03
72 46 0.73
ACGTcount: A:0.37, C:0.09, G:0.18, T:0.35
Consensus pattern (69 bp):
TCTGTCTGTTATGTTTATAAGAAAAATAAATACTAATGAAACAATGGAAAAGTCTCTCTTTGGAG
ATAA
Found at i:18897463 original size:12 final size:12
Alignment explanation
Indices: 18897446--18897471 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
18897436 TCGTTTAAAA
18897446 AAAATTAAATTT
1 AAAATTAAATTT
18897458 AAAATTAAATTT
1 AAAATTAAATTT
18897470 AA
1 AA
18897472 TTGATTAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
AAAATTAAATTT
Found at i:18897960 original size:16 final size:18
Alignment explanation
Indices: 18897933--18897975 Score: 54
Period size: 16 Copynumber: 2.5 Consensus size: 18
18897923 ATTAATTTTT
*
18897933 TATTTATATATATTTATA
1 TATTTATATATATTTAAA
*
18897951 TAATTATATA-A-TTAAA
1 TATTTATATATATTTAAA
18897967 TATTTATAT
1 TATTTATAT
18897976 TTAAAAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 12 0.55
17 1 0.05
18 9 0.41
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TATTTATATATATTTAAA
Found at i:18897985 original size:18 final size:17
Alignment explanation
Indices: 18897964--18898014 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 17
18897954 TTATATAATT
18897964 AAATATTTATATTTAAAA
1 AAATATTT-TATTTAAAA
18897982 AAATAATATTTATATTAAAA
1 AAAT-AT-TTTAT-TTAAAA
18898002 ATAATATTTTATT
1 A-AATATTTTATT
18898015 AATTTCGAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
18 5 0.17
19 10 0.34
20 11 0.38
21 3 0.10
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
AAATATTTTATTTAAAA
Found at i:18898014 original size:17 final size:18
Alignment explanation
Indices: 18897965--18898016 Score: 70
Period size: 18 Copynumber: 2.8 Consensus size: 18
18897955 TATATAATTA
18897965 AATATTTATATTTAAAAAAAT
1 AATATTTATA-TT--AAAAAT
18897986 AATATTTATATTAAAAAT
1 AATATTTATATTAAAAAT
18898004 AATATTT-TATTAA
1 AATATTTATATTAA
18898017 TTTCGAATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.19
18 13 0.42
20 2 0.06
21 10 0.32
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
AATATTTATATTAAAAAT
Found at i:18898120 original size:26 final size:26
Alignment explanation
Indices: 18898072--18898132 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
18898062 CAGTTCGAGT
* *
18898072 TTAAATATTAAAAAAAATTAAATTAAA
1 TTAAAT-TTAAAAAAAATAAAATCAAA
* *
18898099 TTAAATTTAATAAATATAAAATCAAA
1 TTAAATTTAAAAAAAATAAAATCAAA
*
18898125 TCAAATTT
1 TTAAATTT
18898133 TAAACGAATA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 23 0.79
27 6 0.21
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (26 bp):
TTAAATTTAAAAAAAATAAAATCAAA
Found at i:18915592 original size:8 final size:8
Alignment explanation
Indices: 18915579--18915604 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
18915569 AACCACCAAA
18915579 CAATGTTG
1 CAATGTTG
18915587 CAATGTTG
1 CAATGTTG
18915595 CAATGTTG
1 CAATGTTG
18915603 CA
1 CA
18915605 TTGGGAAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (8 bp):
CAATGTTG
Found at i:18916533 original size:9 final size:9
Alignment explanation
Indices: 18916521--18916567 Score: 51
Period size: 9 Copynumber: 5.0 Consensus size: 9
18916511 TAGATAAATC
18916521 TATTAAAAA
1 TATTAAAAA
18916530 TATTAAATAA
1 TATTAAA-AA
18916540 TATATAAAAA
1 TAT-TAAAAA
18916550 -ATTTAAAAA
1 TA-TTAAAAA
*
18916559 AATTAAAAA
1 TATTAAAAA
18916568 CTGATAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
9 21 0.62
10 9 0.26
11 4 0.12
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (9 bp):
TATTAAAAA
Found at i:18917755 original size:11 final size:11
Alignment explanation
Indices: 18917698--18917763 Score: 51
Period size: 12 Copynumber: 5.5 Consensus size: 11
18917688 CAGTAAAAAT
*
18917698 TTTAAATTTAAA
1 TTTAAATTT-GA
18917710 TTTAAATTTGA
1 TTTAAATTTGA
* *
18917721 TTCAAAATTTATTA
1 TT-TAAA-TT-TGA
18917735 TTTAAAATTTGA
1 TTT-AAATTTGA
*
18917747 TTTAAATTTTA
1 TTTAAATTTGA
18917758 TTTAAA
1 TTTAAA
18917764 ATAAAAATTA
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
11 16 0.36
12 17 0.39
13 4 0.09
14 7 0.16
