Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 ID=Chr09-JGI_221_v2.0
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: 70713020
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1142373 characters in sequence are not A, C, G, or T
File 115 of 226
Found at i:39322270 original size:22 final size:22
Alignment explanation
Indices: 39322169--39322264 Score: 122
Period size: 22 Copynumber: 4.3 Consensus size: 22
39322159 GAATACATAA
* *
39322169 ACAGAAACAAGATATATCATAT
1 ACAGATACAAGATATATCAGAT
*
39322191 ACAGTTACAAGATATATCAGAT
1 ACAGATACAAGATATATCAGAT
*
39322213 ACAGTTACAAGATATATCAGAT
1 ACAGATACAAGATATATCAGAT
*
39322235 ATAGATA-AATGATATATCAGAT
1 ACAGATACAA-GATATATCAGAT
39322257 ATCAGATA
1 A-CAGATA
39322265 TAGATACAGA
Statistics
Matches: 66, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
21 2 0.03
22 59 0.89
23 5 0.08
ACGTcount: A:0.49, C:0.11, G:0.12, T:0.27
Consensus pattern (22 bp):
ACAGATACAAGATATATCAGAT
Found at i:39327578 original size:4 final size:4
Alignment explanation
Indices: 39327569--39327616 Score: 51
Period size: 4 Copynumber: 12.0 Consensus size: 4
39327559 ATCTTAATTC
* * * * *
39327569 TTTA TTTA TTCA TTTA TTTA TTTG TTTG CTTA TTTA TATA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
39327617 AAACTTTGTT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.23, C:0.04, G:0.04, T:0.69
Consensus pattern (4 bp):
TTTA
Found at i:39327734 original size:2 final size:2
Alignment explanation
Indices: 39327727--39327754 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
39327717 TATAACTTTA
39327727 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
39327755 GTACATGCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:39327916 original size:26 final size:26
Alignment explanation
Indices: 39327856--39327909 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
39327846 ATCTTAAAAT
*
39327856 ATACATATACTTATATACATTTTATA
1 ATACATATACTTACATACATTTTATA
* *
39327882 ATACATATATTTACATATATTTTATA
1 ATACATATACTTACATACATTTTATA
39327908 AT
1 AT
39327910 TTATATACAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.48
Consensus pattern (26 bp):
ATACATATACTTACATACATTTTATA
Found at i:39329966 original size:9 final size:9
Alignment explanation
Indices: 39329952--39329976 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
39329942 TGCAAATGCT
39329952 ATAATAACA
1 ATAATAACA
39329961 ATAATAACA
1 ATAATAACA
39329970 ATAATAA
1 ATAATAA
39329977 ATACATCATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (9 bp):
ATAATAACA
Found at i:39331944 original size:132 final size:132
Alignment explanation
Indices: 39331707--39332336 Score: 1055
Period size: 132 Copynumber: 4.8 Consensus size: 132
39331697 NNNNNNNNNN
39331707 CAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACCAC
1 CAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACCAC
* * * *
39331772 AGGGAGGTAAAATCCGCCATATTCGATTTGCTCCACTATTGCTTAGGTAGATATGATCTGAAATC
66 AGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGAAATC
39331837 TT
131 TT
* * *
39331839 CAATCTATTCCACTGTTGTCCAAGGAAGTAGAATTACTAGCTTCAATGTACTCCACTGTAACCAC
1 CAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACCAC
* * *
39331904 AGGGAGGTAAAATCCGCCATCTTCGATCTACCCCACTATTGCTTAGGGAGATAATATCTGAAATC
66 AGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGAAATC
39331969 TT
131 TT
* * *
39331971 CAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTATTGGCTTCAATGTACTCCACTATAACCAG
1 CAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACCAC
*
39332036 AAGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACT-TCTGCTTAGGGAGATAAGATCTGAAAT
66 AGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTAT-TGCTTAGGGAGATAAGATCTGAAAT
39332100 CTT
130 CTT
** *
39332103 CAATCTATTCCACTGTTGTCCAGAAAAGTAGAATTACTGGCTTCAATGTACTCTACTATAACCAC
1 CAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACCAC
* * *
39332168 AGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGATTAAGGAGATAAGATCTGAAATC
66 AGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGAAATC
39332233 TT
131 TT
39332235 CAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACCAC
1 CAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACCAC
*
39332300 AGGGAGGTAAAATTCGCCATCTTCGATCTGCTCCACT
66 AGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACT
39332337 GTCAATGCAA
Statistics
Matches: 462, Mismatches: 34, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
131 1 0.00
132 461 1.00
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.29
Consensus pattern (132 bp):
CAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACCAC
AGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGAAATC
TT
Found at i:39331996 original size:44 final size:43
Alignment explanation
Indices: 39331827--39332125 Score: 103
Period size: 44 Copynumber: 6.8 Consensus size: 43
39331817 GGTAGATATG
* * *
39331827 ATCTGAAATCTTCAATCTATTCCACTGTTGTCCAAGGA-AGTAGA
1 ATCTGAAATCTTCAATCTACTCCACTGTTGCCCAGGGAGA-TA-A
* * * ** *
39331871 AT-T-ACTAGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAA
1 ATCTGA-AATCTTCAATCTACTCCACTGTTGCC-CAGGGAGAT-AA
* ** * * * **
39331915 ATCCGCCATCTTCGATCTACCCCACTATTGCTTAGGGAGATAA
1 ATCTGAAATCTTCAATCTACTCCACTGTTGCCCAGGGAGATAA
*
39331958 TATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGA-AGTAGA
1 -ATCTGAAATCTTCAATCTACTCCACTGTTGCCCAGGGAGA-TA-A
* * * ** *
39332003 AT-T--ATTGGCTTCAATGTACTCCACT-ATAACCAGAAGGAGGTAAA
1 ATCTGAAAT--CTTCAATCTACTCCACTGTTGCCCAG--GGAGAT-AA
* ** * * **
39332047 ATCCGCCATCTTCGATCTGCTCCACT-TCTGCTTAGGGAGATAA
1 ATCTGAAATCTTCAATCTACTCCACTGT-TGCCCAGGGAGATAA
* *
39332090 GATCTGAAATCTTCAATCTATTCCACTGTTGTCCAG
1 -ATCTGAAATCTTCAATCTACTCCACTGTTGCCCAG
39332126 AAAAGTAGAA
Statistics
Matches: 175, Mismatches: 59, Indels: 42
0.63 0.21 0.15
Matches are distributed among these distances:
41 2 0.01
42 6 0.03
43 41 0.23
44 87 0.50
45 35 0.20
46 3 0.02
47 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (43 bp):
ATCTGAAATCTTCAATCTACTCCACTGTTGCCCAGGGAGATAA
Found at i:39334225 original size:1 final size:1
Alignment explanation
Indices: 39334215--39334279 Score: 58
Period size: 1 Copynumber: 65.0 Consensus size: 1
39334205 GGCCTCTCCA
* * * * * * * *
39334215 TTTTTCTTTTTTTTTTGTTTTTTTGTTTTTTTTTTGTTTTTTTGTTTTGTTTTGTTTTGTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
39334280 GAATCTGAAC
Statistics
Matches: 48, Mismatches: 16, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 48 1.00
ACGTcount: A:0.00, C:0.02, G:0.11, T:0.88
Consensus pattern (1 bp):
T
Found at i:39334235 original size:10 final size:10
Alignment explanation
Indices: 39334215--39334278 Score: 69
Period size: 10 Copynumber: 6.5 Consensus size: 10
39334205 GGCCTCTCCA
*
39334215 TTTTTCTTTT
1 TTTTTGTTTT
*
39334225 TTTTT-TGTT
1 TTTTTGTTTT
39334234 TTTTTGTTTT
1 TTTTTGTTTT
*
39334244 TTTTT-TGTT
1 TTTTTGTTTT
39334253 TTTTTGTTTT
1 TTTTTGTTTT
*
39334263 GTTTTGTTTT
1 TTTTTGTTTT
39334273 GTTTTT
1 -TTTTT
39334279 TGAATCTGAA
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
9 16 0.36
10 25 0.56
11 4 0.09
ACGTcount: A:0.00, C:0.02, G:0.11, T:0.88
Consensus pattern (10 bp):
TTTTTGTTTT
Found at i:39334237 original size:19 final size:18
Alignment explanation
Indices: 39334215--39334279 Score: 85
Period size: 19 Copynumber: 3.5 Consensus size: 18
39334205 GGCCTCTCCA
*
39334215 TTTTTCTTTTTTTTTTGT
1 TTTTTTTTTTTTTTTTGT
39334233 TTTTTTGTTTTTTTTTTGT
1 TTTTTT-TTTTTTTTTTGT
* *
39334252 TTTTTTGTTTTGTTTTGT
1 TTTTTTTTTTTTTTTTGT
39334270 TTTGTTTTTT
1 TTT-TTTTTT
39334280 GAATCTGAAC
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
18 18 0.44
19 23 0.56
ACGTcount: A:0.00, C:0.02, G:0.11, T:0.88
Consensus pattern (18 bp):
TTTTTTTTTTTTTTTTGT
Found at i:39334243 original size:18 final size:19
Alignment explanation
Indices: 39334215--39334272 Score: 91
Period size: 19 Copynumber: 3.1 Consensus size: 19
39334205 GGCCTCTCCA
*
39334215 TTTTTCTTTTTTTTTTGTT
1 TTTTTGTTTTTTTTTTGTT
39334234 TTTTTGTTTTTTTTTTGTT
1 TTTTTGTTTTTTTTTTGTT
*
39334253 TTTTTG-TTTTGTTTTGTT
1 TTTTTGTTTTTTTTTTGTT
39334271 TT
1 TT
39334273 GTTTTTTGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
18 13 0.35
19 24 0.65
ACGTcount: A:0.00, C:0.02, G:0.10, T:0.88
Consensus pattern (19 bp):
TTTTTGTTTTTTTTTTGTT
Found at i:39338450 original size:98 final size:98
Alignment explanation
Indices: 39338281--39338468 Score: 333
Period size: 98 Copynumber: 1.9 Consensus size: 98
39338271 NNNNNNNNNN
* *
39338281 AGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATTCCTCTAGA
1 AGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCCTCTAAA
39338346 ATCCCAAACTC-AGAATATTTCCTTTTCTTTAAA
66 ATCCCAAACTCGA-AATATTTCCTTTTCTTTAAA
*
39338379 AGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCCTTTAAA
1 AGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCCTCTAAA
39338444 ATCCCAAACTCGAAATATTTCCTTT
66 ATCCCAAACTCGAAATATTTCCTTT
39338469 ATTATTTTAA
Statistics
Matches: 86, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
98 85 0.99
99 1 0.01
ACGTcount: A:0.37, C:0.26, G:0.10, T:0.28
Consensus pattern (98 bp):
AGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCCTCTAAA
ATCCCAAACTCGAAATATTTCCTTTTCTTTAAA
Found at i:39338768 original size:9 final size:9
Alignment explanation
Indices: 39338754--39338778 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
39338744 TGCAAATGCT
39338754 ATAATAACA
1 ATAATAACA
39338763 ATAATAACA
1 ATAATAACA
39338772 ATAATAA
1 ATAATAA
39338779 ATACATCATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (9 bp):
ATAATAACA
Found at i:39339811 original size:23 final size:22
Alignment explanation
Indices: 39339768--39339825 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
39339758 AAAGGGTATC
* *
39339768 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
39339789 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
39339812 TACATATCATATCT
1 TACAAATCATATCT
39339826 AAGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:39341402 original size:2 final size:2
Alignment explanation
Indices: 39341395--39341424 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
39341385 AATAAAGACA
*
39341395 AT AT AT AT AT AC 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
39341425 TGGACCAAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:39345640 original size:100 final size:100
Alignment explanation
Indices: 39345462--39345660 Score: 310
Period size: 100 Copynumber: 2.0 Consensus size: 100
39345452 TATAGTTTGC
* *
39345462 AAGGTTGCAGAAGGATTAAACCATGGAAGCGACTTTTGGGGCTATTTGTTTGATAAGGCTTAATT
1 AAGGTTGCAGAAGGATTAAACCATGGAAGAGAATTTTGGGGCTATTTGTTTGATAAGGCTTAATT
* * *
39345527 GTCATGTGTTTCCTGTGATTAATTTACGATTAAGG
66 GTCAGGTGGTTCCTATGATTAATTTACGATTAAGG
*
39345562 AAGGTT-CTAGAAGGATTAGACCATGGAAGAGAATTTTGGGGCTATTTGTTTGATAAGGCTTAAT
1 AAGGTTGC-AGAAGGATTAAACCATGGAAGAGAATTTTGGGGCTATTTGTTTGATAAGGCTTAAT
* *
39345626 TGTTAGGTGGTTCCTATGGTTAATTTACGATTAAG
65 TGTCAGGTGGTTCCTATGATTAATTTACGATTAAG
