Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032255.1 Gossypioides kirkii chromosome KI_13
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: 42971368
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 12 of 143
Found at i:3719996 original size:237 final size:235
Alignment explanation
Indices: 3719549--3720266 Score: 863
Period size: 237 Copynumber: 3.0 Consensus size: 235
3719539 TCAGATCTTT
* *
3719549 TTGAAGACCATTCAATCTTTTACCCTAACTAGAGGGTAGATTGAAGACCATCCAATTTCTTACCC
1 TTGAAGA-CAATCAATCTTTTACCCTAAC-AGAGGGTAGATTGAAGACCATCCAATCTCTTACCC
* * *
3719614 CGACCATGGGGCAGATTAAAGCAGTCCAATCTTTTACCCTAACTAGAGGGCAGATTGAAGTTATC
64 CGACCATGGGGCAGATTAAAGCAATCCAATCTTTTACCCTAACCAGAGGGCAGATTGAAGTAATC
* * *
3719679 CAATCTCTTACCCTGACCATGGGGCAGATTGAAGTAATTTAATCTTTTACCCTAACCAGAGGGCA
129 AAATCTTTTACCCTAACCATGGGGCAGATTGAAGTAATTTAATCTTTTACCCTAACCAGAGGGCA
* *
3719744 GATTGAAGACCATCCAATCTTTTACCCTAACCA-GAGGGCAAA
194 GATTAAAG-CCATCCAATCTTTTACCCCAACCATGAGGGCAAA
* * *
3719786 TTGAAGACTATCAGATCTTTTACCCTAATCAGAGGATAAATTGAAGACCATCCAATCTCTTACCC
1 TTGAAGACAATCA-ATCTTTTACCCTAA-CAGAGGGTAGATTGAAGACCATCCAATCTCTTACCC
* * *
3719851 CGATCATGGGGCAGATTAAAGTAATCCAATCTTTTACCCTAACCATG-GGGTAGATTGAAGTAAT
64 CGACCATGGGGCAGATTAAAGCAATCCAATCTTTTACCCTAACCA-GAGGGCAGATTGAAGTAA-
* * ** *
3719915 TCAAATCTTTTACCCTAACTA-GAGGGCAGATTAAAGTAATCCAATCTTTTACCCTAACCAGATG
127 TCAAATCTTTTACCCTAACCATG-GGGCAGATTGAAGTAATTTAATCTTTTACCCTAACCAGAGG
* * *
3719979 GCAGATTAAAGCCATCCAATCTTTTACCCCGACCATGGGGGCAGA
191 GCAGATTAAAGCCATCCAATCTTTTACCCCAACCATGAGGGCAAA
* * * *
3720024 TTGAAG-CAATCTAATCTTTTACCCTAACCAGAGGGCAGATTAAAGACTATCCGATCTCTTACCC
1 TTGAAGACAATC-AATCTTTTACCCTAA-CAGAGGGTAGATTGAAGACCATCCAATCTCTTACCC
* * * * *
3720088 CAACCATGAGGCAAATTGAAGCAATCCAATCTTTTACCCTAACCAGAGGGCAGATTAAAG-ACCA
64 CGACCATGGGGCAGATTAAAGCAATCCAATCTTTTACCCTAACCAGAGGGCAGATTGAAGTA--A
** * * *
3720152 TCTGATCTTTTACCCCAACCATGGGACAGATTGAAGTAATTTAGATCTTTTACCCTAACTAGAGG
127 TCAAATCTTTTACCCTAACCATGGGGCAGATTGAAGTAATTTA-ATCTTTTACCCTAACCAGAGG
* ** * * * *
3720217 GCAAATTAAAGTAATCCAGATCTCTTACCTCGACTATG-GGGCAAA
191 GCAGATTAAAGCCATCCA-ATCTTTTACCCCAACCATGAGGGCAAA
3720262 TTGAA
1 TTGAA
3720267 ACCATCAGAT
Statistics
Matches: 411, Mismatches: 57, Indels: 25
0.83 0.12 0.05
Matches are distributed among these distances:
236 6 0.01
237 262 0.64
238 127 0.31
239 16 0.04
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.27
Consensus pattern (235 bp):
TTGAAGACAATCAATCTTTTACCCTAACAGAGGGTAGATTGAAGACCATCCAATCTCTTACCCCG
ACCATGGGGCAGATTAAAGCAATCCAATCTTTTACCCTAACCAGAGGGCAGATTGAAGTAATCAA
ATCTTTTACCCTAACCATGGGGCAGATTGAAGTAATTTAATCTTTTACCCTAACCAGAGGGCAGA
TTAAAGCCATCCAATCTTTTACCCCAACCATGAGGGCAAA
Found at i:3720043 original size:277 final size:276
Alignment explanation
Indices: 3719561--3720245 Score: 826
Period size: 277 Copynumber: 2.5 Consensus size: 276
3719551 GAAGACCATT
* * * * * *
3719561 CAATCTTTTACCCTAACTAGAGGGTAGATTGAAGACCATCCAAT-TTCTTACCCCGACCATGGGG
1 CAATCTCTTACCCCAACCAGAGGGCAGATTAAAGA-CATCCAATCTT-TTACCCCAACCATGGGG
* * * * * *
3719625 CAGATTAAAG-CAGTCCAATCTTTTACCCTAACTAGAGGGCAGATTGAAGTTATCCAATCTCTTA
64 CAGATTGAAGTAATTCAAATCTTTTACCCTAACTAGAGGGCAGATTAAAGTAATCCAATCTCTTA
* * * ** *
3719689 CCCTGACCATGGGGCAGATTGAAGTAATTTAATCTTTTACCCTAACCAGAGGGCAGATTGAAGAC
129 CCCTAACCATGGGGCAGATTAAAGCAATCCAATCTTTTACCCCAACCAGAGGGCAGATTGAAGAC
* * * * *
3719754 CATCCAATCTTTTACCCTAACCAGAGGGCAAATTGAAGACTATCAGATCTTTTACCCTAATCA-G
194 AATCCAATCTTTTACCCTAACCAGAGGGCAAATTAAAGACTATCAGATCTCTTACCCCAACCATG
* *
3719818 AGGATAAATTGAAGACCATC
259 AGG-CAAATTGAAG-CAATC
* * *
3719838 CAATCTCTTACCCCGATCATG-GGGCAGATTAAAGTA-ATCCAATCTTTTACCCTAACCATGGGG
1 CAATCTCTTACCCCAACCA-GAGGGCAGATTAAAG-ACATCCAATCTTTTACCCCAACCATGGGG
* *
3719901 TAGATTGAAGTAATTCAAATCTTTTACCCTAACTAGAGGGCAGATTAAAGTAATCCAATCTTTTA
64 CAGATTGAAGTAATTCAAATCTTTTACCCTAACTAGAGGGCAGATTAAAGTAATCCAATCTCTTA
* * * *
3719966 CCCTAACCA-GATGGCAGATTAAAGCCATCCAATCTTTTACCCCGACCATGGGGGCAGATTGAAG
129 CCCTAACCATG-GGGCAGATTAAAGCAATCCAATCTTTTACCCCAACCA-GAGGGCAGATTGAAG
* * *
3720030 -CAATCTAATCTTTTACCCTAACCAGAGGGCAGATTAAAGACTATCCGATCTCTTACCCCAACCA
192 ACAATCCAATCTTTTACCCTAACCAGAGGGCAAATTAAAGACTATCAGATCTCTTACCCCAACCA
3720094 TGAGGCAAATTGAAGCAATC
257 TGAGGCAAATTGAAGCAATC
* * ** *
3720114 CAATCTTTTACCCTAACCAGAGGGCAGATTAAAGACCATCTGATCTTTTACCCCAACCATGGGAC
1 CAATCTCTTACCCCAACCAGAGGGCAGATTAAAGA-CATCCAATCTTTTACCCCAACCATGGGGC
* * *
3720179 AGATTGAAGTAATTTAGATCTTTTACCCTAACTAGAGGGCAAATTAAAGTAATCCAGATCTCTTA
65 AGATTGAAGTAATTCAAATCTTTTACCCTAACTAGAGGGCAGATTAAAGTAATCCA-ATCTCTTA
3720244 CC
129 CC
3720246 TCGACTATGG
Statistics
Matches: 347, Mismatches: 50, Indels: 21
0.83 0.12 0.05
Matches are distributed among these distances:
275 2 0.01
276 63 0.18
277 253 0.73
278 29 0.08
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.27
Consensus pattern (276 bp):
CAATCTCTTACCCCAACCAGAGGGCAGATTAAAGACATCCAATCTTTTACCCCAACCATGGGGCA
GATTGAAGTAATTCAAATCTTTTACCCTAACTAGAGGGCAGATTAAAGTAATCCAATCTCTTACC
CTAACCATGGGGCAGATTAAAGCAATCCAATCTTTTACCCCAACCAGAGGGCAGATTGAAGACAA
TCCAATCTTTTACCCTAACCAGAGGGCAAATTAAAGACTATCAGATCTCTTACCCCAACCATGAG
GCAAATTGAAGCAATC
Found at i:3720229 original size:40 final size:39
Alignment explanation
Indices: 3719561--3720245 Score: 579
Period size: 40 Copynumber: 17.3 Consensus size: 39
3719551 GAAGACCATT
* *
3719561 CAATCTTTTACCCTAACTAGAGGGTAGATTGAAG-ACCATC
1 CAATCTTTTACCCTAACCAGAGGGCAGATTGAAGTA--ATC
** * * *
3719601 CAAT-TTCTTACCCCGACCATG-GGGCAGATTAAAGCAGTC
1 CAATCTT-TTACCCTAACCA-GAGGGCAGATTGAAGTAATC
* *
3719640 CAATCTTTTACCCTAACTAGAGGGCAGATTGAAGTTATC
1 CAATCTTTTACCCTAACCAGAGGGCAGATTGAAGTAATC
* * *
3719679 CAATCTCTTACCCTGACCATG-GGGCAGATTGAAGTAATT
1 CAATCTTTTACCCTAACCA-GAGGGCAGATTGAAGTAATC
*
3719718 TAATCTTTTACCCTAACCAGAGGGCAGATTGAAG-ACCATC
1 CAATCTTTTACCCTAACCAGAGGGCAGATTGAAGTA--ATC
*
3719758 CAATCTTTTACCCTAACCAGAGGGCAAATTGAAG-ACTAT-
1 CAATCTTTTACCCTAACCAGAGGGCAGATTGAAGTA--ATC
* ** *
3719797 CAGATCTTTTACCCTAATCAGAGGATAAATTGAAG-ACCATC
1 CA-ATCTTTTACCCTAACCAGAGGGCAGATTGAAGTA--ATC
* ** * *
3719838 CAATCTCTTACCCCGATCATG-GGGCAGATTAAAGTAATC
1 CAATCTTTTACCCTAACCA-GAGGGCAGATTGAAGTAATC
*
3719877 CAATCTTTTACCCTAACCATG-GGGTAGATTGAAGTAATTC
1 CAATCTTTTACCCTAACCA-GAGGGCAGATTGAAGTAA-TC
* * *
3719917 AAATCTTTTACCCTAACTAGAGGGCAGATTAAAGTAATC
1 CAATCTTTTACCCTAACCAGAGGGCAGATTGAAGTAATC
* * **
3719956 CAATCTTTTACCCTAACCAGATGGCAGATTAAAGCCATC
1 CAATCTTTTACCCTAACCAGAGGGCAGATTGAAGTAATC
** * *
3719995 CAATCTTTTACCCCGACCATGGGGGCAGATTGAAGCAATC
1 CAATCTTTTACCCTAACCA-GAGGGCAGATTGAAGTAATC
* *
3720035 TAATCTTTTACCCTAACCAGAGGGCAGATTAAAG-ACTATC
1 CAATCTTTTACCCTAACCAGAGGGCAGATTGAAGTA--ATC
* * * * *
3720075 CGATCTCTTACCCCAACCATGA-GGCAAATTGAAGCAATC
1 CAATCTTTTACCCTAACCA-GAGGGCAGATTGAAGTAATC
*
3720114 CAATCTTTTACCCTAACCAGAGGGCAGATTAAAG-ACCATC
1 CAATCTTTTACCCTAACCAGAGGGCAGATTGAAGTA--ATC
** * * *
3720154 TGATCTTTTACCCCAACCATG-GGACAGATTGAAGTAATT
1 CAATCTTTTACCCTAACCA-GAGGGCAGATTGAAGTAATC
* * * *
3720193 TAGATCTTTTACCCTAACTAGAGGGCAAATTAAAGTAATC
1 CA-ATCTTTTACCCTAACCAGAGGGCAGATTGAAGTAATC
*
3720233 CAGATCTCTTACC
1 CA-ATCTTTTACC
3720246 TCGACTATGG
Statistics
Matches: 530, Mismatches: 88, Indels: 54
0.79 0.13 0.08
Matches are distributed among these distances:
38 7 0.01
39 228 0.43
40 284 0.54
41 11 0.02
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.27
Consensus pattern (39 bp):
CAATCTTTTACCCTAACCAGAGGGCAGATTGAAGTAATC
Found at i:3720271 original size:119 final size:116
Alignment explanation
Indices: 3719549--3720272 Score: 452
Period size: 119 Copynumber: 6.1 Consensus size: 116
3719539 TCAGATCTTT
* * * *
3719549 TTGAAGACCAT-TCAATCTTTTACCCTAACTAGAGGGTAGATTGAAG-ACCATCCA-AT-TTCTT
1 TTGAA-ACCATCT-AATCTTTTACCCTAACCAGAGGGCAGATTAAAGTA--ATTCAGATCTT-TT
** * * * * *
3719610 ACCCCGACCATGGGGCAGATTAAAGCAGTCCAATCTTTTACCCTAAC-TAGAGGGCAGA
61 ACCCTAACCA-GAGGCAAATTAAAGCAATCCAATCTTTTACCCGACCAT-G-GGGCAGA
*** * * * * *
3719668 TTGAAGTTATCCAATCTCTTACCCTGACCATG-GGGCAGATTGAAGTAATTTA-ATCTTTTACCC
1 TTGAAACCATCTAATCTTTTACCCTAACCA-GAGGGCAGATTAAAGTAATTCAGATCTTTTACCC
* * * * *
3719731 TAACCAGAGGGCAGATTGAAGACCATCCAATCTTTTACCCTAACCA-GAGGGCAAA
65 TAACCAGA-GGCAAATTAAAG-CAATCCAATCTTTTACCC-GACCATG-GGGCAGA
* * ** * * * *
3719786 TTGAAGACTATC-AGATCTTTTACCCTAATCAGAGGATAAATTGAAG-ACCATCCA-ATCTCTTA
1 TTGAA-ACCATCTA-ATCTTTTACCCTAACCAGAGGGCAGATTAAAGTA--ATTCAGATCTTTTA
** * * * * * *
3719848 CCCCGATCATGGGGCAGATTAAAGTAATCCAATCTTTTACCCTAACCATGGGGTAGA
62 CCCTAACCA-GAGGCAAATTAAAGCAATCCAATCTTTTACCC-GACCATGGGGCAGA
*** * * *
3719905 TTGAAGTAATTCAAATCTTTTACCCTAACTAGAGGGCAGATTAAAGTAATCCA-ATCTTTTACCC
1 TTGAAACCA-TCTAATCTTTTACCCTAACCAGAGGGCAGATTAAAGTAATTCAGATCTTTTACCC
* *
3719969 TAACCAGATGGCAGATTAAAGCCATCCAATCTTTTACCCCGACCATGGGGGCAGA
65 TAACCAGA-GGCAAATTAAAGCAATCCAATCTTTTA-CCCGACCAT-GGGGCAGA
* * * * *
3720024 TTGAAGCAATCTAATCTTTTACCCTAACCAGAGGGCAGATTAAAG-ACTATCCGATCTCTTACCC
1 TTGAAACCATCTAATCTTTTACCCTAACCAGAGGGCAGATTAAAGTAAT-TCAGATCTTTTACCC
* * *
3720088 CAACCATGAGGCAAATTGAAGCAATCCAATCTTTTACCCTAACCA-GAGGGCAGA
65 TAACCA-GAGGCAAATTAAAGCAATCCAATCTTTTACCC-GACCATG-GGGCAGA
* * * * * *
3720142 TTAAAGACCATCTGATCTTTTACCCCAACCATG-GGACAGATTGAAGTAATTTAGATCTTTTACC
1 TTGAA-ACCATCTAATCTTTTACCCTAACCA-GAGGGCAGATTAAAGTAATTCAGATCTTTTACC
* * * * *
3720206 CTAACTAGAGGGCAAATTAAAGTAATCCAGATCTCTTACCTCGACTATGGGGCAAA
64 CTAACCAGA-GGCAAATTAAAGCAATCCA-ATCTTTTACC-CGACCATGGGGCAGA
3720262 TTGAAACCATC
1 TTGAAACCATC
3720273 AGATTAAAGA
Statistics
Matches: 483, Mismatches: 89, Indels: 66
0.76 0.14 0.10
Matches are distributed among these distances:
116 1 0.00
117 30 0.06
118 163 0.34
119 229 0.47
120 57 0.12
121 3 0.01
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.27
Consensus pattern (116 bp):
TTGAAACCATCTAATCTTTTACCCTAACCAGAGGGCAGATTAAAGTAATTCAGATCTTTTACCCT
AACCAGAGGCAAATTAAAGCAATCCAATCTTTTACCCGACCATGGGGCAGA
Found at i:3723766 original size:42 final size:39
Alignment explanation
Indices: 3723720--3723808 Score: 97
Period size: 42 Copynumber: 2.2 Consensus size: 39
3723710 CTGCAACCGC
* * * * *
3723720 AAACGCAGCCGCTTTTCATGCAACCGCAGCCGCCGCCGAAAG
1 AAACGCAGACGCTGTTCATGCAA--AC-GCCGCCACAGAAAG
*
3723762 AAACGCAAACGCTGTTCATGCAAACGCCGCCACAGAAAG
1 AAACGCAGACGCTGTTCATGCAAACGCCGCCACAGAAAG
3723801 AAACGCAG
1 AAACGCAG
3723809 GCGCAAGTTA
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
39 19 0.47
40 1 0.03
42 20 0.50
ACGTcount: A:0.34, C:0.34, G:0.22, T:0.10
Consensus pattern (39 bp):
AAACGCAGACGCTGTTCATGCAAACGCCGCCACAGAAAG
Found at i:3728292 original size:30 final size:31
Alignment explanation
Indices: 3728258--3728326 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 31
3728248 GTTACATTTA
*
3728258 ACAAAACAGTAACTCAACTT-T-GAAAATGTG
1 ACAAAACAGTAACTAAACTTATCGAAAA-GTG
* *
3728288 ACAAAACAGTCACTAAAGTTATCGAAAAGTG
1 ACAAAACAGTAACTAAACTTATCGAAAAGTG
3728319 ACAAAACA
1 ACAAAACA
3728327 ATCATTTTGG
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
30 17 0.50
31 12 0.35
32 5 0.15
ACGTcount: A:0.51, C:0.17, G:0.13, T:0.19
Consensus pattern (31 bp):
ACAAAACAGTAACTAAACTTATCGAAAAGTG
Found at i:3742545 original size:15 final size:15
Alignment explanation
Indices: 3742525--3742556 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