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (11 bp):
TTTAAATTTGA
Found at i:18917829 original size:41 final size:44
Alignment explanation
Indices: 18917748--18917836 Score: 105
Period size: 43 Copynumber: 2.0 Consensus size: 44
18917738 AAAATTTGAT
* *
18917748 TTAAATTTTATTTAAAATAAAAATTAAATTATTTGAATTTATTCAA
1 TTAAATTTTATTT-AAATAAAAATTAAATTAATT-AATTTATTAAA
18917794 TTAAA-TTTATTT-AATAAAAA-TAAATTTAATT-ATTTATTAAA
1 TTAAATTTTATTTAAATAAAAATTAAA-TTAATTAATTTATTAAA
18917835 TT
1 TT
18917837 TTAAAATGAT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
41 11 0.28
42 4 0.10
43 13 0.32
45 7 0.17
46 5 0.12
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (44 bp):
TTAAATTTTATTTAAATAAAAATTAAATTAATTAATTTATTAAA
Found at i:18917908 original size:8 final size:8
Alignment explanation
Indices: 18917895--18917919 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
18917885 AAAATATATT
18917895 AAATTTTA
1 AAATTTTA
18917903 AAATTTTA
1 AAATTTTA
18917911 AAATTTTA
1 AAATTTTA
18917919 A
1 A
18917920 TTAGATTTAT
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:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
AAATTTTA
Found at i:18918856 original size:32 final size:32
Alignment explanation
Indices: 18918820--18918892 Score: 110
Period size: 32 Copynumber: 2.3 Consensus size: 32
18918810 TAGATCCAAT
*
18918820 AATTTATATATTTATATTATATAAAATATAAA
1 AATTTATATATTTATATTATATAAAATACAAA
***
18918852 AATTTATATATTTATATTATATTTTATACAAA
1 AATTTATATATTTATATTATATAAAATACAAA
18918884 AATTTATAT
1 AATTTATAT
18918893 CGATATAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (32 bp):
AATTTATATATTTATATTATATAAAATACAAA
Found at i:18925644 original size:24 final size:22
Alignment explanation
Indices: 18925617--18925688 Score: 63
Period size: 24 Copynumber: 3.0 Consensus size: 22
18925607 TCTTCAGGTA
18925617 TTTTTTTTTTCATTTTATTTTAT
1 TTTTTTTTTTCATTTTA-TTTAT
** *
18925640 GTTTTCATTTCCATTTTATTTAT
1 -TTTTTTTTTTCATTTTATTTAT
*
18925663 TTTATTTTTTTAATTTTTATATTAT
1 TTT-TTTTTTTCA-TTTTAT-TTAT
18925688 T
1 T
18925689 ATTATTATTA
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
22 3 0.08
23 10 0.26
24 20 0.53
25 5 0.13
ACGTcount: A:0.18, C:0.06, G:0.01, T:0.75
Consensus pattern (22 bp):
TTTTTTTTTTCATTTTATTTAT
Found at i:18925688 original size:3 final size:3
Alignment explanation
Indices: 18925682--18925706 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
18925672 TTAATTTTTA
18925682 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
18925707 TGACTAAGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:18925739 original size:3 final size:3
Alignment explanation
Indices: 18925731--18925760 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
18925721 AAATTAAACA
18925731 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
18925761 TGACTAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:18925761 original size:54 final size:54
Alignment explanation
Indices: 18925682--18925802 Score: 233
Period size: 54 Copynumber: 2.2 Consensus size: 54
18925672 TTAATTTTTA
*
18925682 TATTATTATTATTATTATTATTATTTGACTAAGTATCTTAAATTAAACAATTAT
1 TATTATTATTATTATTATTATTATTTGACTAAATATCTTAAATTAAACAATTAT
18925736 TATTATTATTATTATTATTATTATTTGACTAAATATCTTAAATTAAACAATTAT
1 TATTATTATTATTATTATTATTATTTGACTAAATATCTTAAATTAAACAATTAT
18925790 TATTATTATTATT
1 TATTATTATTATT
18925803 TTTTTATAAA
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
54 66 1.00
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.54
Consensus pattern (54 bp):
TATTATTATTATTATTATTATTATTTGACTAAATATCTTAAATTAAACAATTAT
Found at i:18934654 original size:5 final size:6
Alignment explanation
Indices: 18934639--18934664 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
18934629 CTTTGTTCTA
18934639 AAAAAT AAAAAT AAAAAT AAAAAT AA
1 AAAAAT AAAAAT AAAAAT AAAAAT AA
18934665 TTTCAAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:18934736 original size:17 final size:17
Alignment explanation
Indices: 18934695--18934737 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
