Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 16 of 253
Found at i:4493826 original size:13 final size:13
Alignment explanation
Indices: 4493789--4493828 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
4493779 TTAGATGGAC
4493789 ATATATTATTTCAT
1 ATATATTATTT-AT
* *
4493803 AGATCTTATTTAT
1 ATATATTATTTAT
4493816 ATATATTATTTAT
1 ATATATTATTTAT
4493829 TTTGAAATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (13 bp):
ATATATTATTTAT
Found at i:4506681 original size:44 final size:44
Alignment explanation
Indices: 4506604--4506719 Score: 106
Period size: 44 Copynumber: 2.6 Consensus size: 44
4506594 GCAAATCTCT
* * ** * *
4506604 TCTCCCTGAAATTACACTGGAATAAATTGAAGCTACAAGTCTAA
1 TCTCCCTGAAGTTACAGTGGAGCAGATTAAAGCTACAAGTCTAA
* * ** *
4506648 TCTCCCTGAGGTTGCAGTGGAGCAGATTAAAGCTATGAGTCTAG
1 TCTCCCTGAAGTTACAGTGGAGCAGATTAAAGCTACAAGTCTAA
** *
4506692 TCTTTCTGAAGTTACAGTGGAGTAGATT
1 TCTCCCTGAAGTTACAGTGGAGCAGATT
4506720 GACGTAATAA
Statistics
Matches: 56, Mismatches: 16, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
44 56 1.00
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.30
Consensus pattern (44 bp):
TCTCCCTGAAGTTACAGTGGAGCAGATTAAAGCTACAAGTCTAA
Found at i:4508166 original size:20 final size:20
Alignment explanation
Indices: 4508141--4508184 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
4508131 CTTGGTTTTC
4508141 TTTTT-ATTTCAATTAAGTTT
1 TTTTTAATTTCAATTAA-TTT
*
4508161 TTTTTAATTTCAATTTATTT
1 TTTTTAATTTCAATTAATTT
4508181 TTTT
1 TTTT
4508185 ATTCTTTATG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.23, C:0.05, G:0.02, T:0.70
Consensus pattern (20 bp):
TTTTTAATTTCAATTAATTT
Found at i:4508170 original size:21 final size:21
Alignment explanation
Indices: 4508135--4508184 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
4508125 TGTCCACTTG
*
4508135 GTTTTCTTTTTATTTCAATTAA
1 GTTTT-TTTTAATTTCAATTAA
*
4508157 GTTTTTTTTAATTTCAATTTA
1 GTTTTTTTTAATTTCAATTAA
4508178 -TTTTTTT
1 GTTTTTTT
4508185 ATTCTTTATG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 7 0.27
21 14 0.54
22 5 0.19
ACGTcount: A:0.20, C:0.06, G:0.04, T:0.70
Consensus pattern (21 bp):
GTTTTTTTTAATTTCAATTAA
Found at i:4511390 original size:22 final size:21
Alignment explanation
Indices: 4511360--4511425 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 21
4511350 TACAAATTAA
4511360 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
4511382 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
4511403 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
4511422 ATCT
1 ATCT
4511426 AAGATTGTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
19 19 0.46
21 10 0.24
22 12 0.29
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:4511412 original size:19 final size:19
Alignment explanation
Indices: 4511377--4511474 Score: 146
Period size: 19 Copynumber: 5.2 Consensus size: 19
4511367 AGATTACAAG
4511377 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
4511398 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
4511417 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
*
4511434 ATCATATCTAATATTGCAT
1 ATCATATCTAAGATTGCAT
*
4511453 ATCATATCTAAGATTGTAT
1 ATCATATCTAAGATTGCAT
4511472 ATC
1 ATC
4511475 CTTAAATATT
Statistics
Matches: 72, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
17 16 0.22
19 47 0.65
20 1 0.01
21 8 0.11
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.40
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:4511484 original size:36 final size:36
Alignment explanation
Indices: 4511377--4511471 Score: 145
Period size: 36 Copynumber: 2.5 Consensus size: 36
4511367 AGATTACAAG
*
4511377 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGCAT
1 ATCATATC-T-AAGATTG--TATCATATCTAATATTGCAT
4511417 ATCATATCTAAGATTGTATCATATCTAATATTGCAT
1 ATCATATCTAAGATTGTATCATATCTAATATTGCAT
4511453 ATCATATCTAAGATTGTAT
1 ATCATATCTAAGATTGTAT
4511472 ATCCTTAAAT
Statistics
Matches: 54, Mismatches: 1, Indels: 4
0.92 0.02 0.07
Matches are distributed among these distances:
36 38 0.70
38 7 0.13
39 1 0.02
40 8 0.15
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.40
Consensus pattern (36 bp):
ATCATATCTAAGATTGTATCATATCTAATATTGCAT
Found at i:4513209 original size:26 final size:26
Alignment explanation
Indices: 4513180--4513287 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
4513170 TGGTACAAAT
4513180 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
4513206 TGATAATGGATTTGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
4513232 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
4513258 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
4513284 TGAT
1 TGAT
4513288 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.31, C:0.07, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:4521022 original size:26 final size:26
Alignment explanation
Indices: 4520993--4521100 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
4520983 TGGTACAAAT
4520993 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
4521019 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
4521045 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
4521071 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
4521097 TGAT
1 TGAT
4521101 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:4524364 original size:44 final size:45
Alignment explanation
Indices: 4524305--4524416 Score: 127
Period size: 45 Copynumber: 2.5 Consensus size: 45
4524295 TATCTCCCAA
* * *
4524305 AAGTGGCAGTGGAGCAGATTGAAGCCA-TAAGTCTTATTTCCCTG
1 AAGTTGCAGTGGAGCAGATTGAAGACAGTAACTCTTATTTCCCTG
* * * * * *
4524349 AAGTTGCAGCGGAGCAGACTAAAGATAGTGACTCTTGTTTCCCTG
1 AAGTTGCAGTGGAGCAGATTGAAGACAGTAACTCTTATTTCCCTG
*
4524394 AAGTTGCAGTGGAACAGATTGAA
1 AAGTTGCAGTGGAGCAGATTGAA
4524417 ACTATAAATA
Statistics
Matches: 54, Mismatches: 13, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
44 21 0.39
45 33 0.61
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (45 bp):
AAGTTGCAGTGGAGCAGATTGAAGACAGTAACTCTTATTTCCCTG
Found at i:4524503 original size:45 final size:45
Alignment explanation
Indices: 4524427--4524514 Score: 113
Period size: 45 Copynumber: 2.0 Consensus size: 45
4524417 ACTATAAATA
* * *
4524427 AACAGATCTTATCTCTCTGAAAATGCTGTGGAGCAGATTGAAGAT
1 AACAGATCTTATCTCCCTGAAAATGCAGTGGAGCAGATCGAAGAT
* ** *
4524472 AACAGGTCTTATCTCCCTGAAGCTGCAGTGGAGTAGATCGAAG
1 AACAGATCTTATCTCCCTGAAAATGCAGTGGAGCAGATCGAAG
4524515 TCACCATCCT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (45 bp):
AACAGATCTTATCTCCCTGAAAATGCAGTGGAGCAGATCGAAGAT
Found at i:4524739 original size:44 final size:44
Alignment explanation
Indices: 4524691--4524777 Score: 102
Period size: 44 Copynumber: 2.0 Consensus size: 44
4524681 GAATAAATTG
* *
4524691 AAGCTACAAGTCTAATCTCACTGAGGTTGCAGTGGAGCAGATTA
1 AAGCTACAAGTCTAATCTCACTGAAGTTACAGTGGAGCAGATTA
** * ** *
4524735 AAGCTATGAGTCTAGTCTTTCTGAAGTTACAGTGGAGTAGATT
1 AAGCTACAAGTCTAATCTCACTGAAGTTACAGTGGAGCAGATT
4524778 GACGCAATAA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
44 35 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (44 bp):
AAGCTACAAGTCTAATCTCACTGAAGTTACAGTGGAGCAGATTA
Found at i:4532145 original size:24 final size:24
Alignment explanation
Indices: 4532113--4532168 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
4532103 CTTGGTCTTA
4532113 TTTTTATTTCAATTGA-GTTTTTT
1 TTTTTATTTCAATTGATGTTTTTT
*
4532136 TTTTTAATTTCAATTTATGTTTTTAT
1 TTTTT-ATTTCAATTGATGTTTTT-T
*
4532162 TCTTTAT
1 TTTTTAT
4532169 GGTTCTTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 5 0.18
24 10 0.36
25 8 0.29
26 5 0.18
ACGTcount: A:0.20, C:0.05, G:0.05, T:0.70
Consensus pattern (24 bp):
TTTTTATTTCAATTGATGTTTTTT
Found at i:4539123 original size:39 final size:39
Alignment explanation
Indices: 4539069--4539145 Score: 127
Period size: 39 Copynumber: 2.0 Consensus size: 39
4539059 AGAGCTGGAT
* *
4539069 GAATTTGAACCAGACAAACTTGACCCAGCCTGTTCACAA
1 GAATTTGAACCAGACAAACTTGAACCAGCCTGGTCACAA
*
4539108 GAATTTGAACCAGACAAATTTGAACCAGCCTGGTCACA
1 GAATTTGAACCAGACAAACTTGAACCAGCCTGGTCACA
4539146 TGACACCTGT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.21
Consensus pattern (39 bp):
GAATTTGAACCAGACAAACTTGAACCAGCCTGGTCACAA
Found at i:4545008 original size:35 final size:35
Alignment explanation
Indices: 4544962--4545049 Score: 176
Period size: 35 Copynumber: 2.5 Consensus size: 35
4544952 CAACTCATAC
4544962 ATGGACCGATTAACGATTCTTAATGTCTTGAATAT
1 ATGGACCGATTAACGATTCTTAATGTCTTGAATAT
4544997 ATGGACCGATTAACGATTCTTAATGTCTTGAATAT
1 ATGGACCGATTAACGATTCTTAATGTCTTGAATAT
4545032 ATGGACCGATTAACGATT
1 ATGGACCGATTAACGATT
4545050 TATCTCGACT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 53 1.00
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (35 bp):
ATGGACCGATTAACGATTCTTAATGTCTTGAATAT
Found at i:4551312 original size:253 final size:254
Alignment explanation
Indices: 4550862--4551328 Score: 693
Period size: 253 Copynumber: 1.8 Consensus size: 254
4550852 GTGAATATTG
*
4550862 AGATTCTCTTATTTCGAAGAAATAAAACATCACATCCAGCACGTAGGACACAAAATTTCAAACCT
1 AGATTCTCTTATTTCGAAGAAATAAAACATCACATCCAGCACGTAAGACACAAAATTTCAAACCT
* * *
4550927 TCGATATCAAAATCATCTCATAATTCCCAGAATTTATGCATTGAAAATTTAAAAAGGATATTTGG
66 TCGATACCAAAATCATCTCATAATTCCCAGAACTCATGCATTGAAAATTTAAAAAGGATATTTGG
* * * * *
4550992 TCGTTCGGTCAAACGATAAATCGAAACCTAGCACGTAGGGCACAATTTCTCGAAATTTCCGAACA
131 TCGTTCGGTCAAACGACAAATCGAAACCCAACACGTAGGGCACAATCTCTCGAAATTTCCAAACA
**
4551057 CGAAATATTGTCTTGTTTTAAAAAGTCTTGAATAAAAATGTAATAGTATGAAACGATTA
196 CGAAATATTACCTTGTTTTAAAAAGTCTTGAATAAAAATGTAATAGTATGAAACGATTA
* * * * * * * *
4551116 AGATTCTCTTGTTTCGAAGAAATAAAATATCACATTCGGCACGTAAGACACGATATTTCAATCTT
1 AGATTCTCTTATTTCGAAGAAATAAAACATCACATCCAGCACGTAAGACACAAAATTTCAAACCT
** * ** *
4551181 TCGATACCAAAATCATCTCATAATTTTC-GAACTCGTGTTTTGAAATTTTAAAAAGGATATTTGG
66 TCGATACCAAAATCATCTCATAATTCCCAGAACTCATGCATTGAAAATTTAAAAAGGATATTTGG
*
4551245 TTGTTCGGTCAAACGACAAATCGAAACCCAACACGTAGGGCACAATCTCTCGAAATTTCCAAACA
131 TCGTTCGGTCAAACGACAAATCGAAACCCAACACGTAGGGCACAATCTCTCGAAATTTCCAAACA
4551310 CGAAATATTACCTTGTTTT
196 CGAAATATTACCTTGTTTT
4551329 GAATAAAACA
Statistics
Matches: 187, Mismatches: 26, Indels: 1
0.87 0.12 0.00