3742515 TAAAAATACT
3742525 TATATTATATGAAAA
1 TATATTATATGAAAA
*
3742540 TATATTATATTAAAA
1 TATATTATATGAAAA
3742555 TA
1 TA
3742557 ATCTAAACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (15 bp):
TATATTATATGAAAA
Found at i:3744490 original size:29 final size:30
Alignment explanation
Indices: 3744437--3744495 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
3744427 ATGATTTTAG
*
3744437 AAAATTGAACCAAATAAAAATTTTATGTAT
1 AAAATTGAACAAAATAAAAATTTTATGTAT
*
3744467 AAAATTGTACAAAATAAAAA-TTTATGTAT
1 AAAATTGAACAAAATAAAAATTTTATGTAT
3744496 GACATCGCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 9 0.33
30 18 0.67
ACGTcount: A:0.54, C:0.05, G:0.07, T:0.34
Consensus pattern (30 bp):
AAAATTGAACAAAATAAAAATTTTATGTAT
Found at i:3745179 original size:6 final size:6
Alignment explanation
Indices: 3745158--3745222 Score: 57
Period size: 6 Copynumber: 11.0 Consensus size: 6
3745148 TAAATTCATT
* *
3745158 TTTAAA TTT--A TCTTAAA TTTAAA TTTAGTTA TTTAAA TTT-AT TTTAAA
1 TTTAAA TTTAAA T-TTAAA TTTAAA TTTA--AA TTTAAA TTTAAA TTTAAA
3745206 TTTAAA TTT-AA TTTAAA
1 TTTAAA TTTAAA TTTAAA
3745223 ATAATATTAA
Statistics
Matches: 48, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
4 2 0.04
5 11 0.23
6 28 0.58
7 2 0.04
8 5 0.10
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (6 bp):
TTTAAA
Found at i:3745180 original size:17 final size:17
Alignment explanation
Indices: 3745158--3745215 Score: 77
Period size: 17 Copynumber: 3.6 Consensus size: 17
3745148 TAAATTCATT
3745158 TTTAAATTTATCTTAAA
1 TTTAAATTTATCTTAAA
*
3745175 TTTAAATTTA-GTT--A
1 TTTAAATTTATCTTAAA
*
3745189 TTTAAATTTATTTTAAA
1 TTTAAATTTATCTTAAA
3745206 TTTAAATTTA
1 TTTAAATTTA
3745216 ATTTAAAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
14 11 0.31
15 2 0.06
16 2 0.06
17 21 0.58
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (17 bp):
TTTAAATTTATCTTAAA
Found at i:3745193 original size:14 final size:12
Alignment explanation
Indices: 3745174--3745220 Score: 53
Period size: 11 Copynumber: 3.9 Consensus size: 12
3745164 TTTATCTTAA
3745174 ATTTAAATTTAGTT
1 ATTTAAATTTA--T
3745188 ATTTAAATTTAT
1 ATTTAAATTTAT
*
3745200 -TTTAAATTTAA
1 ATTTAAATTTAT
3745211 ATTT-AATTTA
1 ATTTAAATTTA
3745221 AAATAATATT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
11 16 0.52
12 4 0.13
14 11 0.35
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (12 bp):
ATTTAAATTTAT
Found at i:3745196 original size:31 final size:29
Alignment explanation
Indices: 3745146--3745224 Score: 104
Period size: 31 Copynumber: 2.7 Consensus size: 29
3745136 TTGAATTGAT
*
3745146 TTTAAATTCATTTTTAAATTTATCTTAAA
1 TTTAAATTTATTTTTAAATTTATCTTAAA
*
3745175 TTTAAATTTAGTTATTTAAATTTATTTTAAA
1 TTTAAATTTA-TT-TTTAAATTTATCTTAAA
* *
3745206 TTTAAATTTAATTTAAAAT
1 TTTAAATTTATTTTTAAAT
3745225 AATATTAAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
29 15 0.34
30 3 0.07
31 26 0.59
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.56
Consensus pattern (29 bp):
TTTAAATTTATTTTTAAATTTATCTTAAA
Found at i:3745821 original size:15 final size:15
Alignment explanation
Indices: 3745801--3745836 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
3745791 TCAAATACAT
3745801 TAATAATGCTAATAA
1 TAATAATGCTAATAA
* *
3745816 TAATAATGGTATTAA
1 TAATAATGCTAATAA
3745831 TAATAA
1 TAATAA
3745837 AGGGCAGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.53, C:0.03, G:0.08, T:0.36
Consensus pattern (15 bp):
TAATAATGCTAATAA
Found at i:3746081 original size:16 final size:16
Alignment explanation
Indices: 3746060--3746093 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
3746050 GTCTTGAATC
3746060 TTTTTCCAGATCTGGG
1 TTTTTCCAGATCTGGG
3746076 TTTTTCCAGATCTGGG
1 TTTTTCCAGATCTGGG
3746092 TT
1 TT
3746094 CGGTTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.12, C:0.18, G:0.24, T:0.47
Consensus pattern (16 bp):
TTTTTCCAGATCTGGG
Found at i:3746988 original size:29 final size:27
Alignment explanation
Indices: 3746956--3747303 Score: 103
Period size: 29 Copynumber: 12.0 Consensus size: 27
3746946 GTTTATAGGT
*
3746956 CCCCGAAACTTCCAAAATTGCCATTTTA
1 CCCCCAAACTTCCAAAATT-CCATTTTA
** *
3746984 CCCCCAAACCTTTTAAAATTCAATTTTTAA
1 CCCCCAAA-CTTCCAAAATTCCA-TTTT-A
*
3747014 CCCCAAAACTTCCAAAAATTACCATTTTA
1 CCCCCAAACTTCC-AAAATT-CCATTTTA
* * *
3747043 CCCCCTAACTTTTCGAAATTCCATTTTTA
1 CCCCCAAAC-TTCCAAAATTCCA-TTTTA
* * * *
3747072 ACCTC-GATTTCACCAAAAATTACCATTTTA
1 CCCCCAAACTT--CC-AAAATT-CCATTTTA
**
3747102 CCCCTGAACTTTCCAAAATTCCATTTTTA
1 CCCCCAAAC-TTCCAAAATTCCA-TTTTA
* * *
3747131 -ACCC-GATTTCACCAAAAATTACCATTTTA
1 CCCCCAAACTT--CC-AAAATT-CCATTTTA
* * *
3747160 CCCCCGAACTTTCTAAAATTTCATTTTTA
1 CCCCCAAAC-TTCCAAAATTCCA-TTTTA
* ** *
3747189 -ACCCTGATTTCACCAAAAATTACCATTTTA
1 CCCCCAAACTT--CC-AAAATT-CCATTTTA
* *
3747219 CCCCCGAACTTTCAAAATTCCATTTTTA
1 CCCCCAAACTTCCAAAATTCCA-TTTTA
* * *
3747247 ACCTC-AATTTCACCAAAAATTACCATTTTA
1 CCCCCAAACTT--CC-AAAATT-CCATTTTA
* **
3747277 CCCTCGAATTTTCCAAAATTCCATTTT
1 CCC-CCAAACTTCCAAAATTCCATTTT
3747304 TAACCCCGAT
Statistics
Matches: 235, Mismatches: 51, Indels: 68
0.66 0.14 0.19
Matches are distributed among these distances:
26 2 0.01
27 12 0.05
28 47 0.20
29 80 0.34
30 68 0.29
31 18 0.08
32 8 0.03
ACGTcount: A:0.33, C:0.29, G:0.03, T:0.35
Consensus pattern (27 bp):
CCCCCAAACTTCCAAAATTCCATTTTA
Found at i:3747432 original size:58 final size:59
Alignment explanation
Indices: 3746969--3747399 Score: 547
Period size: 59 Copynumber: 7.4 Consensus size: 59
3746959 CGAAACTTCC
* * * * * * *
3746969 AAAATTGCCATTTTACCCCCAAACCTTT-TAAAATTCAATTTTTAACCCCAAAACTT--CCA
1 AAAATTACCATTTTACCCCCGAA-CTTTCCAAAATTCCATTTTTAACCTC--GATTTCACCA
* * *
3747028 AAAATTACCATTTTACCCCCTAACTTTTCGAAATTCCATTTTTAACCTCGATTTCACCA
1 AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCA
*
3747087 AAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACC-CGATTTCACCA
1 AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCA
* *
3747145 AAAATTACCATTTTACCCCCGAACTTTCTAAAATTTCATTTTTAACC-CTGATTTCACCA
1 AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTC-GATTTCACCA
*
3747204 AAAATTACCATTTTACCCCCGAACTTT-CAAAATTCCATTTTTAACCTCAATTTCACCA
1 AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCA
* * * *
3747262 AAAATTACCATTTTACCCTCGAATTTTCCAAAATTCCATTTTTAACCCCGATTTCATCA
1 AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCA
* * * *
3747321 AAAATTACCATTTTACCCTCGAAGC-CTCAAAAATTCCA-TTTTAAACTCCGATTTCACC-
1 AAAATTACCATTTTACCCCCGAA-CTTTCCAAAATTCCATTTTTAACCT-CGATTTCACCA
3747379 AAAATTACCATTTTACCCCCG
1 AAAATTACCATTTTACCCCCG
3747400 GGTATCCAAA
Statistics
Matches: 334, Mismatches: 30, Indels: 17
0.88 0.08 0.04
Matches are distributed among these distances:
57 3 0.01
58 138 0.41
59 193 0.58
ACGTcount: A:0.33, C:0.29, G:0.03, T:0.35
Consensus pattern (59 bp):
AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCA
Found at i:3747432 original size:117 final size:115
Alignment explanation
Indices: 3746969--3747399 Score: 544
Period size: 117 Copynumber: 3.7 Consensus size: 115
3746959 CGAAACTTCC
* * * * * *** *
3746969 AAAATTGCCATTTTACCCCCAAACCTTTTAAAATTCAATTTTTAACCCCAAAACTTCCAAAAATT
1 AAAATTACCATTTTA-CCCCGAA-CTTTCAAAATTCCATTTTTAACCCGATTTC-ACCAAAAATT
* * *
3747034 ACCATTTTACCCCCTAACTTTTCGAAATTCCATTTTTAACCTCGATTTCACCA
63 ACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCA
3747087 AAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCCGATTTCACCAAAAATTA
1 AAAATTACCATTTTACCCC-GAACTTT-CAAAATTCCATTTTTAACCCGATTTCACCAAAAATTA
* *
3747152 CCATTTTACCCCCGAACTTTCTAAAATTTCATTTTTAACC-CTGATTTCACCA
64 CCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTC-GATTTCACCA
*
3747204 AAAATTACCATTTTACCCCCGAACTTTCAAAATTCCATTTTTAACCTCAATTTCACCAAAAATTA
1 AAAATTACCATTTTA-CCCCGAACTTTCAAAATTCCATTTTTAACC-CGATTTCACCAAAAATTA
* * * *
3747269 CCATTTTACCCTCGAATTTTCCAAAATTCCATTTTTAACCCCGATTTCATCA
64 CCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCA
* *
3747321 AAAATTACCATTTTACCCTCGAAGC-CTCAAAAATTCCATTTTAAACTCCGATTTCACC-AAAAT
1 AAAATTACCATTTTACCC-CGAA-CTTTC-AAAATTCCATTTTTAAC-CCGATTTCACCAAAAAT
3747384 TACCATTTTACCCCCG
62 TACCATTTTACCCCCG
3747400 GGTATCCAAA
Statistics
Matches: 279, Mismatches: 24, Indels: 21
0.86 0.07 0.06
Matches are distributed among these distances:
116 23 0.08
117 188 0.67
118 67 0.24
119 1 0.00
ACGTcount: A:0.33, C:0.29, G:0.03, T:0.35
Consensus pattern (115 bp):
AAAATTACCATTTTACCCCGAACTTTCAAAATTCCATTTTTAACCCGATTTCACCAAAAATTACC
ATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCA
Found at i:3759621 original size:77 final size:76
Alignment explanation
Indices: 3759485--3760209 Score: 1089
Period size: 76 Copynumber: 9.6 Consensus size: 76
3759475 ATCAGACCAC
* * * * *
3759485 AGCAAGATCTTTTCCTGTCCGCTTGAAATTGAAGTAGAG-TGGATAACATGTCTTTATCTCTGAA
1 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACACGTCTTTATCTCTGAA
*
3759549 ATTGAAGTAGG
66 ATTGAAGTAAG
*
3759560 AGCAAGATCATTTTCATATCCTCTTGAAATTGAAGTAAAGCTGGATAACACGTCTTTATCTCTGA
1 AGCAAGATCA-TTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACACGTCTTTATCTCTGA
3759625 AATTGAAGTAAG
65 AATTGAAGTAAG
*
3759637 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATACCACGTCTTTATCTCTGAA
1 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACACGTCTTTATCTCTGAA
*
3759702 ATTGAAGTAGG
66 ATTGAAGTAAG
* * * * * *
3759713 AGCAAGATCTTTTCCTGTTCGCTTGAAATTGGAGTAGAG-TGGATAACACGTCTTTATCTCTGAA
1 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACACGTCTTTATCTCTGAA
*
3759777 ATTGAAGTAGG
66 ATTGAAGTAAG
3759788 AGCAAGATCATTTCCATATCCTCTTGAAATTGAAGTAAAGCTGGATAACACGTCTTTATCTCTGA
1 AGCAAGATCATTTCC-TATCCTCTTGAAATTGAAGTAAAGCTGGATAACACGTCTTTATCTCTGA
3759853 AATTGAAGTAAG
65 AATTGAAGTAAG
*
3759865 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACACGTCTTTATCTCCGAA
1 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACACGTCTTTATCTCTGAA
3759930 ATTGAAGTAAG
66 ATTGAAGTAAG
* *
3759941 AGC-A-A-CA--T-C-ATCCTCTTGAAATTAAAG-AAGAG-T-GAAAACACGTCTTTATCTCTGA
1 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAA-AGCTGGATAACACGTCTTTATCTCTGA
3759996 AATTGAAGTAAG
65 AATTGAAGTAAG
*
3760008 AGTAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACACGTCTTTATCTCTGAA
1 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACACGTCTTTATCTCTGAA
3760073 ATTGAAGTAAG
66 ATTGAAGTAAG
* * * *
3760084 AGCAAGATCATTTTCATATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTTTGA
1 AGCAAGATCA-TTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACACGTCTTTATCTCTGA
*
3760149 AATTGAAATAAG
65 AATTGAAGTAAG
3760161 AGCAAGATCA-TTCCTCATCCTCTTGAAATTGAAGTAAAGCTGGATAACA
1 AGCAAGATCATTTCCT-ATCCTCTTGAAATTGAAGTAAAGCTGGATAACA
3760210 AGCCTTCGCC
Statistics
Matches: 594, Mismatches: 39, Indels: 33
0.89 0.06 0.05
Matches are distributed among these distances:
67 34 0.06
68 4 0.01
69 20 0.03
70 3 0.01
71 1 0.00
72 1 0.00
73 3 0.01
74 20 0.03
75 66 0.11
76 277 0.47
77 165 0.28
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (76 bp):
AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACACGTCTTTATCTCTGAA
ATTGAAGTAAG
Found at i:3760514 original size:31 final size:29
Alignment explanation
Indices: 3760464--3760529 Score: 96