18934685 TTAAAAAATC
*
18934695 AATTTTTCTTAAAAATAA
1 AATTTTT-TTAAAAACAA
*
18934713 AA-ATTTTTAAAAACAA
1 AATTTTTTTAAAAACAA
18934729 AATTTTTTT
1 AATTTTTTT
18934738 GAGAAAAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
16 11 0.52
17 8 0.38
18 2 0.10
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.47
Consensus pattern (17 bp):
AATTTTTTTAAAAACAA
Found at i:18934881 original size:58 final size:58
Alignment explanation
Indices: 18934786--18934996 Score: 252
Period size: 58 Copynumber: 3.6 Consensus size: 58
18934776 CTTCAATAAT
*
18934786 AAAAAAGAAGTTTT-AAGAAAACGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTTTC
1 AAAAAATAA-TTTTGAAGAAAA-GTTGAAAGTATCAATTTTTCTTGAAAATAAAATTTTC
18934845 AAAAAATAATTTTAGAAGAAAAGTTGAAAG-ATCAATTTTTCTTGAAAATAAAAATTTT-
1 AAAAAATAATTTT-GAAGAAAAGTTGAAAGTATCAATTTTTCTTGAAAAT-AAAATTTTC
* * *
18934903 AAAAAAT-GTTTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAGATAAAATTTTC
1 AAAAAATAATTTTGAAG-AAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTTTC
* * * *
18934961 AAAAGATATTTTTTG-AGAAAAAATTAAAAGTATCAA
1 AAAAAATA-ATTTTGAAG-AAAAGTTGAAAGTATCAA
18934997 ATTTCTTTGA
Statistics
Matches: 135, Mismatches: 9, Indels: 16
0.84 0.06 0.10
Matches are distributed among these distances:
56 3 0.02
57 24 0.18
58 54 0.40
59 43 0.32
60 11 0.08
ACGTcount: A:0.49, C:0.05, G:0.11, T:0.35
Consensus pattern (58 bp):
AAAAAATAATTTTGAAGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTTTC
Found at i:18935007 original size:59 final size:57
Alignment explanation
Indices: 18934692--18934996 Score: 249
Period size: 58 Copynumber: 5.1 Consensus size: 57
18934682 AAGTTAAAAA
* * *
18934692 ATCAATTTTTCTTAAAAATAAAAATTTTTAAAAACAAAATTTTTTTGAGAAAAAATTG-AAGT
1 ATCAATTTTTCTTGAAAAT-AAAA-TTTT-CAAA-AATA-TTTTTT-AGAAAAAATTGAAAGT
* * * * * * **
18934754 ATCAATTTTT-TTTAAAAAAAAACTTCAATAATAAAAAAGAAGTTTTAAGAAAACGTTGAAAGT
1 ATCAATTTTTCTTGAAAATAAAA-TT---T--TCAAAAA-TATTTTTTAGAAAAAATTGAAAGT
*
18934817 ATCAATTTTTCTTGAAAATAAAATTTTCAAAAA-ATAATTTTAGAAGAAAAGTTGAAAG-
1 ATCAATTTTTCTTGAAAATAAAATTTTCAAAAATAT-TTTTTAGAA-AAAA-TTGAAAGT
* * * *
18934875 ATCAATTTTTCTTGAAAATAAAAATTTTAAAAAATGTTTTTAAGAAAAAGTTGAAAGT
1 ATCAATTTTTCTTGAAAAT-AAAATTTTCAAAAATATTTTTTAGAAAAAATTGAAAGT
* *
18934933 ATCAATTTTTCTTGAAGATAAAATTTTCAAAAGATATTTTTTGAGAAAAAATTAAAAGT
1 ATCAATTTTTCTTGAAAATAAAATTTTCAAAA-ATATTTTTT-AGAAAAAATTGAAAGT
18934992 ATCAA
1 ATCAA
18934997 ATTTCTTTGA
Statistics
Matches: 201, Mismatches: 26, Indels: 35
0.77 0.10 0.13
Matches are distributed among these distances:
56 1 0.00
57 26 0.13
58 55 0.27
59 46 0.23
60 8 0.04
61 6 0.03
62 19 0.09
63 23 0.11
64 16 0.08
65 1 0.00
ACGTcount: A:0.50, C:0.05, G:0.09, T:0.36
Consensus pattern (57 bp):
ATCAATTTTTCTTGAAAATAAAATTTTCAAAAATATTTTTTAGAAAAAATTGAAAGT
Found at i:18940101 original size:21 final size:21
Alignment explanation
Indices: 18940075--18940133 Score: 91
Period size: 21 Copynumber: 2.8 Consensus size: 21
18940065 CTTTAAGAAT
*
18940075 TTTCAAATGAGAATCTTTGAG
1 TTTCAAATGAAAATCTTTGAG
*
18940096 TTTCAAATTAAAATCTTTGAG
1 TTTCAAATGAAAATCTTTGAG
*
18940117 TTTTAAATGAAAATCTT
1 TTTCAAATGAAAATCTT
18940134 GAAAATTTGT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.37, C:0.08, G:0.12, T:0.42
Consensus pattern (21 bp):
TTTCAAATGAAAATCTTTGAG
Found at i:18940384 original size:34 final size:33
Alignment explanation
Indices: 18940346--18940471 Score: 99
Period size: 34 Copynumber: 3.7 Consensus size: 33
18940336 AATCGAAAAA
*
18940346 TCTTGTGAACCTCCAATTTTTGCAAATTTGAAAT
1 TCTTGTGAATCTCCAATTTTTGCAAATTT-AAAT
** ** * *
18940380 TCTTGCAAATCTCTGATTTTTGTAAATATTTAAT
1 TCTTGTGAATCTCCAATTTTTGCAAAT-TTAAAT
* * ** * *
18940414 TTTTATGAATCTAAAATTCTTGTAAAATTTTAAAT
1 TCTTGTGAATCTCCAATTTTTG-CAAA-TTTAAAT
18940449 TCTTGTGAATCTCCAATTTTTGC
1 TCTTGTGAATCTCCAATTTTTGC
18940472 GAATCTCTAA
Statistics
Matches: 66, Mismatches: 23, Indels: 6
0.69 0.24 0.06
Matches are distributed among these distances:
34 38 0.58
35 27 0.41
36 1 0.02
ACGTcount: A:0.30, C:0.13, G:0.10, T:0.47
Consensus pattern (33 bp):