Matches are distributed among these distances:
253 106 0.57
254 81 0.43
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.30
Consensus pattern (254 bp):
AGATTCTCTTATTTCGAAGAAATAAAACATCACATCCAGCACGTAAGACACAAAATTTCAAACCT
TCGATACCAAAATCATCTCATAATTCCCAGAACTCATGCATTGAAAATTTAAAAAGGATATTTGG
TCGTTCGGTCAAACGACAAATCGAAACCCAACACGTAGGGCACAATCTCTCGAAATTTCCAAACA
CGAAATATTACCTTGTTTTAAAAAGTCTTGAATAAAAATGTAATAGTATGAAACGATTA
Found at i:4554164 original size:18 final size:20
Alignment explanation
Indices: 4554119--4554169 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 20
4554109 TGACAATTTA
4554119 ATTAAAAATAAAGATTAAAT
1 ATTAAAAATAAAGATTAAAT
*
4554139 -TGACAAAA-AAAGA-TAAAT
1 ATTA-AAAATAAAGATTAAAT
4554157 ATTAAAAACTAAA
1 ATTAAAAA-TAAA
4554170 TTTGCAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 8
0.71 0.06 0.23
Matches are distributed among these distances:
18 9 0.36
19 9 0.36
20 7 0.28
ACGTcount: A:0.67, C:0.04, G:0.06, T:0.24
Consensus pattern (20 bp):
ATTAAAAATAAAGATTAAAT
Found at i:4558909 original size:40 final size:40
Alignment explanation
Indices: 4558854--4558929 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 40
4558844 ACATACCATG
* *
4558854 TGGGGATAAAATCGACCCACCCATCCCTGCACACCAAATA
1 TGGGGATAAAATCGACCCACCCAACCCTACACACCAAATA
*
4558894 TGGGGATAAAATCGACCCATCCAACCCTACACACCA
1 TGGGGATAAAATCGACCCACCCAACCCTACACACCA
4558930 TAAAGTACTG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.36, C:0.36, G:0.14, T:0.14
Consensus pattern (40 bp):
TGGGGATAAAATCGACCCACCCAACCCTACACACCAAATA
Found at i:4559176 original size:34 final size:35
Alignment explanation
Indices: 4559133--4559205 Score: 94
Period size: 34 Copynumber: 2.1 Consensus size: 35
4559123 AAAAAATATC
* * *
4559133 AGTCGTACAACCACCGTCAAGTCAGTTAAA-TCAT
1 AGTCATACAACCACAGTCAAATCAGTTAAATTCAT
* *
4559167 AGTCATACAATCATAGTCAAATCAGTTAAATTCAT
1 AGTCATACAACCACAGTCAAATCAGTTAAATTCAT
4559202 AGTC
1 AGTC
4559206 CAAGTTAGTT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
34 25 0.76
35 8 0.24
ACGTcount: A:0.38, C:0.22, G:0.12, T:0.27
Consensus pattern (35 bp):
AGTCATACAACCACAGTCAAATCAGTTAAATTCAT
Found at i:4559320 original size:27 final size:27
Alignment explanation
Indices: 4559249--4559355 Score: 90
Period size: 27 Copynumber: 4.0 Consensus size: 27
4559239 TCATTTATCC
* * *
4559249 CTACAGGGGTATTTCGATAATTTTACA
1 CTACAAGGGTATTACGGTAATTTTACA
* * *
4559276 CTACAAAGGTATTCCGGTAATTTTGCA
1 CTACAAGGGTATTACGGTAATTTTACA
* *
4559303 CTACAAGGGTATTACGGTCATTCTACA
1 CTACAAGGGTATTACGGTAATTTTACA
* * * * *
4559330 AT-CGATGGTATTTCAGTAATTTTACA
1 CTACAAGGGTATTACGGTAATTTTACA
4559356 AACCGGGGTC
Statistics
Matches: 63, Mismatches: 17, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
26 18 0.29
27 45 0.71
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.36
Consensus pattern (27 bp):
CTACAAGGGTATTACGGTAATTTTACA
Found at i:4561199 original size:10 final size:10
Alignment explanation
Indices: 4561184--4561209 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
4561174 GAGCATCAAT
4561184 TAAACACAAC
1 TAAACACAAC
4561194 TAAACACAAC
1 TAAACACAAC
4561204 TAAACA
1 TAAACA
4561210 TCATATATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.62, C:0.27, G:0.00, T:0.12
Consensus pattern (10 bp):
TAAACACAAC
Found at i:4561361 original size:2 final size:2
Alignment explanation
Indices: 4561354--4561380 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4561344 TCCAACTCAA
4561354 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
4561381 TAAAAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:4572422 original size:21 final size:21
Alignment explanation
Indices: 4572398--4572448 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
4572388 TAATATGTTA
* **
4572398 TATGCTTAGTATGATTTGTAT
1 TATGCTAAGTATGATCCGTAT
*
4572419 TATGATAAGTATGATCCGTAT
1 TATGCTAAGTATGATCCGTAT
4572440 TATGCTAAG
1 TATGCTAAG
4572449 CATGGTTTGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.29, C:0.08, G:0.20, T:0.43
Consensus pattern (21 bp):
TATGCTAAGTATGATCCGTAT
Found at i:4574498 original size:32 final size:33
Alignment explanation
Indices: 4574423--4574564 Score: 98
Period size: 32 Copynumber: 4.4 Consensus size: 33
4574413 TCAAAATGGT
* * *
4574423 CCTCAAAACTAGGGCACTAAAAACAAAATTGGA
1 CCTCAAAACTAGGGCACTAAAAACTAAACTAGA
* *
4574456 TCTCATAACTAGGGCACT-AAAACGTAAA-TAGA
1 CCTCAAAACTAGGGCACTAAAAAC-TAAACTAGA
*
4574488 CCTCAAAACTAGGTC-CTACAAAAC-AAACTAGA
1 CCTCAAAACTAGGGCACTA-AAAACTAAACTAGA
* * * ** * *
4574520 TCTTACAACTAGTCCACT-AAAACGT-AATTGGA
1 CCTCAAAACTAGGGCACTAAAAAC-TAAACTAGA
4574552 CCTCAAAACTAGG
1 CCTCAAAACTAGG
4574565 ATATTGAACT
Statistics
Matches: 84, Mismatches: 18, Indels: 15
0.72 0.15 0.13
Matches are distributed among these distances:
31 10 0.12
32 48 0.57
33 26 0.31
ACGTcount: A:0.44, C:0.23, G:0.13, T:0.20
Consensus pattern (33 bp):
CCTCAAAACTAGGGCACTAAAAACTAAACTAGA
Found at i:4574543 original size:64 final size:65
Alignment explanation
Indices: 4574423--4574564 Score: 180
Period size: 64 Copynumber: 2.2 Consensus size: 65
4574413 TCAAAATGGT
* * * *
4574423 CCTCAAAACTAGGGCACTAAAAACAAAATTGGATCTCATAACTAGGGCACTAAAACGTAAATAGA
1 CCTCAAAACTAGGGCACTAAAAACAAAACTAGATCTCACAACTAGGCCACTAAAACGTAAATAGA
* * * * *
4574488 CCTCAAAACTAGGTC-CTACAAAAC-AAACTAGATCTTACAACTAGTCCACTAAAACGTAATTGG
1 CCTCAAAACTAGGGCACTA-AAAACAAAACTAGATCTCACAACTAGGCCACTAAAACGTAAATAG
4574551 A
65 A
4574552 CCTCAAAACTAGG
1 CCTCAAAACTAGG
4574565 ATATTGAACT
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
64 48 0.72
65 19 0.28
ACGTcount: A:0.44, C:0.23, G:0.13, T:0.20
Consensus pattern (65 bp):
CCTCAAAACTAGGGCACTAAAAACAAAACTAGATCTCACAACTAGGCCACTAAAACGTAAATAGA
Found at i:4583119 original size:16 final size:16
Alignment explanation
Indices: 4583098--4583130 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
4583088 AAACCTTATG
4583098 TTTACTCTAAGCCTAA
1 TTTACTCTAAGCCTAA
4583114 TTTACTCTAAGCCTAA
1 TTTACTCTAAGCCTAA
4583130 T
1 T
4583131 AAAAGTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.24, G:0.06, T:0.39
Consensus pattern (16 bp):
TTTACTCTAAGCCTAA
Found at i:4586860 original size:127 final size:127
Alignment explanation
Indices: 4586711--4586967 Score: 505
Period size: 127 Copynumber: 2.0 Consensus size: 127
4586701 TGAATCACTT
4586711 ATGAAATTATATTATACGAAAAGAAGTATGAAATCCTTTTTAGGAAGATAATTTCGGATCTTTGA
1 ATGAAATTATATTATACGAAAAGAAGTATGAAATCCTTTTTAGGAAGATAATTTCGGATCTTTGA
*
4586776 ATATCAAATAAAACAATTTAGGTTATAGCATCCCATAATGCTTAAAATTCATACCTTGTTAA
66 ATATCAAATAAAACAATTTAGGTTATAGCATCCCATAATGCTTAAAATTCATACCTCGTTAA
4586838 ATGAAATTATATTATACGAAAAGAAGTATGAAATCCTTTTTAGGAAGATAATTTCGGATCTTTGA
1 ATGAAATTATATTATACGAAAAGAAGTATGAAATCCTTTTTAGGAAGATAATTTCGGATCTTTGA
4586903 ATATCAAATAAAACAATTTAGGTTATAGCATCCCATAATGCTTAAAATTCATACCTCGTTAA
66 ATATCAAATAAAACAATTTAGGTTATAGCATCCCATAATGCTTAAAATTCATACCTCGTTAA
4586965 ATG
1 ATG
4586968 CTTATTGTTT
Statistics
Matches: 129, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
127 129 1.00
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.34
Consensus pattern (127 bp):
ATGAAATTATATTATACGAAAAGAAGTATGAAATCCTTTTTAGGAAGATAATTTCGGATCTTTGA
ATATCAAATAAAACAATTTAGGTTATAGCATCCCATAATGCTTAAAATTCATACCTCGTTAA
Found at i:4588643 original size:5 final size:5
Alignment explanation
Indices: 4588634--4588692 Score: 91
Period size: 5 Copynumber: 11.8 Consensus size: 5
4588624 AGAAATCATA
* * *
4588634 TATAA TATAA TATAA TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
4588684 TATAT TATA
1 TATAT TATA
4588693 ATAAAGCAAG
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
5 53 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (5 bp):
TATAT
Found at i:4590129 original size:15 final size:16
Alignment explanation
Indices: 4590087--4590129 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
4590077 ATACAAACAG
* *
4590087 AACAACAAAAAATTTT
1 AACAATAAAACATTTT
*
4590103 AACAATACAACATTTT
1 AACAATAAAACATTTT
4590119 AA-AATAAAACA
1 AACAATAAAACA
4590130 CATTCGATCA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.63, C:0.14, G:0.00, T:0.23
Consensus pattern (16 bp):
AACAATAAAACATTTT
Found at i:4601954 original size:34 final size:31
Alignment explanation
Indices: 4601909--4601970 Score: 88
Period size: 34 Copynumber: 1.9 Consensus size: 31
4601899 ATAATATTGT
*
4601909 TAAATATTTAAATTAATTAATAATATTATAAAAA
1 TAAATAATTAAATT-A-TAATAA-ATTATAAAAA
4601943 TAAATAATTAAATTATAATAAATTATAA
1 TAAATAATTAAATTATAATAAATTATAA
4601971 GGATTAAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 7 0.26
32 6 0.22
33 1 0.04
34 13 0.48
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (31 bp):
TAAATAATTAAATTATAATAAATTATAAAAA
Found at i:4605465 original size:13 final size:13
Alignment explanation
Indices: 4605408--4605466 Score: 50
Period size: 13 Copynumber: 4.5 Consensus size: 13
4605398 CAAAACAATA
*
4605408 AAAATACAATATT
1 AAAATATAATATT
4605421 AAAATATATATATAT
1 AAAATATA-ATAT-T
* *
4605436 AAAATGT-ATA-C
1 AAAATATAATATT
*
4605447 ATAATATAATATT
1 AAAATATAATATT
4605460 AAAATAT
1 AAAATAT
4605467 TTACATGGTA
Statistics
Matches: 35, Mismatches: 7, Indels: 8
0.70 0.14 0.16
Matches are distributed among these distances:
11 5 0.14
12 3 0.09
13 16 0.46
14 4 0.11
15 7 0.20
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (13 bp):
AAAATATAATATT
Found at i:4605471 original size:24 final size:26
Alignment explanation
Indices: 4605423--4605472 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 26
4605413 ACAATATTAA
*
4605423 AATATATATATATAAAATGTATACAT
1 AATATATATATATAAAATATATACAT
*
4605449 AATATA-ATAT-TAAAATATTTACAT
1 AATATATATATATAAAATATATACAT
4605473 GGTATATACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 12 0.55
25 4 0.18
26 6 0.27
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (26 bp):
AATATATATATATAAAATATATACAT
Found at i:4606018 original size:39 final size:39
Alignment explanation
Indices: 4605975--4606055 Score: 153
Period size: 39 Copynumber: 2.1 Consensus size: 39
4605965 GCAAAAAAGC
*
4605975 TAATTCCACTCCCCCATGCTACTTTGTTTTATTATTAAT
1 TAATTCCACTCCCCCATGCCACTTTGTTTTATTATTAAT
4606014 TAATTCCACTCCCCCATGCCACTTTGTTTTATTATTAAT
1 TAATTCCACTCCCCCATGCCACTTTGTTTTATTATTAAT