Period size: 31 Copynumber: 2.2 Consensus size: 29
3760454 TTGAATTGAT
3760464 TTTAAATTCATTTTTAAATTTATCTTAAA
1 TTTAAATTCATTTTTAAATTTATCTTAAA
* *
3760493 TTTAAATTTACTTATTTAAATTTATTTTAAA
1 TTTAAATTCA-TT-TTTAAATTTATCTTAAA
3760524 TTTAAA
1 TTTAAA
3760530 CTTAATTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
29 9 0.27
30 2 0.06
31 22 0.67
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (29 bp):
TTTAAATTCATTTTTAAATTTATCTTAAA
Found at i:3760538 original size:17 final size:17
Alignment explanation
Indices: 3760506--3760540 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
3760496 AAATTTACTT
* *
3760506 ATTTAAATTTATTTTAA
1 ATTTAAACTTAATTTAA
3760523 ATTTAAACTTAATTTAA
1 ATTTAAACTTAATTTAA
3760540 A
1 A
3760541 ATAATATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (17 bp):
ATTTAAACTTAATTTAA
Found at i:3761138 original size:15 final size:15
Alignment explanation
Indices: 3761118--3761153 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
3761108 TCAAATACAT
3761118 TAATAATGCTAATAA
1 TAATAATGCTAATAA
* *
3761133 TAATAATGGTATTAA
1 TAATAATGCTAATAA
3761148 TAATAA
1 TAATAA
3761154 AGGGCAGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.53, C:0.03, G:0.08, T:0.36
Consensus pattern (15 bp):
TAATAATGCTAATAA
Found at i:3761397 original size:16 final size:16
Alignment explanation
Indices: 3761376--3761409 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
3761366 GTCTTGAATC
3761376 TTTTTCCAGATCTGGG
1 TTTTTCCAGATCTGGG
3761392 TTTTTCCAGATCTGGG
1 TTTTTCCAGATCTGGG
3761408 TT
1 TT
3761410 CGGTTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.12, C:0.18, G:0.24, T:0.47
Consensus pattern (16 bp):
TTTTTCCAGATCTGGG
Found at i:3762437 original size:59 final size:59
Alignment explanation
Indices: 3762307--3762712 Score: 488
Period size: 58 Copynumber: 6.9 Consensus size: 59
3762297 CAAAACTTCC
* *
3762307 AAAATTACCATTTTACCCCCAAACCTTT-TAAAATTCCA-TTTTAACCCCGAAACTT--CCA
1 AAAATTACCATTTTACCCCCAAA-CTTTCCAAAATTCCATTTTTAACCCCG--ATTTCACCA
* *
3762365 AAAATTACCATTTTACCCCCTAACTTTCTAAAATTCCATTTTTAACCCCGATTTCACCA
1 AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCA
* *
3762424 AAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACAA
1 AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCA
3762483 AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAA-CCCGATTTCACCA
1 AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCA
* * * * *
3762541 AAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCA-TTTTAACCCCAATTTTATCA
1 AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCA
* * * * * *
3762599 AAAATTACCATTTTACCCTCGAAGCCTT-AAAAATTCCATTTTTAACCTCGATTTAACC-
1 AAAATTACCATTTTACCC-CCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCA
* * * * * * *
3762657 AAAATTACCATTTTGCCCCC-GAGTATCCAAAAGTCCCGTTTTCAACCCCGATTTCA
1 AAAATTACCATTTTACCCCCAAACTTTCCAAAA-TTCCATTTTTAACCCCGATTTCA
3762713 TCGTTTCTTA
Statistics
Matches: 303, Mismatches: 36, Indels: 18
0.85 0.10 0.05
Matches are distributed among these distances:
56 1 0.00
57 18 0.06
58 152 0.50
59 132 0.44
ACGTcount: A:0.34, C:0.30, G:0.03, T:0.33
Consensus pattern (59 bp):
AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCA
Found at i:3762536 original size:117 final size:115
Alignment explanation
Indices: 3762307--3762675 Score: 487
Period size: 117 Copynumber: 3.2 Consensus size: 115
3762297 CAAAACTTCC
* * *
3762307 AAAATTACCATTTTACCCCCAAACCTTT-TAAAATTCCATTTTAACCCCGAAACTTC-CAAAAAT
1 AAAATTACCATTTTACCCCTAAA-CTTTCCAAAATTCCATTTTAACCCCG--ATTTCACAAAAAT
* *
3762370 TACCATTTTACCCCCTAACTTTCTAAAATTCCATTTTTAACCCCGATTTCACCA
63 TACCATTTTACCCCCAAACTTTCAAAAATTCCATTTTTAA-CCCGATTTCACCA
3762424 AAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACAAAAAATT
1 AAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCA-TTTTAACCCCGATTTCAC-AAAAATT
*
3762489 ACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCGATTTCACCA
64 ACCATTTTACCCCCAAACTTTCAAAAATTCCATTTTTAACCCGATTTCACCA
* * *
3762541 AAAATTACCATTTTA-CCCTCGAACTTTCCAAAATTCCATTTTAACCCCAATTTTATCAAAAATT
1 AAAATTACCATTTTACCCCT-AAACTTTCCAAAATTCCATTTTAACCCCGATTTCA-CAAAAATT
* * * *
3762605 ACCATTTTACCCTCGAAGCCTT-AAAAATTCCATTTTTAACCTCGATTTAACC-
64 ACCATTTTACCC-CCAAACTTTCAAAAATTCCATTTTTAACC-CGATTTCACCA
*
3762657 AAAATTACCATTTTGCCCC
1 AAAATTACCATTTTACCCC
3762676 CGAGTATCCA
Statistics
Matches: 229, Mismatches: 14, Indels: 18
0.88 0.05 0.07
Matches are distributed among these distances:
116 78 0.34
117 96 0.42
118 55 0.24
ACGTcount: A:0.34, C:0.29, G:0.02, T:0.34
Consensus pattern (115 bp):
AAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTAACCCCGATTTCACAAAAATTAC
CATTTTACCCCCAAACTTTCAAAAATTCCATTTTTAACCCGATTTCACCA
Found at i:3762630 original size:29 final size:28
Alignment explanation
Indices: 3762307--3762649 Score: 167
Period size: 29 Copynumber: 11.8 Consensus size: 28
3762297 CAAAACTTCC
* * *
3762307 AAAATTACCATTTTACCCCCAAACCTTT-T
1 AAAATT-CCATTTTACCCTCGAA-CTTTCA
*
3762336 AAAATTCCATTTTAACCC-CGAAACTTCCA
1 AAAATTCCATTTT-ACCCTCG-AACTTTCA
* * *
3762365 AAAATTACCATTTTACCCCCTAACTTTCT
1 AAAATT-CCATTTTACCCTCGAACTTTCA
3762394 AAAATTCCATTTTTAACCC-CG-A-TTTCACCA
1 AAAATTCCA-TTTT-ACCCTCGAACTTT---CA
* *
3762424 AAAATTACCATTTTACCC-CTAAACTTTCC
1 AAAATT-CCATTTTACCCTC-GAACTTTCA
3762453 AAAATTCCATTTTTAACCC-CG-A-TTTCACAA
1 AAAATTCCA-TTTT-ACCCTCGAACTTT--C-A
* * *
3762483 AAAATTACCATTTTACCCCCAAACTTTCC
1 AAAATT-CCATTTTACCCTCGAACTTTCA
*
3762512 AAAATTCCATTTTTAACC-CG-A-TTTCACCA
1 AAAATTCCA-TTTTACCCTCGAACTTT---CA
*
3762541 AAAATTACCATTTTACCCTCGAACTTTCC
1 AAAATT-CCATTTTACCCTCGAACTTTCA
*
3762570 AAAATTCCATTTTAACCC-C-AATTTTATCA
1 AAAATTCCATTTT-ACCCTCGAA-CTT-TCA
*
3762599 AAAATTACCATTTTACCCTCGAAGCCTT-A
1 AAAATT-CCATTTTACCCTCGAA-CTTTCA
*
3762628 AAAATTCCATTTTTAACCTCGA
1 AAAATTCCA-TTTTACCCTCGA
3762650 TTTAACCAAA
Statistics
Matches: 251, Mismatches: 25, Indels: 76
0.71 0.07 0.22
Matches are distributed among these distances:
26 3 0.01
27 9 0.04
28 36 0.14
29 128 0.51
30 54 0.22
31 12 0.05
32 9 0.04
ACGTcount: A:0.35, C:0.29, G:0.02, T:0.34
Consensus pattern (28 bp):
AAAATTCCATTTTACCCTCGAACTTTCA
Found at i:3767600 original size:24 final size:24
Alignment explanation
Indices: 3767573--3767619 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
3767563 AACAAATTTG
3767573 TGGATGGATTTGGCAACGATGGTA
1 TGGATGGATTTGGCAACGATGGTA
* * *
3767597 TGGATGGCTTTGGGAATGATGGT
1 TGGATGGATTTGGCAACGATGGT
3767620 TTAGGGAAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.21, C:0.06, G:0.40, T:0.32
Consensus pattern (24 bp):
TGGATGGATTTGGCAACGATGGTA
Found at i:3767680 original size:93 final size:93
Alignment explanation
Indices: 3767521--3767727 Score: 360
Period size: 93 Copynumber: 2.2 Consensus size: 93
3767511 TGATGGTAAG
*
3767521 GATGGTTTAGGGAAAGATGGCAATGGTGGGAATGTTTTTTTAAACAAATTTGTGGATGGATTTGG
1 GATGGTTTAGGGAAAGATGGCAATGGTGGGAATGTTTTTTTAAACAAACTTGTGGATGGATTTGG
3767586 CAACGATGGTATGGATGGCTTTGGGAAT
66 CAACGATGGTATGGATGGCTTTGGGAAT
* *
3767614 GATGGTTTAGGGAAAGATGGCAATGGTGGGAATGTTTTTTTAAGCAAACTTGTGGATGGGTTTGG
1 GATGGTTTAGGGAAAGATGGCAATGGTGGGAATGTTTTTTTAAACAAACTTGTGGATGGATTTGG
*
3767679 CAATGATGGTATGGATGGCTTTGGGAAT
66 CAACGATGGTATGGATGGCTTTGGGAAT
* *
3767707 GAGGGTCTAGGGAAAGATGGC
1 GATGGTTTAGGGAAAGATGGC
3767728 TTTTGGAATG
Statistics
Matches: 108, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 108 1.00
ACGTcount: A:0.26, C:0.06, G:0.37, T:0.31
Consensus pattern (93 bp):
GATGGTTTAGGGAAAGATGGCAATGGTGGGAATGTTTTTTTAAACAAACTTGTGGATGGATTTGG
CAACGATGGTATGGATGGCTTTGGGAAT
Found at i:3767728 original size:30 final size:30
Alignment explanation
Indices: 3767692--3767768 Score: 136
Period size: 30 Copynumber: 2.6 Consensus size: 30
3767682 TGATGGTATG
3767692 GATGGCTTTGGGAATGAGGGTCTAGGGAAA
1 GATGGCTTTGGGAATGAGGGTCTAGGGAAA
* *
3767722 GATGGCTTTTGGAATGAGGGTTTAGGGAAA
1 GATGGCTTTGGGAATGAGGGTCTAGGGAAA
3767752 GATGGCTTTGGGAATGA
1 GATGGCTTTGGGAATGA
3767769 TGGCAATGGT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.26, C:0.05, G:0.42, T:0.27
Consensus pattern (30 bp):
GATGGCTTTGGGAATGAGGGTCTAGGGAAA
Found at i:3767735 original size:15 final size:15
Alignment explanation
Indices: 3767692--3767772 Score: 67
Period size: 15 Copynumber: 5.4 Consensus size: 15
3767682 TGATGGTATG
*
3767692 GATGGCTTTGGGAAT
1 GATGGCTTTGGGAAA
* *
3767707 GA-GGGTCTAGGGAAA
1 GATGGCT-TTGGGAAA
* *
3767722 GATGGCTTTTGGAAT
1 GATGGCTTTGGGAAA
*
3767737 GA-GGGTTTAGGGAAA
1 GATGGCTTT-GGGAAA
*
3767752 GATGGCTTTGGGAAT
1 GATGGCTTTGGGAAA
3767767 GATGGC
1 GATGGC
3767773 AATGGTGGGA
Statistics
Matches: 50, Mismatches: 12, Indels: 8
0.71 0.17 0.11
Matches are distributed among these distances:
14 8 0.16
15 34 0.68
16 8 0.16
ACGTcount: A:0.25, C:0.06, G:0.42, T:0.27
Consensus pattern (15 bp):
GATGGCTTTGGGAAA
Found at i:3768131 original size:30 final size:29
Alignment explanation
Indices: 3768069--3768142 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 29
3768059 TTGTCATTTT
* * *
3768069 AATACATTTTTATAATTCTTAAAAATTAA
1 AATAAATTTTTATTATTCTTAAAAACTAA
3768098 AATAAATTTTTATTATT-TTCAGAAAACTAA
1 AATAAATTTTTATTATTCTT-A-AAAACTAA
*
3768128 AATAAAATTTTATTA
1 AATAAATTTTTATTA
3768143 ATTACTAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
28 2 0.05
29 16 0.41
30 21 0.54
ACGTcount: A:0.49, C:0.05, G:0.01, T:0.45
Consensus pattern (29 bp):
AATAAATTTTTATTATTCTTAAAAACTAA
Found at i:3768150 original size:23 final size:23
Alignment explanation
Indices: 3768123--3768173 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
3768113 TTTTCAGAAA
*
3768123 ACTAAAATAAAATTTTATTAATT
1 ACTAAAATAAAATTTTATAAATT
*
3768146 ACTAAATTAAAATTTTATAAATT
1 ACTAAAATAAAATTTTATAAATT
3768169 A-TAAA
1 ACTAAA
3768174 GGACTTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 4 0.15
23 22 0.85
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (23 bp):
ACTAAAATAAAATTTTATAAATT
Found at i:3769993 original size:16 final size:15
Alignment explanation
Indices: 3769972--3770038 Score: 53
Period size: 17 Copynumber: 4.0 Consensus size: 15
3769962 ACATGTGGTA
3769972 AAAAATGATAAAAAAT
1 AAAAAT-ATAAAAAAT
*
3769988 AAAAATCAATAAAAATT
1 AAAAAT--ATAAAAAAT
3770005 ATAAAATATAAAATAATT
1 A-AAAATATAAAA-AA-T
*
3770023 AAAATTTATAAAAAAT
1 AAAA-ATATAAAAAAT
3770039 TAGAAAAAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
16 13 0.31
17 15 0.36
18 14 0.33
ACGTcount: A:0.70, C:0.01, G:0.01, T:0.27
Consensus pattern (15 bp):
AAAAATATAAAAAAT
Found at i:3770008 original size:9 final size:9
Alignment explanation
Indices: 3769972--3770203 Score: 77
Period size: 10 Copynumber: 25.0 Consensus size: 9
3769962 ACATGTGGTA
*
3769972 AAAAATGAT
1 AAAAATTAT
3769981 AAAAA--AT
1 AAAAATTAT
*
3769988 AAAAATCAAT
1 AAAAAT-TAT
3769998 AAAAATTAT
1 AAAAATTAT
3770007 -AAAA-TAT
1 AAAAATTAT
*
3770014 -AAAATAATT
1 AAAAATTA-T
*
3770023 AAAATTTAT
1 AAAAATTAT
*
3770032 AAAAAATTAGA
1 -AAAAATTA-T
*
3770043 AAAAATTAGA
1 AAAAATTA-T
3770053 AAAAATTAT
1 AAAAATTAT
*
3770062 AAAAATTGT
1 AAAAATTAT
**
3770071 AAATTTTTAT
1 AAA-AATTAT
**
3770081 AAAAAAGCAT
1 -AAAAATTAT
*
3770091 AACAATT-T
1 AAAAATTAT
3770099 ATAAAATATAT
1 A-AAAAT-TAT
*
3770110 AGAAA-TAT
1 AAAAATTAT
**
3770118 AAAAAAAAT
1 AAAAATTAT
*
3770127 ATAAAATTTT