TCTTGTGAATCTCCAATTTTTGCAAATTTAAAT
Found at i:18940475 original size:17 final size:17
Alignment explanation
Indices: 18940455--18940541 Score: 70
Period size: 17 Copynumber: 5.2 Consensus size: 17
18940445 AAATTCTTGT
18940455 GAATCTCCAATTTTTGC
1 GAATCTCCAATTTTTGC
*
18940472 GAATCTCTAATTTTTGC
1 GAATCTCCAATTTTTGC
* * *
18940489 GAA--TCCAAATCTTGT
1 GAATCTCCAATTTTTGC
* *
18940504 GAATCTCTAATTTTTAC
1 GAATCTCCAATTTTTGC
* ** *
18940521 AAATCTGAAATTCTTGC
1 GAATCTCCAATTTTTGC
18940538 GAAT
1 GAAT
18940542 ATTTAATTCT
Statistics
Matches: 52, Mismatches: 16, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
15 11 0.21
17 41 0.79
ACGTcount: A:0.30, C:0.18, G:0.11, T:0.40
Consensus pattern (17 bp):
GAATCTCCAATTTTTGC
Found at i:18940549 original size:34 final size:34
Alignment explanation
Indices: 18940463--18940611 Score: 133
Period size: 34 Copynumber: 4.4 Consensus size: 34
18940453 GTGAATCTCC
* * *
18940463 AATTTTTGCGAATCTCTAATTTTTGCGAATC-CA
1 AATTCTTGCGAATCTCTAATTTTTACGAATCTGA
* *
18940496 AA-TCTTGTGAATCTCTAATTTTTACAAATCTGA
1 AATTCTTGCGAATCTCTAATTTTTACGAATCTGA
* * * * * *
18940529 AATTCTTGCGAATATTTAATTCTTATGAATATAA
1 AATTCTTGCGAATCTCTAATTTTTACGAATCTGA
* * *
18940563 AAATCTTACGAATCT-TCAATTTTTATGAATCTGA
1 AATTCTTGCGAATCTCT-AATTTTTACGAATCTGA
*
18940597 AATTCTTACGAATCT
1 AATTCTTGCGAATCT
18940612 TGAATATTCA
Statistics
Matches: 93, Mismatches: 20, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
32 24 0.26
33 6 0.06
34 63 0.68
ACGTcount: A:0.34, C:0.15, G:0.09, T:0.42
Consensus pattern (34 bp):
AATTCTTGCGAATCTCTAATTTTTACGAATCTGA
Found at i:18940610 original size:17 final size:17
Alignment explanation
Indices: 18940512--18940611 Score: 74
Period size: 17 Copynumber: 5.9 Consensus size: 17
18940502 GTGAATCTCT
* *
18940512 AATTTTTACAAATCTGA
1 AATTCTTACGAATCTGA
* * **
18940529 AATTCTTGCGAATATTT
1 AATTCTTACGAATCTGA
* * *
18940546 AATTCTTATGAATATAA
1 AATTCTTACGAATCTGA
* **
18940563 AAATCTTACGAATCTTC
1 AATTCTTACGAATCTGA
* *
18940580 AATTTTTATGAATCTGA
1 AATTCTTACGAATCTGA
18940597 AATTCTTACGAATCT
1 AATTCTTACGAATCT
18940612 TGAATATTCA
Statistics
Matches: 61, Mismatches: 22, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
17 61 1.00
ACGTcount: A:0.37, C:0.13, G:0.08, T:0.42
Consensus pattern (17 bp):
AATTCTTACGAATCTGA
Found at i:18940727 original size:34 final size:34
Alignment explanation
Indices: 18940689--18940775 Score: 102
Period size: 34 Copynumber: 2.6 Consensus size: 34
18940679 ATGAACAAAA
* *
18940689 AATTCTTACAAATTTAAAAATCTTGCGAATCTTT
1 AATTCTTACAAATCTAAAAATCGTGCGAATCTTT
* * **
18940723 AATTCTTGCGAATCTAAAAATCGTGCGAATCTCC
1 AATTCTTACAAATCTAAAAATCGTGCGAATCTTT
* *
18940757 AATTTTTGCAAATCTAAAA
1 AATTCTTACAAATCTAAAA
18940776 TTTTTGTGAA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 45 1.00
ACGTcount: A:0.38, C:0.17, G:0.09, T:0.36
Consensus pattern (34 bp):
AATTCTTACAAATCTAAAAATCGTGCGAATCTTT
Found at i:18940729 original size:17 final size:17
Alignment explanation
Indices: 18940687--18940821 Score: 83
Period size: 17 Copynumber: 7.9 Consensus size: 17
18940677 TTATGAACAA
* * *
18940687 AAAATTCTTACAAATTT
1 AAAATTCTTGCGAATCT
*
18940704 AAAAATCTTGCGAATCT
1 AAAATTCTTGCGAATCT
**
18940721 TTAATTCTTGCGAATCT
1 AAAATTCTTGCGAATCT
* *
18940738 AAAAATCGTGCGAATCT
1 AAAATTCTTGCGAATCT
** * *
18940755 CCAATTTTTGCAAATCT
1 AAAATTCTTGCGAATCT
* * *
18940772 AAAATTTTTGTGAA-CC
1 AAAATTCTTGCGAATCT
*
18940788 AGAAATTCTTGCAAATCT
1 A-AAATTCTTGCGAATCT
** *
18940806 TTAATTTTTGCGAATC
1 AAAATTCTTGCGAATC
18940822 AGTTTTCTTG
Statistics
Matches: 86, Mismatches: 30, Indels: 4
0.72 0.25 0.03
Matches are distributed among these distances:
16 2 0.02
17 83 0.97
18 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (17 bp):
AAAATTCTTGCGAATCT
Found at i:18940812 original size:51 final size:51
Alignment explanation
Indices: 18940636--18940821 Score: 133
Period size: 51 Copynumber: 3.6 Consensus size: 51
18940626 TTGTTAATTT
* * * * *
18940636 GAAACTCTTGTAAATCTCTAATTTTTGCAAATTTGAAATTTTTATGAACAA