4606053 TAA
1 TAA
4606056 AATCATATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.25, C:0.26, G:0.05, T:0.44
Consensus pattern (39 bp):
TAATTCCACTCCCCCATGCCACTTTGTTTTATTATTAAT
Found at i:4607521 original size:44 final size:44
Alignment explanation
Indices: 4607436--4609349 Score: 2593
Period size: 44 Copynumber: 44.1 Consensus size: 44
4607426 AGGAACACCG
* * *
4607436 ATCTATTATCTTCGATCTGCTCTTCGCCGCTACAGATACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * * * * *
4607480 ATATGCTATCTTTGATCTGCTCTCTGCAGCTATAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * * *
4607524 ATTTGTTATCTTCGATCTACTTTCCGCCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * * *
4607568 ATCTTTTATCTTCGATCTGCTCTCCGCCACTACAGAGAAGCTAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * *
4607612 ATCTGTTATTTTCGATCTGCT-TCCGTCGCTACAGAGACGCAAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
** * *
4607655 ATCTGCAATCTTCGATCTGCTCTCAGCCGCTACAGAGACGCGAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
** * *
4607699 ATCTGCAATCTTCGATCTGCTCTCAGCCGCTACAGACACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* *
4607743 ATTTGTTATCTTCGATCTGCTCTCAGCCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
*
4607787 ATCTGTTATCCTT-GATCTGCTCTCCGCCGCTACAGAGAGGCCAA
1 ATCTGTTAT-CTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* *
4607831 ATCTGTTATCTTCAATCTGTTCTCCGCCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * *
4607875 ATCTGTTATCTTCGATCTGCTCTCTGTCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* *
4607919 ATCTGTTATCTTCGATTTGCTCTCCGCTGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * * * *
4607963 ATCTGTTATCTTCGATTTACTCTCCGCTGCTACAAAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * *
4608007 ATCTGTTATCTTTGATCTGATCTCCGCCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * *
4608051 ATCTGTTATCTTCGATCTGCTCTCTGCCACTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* *
4608095 ATC----ATCTTCGATCTGCTCTTCGCCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
4608135 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* *
4608179 ATCTGTTATTTTCGATCTGCTCTCCGCCGCTACAAAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
*
4608223 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* *
4608267 ATCTGTTATCTTCGATCTGCTCTACGCCACTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * *
4608311 ATCTATTATCTTCGATCTGCTCTACGCCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * *
4608355 ATC----ATCTTCGATCTGCTCTCTGCCACTACAGAGACACCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
*
4608395 ATCTGTTATCTTCAATCTGCTCTCCGCCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
*
4608439 ATCTGTTATCTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
** * *
4608483 ATCTGTTATCTTTAATTTGCTCTCCGCCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* ** * *
4608527 ATCTGTTATCTTCGATCTGCTTTCTACCGCTACAGACACGCAAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* *
4608571 ATCTGTTATCTTCGATCTGCTCTCCGCTGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
*
4608615 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* *
4608659 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCTAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * *
4608703 ATC----ATCTTCGATCTACTCTCCGCCGCTACAAAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
*
4608743 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAAAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * * *
4608787 TTCTATTATCTTCGATCTACTCTCCGTCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
*
4608831 ATCTGTTATCTTCGATCTGCTCTCCACCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
*
4608875 ATATGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* ** *
4608919 ATCTGTTATCTTCGATCTGCTCTCTGCCATTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
4608963 ATC----ATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* *
4609003 ATCTGTTATCTTCGATCTGCTCTCTGCCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * * *
4609047 ATCTGTTATATTCGATCTGCTCTCTGCCGCTACAGAGATGTCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* *
4609091 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACATAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * * * *
4609135 ATC----ATCTTCCATCTGCTCTCCGCTGCTATAGAAATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * * * *
4609175 ATC----ATCTTCAATCTACTCTCCGCTGCTACAGAAATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
*
4609215 ATCTGTTATCTTCGATCTACTCTCCGCCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
**
4609259 ATCTGTTATCTTCGATCTGCTCTATGCCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * *
4609303 ATCTGTTATCTTTGATCTGCTCTCTGCCGCTATAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
4609347 ATC
1 ATC
4609350 ATCTTGGATT
Statistics
Matches: 1673, Mismatches: 174, Indels: 46
0.88 0.09 0.02
Matches are distributed among these distances:
40 217 0.13
43 39 0.02
44 1414 0.85
45 3 0.00
ACGTcount: A:0.23, C:0.31, G:0.16, T:0.30
Consensus pattern (44 bp):
ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
Found at i:4608223 original size:260 final size:260
Alignment explanation
Indices: 4607436--4609349 Score: 2598
Period size: 260 Copynumber: 7.3 Consensus size: 260
4607426 AGGAACACCG
* * * * * *
4607436 ATCTATTATCTTCGATCTGCTCTTCGCCGCTACAGATACGCCAAATATGCTATCTTTGATCTGCT
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCT
* * * * *
4607501 CTCTGCAGCTATAGAGACGCCAAATTTGTTATCTTCGATCTACTTTCCGCCGCTACAGAGATGCC
66 CTCTGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCC
* * * *
4607566 AAATCTTTTATCTTCGATCTGCTCTCCGCCACTACAGAGAAGCTAAATCTGTTATTTTCGATCTG
131 AAATC----ATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTG
* * * ** *
4607631 CT-TCCGTCGCTACAGAGACGCAAAATCTGCAATCTTCGATCTGCTCTCAGCCGCTACAGAGACG
192 CTCTCCGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACG
*
4607695 CGAA
257 CCAA
** * * *
4607699 ATCTGCAATCTTCGATCTGCTCTCAGCCGCTACAGACACGCCAAATTTGTTATCTTCGATCTGCT
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCT
* *
4607764 CTCAGCCGCTACAGAGACGCCAAATCTGTTATCCTT-GATCTGCTCTCCGCCGCTACAGAGAGGC
66 CTCTGCCGCTACAGAGACGCCAAATCTGTTAT-CTTCGATCTGCTCTCCGCCGCTACAGAGATGC
* *
4607828 CAAATCTGTTATCTTCAATCTGTTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCT
130 CAAATC----ATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCT
* * * *
4607893 GCTCTCTGTCGCTACAGAGATGCCAAATCTGTTATCTTCGATTTGCTCTCCGCTGCTACAGAGAC
191 GCTCTCCGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGAC
4607958 GCCAA
256 GCCAA
* * * * * * *
4607963 ATCTGTTATCTTCGATTTACTCTCCGCTGCTACAAAGATGCCAAATCTGTTATCTTTGATCTGAT
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCT
* * * *
4608028 CTCCGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCTGCCACTACAGAGATGCC
66 CTCTGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCC
* *
4608093 AAATCATCTTCGATCTGCTCTTCGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCT
131 AAATCATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCT
* * *
4608158 CCGCCGCTACAGAGACGCCAAATCTGTTATTTTCGATCTGCTCTCCGCCGCTACAAAGACGCCAA
196 CCGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
*
4608223 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATCTGCT
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCT
* * *
4608288 CTAC-GCCACTACAGAGACGCCAAATCTATTATCTTCGATCTGCTCTACGCCGCTACAGAGATGC
66 CT-CTGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGC
* * * *
4608352 CAAATCATCTTCGATCTGCTCTCTGCCACTACAGAGACACCAAATCTGTTATCTTCAATCTGCTC
130 CAAATCATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTC
* *
4608417 TCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCTGCCGCTACAGAGACGCCA
195 TCCGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCA
4608482 A
260 A
** * *
4608483 ATCTGTTATCTTTAATTTGCTCTCCGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATCTGCT
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCT
* * * * *
4608548 TTCTACCGCTACAGACACGCAAAATCTGTTATCTTCGATCTGCTCTCCGCTGCTACAGAGATGCC
66 CTCTGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCC
*
4608613 AAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATCTG
131 AAATC----ATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTG
* * * *
4608678 CTCTCCGCCGCTACAGAGATGCTAAATC----ATCTTCGATCTACTCTCCGCCGCTACAAAGATG
192 CTCTCCGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACG
4608739 CCAA
257 CCAA
* * * *
4608743 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAAAGACGCCAATTCTATTATCTTCGATCTACT
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCT
* * * *
4608808 CTCCGTCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCACCGCTACAGAGACGCC
66 CTCTGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCC
*
4608873 AAATATGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTG
131 -AA-A--TCATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTG
* **
4608938 CTCTCTGCCATTACAGAGATGCCAAATC----ATCTTCGATCTGCTCTCCGCCGCTACAGAGACG
192 CTCTCCGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACG
4608999 CCAA
257 CCAA
* * *
4609003 ATCTGTTATCTTCGATCTGCTCTCTGCCGCTACAGAGATGCCAAATCTGTTATATTCGATCTGCT
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCT
* * *
4609068 CTCTGCCGCTACAGAGATGTCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACATAGATGCC
66 CTCTGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCC
* * * * * * *
4609133 AAATCATCTTCCATCTGCTCTCCGCTGCTATAGAAATGCCAAATC----ATCTTCAATCTACTCT
131 AAATCATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCT
* * *
4609194 CCGCTGCTACAGAAATGCCAAATCTGTTATCTTCGATCTACTCTCCGCCGCTACAGAGACGCCAA
196 CCGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
** *
4609259 ATCTGTTATCTTCGATCTGCTCTATGCCGCTACAGAGACGCCAAATCTGTTATCTTTGATCTGCT
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCT
*
4609324 CTCTGCCGCTATAGAGACGCCAAATC
66 CTCTGCCGCTACAGAGACGCCAAATC
4609350 ATCTTGGATT
Statistics
Matches: 1470, Mismatches: 164, Indels: 41
0.88 0.10 0.02
Matches are distributed among these distances:
252 33 0.02
256 156 0.11
258 1 0.00
259 3 0.00
260 848 0.58
261 3 0.00
262 1 0.00
263 173 0.12
264 252 0.17