1 A-AAAATTAT
*
3770137 ATAAAGTCGTA-
1 A-AAAAT--TAT
3770148 AAAAATTAT
1 AAAAATTAT
*
3770157 AAAAAATAT
1 AAAAATTAT
*
3770166 AAAGAAATAT
1 AAA-AATTAT
*
3770176 -AAAATTCGT
1 AAAAATT-AT
3770185 AAAAAATTAT
1 -AAAAATTAT
3770195 AAAAATTAT
1 AAAAATTAT
3770204 CGTATCAAAA
Statistics
Matches: 169, Mismatches: 32, Indels: 44
0.69 0.13 0.18
Matches are distributed among these distances:
7 14 0.08
8 19 0.11
9 54 0.32
10 69 0.41
11 12 0.07
12 1 0.01
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.29
Consensus pattern (9 bp):
AAAAATTAT
Found at i:3770010 original size:25 final size:26
Alignment explanation
Indices: 3769972--3770067 Score: 74
Period size: 25 Copynumber: 3.6 Consensus size: 26
3769962 ACATGTGGTA
*
3769972 AAAAATGATAAAAA-ATAAAAATCAA-T
1 AAAAATTATAAAAATAT-AAAAT-AATT
3769998 AAAAATTAT-AAAATATAAAATAATT
1 AAAAATTATAAAAATATAAAATAATT
* *
3770023 AAAATTTATAAAAA-ATTAGAAAAAATT
1 AAAAATTATAAAAATA-TA-AAATAATT
3770050 AGAAAAAATTATAAAAAT
1 ---AAAAATTATAAAAAT
3770068 TGTAAATTTT
Statistics
Matches: 57, Mismatches: 4, Indels: 13
0.77 0.05 0.18
Matches are distributed among these distances:
24 2 0.04
25 19 0.33
26 16 0.28
27 7 0.12
30 13 0.23
ACGTcount: A:0.70, C:0.01, G:0.03, T:0.26
Consensus pattern (26 bp):
AAAAATTATAAAAATATAAAATAATT
Found at i:3770022 original size:18 final size:17
Alignment explanation
Indices: 3769973--3770065 Score: 59
Period size: 18 Copynumber: 5.2 Consensus size: 17
3769963 CATGTGGTAA
3769973 AAAATGATAAAAAA-TA-
1 AAAAT-ATAAAAAATTAT
3769989 AAAATCA-ATAAAAATTAT
1 AAAAT-ATA-AAAAATTAT
3770007 AAAATATAAAATAATTA-
1 AAAATATAAAA-AATTAT
* *
3770024 AAATTTATAAAAAATTAGAA
1 AAA-ATATAAAAAATT--AT
*
3770044 AAAATTAGAAAAAATTAT
1 AAAA-TATAAAAAATTAT
3770062 AAAA
1 AAAA
3770066 ATTGTAAATT
Statistics
Matches: 62, Mismatches: 5, Indels: 18
0.73 0.06 0.21
Matches are distributed among these distances:
15 1 0.02
16 11 0.18
17 13 0.21
18 23 0.37
19 1 0.02
20 13 0.21
ACGTcount: A:0.70, C:0.01, G:0.03, T:0.26
Consensus pattern (17 bp):
AAAATATAAAAAATTAT
Found at i:3770123 original size:19 final size:20
Alignment explanation
Indices: 3770101--3770179 Score: 58
Period size: 19 Copynumber: 4.1 Consensus size: 20
3770091 AACAATTTAT
3770101 AAAATATATAGAAA-TATAA
1 AAAATATATAGAAATTATAA
* * *
3770120 AAAAAATATA-AAATTTTAT
1 AAAATATATAGAAATTATAA
* * *
3770139 AAAGTCGTA-AAAAATTATAA
1 AAAAT-ATATAGAAATTATAA
*
3770159 AAAATATAAAGAAA-TATAA
1 AAAATATATAGAAATTATAA
3770178 AA
1 AA
3770180 TTCGTAAAAA
Statistics
Matches: 45, Mismatches: 11, Indels: 8
0.70 0.17 0.12
Matches are distributed among these distances:
18 3 0.07
19 25 0.56
20 17 0.38
ACGTcount: A:0.67, C:0.01, G:0.05, T:0.27
Consensus pattern (20 bp):
AAAATATATAGAAATTATAA
Found at i:3770197 original size:10 final size:10
Alignment explanation
Indices: 3770023--3770203 Score: 85
Period size: 10 Copynumber: 18.9 Consensus size: 10
3770013 TAAAATAATT
*
3770023 AAAATTTATA
1 AAAAATTATA
*
3770033 AAAAATTAGA
1 AAAAATTATA
*
3770043 AAAAATTAGA
1 AAAAATTATA
3770053 AAAAATTAT-
1 AAAAATTATA
*
3770062 AAAAATTGTA
1 AAAAATTATA
***
3770072 AATTTTTATA
1 AAAAATTATA
**
3770082 AAAAAGCATA
1 AAAAATTATA
* *
3770092 ACAATTTATA
1 AAAAATTATA
*
3770102 AAATA-TAT-
1 AAAAATTATA
*
3770110 AGAAA-TATA
1 AAAAATTATA
*
3770119 AAAAA-AATA
1 AAAAATTATA
* *
3770128 TAAAATTTTA
1 AAAAATTATA
* * **
3770138 TAAAGTCGTA
1 AAAAATTATA
3770148 AAAAATTATA
1 AAAAATTATA
3770158 AAAAA-TATA
1 AAAAATTATA
3770167 AAGAAA-TAT-
1 AA-AAATTATA
*
3770176 -AAAATTCGTA
1 AAAAATT-ATA
3770186 AAAAATTAT-
1 AAAAATTATA
3770195 AAAAATTAT
1 AAAAATTAT
3770204 CGTATCAAAA
Statistics
Matches: 127, Mismatches: 36, Indels: 17
0.71 0.20 0.09
Matches are distributed among these distances:
7 3 0.02
8 8 0.06
9 38 0.30
10 72 0.57
11 6 0.05
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.30
Consensus pattern (10 bp):
AAAAATTATA
Found at i:3770237 original size:12 final size:13
Alignment explanation
Indices: 3770220--3770248 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
3770210 AAAAAAAGAA
3770220 TTTTATAAAT-TT
1 TTTTATAAATATT
3770232 TTTTATAAATATT
1 TTTTATAAATATT
3770245 TTTT
1 TTTT
3770249 TATTTTTGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTTATAAATATT
Found at i:3775519 original size:14 final size:15
Alignment explanation
Indices: 3775495--3775523 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
3775485 CAAATGAAGA
3775495 AAATAATAAAACAAT
1 AAATAATAAAACAAT
3775510 AAAT-ATAAAACAAT
1 AAATAATAAAACAAT
3775524 TTAGAATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.72, C:0.07, G:0.00, T:0.21
Consensus pattern (15 bp):
AAATAATAAAACAAT
Found at i:3776785 original size:11 final size:11
Alignment explanation
Indices: 3776769--3776827 Score: 61
Period size: 11 Copynumber: 5.5 Consensus size: 11
3776759 ATTATATTGT
3776769 TGTTTTTTTGC
1 TGTTTTTTTGC
*
3776780 TGTTTTGGTTGC
1 TGTTTT-TTTGC
*
3776792 TATTTTTTTGC
1 TGTTTTTTTGC
*
3776803 TG---TTTTGG
1 TGTTTTTTTGC
3776811 TGTTTTTTTGC
1 TGTTTTTTTGC
3776822 TGTTTT
1 TGTTTT
3776828 GGTGTTTTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
8 7 0.18
11 22 0.58
12 9 0.24
ACGTcount: A:0.02, C:0.07, G:0.22, T:0.69
Consensus pattern (11 bp):
TGTTTTTTTGC
Found at i:3776818 original size:19 final size:19
Alignment explanation
Indices: 3776769--3776839 Score: 106
Period size: 19 Copynumber: 3.5 Consensus size: 19
3776759 ATTATATTGT
3776769 TGTTTTTTTGCTGTTTTGG
1 TGTTTTTTTGCTGTTTTGG
3776788 TTGCTATTTTTTTGCTGTTTTGG
1 -TG---TTTTTTTGCTGTTTTGG
3776811 TGTTTTTTTGCTGTTTTGG
1 TGTTTTTTTGCTGTTTTGG
3776830 TGTTTTTTTG
1 TGTTTTTTTG
3776840 GTGCTATTTT
Statistics
Matches: 48, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
19 27 0.56
20 2 0.04
22 2 0.04
23 17 0.35
ACGTcount: A:0.01, C:0.06, G:0.24, T:0.69
Consensus pattern (19 bp):
TGTTTTTTTGCTGTTTTGG
Found at i:3776860 original size:24 final size:23
Alignment explanation
Indices: 3776834--3776919 Score: 84
Period size: 24 Copynumber: 3.7 Consensus size: 23
3776824 TTTTGGTGTT
*
3776834 TTTTTGGTGCTATTTTTTTACTA
1 TTTTTGGTGCTATTTTTTTATTA
* * *
3776857 -TTTTGGTGTTGTTTTTATTGTTA
1 TTTTTGGTGCTATTTTT-TTATTA
*
3776880 TTTTTGTTGCTATTTTTTCTATTA
1 TTTTTGGTGCTATTTTTT-TATTA
* *
3776904 TTTTTGCTGCTGTTTT
1 TTTTTGGTGCTATTTT
3776920 GGTTGTTATT
Statistics
Matches: 50, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
22 14 0.28
23 5 0.10
24 31 0.62
ACGTcount: A:0.09, C:0.07, G:0.15, T:0.69
Consensus pattern (23 bp):
TTTTTGGTGCTATTTTTTTATTA
Found at i:3776861 original size:33 final size:34
Alignment explanation
Indices: 3776813--3776895 Score: 105
Period size: 33 Copynumber: 2.4 Consensus size: 34
3776803 TGTTTTGGTG
* *
3776813 TTTTTTTGCTGTTTTGGTGTT-TTTTTGGTGCTA
1 TTTTTTTGCTATTTTGGTGTTGTTTTTAGTGCTA
* * *
3776846 TTTTTTTACTATTTTGGTGTTGTTTTTATTGTTA
1 TTTTTTTGCTATTTTGGTGTTGTTTTTAGTGCTA
3776880 TTTTTGTTGCTATTTT
1 TTTTT-TTGCTATTTT
3776896 TTCTATTATT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
33 19 0.45
34 14 0.33
35 9 0.21
ACGTcount: A:0.07, C:0.05, G:0.18, T:0.70
Consensus pattern (34 bp):
TTTTTTTGCTATTTTGGTGTTGTTTTTAGTGCTA
Found at i:3776887 original size:21 final size:21
Alignment explanation
Indices: 3776863--3776952 Score: 56
Period size: 24 Copynumber: 4.0 Consensus size: 21
3776853 ACTATTTTGG
*
3776863 TGTTGTTTTTATTGTTATTTT
1 TGTTGTTTTGATTGTTATTTT
** *
3776884 TGTTGCTATTTTTTCTATTATTTT
1 TGTTG-T-TTTGAT-TGTTATTTT
*
3776908 TGCTGCTGTTTTGGTTGTTATTTT
1 TG-T--TGTTTTGATTGTTATTTT
* *
3776932 GGTTGTTTAGA-TGTTATTTT
1 TGTTGTTTTGATTGTTATTTT
3776952 T
1 T
3776953 ATACGTTTTT
Statistics
Matches: 54, Mismatches: 9, Indels: 13
0.71 0.12 0.17
Matches are distributed among these distances:
20 9 0.17
21 11 0.20
22 1 0.02
23 6 0.11
24 19 0.35
25 5 0.09
26 1 0.02
27 2 0.04
ACGTcount: A:0.10, C:0.04, G:0.18, T:0.68
Consensus pattern (21 bp):
TGTTGTTTTGATTGTTATTTT
Found at i:3776918 original size:48 final size:46
Alignment explanation
Indices: 3776819--3776936 Score: 132
Period size: 48 Copynumber: 2.6 Consensus size: 46
3776809 GGTGTTTTTT
* * *
3776819 TGCTGTTTTG-GTGTT-TTTTTGGTGCTATTTTTTTACTATTTTGG
1 TGCTGTTTTGATTGTTATTTTTGTTGCTATTTTTTTACTATTTTGC
* * *
3776863 TGTTGTTTTTATTGTTATTTTTGTTGCTATTTTTTCTATTATTTTTGC
1 TGCTGTTTTGATTGTTATTTTTGTTGCTATTTTTT-TACTA-TTTTGC
* *
3776911 TGCTGTTTTGGTTGTTATTTTGGTTG
1 TGCTGTTTTGATTGTTATTTTTGTTG
3776937 TTTAGATGTT
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
44 8 0.13
45 4 0.07
46 17 0.28
47 4 0.07
48 27 0.45
ACGTcount: A:0.08, C:0.06, G:0.20, T:0.66
Consensus pattern (46 bp):
TGCTGTTTTGATTGTTATTTTTGTTGCTATTTTTTTACTATTTTGC
Found at i:3786747 original size:29 final size:30
Alignment explanation
Indices: 3786696--3786753 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
3786686 AATGTCCCAT
* *
3786696 AATATTTTATTTATTTTAGAAATTAATATA
1 AATATTTTATTTAATTTAGAAATCAATATA
3786726 AATATTTT-TTTACATTTA-AAATCAATAT
1 AATATTTTATTTA-ATTTAGAAATCAATAT
3786754 TCTAAAATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 13 0.52
30 12 0.48
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (30 bp):
AATATTTTATTTAATTTAGAAATCAATATA
Found at i:3798153 original size:26 final size:26
Alignment explanation
Indices: 3798123--3798196 Score: 68
Period size: 24 Copynumber: 2.9 Consensus size: 26
3798113 AAATTTATTG
3798123 ATAAACATTTGAAAATAAAAATGTTT
1 ATAAACATTTGAAAATAAAAATGTTT
*
3798149 TTAAAACA-TTG--AATAAAATATGTTT
1 AT-AAACATTTGAAAATAAAA-ATGTTT
3798174 ATAAA-ATTT-AATTAATAAAAATG
1 ATAAACATTTGAA--AATAAAAATG
3798197 CTTAAAATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 14
0.71 0.04 0.25
Matches are distributed among these distances:
23 1 0.03
24 12 0.31
25 7 0.18
26 7 0.18
27 12 0.31
ACGTcount: A:0.54, C:0.03, G:0.07, T:0.36
Consensus pattern (26 bp):
ATAAACATTTGAAAATAAAAATGTTT
Found at i:3808497 original size:2 final size:2
Alignment explanation
Indices: 3808490--3808518 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
3808480 CAATACAATA
3808490 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3808519 GATTGGAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3808975 original size:2 final size:2
Alignment explanation
Indices: 3808968--3808995 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
3808958 AACCCCACTT
3808968 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3808996 ATTTGAAAGA
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):
TA
Found at i:3809124 original size:29 final size:29
Alignment explanation
Indices: 3809091--3809156 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 29
3809081 ATACATTTAC
3809091 AATTTAATTTATATATTTTTATTT-TTAAA
1 AATTTAATTTATATATTTTT-TTTATTAAA
* * *
3809120 AATTTAATTTTTTTATTTTTTTTAATTTAA
1 AATTTAATTTATATATTTTTTTT-ATTAAA
3809150 AATTTAA
1 AATTTAA
3809157 GTCCAACTGT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 3 0.09
29 18 0.56
30 11 0.34
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (29 bp):
AATTTAATTTATATATTTTTTTTATTAAA
Found at i:3809146 original size:23 final size:23
Alignment explanation
Indices: 3809093--3809154 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
3809083 ACATTTACAA
3809093 TTTAATTTATATATTTTTATTTTT
1 TTTAATTTA-ATATTTTTATTTTT