39345661 AAAAAATTGG
Statistics
Matches: 90, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
99 1 0.01
100 89 0.99
ACGTcount: A:0.28, C:0.10, G:0.27, T:0.36
Consensus pattern (100 bp):
AAGGTTGCAGAAGGATTAAACCATGGAAGAGAATTTTGGGGCTATTTGTTTGATAAGGCTTAATT
GTCAGGTGGTTCCTATGATTAATTTACGATTAAGG
Found at i:39351370 original size:100 final size:100
Alignment explanation
Indices: 39351197--39351392 Score: 311
Period size: 100 Copynumber: 2.0 Consensus size: 100
39351187 CGCAAAGTTG
* **
39351197 CAGAAGGATTAAACCATGAAAGCGACTTTCGGGGCTATTTGTTTGATAAGATTTAACTGTCAGGT
1 CAGAAGGATTAAACCACGAAAGCGACTTTCGGGGCTATTTGTTTGATAAGACCTAACTGTCAGGT
39351262 GGTTCCTGTGGTTAATTTACGATTAAGGAAGGTTC
66 GGTTCCTGTGGTTAATTTACGATTAAGGAAGGTTC
* * * * * *
39351297 CAGAAGGATTAAACTACGGAAGCGACTTTCGGGGCTATTTGTTTGATAAGGCCTAATTTTTAGGT
1 CAGAAGGATTAAACCACGAAAGCGACTTTCGGGGCTATTTGTTTGATAAGACCTAACTGTCAGGT
39351362 GGTTCCTGTGGTTAATTTACGATTAAGGAAG
66 GGTTCCTGTGGTTAATTTACGATTAAGGAAG
39351393 ATTTGGTCGT
Statistics
Matches: 87, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
100 87 1.00
ACGTcount: A:0.28, C:0.13, G:0.27, T:0.33
Consensus pattern (100 bp):
CAGAAGGATTAAACCACGAAAGCGACTTTCGGGGCTATTTGTTTGATAAGACCTAACTGTCAGGT
GGTTCCTGTGGTTAATTTACGATTAAGGAAGGTTC
Found at i:39359196 original size:12 final size:11
Alignment explanation
Indices: 39359165--39359203 Score: 51
Period size: 12 Copynumber: 3.3 Consensus size: 11
39359155 TTTAGCCATT
39359165 TTTATTTTTTA
1 TTTATTTTTTA
39359176 TTATGATTTTTTA
1 TT-T-ATTTTTTA
39359189 GTTTATTTTTTA
1 -TTTATTTTTTA
39359201 TTT
1 TTT
39359204 GCTTCTGGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 5 0.20
12 9 0.36
13 9 0.36
14 2 0.08
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.77
Consensus pattern (11 bp):
TTTATTTTTTA
Found at i:39365643 original size:13 final size:13
Alignment explanation
Indices: 39365627--39365680 Score: 51
Period size: 13 Copynumber: 4.2 Consensus size: 13
39365617 CTTTTACCCT
39365627 TTTCTTTATTTTA
1 TTTCTTTATTTTA
*
39365640 TTTCTTTATTTAA
1 TTTCTTTATTTTA
39365653 TGTTC-TTATTTGT-
1 T-TTCTTTATTT-TA
*
39365666 TAT-TTTATTTTA
1 TTTCTTTATTTTA
39365678 TTT
1 TTT
39365681 ATTTTCATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 9
0.72 0.09 0.20
Matches are distributed among these distances:
11 1 0.03
12 9 0.27
13 20 0.61
14 3 0.09
ACGTcount: A:0.17, C:0.06, G:0.04, T:0.74
Consensus pattern (13 bp):
TTTCTTTATTTTA
Found at i:39367415 original size:11 final size:11
Alignment explanation
Indices: 39367389--39367426 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
39367379 AGTTTATTTG
39367389 TTTTCTTTTTA
1 TTTTCTTTTTA
39367400 GTTTTCTTTTTA
1 -TTTTCTTTTTA
*
39367412 TTTTATTTTTA
1 TTTTCTTTTTA
39367423 TTTT
1 TTTT
39367427 AATTTTAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
11 14 0.56
12 11 0.44
ACGTcount: A:0.11, C:0.05, G:0.03, T:0.82
Consensus pattern (11 bp):
TTTTCTTTTTA
Found at i:39367420 original size:23 final size:24
Alignment explanation
Indices: 39367389--39367450 Score: 65
Period size: 23 Copynumber: 2.6 Consensus size: 24
39367379 AGTTTATTTG
* * *
39367389 TTTTCTTTTTAGTTTT-CTTTTTA
1 TTTTATTTTTAGTTTTAATTTTAA
39367412 TTTTATTTTTA-TTTTAATTTTAA
1 TTTTATTTTTAGTTTTAATTTTAA
*
39367435 TTTTATGTTTATGTTT
1 TTTTATTTTTA-GTTT
39367451 AGTTTTAGCC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
22 4 0.12
23 25 0.78
25 3 0.09
ACGTcount: A:0.16, C:0.03, G:0.05, T:0.76
Consensus pattern (24 bp):
TTTTATTTTTAGTTTTAATTTTAA
Found at i:39367427 original size:11 final size:11
Alignment explanation
Indices: 39367389--39367457 Score: 66
Period size: 12 Copynumber: 6.0 Consensus size: 11
39367379 AGTTTATTTG
*
39367389 TTTTCTTTTTA
1 TTTTATTTTTA
*
39367400 GTTTTCTTTTTA
1 -TTTTATTTTTA
39367412 TTTTATTTTTA
1 TTTTATTTTTA
*
39367423 TTTTAATTTTAA
1 TTTT-ATTTTTA
*
39367435 TTTTATGTTTA
1 TTTTATTTTTA
*
39367446 TGTTTAGTTTTA
1 T-TTTATTTTTA
39367458 GCCTTGTTAT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
11 20 0.41
12 29 0.59
ACGTcount: A:0.17, C:0.03, G:0.06, T:0.74
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:39367445 original size:12 final size:11
Alignment explanation
Indices: 39367407--39367457 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
39367397 TTAGTTTTCT
*
39367407 TTTTATTTTAT
1 TTTTATTTTAA
39367418 TTTTATTTTAA
1 TTTTATTTTAA
39367429 TTTTAATTTT-A
1 TTTT-ATTTTAA
*
39367440 TGTTTATGTTTAG
1 T-TTTAT-TTTAA
39367453 TTTTA
1 TTTTA
39367458 GCCTTGTTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
11 18 0.53
12 15 0.44
13 1 0.03
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.73
Consensus pattern (11 bp):
TTTTATTTTAA
Found at i:39369786 original size:3 final size:3
Alignment explanation
Indices: 39369771--39369841 Score: 115
Period size: 3 Copynumber: 23.7 Consensus size: 3
39369761 GAAATAAAAA
* * *
39369771 TAC TAC TAT TAC TAC TAC TAC TAC TAC TAC TAC TAC AAT TAC TAC TAC
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC
39369819 TAC TAC TAC TAC TAC TAC TAC TA
1 TAC TAC TAC TAC TAC TAC TAC TA
39369842 ATAATAATAA
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.35, C:0.30, G:0.00, T:0.35
Consensus pattern (3 bp):
TAC
Found at i:39369900 original size:3 final size:3
Alignment explanation
Indices: 39369840--39369885 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
39369830 CTACTACTAC
39369840 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
39369886 GGTAGTAGTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:39373707 original size:16 final size:16
Alignment explanation
Indices: 39373686--39373731 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
39373676 TTATTAAATT
39373686 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
39373702 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
39373717 AT-TATGTTTAATTAT
1 ATATAT-TTTAATTAT
39373732 GATTAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
14 2 0.08
15 11 0.42
16 13 0.50
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:39373736 original size:16 final size:15
Alignment explanation
Indices: 39373677--39373736 Score: 52
Period size: 16 Copynumber: 4.0 Consensus size: 15
39373667 TTAAGAATTT
*
39373677 TATTAAATTATA-TA
1 TATTTAATTATATTA
*
39373691 T-TTTAATTATAATA
1 TATTTAATTATATTA
*
39373705 TATTTAATAATAATTA
1 TATTTAATTAT-ATTA
*
39373721 TGTTTAATTATGATTA
1 TATTTAATTAT-ATTA
39373737 AATTATTTAT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
13 9 0.24
14 4 0.11
15 8 0.22
16 16 0.43
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (15 bp):
TATTTAATTATATTA
Found at i:39373898 original size:39 final size:39
Alignment explanation
Indices: 39373855--39373958 Score: 145
Period size: 44 Copynumber: 2.5 Consensus size: 39
39373845 TTCCATTATG
**
39373855 CTATTACATCTCTATTCCATTCAACCAAACATAAGAATA
1 CTATTACGCCTCTATTCCATTCAACCAAACATAAGAATA
39373894 CTATTACGCCTCTATTCCATTACATTCAACCAAACATAAGAATA
1 CTATTACGCCTCTATT-C----CATTCAACCAAACATAAGAATA
39373938 CTATTACGCCTCTATTCCATT
1 CTATTACGCCTCTATTCCATT
39373959 ACATTCAACC
Statistics
Matches: 58, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
39 18 0.31
40 1 0.02
43 1 0.02
44 38 0.66
ACGTcount: A:0.36, C:0.28, G:0.04, T:0.33
Consensus pattern (39 bp):
CTATTACGCCTCTATTCCATTCAACCAAACATAAGAATA
Found at i:39374002 original size:45 final size:44
Alignment explanation
Indices: 39373872--39374005 Score: 216
Period size: 44 Copynumber: 3.0 Consensus size: 44
39373862 ATCTCTATTC
39373872 CATTCAACCAAACATAAGAATACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACATAAGAATACTATTACGCCTCTATTCCATTA
39373916 CATTCAACCAAACATAAGAATACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACATAAGAATACTATTACGCCTCTATTCCATTA
* * *
39373960 CATTCAACCAAACA-ATTGATTTGCTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACATA-AGA-ATACTATTACGCCTCTATTCCATTA
39374005 C
1 C
39374006 GCCTCTATTG
Statistics
Matches: 85, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
43 1 0.01
44 60 0.71
45 24 0.28
ACGTcount: A:0.36, C:0.28, G:0.05, T:0.31
Consensus pattern (44 bp):
CATTCAACCAAACATAAGAATACTATTACGCCTCTATTCCATTA
Found at i:39382583 original size:21 final size:21
Alignment explanation
Indices: 39382558--39382608 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 21
39382548 ATTCATTCTG
39382558 ATTTAATTAGTAAATATATA-T
1 ATTTAATTA-TAAATATATATT
39382579 ATTTAGAAATTATAAATATATATT
1 ATTT---AATTATAAATATATATT
39382603 ATTTAA
1 ATTTAA
39382609 AAAATTTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
21 6 0.23
23 10 0.38
24 10 0.38
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (21 bp):
ATTTAATTATAAATATATATT
Found at i:39382595 original size:23 final size:25
Alignment explanation
Indices: 39382562--39382607 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
39382552 ATTCTGATTT
39382562 AATTAGTAAATATATA-TATTTAGA
1 AATTAGTAAATATATATTATTTAGA
39382586 AATTA-TAAATATATATTATTTA
1 AATTAGTAAATATATATTATTTA
39382608 AAAAATTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (25 bp):
AATTAGTAAATATATATTATTTAGA
Found at i:39384279 original size:12 final size:12
Alignment explanation
Indices: 39384262--39384304 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
39384252 ATCTTTGTTA
*
39384262 TTTTATCATTAT
1 TTTTATTATTAT
*
39384274 TTTTATTATTAG
1 TTTTATTATTAT
*
39384286 TTCTATTATTAT
1 TTTTATTATTAT
*
39384298 TTATATT
1 TTTTATT
39384305 TATAATAATA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (12 bp):
TTTTATTATTAT
Found at i:39384368 original size:3 final size:3
Alignment explanation
Indices: 39384362--39384450 Score: 72
Period size: 3 Copynumber: 29.3 Consensus size: 3
39384352 TTGATTACTT
* * * *
39384362 TTA TTA TTA TTA TTT TTG TTA TTA TTA ATA TTA TTA TTA GTA TTA CTT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
* * * * *
39384410 TTA TTA TTA ATA TTA TCA CTA CTA TCA TTA TTA TTTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA T
39384451 ATTCCTATAT
Statistics
Matches: 68, Mismatches: 15, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
2 2 0.03
3 61 0.90
4 5 0.07
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:39384444 original size:30 final size:30
Alignment explanation
Indices: 39384380--39384453 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 30
39384370 ATTATTTTTG
* * * *
39384380 TTATTATTAATATTATTATTAGTATTACTT
1 TTATTATTAATATTATCACTACTATCACTT
39384410 TTATTATTAATATTATCACTACTATCA-TT
1 TTATTATTAATATTATCACTACTATCACTT
39384439 ATTATTTATT-ATATT
1 -TTA-TTATTAATATT
39384454 CCTATATTCA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
29 2 0.05
30 31 0.82
31 5 0.13
ACGTcount: A:0.34, C:0.07, G:0.01, T:0.58
Consensus pattern (30 bp):
TTATTATTAATATTATCACTACTATCACTT
Found at i:39384864 original size:24 final size:23
Alignment explanation
Indices: 39384816--39384869 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
39384806 TTGTTGTTCG
*
39384816 TATTAATTATGTTTACATTATCA
1 TATTAATTATGTTTACATTAGCA
*
39384839 TATTCATTATTGTTT-CATTAAGCA