1 GAAATTCTTGCAAATCTCTAATTTTTGCAAATCTAAAATTTTTGTGAACAA
* * * ** * * * ** * *
18940687 AAAATTCTTACAAATTTAAAAATCTTGCGAATCTTTAATTCTTGCGAATCTAA
1 GAAATTCTTGCAAATCTCTAATTTTTGCAAATCTAAAATTTTTGTGAA-C-AA
* * * *
18940740 -AAA-TCGTGCGAATCTCCAATTTTTGCAAATCTAAAATTTTTGTGAACCA
1 GAAATTCTTGCAAATCTCTAATTTTTGCAAATCTAAAATTTTTGTGAACAA
* *
18940789 GAAATTCTTGCAAATCTTTAATTTTTGCGAATC
1 GAAATTCTTGCAAATCTCTAATTTTTGCAAATC
18940822 AGTTTTCTTG
Statistics
Matches: 96, Mismatches: 35, Indels: 8
0.69 0.25 0.06
Matches are distributed among these distances:
49 1 0.01
50 4 0.04
51 85 0.89
52 4 0.04
53 2 0.02
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (51 bp):
GAAATTCTTGCAAATCTCTAATTTTTGCAAATCTAAAATTTTTGTGAACAA
Found at i:18942440 original size:60 final size:61
Alignment explanation
Indices: 18942370--18942625 Score: 242
Period size: 60 Copynumber: 4.3 Consensus size: 61
18942360 AATATGTATA
* * * **
18942370 TTTCATAAGAAAAGTTTTT-AAGGAAAAGTTAAAAGTATCTATTTTTCCTAAAGCTAAAAT
1 TTTCAAAAGAAAATTTTTTGAAGAAAAAGTTAAAAGTATCTATTTTTCCTAAAAATAAAAT
** * * *
18942430 TTTCAAAAGAAGTTTTTTTGAAAAAAAAATTAAAAGTA-CTAATTTTCCTAAAAGATAAAAT
1 TTTCAAAAGAAAATTTTTTGAAGAAAAAGTTAAAAGTATCTATTTTTCCTAAAA-ATAAAAT
* * * *
18942491 TTTCAAAAG-ATATTTTTTGAA-AAAAAGTTGAAAGT-TTTAATTTTTCTTAAAAATAAAAT
1 TTTCAAAAGAAAATTTTTTGAAGAAAAAGTTAAAAGTATCT-ATTTTTCCTAAAAATAAAAT
* * * * * *
18942550 TTTCAAAA-AACA--TTTTAAAGGAAAAGTTAAAAGTATCAATTTTTCTTAAAAATAAAAA
1 TTTCAAAAGAAAATTTTTTGAAGAAAAAGTTAAAAGTATCTATTTTTCCTAAAAATAAAAT
*
18942608 TTTCAAAA-AATATTTTTT
1 TTTCAAAAGAAAATTTTTT
18942626 TTTTGAAGAA
Statistics
Matches: 162, Mismatches: 25, Indels: 18
0.79 0.12 0.09
Matches are distributed among these distances:
57 6 0.04
58 42 0.26
59 31 0.19
60 53 0.33
61 30 0.19
ACGTcount: A:0.48, C:0.06, G:0.08, T:0.38
Consensus pattern (61 bp):
TTTCAAAAGAAAATTTTTTGAAGAAAAAGTTAAAAGTATCTATTTTTCCTAAAAATAAAAT
Found at i:18942616 original size:58 final size:59
Alignment explanation
Indices: 18942392--18942623 Score: 242
Period size: 58 Copynumber: 3.9 Consensus size: 59
18942382 AGTTTTTAAG
* ** *
18942392 GAAAAGTTAAAAGTATCTATTTTTCCTAAAGCTAAAATTTTCAAAAGAAGTTTTTTTGAAA
1 GAAAAGTTAAAAGTATCAATTTTTCCTAAAAATAAAATTTTCAAAAGAA--TATTTTGAAA
* * *
18942453 AAAAAATTAAAAGTA-CTAA-TTTTCCTAAAAGATAAAATTTTCAAAAGATATTTTTTGAAA
1 GAAAAGTTAAAAGTATC-AATTTTTCCTAAAA-ATAAAATTTTCAAAAGA-ATATTTTGAAA
* * * * *
18942513 -AAAAGTTGAAAGTTTTAATTTTTCTTAAAAATAAAATTTTCAAAA-AACATTTT-AAA
1 GAAAAGTTAAAAGTATCAATTTTTCCTAAAAATAAAATTTTCAAAAGAATATTTTGAAA
* *
18942569 GGAAAAGTTAAAAGTATCAATTTTTCTTAAAAATAAAAATTTCAAAA-AATATTTT
1 -GAAAAGTTAAAAGTATCAATTTTTCCTAAAAATAAAATTTTCAAAAGAATATTTT
18942624 TTTTTTGAAG
Statistics
Matches: 147, Mismatches: 17, Indels: 17
0.81 0.09 0.09
Matches are distributed among these distances:
56 3 0.02
57 5 0.03
58 49 0.33
59 28 0.19
60 31 0.21
61 30 0.20
62 1 0.01
ACGTcount: A:0.49, C:0.06, G:0.08, T:0.37
Consensus pattern (59 bp):
GAAAAGTTAAAAGTATCAATTTTTCCTAAAAATAAAATTTTCAAAAGAATATTTTGAAA
Found at i:18957400 original size:11 final size:11
Alignment explanation
Indices: 18957380--18957441 Score: 56
Period size: 12 Copynumber: 5.5 Consensus size: 11
18957370 AATATAAAAT
*
18957380 ATTTTTTTAAA
1 ATTTTATTAAA
18957391 ATTTTATT-AA
1 ATTTTATTAAA
*
18957401 A-TTTATATACA
1 ATTTTAT-TAAA
*
18957412 ATTATTGTTAAA
1 ATT-TTATTAAA
18957424 ATTATTATTAAA
1 ATT-TTATTAAA
18957436 ATTTTA
1 ATTTTA
18957442 AGCTGTAATT
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
9 5 0.12
10 4 0.10
11 12 0.29
12 18 0.43
13 3 0.07
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (11 bp):
ATTTTATTAAA
Found at i:18957428 original size:12 final size:12
Alignment explanation
Indices: 18957386--18957438 Score: 58
Period size: 12 Copynumber: 4.7 Consensus size: 12
18957376 AAATATTTTT
18957386 TTAAAATT-TTA
1 TTAAAATTATTA
*
18957397 TTAAATTTA-TA
1 TTAAAATTATTA
* *
18957408 -TACAATTATTG
1 TTAAAATTATTA
18957419 TTAAAATTATTA
1 TTAAAATTATTA
18957431 TTAAAATT
1 TTAAAATT
18957439 TTAAGCTGTA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
10 6 0.18