ACGTcount: A:0.23, C:0.31, G:0.16, T:0.30
Consensus pattern (260 bp):
ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCT
CTCTGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCC
AAATCATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCT
CCGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
Found at i:4609676 original size:61 final size:65
Alignment explanation
Indices: 4609560--4609678 Score: 183
Period size: 61 Copynumber: 1.9 Consensus size: 65
4609550 GTATCCATGC
*
4609560 TTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTGATGTT
1 TTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTACTAACTAAATGTGATGTT
* *
4609625 TTATGTCAAATAATTAGGATG-T-T-A-TGAAATGAATCAAATGTTACTAACTAAATG
1 TTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTACTAACTAAATG
4609679 AATGGTTATG
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
61 28 0.55
62 1 0.02
63 1 0.02
64 1 0.02
65 20 0.39
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.34
Consensus pattern (65 bp):
TTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTACTAACTAAATGTGATGTT
Found at i:4617529 original size:24 final size:24
Alignment explanation
Indices: 4617484--4617530 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
4617474 ATATTAAAAG
*
4617484 ATATATATATAAAATGTATACATA
1 ATATATATATAAAATATATACATA
*
4617508 ATATA-ATATTAAAATATTTACAT
1 ATATATATA-TAAAATATATACAT
4617531 GGTATATACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.40
Consensus pattern (24 bp):
ATATATATATAAAATATATACATA
Found at i:4618076 original size:39 final size:39
Alignment explanation
Indices: 4618033--4618111 Score: 131
Period size: 39 Copynumber: 2.0 Consensus size: 39
4618023 AAAAAAGCTG
*
4618033 ATCCCACTCCCCCATGCTACTTTGTTTTATTATTAATTA
1 ATCCCACTCCCCCATGCCACTTTGTTTTATTATTAATTA
* *
4618072 ATCCCACTCCCCCATGCCACTTTTTTTTTTTATTAATTA
1 ATCCCACTCCCCCATGCCACTTTGTTTTATTATTAATTA
4618111 A
1 A
4618112 AACCATTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.23, C:0.29, G:0.04, T:0.44
Consensus pattern (39 bp):
ATCCCACTCCCCCATGCCACTTTGTTTTATTATTAATTA
Found at i:4621225 original size:30 final size:30
Alignment explanation
Indices: 4621189--4621317 Score: 213
Period size: 30 Copynumber: 4.3 Consensus size: 30
4621179 CTAGCCTTTG
4621189 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
4621219 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
*
4621249 CCACCACCTACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
* * *
4621279 CCACCATCTACTCCATTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
*
4621309 TCACCACCA
1 CCACCACCA
4621318 CTTATACCTA
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 93 1.00
ACGTcount: A:0.26, C:0.49, G:0.06, T:0.19
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:4621886 original size:23 final size:25
Alignment explanation
Indices: 4621838--4621915 Score: 74
Period size: 23 Copynumber: 3.3 Consensus size: 25
4621828 ATTCTTTTAA
* * *
4621838 TATATTAGGTATAT-TC-TAAATTC
1 TATATTACGTATATATCATTAATAC
4621861 TATATTACGTATATAT-ATT-ATAC
1 TATATTACGTATATATCATTAATAC
* * *
4621884 TATTTTATGTATATATCTTTAATAC
1 TATATTACGTATATATCATTAATAC
4621909 TATATTA
1 TATATTA
4621916 TTTATATTTT
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
23 30 0.68
24 4 0.09
25 10 0.23
ACGTcount: A:0.36, C:0.08, G:0.05, T:0.51
Consensus pattern (25 bp):
TATATTACGTATATATCATTAATAC
Found at i:4621898 original size:25 final size:25
Alignment explanation
Indices: 4621860--4622001 Score: 78
Period size: 25 Copynumber: 5.7 Consensus size: 25
4621850 ATTCTAAATT
*
4621860 CTATATTACGTATATATA-TT-ATA
1 CTATATTATGTATATATATTTAATA
* *
4621883 CTATTTTATGTATATATCTTTAATA
1 CTATATTATGTATATATATTTAATA
* * * *
4621908 CTATATTATTTATATTTTTTTTCTACATG
1 CTATATTATGTATA--TATATT-TA-ATA
* *
4621937 TTATCTTATGTATATAT-TTTAAT-
1 CTATATTATGTATATATATTTAATA
* * * *
4621960 -TATATTATGTATGTATTTTTTTACA
1 CTATATTATGTATATA-TATTTAATA
*
4621985 CTATATTATGTACATAT
1 CTATATTATGTATATAT
4622002 TTTTTTATAT
Statistics
Matches: 91, Mismatches: 18, Indels: 18
0.72 0.14 0.14
Matches are distributed among these distances:
22 13 0.14
23 16 0.18
24 8 0.09
25 18 0.20
26 15 0.16
27 6 0.07
28 2 0.02
29 13 0.14
ACGTcount: A:0.31, C:0.08, G:0.05, T:0.56
Consensus pattern (25 bp):
CTATATTATGTATATATATTTAATA
Found at i:4621920 original size:29 final size:28
Alignment explanation
Indices: 4621887--4621993 Score: 77
Period size: 26 Copynumber: 4.0 Consensus size: 28
4621877 ATTATACTAT
4621887 TTTATGTATATATCTTTAATACTATATTA
1 TTTATGTATATAT-TTTAATACTATATTA
* ** *
4621916 TTTA--TAT-TTTTTTTCTAC-ATGTTA
1 TTTATGTATATATTTTAATACTATATTA
4621940 TCTTATGTATATATTTTAAT--TATATTA
1 T-TTATGTATATATTTTAATACTATATTA
* * *
4621967 TGTATGTAT-T-TTTTTACACTATATTA
1 TTTATGTATATATTTTAATACTATATTA
4621993 T
1 T
4621994 GTACATATTT
Statistics
Matches: 60, Mismatches: 11, Indels: 17
0.68 0.12 0.19
Matches are distributed among these distances:
24 11 0.18
25 10 0.17
26 17 0.28
27 12 0.20
28 6 0.10
29 4 0.07
ACGTcount: A:0.29, C:0.07, G:0.05, T:0.60
Consensus pattern (28 bp):
TTTATGTATATATTTTAATACTATATTA
Found at i:4621921 original size:23 final size:23
Alignment explanation
Indices: 4621795--4621922 Score: 59
Period size: 23 Copynumber: 5.5 Consensus size: 23
4621785 TTTTTTTTGT
* *
4621795 TATTA-TTATATTTTTAATATTA
1 TATTATTTATATCTTTAATACTA
* *
4621817 TATATATATATATTCTTT--TAATA
1 TAT-TATTTATA-TCTTTAATACTA
** * *
4621840 TATTAGGTATAT-TCTAAATTCTA
1 TATTATTTATATCT-TTAATACTA
** *
4621863 TATTACGTATATATATT-ATACTA
1 TATTATTTATATCT-TTAATACTA
*
4621886 TTTTATGTATATATCTTTAATACTA
1 TATTAT-T-TATATCTTTAATACTA
4621911 TATTATTTATAT
1 TATTATTTATAT
4621923 TTTTTTTCTA
Statistics
Matches: 79, Mismatches: 17, Indels: 19
0.69 0.15 0.17
Matches are distributed among these distances:
20 1 0.01
21 2 0.03
22 9 0.11
23 37 0.47
24 9 0.11
25 21 0.27
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.55
Consensus pattern (23 bp):
TATTATTTATATCTTTAATACTA
Found at i:4621962 original size:22 final size:22
Alignment explanation
Indices: 4621937--4621978 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
4621927 TTTCTACATG
*
4621937 TTATCTTATGTATATATTTTAA
1 TTATATTATGTATATATTTTAA
*
4621959 TTATATTATGTATGTATTTT
1 TTATATTATGTATATATTTT
4621979 TTTACACTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.29, C:0.02, G:0.07, T:0.62
Consensus pattern (22 bp):
TTATATTATGTATATATTTTAA
Found at i:4621989 original size:26 final size:25
Alignment explanation
Indices: 4621943--4622008 Score: 78
Period size: 26 Copynumber: 2.6 Consensus size: 25
4621933 CATGTTATCT
* *
4621943 TATGTATATATTTTAATTATATTATG
1 TATGTAT-TTTTTTAACTATATTATG
4621969 TATGTATTTTTTTACACTATATTATG
1 TATGTATTTTTTTA-ACTATATTATG
**
4621995 TACATATTTTTTTA
1 TATGTATTTTTTTA
4622009 TATCTATTTC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
25 6 0.17
26 29 0.83
ACGTcount: A:0.30, C:0.05, G:0.06, T:0.59
Consensus pattern (25 bp):
TATGTATTTTTTTAACTATATTATG
Found at i:4622095 original size:25 final size:24
Alignment explanation
Indices: 4622067--4622122 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
4622057 GTTATATTTT
*
4622067 CACTATTTTAT-GTATATACTTCAAA
1 CACTATTATATAGTATAT--TTCAAA
*
4622092 CACTA-TATATAGTATATTTCTAA
1 CACTATTATATAGTATATTTCAAA
4622115 CACTATTA
1 CACTATTA
4622123 CTATTTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 10 0.37
24 6 0.22
25 11 0.41
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.43
Consensus pattern (24 bp):
CACTATTATATAGTATATTTCAAA
Found at i:4631946 original size:14 final size:13
Alignment explanation
Indices: 4631917--4631961 Score: 51
Period size: 12 Copynumber: 3.6 Consensus size: 13
4631907 AGTGGGTGGA
4631917 AATAATATT-A-T
1 AATAATATTAAGT
4631928 AATAATATTAAAGT
1 AATAATATT-AAGT
*
4631942 TATAATA-TAAGT
1 AATAATATTAAGT
4631954 AATAATAT
1 AATAATAT
4631962 GTATATATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
11 9 0.32
12 10 0.36
13 2 0.07
14 7 0.25
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (13 bp):
AATAATATTAAGT
Found at i:4633288 original size:50 final size:51
Alignment explanation
Indices: 4633107--4633299 Score: 153
Period size: 50 Copynumber: 3.8 Consensus size: 51
4633097 ATCTTGTATT
* * *
4633107 TATTCGGCCACATAGGTATGTACATATGTGACGTTATA-TTGAATCTTGAA
1 TATTCGGCCATATAGGTATGCACATATGTGATGTTATATTTGAATCTTGAA
* * * * * *
4633157 TATTTGACCATGA-AGGTATGCACAAAAGTGATATTATATTTGAAT-TTGTA
1 TATTCGGCCAT-ATAGGTATGCACATATGTGATGTTATATTTGAATCTTGAA
* * * * * * *
4633207 TATTCAGCCATAT-GAGTAAGTACTTAGGTGATGTTAAATTTG-ATCTTGCA
1 TATTCGGCCATATAG-GTATGCACATATGTGATGTTATATTTGAATCTTGAA
* * * *
4633257 TATTTGGCCATATAGGTATGCACATTTGTGATATTATCTTTGA
1 TATTCGGCCATATAGGTATGCACATATGTGATGTTATATTTGA
4633300 TTCTCTATAA
Statistics
Matches: 106, Mismatches: 30, Indels: 13
0.71 0.20 0.09
Matches are distributed among these distances:
49 4 0.04
50 94 0.89
51 8 0.08
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (51 bp):
TATTCGGCCATATAGGTATGCACATATGTGATGTTATATTTGAATCTTGAA
Found at i:4637035 original size:73 final size:73
Alignment explanation
Indices: 4636941--4637108 Score: 273
Period size: 73 Copynumber: 2.3 Consensus size: 73
4636931 CAATTTCCGT
* * *
4636941 TTTTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCGGGGCAC
1 TTTTT-AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCAGGGCAC
4637006 GCCGAGGTA
65 GCCGAGGTA
*
4637015 TTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACG
1 TTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCAGGGCACG
*
4637080 CTGAGGTA
66 CCGAGGTA
*
4637088 TTTTCAATTTCTGTTTTTCAA
1 TTTTTAATTTCTGTTTTTCAA
4637109 TTTTTTCCTT
Statistics
Matches: 88, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
73 83 0.94
74 5 0.06
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.36
Consensus pattern (73 bp):
TTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCAGGGCACG
CCGAGGTA
Found at i:4637348 original size:261 final size:261
Alignment explanation
Indices: 4636873--4637369 Score: 746
Period size: 261 Copynumber: 1.9 Consensus size: 261
4636863 TCTTTCAAAA
*
4636873 AAATCAACTCATATTGCGAGAGGTGAGTTGGGCCTCAGGTCACACGCTGAGGTATTTTCAATTTC
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-CACACGCTGAGGTATTTTCAATTTC