1 TATTAATTA-TGTTTACATT-AGCA
39384863 TATTAAT
1 TATTAAT
39384870 ACCGCGATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
23 12 0.46
24 14 0.54
ACGTcount: A:0.33, C:0.09, G:0.06, T:0.52
Consensus pattern (23 bp):
TATTAATTATGTTTACATTAGCA
Found at i:39388150 original size:11 final size:11
Alignment explanation
Indices: 39388131--39388193 Score: 54
Period size: 11 Copynumber: 5.6 Consensus size: 11
39388121 CAGTACAGTG
39388131 AAAAAAAAAAC
1 AAAAAAAAAAC
*
39388142 AAAACAAAAAC
1 AAAAAAAAAAC
***
39388153 AAAAAAACCCC
1 AAAAAAAAAAC
* * *
39388164 CAAAAAATAAG
1 AAAAAAAAAAC
39388175 AAAATAAAAAAC
1 AAAA-AAAAAAC
39388187 AAAAAAA
1 AAAAAAA
39388194 CTCTACTGGG
Statistics
Matches: 38, Mismatches: 13, Indels: 2
0.72 0.25 0.04
Matches are distributed among these distances:
11 29 0.76
12 9 0.24
ACGTcount: A:0.81, C:0.14, G:0.02, T:0.03
Consensus pattern (11 bp):
AAAAAAAAAAC
Found at i:39388642 original size:5 final size:5
Alignment explanation
Indices: 39388624--39388673 Score: 59
Period size: 5 Copynumber: 10.0 Consensus size: 5
39388614 TACTTCACTT
*
39388624 GAAAA -AAAA TGAAAA GAAAAA GAAAA GAAAA GAAGA -AAAA GAAAA GAAAA
1 GAAAA GAAAA -GAAAA G-AAAA GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA
39388674 AGGAGAGGCC
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
4 7 0.18
5 23 0.59
6 9 0.23
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (5 bp):
GAAAA
Found at i:39388644 original size:6 final size:6
Alignment explanation
Indices: 39388635--39388675 Score: 50
Period size: 6 Copynumber: 6.8 Consensus size: 6
39388625 AAAAAAAATG
39388635 AAAAGA AAAAG- AAAAGAA AAGAAGA AAAAG- AAAAGA AAAAG
1 AAAAGA AAAAGA AAAAG-A AA-AAGA AAAAGA AAAAGA AAAAG
39388676 GAGAGGCCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
5 10 0.32
6 13 0.42
7 5 0.16
8 3 0.10
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:39388648 original size:11 final size:11
Alignment explanation
Indices: 39388624--39388675 Score: 67
Period size: 11 Copynumber: 5.1 Consensus size: 11
39388614 TACTTCACTT
*
39388624 GAAAA-AAAAT
1 GAAAAGAAAAA
39388634 GAAAAGAAAAA
1 GAAAAGAAAAA
39388645 GAAAAG-AAAA
1 GAAAAGAAAAA
39388655 G--AAGAAAAA
1 GAAAAGAAAAA
39388664 GAAAAGAAAAA
1 GAAAAGAAAAA
39388675 G
1 G
39388676 GAGAGGCCAA
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
8 3 0.08
9 5 0.14
10 10 0.27
11 19 0.51
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (11 bp):
GAAAAGAAAAA
Found at i:39388649 original size:19 final size:19
Alignment explanation
Indices: 39388637--39388673 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
39388627 AAAAAATGAA
39388637 AAGAAAAAGAAAAGAAAAG
1 AAGAAAAAGAAAAGAAAAG
39388656 AAGAAAAAGAAAAGAAAA
1 AAGAAAAAGAAAAGAAAA
39388674 AGGAGAGGCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (19 bp):
AAGAAAAAGAAAAGAAAAG
Found at i:39389653 original size:44 final size:44
Alignment explanation
Indices: 39389587--39390165 Score: 190
Period size: 44 Copynumber: 13.3 Consensus size: 44
39389577 CATATAAAGC
** * *
39389587 CTTATCTCCCTGAGCAACAGTGGAGTAGGTCGAAGATTGCAGAT
1 CTTATCTCCCTGAGCAGTAGTGGAGCAGATCGAAGATTGCAGAT
* * **
39389631 CTTATCTCCCTAAGCAGTAGTGGAGCATATCGAAGACAGC-GAAT
1 CTTATCTCCCTGAGCAGTAGTGGAGCAGATCGAAGATTGCAG-AT
* * * ** ****
39389675 CTTATCTTCCTAAG--GTAGTAGGAAGCAAATTTAAGCCACCAG-T
1 CTTATCTCCCTGAGCAGTAGT-GG-AGCAGATCGAAGATTGCAGAT
* * * * ** *
39389718 CCTATCTCCCTGAGCAGCAGTGGAGTAGGTTAAAGATTGTAGAT
1 CTTATCTCCCTGAGCAGTAGTGGAGCAGATCGAAGATTGCAGAT
* ** * *
39389762 CTTATCTCCCTGGGCAGTAGTGGAGCAGATCGAAGACGGTAAAT
1 CTTATCTCCCTGAGCAGTAGTGGAGCAGATCGAAGATTGCAGAT
* * * * ** ****
39389806 CTTGTCT-TCTCGAG-ATGGTAG-GAAGAAGATTTAAGCCACCAG-T
1 CTTATCTCCCT-GAGCA--GTAGTGGAGCAGATCGAAGATTGCAGAT
* * * * * * *
39389849 CCTATCTCCTTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGAT
1 CTTATCTCCCTGAGCAGTAGTGGAGCAGATCGAAGATTGCAGAT
* * *
39389893 CTTATCTCCCTAAGCAGTAGTGGAGCAGAACGAAGATGGC-GAAT
1 CTTATCTCCCTGAGCAGTAGTGGAGCAGATCGAAGATTGCAG-AT
* ** ****
39389937 CTTGTCTTCCC-GAG-A-TAGTAGGAAGCAGATTTAAGCCACCAG-T
1 CTTATC-TCCCTGAGCAGTAGT-GG-AGCAGATCGAAGATTGCAGAT
* * * * * * *
39389980 CCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGTT
1 CTTATCTCCCTGAGCAGTAGTGGAGCAGATCGAAGATTGCAGAT
* **
39390024 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGC-GAAT
1 CTTATCTCCCTGAGCAGTAGTGGAGCAGATCGAAGATTGCAG-AT
* * * * *
39390068 CTTATCTTCCC-AAGGTAGTAG-GGAAGCAGATCG--CA-TCCAG-C
1 CTTATC-TCCCTGA-GCAGTAGTGG-AGCAGATCGAAGATTGCAGAT
* * * ** *
39390109 CTTATCTCCCTGAGCAGCAGTGGAGTAGGTTAAAGATTACAGAT
1 CTTATCTCCCTGAGCAGTAGTGGAGCAGATCGAAGATTGCAGAT
*
39390153 CTTATCTCTCTGA
1 CTTATCTCCCTGA
39390166 AGTTACAGTA
Statistics
Matches: 382, Mismatches: 119, Indels: 68
0.67 0.21 0.12
Matches are distributed among these distances:
40 14 0.04
41 9 0.02
42 18 0.05
43 79 0.21
44 226 0.59
45 36 0.09
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.26
Consensus pattern (44 bp):
CTTATCTCCCTGAGCAGTAGTGGAGCAGATCGAAGATTGCAGAT
Found at i:39389827 original size:131 final size:131
Alignment explanation
Indices: 39389589--39390160 Score: 805
Period size: 131 Copynumber: 4.4 Consensus size: 131
39389579 TATAAAGCCT
* * *
39389589 TATCTCCCTGAGCAACAGTGGAGTAGGTCGAAGATTGCAGATCTTATCTCCCTAAGCAGTAGTGG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGG
* * * *
39389654 AGCATATCGAAGACAGCGAATCTTATCTTCCTAAGGTAGTAGGAAGCAAATTTAAGCCACCAGTC
66 AGCAGATCGAAGACGGCGAATCTTATCTTCCCAAGATAGTAGGAAGCAAATTTAAGCCACCAGTC
39389719 C
131 C
* **
39389720 TATCTCCCTGAGCAGCAGTGGAGTAGGTTAAAGATTGTAGATCTTATCTCCCTGGGCAGTAGTGG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGG
** * * * *
39389785 AGCAGATCGAAGACGGTAAATCTTGTCTTCTCGAGATGGTAGGAAG-AAGATTTAAGCCACCAGT
66 AGCAGATCGAAGACGGCGAATCTTATCTTCCCAAGATAGTAGGAAGCAA-ATTTAAGCCACCAGT
39389849 CC
130 CC
*
39389851 TATCTCCTTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGG
* * * * *
39389916 AGCAGAACGAAGATGGCGAATCTTGTCTTCCCGAGATAGTAGGAAGCAGATTTAAGCCACCAGTC
66 AGCAGATCGAAGACGGCGAATCTTATCTTCCCAAGATAGTAGGAAGCAAATTTAAGCCACCAGTC
39389981 C
131 C
*
39389982 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGTTCTTATCTCCCTAAGCAGTAGTGG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGG
* * *
39390047 AGCAGATCGAAGACGGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGA--T-CG-CATCCAG
66 AGCAGATCGAAGACGGCGAATCTTATCTTCCCAAGATAGTA-GGAAGCAAATTTAAGCCA-CCAG
39390108 -CC
129 TCC
* **
39390110 TTATCTCCCTGAGCAGCAGTGGAGTAGGTTAAAGATTACAGATCTTATCTC
1 -TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTC
39390161 TCTGAAGTTA
Statistics
Matches: 397, Mismatches: 39, Indels: 12
0.89 0.09 0.03
Matches are distributed among these distances:
128 4 0.01
129 51 0.13
130 3 0.01
131 329 0.83
132 10 0.03
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.26
Consensus pattern (131 bp):
TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGG
AGCAGATCGAAGACGGCGAATCTTATCTTCCCAAGATAGTAGGAAGCAAATTTAAGCCACCAGTC
C
Found at i:39390242 original size:129 final size:128
Alignment explanation
Indices: 39390109--39390433 Score: 375
Period size: 129 Copynumber: 2.5 Consensus size: 128
39390099 CGCATCCAGC
**
39390109 CTTATCTCCCTGAGCAGCAGTGGAGTAGG-TTAAAGATTACAGATCTTATCTCTCTGAAGTTACA
1 CTTATCTCCCTGAGCAGCAGTGGAGT-GGATTAAA-ACCACAGATCTTATCTCTCTGAAGTTACA
* *
39390173 GTAGAGCATATCACATCCAGTCTTATCTCCCTGAAGTTGCAATGGAGTAGACAAAAGAAACCAAT
64 GTAAAGCAGATCACATCCAGTCTTATCTCCCTGAAGTTGCAATGGAGTAGACAAAAGAAACCAAT
* ** * **
39390238 CTTATCTCCCTAAAGTTGCAGTGGAGTGGATTAAAACCACAGATCTTATTTCTCTGAAGTTGTAG
1 CTTATCTCCCT-GAGCAGCAGTGGAGTGGATTAAAACCACAGATCTTATCTCTCTGAAGTTACAG
* * * * **
39390303 TAAAGCAGATCGCATCCAGTCTTATCTTCTTGAAGTTGCAGTGGAGTAGACAAAAGAATTCAAT
65 TAAAGCAGATCACATCCAGTCTTATCTCCCTGAAGTTGCAATGGAGTAGACAAAAGAAACCAAT
* * ** * * * *
39390367 CCTATCTTCCTGAAGTTGTAGTGGAGCGGATTAAAACCACAAATCTTATAC-CTCTGAAGTTGCA
1 CTTATCTCCCTG-AGCAGCAGTGGAGTGGATTAAAACCACAGATCTTAT-CTCTCTGAAGTTACA
39390431 GTA
64 GTA
39390434 GGTCAGATTA
Statistics
Matches: 168, Mismatches: 24, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
129 151 0.90
130 17 0.10
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (128 bp):
CTTATCTCCCTGAGCAGCAGTGGAGTGGATTAAAACCACAGATCTTATCTCTCTGAAGTTACAGT
AAAGCAGATCACATCCAGTCTTATCTCCCTGAAGTTGCAATGGAGTAGACAAAAGAAACCAAT
Found at i:39390298 original size:44 final size:43
Alignment explanation
Indices: 39390147--39390432 Score: 120
Period size: 44 Copynumber: 6.7 Consensus size: 43
39390137 GTTAAAGATT
* * * * * * *
39390147 ACAGATCTTATCTCTCTGAAGTTACAGTAGAGCATATCACATC
1 ACAGATCTTATTTCTCTGAAGTTGCAGTGGAGCAGATAAAACC
* * * * * **
39390190 -CAG-TCTTATCTCCCTGAAGTTGCAATGGAGTAGACAAAAGAA
1 ACAGATCTTATTTCTCTGAAGTTGCAGTGGAGCAGATAAAA-CC
* * * **
39390232 ACCA-ATCTTATCTCCCTAAAGTTGCAGTGGAGTGGATTAAAACC
1 A-CAGATCTTATTTCTCTGAAGTTGCAGTGGAGCAGA-TAAAACC
* ** *** *
39390276 ACAGATCTTATTTCTCTGAAGTTGTAGTAAAGCAGATCGCATC
1 ACAGATCTTATTTCTCTGAAGTTGCAGTGGAGCAGATAAAACC
* * **
39390319 -CAG-TCTTATCTTCT-TGAAGTTGCAGTGGAGTAGACAAAAGA
1 ACAGATCTTAT-TTCTCTGAAGTTGCAGTGGAGCAGATAAAACC
* * *
39390360 ATTCA-ATCCTATCTTC-CTGAAGTTGTAGTGGAGCGGATTAAAACC
1 A--CAGATCTTAT-TTCTCTGAAGTTGCAGTGGAGCAGA-TAAAACC
* **
39390405 ACAAATCTTATACCTCTGAAGTTGCAGT
1 ACAGATCTTATTTCTCTGAAGTTGCAGT
39390433 AGGTCAGATT
Statistics
Matches: 178, Mismatches: 50, Indels: 29
0.69 0.19 0.11
Matches are distributed among these distances:
41 50 0.28
42 10 0.06
43 8 0.04
44 101 0.57
45 9 0.05
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (43 bp):
ACAGATCTTATTTCTCTGAAGTTGCAGTGGAGCAGATAAAACC
Found at i:39391983 original size:25 final size:24
Alignment explanation
Indices: 39391955--39392023 Score: 63
Period size: 23 Copynumber: 2.9 Consensus size: 24
39391945 TATTATTTAT
39391955 TATTATTTATCTTATTATATGTAAA
1 TATTATTTATCTTATTATATG-AAA
* * *
39391980 TATTCATTTGT-TTA-AATTTGAAA
1 TATT-ATTTATCTTATTATATGAAA
*
39392003 TA-TATTTATCTTATTGTATGA
1 TATTATTTATCTTATTATATGA
39392024 CTGATTATTA
Statistics
Matches: 34, Mismatches: 7, Indels: 8
0.69 0.14 0.16
Matches are distributed among these distances:
21 5 0.15
22 4 0.12
23 9 0.26
24 4 0.12
25 7 0.21
26 5 0.15
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.55
Consensus pattern (24 bp):
TATTATTTATCTTATTATATGAAA
Found at i:39393522 original size:11 final size:11
Alignment explanation
Indices: 39393506--39393535 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
39393496 TTATAGGCAT
39393506 AAGAAGTATAA
1 AAGAAGTATAA
39393517 AAGAAGTATAA
1 AAGAAGTATAA
39393528 AAGAAGTA
1 AAGAAGTA
39393536 GAGATCTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.63, C:0.00, G:0.20, T:0.17
Consensus pattern (11 bp):
AAGAAGTATAA
Found at i:39410086 original size:64 final size:64
Alignment explanation
Indices: 39410017--39410139 Score: 169
Period size: 65 Copynumber: 1.9 Consensus size: 64
39410007 TTTTTTGAAT
* * *
39410017 CAAGAAAA-TAAACATA-TTTAAAATAACATAAAAATGCCAAAATAACACCAACTTATTCTTTAT
1 CAAGAAAACAAAACATACTTAAAAACAACAT-AAAATGCCAAAATAACACCAACTT-TTCTTTAT