*** *
3809117 AAAAATTTAATTTTTTTATTTTT
1 TTTAATTTAATATTTTTATTTTT
*
3809140 TTTAATTTAAAATTT
1 TTTAATTTAATATTT
3809155 AAGTCCAACT
Statistics
Matches: 29, Mismatches: 9, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
23 23 0.79
24 6 0.21
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (23 bp):
TTTAATTTAATATTTTTATTTTT
Found at i:3810093 original size:15 final size:16
Alignment explanation
Indices: 3810064--3810093 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3810054 AAACTCACCC
3810064 TTAAAATTATTTGAAG
1 TTAAAATTATTTGAAG
3810080 TTAAAATT-TTTGAA
1 TTAAAATTATTTGAA
3810094 ACCACTTCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.43, C:0.00, G:0.10, T:0.47
Consensus pattern (16 bp):
TTAAAATTATTTGAAG
Found at i:3817243 original size:29 final size:29
Alignment explanation
Indices: 3817211--3817267 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
3817201 AAAAAAACTT
3817211 GAAG-CATATTTTAACCGAATACATGTTTC
1 GAAGTCATATTTT-ACCGAATACATGTTTC
* * *
3817240 GAAGTCTTATTTTACGGGATACATGTTT
1 GAAGTCATATTTTACCGAATACATGTTT
3817268 TAATGTCTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 17 0.71
30 7 0.29
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.39
Consensus pattern (29 bp):
GAAGTCATATTTTACCGAATACATGTTTC
Found at i:3820673 original size:81 final size:81
Alignment explanation
Indices: 3820538--3820711 Score: 321
Period size: 81 Copynumber: 2.1 Consensus size: 81
3820528 GCCATCCTTA
3820538 CCATCATTCCCAATGCCTGGGGCGCTTCCTCCACTTCCTAACATATTTCCAAGTGGACCAAGGGC
1 CCATCATTCCCAATGCCTGGGGCGCTTCCTCCACTTCCTAACATATTTCCAAGTGGACCAAGGGC
3820603 CACACTGCCCCCTCTG
66 CACACTGCCCCCTCTG
*
3820619 CCATCATTCCCAATGCCTGGGGCGCTTCCTCCACTTCCTACCATATTTCCAAGTGGACCAAGGGC
1 CCATCATTCCCAATGCCTGGGGCGCTTCCTCCACTTCCTAACATATTTCCAAGTGGACCAAGGGC
3820684 CACACTGCCCCCTCTG
66 CACACTGCCCCCTCTG
*
3820700 CCAAGCATTCCC
1 CC-ATCATTCCC
3820712 TCAGTCCCCA
Statistics
Matches: 90, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
81 82 0.91
82 8 0.09
ACGTcount: A:0.20, C:0.41, G:0.17, T:0.23
Consensus pattern (81 bp):
CCATCATTCCCAATGCCTGGGGCGCTTCCTCCACTTCCTAACATATTTCCAAGTGGACCAAGGGC
CACACTGCCCCCTCTG
Found at i:3823261 original size:150 final size:149
Alignment explanation
Indices: 3822951--3823404 Score: 642
Period size: 150 Copynumber: 3.0 Consensus size: 149
3822941 TTTGTTCTCT
* * * * * *
3822951 TACTCTAGATCAATATAGCGATTGGTTCGGTCTGGTTTCAATAATATTGCGGAACACCCAACACA
1 TACTCTGGATCAATATAACGA-TCGTTCGATCTGATTTCAATAACATTGCGGAACACCCAACACA
* *
3823016 CTTTTTTTACACTGATAAAAATAAGAAAAATTCAAAAATGACCTAAACCCTATTGAAAGTTTTCA
65 CTTTTTCTACACTGATAAAAATAA-AAAAATTCAAAAATGACCTAAACCCTATTGAAAATTTTCA
*
3823081 TGTATTTTAAAAAACTACACA
129 TGTATTTTAAAAAATTACACA
* *
3823102 TACTCTGGATCAATATAACGATCAGTTTGATCTGATTT-AATAACATTGCGGAACACCCAAAACA
1 TACTCTGGATCAATATAACGATC-GTTCGATCTGATTTCAATAACATTGCGGAACACCCAACACA
* * * **
3823166 GTTTTTCTACACCGATGAAAATAAAATAAATTTGAAAATGACCTAAACCCTATTGAAAATTTTCA
65 CTTTTTCTACACTGATAAAAATAAAA-AAATTCAAAAATGACCTAAACCCTATTGAAAATTTTCA
3823231 TGTATTTTAAAAAATTACACA
129 TGTATTTTAAAAAATTACACA
* * *
3823252 TACTCTGGATCAGTATATCAATCGATTCGATCTGATTTCAATAACATTGCGGAACACCCAACACA
1 TACTCTGGATCAATATAACGATCG-TTCGATCTGATTTCAATAACATTGCGGAACACCCAACACA
* *
3823317 CTTTTTCTACATTGGTAAAAATAAAACAAATTCAAAAATGACCTAAACCCTATT-AGAAATTTTC
65 CTTTTTCTACACTGATAAAAATAAAA-AAATTCAAAAATGACCTAAACCCTATTGA-AAATTTTC
3823381 ATGTATTTTAAAAAATTACACA
128 ATGTATTTTAAAAAATTACACA
3823403 TA
1 TA
3823405 TTCCACATCC
Statistics
Matches: 269, Mismatches: 29, Indels: 10
0.87 0.09 0.03
Matches are distributed among these distances:
149 3 0.01
150 133 0.49
151 133 0.49
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.31
Consensus pattern (149 bp):
TACTCTGGATCAATATAACGATCGTTCGATCTGATTTCAATAACATTGCGGAACACCCAACACAC
TTTTTCTACACTGATAAAAATAAAAAAATTCAAAAATGACCTAAACCCTATTGAAAATTTTCATG
TATTTTAAAAAATTACACA
Found at i:3823364 original size:151 final size:150
Alignment explanation
Indices: 3822951--3823404 Score: 635
Period size: 151 Copynumber: 3.0 Consensus size: 150
3822941 TTTGTTCTCT
* * * ** * * *
3822951 TACTCTAGATCAATATAGCGATTGGTTCGGTCTGGTTTCAATAATATTGCGGAACACCCAACACA
1 TACTCTGGATCAATATAACAATCAGTTCGATCTGATTTCAATAACATTGCGGAACACCCAACACA
* *
3823016 CTTTTTTTACACTGATAAAAATAAGAAAAATTCAAAAATGACCTAAACCCTATTGAAAGTTTTCA
66 CTTTTTCTACACTGATAAAAATAA-AAAAATTCAAAAATGACCTAAACCCTATTGAAAATTTTCA
*
3823081 TGTATTTTAAAAAACTACACA
130 TGTATTTTAAAAAATTACACA
* * *
3823102 TACTCTGGATCAATATAACGATCAGTTTGATCTGATTT-AATAACATTGCGGAACACCCAAAACA
1 TACTCTGGATCAATATAACAATCAGTTCGATCTGATTTCAATAACATTGCGGAACACCCAACACA
* * * **
3823166 GTTTTTCTACACCGATGAAAATAAAATAAATTTGAAAATGACCTAAACCCTATTGAAAATTTTCA
66 CTTTTTCTACACTGATAAAAATAAAA-AAATTCAAAAATGACCTAAACCCTATTGAAAATTTTCA
3823231 TGTATTTTAAAAAATTACACA
130 TGTATTTTAAAAAATTACACA
* *
3823252 TACTCTGGATCAGTATATCAATC-GATTCGATCTGATTTCAATAACATTGCGGAACACCCAACAC
1 TACTCTGGATCAATATAACAATCAG-TTCGATCTGATTTCAATAACATTGCGGAACACCCAACAC
* *
3823316 ACTTTTTCTACATTGGTAAAAATAAAACAAATTCAAAAATGACCTAAACCCTATT-AGAAATTTT
65 ACTTTTTCTACACTGATAAAAATAAAA-AAATTCAAAAATGACCTAAACCCTATTGA-AAATTTT
3823380 CATGTATTTTAAAAAATTACACA
128 CATGTATTTTAAAAAATTACACA
3823403 TA
1 TA
3823405 TTCCACATCC
Statistics
Matches: 269, Mismatches: 30, Indels: 8
0.88 0.10 0.03
Matches are distributed among these distances:
149 3 0.01
150 132 0.49
151 134 0.50
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.31
Consensus pattern (150 bp):
TACTCTGGATCAATATAACAATCAGTTCGATCTGATTTCAATAACATTGCGGAACACCCAACACA
CTTTTTCTACACTGATAAAAATAAAAAAATTCAAAAATGACCTAAACCCTATTGAAAATTTTCAT
GTATTTTAAAAAATTACACA
Found at i:3826010 original size:32 final size:28
Alignment explanation
Indices: 3825955--3826012 Score: 71
Period size: 32 Copynumber: 1.9 Consensus size: 28
3825945 TGTAATAATG
*
3825955 ATTTTAATTATTATTATTTAATATAACA
1 ATTTTAATTATTATTATTAAATATAACA
3825983 ATTTTAATATATTATTTAACTTAAATATAA
1 ATTTTAAT-TATTA-TT-A-TTAAATATAA
3826013 TAGTGTTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 8 0.32
29 5 0.20
30 2 0.08
31 1 0.04
32 9 0.36
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (28 bp):
ATTTTAATTATTATTATTAAATATAACA
Found at i:3830231 original size:26 final size:26
Alignment explanation
Indices: 3830191--3830243 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 26
3830181 TTTCACTAAG
3830191 AATAATTTAGGTTAGTTTAACCTCAA
1 AATAATTTAGGTTAGTTTAACCTCAA
3830217 AATAATTT-GGATTAGTTTAACCTCAA
1 AATAATTTAGG-TTAGTTTAACCTCAA
3830243 A
1 A
3830244 TTGAGACTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 2 0.08
26 24 0.92
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.38
Consensus pattern (26 bp):
AATAATTTAGGTTAGTTTAACCTCAA
Found at i:3853098 original size:17 final size:17
Alignment explanation
Indices: 3853076--3853110 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
3853066 TGGGTTTATC
3853076 TTGGGTTCAGGTCATTT
1 TTGGGTTCAGGTCATTT
* *
3853093 TTGGGTTTAGTTCATTT
1 TTGGGTTCAGGTCATTT
3853110 T
1 T
3853111 GAAATTGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.11, C:0.09, G:0.26, T:0.54
Consensus pattern (17 bp):
TTGGGTTCAGGTCATTT
Found at i:3854366 original size:21 final size:19
Alignment explanation
Indices: 3854341--3854407 Score: 55
Period size: 20 Copynumber: 3.4 Consensus size: 19
3854331 ATCTTTTTAT
3854341 AATTTTAATAATTTTATATCA
1 AATTTTAATAATTTTA-AT-A
* *
3854362 AA-TTTAACATTTTTAATA
1 AATTTTAATAATTTTAATA
*
3854380 AATTTCTTATAATTTTCAATA
1 AATTT-TAATAATTTT-AATA
*
3854401 AGTTTTA
1 AATTTTA
3854408 TGATTTTTTA
Statistics
Matches: 36, Mismatches: 7, Indels: 7
0.72 0.14 0.14
Matches are distributed among these distances:
18 3 0.08
19 4 0.11
20 19 0.53
21 10 0.28
ACGTcount: A:0.40, C:0.06, G:0.01, T:0.52
Consensus pattern (19 bp):
AATTTTAATAATTTTAATA
Found at i:3854426 original size:20 final size:20
Alignment explanation
Indices: 3854370--3854625 Score: 72
Period size: 19 Copynumber: 13.1 Consensus size: 20
3854360 CAAATTTAAC
* *
3854370 ATTTTTAATAAATTTCTTATA
1 ATTTTTAATAAGTTT-TTATG
*
3854391 ATTTTCAATAAG-TTTTATG
1 ATTTTTAATAAGTTTTTATG
* *
3854410 ATTTTTTATAAGTTTTTAAG
1 ATTTTTAATAAGTTTTTATG
* * *
3854430 AATTTGT-ATATGTTTTTATAAA
1 -ATTTTTAATAAGTTTTTAT--G
* * *
3854452 ATTTTAAATATG-TTTTATTAA
1 ATTTTTAATAAGTTTTTA-T-G
* * *
3854473 ATTTATAAAAAG--ATTAT-
1 ATTTTTAATAAGTTTTTATG
* *
3854490 A-ATTTAATAGATTTTTTAT-
1 ATTTTTAATA-AGTTTTTATG
* *
3854509 ATTTTT-ATAA-TATTTATA
1 ATTTTTAATAAGTTTTTATG
* * * *
3854527 AGTTTTTATTAATTTTTTGTA
1 A-TTTTTAATAAGTTTTTATG
* * *
3854548 ATTTTT-ATAAGTATATATC
1 ATTTTTAATAAGTTTTTATG
* *
3854567 AATTTTAATAATTTTTGTATG
1 ATTTTTAATAAGTTTT-TATG
* *
3854588 ATTTTT-ATAATTTTTTCTG
1 ATTTTTAATAAGTTTTTATG
3854607 ATTTTTAAT-A-TTTTTATG
1 ATTTTTAATAAGTTTTTATG
3854625 A
1 A
3854626 AAAAATGGTA
Statistics
Matches: 177, Mismatches: 41, Indels: 37
0.69 0.16 0.15
Matches are distributed among these distances:
16 5 0.03
17 8 0.05
18 10 0.06
19 50 0.28
20 49 0.28
21 49 0.28
22 6 0.03
ACGTcount: A:0.34, C:0.02, G:0.06, T:0.58
Consensus pattern (20 bp):
ATTTTTAATAAGTTTTTATG
Found at i:3854467 original size:21 final size:23
Alignment explanation
Indices: 3854437--3854481 Score: 67
Period size: 21 Copynumber: 2.0 Consensus size: 23
3854427 AAGAATTTGT
3854437 ATATGTTTTTATAAAATTT-TAA
1 ATATGTTTTTATAAAATTTATAA
*
3854459 ATATG-TTTTATTAAATTTATAA
1 ATATGTTTTTATAAAATTTATAA
3854481 A
1 A
3854482 AAGATTATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.53
Consensus pattern (23 bp):
ATATGTTTTTATAAAATTTATAA
Found at i:3854512 original size:9 final size:9
Alignment explanation
Indices: 3854502--3854602 Score: 78
Period size: 9 Copynumber: 10.6 Consensus size: 9
3854492 TTTAATAGAT
3854502 TTTTTAT-A
1 TTTTTATAA
3854510 TTTTTATAA
1 TTTTTATAA
*
3854519 TATTTATAA
1 TTTTTATAA
3854528 GTTTTTATTAA
1 -TTTTTA-TAA
*
3854539 TTTTTTGTAA
1 -TTTTTATAA
3854549 TTTTTATAA
1 TTTTTATAA
* *
3854558 GTATATATCAA
1 -TTTTTAT-AA
*
3854569 TTTTAATAA
1 TTTTTATAA
*
3854578 TTTTTGTATGA
1 -TTTT-TATAA
3854589 TTTTTATAA
1 TTTTTATAA
3854598 TTTTT
1 TTTTT
3854603 TCTGATTTTT
Statistics
Matches: 73, Mismatches: 13, Indels: 13
0.74 0.13 0.13
Matches are distributed among these distances:
8 7 0.10
9 28 0.38
10 25 0.34
11 13 0.18
ACGTcount: A:0.31, C:0.01, G:0.05, T:0.63
Consensus pattern (9 bp):
TTTTTATAA
Found at i:3854555 original size:30 final size:30
Alignment explanation
Indices: 3854510--3854613 Score: 95
Period size: 30 Copynumber: 3.5 Consensus size: 30
3854500 ATTTTTTATA
*
3854510 TTTTTATAATATTTATAAGTTTTTATTAAT
1 TTTTTATAATTTTTATAAGTTTTTATTAAT
* * * *
3854540 TTTTTGTAATTTTTATAAGTATATATCAA-
1 TTTTTATAATTTTTATAAGTTTTTATTAAT
* * *
3854569 TTTTAATAATTTTTGTATGATTTTTA-TAAT
1 TTTTTATAATTTTTATAAG-TTTTTATTAAT
* *
3854599 TTTTTCTGATTTTTA
1 TTTTTATAATTTTTA
3854614 ATATTTTTAT
Statistics
Matches: 56, Mismatches: 16, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
29 17 0.30
30 39 0.70
ACGTcount: A:0.30, C:0.02, G:0.06, T:0.62
Consensus pattern (30 bp):
TTTTTATAATTTTTATAAGTTTTTATTAAT
Found at i:3854619 original size:19 final size:21
Alignment explanation
Indices: 3854569--3854621 Score: 76
Period size: 19 Copynumber: 2.7 Consensus size: 21
3854559 TATATATCAA
3854569 TTTTAATAATTTTTGTATGAT