* * * * *
4636938 CGTTTTTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCGGGG
65 CGTTTTTTCAATTTATGCTTTTAAAAAATCAACTCATATTGCAAGAAGTGAGCTGAGCCTCAGGA
* * * * * *
4637003 CACGCCGAGGTATTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
130 CACACCGAGGTAATTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCAAGAGGTAAGTTGAG
* *
4637068 CCTCAGGGCACGCTGAGGTATTTTCAATTTCTGTTTTTCAATTTTTTCCTTACAAATTCTTCTTT
195 CCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAATTTTTTCCTTACAAATTCTTCTTT
4637133 TC
260 TC
* *
4637135 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGG-ACACGCTGAGGTATTTTCAATTTTC
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACACGCTGAGGTATTTTCAATTTCC
* *
4637199 GTTTTTTTAATTTATG-TTTCTAAAAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTCAGG
66 GTTTTTTCAATTTATGCTTT-T-AAAAAATCAACTCATATTGCAAGAAGTGAGCTGAGCCTCAGG
* * * *
4637263 ACACACTGAGGTAATTTCAATTTTTGTTTGTCAAAACTCAACTTATATTGCAAGAGGTAAGTTGA
129 ACACACCGAGGTAATTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCAAGAGGTAAGTTGA
*
4637328 GCCTCAAGACACGTTGAGGTATTTTCAATTTCTGTTTTTCAA
194 GCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAA
4637370 AAAAATCAAC
Statistics
Matches: 210, Mismatches: 23, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
259 3 0.01
260 40 0.19
261 130 0.62
262 37 0.18
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (261 bp):
AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACACGCTGAGGTATTTTCAATTTCC
GTTTTTTCAATTTATGCTTTTAAAAAATCAACTCATATTGCAAGAAGTGAGCTGAGCCTCAGGAC
ACACCGAGGTAATTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCAAGAGGTAAGTTGAGC
CTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAATTTTTTCCTTACAAATTCTTCTTTT
C
Found at i:4637398 original size:148 final size:147
Alignment explanation
Indices: 4637202--4637812 Score: 775
Period size: 148 Copynumber: 4.1 Consensus size: 147
4637192 AATTTTCGTT
* * * * * *
4637202 TTTTTAATTTATGTTTCT-AAAAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
* * * * * * *
4637266 CACTGAGGTAATTTCAATTTTTGTTTGTC-AAAACTCAACTTATATTGCAAGAGGTAAGTTGAGC
66 CGCTGAGGTAATTTCAATTTCTGTTTGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAAC
*
4637330 CTCAAGACACGTTGAGGTA
131 CTCAAG--ACGCTGAGGTA
* *
4637349 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
* *
4637414 CGCTGAGGTAATTTCAATTTTTGTTTGTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
66 CGCTGAGGTAATTTCAATTTCTGTTTGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAAC
*
4637478 CTCAAGACACGTTGAGGTA
131 CTCAAG--ACGCTGAGGTA
* * * *
4637497 TTTTCAATTTCTGTCTTTAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
* * * *
4637562 CGTTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAA
66 CGCTGAGGTAATTTCAATTTCTGTTTGTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAA
4637627 CCTCAAGACGCTGAGGTA
130 CCTCAAGACGCTGAGGTA
* * *
4637645 ATTTCAATTTTTGTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
* * * *
4637708 CGTTGAGGTATTTTCAATTTCCGTCTT-TCAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTG
66 CGCTGAGGTAATTTCAATTTCTGT-TTGTC--AAAAAATCAACTCATATTGCGAGAGGTGAGTTG
*
4637772 AACCTCAAGACGCTGAGGTG
128 AACCTCAAGACGCTGAGGTA
* *
4637792 TTTTCCATTTCTGTTCTTCAA
1 TTTTCAATTTCTGTTTTTCAA
4637813 TTTCTGTGTT
Statistics
Matches: 417, Mismatches: 40, Indels: 12
0.89 0.09 0.03
Matches are distributed among these distances:
146 67 0.16
147 82 0.20
148 229 0.55
150 39 0.09
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (147 bp):
TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
CGCTGAGGTAATTTCAATTTCTGTTTGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAAC
CTCAAGACGCTGAGGTA
Found at i:4637414 original size:75 final size:75
Alignment explanation
Indices: 4637202--4637812 Score: 785
Period size: 73 Copynumber: 8.3 Consensus size: 75
4637192 AATTTTCGTT
* * * * * *
4637202 TTTTTAATTTATGTTTCT-AAAAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
*
4637266 CACTGAGGTA
66 CGCTGAGGTA
* * * * * * *
4637276 ATTTCAATTTTTGTTTGTC--AAAACTCAACTTATATTGCAAGAGGTAAGTTGAGCCTCAAGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
*
4637339 CGTTGAGGTA
66 CGCTGAGGTA
* *
4637349 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
4637414 CGCTGAGGTA
66 CGCTGAGGTA
* * *
4637424 ATTTCAATTTTTGTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
*
4637487 CGTTGAGGTA
66 CGCTGAGGTA
* * * *
4637497 TTTTCAATTTCTGTCTTTAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
*
4637562 CGTTGAGGTA
66 CGCTGAGGTA
* *
4637572 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAACCTCAAG--A
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
4637635 CGCTGAGGTA
66 CGCTGAGGTA
* * *
4637645 ATTTCAATTTTTGTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
*
4637708 CGTTGAGGTA
66 CGCTGAGGTA
* * * *
4637718 TTTTCAATTTCCGTCTTTCAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAG--
1 TTTTCAATTTCTGTTTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAC
*
4637781 ACGCTGAGGTG
65 ACGCTGAGGTA
* *
4637792 TTTTCCATTTCTGTTCTTCAA
1 TTTTCAATTTCTGTTTTTCAA
4637813 TTTCTGTGTT
Statistics
Matches: 469, Mismatches: 58, Indels: 21
0.86 0.11 0.04
Matches are distributed among these distances:
71 39 0.08
73 180 0.38
74 38 0.08
75 173 0.37
76 39 0.08
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (75 bp):
TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
CGCTGAGGTA
Found at i:4637920 original size:15 final size:14
Alignment explanation
Indices: 4637884--4637916 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
4637874 CGCTGAGGTA
4637884 TTTTCAAATTCTGT
1 TTTTCAAATTCTGT
*
4637898 TTTTCAAATTTTGT
1 TTTTCAAATTCTGT
4637912 TTTTC
1 TTTTC
4637917 CAAAAAATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.64
Consensus pattern (14 bp):
TTTTCAAATTCTGT
Found at i:4638030 original size:90 final size:87
Alignment explanation
Indices: 4637718--4638319 Score: 472
Period size: 88 Copynumber: 6.7 Consensus size: 87
4637708 CGTTGAGGTA
* * * *
4637718 TTTTCAATTTCCGTCTTTCAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCA--AG
1 TTTTCAATTT-TGT-TTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
* *
4637781 ACGCTGAGGTGTTTTCCATTTCTGT
63 ACGCTGAGGTATTTTCAATTTCTGT
* * * * **
4637806 TCTTCAATTTCTGTGTTTCAAAAAAAATCAGCTCATATTGCGAGTGGTGAGTTGAGCCTTGACTC
1 TTTTCAATTT-TGT-TTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCA-GG
*
4637871 ACACGCTGAGGTATTTTCAAATTCTGT
61 ACACGCTGAGGTATTTTCAATTTCTGT
* *
4637898 TTTTCAAATTTTGTTTTTCCAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAGGACA
1 TTTTC-AATTTTG-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
* *
4637963 CGCTGAGATATTTTCAATTTCTTTT
64 CGCTGAGGTATTTTCAATTTC-TGT
* *
4637988 TTTTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCAGATCA
1 TTTTCAATTT-TGTTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--GA
* * *
4638053 CACGCCGAGGTATTTTCAATTGATTTTTTTTT
62 CACGCTGAGGTATTTTC-A---A--TTTCTGT
* * *
4638085 TTTTCAATTTATGCTTTGC--AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCA
1 TTTTCAATTT-TG-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--A
** * **
4638148 CATACCGAGGTATTTTCAAAATCTGT
62 CACGCTGAGGTATTTTCAATTTCTGT
* * * *
4638174 TTTACAAATTTTGTTTT---AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT-TGGCTCA
1 TTTTC-AATTTTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACA
*
4638235 CGTGCTGAGCTATTTTCAATTTCTGT
64 C--GCTGAGGTATTTTCAATTTCTGT
* * * ** *
4638261 TTTT-AATGTTTAGTTTT--AAAGAGTCAATTCATATTGCGAGAAATGAGTTAAG-CTCAGGA
1 TTTTCAAT-TTT-GTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
4638320 TCACATGCCG
Statistics
Matches: 428, Mismatches: 59, Indels: 55
0.79 0.11 0.10
Matches are distributed among these distances:
85 6 0.01
86 5 0.01
87 63 0.15
88 87 0.20
89 41 0.10
90 57 0.13
91 35 0.08
92 49 0.11
93 7 0.02
94 1 0.00
95 53 0.12
96 1 0.00
97 17 0.04
98 6 0.01
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.37
Consensus pattern (87 bp):
TTTTCAATTTTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
CTGAGGTATTTTCAATTTCTGT
Found at i:4638040 original size:181 final size:177
Alignment explanation
Indices: 4637739--4638264 Score: 546
Period size: 181 Copynumber: 2.9 Consensus size: 177
4637729 CGTCTTTCAA
* * * * *
4637739 AAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCA--AGACGCTGAGGTGTTTTCCATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
* * *
4637802 CTGTTCTTCAATTTCTGTGTTTCAAAAAAAATCAGCTCATATTGCGAGTGGTGAGTTGAGCCTTG
66 CTGTTTTTCAATTT-TGT-TTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTG
*
4637867 ACTCACACGCTGAGGTATTTTCAAATTCTGTTTTTCAAATTT-TGTTTTTCC
128 ACTCACACGCTGAGGTATTTTCAAATTCTGTTTTTC-AATTTATG-CTTTCC
* *
4637918 AAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAGGACACGCTGAGATATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
* * *
4637983 CTTTTTTTTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCA
66 C-TGTTTTTCAATTT-TGTTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-T
* * * *
4638048 GA-TCACACGCCGAGGTATTTTCAATTGATTTTTTTTTTTTTCAATTTATGCTTTGC
127 GACTCACACGCTGAGGTATTTTCAA---A---TTCTGTTTTTCAATTTATGCTTTCC
* * ** * *
4638104 -AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTATTTTCAAA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTATTTTCAAT
* * *
4638168 ATCTGTTTTACAAATTTTGTTTT---AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTG
64 TTCTGTTTTTC-AATTTTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTG
* ** * *
4638230 GCTCACGTGCTGAGCTATTTTCAATTTCTGTTTTT
128 ACTCACACGCTGAGGTATTTTCAAATTCTGTTTTT
4638265 AATGTTTAGT
Statistics
Matches: 290, Mismatches: 41, Indels: 35
0.79 0.11 0.10
Matches are distributed among these distances:
176 8 0.03
179 37 0.13
181 80 0.28
182 71 0.24
184 1 0.00
185 39 0.13
186 20 0.07
187 34 0.12
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (177 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
CTGTTTTTCAATTTTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGACT
CACACGCTGAGGTATTTTCAAATTCTGTTTTTCAATTTATGCTTTCC
Found at i:4638127 original size:95 final size:91
Alignment explanation
Indices: 4637739--4638227 Score: 395