39410080 G
64 G
* *
39410081 CAAGAAAACAAAACATACTTAAAAACAACATAAAATGCTAAAATAACACCAGCTTTTCT
1 CAAGAAAACAAAACATACTTAAAAACAACATAAAATGCCAAAATAACACCAACTTTTCT
39410140 AATGATTCTC
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
64 12 0.23
65 29 0.56
66 11 0.21
ACGTcount: A:0.54, C:0.18, G:0.05, T:0.24
Consensus pattern (64 bp):
CAAGAAAACAAAACATACTTAAAAACAACATAAAATGCCAAAATAACACCAACTTTTCTTTATG
Found at i:39419856 original size:129 final size:129
Alignment explanation
Indices: 39419667--39419915 Score: 311
Period size: 129 Copynumber: 1.9 Consensus size: 129
39419657 TACAGTCTTC
* * * *
39419667 GCTTTCGTGTTCTTTCAGTTCAACTAAAATGGGTTTGTCTATTTTTACTTTTTTTGTACTATTTG
1 GCTTTCGTGTCCTTTCAGTTCAACTAAAATGGGTTTATCTATTTTTACGTTTCTTGTACTATTTG
* * * * *
39419732 ATTATTATTGATTGCCCCTTTTGTTGATTTTGCTGTTATTAGCTCTTTGCAAATTACAATATTT
66 ATTATTATTGACTACCCCTTTTGTTGATTTTACTGTTATTAGCTATTGGCAAATTACAATATTT
* * * * *
39419796 GCTTTTGTGTCCTTTCAGTTCAAATTTAAATTGGTTTATCTGTTTTTA-GTTTCTTGTACTATTT
1 GCTTTCGTGTCCTTTCAGTTC-AACTAAAATGGGTTTATCTATTTTTACGTTTCTTGTACTATTT
* ** * *
39419860 GATTCTTATTGACTACTTCTTTTGTTGATTTTACTGTTCTTTGCTATTGGCAAATT
65 GATTATTATTGACTACCCCTTTTGTTGATTTTACTGTTATTAGCTATTGGCAAATT
39419916 GCACAACATT
Statistics
Matches: 100, Mismatches: 19, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
129 79 0.79
130 21 0.21
ACGTcount: A:0.18, C:0.14, G:0.14, T:0.54
Consensus pattern (129 bp):
GCTTTCGTGTCCTTTCAGTTCAACTAAAATGGGTTTATCTATTTTTACGTTTCTTGTACTATTTG
ATTATTATTGACTACCCCTTTTGTTGATTTTACTGTTATTAGCTATTGGCAAATTACAATATTT
Found at i:39423555 original size:12 final size:12
Alignment explanation
Indices: 39423538--39423579 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
39423528 AAAGCTCTGT
39423538 AAATATTTATAA
1 AAATATTTATAA
*
39423550 AAATA-TT-TAC
1 AAATATTTATAA
*
39423560 GAATATTTATAA
1 AAATATTTATAA
39423572 AAATATTT
1 AAATATTT
39423580 GTAGCTCGAT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
10 6 0.25
11 4 0.17
12 14 0.58
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (12 bp):
AAATATTTATAA
Found at i:39424596 original size:25 final size:25
Alignment explanation
Indices: 39424568--39424643 Score: 107
Period size: 26 Copynumber: 3.0 Consensus size: 25
39424558 TTTTCACCCT
39424568 AATTTTACCCTAGTAAAATTTTGAC
1 AATTTTACCCTAGTAAAATTTTGAC
* *
39424593 AATTTTACCCTCGATAAAATTTCGAC
1 AATTTTACCCTAG-TAAAATTTTGAC
*
39424619 AATTTTACCCTTGGTAAAATTTTGA
1 AATTTTACCC-TAGTAAAATTTTGA
39424644 GAAAATTCAT
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
25 12 0.27
26 31 0.69
27 2 0.04
ACGTcount: A:0.34, C:0.17, G:0.09, T:0.39
Consensus pattern (25 bp):
AATTTTACCCTAGTAAAATTTTGAC
Found at i:39431853 original size:26 final size:26
Alignment explanation
Indices: 39431824--39431892 Score: 84
Period size: 26 Copynumber: 2.7 Consensus size: 26
39431814 CAGCCCGACC
*
39431824 CACAGCTCGTGGGAGCAAGCCCATTT
1 CACAGCTCGTGTGAGCAAGCCCATTT
* * ** *
39431850 CACAACTCATGTGATTAGGCCCATTT
1 CACAGCTCGTGTGAGCAAGCCCATTT
39431876 CACAGCTCGTGTGAGCA
1 CACAGCTCGTGTGAGCA
39431893 TATATAATTA
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (26 bp):
CACAGCTCGTGTGAGCAAGCCCATTT
Found at i:39441949 original size:12 final size:12
Alignment explanation
Indices: 39441929--39441960 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
39441919 TGCCTTACAT
39441929 GGCCATGTGTTA
1 GGCCATGTGTTA
*
39441941 GGTCATGTGTTA
1 GGCCATGTGTTA
39441953 GGCCATGT
1 GGCCATGT
39441961 AACTCACTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.16, C:0.16, G:0.34, T:0.34
Consensus pattern (12 bp):
GGCCATGTGTTA
Found at i:39443250 original size:19 final size:20
Alignment explanation
Indices: 39443223--39443260 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
39443213 CATATGCGTC
39443223 AAACATTT-CATAAAGTCAT
1 AAACATTTCCATAAAGTCAT
* *
39443242 AAACCTTTCCATTAAGTCA
1 AAACATTTCCATAAAGTCA
39443261 CTTACTGTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.42, C:0.21, G:0.05, T:0.32
Consensus pattern (20 bp):
AAACATTTCCATAAAGTCAT
Found at i:39444086 original size:30 final size:30
Alignment explanation
Indices: 39444047--39444123 Score: 100
Period size: 30 Copynumber: 2.6 Consensus size: 30
39444037 CTGAGCCTGC
* ** *
39444047 GCCCTATACAGTAGTAGTGTGTGGGCCATA
1 GCCCAATACAGTAACAGAGTGTGGGCCATA
* *
39444077 GCCTAATACAGTAACAGAGTGTGGGCCTTA
1 GCCCAATACAGTAACAGAGTGTGGGCCATA
39444107 GCCCAATACAGTAACAG
1 GCCCAATACAGTAACAG
39444124 TGTAAATGCA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.22
Consensus pattern (30 bp):
GCCCAATACAGTAACAGAGTGTGGGCCATA
Found at i:39444260 original size:26 final size:26
Alignment explanation
Indices: 39444231--39444333 Score: 120
Period size: 26 Copynumber: 4.0 Consensus size: 26
39444221 ACACCAATAT
*
39444231 CGCAGCAAAGCTACCAGTAATAGTAA
1 CGCAGCAAAGCTGCCAGTAATAGTAA
* *
39444257 CGCAGCAAAGCTGCCAGTAACAATAA
1 CGCAGCAAAGCTGCCAGTAATAGTAA
*
39444283 TGCAGCAGAA-CTGCCAGT-ATCAGTAA
1 CGCAGCA-AAGCTGCCAGTAAT-AGTAA
* *
39444309 CGCAGCAAAGCTGCCAATAACAGTA
1 CGCAGCAAAGCTGCCAGTAATAGTA
39444334 TTTGTGGCAA
Statistics
Matches: 64, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
25 3 0.05
26 58 0.91
27 3 0.05
ACGTcount: A:0.40, C:0.25, G:0.20, T:0.15
Consensus pattern (26 bp):
CGCAGCAAAGCTGCCAGTAATAGTAA
Found at i:39444509 original size:27 final size:27
Alignment explanation
Indices: 39444479--39444592 Score: 122
Period size: 27 Copynumber: 4.2 Consensus size: 27
39444469 CATCTCCTAA
*
39444479 GGGTATAACGGTCATTTTACCCTATAG
1 GGGTATAACGATCATTTTACCCTATAG
** * *
39444506 GGGTATTTCGATAATTTTACCC-ATCG
1 GGGTATAACGATCATTTTACCCTATAG
** * *
39444532 AGGGTATTTCGGTCATTTTACCCTTTAG
1 -GGGTATAACGATCATTTTACCCTATAG
*
39444560 GGGTATAACGATTATTTTACCCTATAG
1 GGGTATAACGATCATTTTACCCTATAG
39444587 GGGTAT
1 GGGTAT
39444593 TTCAGTAATT
Statistics
Matches: 71, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
26 3 0.04
27 66 0.93
28 2 0.03
ACGTcount: A:0.24, C:0.17, G:0.22, T:0.38
Consensus pattern (27 bp):
GGGTATAACGATCATTTTACCCTATAG
Found at i:39444561 original size:54 final size:53
Alignment explanation
Indices: 39444478--39444847 Score: 341
Period size: 54 Copynumber: 6.9 Consensus size: 53
39444468 TCATCTCCTA
** *
39444478 AGGGTATAACGGTCATTTTACCCTATAGGGGTATTTCGATAATTTTACCCATCG
1 AGGGTATTTCGGTAATTTTACCC-ATAGGGGTATTTCGATAATTTTACCCATCG
* * ** * *
39444532 AGGGTATTTCGGTCATTTTACCCTTTAGGGGTATAACGATTATTTTACCCTATAG
1 AGGGTATTTCGGTAATTTTACCC-ATAGGGGTATTTCGATAATTTTACCC-ATCG
* * **
39444587 -GGGTATTTCAGTAATTTTACCCATCAAGGGTATTTTAATAATTTTACCCATCG
1 AGGGTATTTCGGTAATTTTACCCAT-AGGGGTATTTCGATAATTTTACCCATCG
* * * * * * *
39444640 AGGGTATTTTGGTAATTTTAACCATCAAGGGTATTTAGGTCATTTTACCCATCA
1 AGGGTATTTCGGTAATTTTACCCAT-AGGGGTATTTCGATAATTTTACCCATCG
* * * * * *
39444694 AGGGTATATCGATAATTTTACCCATCGAGGGTATTT-TAGTCATATTACCCATCG
1 AGGGTATTTCGGTAATTTTACCCATAG-GGGTATTTCGA-TAATTTTACCCATCG
* * * *
39444748 AGGGTATTTCGATAATTTTACCCATCGAGGGTATTTTGATAATTTTACCCATTG
1 AGGGTATTTCGGTAATTTTACCCATAG-GGGTATTTCGATAATTTTACCCATCG
* * *
39444802 -GGGTATTTCGGTAATTTTACCCATCGAGGGTATTTCGGTAACTTTA
1 AGGGTATTTCGGTAATTTTACCCATAG-GGGTATTTCGATAATTTTA
39444848 GTGGCCCATT
Statistics
Matches: 266, Mismatches: 44, Indels: 13
0.82 0.14 0.04
Matches are distributed among these distances:
53 46 0.17
54 216 0.81
55 4 0.02
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.38
Consensus pattern (53 bp):
AGGGTATTTCGGTAATTTTACCCATAGGGGTATTTCGATAATTTTACCCATCG
Found at i:39444603 original size:27 final size:25
Alignment explanation
Indices: 39444492--39444847 Score: 244
Period size: 27 Copynumber: 13.2 Consensus size: 25
39444482 TATAACGGTC
39444492 ATTTTACCCTATAGGGGTATTTCGATA
1 ATTTTACCC-ATAGGGGTATTTCG-TA
* *
39444519 ATTTTACCCATCGAGGGTATTTCGGTC
1 ATTTTACCCATAG-GGGTATTTC-GTA
* ** *
39444546 ATTTTACCCTTTAGGGGTATAACGATT
1 ATTTTACCC-ATAGGGGTATTTCG-TA
39444573 ATTTTACCCTATAGGGGTATTTCAGTA
1 ATTTTACCC-ATAGGGGTATTTC-GTA
* **
39444600 ATTTTACCCATCAAGGGTATTTTAATA
1 ATTTTACCCAT-AGGGGTA-TTTCGTA
* *
39444627 ATTTTACCCATCGAGGGTATTTTGGTA
1 ATTTTACCCATAG-GGGTA-TTTCGTA
* * * *
39444654 ATTTTAACCATCAAGGGTATTTAGGTC
1 ATTTTACCCAT-AGGGGTATTT-CGTA
* *
39444681 ATTTTACCCATCAAGGGTATATCGATA
1 ATTTTACCCAT-AGGGGTATTTCG-TA
* * *
39444708 ATTTTACCCATCGAGGGTATTTTAGTC
1 ATTTTACCCATAG-GGGTA-TTTCGTA
* *
39444735 ATATTACCCATCGAGGGTATTTCGATA
1 ATTTTACCCATAG-GGGTATTTCG-TA
* *
39444762 ATTTTACCCATCGAGGGTATTTTGATA
1 ATTTTACCCATAG-GGGTATTTCG-TA
*
39444789 ATTTTACCCATTGGGGTATTTCGGTA
1 ATTTTACCCATAGGGGTATTTC-GTA
*
39444815 ATTTTACCCATCGAGGGTATTTCGGTA
1 ATTTTACCCATAG-GGGTATTTC-GTA
*
39444842 ACTTTA
1 ATTTTA
39444848 GTGGCCCATT
Statistics
Matches: 273, Mismatches: 40, Indels: 32
0.79 0.12 0.09
Matches are distributed among these distances:
26 36 0.13
27 227 0.83
28 10 0.04
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.39
Consensus pattern (25 bp):
ATTTTACCCATAGGGGTATTTCGTA
Found at i:39444631 original size:81 final size:79
Alignment explanation
Indices: 39444478--39444847 Score: 348
Period size: 81 Copynumber: 4.6 Consensus size: 79
39444468 TCATCTCCTA
* * *
39444478 AGGGTATAACGGTCATTTTACCCTATAGGGGTATTTCGATAATTTTACCCATCGAGGGTATTTCG
1 AGGGTATTACGGTAATTTTACCC-ATAGGGGTATTTCG-TAATTTTACCCATCAAGGGTATTTCG
* * **
39444543 GTCATTTTACCC-TTT
64 ATAATTTTACCCATCG
* * * *
39444558 AGGGGTATAACGATTATTTTACCCTATAGGGGTATTTCAGTAATTTTACCCATCAAGGGTATTTT
1 A-GGGTATTACGGTAATTTTACCC-ATAGGGGTATTTC-GTAATTTTACCCATCAAGGGTATTTC
*
39444623 AATAATTTTACCCATCG
63 GATAATTTTACCCATCG
** * * * * *
39444640 AGGGTATTTTGGTAATTTTAACCATCAAGGGTATTTAGGTCATTTTACCCATCAAGGGTATATCG
1 AGGGTATTACGGTAATTTTACCCAT-AGGGGTATTT-CGTAATTTTACCCATCAAGGGTATTTCG
39444705 ATAATTTTACCCATCG
64 ATAATTTTACCCATCG
*** * * * * *
39444721 AGGGTATTTTAGTCATATTACCCATCGAGGGTATTTCGATAATTTTACCCATCGAGGGTATTTTG
1 AGGGTATTACGGTAATTTTACCCATAG-GGGTATTTCG-TAATTTTACCCATCAAGGGTATTTCG
*
39444786 ATAATTTTACCCATTG
64 ATAATTTTACCCATCG
* * *
39444802 -GGGTATTTCGGTAATTTTACCCATCGAGGGTATTTCGGTAACTTTA
1 AGGGTATTACGGTAATTTTACCCATAG-GGGTATTTC-GTAATTTTA
39444848 GTGGCCCATT
Statistics
Matches: 244, Mismatches: 38, Indels: 16
0.82 0.13 0.05
Matches are distributed among these distances:
80 43 0.18
81 198 0.81
82 3 0.01
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.38
Consensus pattern (79 bp):
AGGGTATTACGGTAATTTTACCCATAGGGGTATTTCGTAATTTTACCCATCAAGGGTATTTCGAT
AATTTTACCCATCG
Found at i:39447190 original size:25 final size:26
Alignment explanation
Indices: 39447157--39447212 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
39447147 AAAAATTTAA
*
39447157 CAAATTGACC-CCGGGTTAACTAGAT
1 CAAACTGACCTCCGGGTTAACTAGAT
*
39447182 CAAACTGACCTCTGGGTTAACTAGAT
1 CAAACTGACCTCCGGGTTAACTAGAT
39447208 CAAAC
1 CAAAC
39447213 CGTAATGATC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
25 9 0.32
26 19 0.68
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (26 bp):
CAAACTGACCTCCGGGTTAACTAGAT
Found at i:39448711 original size:16 final size:17