11 10 0.30
12 17 0.52
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (12 bp):
TTAAAATTATTA
Found at i:18957525 original size:23 final size:23
Alignment explanation
Indices: 18957474--18957521 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
18957464 TTTTATATCG
**
18957474 TATTACCACATCTATCTATTTTA
1 TATTACCACATCTATCTATAATA
18957497 TATTACCACATCTATCT-TAA-A
1 TATTACCACATCTATCTATAATA
18957518 TATT
1 TATT
18957522 TTACGCATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 5 0.22
22 1 0.04
23 17 0.74
ACGTcount: A:0.33, C:0.21, G:0.00, T:0.46
Consensus pattern (23 bp):
TATTACCACATCTATCTATAATA
Found at i:18961636 original size:27 final size:28
Alignment explanation
Indices: 18961606--18961660 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
18961596 TACAACAAAG
18961606 CATAAAACTCCC-TTTCAAACAACACTA
1 CATAAAACTCCCTTTTCAAACAACACTA
18961633 CATAAAACTCCCTTTTCAAACAACACTA
1 CATAAAACTCCCTTTTCAAACAACACTA
18961661 AAATTATCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 12 0.44
28 15 0.56
ACGTcount: A:0.44, C:0.33, G:0.00, T:0.24
Consensus pattern (28 bp):
CATAAAACTCCCTTTTCAAACAACACTA
Found at i:18964522 original size:212 final size:212
Alignment explanation
Indices: 18964149--18964573 Score: 706
Period size: 212 Copynumber: 2.0 Consensus size: 212
18964139 ATCAAAAGCC
*
18964149 ACCATTCAATAGATACATGTTAATGGTATGATATAATATCATAATTGAGATAAATATGGTAATCC
1 ACCATTCAATAGACACATGTTAATGGTATGATATAATATCATAATTGAGATAAATATGGTAATCC
* * *
18964214 AATTACGACTCAAGAACAAAGAATCCAAACCAATGACAGAAAAGGAAAGCTACCATTTGGCATGC
66 AATAACGACTCAAGAACAAAGAATCCAAAACAATGACAGAAAAGGAAAGCTACCATTTGACATGC
*
18964279 ACGTGTAACAGTACAACAGAACAACGGTTAATTAACTGCGAAGCAAGTAAAGAGGAAAATGAATC
131 ACGTGTAACAGTACAACAGAACAACGGTTAATTAACTGCGAAGCAAGTAAAAAGGAAAATGAATC
*
18964344 TAGAAAACCCTAACACA
196 TAGAAAACACTAACACA
* *
18964361 ACCATTCACTAGGCACATGTTAATGGTATGATATAATATCATAATTGAGATAAATATGGTAATCC
1 ACCATTCAATAGACACATGTTAATGGTATGATATAATATCATAATTGAGATAAATATGGTAATCC
* * * * *
18964426 AATAACTACTCGAGAACGAAGAATCCAAAATAATGACAGACAAGGAAAGCTACCATTTGACATGC
66 AATAACGACTCAAGAACAAAGAATCCAAAACAATGACAGAAAAGGAAAGCTACCATTTGACATGC
* *
18964491 ATGTGTAACAGTACAACAGAACAATGGTTAATTAACTGCGAAGCAAGTAAAAAGGAAAATGAATC
131 ACGTGTAACAGTACAACAGAACAACGGTTAATTAACTGCGAAGCAAGTAAAAAGGAAAATGAATC
*
18964556 TAGATAACACTAACACA
196 TAGAAAACACTAACACA
18964573 A
1 A
18964574 ACTTCAACAC
Statistics
Matches: 197, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
212 197 1.00
ACGTcount: A:0.45, C:0.16, G:0.16, T:0.22
Consensus pattern (212 bp):
ACCATTCAATAGACACATGTTAATGGTATGATATAATATCATAATTGAGATAAATATGGTAATCC
AATAACGACTCAAGAACAAAGAATCCAAAACAATGACAGAAAAGGAAAGCTACCATTTGACATGC
ACGTGTAACAGTACAACAGAACAACGGTTAATTAACTGCGAAGCAAGTAAAAAGGAAAATGAATC
TAGAAAACACTAACACA
Found at i:18966326 original size:26 final size:28
Alignment explanation
Indices: 18966299--18966374 Score: 100
Period size: 28 Copynumber: 2.7 Consensus size: 28
18966289 TATAAATTTA
*
18966299 ATAAAATAAATAAAATATTTTATATAAT
1 ATAATATAAATAAAATATTTTATATAAT
*
18966327 ATAATATAATATATAAT-TTTTATATAAAT
1 ATAATATAA-ATAAAATATTTTATAT-AAT
*
18966356 ATAATATAAATAAATTATT
1 ATAATATAAATAAAATATT
18966375 AATATTTTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
28 21 0.51
29 20 0.49
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (28 bp):
ATAATATAAATAAAATATTTTATATAAT
Found at i:18966332 original size:17 final size:17
Alignment explanation
Indices: 18966307--18966362 Score: 52
Period size: 17 Copynumber: 3.6 Consensus size: 17
18966297 TAATAAAATA
*
18966307 AATAAAATATTTTATAT
1 AATATAATATTTTATAT
18966324 AATATAATA---TA-AT
1 AATATAATATTTTATAT
18966337 -ATATAAT-TTTTATAT
1 AATATAATATTTTATAT
18966352 AAATATAATAT
1 -AATATAATAT
18966363 AAATAAATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 13
0.69 0.02 0.29
Matches are distributed among these distances:
12 7 0.23
13 2 0.06
14 4 0.13
15 2 0.06
17 15 0.48
18 1 0.03
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
AATATAATATTTTATAT
Found at i:18966359 original size:34 final size:35