Period size: 95 Copynumber: 5.4 Consensus size: 91
4637729 CGTCTTTCAA
* * * * * *
4637739 AAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTC--A--AGACGCTGAGGTGTTTTC-CA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCCGAGGTATTTTCAAA
* * * * *
4637799 -TTTCTGTTCTTCAATTTCTGTGTTTC
66 TTTTTTTTTTTTCAATTTATGT-TTGC
* * * *
4637825 AAAAAAAATCAGCTCATATTGCGAGTGGTGAGTTGAGCCT-TGACTCACACGCTGAGGTATTTTC
1 --AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGA-TCACACGCCGAGGTATTTTC
* * *
4637889 AAA--TTCTGTTTTTCAAATTT-TGTTTTTCC
63 AAATTTTTTTTTTTTC-AATTTATG--TTTGC
* * * *
4637918 AAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAG--GACACGCTGAGATATTTTC-AA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCCGAGGTATTTTCAAA
*
4637980 TTTCTTTTTTTTCAATTTATGTTTGTC
66 TTTTTTTTTTTTCAATTTATGTTTG-C
*
4638007 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCAGATCACACGCCGAGGTATTTTCAA
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCCGAGGTATTTTCAA
4638072 TTGATTTTTTTTTTTTTCAATTTATGCTTTGC
65 ---A-TTTTTTTTTTTTCAATTTATG-TTTGC
* * * **
4638104 -AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTATTTTCAAA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCCGAGGTATTTTCAAA
* * * *
4638168 --ATCTGTTTTACAAATTT-TGTTT--
66 TTTTTTTTTTTTC-AATTTATGTTTGC
* *
4638190 TAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
4638228 TGGCTCACGT
Statistics
Matches: 341, Mismatches: 35, Indels: 51
0.80 0.08 0.12
Matches are distributed among these distances:
87 35 0.10
88 44 0.13
89 33 0.10
90 54 0.16
91 35 0.10
92 46 0.13
93 10 0.03
94 1 0.00
95 57 0.17
96 1 0.00
97 21 0.06
98 4 0.01
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (91 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCCGAGGTATTTTCAAA
TTTTTTTTTTTTCAATTTATGTTTGC
Found at i:4638207 original size:87 final size:87
Alignment explanation
Indices: 4638104--4638331 Score: 237
Period size: 87 Copynumber: 2.6 Consensus size: 87
4638094 TATGCTTTGC
* * *
4638104 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTATTTTCAAAA
1 AAAAATCAACTCATATTACGAGAAGTGAGTTGAGCCTCGGCTCACATACCGAGCTATTTTCAAAA
4638169 TCTGTTTTACAAATTTTGTTTT
66 TCTGTTTTACAAATTTTGTTTT
* * * * * **
4638191 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAATT
1 AAAAATCAACTCATATTACGAGAAGTGAGTTGAGCCTCGGCTCACATACCGAGCTATTTTCAAAA
*
4638256 TCTGTTTT--TAATGTTTAGTTTT
66 TCTGTTTTACAAAT-TTT-GTTTT
* * * * * * *
4638278 AAAGAGTCAATTCATATTGCGAGAAATGAGTTAAG-CTCAGGATCACATGCCGAG
1 AAA-AATCAACTCATATTACGAGAAGTGAGTTGAGCCTC-GGCTCACATACCGAG
4638332 TAAAGAATAA
Statistics
Matches: 118, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
85 3 0.03
86 3 0.03
87 73 0.62
88 39 0.33
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (87 bp):
AAAAATCAACTCATATTACGAGAAGTGAGTTGAGCCTCGGCTCACATACCGAGCTATTTTCAAAA
TCTGTTTTACAAATTTTGTTTT
Found at i:4638982 original size:30 final size:30
Alignment explanation
Indices: 4638946--4639073 Score: 220
Period size: 30 Copynumber: 4.3 Consensus size: 30
4638936 CTAGCCTTTG
*
4638946 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCTACTCCACTAGCCACACTTGCT
4638976 CCACCACCTACTCCACTAGCCACACTTGCT
1 CCACCACCTACTCCACTAGCCACACTTGCT
4639006 CCACCACCTACTCCACTAGCCACACTTGCT
1 CCACCACCTACTCCACTAGCCACACTTGCT
* * *
4639036 CCACCACCTAGTCCATTAGGCACACTTGCT
1 CCACCACCTACTCCACTAGCCACACTTGCT
4639066 CCACCACC
1 CCACCACC
4639074 ACTTGTACCT
Statistics
Matches: 94, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 94 1.00
ACGTcount: A:0.24, C:0.49, G:0.08, T:0.19
Consensus pattern (30 bp):
CCACCACCTACTCCACTAGCCACACTTGCT
Found at i:4639596 original size:23 final size:25
Alignment explanation
Indices: 4639548--4639625 Score: 74
Period size: 23 Copynumber: 3.3 Consensus size: 25
4639538 ATTCTTTTAA
* * *
4639548 TATATTAGGTATAT-TC-TAAATTC
1 TATATTACGTATATATCATTAATAC
4639571 TATATTACGTATATAT-ATT-ATAC
1 TATATTACGTATATATCATTAATAC
* * *
4639594 TATTTTATGTATATATCTTTAATAC
1 TATATTACGTATATATCATTAATAC
4639619 TATATTA
1 TATATTA
4639626 TTTATATTTT
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
23 30 0.68
24 4 0.09
25 10 0.23
ACGTcount: A:0.36, C:0.08, G:0.05, T:0.51
Consensus pattern (25 bp):
TATATTACGTATATATCATTAATAC
Found at i:4639608 original size:25 final size:25
Alignment explanation
Indices: 4639570--4639632 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 25
4639560 ATTCTAAATT
*
4639570 CTATATTACGTATATATA-TT-ATA
1 CTATATTATGTATATATATTTAATA
* *
4639593 CTATTTTATGTATATATCTTTAATA
1 CTATATTATGTATATATATTTAATA
*
4639618 CTATATTATTTATAT
1 CTATATTATGTATAT
4639633 TTTTTTTTCT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
23 15 0.45
24 2 0.06
25 16 0.48
ACGTcount: A:0.35, C:0.08, G:0.03, T:0.54
Consensus pattern (25 bp):
CTATATTATGTATATATATTTAATA
Found at i:4639673 original size:22 final size:22
Alignment explanation
Indices: 4639648--4639689 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
4639638 TTTCTACATG
*
4639648 TTATCTTATGTATATATTTTAA
1 TTATATTATGTATATATTTTAA
*
4639670 TTATATTATGTATTTATTTT
1 TTATATTATGTATATATTTT
4639690 TTTACACTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.64
Consensus pattern (22 bp):
TTATATTATGTATATATTTTAA
Found at i:4639806 original size:25 final size:25
Alignment explanation
Indices: 4639778--4639832 Score: 62
Period size: 23 Copynumber: 2.3 Consensus size: 25
4639768 GTTATATTTT
4639778 CACTATTTTATATA-TATACTTCAAA
1 CACTA-TTTATATAGTATACTTCAAA
* *
4639803 CACTA--TATATAGTATATTTCTAA
1 CACTATTTATATAGTATACTTCAAA
4639826 CACTATT
1 CACTATT
4639833 ACTATTTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
22 6 0.24
23 14 0.56
25 5 0.20
ACGTcount: A:0.38, C:0.16, G:0.02, T:0.44
Consensus pattern (25 bp):
CACTATTTATATAGTATACTTCAAA
Found at i:4639827 original size:23 final size:22
Alignment explanation
Indices: 4639786--4639831 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
4639776 TTCACTATTT
4639786 TATATATATACTTCAAACACTA
1 TATATATATACTTCAAACACTA
* *
4639808 TATATAGTATATTTCTAACACTA
1 TATATA-TATACTTCAAACACTA
4639831 T
1 T
4639832 TACTATTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.41, C:0.15, G:0.02, T:0.41
Consensus pattern (22 bp):
TATATATATACTTCAAACACTA
Found at i:4645640 original size:22 final size:25
Alignment explanation
Indices: 4645591--4645647 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
4645581 GGATATATCT
*
4645591 TTTATTTAATATGAATATAATTATA
1 TTTATTTAATATGAATATAATTAAA
*
4645616 TTTATTTAATATTAATATTAAATTTAAA
1 TTTATTTAATATGAATA-T-AA-TTAAA
4645644 TTTA
1 TTTA
4645648 AATTTATTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 16 0.59
26 1 0.04
27 2 0.07
28 8 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (25 bp):
TTTATTTAATATGAATATAATTAAA
Found at i:4649904 original size:38 final size:38
Alignment explanation
Indices: 4649854--4649929 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
4649844 AAAAGCAAAG
4649854 AAAAAAAATCTTGCAATTAGTTTAATTAATTAATTTTA
1 AAAAAAAATCTTGCAATTAGTTTAATTAATTAATTTTA
4649892 AAAAAAAATCTTGCAATTAGTTTAATTAATTAATTTTA
1 AAAAAAAATCTTGCAATTAGTTTAATTAATTAATTTTA
4649930 TCTTCCATGC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (38 bp):
AAAAAAAATCTTGCAATTAGTTTAATTAATTAATTTTA
Found at i:4656086 original size:26 final size:26
Alignment explanation
Indices: 4656039--4656109 Score: 69
Period size: 26 Copynumber: 2.8 Consensus size: 26
4656029 TTAATATTTA
* *
4656039 TTTTATTTTATTTT-TATAATTG-GCC
1 TTTTA-TTTATTTTCTTTTATTGTGCC
4656064 TTTTTATTTATTTTCTTTTATTGTGCC
1 -TTTTATTTATTTTCTTTTATTGTGCC
*
4656091 TTTCATTTA--TTCTTTTATT
1 TTTTATTTATTTTCTTTTATT
4656110 TATTTGCTAC
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
24 10 0.25
25 8 0.20
26 19 0.47
27 3 0.08
ACGTcount: A:0.15, C:0.10, G:0.06, T:0.69
Consensus pattern (26 bp):
TTTTATTTATTTTCTTTTATTGTGCC
Found at i:4658367 original size:16 final size:15
Alignment explanation
Indices: 4658345--4658381 Score: 56
Period size: 16 Copynumber: 2.4 Consensus size: 15
4658335 TCATTCAAAT
4658345 TATTTTAAATTTGAA
1 TATTTTAAATTTGAA
*
4658360 TCATTTTAGATTTGAA
1 T-ATTTTAAATTTGAA
4658376 TATTTT
1 TATTTT
4658382 CGAGTTTAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.32, C:0.03, G:0.08, T:0.57
Consensus pattern (15 bp):
TATTTTAAATTTGAA
Found at i:4662925 original size:26 final size:27
Alignment explanation
Indices: 4662894--4662944 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
4662884 TATAATATTA
*
4662894 TTATATTATA-AATTTATTTA-AAATAT
1 TTATATTAAATAATTT-TTTATAAATAT
4662920 TTATATTAAATAATTTTTTATAAAT
1 TTATATTAAATAATTTTTTATAAAT
4662945 TGATAATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 13 0.59
27 9 0.41
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (27 bp):
TTATATTAAATAATTTTTTATAAATAT
Found at i:4663012 original size:19 final size:20
Alignment explanation
Indices: 4662979--4663016 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
4662969 GAAGGAAGAT
*
4662979 ATTTTATATTTTTGTTTGAA
1 ATTTTATATTGTTGTTTGAA
4662999 ATTTT-TATTGTTGTTTGA
1 ATTTTATATTGTTGTTTGA
4663017 GGTGGGTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.21, C:0.00, G:0.13, T:0.66
Consensus pattern (20 bp):
ATTTTATATTGTTGTTTGAA
Found at i:4663745 original size:40 final size:40
Alignment explanation
Indices: 4663701--4663781 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 40
4663691 TCAAATACAT
4663701 TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA
1 TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA
* * * * **
4663741 TTAAAACAATTCTTAAAACAATACACAAATTGAAAATATA
1 TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA
4663781 T
1 T
4663782 AATAAAAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.63, C:0.10, G:0.02, T:0.25
Consensus pattern (40 bp):
TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA
Found at i:4663790 original size:20 final size:19
Alignment explanation
Indices: 4663767--4663844 Score: 58
Period size: 20 Copynumber: 4.2 Consensus size: 19
4663757 AACAATACAC
4663767 AAATTGAAAATATATAATAA
1 AAATTGAAAATATA-AATAA
** *
4663787 AAATTGATTATATTAAAATTA
1 AAATTGAAAATA-T-AAATAA
4663808 AAATT-AAAATATAAAT-A
1 AAATTGAAAATATAAATAA
*
4663825 TAATT-AAAA-ATAAA-AA
1 AAATTGAAAATATAAATAA