Alignment explanation
Indices: 39448690--39448723 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
39448680 AATGGGATTA
39448690 AGAAAATT-ATTTAGTT
1 AGAAAATTAATTTAGTT
39448706 AGAAAATTAATTTAGTT
1 AGAAAATTAATTTAGTT
39448723 A
1 A
39448724 TTTCAATTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (17 bp):
AGAAAATTAATTTAGTT
Found at i:39454312 original size:18 final size:18
Alignment explanation
Indices: 39454289--39454326 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
39454279 TGGTAGTCCT
*
39454289 CCACAATAGGTCAGTATG
1 CCACAACAGGTCAGTATG
39454307 CCACAACAGGTCAGTATG
1 CCACAACAGGTCAGTATG
39454325 CC
1 CC
39454327 CTCCCCTGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.29, G:0.21, T:0.18
Consensus pattern (18 bp):
CCACAACAGGTCAGTATG
Found at i:39458101 original size:5 final size:5
Alignment explanation
Indices: 39458091--39458115 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
39458081 TCTATTATAA
39458091 AAATT AAATT AAATT AAATT AAATT
1 AAATT AAATT AAATT AAATT AAATT
39458116 TTATACTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AAATT
Found at i:39463042 original size:18 final size:18
Alignment explanation
Indices: 39463019--39463058 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
39463009 GACCCAGAAA
39463019 AGGATACATATAAGGGTT
1 AGGATACATATAAGGGTT
39463037 AGGATACATATAAGGGTT
1 AGGATACATATAAGGGTT
39463055 AGGA
1 AGGA
39463059 AATGCACCTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.40, C:0.05, G:0.30, T:0.25
Consensus pattern (18 bp):
AGGATACATATAAGGGTT
Found at i:39464921 original size:51 final size:51
Alignment explanation
Indices: 39464860--39464957 Score: 137
Period size: 51 Copynumber: 1.9 Consensus size: 51
39464850 AATTATTTAA
* *
39464860 AAATAGGGATTTAAGAG-AAATTTAAGAA-GAACTTGAGAGCAAATTGAAATT
1 AAATAAGGATTTAAGAGAAAATTT--GAATGAACTTGACAGCAAATTGAAATT
*
39464911 AAATAAGGATTTAAGAGAAAATTTGAATGAATTTGACAGCAAATTGA
1 AAATAAGGATTTAAGAGAAAATTTGAATGAACTTGACAGCAAATTGA
39464958 GAGGAAATTT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
50 3 0.07
51 33 0.79
52 6 0.14
ACGTcount: A:0.49, C:0.04, G:0.20, T:0.27
Consensus pattern (51 bp):
AAATAAGGATTTAAGAGAAAATTTGAATGAACTTGACAGCAAATTGAAATT
Found at i:39474752 original size:22 final size:20
Alignment explanation
Indices: 39474717--39474758 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
39474707 TCATTGTTGA
*
39474717 GAAATTGATGAATTAGGCTT
1 GAAATTGATGAATTAAGCTT
39474737 GAAATTGATAGAAATTAAGCTT
1 GAAATTGAT-G-AATTAAGCTT
39474759 CGATCATGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
21 1 0.05
22 9 0.47
ACGTcount: A:0.40, C:0.05, G:0.21, T:0.33
Consensus pattern (20 bp):
GAAATTGATGAATTAAGCTT
Found at i:39482688 original size:2 final size:2
Alignment explanation
Indices: 39482681--39482722 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
39482671 TAAAGCTTTG
39482681 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
39482723 GTTAAAGCTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:39483686 original size:20 final size:20
Alignment explanation
Indices: 39483657--39483696 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
39483647 TTATAAAGTT
*
39483657 AATAATAAAATACCTTACAA
1 AATAACAAAATACCTTACAA
*
39483677 AATAACAAAATATCTTACAA
1 AATAACAAAATACCTTACAA
39483697 CTCATCTAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.60, C:0.15, G:0.00, T:0.25
Consensus pattern (20 bp):
AATAACAAAATACCTTACAA
Found at i:39485992 original size:41 final size:41
Alignment explanation
Indices: 39485947--39486103 Score: 235
Period size: 41 Copynumber: 3.8 Consensus size: 41
39485937 TTTTTAGAGT
39485947 AGCGCCGCTAATGCTCGGGGTTTTAGCGGCGTTTATGATTA
1 AGCGCCGCTAATGCTCGGGGTTTTAGCGGCGTTTATGATTA
*
39485988 AGCGCCGCTAATGCTCAGGGTTTTAGCGGCGTTTATGATTA
1 AGCGCCGCTAATGCTCGGGGTTTTAGCGGCGTTTATGATTA
* * * *
39486029 AGCGCCGCTAATGCTTGAGGTTTTAGCGGCGTTTTTGA-AA
1 AGCGCCGCTAATGCTCGGGGTTTTAGCGGCGTTTATGATTA
* *
39486069 AGGCGCCACTAATGCTCGGGTTTTTAGCGGCGTTT
1 A-GCGCCGCTAATGCTCGGGGTTTTAGCGGCGTTT
39486104 TTTTGAAAGC
Statistics
Matches: 105, Mismatches: 10, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
40 2 0.02
41 103 0.98
ACGTcount: A:0.18, C:0.20, G:0.31, T:0.32
Consensus pattern (41 bp):
AGCGCCGCTAATGCTCGGGGTTTTAGCGGCGTTTATGATTA
Found at i:39487896 original size:14 final size:14
Alignment explanation
Indices: 39487879--39487916 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
39487869 GGGTTGGGAT
*
39487879 TTAAGGTTTAGGGG
1 TTAAGGGTTAGGGG
39487893 TTAAGGGTTAGGGG
1 TTAAGGGTTAGGGG
*
39487907 TTAGGGGTTA
1 TTAAGGGTTA
39487917 AGAGTTAGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.21, C:0.00, G:0.45, T:0.34
Consensus pattern (14 bp):
TTAAGGGTTAGGGG
Found at i:39487936 original size:21 final size:21
Alignment explanation
Indices: 39487885--39487934 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
39487875 GGATTTAAGG
* *
39487885 TTTAGGGGTTAAGGGTTAGGG
1 TTTAGGGGTTAAGAGTTAGGA
*
39487906 GTTAGGGGTTAAGAGTTAGAGA
1 TTTAGGGGTTAAGAGTTAG-GA
39487928 TTTAGGG
1 TTTAGGG
39487935 TTTAGGGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.24, C:0.00, G:0.44, T:0.32
Consensus pattern (21 bp):
TTTAGGGGTTAAGAGTTAGGA
Found at i:39490898 original size:43 final size:43
Alignment explanation
Indices: 39490837--39490921 Score: 125
Period size: 43 Copynumber: 2.0 Consensus size: 43
39490827 CAATGATGTA
* * *
39490837 CAAGATTTTCTTGATTAAGTAAATGTATTATATATTTTATTAC
1 CAAGATTTACTTGATTAAGAAAATGCATTATATATTTTATTAC
* *
39490880 CAAGATTTACTTGATTAAGAAAATGCATTGTATGTTTTATTA
1 CAAGATTTACTTGATTAAGAAAATGCATTATATATTTTATTA
39490922 TCTTGCATAT
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:0.35, C:0.07, G:0.12, T:0.46
Consensus pattern (43 bp):
CAAGATTTACTTGATTAAGAAAATGCATTATATATTTTATTAC
Found at i:39491264 original size:43 final size:40
Alignment explanation
Indices: 39491170--39491299 Score: 143
Period size: 43 Copynumber: 3.1 Consensus size: 40
39491160 ATTATTTTTT
* * *
39491170 TAAAGATATGTTTTTAGCGGCGTTTGTGTGAAAAGCGCCGC
1 TAAAGATCTGTTTATAGCGGCGTTTGT-TGAAAAGCGTCGC
* *
39491211 TAAAGGTCTGTTCTATAGCGGCGTTTGTATGAAAAAGCGTCGT
1 TAAAGATCTGTT-TATAGCGGCGTTTGT-TG-AAAAGCGTCGC
* *
39491254 TAAAGATCTGTTTTATAGCGACGTTTGTGGGAAAAGCGTCGC
1 TAAAGATCTG-TTTATAGCGGCGTTTGT-TGAAAAGCGTCGC
39491296 TAAA
1 TAAA
39491300 AGAGATGATC
Statistics
Matches: 75, Mismatches: 11, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
41 10 0.13
42 30 0.40
43 33 0.44
44 2 0.03
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.32
Consensus pattern (40 bp):
TAAAGATCTGTTTATAGCGGCGTTTGTTGAAAAGCGTCGC
Found at i:39491413 original size:129 final size:128
Alignment explanation
Indices: 39491192--39491428 Score: 296
Period size: 129 Copynumber: 1.8 Consensus size: 128
39491182 TTTAGCGGCG
* * * ** * * * *
39491192 TTTGTGTGAAAAGCGCCGCTAAAGGTCTGTTCTATAGCGGCGTTTGTATGAAAAAGCGTCGTTAA
1 TTTGTGGGAAAAACGCCGCTAAAAGTCTGACCTATAGCAGCGTTTGTAGGAAAAAGCGCCGCTAA
* * * *
39491257 AGATCTGTTTTATAGCGACGTTTGTGGGAAAAGCGTCGCTAAAAGAGATGATCTATAGCGCCA
66 AAATCTGATCTATAGCGACATTTGTGGGAAAAGCGTCGCTAAAAGAGATGATCTATAGCGCCA
* *
39491320 TTTGTGGGAAAAACGCCGCTAAAAGTCATGACCTATAGTAGCGTTTGT-GGGAAAAGCGCCGCTA
1 TTTGTGGGAAAAACGCCGCTAAAAGTC-TGACCTATAGCAGCGTTTGTAGGAAAAAGCGCCGCTA
* *
39491384 AAAATCATGATCTATAGCGGCATTTGTGGGATAAGCGTCGCTAAA
65 AAAATC-TGATCTATAGCGACATTTGTGGGAAAAGCGTCGCTAAA
39491429 GGTCATGACT
Statistics
Matches: 90, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
128 41 0.46
129 49 0.54
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.27
Consensus pattern (128 bp):
TTTGTGGGAAAAACGCCGCTAAAAGTCTGACCTATAGCAGCGTTTGTAGGAAAAAGCGCCGCTAA
AAATCTGATCTATAGCGACATTTGTGGGAAAAGCGTCGCTAAAAGAGATGATCTATAGCGCCA
Found at i:39491435 original size:43 final size:43
Alignment explanation
Indices: 39491184--39491436 Score: 251
Period size: 43 Copynumber: 5.9 Consensus size: 43
39491174 GATATGTTTT
* * *
39491184 TAGCGGCGTTTGTGTGAAAAGCGCCGCTAAAGGTC-TGTTCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATCTA
* * * * * *
39491226 TAGCGGCGTTTGTATGAAAAAGCGTCG-TTAAAGATC-TGTTTTA
1 TAGCGGCGTTTGT-GGGAAAAGCGCCGCTAAAAG-TCATGATCTA
* * **
39491269 TAGCGACGTTTGTGGGAAAAGCGTCGCTAAAAGAGATGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATCTA
* * * *
39491312 TAGCGCCATTTGTGGGAAAAACGCCGCTAAAAGTCATGACCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATCTA
** *
39491355 TAGTAGCGTTTGTGGGAAAAGCGCCGCTAAAAATCATGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATCTA
* * * *
39491398 TAGCGGCATTTGTGGGATAAGCGTCGCTAAAGGTCATGA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGA
39491437 CTTTTAGTGG
Statistics
Matches: 171, Mismatches: 36, Indels: 7
0.80 0.17 0.03
Matches are distributed among these distances:
42 28 0.16
43 143 0.84
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (43 bp):
TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATCTA
Found at i:39491451 original size:129 final size:127
Alignment explanation
Indices: 39491171--39491451 Score: 285
Period size: 129 Copynumber: 2.2 Consensus size: 127
39491161 TTATTTTTTT
* * * * * * ** *
39491171 AAAGATATGTTTTTAGCGGCGTTTGTGTGAAAAGCGCCGCTAAAGGTCTGTTCTATAGCGGCGTT
1 AAAGACATGATTTTAGCGGCATTTGTGGGAAAAACGCCGCTAAAAGTCTGACCTATAGCAGCGTT
* * * * * * *
39491236 TGTATGAAAAAGCGTCGTTAAAGATCTGTTTTATAGCGACGTTTGTGGGAAAAGCGTCGCTA
66 TGTAGGAAAAAGCGCCGCTAAAAATCTGATCTATAGCGACATTTGTGGGAAAAGCGTCGCTA
* * * *
39491298 AAAGAGATGATCTATAGCGCCATTTGTGGGAAAAACGCCGCTAAAAGTCATGACCTATAGTAGCG
1 AAAGACATGAT-TTTAGCGGCATTTGTGGGAAAAACGCCGCTAAAAGTC-TGACCTATAGCAGCG
* * *
39491363 TTTGT-GGGAAAAGCGCCGCTAAAAATCATGATCTATAGCGGCATTTGTGGGATAAGCGTCGCTA
64 TTTGTAGGAAAAAGCGCCGCTAAAAATC-TGATCTATAGCGACATTTGTGGGAAAAGCGTCGCTA
* * *
39491427 AAGGTCATGACTTTTAGTGGCATTT
1 AAAGACATGA-TTTTAGCGGCATTT
39491452 ATTTCTAAAA
Statistics
Matches: 122, Mismatches: 28, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
127 9 0.07
128 48 0.39
129 64 0.52
130 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (127 bp):
AAAGACATGATTTTAGCGGCATTTGTGGGAAAAACGCCGCTAAAAGTCTGACCTATAGCAGCGTT
TGTAGGAAAAAGCGCCGCTAAAAATCTGATCTATAGCGACATTTGTGGGAAAAGCGTCGCTA
Found at i:39491548 original size:21 final size:21
Alignment explanation
Indices: 39491522--39491567 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
39491512 TGTGGAAGTG
39491522 CCGCAAATACTTTTAGCGGCA
1 CCGCAAATACTTTTAGCGGCA
*
39491543 CCGCAAATACTTTTAGCGGCG
1 CCGCAAATACTTTTAGCGGCA
39491564 CCGC
1 CCGC
39491568 TAAAAGTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.24, C:0.33, G:0.22, T:0.22
Consensus pattern (21 bp):
CCGCAAATACTTTTAGCGGCA
Found at i:39498438 original size:130 final size:130
Alignment explanation
Indices: 39498202--39498465 Score: 458
Period size: 130 Copynumber: 2.0 Consensus size: 130
39498192 ACTCGATCAA
*
39498202 CTCTTTGTGGATTTTGCACTTCATTCAATACAATTCAAGATTGTCTTAAACCTTTTCCTCTTGAT
1 CTCTTTGTGGATTTTGCACTTCATTCAATACAATTCAAGATTCTCTTAAACCTTTTCCTCTTGAT
*