1 TTTTAATAATTTTTGTATGAT
*
3854590 TTTT-ATAATTTTT-TCTGAT
1 TTTTAATAATTTTTGTATGAT
3854609 TTTTAAT-ATTTTT
1 TTTTAATAATTTTT
3854622 ATGAAAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 15 0.50
20 11 0.37
21 4 0.13
ACGTcount: A:0.25, C:0.02, G:0.06, T:0.68
Consensus pattern (21 bp):
TTTTAATAATTTTTGTATGAT
Found at i:3863432 original size:94 final size:94
Alignment explanation
Indices: 3863271--3863448 Score: 227
Period size: 94 Copynumber: 1.9 Consensus size: 94
3863261 TCTGGGGGTA
* * * *
3863271 ATTGGCTGCTCATATCAAAATAAGTACTTGATCACTTATGTCTTGTTGATGGTTAATGCTTATTA
1 ATTGGCTGCTCATATCAAAATAAGTACTTGATCACTTATGTCTTGTGGATGGTTAATACATAATA
*
3863336 AGGTA-TTTAGTTGCTTAAGGGAATTTGTG
66 AGGTACTTT-GTTACTTAAGGGAATTTGTG
* * * *
3863365 ATTGGCTGCTCATATCAAGATATA-TACTTGGTTACTTTTGTCGTT-TGGATGGTTAATACATAA
1 ATTGGCTGCTCATATCAAAATA-AGTACTTGATCACTTATGTC-TTGTGGATGGTTAATACATAA
3863428 TAAGGTACTTTGTTACTTAAG
64 TAAGGTACTTTGTTACTTAAG
3863449 AGACTTTATG
Statistics
Matches: 72, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
94 66 0.92
95 6 0.08
ACGTcount: A:0.27, C:0.11, G:0.20, T:0.42
Consensus pattern (94 bp):
ATTGGCTGCTCATATCAAAATAAGTACTTGATCACTTATGTCTTGTGGATGGTTAATACATAATA
AGGTACTTTGTTACTTAAGGGAATTTGTG
Found at i:3863646 original size:103 final size:96
Alignment explanation
Indices: 3863515--3863777 Score: 277
Period size: 103 Copynumber: 2.7 Consensus size: 96
3863505 TCATATCAAG
* *
3863515 ATATATATACTTGG-TTACTTTTTG--CTTGTTGATGGTTAATACTTTATAAGGTACTTAGTTAC
1 ATATATATAATTGGTTTAC-TTATGCCCTTGTTGATGGTTAATACTTTATAAGGTACTTAGTTAC
* * *
3863577 TT-AATTTGTTGGTGGAAGTGGCTGCTCATACCA
65 TTGAATTTATGGGTGG--GTGGCTGCTAATACCA
* * *
3863610 ATATATATATGTATATGTTTTGTTACTTATG-TCTTGTTGATGGTTAATACTTCATAAGGTACTT
1 ATATATATA---AT-TG--GT-TTACTTATGCCCTTGTTGATGGTTAATACTTTATAAGGTACTT
* *
3863674 AGTTACTTGAATTTATGGGTGGTTGGCTGCTAATATCA
59 AGTTACTTGAATTTATGGGTGGGTGGCTGCTAATACCA
* *
3863712 ATATATATACTTGGTTTACTTATGCCCTT-TTGATGGTTAATACTTTCATAAAGTACTTAGTTAC
1 ATATATATAATTGGTTTACTTATGCCCTTGTTGATGGTTAATACTTT-ATAAGGTACTTAGTTAC
3863776 TT
65 TT
3863778 CAGATAATTT
Statistics
Matches: 142, Mismatches: 14, Indels: 23
0.79 0.08 0.13
Matches are distributed among these distances:
95 34 0.24
96 22 0.15
98 3 0.02
99 3 0.02
102 26 0.18
103 43 0.30
104 11 0.08
ACGTcount: A:0.25, C:0.11, G:0.18, T:0.46
Consensus pattern (96 bp):
ATATATATAATTGGTTTACTTATGCCCTTGTTGATGGTTAATACTTTATAAGGTACTTAGTTACT
TGAATTTATGGGTGGGTGGCTGCTAATACCA
Found at i:3871011 original size:21 final size:21
Alignment explanation
Indices: 3870948--3871027 Score: 61
Period size: 21 Copynumber: 3.6 Consensus size: 21
3870938 GAAAGAATTA
** * *
3870948 AATTTATTTTTATTTTTTTCT
1 AATTTATTTTTATAATTATAT
*
3870969 ATTTTATTTTTATTCAAATTATAT
1 AATTTATTTTTA-T--AATTATAT
3870993 AATTTATTTTTATAATTATTTAT
1 AATTTATTTTTATAATTA--TAT
*
3871016 TATTTATTTTTA
1 AATTTATTTTTA
3871028 ATGAAATCGT
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
21 16 0.34
22 1 0.02
23 15 0.32
24 15 0.32
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.69
Consensus pattern (21 bp):
AATTTATTTTTATAATTATAT
Found at i:3871397 original size:59 final size:58
Alignment explanation
Indices: 3871331--3871463 Score: 203
Period size: 59 Copynumber: 2.3 Consensus size: 58
3871321 AATTAATATA
* * *
3871331 TACAAAAATATTCAAATGAATTTTACTTTTATTAAATTAAACAATATAAAAATAATGTG
1 TACAAAAATATTCAAATGAACTTCACTTTTATTAAATGAAACAATATAAAAATAAT-TG
* *
3871390 TACAAAAATATTCAAATGAACTTCACTTTTATTATATGAAACAATATAAAAATAATTT
1 TACAAAAATATTCAAATGAACTTCACTTTTATTAAATGAAACAATATAAAAATAATTG
*
3871448 TACAAAAATAATCAAA
1 TACAAAAATATTCAAA
3871464 GCATGTAACG
Statistics
Matches: 68, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
58 16 0.24
59 52 0.76
ACGTcount: A:0.53, C:0.09, G:0.04, T:0.35
Consensus pattern (58 bp):
TACAAAAATATTCAAATGAACTTCACTTTTATTAAATGAAACAATATAAAAATAATTG
Found at i:3872979 original size:38 final size:38
Alignment explanation
Indices: 3872928--3873004 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
3872918 TAACCTTCGA
* *
3872928 TGATCTGTAGGATGTACGCCCGAGCATATTGTATTCTT
1 TGATCTATAGGATGTACACCCGAGCATATTGTATTCTT
3872966 TGATCTATAGGATGTACACCCGAGCATATTGTATTCTT
1 TGATCTATAGGATGTACACCCGAGCATATTGTATTCTT
3873004 T
1 T
3873005 CTATTTTTCT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.38
Consensus pattern (38 bp):
TGATCTATAGGATGTACACCCGAGCATATTGTATTCTT
Found at i:3873465 original size:27 final size:28
Alignment explanation
Indices: 3873424--3873492 Score: 88
Period size: 27 Copynumber: 2.5 Consensus size: 28
3873414 TATTCACATA
* *
3873424 AAAAATATTAAAAAAATAATTAAATTAT
1 AAAAATAATATAAAAATAATTAAATTAT
*
3873452 -AAAATAATAT-AAAATAATTAATTTAT
1 AAAAATAATATAAAAATAATTAAATTAT
*
3873478 AAAAATAAAATAAAA
1 AAAAATAATATAAAA
3873493 TAAAAAAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
26 15 0.43
27 17 0.49
28 3 0.09
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (28 bp):
AAAAATAATATAAAAATAATTAAATTAT
Found at i:3873472 original size:26 final size:27
Alignment explanation
Indices: 3873436--3873495 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
3873426 AAATATTAAA
*
3873436 AAAATAATTAAATTAT-AAAATAATAT
1 AAAATAATTAAATTATAAAAATAAAAT
*
3873462 AAAATAATTAATTTATAAAAATAAAAT
1 AAAATAATTAAATTATAAAAATAAAAT
3873489 AAAATAA
1 AAAATAA
3873496 AAAAATAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 15 0.48
27 16 0.52
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (27 bp):
AAAATAATTAAATTATAAAAATAAAAT
Found at i:3873502 original size:13 final size:13
Alignment explanation
Indices: 3873484--3873519 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
3873474 TTATAAAAAT
3873484 AAAATAAAATAAA
1 AAAATAAAATAAA
*
3873497 AAAATAATATAAA
1 AAAATAAAATAAA
*
3873510 AAATTAAAAT
1 AAAATAAAAT
3873520 TAACTCTTAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (13 bp):
AAAATAAAATAAA
Found at i:3882632 original size:31 final size:32
Alignment explanation
Indices: 3882578--3882641 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 32
3882568 ATTTTAAATT
*
3882578 AATAATGATAAAATTACATTTTAATCCTCTTAAA
1 AATAATGAAAAAATTACATTTTAAT-CT-TTAAA
3882612 AATAAT-AAAAAATTA-A-TTTAATCTTTAAA
1 AATAATGAAAAAATTACATTTTAATCTTTAAA
3882641 A
1 A
3882642 TTTATAAAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
29 6 0.21
30 2 0.07
31 6 0.21
32 1 0.03
33 8 0.28
34 6 0.21
ACGTcount: A:0.53, C:0.08, G:0.02, T:0.38
Consensus pattern (32 bp):
AATAATGAAAAAATTACATTTTAATCTTTAAA
Found at i:3885337 original size:17 final size:17
Alignment explanation
Indices: 3885311--3885347 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
3885301 CCACCTTGAT
* *
3885311 AAGAATTCTCTACGAAC
1 AAGAACTCTCAACGAAC
3885328 AAGAACTCTCAACGAAC
1 AAGAACTCTCAACGAAC
3885345 AAG
1 AAG
3885348 TTCTCCACCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.24, G:0.14, T:0.16
Consensus pattern (17 bp):
AAGAACTCTCAACGAAC
Found at i:3889747 original size:17 final size:18
Alignment explanation
Indices: 3889710--3889749 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
3889700 TTTACTTTTC
* *
3889710 TTTTATTTTACCACTGAA
1 TTTTATTTTAACACAGAA
3889728 TTTTATTTTAACA-AGAA
1 TTTTATTTTAACACAGAA
3889745 TTTTA
1 TTTTA
3889750 GTCACCCAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.33, C:0.10, G:0.05, T:0.53
Consensus pattern (18 bp):
TTTTATTTTAACACAGAA
Found at i:3889853 original size:2 final size:2
Alignment explanation
Indices: 3889842--3889874 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
3889832 TATAAATCTA
3889842 AT AT -T 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
3889875 TAAAAGTCGA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:3898415 original size:24 final size:26
Alignment explanation
Indices: 3898385--3898442 Score: 68
Period size: 28 Copynumber: 2.3 Consensus size: 26
3898375 AAAAAAAAAT
3898385 AATTTTTCT-ATT-TTTATTTGTCAC
1 AATTTTTCTGATTATTTATTTGTCAC
*
3898409 AATTTTTTTTTGATTATTTATTTGTCAC
1 AA--TTTTTCTGATTATTTATTTGTCAC
3898437 -ATTTTT
1 AATTTTT
3898443 AGTTGTTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
24 2 0.07
25 5 0.17
26 6 0.21
27 4 0.14
28 12 0.41
ACGTcount: A:0.21, C:0.09, G:0.05, T:0.66
Consensus pattern (26 bp):
AATTTTTCTGATTATTTATTTGTCAC
Found at i:3898794 original size:30 final size:30
Alignment explanation
Indices: 3898738--3898794 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
3898728 TATTGAATAA
*
3898738 CTAATAACAATAAAAAAATTTAAGAATGAT
1 CTAATAACAATAAAAAAATTAAAGAATGAT
*
3898768 CTAATAACAATACAAAAA-TAAGAGAAT
1 CTAATAACAATAAAAAAATTAA-AGAAT
3898795 CAAATATCTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 2 0.08
30 22 0.92
ACGTcount: A:0.61, C:0.09, G:0.07, T:0.23
Consensus pattern (30 bp):
CTAATAACAATAAAAAAATTAAAGAATGAT
Found at i:3901202 original size:22 final size:20
Alignment explanation
Indices: 3901163--3901202 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
3901153 CTGAAGCCAA
*
3901163 TAATCCACATAATTTATTTT
1 TAATCCACATAATATATTTT
3901183 TAATCCAACAATAATATATT
1 TAATCC-AC-ATAATATATT
3901203 AATATTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 2 0.12
22 9 0.53
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.42
Consensus pattern (20 bp):
TAATCCACATAATATATTTT
Found at i:3901821 original size:31 final size:31
Alignment explanation
Indices: 3901785--3901845 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
3901775 AAATAATCAC
* *
3901785 TGAATTATTCGAAAA-TTTTCATTTAGGTCAT
1 TGAATTAGTC-AAAAGTTTTCATTTAAGTCAT
*
3901816 TGAATTAGTCAAAAGTTTTTATTTAAGTCA
1 TGAATTAGTCAAAAGTTTTCATTTAAGTCA
3901846 CCAGGCTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 4 0.15
31 22 0.85
ACGTcount: A:0.34, C:0.08, G:0.13, T:0.44
Consensus pattern (31 bp):
TGAATTAGTCAAAAGTTTTCATTTAAGTCAT
Found at i:3902515 original size:15 final size:15
Alignment explanation
Indices: 3902475--3902517 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
3902465 ATTTTTAACA
* *
3902475 GAATGTGATTCTTTG
1 GAATGTGATTGTTGG
*
3902490 GAATATGATTGTTGG
1 GAATGTGATTGTTGG
3902505 GAATGTGATTGTT
1 GAATGTGATTGTT
3902518 AGGATAGTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.23, C:0.02, G:0.30, T:0.44
Consensus pattern (15 bp):
GAATGTGATTGTTGG
Found at i:3910250 original size:26 final size:27
Alignment explanation
Indices: 3910209--3910260 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
3910199 TTTGTTCTTA
* *
3910209 GATTTTTTTATTTTACGAGTTTAATTAT
1 GATTTTTTTA-TTTACAAGTTAAATTAT
3910237 GATTTTTTTA-TTACAAGTTAAATT
1 GATTTTTTTATTTACAAGTTAAATT
3910261 TTATGTATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 12 0.55
28 10 0.45
ACGTcount: A:0.29, C:0.04, G:0.10, T:0.58
Consensus pattern (27 bp):
GATTTTTTTATTTACAAGTTAAATTAT
Found at i:3913207 original size:23 final size:22
Alignment explanation
Indices: 3913181--3913225 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
3913171 AACTTGGATT
*
3913181 TAATTGAATATTTTAAAAT-TTTA
1 TAATT-AA-ATTTCAAAATATTTA
3913204 TAATTAAATTTCAAAATATTTA
1 TAATTAAATTTCAAAATATTTA
3913226 CTACAATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 9 0.45
22 6 0.30
23 5 0.25
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (22 bp):