4663841 AAAT
1 AAAT
4663845 ATATTTATTA
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
16 9 0.19
17 9 0.19
18 4 0.08
19 1 0.02
20 14 0.29
21 10 0.21
22 1 0.02
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (19 bp):
AAATTGAAAATATAAATAA
Found at i:4663832 original size:23 final size:21
Alignment explanation
Indices: 4663803--4663847 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 21
4663793 ATTATATTAA
*
4663803 AATTAAAATTAAAATATAAATAT
1 AATTAAAAATAAAA-A-AAATAT
4663826 AATTAAAAATAAAAAAAATAT
1 AATTAAAAATAAAAAAAATAT
4663847 A
1 A
4663848 TTTATTATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 7 0.33
22 1 0.05
23 13 0.62
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (21 bp):
AATTAAAAATAAAAAAAATAT
Found at i:4672945 original size:22 final size:22
Alignment explanation
Indices: 4672903--4672945 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
4672893 TATTCTTTCA
* *
4672903 ATTTTTTAAATTAGTTATAATT
1 ATTTTTAAAATTAATTATAATT
4672925 ATTTTTAAATATTAATT-TAAT
1 ATTTTTAAA-ATTAATTATAAT
4672946 AATATTATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (22 bp):
ATTTTTAAAATTAATTATAATT
Found at i:4679578 original size:83 final size:83
Alignment explanation
Indices: 4679457--4679621 Score: 267
Period size: 83 Copynumber: 2.0 Consensus size: 83
4679447 AGTGATATAA
* ** *
4679457 ATACACTTATTGGTACTGTACTCCTTATAAACCATTACAACCTCACTATTGCATCATCTAGTGAA
1 ATACACTTACTGGTACACTACTCCTTATAAACCATTACAACCTCACTATTGCATCATCTAGTAAA
4679522 CTCACCAAAGAAACATCG
66 CTCACCAAAGAAACATCG
* *
4679540 ATACACTTACTGGTACACTACTCCTTATTAACCGTTACAACCTCACTATTGCATCATCTAGTAAA
1 ATACACTTACTGGTACACTACTCCTTATAAACCATTACAACCTCACTATTGCATCATCTAGTAAA
*
4679605 CTCACTAAAGAAACATC
66 CTCACCAAAGAAACATC
4679622 CACTTTACCT
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
83 75 1.00
ACGTcount: A:0.35, C:0.27, G:0.08, T:0.29
Consensus pattern (83 bp):
ATACACTTACTGGTACACTACTCCTTATAAACCATTACAACCTCACTATTGCATCATCTAGTAAA
CTCACCAAAGAAACATCG
Found at i:4683525 original size:15 final size:15
Alignment explanation
Indices: 4683495--4683534 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
4683485 CATAACCCCC
4683495 ATGTGAACCC-ATGT
1 ATGTGAACCCTATGT
4683509 ATGTGAACCCTATGT
1 ATGTGAACCCTATGT
*
4683524 ATATGAACCCT
1 ATGTGAACCCT
4683535 CATATATATG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 10 0.42
15 14 0.58
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (15 bp):
ATGTGAACCCTATGT
Found at i:4683544 original size:16 final size:15
Alignment explanation
Indices: 4683498--4683545 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
4683488 AACCCCCATG
* *
4683498 TGAACCC-ATGTATG
1 TGAACCCTATATATA
*
4683512 TGAACCCTATGTATA
1 TGAACCCTATATATA
4683527 TGAACCCTCATATATA
1 TGAACCCT-ATATATA
4683543 TGA
1 TGA
4683546 GAACCCTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
14 7 0.23
15 14 0.47
16 9 0.30
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (15 bp):
TGAACCCTATATATA
Found at i:4683551 original size:18 final size:16
Alignment explanation
Indices: 4683508--4683558 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 16
4683498 TGAACCCATG
*
4683508 TATGTGAACCCTATGTA
1 TATG-GAACCCTATATA
4683525 TAT-GAACCCTCATATA
1 TATGGAACCCT-ATATA
*
4683541 TATGAGAACCCTTTATA
1 TATG-GAACCCTATATA
4683558 T
1 T
4683559 GCAAACCCCT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
15 7 0.24
16 7 0.24
17 8 0.28
18 7 0.24
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (16 bp):
TATGGAACCCTATATA
Found at i:4683580 original size:29 final size:30
Alignment explanation
Indices: 4683539--4683605 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 30
4683529 AACCCTCATA
* *
4683539 TATATGAGAACCCTTTATATGCAAAC-CCC
1 TATATGTGAACCCTGTATATGCAAACACCC
* * *
4683568 TATGTGTGAACCCTGTATGTGCGAACACCC
1 TATATGTGAACCCTGTATATGCAAACACCC
4683598 TATATGTG
1 TATATGTG
4683606 CAAACCCTAC
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
29 21 0.68
30 10 0.32
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (30 bp):
TATATGTGAACCCTGTATATGCAAACACCC
Found at i:4683612 original size:15 final size:15
Alignment explanation
Indices: 4683547--4683619 Score: 60
Period size: 15 Copynumber: 4.8 Consensus size: 15
4683537 TATATATGAG
* *
4683547 AACCCTTTATATGCA
1 AACCCTATATGTGCA
*
4683562 AACCCCTATGTGTG--
1 AA-CCCTATATGTGCA
*
4683576 AACCCTGTATGTGCGA
1 AACCCTATATGTGC-A
4683592 ACACCCTATATGTGCA
1 A-ACCCTATATGTGCA
*
4683608 AACCCTACATGT
1 AACCCTATATGT
4683620 AAACTTGTTA
Statistics
Matches: 46, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
13 9 0.20
14 2 0.04
15 12 0.26
16 11 0.24
17 12 0.26
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (15 bp):
AACCCTATATGTGCA
Found at i:4687339 original size:92 final size:92
Alignment explanation
Indices: 4687182--4687359 Score: 329
Period size: 92 Copynumber: 1.9 Consensus size: 92
4687172 AAAGCAAAAG
* *
4687182 AATGGCTTTACAGGATCACTTCAGTGATCAATGTAATGCCTTCGACTTAGCCAAAACTCTTAAGC
1 AATGGCTTTACAGGATCACTTCAGTGATCAATGTAATGCCTTCAACTTAGCCAAAACTCCTAAGC
4687247 TGGGTCGGGGGTGTTACAAACTTGTAT
66 TGGGTCGGGGGTGTTACAAACTTGTAT
*
4687274 AATGGCTTTACAGGATCACTTCGGTGATCAATGTAATGCCTTCAACTTAGCCAAAACTCCTAAGC
1 AATGGCTTTACAGGATCACTTCAGTGATCAATGTAATGCCTTCAACTTAGCCAAAACTCCTAAGC
4687339 TGGGTCGGGGGTGTTACAAAC
66 TGGGTCGGGGGTGTTACAAAC
4687360 CTACATAGGT
Statistics
Matches: 83, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
92 83 1.00
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.29
Consensus pattern (92 bp):
AATGGCTTTACAGGATCACTTCAGTGATCAATGTAATGCCTTCAACTTAGCCAAAACTCCTAAGC
TGGGTCGGGGGTGTTACAAACTTGTAT
Found at i:4688064 original size:29 final size:27
Alignment explanation
Indices: 4687998--4688066 Score: 66
Period size: 29 Copynumber: 2.4 Consensus size: 27
4687988 TTCTTTCTAC
* *
4687998 ATTTGAAATTTAGTCCATTTACTTTTA
1 ATTTAAAATTTAGTCCATCTACTTTTA
* *
4688025 TTTCTAGAAATTTAGTCCCTCTACTTTTA
1 ATT-TA-AAATTTAGTCCATCTACTTTTA
4688054 GGATTTAAAATTT
1 --ATTTAAAATTT
4688067 CAAGTCCACT
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
27 2 0.06
28 1 0.03
29 26 0.79
30 2 0.06
31 2 0.06
ACGTcount: A:0.29, C:0.13, G:0.09, T:0.49
Consensus pattern (27 bp):
ATTTAAAATTTAGTCCATCTACTTTTA
Found at i:4690247 original size:24 final size:24
Alignment explanation
Indices: 4690220--4690269 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
4690210 ACTCCACTTC
4690220 TATTTCCTTTTATTTTTAAATTTT
1 TATTTCCTTTTATTTTTAAATTTT
4690244 TATTTCCTTTTATTTTTAAATTTT
1 TATTTCCTTTTATTTTTAAATTTT
4690268 TA
1 TA
4690270 GTAAATTAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.22, C:0.08, G:0.00, T:0.70
Consensus pattern (24 bp):
TATTTCCTTTTATTTTTAAATTTT
Found at i:4695928 original size:16 final size:16
Alignment explanation
Indices: 4695907--4695938 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
4695897 AGAAAGTGTC
4695907 AACACGATATCATTTA
1 AACACGATATCATTTA
4695923 AACACGATATCATTTA
1 AACACGATATCATTTA
4695939 TCCGTGTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.19, G:0.06, T:0.31
Consensus pattern (16 bp):
AACACGATATCATTTA
Found at i:4699222 original size:18 final size:18
Alignment explanation
Indices: 4699201--4699240 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
4699191 TTTTCAATTC
4699201 ATTAATAATTTTAAAAAA-
1 ATTAAT-ATTTTAAAAAAT
*
4699219 ATTAATTTTTTAAAAAAT
1 ATTAATATTTTAAAAAAT
4699237 ATTA
1 ATTA
4699241 TCAATGATCG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATTAATATTTTAAAAAAT
Found at i:4699850 original size:22 final size:22
Alignment explanation
Indices: 4699790--4699850 Score: 54
Period size: 22 Copynumber: 2.8 Consensus size: 22
4699780 AATGGTCTTT
* *
4699790 TAGATAATTATAAAAAAAATTA
1 TAGAAAATTATAAAAATAATTA
*
4699812 TAGAAAATTACT-TAAATAATTA
1 TAGAAAATTA-TAAAAATAATTA
*
4699834 TTA-AGAATTATAAAAAT
1 -TAGAAAATTATAAAAAT
4699851 TATAAAAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
21 1 0.03
22 27 0.87
23 3 0.10
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (22 bp):
TAGAAAATTATAAAAATAATTA
Found at i:4699853 original size:9 final size:9
Alignment explanation
Indices: 4699804--4699858 Score: 56
Period size: 9 Copynumber: 5.6 Consensus size: 9
4699794 TAATTATAAA
4699804 AAAAATTAT
1 AAAAATTAT
4699813 AGAAAATTACTT
1 A-AAAATTA--T
4699825 AAATAATTATT
1 AAA-AATTA-T
*
4699836 AAGAATTAT
1 AAAAATTAT
4699845 AAAAATTAT
1 AAAAATTAT
4699854 AAAAA
1 AAAAA
4699859 ATATTAATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
9 15 0.38
10 12 0.30
11 6 0.15
12 7 0.17
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.33
Consensus pattern (9 bp):
AAAAATTAT
Found at i:4699859 original size:10 final size:10
Alignment explanation
Indices: 4699803--4699860 Score: 55
Period size: 10 Copynumber: 5.7 Consensus size: 10
4699793 ATAATTATAA
4699803 AAAAAATTAT
1 AAAAAATTAT
*
4699813 AGAAAATTACTT
1 AAAAAATTA--T
*
4699825 AAATAATTAT
1 AAAAAATTAT
* *
4699835 TAAGAATTAT
1 AAAAAATTAT
4699845 -AAAAATTAT
1 AAAAAATTAT
4699854 AAAAAAT
1 AAAAAAT
4699861 ATTAATTTTA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 8 0.21
10 23 0.59
12 8 0.21
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:4705527 original size:26 final size:26
Alignment explanation
Indices: 4705493--4705558 Score: 62
Period size: 26 Copynumber: 2.5 Consensus size: 26
4705483 CATATTTAAA
*
4705493 TAATATAAATTTAAATATATTT-TATTT
1 TAAT-TAAATTTAAATAT-TTTAAATTT
* *
4705520 TAATTAAAATTAAGTATTTTAAATTT
1 TAATTAAATTTAAATATTTTAAATTT
* *
4705546 AAATTTAATTTAA
1 TAATTAAATTTAA
4705559 TTGCATATTA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
25 3 0.09
26 25 0.78
27 4 0.12
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (26 bp):
TAATTAAATTTAAATATTTTAAATTT
Found at i:4706102 original size:18 final size:18
Alignment explanation
Indices: 4706079--4706130 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 18
4706069 TAGAATAATA
4706079 TATAAAAATGAAAAATTT
1 TATAAAAATGAAAAATTT
4706097 TATAAAAA--AATTAAATTT
1 TATAAAAATGAA--AAATTT
*
4706115 TAAAAAAATTGAAAAA
1 TATAAAAA-TGAAAAA
4706131 AGAATTTTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 9
0.74 0.03 0.24
Matches are distributed among these distances:
16 2 0.07
18 21 0.75