39498267 TCATTATTTATGTTTATTTTTAGTATCAAATTTATTGTGTTTATGAAATCCATGAGAAACTAATC
66 TCATTATTTATGTTTATTTTTAGTATCAAATTTATTATGTTTATGAAATCCATGAGAAACTAATC
* * * *
39498332 CTCTTTGTGGGTTTTGCACTTCATTCAATATAATTCAGGATTCTCTTAAACCCTTTT-CTTTTGA
1 CTCTTTGTGGATTTTGCACTTCATTCAATACAATTCAAGATTCTCTTAAA-CCTTTTCCTCTTGA
39498396 TTCATTATTTATGTTTATTTTTAGTATCAAATTTATTATGTTTATGAAATCCATGAGAAACTAAT
65 TTCATTATTTATGTTTATTTTTAGTATCAAATTTATTATGTTTATGAAATCCATGAGAAACTAAT
39498461 C
130 C
39498462 CTCT
1 CTCT
39498466 CATGGGGGAT
Statistics
Matches: 127, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
130 121 0.95
131 6 0.05
ACGTcount: A:0.27, C:0.16, G:0.11, T:0.47
Consensus pattern (130 bp):
CTCTTTGTGGATTTTGCACTTCATTCAATACAATTCAAGATTCTCTTAAACCTTTTCCTCTTGAT
TCATTATTTATGTTTATTTTTAGTATCAAATTTATTATGTTTATGAAATCCATGAGAAACTAATC
Found at i:39507677 original size:43 final size:42
Alignment explanation
Indices: 39507569--39507691 Score: 135
Period size: 43 Copynumber: 2.9 Consensus size: 42
39507559 AATTTGAGAT
* * *
39507569 TTACGTGTAAGACCATGTTTGAGACATTGGCATCGTATATGA
1 TTACATGTAAGACCACGTTTGGGACATTGGCATCGTATATGA
*
39507611 TTACATGTAAGACC-C-TATCTGGGACAGTGGCATCGT-TAATTGA
1 TTACATGTAAGACCACGT-T-TGGGACATTGGCATCGTAT-A-TGA
* *
39507654 TTACATGTGAGACCACGTTTGGGACATTGGCATTGTAT
1 TTACATGTAAGACCACGTTTGGGACATTGGCATCGTAT
39507692 GAGCGTTTGA
Statistics
Matches: 67, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
40 1 0.01
41 2 0.03
42 29 0.43
43 31 0.46
44 3 0.04
45 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (42 bp):
TTACATGTAAGACCACGTTTGGGACATTGGCATCGTATATGA
Found at i:39513837 original size:25 final size:25
Alignment explanation
Indices: 39513801--39513854 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
39513791 GTATAGGTTA
39513801 TTTT-TTGCTAA-TGTTGGCCTATATG
1 TTTTGTTGCTAATTG-TGGCC-ATATG
39513826 TTTTGTTG-TAATTGTGGCCATATG
1 TTTTGTTGCTAATTGTGGCCATATG
*
39513850 ATTTG
1 TTTTG
39513855 GATTATGTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
24 9 0.35
25 12 0.46
26 5 0.19
ACGTcount: A:0.17, C:0.09, G:0.22, T:0.52
Consensus pattern (25 bp):
TTTTGTTGCTAATTGTGGCCATATG
Found at i:39514681 original size:250 final size:251
Alignment explanation
Indices: 39514239--39514744 Score: 768
Period size: 250 Copynumber: 2.0 Consensus size: 251
39514229 CATATGTTTA
*
39514239 AGGTTTGTTTATGCTTGATTTGGATGCCTTGCTATGGCTTGAAAGTTTTGTACAATTGTGGTTGT
1 AGGTTTGTTTATGCTTGATTTCGATGCCTTGCTATGGCTTGAAAGTTTTGTACAATTGTGGTTGT
* *
39514304 AGGTACATGCCAAATTGGGTGAGAAAAATGGCTTGTAAAATAGCCTATTTTCATCCACACGGTCA
66 AGGTACATGCCAAATTGGGTGAGAAAAATGACTAGTAAAATAGCCTATTTTCATCCACACGGTCA
* * * *
39514369 GAGATACTGGTGTGTGTCTTAGTTGTGTGTGACACACAGCAGTGTGTCCCTTGTACCTTTCAAAG
131 GAGACACTGGTGTGTGTCTCAATCGTGTGTGACACACAGCAGTGTGTCCCTTGTACCTTTCAAAG
* * * *
39514434 GTTTGCAAGTTAGGTTGTTACACGGCCTAGCACACAACCTGGGACACGGGCATGTG
196 GTTTGCAAGTCAGGCTGTTACACGGCCTAGCACACAACCTGGCACACGAGCATGTG
* * *
39514490 AGGTTTGTTTATGCTTGATTTCGTTGCCTTGCTATGGCTTGTAAG-TTTGTGCAATTGTGGTTGT
1 AGGTTTGTTTATGCTTGATTTCGATGCCTTGCTATGGCTTGAAAGTTTTGTACAATTGTGGTTGT
*
39514554 AGGTACATGCCAAGTTGGGTGAGAAAAATGACTAGTAAAATAGCCTATTTTCATCCACACAGG-C
66 AGGTACATGCCAAATTGGGTGAGAAAAATGACTAGTAAAATAGCCTATTTTCATCCACAC-GGTC
* *
39514618 AGAGACAC-GAGTGTGTGTCTCAATCGTGTGTGACACACAGCCGTGTGT-CCTCTGTAGCTTTCA
130 AGAGACACTG-GTGTGTGTCTCAATCGTGTGTGACACACAGCAGTGTGTCCCT-TGTACCTTTCA
*** *
39514681 AAGGTTTGCAAGTCAGGCTGTTACACGGCCTAGCACATGGCCTGGCACACGAGCGTGTG
193 AAGGTTTGCAAGTCAGGCTGTTACACGGCCTAGCACACAACCTGGCACACGAGCATGTG
39514740 AGGTT
1 AGGTT
39514745 ACTTCAAAGA
Statistics
Matches: 231, Mismatches: 21, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
249 4 0.02
250 183 0.79
251 44 0.19
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (251 bp):
AGGTTTGTTTATGCTTGATTTCGATGCCTTGCTATGGCTTGAAAGTTTTGTACAATTGTGGTTGT
AGGTACATGCCAAATTGGGTGAGAAAAATGACTAGTAAAATAGCCTATTTTCATCCACACGGTCA
GAGACACTGGTGTGTGTCTCAATCGTGTGTGACACACAGCAGTGTGTCCCTTGTACCTTTCAAAG
GTTTGCAAGTCAGGCTGTTACACGGCCTAGCACACAACCTGGCACACGAGCATGTG
Found at i:39521736 original size:30 final size:30
Alignment explanation
Indices: 39521702--39521781 Score: 115
Period size: 30 Copynumber: 2.7 Consensus size: 30
39521692 AACTAAAGTT
39521702 ATCCCTTTTCATAATTTGATGGTCGCCACC
1 ATCCCTTTTCATAATTTGATGGTCGCCACC
* ** *
39521732 ATCCCTTTTCATAGTTCAATGGTCGTCACC
1 ATCCCTTTTCATAATTTGATGGTCGCCACC
*
39521762 ATCCCATTTCATAATTTGAT
1 ATCCCTTTTCATAATTTGAT
39521782 AGCTGAAGCT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.23, C:0.28, G:0.11, T:0.39
Consensus pattern (30 bp):
ATCCCTTTTCATAATTTGATGGTCGCCACC
Found at i:39521799 original size:60 final size:58
Alignment explanation
Indices: 39521735--39521930 Score: 173
Period size: 60 Copynumber: 3.3 Consensus size: 58
39521725 CGCCACCATC
*
39521735 CCTTTTCATAGTTCAATGGTCGTCACCATCCCATTTCATAATTTGATAGCTGAAGCTATT
1 CCTTTTCATAGTT-GATGGTCGTCACCATCCC-TTTCATAATTTGATAGCTGAAGCTATT
* * * * * * *
39521795 CCTTTTCATAGATTGATAGCCG-AAGCCATCCTTTTTCATAGTTTGATAGTTGAAGCCA-T
1 CCTTTTCATAG-TTGATGGTCGTCA-CCATCC-CTTTCATAATTTGATAGCTGAAGCTATT
* * * * *
39521854 CCCTTTCATAGTTTGATGATCATCACCATCCCTTTACATAA-TCGATAGCCGAAGCTATT
1 CCTTTTCATAG-TTGATGGTCGTCACCATCCCTTT-CATAATTTGATAGCTGAAGCTATT
*
39521913 CCTTTTCATTCGTTGATG
1 CCTTTTCA-TAGTTGATG
39521931 ATCATCGTCA
Statistics
Matches: 106, Mismatches: 23, Indels: 15
0.74 0.16 0.10
Matches are distributed among these distances:
58 15 0.14
59 42 0.40
60 47 0.44
61 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.14, T:0.38
Consensus pattern (58 bp):
CCTTTTCATAGTTGATGGTCGTCACCATCCCTTTCATAATTTGATAGCTGAAGCTATT
Found at i:39521802 original size:30 final size:30
Alignment explanation
Indices: 39521768--39521921 Score: 113
Period size: 30 Copynumber: 5.2 Consensus size: 30
39521758 CACCATCCCA
*
39521768 TTTCATAATTTGATAGCTGAAGCTATTCCT
1 TTTCATAATTTGATAGCTGAAGCCATTCCT
*
39521798 TTTCATAGA-TTGATAGCCGAAGCCA-TCCTT
1 TTTCATA-ATTTGATAGCTGAAGCCATTCC-T
* * *
39521828 TTTCATAGTTTGATAGTTGAAGCCA-TCCC
1 TTTCATAATTTGATAGCTGAAGCCATTCCT
* * * *
39521857 TTTCATAGTTTGATGATCAT-CA-CCATCCCT
1 TTTCATAATTTGAT-AGC-TGAAGCCATTCCT
* * * *
39521887 TTACATAA-TCGATAGCCGAAGCTATTCCT
1 TTTCATAATTTGATAGCTGAAGCCATTCCT
39521916 TTTCAT
1 TTTCAT
39521922 TCGTTGATGA
Statistics
Matches: 96, Mismatches: 20, Indels: 17
0.72 0.15 0.13
Matches are distributed among these distances:
28 3 0.03
29 35 0.36
30 56 0.58
31 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.14, T:0.38
Consensus pattern (30 bp):
TTTCATAATTTGATAGCTGAAGCCATTCCT
Found at i:39521870 original size:29 final size:29
Alignment explanation
Indices: 39521760--39521870 Score: 132
Period size: 30 Copynumber: 3.7 Consensus size: 29
39521750 ATGGTCGTCA
*
39521760 CCATCCCATTTCATAATTTGATAGCTGAAG
1 CCATCCC-TTTCATAGTTTGATAGCTGAAG
* * * *
39521790 CTATTCCTTTTCATAGATTGATAGCCGAAG
1 CCA-TCCCTTTCATAGTTTGATAGCTGAAG
* *
39521820 CCATCCTTTTTCATAGTTTGATAGTTGAAG
1 CCATCC-CTTTCATAGTTTGATAGCTGAAG
39521850 CCATCCCTTTCATAGTTTGAT
1 CCATCCCTTTCATAGTTTGAT
39521871 GATCATCACC
Statistics
Matches: 69, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
29 17 0.25
30 49 0.71
31 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (29 bp):
CCATCCCTTTCATAGTTTGATAGCTGAAG
Found at i:39521920 original size:59 final size:58
Alignment explanation
Indices: 39521735--39521936 Score: 167
Period size: 59 Copynumber: 3.4 Consensus size: 58
39521725 CGCCACCATC
** * *
39521735 CCTTTTCATAGTTCAATGGTCGTCACCATCCCATTTCATAATTTGATAGCTGAAGCTATT
1 CCTTTTCATAGTTTGATGATCATCACCATCCC-TTTCATAA-TTGATAGCTGAAGCTATT
* * *** * * * *
39521795 CCTTTTCATAGATTGAT-AGCCGAAGCCATCCTTTTTCATAGTTTGATAGTTGAAGCCA-T
1 CCTTTTCATAGTTTGATGATCATCA-CCATCC-CTTTCATA-ATTGATAGCTGAAGCTATT
* * *
39521854 CCCTTTCATAGTTTGATGATCATCACCATCCCTTTACATAATCGATAGCCGAAGCTATT
1 CCTTTTCATAGTTTGATGATCATCACCATCCCTTT-CATAATTGATAGCTGAAGCTATT
*
39521913 CCTTTTCATTCG-TTGATGATCATC
1 CCTTTTCA-TAGTTTGATGATCATC
39521937 GTCACGCCGT
Statistics
Matches: 109, Mismatches: 26, Indels: 15
0.73 0.17 0.10
Matches are distributed among these distances:
58 15 0.14
59 48 0.44
60 46 0.42
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.38
Consensus pattern (58 bp):
CCTTTTCATAGTTTGATGATCATCACCATCCCTTTCATAATTGATAGCTGAAGCTATT
Found at i:39525052 original size:25 final size:25
Alignment explanation
Indices: 39525024--39525101 Score: 88
Period size: 25 Copynumber: 3.1 Consensus size: 25
39525014 TCCTATACAT
39525024 GTATGCTCATACGAGCTATGAATCG
1 GTATGCTCATACGAGCTATGAATCG
* *
39525049 GTATGCTC-TCACGAGCTGTAAATCG
1 GTATGCTCAT-ACGAGCTATGAATCG
* *
39525074 GTAAGCTCATATGAGCTGA-GAATCG
1 GTATGCTCATACGAGCT-ATGAATCG
39525099 GTA
1 GTA
39525102 ACCCTAATGA
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
24 1 0.02
25 42 0.95
26 1 0.02
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (25 bp):
GTATGCTCATACGAGCTATGAATCG
Found at i:39529053 original size:27 final size:28
Alignment explanation
Indices: 39529023--39529075 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
39529013 CGTAATTCAT
*
39529023 ACTTTAATTA-TAAAATAATTAATTTGC
1 ACTTAAATTATTAAAATAATTAATTTGC
* *
39529050 ACTTAAATTATTAACATATTTAATTT
1 ACTTAAATTATTAAAATAATTAATTT
39529076 TAATTATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 9 0.41
28 13 0.59
ACGTcount: A:0.43, C:0.08, G:0.02, T:0.47
Consensus pattern (28 bp):
ACTTAAATTATTAAAATAATTAATTTGC
Found at i:39531255 original size:50 final size:50
Alignment explanation
Indices: 39531180--39531371 Score: 303
Period size: 50 Copynumber: 3.8 Consensus size: 50
39531170 ATTTGGGTAA
39531180 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATG
* *
39531230 AGAGGTCTCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATG
* * *
39531280 AGAGGTCCCATGTAAGACCATGGCTGGGACACGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATG
** * *
39531330 AGAGGTCCCCCGTAAGACCATGCCTGGGACATGGCTTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
39531372 TGTTATTATC
Statistics
Matches: 130, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 130 1.00
ACGTcount: A:0.24, C:0.22, G:0.33, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATG
Found at i:39532150 original size:17 final size:16
Alignment explanation
Indices: 39532108--39532150 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
39532098 TTATTGAGTC
*
39532108 TAATTTCATAGAAAAA
1 TAATTTTATAGAAAAA
**
39532124 TAATGGTATAGAAAAA
1 TAATTTTATAGAAAAA
39532140 TTAATTTTATA
1 -TAATTTTATA
39532151 TTTTAAGATA
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.51, C:0.02, G:0.09, T:0.37
Consensus pattern (16 bp):
TAATTTTATAGAAAAA
Found at i:39538277 original size:30 final size:30
Alignment explanation
Indices: 39538208--39538278 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
39538198 ATGAAGTTTA
*
39538208 ATTTCCAAACTTTGGGGCAAAAGCGTAATT
1 ATTTCCAAAGTTTGGGGCAAAAGCGTAATT
* * *
39538238 ATGT-AAAAGTTTAGGGGCAAAATCGTAATT
1 ATTTCCAAAGTTT-GGGGCAAAAGCGTAATT
39538268 -TTTCCAAAGTT
1 ATTTCCAAAGTT
39538279 AGAGTCGAGG