TAATTAAATTTCAAAATATTTA
Found at i:3919979 original size:16 final size:17
Alignment explanation
Indices: 3919958--3919997 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
3919948 TTGAATTAAT
3919958 TTTAAATTTA-TTCAAA
1 TTTAAATTTATTTCAAA
*
3919974 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTCAAA
3919991 TTTAAAT
1 TTTAAAT
3919998 ACATTTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 10 0.45
17 12 0.55
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (17 bp):
TTTAAATTTATTTCAAA
Found at i:3919991 original size:17 final size:16
Alignment explanation
Indices: 3919953--3919997 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
3919943 TAAGTTTGAA
*
3919953 TTAATTTTAAATTTAT
1 TTAAATTTAAATTTAT
*
3919969 TCAAATTTAAATTTATT
1 TTAAATTTAAATTTA-T
3919986 TTAAATTTAAAT
1 TTAAATTTAAAT
3919998 ACATTTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
16 13 0.52
17 12 0.48
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (16 bp):
TTAAATTTAAATTTAT
Found at i:3920003 original size:27 final size:28
Alignment explanation
Indices: 3919936--3920029 Score: 84
Period size: 27 Copynumber: 3.4 Consensus size: 28
3919926 CAATTTGGAT
* * *
3919936 TTTAAATTAAGTTTGAATTAATTTTAAA
1 TTTAAATCAAATTTAAATTAATTTTAAA
* *
3919964 TTT-ATTCAAATTTAAATTTATTTTAAA
1 TTTAAATCAAATTTAAATTAATTTTAAA
* * *
3919991 TTTAAAT-ACATTTAAAATAATTTGAAA
1 TTTAAATCAAATTTAAATTAATTTTAAA
* *
3920018 CTTAAATTAAAT
1 TTTAAATCAAAT
3920030 GTCCAAGTTA
Statistics
Matches: 52, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
27 44 0.85
28 8 0.15
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (28 bp):
TTTAAATCAAATTTAAATTAATTTTAAA
Found at i:3920720 original size:12 final size:12
Alignment explanation
Indices: 3920700--3920781 Score: 60
Period size: 12 Copynumber: 6.6 Consensus size: 12
3920690 CAACCTTTTA
*
3920700 AATATTATTAAT
1 AATAATATTAAT
*
3920712 AATAATATTAGT
1 AATAATATTAAT
3920724 AATAATCATGATAAT
1 AATAAT-AT--TAAT
*
3920739 AAATAATAGTAAT
1 -AATAATATTAAT
*
3920752 -A-AATATTTAT
1 AATAATATTAAT
3920762 AATTAATATTAAT
1 AA-TAATATTAAT
*
3920775 ATTAATA
1 AATAATA
3920782 AACAGTAATT
Statistics
Matches: 55, Mismatches: 8, Indels: 14
0.71 0.10 0.18
Matches are distributed among these distances:
10 7 0.13
11 2 0.04
12 21 0.38
13 15 0.27
15 4 0.07
16 6 0.11
ACGTcount: A:0.54, C:0.01, G:0.04, T:0.41
Consensus pattern (12 bp):
AATAATATTAAT
Found at i:3920720 original size:15 final size:15
Alignment explanation
Indices: 3920700--3920729 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
3920690 CAACCTTTTA
*
3920700 AATATTATTAATAAT
1 AATATTAGTAATAAT
3920715 AATATTAGTAATAAT
1 AATATTAGTAATAAT
3920730 CATGATAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (15 bp):
AATATTAGTAATAAT
Found at i:3921991 original size:58 final size:58
Alignment explanation
Indices: 3921901--3922096 Score: 286
Period size: 58 Copynumber: 3.4 Consensus size: 58
3921891 AAATTGTTCA
3921901 AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTGACCCTGATTTCACC
1 AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTGACCCTGATTTCACC
* * ** * *
3921959 AAAATTACCATTTTACCCCCAAACTTTCCAAAATTTCATTTTTGACATTGGTTTTACC
1 AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTGACCCTGATTTCACC
* **
3922017 AAAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTGACCCCAATTTCACC
1 -AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTGACCCTGATTTCACC
3922076 AAAATT-CCATTTTTACCCCCG
1 AAAATTACCA-TTTTACCCCCG
3922097 GAAGTCAAAA
Statistics
Matches: 120, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
57 3 0.03
58 68 0.57
59 49 0.41
ACGTcount: A:0.31, C:0.29, G:0.05, T:0.36
Consensus pattern (58 bp):
AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTGACCCTGATTTCACC
Found at i:3922116 original size:117 final size:116
Alignment explanation
Indices: 3921899--3922116 Score: 323
Period size: 117 Copynumber: 1.9 Consensus size: 116
3921889 CTAAATTGTT
**
3921899 CAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTGACCCTGATTTCACCAAAAT
1 CAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTGACCCCAATTTCACCAAAAT
* * *
3921964 TACCATTTTACCCCCAAACTTTCCAAAATTTCATTTTTGACATTGGTTTTAC
66 TACCATTTTACCCCCAAAC-GTCAAAAATTCCATTTTTGACATTGGTTTTAC
*
3922016 CAAAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTGACCCCAATTTCACCAAAAT
1 CAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTGACCCCAATTTCACCAAAAT
*
3922081 T-CCATTTTTACCCCCGGAA-GTCAAAAATTACCATTT
66 TACCA-TTTTACCCCC-AAACGTCAAAAATT-CCATTT
3922117 CACCCCAGGC
Statistics
Matches: 91, Mismatches: 7, Indels: 6
0.88 0.07 0.06
Matches are distributed among these distances:
116 11 0.12
117 78 0.86
118 2 0.02
ACGTcount: A:0.32, C:0.28, G:0.05, T:0.35
Consensus pattern (116 bp):
CAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTGACCCCAATTTCACCAAAAT
TACCATTTTACCCCCAAACGTCAAAAATTCCATTTTTGACATTGGTTTTAC
Found at i:3927530 original size:28 final size:29
Alignment explanation
Indices: 3927471--3927530 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
3927461 TTTGGTCACT
* * * * *
3927471 TTTAGTCCCTGTACTTTTTTATTTGTCAA
1 TTTAATCCCTATACTTTTTAAATTGTAAA
3927500 TTTAATCCCTATACTTTTTAAATT-TAAA
1 TTTAATCCCTATACTTTTTAAATTGTAAA
3927528 TTT
1 TTT
3927531 CTAGTCTTGA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 6 0.23
29 20 0.77
ACGTcount: A:0.25, C:0.15, G:0.05, T:0.55
Consensus pattern (29 bp):
TTTAATCCCTATACTTTTTAAATTGTAAA
Found at i:3928047 original size:31 final size:30
Alignment explanation
Indices: 3928012--3928097 Score: 72
Period size: 27 Copynumber: 2.9 Consensus size: 30
3928002 TTGATACCTG
*
3928012 AGTTTGGCTTCAATGTACAATTTGGTACGTA
1 AGTTT-GCTTCAATGTACAATTTGGTACATA
* * *
3928043 AGTTT--TT--TTGTCCCAATTTGGTACATG
1 AGTTTGCTTCAATGT-ACAATTTGGTACATA
*
3928070 AGTTTGACTTCAATGTTCAATTTGGTAC
1 AGTTTG-CTTCAATGTACAATTTGGTAC
3928098 CCCCAACCAA
Statistics
Matches: 43, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
26 3 0.07
27 17 0.40
28 2 0.05
30 2 0.05
31 16 0.37
32 3 0.07
ACGTcount: A:0.23, C:0.14, G:0.20, T:0.43
Consensus pattern (30 bp):
AGTTTGCTTCAATGTACAATTTGGTACATA
Found at i:3928325 original size:31 final size:31
Alignment explanation
Indices: 3928285--3928351 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
3928275 ACTTAGGTAC
* *
3928285 CAAAGTGAAACTTAAAGCCAAACTCAAATAT
1 CAAATTGAAAATTAAAGCCAAACTCAAATAT
* * * *
3928316 CAAATTGAAAATTACAGTCAAACTCGACTAT
1 CAAATTGAAAATTAAAGCCAAACTCAAATAT
3928347 CAAAT
1 CAAAT
3928352 AGTATATTAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.49, C:0.19, G:0.09, T:0.22
Consensus pattern (31 bp):
CAAATTGAAAATTAAAGCCAAACTCAAATAT
Found at i:3928431 original size:22 final size:21
Alignment explanation
Indices: 3928405--3928451 Score: 85
Period size: 22 Copynumber: 2.2 Consensus size: 21
3928395 TAGAATCATG
3928405 TATTAGATTATATATATATAT
1 TATTAGATTATATATATATAT
3928426 CTATTAGATTATATATATATAT
1 -TATTAGATTATATATATATAT
3928448 TATT
1 TATT
3928452 CTTTTCACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 4 0.16
22 21 0.84
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.53
Consensus pattern (21 bp):
TATTAGATTATATATATATAT
Found at i:3931031 original size:29 final size:27
Alignment explanation
Indices: 3930962--3931031 Score: 68
Period size: 31 Copynumber: 2.4 Consensus size: 27
3930952 TTTTTAAAAA
*
3930962 TTTAGAATTTAATTTTTATGCTTTTAT
1 TTTAAAATTTAATTTTTATGCTTTTAT
* **
3930989 TTTCAAGAAATTAATTCTTTTATTTTTTTAT
1 TTT-AA-AATTTAA-T-TTTTATGCTTTTAT
3931020 TTTAAAATTTAA
1 TTTAAAATTTAA
3931032 AACCAACTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
27 3 0.09
28 1 0.03
29 12 0.35
30 3 0.09
31 15 0.44
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.60
Consensus pattern (27 bp):
TTTAAAATTTAATTTTTATGCTTTTAT
Found at i:3932110 original size:97 final size:97
Alignment explanation
Indices: 3931944--3932137 Score: 325
Period size: 97 Copynumber: 2.0 Consensus size: 97
3931934 TTTATCAATG
* * * * *
3931944 GACAAGTTGGGTTTGTGTCGGATTTAGATCAGGTCGATTTAAATTTTGAAATTTTCAGGTTATTT
1 GACAAGTTGGGTTTGTGTCGAATTTAAATCAGGTCAATTCAAATTTTGAAATTTTCAGGTTAGTT
*
3932009 TAAGTTTTGTTATTTAAATTTGTGATTAGGGT
66 TAAGTTTTGTTATTTAAACTTGTGATTAGGGT
*
3932041 GACAAGTTGGGTTTGTGTCGAATTTAAATCAGGTCAATTCAAATTTTGGAATTTTCAGGTTAGTT
1 GACAAGTTGGGTTTGTGTCGAATTTAAATCAGGTCAATTCAAATTTTGAAATTTTCAGGTTAGTT
3932106 TAAGTTTTGTTATTTAAACTTGTGATTAGGGT
66 TAAGTTTTGTTATTTAAACTTGTGATTAGGGT
3932138 TTTTTAGGTT
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
97 90 1.00
ACGTcount: A:0.26, C:0.06, G:0.23, T:0.45
Consensus pattern (97 bp):
GACAAGTTGGGTTTGTGTCGAATTTAAATCAGGTCAATTCAAATTTTGAAATTTTCAGGTTAGTT
TAAGTTTTGTTATTTAAACTTGTGATTAGGGT
Found at i:3955376 original size:106 final size:107
Alignment explanation
Indices: 3955266--3955479 Score: 292
Period size: 106 Copynumber: 2.0 Consensus size: 107
3955256 TAGAATAACC
* *
3955266 TACACTAATCAGAATTCTAGAGT-A-AAACTAAAAACAAAGTTTAACTAGGAGAAGAAAAGCT-G
1 TACACTAATCAGAATT-TA-AGTAAGAAACTAAAAACAAAGTTTAACTAGGAGAAAAAAAGCTAA
*
3955328 AAAAATA-TAAGGCGTAACTCCACAACTTGGTTATTAACCAAGAG
64 AAAAATACTAA-GCATAACTCCACAACTTGGTTATTAACCAAGAG
* * * * *
3955372 TACACTTATCAGAGTTTAAGTAAGAAACTAAAAATAGAGTTTAACTGGGAGAAAAAAAGCTAAAA
1 TACACTAATCAGAATTTAAGTAAGAAACTAAAAACAAAGTTTAACTAGGAGAAAAAAAGCTAAAA
*
3955437 AAATACTAAGCATTACTCCACAACTTGGTTATTAACCAAGAG
66 AAATACTAAGCATAACTCCACAACTTGGTTATTAACCAAGAG
3955479 T
1 T
3955480 TATCATATTG
Statistics
Matches: 95, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
104 3 0.03
105 3 0.03
106 47 0.49
107 39 0.41
108 3 0.03
ACGTcount: A:0.47, C:0.14, G:0.15, T:0.23
Consensus pattern (107 bp):
TACACTAATCAGAATTTAAGTAAGAAACTAAAAACAAAGTTTAACTAGGAGAAAAAAAGCTAAAA
AAATACTAAGCATAACTCCACAACTTGGTTATTAACCAAGAG
Found at i:3957295 original size:80 final size:80
Alignment explanation
Indices: 3957047--3957314 Score: 378
Period size: 80 Copynumber: 3.4 Consensus size: 80
3957037 AACCCACCGT
* * *
3957047 GTGACAAT-CAAGTTAAAAGAGATAAATTGTTCAATGTTTAAAAGATCTCTAAATCCCTACTTCT
1 GTGAC-ATCCAAGTTAAAAGAGATAAATTATTCGATGTTTAAAAGATCTCTAAATCCCTACTACT
*
3957111 TTTTAAGGCTCACCTC
65 TTTCAAGGCTCACCTC
* * * *
3957127 GTGACATTCAAGTTAAAAGAGATAAATTATTCGATGTTTAGAACATCTCTGAATCCCTACTACTT
1 GTGACATCCAAGTTAAAAGAGATAAATTATTCGATGTTTAAAAGATCTCTAAATCCCTACTACTT
*
3957192 TTCAAGGCCCACCTC
66 TTCAAGGCTCACCTC
* *
3957207 GTGACATCCAAGTTAAAAGAGATAAATTATTCGATATTTAAAAGATCTTTAAATCCCTACTACTT
1 GTGACATCCAAGTTAAAAGAGATAAATTATTCGATGTTTAAAAGATCTCTAAATCCCTACTACTT
3957272 TTCAAGGCTCACCTC
66 TTCAAGGCTCACCTC
* * *
3957287 GTGGCATCCAAATTGAAAA-ATATAAATT
1 GTGACATCCAAGTT-AAAAGAGATAAATT
3957315 GAACAACTAT
Statistics
Matches: 168, Mismatches: 18, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
79 2 0.01
80 162 0.96
81 4 0.02
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.32
Consensus pattern (80 bp):
GTGACATCCAAGTTAAAAGAGATAAATTATTCGATGTTTAAAAGATCTCTAAATCCCTACTACTT
TTCAAGGCTCACCTC
Found at i:3957314 original size:160 final size:160
Alignment explanation
Indices: 3957021--3957314 Score: 416
Period size: 160 Copynumber: 1.8 Consensus size: 160
3957011 GCATACGAAC
* * *
3957021 CCCTACTACTTTTTGAAACCCACCGTGTGACAATCAAGTTAAAAGAGATAAATTGTTCAATGTTT