Alignment explanation
Indices: 18966282--18966386 Score: 113
Period size: 29 Copynumber: 3.3 Consensus size: 35
18966272 TTTTTTAAAA
* *
18966282 ATTTATATATAAATTTAATA-AAATAAA-TA-AAAT
1 ATTT-TATATAAATATAATATAAATAAATTATTAAT
18966315 ATTTTATAT-AATATAATAT-AAT--A-TA-TAAT
1 ATTTTATATAAATATAATATAAATAAATTATTAAT
18966344 -TTTTATATAAATATAATATAAATAAATTATTAAT
1 ATTTTATATAAATATAATATAAATAAATTATTAAT
18966378 ATTTTATAT
1 ATTTTATAT
18966387 GATACAAATT
Statistics
Matches: 62, Mismatches: 2, Indels: 14
0.79 0.03 0.18
Matches are distributed among these distances:
28 8 0.13
29 16 0.26
30 3 0.05
31 11 0.18
32 6 0.10
33 6 0.10
34 4 0.06
35 8 0.13
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (35 bp):
ATTTTATATAAATATAATATAAATAAATTATTAAT
Found at i:18967734 original size:15 final size:16
Alignment explanation
Indices: 18967709--18967741 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
18967699 TTTATGATCA
18967709 AAAAAATAATAAATTG
1 AAAAAATAATAAATTG
18967725 AAAAAA-AATAAATTG
1 AAAAAATAATAAATTG
18967740 AA
1 AA
18967742 CCGAATTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.73, C:0.00, G:0.06, T:0.21
Consensus pattern (16 bp):
AAAAAATAATAAATTG
Found at i:18974121 original size:14 final size:14
Alignment explanation
Indices: 18974098--18974157 Score: 57
Period size: 14 Copynumber: 3.9 Consensus size: 14
18974088 GGAAGGTGGC
*
18974098 ATGGTGAGAAACAT
1 ATGGTAAGAAACAT
18974112 ATGGTAAGAAATACATT
1 ATGGTAAG-AA-ACA-T
18974129 AGTCTGGTAAGAAACAT
1 A---TGGTAAGAAACAT
18974146 ATGGTAAGAAAC
1 ATGGTAAGAAAC
18974158 TAGTCCTAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
14 18 0.46
15 2 0.05
16 3 0.08
17 4 0.10
18 3 0.08
19 2 0.05
20 7 0.18
ACGTcount: A:0.45, C:0.08, G:0.23, T:0.23
Consensus pattern (14 bp):
ATGGTAAGAAACAT
Found at i:18977173 original size:28 final size:28
Alignment explanation
Indices: 18977141--18977194 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
18977131 CTTTGATGAA
18977141 TAGTTAGTGAACTTCTTCATTGCATGCC
1 TAGTTAGTGAACTTCTTCATTGCATGCC
18977169 TAGTTAGTGAACTTCTTCATTGCATG
1 TAGTTAGTGAACTTCTTCATTGCATG
18977195 TCTTCTTCCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (28 bp):
TAGTTAGTGAACTTCTTCATTGCATGCC
Found at i:18979122 original size:19 final size:18
Alignment explanation
Indices: 18979083--18979127 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
18979073 AATATATATA
18979083 AATAAATAAATAATTAATT
1 AATAAA-AAATAATTAATT
**
18979102 AATTAAAAAATAATTTTTT
1 AA-TAAAAAATAATTAATT
18979121 AATAAAA
1 AATAAAA
18979128 TGTCGGGTCG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 5 0.22
19 14 0.61
20 4 0.17
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
AATAAAAAATAATTAATT
Found at i:18986672 original size:32 final size:32
Alignment explanation
Indices: 18986631--18986703 Score: 96
Period size: 31 Copynumber: 2.3 Consensus size: 32
18986621 TGGTTTTAAG
18986631 ATATTTTATTTTA-TCTCAAATATATATAAAAT
1 ATATTTTATTTTACTCTCAAAT-TATATAAAAT
* * *
18986663 ATATTTTA-TTTACTTTTAAATTTTATAAAAT
1 ATATTTTATTTTACTCTCAAATTATATAAAAT
18986694 ATATTTTATT
1 ATATTTTATT
18986704 AATAAAATTA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
31 21 0.58
32 15 0.42
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (32 bp):
ATATTTTATTTTACTCTCAAATTATATAAAAT
Found at i:18986724 original size:27 final size:29
Alignment explanation
Indices: 18986692--18986754 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 29
18986682 ATTTTATAAA
18986692 ATATATTTTA-TTAAT-AAAATTATTATTT
1 ATATATTTTATTTAATAAAAATTA-TATTT
18986720 A-ATATTTTATTTTAATAAAAATTATATTT
1 ATATATTTTA-TTTAATAAAAATTATATTT
18986749 ATATAT
1 ATATAT
18986755 AATTAAAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
27 8 0.26
28 1 0.03
29 11 0.35
30 11 0.35
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (29 bp):
ATATATTTTATTTAATAAAAATTATATTT
Found at i:18986757 original size:22 final size:22
Alignment explanation
Indices: 18986732--18986786 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 22
18986722 TATTTTATTT