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
29 8 0.24
30 25 0.76
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.32
Consensus pattern (30 bp):
ATTTCCAAAGTTTGGGGCAAAAGCGTAATT
Found at i:39538674 original size:50 final size:50
Alignment explanation
Indices: 39538616--39538850 Score: 317
Period size: 50 Copynumber: 4.7 Consensus size: 50
39538606 ATTTGGGTAA
* * *
39538616 AGAGGTCCCATATAGGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * *
39538666 AGAGGTCCCATGTAACACCATGTCTGGGACATGGCGTTGGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* *
39538716 AGAGGTCCCATGTAAGACCGTGTCTGGGACATGGTATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * *
39538766 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGACATCGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** *
39538816 AGAACATCCTATGTAAGACCATGTCTGGGACATGG
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGG
39538851 TTTTGGCATG
Statistics
Matches: 162, Mismatches: 22, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
50 136 0.84
51 26 0.16
ACGTcount: A:0.26, C:0.23, G:0.31, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:39541100 original size:19 final size:19
Alignment explanation
Indices: 39541076--39541114 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
39541066 ACATGTGAAG
39541076 TACTTTTAAGGTCTGAGGT
1 TACTTTTAAGGTCTGAGGT
39541095 TACTTTTAAGGTCTGAGGT
1 TACTTTTAAGGTCTGAGGT
39541114 T
1 T
39541115 CGAGTCCCGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.21, C:0.10, G:0.26, T:0.44
Consensus pattern (19 bp):
TACTTTTAAGGTCTGAGGT
Found at i:39541468 original size:20 final size:20
Alignment explanation
Indices: 39541440--39541494 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
39541430 TGTCGAATCC
* ** *
39541440 TCTCATCTCTCCTTTTCTTT
1 TCTCTTCTCTCCTCATCTCT
*
39541460 TCTCTTCTCTACTCATCTCT
1 TCTCTTCTCTCCTCATCTCT
39541480 TCTCTTCTTCTCCTC
1 TCTCTTC-TCTCCTC
39541495 TTCATTCTAG
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 22 0.79
21 6 0.21
ACGTcount: A:0.05, C:0.40, G:0.00, T:0.55
Consensus pattern (20 bp):
TCTCTTCTCTCCTCATCTCT
Found at i:39542203 original size:27 final size:27
Alignment explanation
Indices: 39542173--39542369 Score: 161
Period size: 27 Copynumber: 7.3 Consensus size: 27
39542163 ATTCATGGGC
* *
39542173 AAATGACTGAAAGACCCCTGAAGAGTA
1 AAATGACTGAAATACCCCTGAAGGGTA
* *
39542200 AAATGA-TCGAAATACCCCCGAAGGATA
1 AAATGACT-GAAATACCCCTGAAGGGTA
* *
39542227 AAATGACTGAAATACCCTTGAAGAGTA
1 AAATGACTGAAATACCCCTGAAGGGTA
* *
39542254 AAATGA-TCAAA-ATGCCCTCGAAGGGTA
1 AAATGACTGAAATA-CCCCT-GAAGGGTA
* * * *
39542281 AAATAACCGATATACCCCCGAAGGGTA
1 AAATGACTGAAATACCCCTGAAGGGTA
* *
39542308 AAATGA-TCAAAATACCCTTGAAGGGTA
1 AAATGACT-GAAATACCCCTGAAGGGTA
* * *
39542335 AAATGACCGAAATA-CCCTCAAATGGTA
1 AAATGACTGAAATACCCCT-GAAGGGTA
39542362 AAATGACT
1 AAATGACT
39542370 TTTATACCTC
Statistics
Matches: 131, Mismatches: 30, Indels: 18
0.73 0.17 0.10
Matches are distributed among these distances:
25 1 0.01
26 11 0.08
27 112 0.85
28 6 0.05
29 1 0.01
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.18
Consensus pattern (27 bp):
AAATGACTGAAATACCCCTGAAGGGTA
Found at i:39542236 original size:54 final size:54
Alignment explanation
Indices: 39542173--39542351 Score: 241
Period size: 54 Copynumber: 3.3 Consensus size: 54
39542163 ATTCATGGGC
* * * * *
39542173 AAATGACTGAAAGACCCCTGAAGAGTAAAATGATCGAAATACCCCCGAAGGATA
1 AAATGACCGAAATACCCCTGAAGAGTAAAATGATCAAAATACCCTCGAAGGGTA
* * *
39542227 AAATGACTGAAATACCCTTGAAGAGTAAAATGATCAAAATGCCCTCGAAGGGTA
1 AAATGACCGAAATACCCCTGAAGAGTAAAATGATCAAAATACCCTCGAAGGGTA
* * * * *
39542281 AAATAACCGATATACCCCCGAAGGGTAAAATGATCAAAATACCCTTGAAGGGTA
1 AAATGACCGAAATACCCCTGAAGAGTAAAATGATCAAAATACCCTCGAAGGGTA
39542335 AAATGACCGAAATACCC
1 AAATGACCGAAATACCC
39542352 TCAAATGGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 109 1.00
ACGTcount: A:0.44, C:0.20, G:0.19, T:0.17
Consensus pattern (54 bp):
AAATGACCGAAATACCCCTGAAGAGTAAAATGATCAAAATACCCTCGAAGGGTA
Found at i:39542302 original size:81 final size:81
Alignment explanation
Indices: 39542188--39542365 Score: 225
Period size: 81 Copynumber: 2.2 Consensus size: 81
39542178 ACTGAAAGAC
* * * *
39542188 CCCT-GAAGAGTAAAATGATCGAAATACCCCCGAAGGATAAAATGA-CTGAAATACCCTTGAAGA
1 CCCTCGAAGGGTAAAATAACCGAAATACCCCCGAAGGATAAAATGATC-AAAATACCCTTGAAGA
* *
39542251 GTAAAATGATCAAAATG
65 GTAAAATGACCAAAATA
* * *
39542268 CCCTCGAAGGGTAAAATAACCGATATACCCCCGAAGGGTAAAATGATCAAAATACCCTTGAAGGG
1 CCCTCGAAGGGTAAAATAACCGAAATACCCCCGAAGGATAAAATGATCAAAATACCCTTGAAGAG
*
39542333 TAAAATGACCGAAATA
66 TAAAATGACCAAAATA
* *
39542349 CCCTCAAATGGTAAAAT
1 CCCTCGAAGGGTAAAAT
39542366 GACTTTTATA
Statistics
Matches: 84, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
80 4 0.05
81 79 0.94
82 1 0.01
ACGTcount: A:0.43, C:0.20, G:0.19, T:0.19
Consensus pattern (81 bp):
CCCTCGAAGGGTAAAATAACCGAAATACCCCCGAAGGATAAAATGATCAAAATACCCTTGAAGAG
TAAAATGACCAAAATA
Found at i:39542593 original size:26 final size:26
Alignment explanation
Indices: 39542517--39542619 Score: 100
Period size: 26 Copynumber: 4.0 Consensus size: 26
39542507 AAGGGAAGTA
** *
39542517 TACTG-TACTGGTGGCTTTGCTACGT
1 TACTGTTACTGGCAGCTTTGCTGCGT
* * *
39542542 ATACTGTTACTAGCAACTTTACTGCGT
1 -TACTGTTACTGGCAGCTTTGCTGCGT
*
39542569 TACTGTTACTGGCAGCTTTGGTGCGT
1 TACTGTTACTGGCAGCTTTGCTGCGT
* * *
39542595 CACTATCACTGGCAGCTTTGCTGCG
1 TACTGTTACTGGCAGCTTTGCTGCG
39542620 ATATTGGTTA
Statistics
Matches: 62, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
26 48 0.77
27 14 0.23
ACGTcount: A:0.17, C:0.23, G:0.24, T:0.36
Consensus pattern (26 bp):
TACTGTTACTGGCAGCTTTGCTGCGT
Found at i:39542769 original size:28 final size:30
Alignment explanation
Indices: 39542729--39542813 Score: 111
Period size: 30 Copynumber: 2.9 Consensus size: 30
39542719 CATTGCATTG
39542729 ATTACTGTATTGGGCTAAGGCCC-C-CACT
1 ATTACTGTATTGGGCTAAGGCCCACACACT
*
39542757 ATTACTGTATTGGGATAAGGCCCACACACT
1 ATTACTGTATTGGGCTAAGGCCCACACACT
* * * *
39542787 GTTATTGTAATGGGCTAAGGCTCACAC
1 ATTACTGTATTGGGCTAAGGCCCACAC
39542814 TGTACTGATA
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
28 22 0.45
29 1 0.02
30 26 0.53
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (30 bp):
ATTACTGTATTGGGCTAAGGCCCACACACT
Found at i:39543628 original size:17 final size:17
Alignment explanation
Indices: 39543608--39543643 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
39543598 CTTAAATTAG
* *
39543608 GGAAAACTAAGACTGTA
1 GGAAAACGAAAACTGTA
39543625 GGAAAACGAAAACTGTA
1 GGAAAACGAAAACTGTA
39543642 GG
1 GG
39543644 TAGACTCTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.11, G:0.28, T:0.14
Consensus pattern (17 bp):
GGAAAACGAAAACTGTA
Found at i:39547139 original size:28 final size:27
Alignment explanation
Indices: 39547080--39547147 Score: 77
Period size: 27 Copynumber: 2.5 Consensus size: 27
39547070 AATGAATGCA
*
39547080 TTTAATATGTCTTAGTTAATACATGTC
1 TTTAATTTGTCTTAGTTAATACATGTC
* *
39547107 ATTAATTTGTCTTAGCTTATTACATGAT-
1 TTTAATTTGTCTTAG-TTAATACATG-TC
39547135 TTTAATTTG-CTTA
1 TTTAATTTGTCTTA
39547148 AGTTCCTGCC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
27 17 0.49
28 17 0.49
29 1 0.03
ACGTcount: A:0.28, C:0.10, G:0.10, T:0.51
Consensus pattern (27 bp):
TTTAATTTGTCTTAGTTAATACATGTC
Found at i:39548424 original size:20 final size:20
Alignment explanation
Indices: 39548377--39548424 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
39548367 CAAAAAAATT
39548377 ATTATT-TTGTATTCAAGCA
1 ATTATTATTGTATTCAAGCA
39548396 ATTCA-TATTGTATTCAA-CA
1 ATT-ATTATTGTATTCAAGCA
39548415 AGTTATTATT
1 A-TTATTATT
39548425 AGAAAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
19 8 0.32
20 17 0.68
ACGTcount: A:0.33, C:0.10, G:0.08, T:0.48
Consensus pattern (20 bp):
ATTATTATTGTATTCAAGCA
Found at i:39549399 original size:17 final size:18
Alignment explanation
Indices: 39549366--39549421 Score: 71
Period size: 18 Copynumber: 3.1 Consensus size: 18
39549356 AATATGGGGT
*
39549366 GAAATTGAGAGAAGAAAAA
1 GAAATTGA-AAAAGAAAAA
39549385 TGAAA-T-AAAAAGAAAAA
1 -GAAATTGAAAAAGAAAAA
39549402 GAAATTGAAAAAGAAAAA
1 GAAATTGAAAAAGAAAAA
39549420 GA
1 GA
39549422 GAGTGAAAGA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
16 4 0.12
17 10 0.30
18 14 0.42
19 1 0.03
20 4 0.12
ACGTcount: A:0.70, C:0.00, G:0.20, T:0.11
Consensus pattern (18 bp):
GAAATTGAAAAAGAAAAA
Found at i:39549428 original size:18 final size:18
Alignment explanation
Indices: 39549377--39549429 Score: 65
Period size: 18 Copynumber: 3.0 Consensus size: 18
39549367 AAATTGAGAG
39549377 AAGAAAAATGAAA-T-AAA
1 AAGAAAAA-GAAAGTGAAA
*
39549394 AAGAAAAAGAAATTGAAA
1 AAGAAAAAGAAAGTGAAA
*
39549412 AAGAAAAAGAGAGTGAAA
1 AAGAAAAAGAAAGTGAAA
39549430 GAAAGGAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
16 4 0.12
17 9 0.28
18 19 0.59
ACGTcount: A:0.72, C:0.00, G:0.19, T:0.09
Consensus pattern (18 bp):
AAGAAAAAGAAAGTGAAA
Found at i:39554130 original size:138 final size:138
Alignment explanation
Indices: 39553931--39554493 Score: 833
Period size: 138 Copynumber: 4.1 Consensus size: 138
39553921 GAGAACATAG
* * *
39553931 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTAATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTATATATATATTACTGAATTAATT
* * * *
39553996 AATATAAACATTTATATTAATTAAATTCGGTCAAAATATAAAAAACATGAAAATTAATATTCTTT
66 AATATAAACAGTTATATTAATTAATTTCGATCAAAATATAAAAGACATGAAAATTAATATTCTTT
39554061 TGGAAAGA
131 TGGAAAGA
* * * *
39554069 ATACAATTAATATATAAATTTTATTCATATAAAATATTAATTATATATATATTACTGAATTAATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTATATATATATTACTGAATTAATT
* *
39554134 AATATAAACAGTTATATTAATTAATTTCGATCAAAATATAAAAGGCATGGAAATTAATATTCTTT
66 AATATAAACAGTTATATTAATTAATTTCGATCAAAATATAAAAGACATGAAAATTAATATTCTTT
*
39554199 TGGAAATA
131 TGGAAAGA
* * *
39554207 ATATAATTAAT-TATGAATTTGATTCATACAAAATATTAATTTTATATATTTTACGGAATTAATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTATATATATATTACTGAATTAATT
* * * * *
39554271 AATGTAAACAGTTATAATAATTAATTTCGGTCAAAATATAAAAGACATGGAGATTAATATTCTTT
66 AATATAAACAGTTATATTAATTAATTTCGATCAAAATATAAAAGACATGAAAATTAATATTCTTT
39554336 TGGAAAGA
131 TGGAAAGA
39554344 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTATATATATATATATTACTGAATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATT-A--AT-TATATATATATTACTGAATT
* * *
39554409 TATTAATATAAACATTTATATTAATTAATTTCGATCAAAATATAAAAGACAT-AGAAGTTAATAT
62 AATTAATATAAACAGTTATATTAATTAATTTCGATCAAAATATAAAAGACATGA-AAATTAATAT
*
39554473 TCTTTTGCAAAGA
126 TCTTTTGGAAAGA
39554486 ATATAATT
1 ATATAATT
39554494 CATTTTTCTA
Statistics
Matches: 380, Mismatches: 39, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
137 125 0.33
138 160 0.42
139 1 0.00
141 2 0.01
142 92 0.24
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.40
Consensus pattern (138 bp):
ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTATATATATATTACTGAATTAATT
AATATAAACAGTTATATTAATTAATTTCGATCAAAATATAAAAGACATGAAAATTAATATTCTTT
TGGAAAGA