1 CCCTACTACTTTTTCAAACCCACCGTGTGACAATCAAGTTAAAAGAGATAAATTATTCAATATTT
* * * *
3957086 AAAAGATCTCTAAATCCCTACTTCTTTTTAAGGCTCACCTCGTGACATTCAAGTTAAAAGAGATA
66 AAAAGATCTCTAAATCCCTACTACTTTTCAAGGCTCACCTCGTGACATCCAAATTAAAAGAGATA
3957151 AATTATTCGATGTTTAGAACATCTCTGAAT
131 AATTATTCGATGTTTAGAACATCTCTGAAT
* *
3957181 CCCTACTAC-TTTTCAAGGCCCACC-TCGTGAC-ATCCAAGTTAAAAGAGATAAATTATTCGATA
1 CCCTACTACTTTTTCAA-ACCCACCGT-GTGACAAT-CAAGTTAAAAGAGATAAATTATTCAATA
* *
3957243 TTTAAAAGATCTTTAAATCCCTACTACTTTTCAAGGCTCACCTCGTGGCATCCAAATTGAAAA-A
63 TTTAAAAGATCTCTAAATCCCTACTACTTTTCAAGGCTCACCTCGTGACATCCAAATT-AAAAGA
*
3957307 TATAAATT
127 GATAAATT
3957315 GAACAACTAT
Statistics
Matches: 118, Mismatches: 12, Indels: 8
0.86 0.09 0.06
Matches are distributed among these distances:
159 9 0.08
160 105 0.89
161 4 0.03
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.32
Consensus pattern (160 bp):
CCCTACTACTTTTTCAAACCCACCGTGTGACAATCAAGTTAAAAGAGATAAATTATTCAATATTT
AAAAGATCTCTAAATCCCTACTACTTTTCAAGGCTCACCTCGTGACATCCAAATTAAAAGAGATA
AATTATTCGATGTTTAGAACATCTCTGAAT
Found at i:3974365 original size:14 final size:15
Alignment explanation
Indices: 3974346--3974378 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
3974336 AATTCTATAT
3974346 GTTTCTCTTCT-GGA
1 GTTTCTCTTCTAGGA
*
3974360 GTTTCTTTTCTAGGA
1 GTTTCTCTTCTAGGA
3974375 GTTT
1 GTTT
3974379 GTTTGTTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.09, C:0.15, G:0.21, T:0.55
Consensus pattern (15 bp):
GTTTCTCTTCTAGGA
Found at i:3978348 original size:11 final size:11
Alignment explanation
Indices: 3978328--3978402 Score: 69
Period size: 11 Copynumber: 6.5 Consensus size: 11
3978318 AAGCCTCTTA
*
3978328 TCTTTCCTTTC
1 TCTTTTCTTTC
*
3978339 TCTTTTCTTTT
1 TCTTTTCTTTC
*
3978350 TCTCATTCATTTC
1 TCT-TTTC-TTTC
*
3978363 TTTTTTCTTTC
1 TCTTTTCTTTC
3978374 TCTTTTCTTTTC
1 TCTTTTC-TTTC
* *
3978386 TATTTTCTTCC
1 TCTTTTCTTTC
3978397 TCTTTT
1 TCTTTT
3978403 AATCACACTT
Statistics
Matches: 51, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
11 30 0.59
12 16 0.31
13 5 0.10
ACGTcount: A:0.04, C:0.25, G:0.00, T:0.71
Consensus pattern (11 bp):
TCTTTTCTTTC
Found at i:3978385 original size:12 final size:12
Alignment explanation
Indices: 3978330--3978394 Score: 62
Period size: 12 Copynumber: 5.5 Consensus size: 12
3978320 GCCTCTTATC
*
3978330 TTTCCTTTCTCT
1 TTTCTTTTCTCT
3978342 TTTCTTTT-TCT
1 TTTCTTTTCTCT
* * *
3978353 CATTCATTTCTTT
1 -TTTCTTTTCTCT
3978366 TTTC-TTTCTCT
1 TTTCTTTTCTCT
*
3978377 TTTCTTTTCTAT
1 TTTCTTTTCTCT
3978389 TTTCTT
1 TTTCTT
3978395 CCTCTTTTAA
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
11 13 0.30
12 28 0.65
13 2 0.05
ACGTcount: A:0.05, C:0.23, G:0.00, T:0.72
Consensus pattern (12 bp):
TTTCTTTTCTCT
Found at i:3978806 original size:21 final size:21
Alignment explanation
Indices: 3978772--3978839 Score: 109
Period size: 21 Copynumber: 3.2 Consensus size: 21
3978762 ACCCATTAAG
*
3978772 CCCAAATCCTATTTAAACCAAA
1 CCCAAATTC-ATTTAAACCAAA
*
3978794 CCCACATTCATTTAAACCAAA
1 CCCAAATTCATTTAAACCAAA
3978815 CCCAAATTCATTTAAACCAAA
1 CCCAAATTCATTTAAACCAAA
3978836 CCCA
1 CCCA
3978840 TTTGAACCAA
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
21 36 0.84
22 7 0.16
ACGTcount: A:0.44, C:0.34, G:0.00, T:0.22
Consensus pattern (21 bp):
CCCAAATTCATTTAAACCAAA
Found at i:3978841 original size:15 final size:15
Alignment explanation
Indices: 3978823--3978852 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
3978813 AACCCAAATT
3978823 CATTTAAACCAAACC
1 CATTTAAACCAAACC
*
3978838 CATTTGAACCAAACC
1 CATTTAAACCAAACC
3978853 AAATGAACCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.33, G:0.03, T:0.20
Consensus pattern (15 bp):
CATTTAAACCAAACC
Found at i:3978933 original size:11 final size:10
Alignment explanation
Indices: 3978889--3978936 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
3978879 AGTCAAACCA
*
3978889 TTGACCGATG
1 TTGACCGACG
* *
3978899 TTGACTGGCG
1 TTGACCGACG
*
3978909 TTGATCGACG
1 TTGACCGACG
3978919 TTGACCGACCG
1 TTGACCGA-CG
3978930 TTGACCG
1 TTGACCG
3978937 GTGTTGATTG
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
10 21 0.70
11 9 0.30
ACGTcount: A:0.17, C:0.25, G:0.31, T:0.27
Consensus pattern (10 bp):
TTGACCGACG
Found at i:3978942 original size:21 final size:21
Alignment explanation
Indices: 3978918--3978957 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
3978908 GTTGATCGAC
3978918 GTTGACCGACCGTTGACCGGT
1 GTTGACCGACCGTTGACCGGT
** *
3978939 GTTGATTGATCGTTGACCG
1 GTTGACCGACCGTTGACCG
3978958 TTGACCGTTG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.15, C:0.23, G:0.33, T:0.30
Consensus pattern (21 bp):
GTTGACCGACCGTTGACCGGT
Found at i:3978954 original size:7 final size:7
Alignment explanation
Indices: 3978944--3978996 Score: 72
Period size: 7 Copynumber: 7.7 Consensus size: 7
3978934 CCGGTGTTGA
*
3978944 TTGATCG
1 TTGACCG
3978951 TTGACCG
1 TTGACCG
3978958 TTGACCG
1 TTGACCG
3978965 TTGACCG
1 TTGACCG
*
3978972 TTGA-CT
1 TTGACCG
*
3978978 TTGATCG
1 TTGACCG
3978985 TTGACCG
1 TTGACCG
3978992 TTGAC
1 TTGAC
3978997 TTTTTCGAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
6 5 0.12
7 36 0.88
ACGTcount: A:0.15, C:0.23, G:0.26, T:0.36
Consensus pattern (7 bp):
TTGACCG
Found at i:3978986 original size:20 final size:20
Alignment explanation
Indices: 3978944--3978999 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
3978934 CCGGTGTTGA
* *
3978944 TTGATCGTTGACCGTTGACCG
1 TTGACCGTTGA-CTTTGACCG
*
3978965 TTGACCGTTGACTTTGATCG
1 TTGACCGTTGACTTTGACCG
3978985 TTGACCGTTGACTTT
1 TTGACCGTTGACTTT
3979000 TTCGAAAAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
20 22 0.69
21 10 0.31
ACGTcount: A:0.14, C:0.21, G:0.25, T:0.39
Consensus pattern (20 bp):
TTGACCGTTGACTTTGACCG
Found at i:3980056 original size:3 final size:3
Alignment explanation
Indices: 3980044--3980094 Score: 95
Period size: 3 Copynumber: 17.3 Consensus size: 3
3980034 TATTCTATTC
3980044 TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
3980091 TAT T
1 TAT T
3980095 TTGGGATATA
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 45 0.96
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:3990025 original size:14 final size:15
Alignment explanation
Indices: 3989999--3990027 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
3989989 TTTAGTTATT
3989999 TTATAACTAAAAAAA
1 TTATAACTAAAAAAA
3990014 TTATAA-TAAAAAAA
1 TTATAACTAAAAAAA
3990028 AGTATATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (15 bp):
TTATAACTAAAAAAA
Found at i:4005437 original size:32 final size:31
Alignment explanation
Indices: 4005401--4005462 Score: 97
Period size: 32 Copynumber: 2.0 Consensus size: 31
4005391 AATTTTGAGT
* *
4005401 GTGCTTGGTAGGGAAGAAAAGTGAGAGGAAAG
1 GTGCTTGGTAGGGAAAAAAAGGGAG-GGAAAG
4005433 GTGCTTGGTAGGGAAAAAAAGGGAGGGAAA
1 GTGCTTGGTAGGGAAAAAAAGGGAGGGAAA
4005463 AAAATTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
31 5 0.18
32 23 0.82
ACGTcount: A:0.39, C:0.03, G:0.44, T:0.15
Consensus pattern (31 bp):
GTGCTTGGTAGGGAAAAAAAGGGAGGGAAAG
Found at i:4008355 original size:21 final size:20
Alignment explanation
Indices: 4008314--4008372 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 20
4008304 GTAGAACTTA
*
4008314 TAAATAATAATATAATTTTATT
1 TAAAT-ATAATA-AATATTATT
4008336 TAAATATAATTAAATATTATT
1 TAAATATAA-TAAATATTATT
*
4008357 TAATTATAAATAAATA
1 TAAATAT-AATAAATA
4008373 CACTAATCTT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
21 24 0.73
22 9 0.27
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
TAAATATAATAAATATTATT
Found at i:4008426 original size:21 final size:21
Alignment explanation
Indices: 4008377--4008427 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
4008367 TAAATACACT
* * *
4008377 AATCTTAAATTTAAGAGCTTA
1 AATCTTAAATCTAACACCTTA
4008398 AA-CTTTAAATCTAACACCTTA
1 AATC-TTAAATCTAACACCTTA
4008419 AATCTTAAA
1 AATCTTAAA
4008428 CTCAAACTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
20 1 0.04
21 23 0.92
22 1 0.04
ACGTcount: A:0.45, C:0.16, G:0.04, T:0.35
Consensus pattern (21 bp):
AATCTTAAATCTAACACCTTA
Found at i:4008496 original size:21 final size:20
Alignment explanation
Indices: 4008470--4008510 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
4008460 TATATATAAC
*
4008470 AATTATAATTAATTAATAATT
1 AATTATAATTAAATAA-AATT
*
4008491 AATTATATTTAAATAAAATT
1 AATTATAATTAAATAAAATT
4008511 GTTAGTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
AATTATAATTAAATAAAATT
Found at i:4010405 original size:7 final size:7
Alignment explanation
Indices: 4010389--4010436 Score: 69
Period size: 7 Copynumber: 6.9 Consensus size: 7
4010379 TTCCATCCTA
4010389 AATTCTC
1 AATTCTC
*
4010396 AATCCTC
1 AATTCTC
*
4010403 AATTTTC
1 AATTCTC
4010410 AATTCTC
1 AATTCTC
4010417 AATTCTC
1 AATTCTC
*
4010424 AATTTTC
1 AATTCTC
4010431 AATTCT
1 AATTCT
4010437 TAAACCTCAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 35 1.00
ACGTcount: A:0.29, C:0.25, G:0.00, T:0.46
Consensus pattern (7 bp):
AATTCTC
Found at i:4010406 original size:14 final size:14
Alignment explanation
Indices: 4010383--4010448 Score: 69
Period size: 14 Copynumber: 4.7 Consensus size: 14
4010373 TCATTCTTCC
*
4010383 ATCCTAAATTCTCA
1 ATCCTCAATTCTCA
*
4010397 ATCCTCAATTTTCA
1 ATCCTCAATTCTCA
*
4010411 ATTCTCAATTCTCA
1 ATCCTCAATTCTCA
** *
4010425 ATTTTCAATTCTTA
1 ATCCTCAATTCTCA
*
4010439 AACCTCAATT
1 ATCCTCAATT
4010449 TTTATATATT
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 43 1.00
ACGTcount: A:0.32, C:0.26, G:0.00, T:0.42
Consensus pattern (14 bp):
ATCCTCAATTCTCA
Found at i:4010413 original size:21 final size:21
Alignment explanation
Indices: 4010389--4010450 Score: 97
Period size: 21 Copynumber: 3.0 Consensus size: 21
4010379 TTCCATCCTA
4010389 AATTCTCAATCCTCAATTTTC
1 AATTCTCAATCCTCAATTTTC
*
4010410 AATTCTCAATTCTCAATTTTC
1 AATTCTCAATCCTCAATTTTC
* *
4010431 AATTCTTAAACCTCAATTTT
1 AATTCTCAATCCTCAATTTT
4010451 TATATATTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.31, C:0.24, G:0.00, T:0.45
Consensus pattern (21 bp):
AATTCTCAATCCTCAATTTTC
Found at i:4011501 original size:18 final size:18
Alignment explanation
Indices: 4011475--4011514 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
4011465 ATTGCTTCTT
* *
4011475 AAAAGCACTTTTGGGATA
1 AAAAACACTTTTGAGATA
4011493 AAAAACACTTTTGAGATA
1 AAAAACACTTTTGAGATA
4011511 AAAA
1 AAAA
4011515 CATTATTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.50, C:0.10, G:0.15, T:0.25
Consensus pattern (18 bp):
AAAAACACTTTTGAGATA
Found at i:4012266 original size:53 final size:54
Alignment explanation
Indices: 4012208--4012315 Score: 209
Period size: 53 Copynumber: 2.0 Consensus size: 54
4012198 AAATATTTCC
4012208 CACTCTCAGATCAAAATAAATATTTTTAAATTTTAAATTTATAA-TTATCCTAA
1 CACTCTCAGATCAAAATAAATATTTTTAAATTTTAAATTTATAATTTATCCTAA
4012261 CACTCTCAGATCAAAATAAATATTTTTAAATTTTAAATTTATAATTTATCCTAA
1 CACTCTCAGATCAAAATAAATATTTTTAAATTTTAAATTTATAATTTATCCTAA
4012315 C
1 C
4012316 TCATTAAAAA
Statistics
Matches: 54, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
53 44 0.81
54 10 0.19
ACGTcount: A:0.43, C:0.14, G:0.02, T:0.42
Consensus pattern (54 bp):
CACTCTCAGATCAAAATAAATATTTTTAAATTTTAAATTTATAATTTATCCTAA
Done.