18986732 TAATAAAAAT-TATATTTATATA
1 TAATAAAAATATA-ATTTATATA
*
18986754 TAATTAAAATATAATTTATAT-
1 TAATAAAAATATAATTTATATA
18986775 TAA-AAATAATAT
1 TAATAAA-AATAT
18986787 TTTTATGAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
20 2 0.07
21 8 0.28
22 17 0.59
23 2 0.07
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
TAATAAAAATATAATTTATATA
Found at i:18986862 original size:2 final size:2
Alignment explanation
Indices: 18986855--18986879 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
18986845 AAATATGAGT
18986855 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
18986880 GATTGGCTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:18987198 original size:29 final size:31
Alignment explanation
Indices: 18987164--18987222 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
18987154 ATATATTATA
18987164 TTAAT-AAAT-TTATAATTTA-AAATATTTGT
1 TTAATAAAATATTAT-ATTTATAAATATTTGT
*
18987193 TTAATAAAATATTATATTTATATATATTTG
1 TTAATAAAATATTATATTTATAAATATTTG
18987223 AATGTAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 5 0.19
30 9 0.35
31 12 0.46
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (31 bp):
TTAATAAAATATTATATTTATAAATATTTGT
Found at i:18993627 original size:45 final size:45
Alignment explanation
Indices: 18993547--18993634 Score: 124
Period size: 45 Copynumber: 2.0 Consensus size: 45
18993537 AAGCATACAA
* * *
18993547 ACTTACCTATTAAGAATCTATTTCTTCTTAAAATTTTTTTTCTGT
1 ACTTACCTATTAAGAATATATGTCATCTTAAAATTTTTTTTCTGT
*
18993592 ACTTACCTATTAAGAATATCTGTCATC-TAAGAATTTTTTTTCT
1 ACTTACCTATTAAGAATATATGTCATCTTAA-AATTTTTTTTCT
18993635 ACGAGTTTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
44 3 0.08
45 35 0.92
ACGTcount: A:0.28, C:0.16, G:0.06, T:0.50
Consensus pattern (45 bp):
ACTTACCTATTAAGAATATATGTCATCTTAAAATTTTTTTTCTGT
Found at i:19013109 original size:22 final size:22
Alignment explanation
Indices: 19013083--19013140 Score: 68
Period size: 21 Copynumber: 2.7 Consensus size: 22
19013073 TATCCGATCC
19013083 AAAATTAATAAAATATT-TTTTT
1 AAAATT-ATAAAATATTATTTTT
19013105 AAAA-TATAAAATATTATTTTT
1 AAAATTATAAAATATTATTTTT
*
19013126 TAAA-TATAAATATAT
1 AAAATTATAAA-ATAT
19013141 AATTATATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 10 0.30
21 15 0.45
22 8 0.24
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
AAAATTATAAAATATTATTTTT
Found at i:19013115 original size:20 final size:21
Alignment explanation
Indices: 19013090--19013140 Score: 77
Period size: 21 Copynumber: 2.4 Consensus size: 21
19013080 TCCAAAATTA
19013090 ATAAAATATT-TTTTTAAAAT
1 ATAAAATATTATTTTTAAAAT
*
19013110 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTAAAAT
19013131 ATAAATATAT
1 ATAAA-ATAT
19013141 AATTATATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
20 10 0.36
21 14 0.50
22 4 0.14
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
ATAAAATATTATTTTTAAAAT
Found at i:19014812 original size:2 final size:2
Alignment explanation
Indices: 19014805--19014833 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
19014795 ATACCACCGT
19014805 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
19014834 GTACATGCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:19014883 original size:17 final size:15
Alignment explanation
Indices: 19014863--19014893 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
19014853 TCAATATATA
19014863 TTATTA-TAAAAATT
1 TTATTATTAAAAATT
19014877 TTATTATTAAAAATT
1 TTATTATTAAAAATT
19014892 TT
1 TT
19014894 CATCTTCCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TTATTATTAAAAATT
Found at i:19017050 original size:13 final size:12
Alignment explanation
Indices: 19017017--19017051 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
19017007 GTTGATATGT
19017017 ACATATATTTTA
1 ACATATATTTTA
19017029 ACATATATTTTA
1 ACATATATTTTA
*
19017041 AGATTATATTT
1 ACA-TATATTT
19017052 GAGACTAGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 14 0.67
13 7 0.33
ACGTcount: A:0.40, C:0.06, G:0.03, T:0.51
Consensus pattern (12 bp):
ACATATATTTTA
Done.