Found at i:39554491 original size:279 final size:276
Alignment explanation
Indices: 39553931--39554493 Score: 903
Period size: 275 Copynumber: 2.0 Consensus size: 276
39553921 GAGAACATAG
39553931 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTAATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTAATT
* *
39553996 AATATAAACATTTATATTAATTAAATTCGGTCAAAATATAAAAAACATGAAAATTAATATTCTTT
66 AATATAAACAGTTATAATAATTAAATTCGGTCAAAATATAAAAAACATGAAAATTAATATTCTTT
* *
39554061 TGGAAAGAATACAATTAATATATAAATTTTATTCATATAAAATATTAATTATATATATATTACTG
131 TGGAAAGAATACAATTAATATATAAATTTGATTCATACAAAATATTAATTATATATATATTACTG
* *
39554126 AATTAATTAATATAAACAGTTATATTAATTAATTTCGATCAAAATATAAAAGGCATGGAAATTAA
196 AATTAATTAATATAAACAGTTATATTAATTAATTTCGATCAAAATATAAAAGACATAGAAATTAA
* *
39554191 TATTCTTTTGGAAATA
261 TATTCTTTTGCAAAGA
* *
39554207 ATATAATTAAT-TATGAATTTGATTCATACAAAATATTAATTTTATATATTTTACGGAATTAATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTAATT
* * * * *
39554271 AATGTAAACAGTTATAATAATTAATTTCGGTCAAAATATAAAAGACATGGAGATTAATATTCTTT
66 AATATAAACAGTTATAATAATTAAATTCGGTCAAAATATAAAAAACATGAAAATTAATATTCTTT
* *
39554336 TGGAAAGAATATAATTAATATATGAATTTGATTCATACAAAATATTAATTATATATATATATATT
131 TGGAAAGAATACAATTAATATATAAATTTGATTCATACAAAATATT-A--AT-TATATATATATT
* * *
39554401 ACTGAATTTATTAATATAAACATTTATATTAATTAATTTCGATCAAAATATAAAAGACATAGAAG
192 ACTGAATTAATTAATATAAACAGTTATATTAATTAATTTCGATCAAAATATAAAAGACATAGAAA
39554466 TTAATATTCTTTTGCAAAGA
257 TTAATATTCTTTTGCAAAGA
39554486 ATATAATT
1 ATATAATT
39554494 CATTTTTCTA
Statistics
Matches: 263, Mismatches: 20, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
275 151 0.57
276 12 0.05
278 2 0.01
279 98 0.37
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.40
Consensus pattern (276 bp):
ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTAATT
AATATAAACAGTTATAATAATTAAATTCGGTCAAAATATAAAAAACATGAAAATTAATATTCTTT
TGGAAAGAATACAATTAATATATAAATTTGATTCATACAAAATATTAATTATATATATATTACTG
AATTAATTAATATAAACAGTTATATTAATTAATTTCGATCAAAATATAAAAGACATAGAAATTAA
TATTCTTTTGCAAAGA
Found at i:39555931 original size:50 final size:50
Alignment explanation
Indices: 39555856--39556052 Score: 191
Period size: 51 Copynumber: 3.9 Consensus size: 50
39555846 GTGAAGTTGC
* *
39555856 TAGGTCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCGGAATAA
1 TAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATAA
* * * * *
39555906 TAGGTCGCATGTGTAGTACTATGTGTAGGCTACTATGCGTACCGG-ATAGCT
1 TAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATA--A
* * * * **
39555957 TCGATCACGTGTGTAGTACCATGTGCAGGCTACTACGTGTA-TTGAATGAA
1 TAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAAT-AA
* * * *
39556007 AATGGTCACATGTGTAGTACTATGTGCAAGCTACTATGTGAACCGG
1 TA-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGG
39556053 GTATCATTTT
Statistics
Matches: 115, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
49 3 0.03
50 42 0.37
51 68 0.59
52 2 0.02
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.30
Consensus pattern (50 bp):
TAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATAA
Found at i:39559637 original size:77 final size:76
Alignment explanation
Indices: 39559552--39559728 Score: 241
Period size: 77 Copynumber: 2.3 Consensus size: 76
39559542 TGAAAATTTA
* *
39559552 TGAAGATAAAGTTTATATTAGCATATATCTTGCACATTTTAATTTTTCA-AAATTTATATA-TTT
1 TGAAGATAAA-TTTATATTAACATATATATTGCACATTTTAATTTTT-ATAAATTTATATATTTT
39559615 CCGAATTTATCTTG
64 CC-AATTTATCTTG
* * **
39559629 TGAAGATAAAATTTATATTAACATTTATATTGCATATTTTAATTTTTATTTATTTATATATTTTC
1 TGAAGAT-AAATTTATATTAACATATATATTGCACATTTTAATTTTTATAAATTTATATATTTTC
39559694 CAATTTATCTTG
65 CAATTTATCTTG
*
39559706 TGAAGATAAATTTATATTGACAT
1 TGAAGATAAATTTATATTAACAT
39559729 TTTCACATTG
Statistics
Matches: 90, Mismatches: 7, Indels: 7
0.87 0.07 0.07
Matches are distributed among these distances:
76 16 0.18
77 66 0.73
78 8 0.09
ACGTcount: A:0.35, C:0.08, G:0.08, T:0.49
Consensus pattern (76 bp):
TGAAGATAAATTTATATTAACATATATATTGCACATTTTAATTTTTATAAATTTATATATTTTCC
AATTTATCTTG
Found at i:39559758 original size:77 final size:77
Alignment explanation
Indices: 39559552--39559751 Score: 214
Period size: 77 Copynumber: 2.6 Consensus size: 77
39559542 TGAAAATTTA
* * * * * **
39559552 TGAAGATAAAGTTTATATTAGCATATATC-TTGCACATTTTAATTTTTCA-AAATTTATATATTT
1 TGAAGATAAAATTTATATTAACATTTA-CATTGCATATTTGAATTTTT-ATTTATTTATATATTT
39559615 CCGAATTTATCTTG
64 CCGAATTTATCTTG
* *
39559629 TGAAGATAAAATTTATATTAACATTTATATTGCATATTTTAATTTTTATTTATTTATATATTTTC
1 TGAAGATAAAATTTATATTAACATTTACATTGCATATTTGAATTTTTATTTATTTATATA-TTTC
39559694 C-AATTTATCTTG
65 CGAATTTATCTTG
* *
39559706 TGAAGAT-AAATTTATATTGACATTTTCACATTG-GT-TTTGAATTTTT
1 TGAAGATAAAATTTATATTAACA-TTT-ACATTGCATATTTGAATTTTT
39559752 TCTTTATCCA
Statistics
Matches: 107, Mismatches: 11, Indels: 11
0.83 0.09 0.09
Matches are distributed among these distances:
76 25 0.23
77 72 0.67
78 10 0.09
ACGTcount: A:0.33, C:0.08, G:0.09, T:0.51
Consensus pattern (77 bp):
TGAAGATAAAATTTATATTAACATTTACATTGCATATTTGAATTTTTATTTATTTATATATTTCC
GAATTTATCTTG
Found at i:39562775 original size:22 final size:24
Alignment explanation
Indices: 39562732--39562775 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
39562722 TGATTATATG
39562732 TTTTGATATAACAAATTAAAATGT
1 TTTTGATATAACAAATTAAAATGT
*
39562756 TTTTGA-ATAA-AAGTTAAAAT
1 TTTTGATATAACAAATTAAAAT
39562776 TGAACAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.48, C:0.02, G:0.09, T:0.41
Consensus pattern (24 bp):
TTTTGATATAACAAATTAAAATGT
Found at i:39566716 original size:3 final size:3
Alignment explanation
Indices: 39566708--39566734 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
39566698 TCTTGTATTA
39566708 ATG ATG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG
39566735 TACAAAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:39567793 original size:20 final size:20
Alignment explanation
Indices: 39567768--39567820 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
39567758 AGCTACACCC
*
39567768 AAAATATCGATACTTTTATA
1 AAAATATCGATACTTGTATA
*
39567788 AAAATATTGATACTTGTATA
1 AAAATATCGATACTTGTATA
39567808 AAAATATCGATAC
1 AAAATATCGATAC
39567821 ATATTGGGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.47, C:0.09, G:0.08, T:0.36
Consensus pattern (20 bp):
AAAATATCGATACTTGTATA
Found at i:39569916 original size:22 final size:24
Alignment explanation
Indices: 39569876--39569919 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
39569866 TGATAATATG
39569876 TTTTGATATAAAAAATTAAAATGT
1 TTTTGATATAAAAAATTAAAATGT
*
39569900 TTTTGA-AT-AAAAGTTAAAAT
1 TTTTGATATAAAAAATTAAAAT
39569920 TGAAAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 11 0.58
23 2 0.11
24 6 0.32
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (24 bp):
TTTTGATATAAAAAATTAAAATGT
Found at i:39572752 original size:16 final size:16
Alignment explanation
Indices: 39572731--39572764 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
39572721 ATATTTAAAG
*
39572731 ATTTTATAAATTTATA
1 ATTTTATAAATTAATA
*
39572747 ATTTTATTAATTAATA
1 ATTTTATAAATTAATA
39572763 AT
1 AT
39572765 ATGTTATGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
ATTTTATAAATTAATA
Found at i:39578254 original size:24 final size:24
Alignment explanation
Indices: 39578222--39578281 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
39578212 CTCACTGCTG
* *
39578222 TGTGTCAGGCCGTGTGGTGGGACA
1 TGTGCCAGGCCGTGTGGTAGGACA
* *
39578246 TGTGCCAGGCCATGTGGTAGGCCA
1 TGTGCCAGGCCGTGTGGTAGGACA
*
39578270 TGTGCTAGGCCG
1 TGTGCCAGGCCG
39578282 AGTGTTGAGC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.13, C:0.22, G:0.42, T:0.23
Consensus pattern (24 bp):
TGTGCCAGGCCGTGTGGTAGGACA
Found at i:39578259 original size:12 final size:12
Alignment explanation
Indices: 39578244--39578280 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
39578234 TGTGGTGGGA
*
39578244 CATGTGCCAGGC
1 CATGTGCTAGGC
*
39578256 CATGTGGTAGGC
1 CATGTGCTAGGC
39578268 CATGTGCTAGGC
1 CATGTGCTAGGC
39578280 C
1 C
39578281 GAGTGTTGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.16, C:0.27, G:0.35, T:0.22
Consensus pattern (12 bp):
CATGTGCTAGGC
Found at i:39583080 original size:27 final size:27
Alignment explanation
Indices: 39583035--39583086 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
39583025 AAGACAAGGA
*
39583035 GAGAAAGGAAGATCGAAACAAGAAAGC
1 GAGAAAGGAAGATCAAAACAAGAAAGC
* * *
39583062 GAGAAAGGAATATTAAAACACGAAA
1 GAGAAAGGAAGATCAAAACAAGAAA
39583087 AAAACCATAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.58, C:0.10, G:0.25, T:0.08
Consensus pattern (27 bp):
GAGAAAGGAAGATCAAAACAAGAAAGC
Found at i:39591229 original size:25 final size:25
Alignment explanation
Indices: 39591200--39591316 Score: 78
Period size: 25 Copynumber: 4.8 Consensus size: 25
39591190 CCTCTCTTGG
39591200 GCCATATAACGGGAAGCTCATGTGA
1 GCCATATAACGGGAAGCTCATGTGA
* * *
39591225 GCCATGTAACGGGAAGCTTATCT-A
1 GCCATATAACGGGAAGCTCATGTGA
** * ***
39591249 GACTGTATAACGGGAATCTCATAAAA
1 G-CCATATAACGGGAAGCTCATGTGA
* ** *
39591275 GCCATA-ATCAAGAAGCTCATGCGA
1 GCCATATAACGGGAAGCTCATGTGA
*
39591299 GCCA-ATAACGGGTAGCTC
1 GCCATATAACGGGAAGCTC
39591317 CGAAGAGCCA
Statistics
Matches: 66, Mismatches: 23, Indels: 7
0.69 0.24 0.07
Matches are distributed among these distances:
23 1 0.02
24 25 0.38
25 38 0.58
26 2 0.03
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.21
Consensus pattern (25 bp):
GCCATATAACGGGAAGCTCATGTGA
Found at i:39591436 original size:26 final size:26
Alignment explanation
Indices: 39591382--39591430 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
39591372 AGCCATATTG
* *
39591382 GGAAGCTC-CGAAGGGCCATTAATTA
1 GGAAGCTCACAAAGAGCCATTAATTA
*
39591407 GGAAGCTCACAAAGAGCCTTTAAT
1 GGAAGCTCACAAAGAGCCATTAAT
39591431 CTGGAACCTC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 8 0.40
26 12 0.60
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.20
Consensus pattern (26 bp):
GGAAGCTCACAAAGAGCCATTAATTA
Found at i:39599482 original size:101 final size:102
Alignment explanation
Indices: 39599362--39599555 Score: 293
Period size: 101 Copynumber: 1.9 Consensus size: 102
39599352 AAAATGATGG
** *
39599362 TCACGTGTGTAGTACTATGTGCAGGCTACTACATGTACCGGAATGAT-A-GGTCGCATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACATGTACCGG-ATGATAATGGTAACATATGTAGT
*
39599425 ACTATGTGCAGGCTACTATGAGTACCGAATAGTTTCGA
65 ACTATGTGCAGGCTACTATGAGAACCGAATAGTTTCGA
* * *
39599463 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGTAATGGTAACATATGTAGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACATGTACCGGATGATAATGGTAACATATGTAGTA
*
39599528 CTATGTGCAGGCTACTATGTGAACCGAA
66 CTATGTGCAGGCTACTATGAGAACCGAA
39599556 CATCATTGAT
Statistics
Matches: 83, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
100 4 0.05
101 40 0.48
102 39 0.47
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACATGTACCGGATGATAATGGTAACATATGTAGTA
CTATGTGCAGGCTACTATGAGAACCGAATAGTTTCGA
Done.