19 3 0.11
21 2 0.07
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (18 bp):
TATAAAAATGAAAAATTT
Found at i:4707285 original size:22 final size:22
Alignment explanation
Indices: 4707257--4707298 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
4707247 GAAGACTGAA
4707257 ATATATATATAAATTTAAATAT
1 ATATATATATAAATTTAAATAT
* *
4707279 ATATATATATTATTTTAAAT
1 ATATATATATAAATTTAAAT
4707299 TTAACATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATATATATATAAATTTAAATAT
Found at i:4707590 original size:28 final size:25
Alignment explanation
Indices: 4707529--4707591 Score: 65
Period size: 28 Copynumber: 2.3 Consensus size: 25
4707519 TTTGCTTTTT
4707529 AATATAAAATTAAAAAAAAACTTAC
1 AATATAAAATTAAAAAAAAACTTAC
4707554 ATATGATAAAATTTAAACACAAAATA-TTAC
1 A-AT-ATAAAA-TTAAA-A-AAAA-ACTTAC
4707584 AATATAAA
1 AATATAAA
4707592 GATGATATCA
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
25 1 0.03
26 2 0.06
27 6 0.19
28 10 0.31
29 3 0.09
30 9 0.28
31 1 0.03
ACGTcount: A:0.63, C:0.08, G:0.02, T:0.27
Consensus pattern (25 bp):
AATATAAAATTAAAAAAAAACTTAC
Found at i:4707932 original size:2 final size:2
Alignment explanation
Indices: 4707925--4707968 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
4707915 ATTAAACTTA
4707925 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4707967 AT
1 AT
4707969 GAGAGATGCA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4708201 original size:3 final size:3
Alignment explanation
Indices: 4708193--4708230 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
4708183 ACAGCTGCAC
* *
4708193 CTT CTT CTT CTT CTT CTT CTT CTT CTT CCT CAT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
4708231 GTTCTAAACA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.03, C:0.37, G:0.00, T:0.61
Consensus pattern (3 bp):
CTT
Found at i:4711652 original size:17 final size:16
Alignment explanation
Indices: 4711627--4711678 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 16
4711617 CCTTAAATCT
4711627 AAATGATCCAAATTCAA
1 AAATGATCCAAA-TCAA
* *
4711644 AAATAATCCAAACTCGA
1 AAATGATCCAAA-TCAA
*
4711661 AATTGATCCAAATCAA
1 AAATGATCCAAATCAA
4711677 AA
1 AA
4711679 TAAACAGATA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
16 5 0.17
17 24 0.83
ACGTcount: A:0.54, C:0.19, G:0.06, T:0.21
Consensus pattern (16 bp):
AAATGATCCAAATCAA
Found at i:4713878 original size:21 final size:20
Alignment explanation
Indices: 4713850--4713889 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
4713840 CCATTCTCTT
*
4713850 CTCCTTCTCCCTCTATTTTC
1 CTCCTTCTCCATCTATTTTC
*
4713870 CTCCATTCTCCATCTCTTTT
1 CTCC-TTCTCCATCTATTTT
4713890 AACGTAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.07, C:0.42, G:0.00, T:0.50
Consensus pattern (20 bp):
CTCCTTCTCCATCTATTTTC
Found at i:4720381 original size:9 final size:9
Alignment explanation
Indices: 4720367--4720391 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
4720357 TGTAACACAC
4720367 ATACATGCA
1 ATACATGCA
4720376 ATACATGCA
1 ATACATGCA
4720385 ATACATG
1 ATACATG
4720392 AAGAATTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.44, C:0.20, G:0.12, T:0.24
Consensus pattern (9 bp):
ATACATGCA
Found at i:4724360 original size:22 final size:22
Alignment explanation
Indices: 4724335--4724378 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
4724325 ATAGTAAAAG
*
4724335 AAAAA-AAAATATTTTTTTTTAC
1 AAAAATAAAA-ATTTTTATTTAC
*
4724357 AAAAATAACAATTTTTATTTAC
1 AAAAATAAAAATTTTTATTTAC
4724379 TTTTAATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (22 bp):
AAAAATAAAAATTTTTATTTAC
Found at i:4724666 original size:5 final size:5
Alignment explanation
Indices: 4724651--4724680 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
4724641 GATTAAGAAA
4724651 TAATAT TAATT TAATT TAATT TAATT TAAT
1 TAAT-T TAATT TAATT TAATT TAATT TAAT
4724681 GATGACATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 20 0.83
6 4 0.17
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (5 bp):
TAATT
Found at i:4725836 original size:20 final size:20
Alignment explanation
Indices: 4725803--4725841 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
4725793 ATTTTTTTAT
*
4725803 ATTTTTATACTTTTTAAATA
1 ATTTTTATACTTTTGAAATA
4725823 ATTTTTAT-CATTTTGAAAT
1 ATTTTTATAC-TTTTGAAAT
4725842 TTTAAAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.59
Consensus pattern (20 bp):
ATTTTTATACTTTTGAAATA
Found at i:4725844 original size:28 final size:28
Alignment explanation
Indices: 4725796--4725849 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
4725786 AAATAATATT
* * *
4725796 TTTTTATATTTTTATACTTTTTAAATAA
1 TTTTTATATTTTGATAATTTTAAAATAA
4725824 TTTTTATCATTTTGA-AATTTTAAAAT
1 TTTTTAT-ATTTTGATAATTTTAAAAT
4725850 TTAAAAAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
28 16 0.73
29 6 0.27
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (28 bp):
TTTTTATATTTTGATAATTTTAAAATAA
Found at i:4727321 original size:4 final size:4
Alignment explanation
Indices: 4727312--4727336 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
4727302 TTCTTATATT
4727312 ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA A
4727337 AAGTGTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:4727722 original size:29 final size:30
Alignment explanation
Indices: 4727695--4727755 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 30
4727685 TAATATTATA
4727695 TTTTCTCATAAAAATATTAAAAAATTATAAT
1 TTTTCTCA-AAAAATATTAAAAAATTATAAT
* * *
4727726 TTTTTTCAAAAATTATT-AAAAATTAAAAT
1 TTTTCTCAAAAAATATTAAAAAATTATAAT
4727755 T
1 T
4727756 GATATAAACT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 12 0.44
30 8 0.30
31 7 0.26
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (30 bp):
TTTTCTCAAAAAATATTAAAAAATTATAAT
Found at i:4727780 original size:20 final size:20
Alignment explanation
Indices: 4727757--4727794 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4727747 ATTAAAATTG
* *
4727757 ATATAAACTTTATAAAAATA
1 ATATAAAATTAATAAAAATA
4727777 ATATAAAATTAATAAAAA
1 ATATAAAATTAATAAAAA
4727795 CATATTTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (20 bp):
ATATAAAATTAATAAAAATA
Found at i:4728586 original size:19 final size:18
Alignment explanation
Indices: 4728558--4728627 Score: 68
Period size: 19 Copynumber: 3.7 Consensus size: 18
4728548 TTATTTAAAA
4728558 TTATAATTTTTAGAATAT
1 TTATAATTTTTAGAATAT
*
4728576 TTATAAGTTTTTATAATAT
1 TTATAA-TTTTTAGAATAT
* * *
4728595 TCATAAGGTTTTATGAATTTT
1 TTATAA-TTTTTA-GAA-TAT
4728616 TTATAATTTTTA
1 TTATAATTTTTA
4728628 TAAGTTTATA
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
18 6 0.14
19 22 0.52
20 7 0.17
21 7 0.17
ACGTcount: A:0.34, C:0.01, G:0.07, T:0.57
Consensus pattern (18 bp):
TTATAATTTTTAGAATAT
Found at i:4728590 original size:10 final size:9
Alignment explanation
Indices: 4728558--4728657 Score: 76
Period size: 9 Copynumber: 10.4 Consensus size: 9
4728548 TTATTTAAAA
4728558 TTATAATTT
1 TTATAATTT
* *
4728567 TTAGAATAT
1 TTATAATTT
4728576 TTATAAGTTT
1 TTATAA-TTT
*
4728586 TTATAATAT
1 TTATAATTT
* *
4728595 TCATAAGGTT
1 TTATAA-TTT
4728605 TTATGAATTTT
1 TTAT-AA-TTT
4728616 TTATAATTT
1 TTATAATTT
4728625 TTATAAGTTT
1 TTATAA-TTT
*
4728635 ATATAAATTT
1 TTAT-AATTT
4728645 TTA-ATATTT
1 TTATA-ATTT
4728654 TTAT
1 TTAT
4728658 GTGAAAAATA
Statistics
Matches: 71, Mismatches: 13, Indels: 13
0.73 0.13 0.13
Matches are distributed among these distances:
8 1 0.01
9 35 0.49
10 25 0.35
11 10 0.14
ACGTcount: A:0.35, C:0.01, G:0.06, T:0.58
Consensus pattern (9 bp):
TTATAATTT
Found at i:4728619 original size:30 final size:28
Alignment explanation
Indices: 4728575--4728647 Score: 83
Period size: 30 Copynumber: 2.5 Consensus size: 28
4728565 TTTTAGAATA
*
4728575 TTTATAAGTTTTTATAATATTCATAAGGT
1 TTTATAATTTTTTATAATATTCATAA-GT
* *
4728604 TTTATGAATTTTTTATAATTTTTATAAGT
1 TTTAT-AATTTTTTATAATATTCATAAGT
*
4728633 TTATATAAATTTTTA
1 TT-TATAATTTTTTA
4728648 ATATTTTTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
29 17 0.45
30 21 0.55
ACGTcount: A:0.34, C:0.01, G:0.07, T:0.58
Consensus pattern (28 bp):
TTTATAATTTTTTATAATATTCATAAGT
Found at i:4728634 original size:29 final size:29
Alignment explanation
Indices: 4728597--4728657 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 29
4728587 TATAATATTC
* *
4728597 ATAAGGTTT-TATGAATTTTTTATAATTTTT
1 ATAA-GTTTATATAAATTTTTAAT-ATTTTT
4728627 ATAAGTTTATATAAATTTTTAATATTTTT
1 ATAAGTTTATATAAATTTTTAATATTTTT
4728656 AT
1 AT
4728658 GTGAAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 12 0.43
30 16 0.57
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (29 bp):
ATAAGTTTATATAAATTTTTAATATTTTT
Found at i:4728639 original size:19 final size:21
Alignment explanation
Indices: 4728603--4728647 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
4728593 ATTCATAAGG
* *
4728603 TTTTATGAATTTTTTAT-AAT
1 TTTTATGAAGTTTATATAAAT
4728623 TTTTAT-AAGTTTATATAAAT
1 TTTTATGAAGTTTATATAAAT
4728643 TTTTA
1 TTTTA
4728648 ATATTTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (21 bp):
TTTTATGAAGTTTATATAAAT
Found at i:4737892 original size:18 final size:19
Alignment explanation
Indices: 4737869--4737920 Score: 70
Period size: 18 Copynumber: 2.7 Consensus size: 19
4737859 AGAAATATCT
* *
4737869 AAAAAATTTGTAAAA-TTA
1 AAAAAATATATAAAATTTA
4737887 AAAAAATATATAAAATTTA
1 AAAAAATATATAAAATTTA
4737906 AAAAGAATATATAAA
1 AAAA-AATATATAAA
4737921 GAATACTCTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 13 0.43
19 7 0.23
20 10 0.33
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (19 bp):
AAAAAATATATAAAATTTA
Found at i:4750566 original size:14 final size:14
Alignment explanation
Indices: 4750535--4750568 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
4750525 ACTATTATAT
* *
4750535 TGTTATTATTTTGT
1 TGTTATTATTTAGA
4750549 TGTTATTATTTAGA
1 TGTTATTATTTAGA
4750563 TGTTAT
1 TGTTAT
4750569 GTAACTCGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.21, C:0.00, G:0.15, T:0.65
Consensus pattern (14 bp):
TGTTATTATTTAGA
Found at i:4751358 original size:2 final size:2
Alignment explanation
Indices: 4751351--4751386 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
4751341 AAGAAAAGTA
* *
4751351 AT AT AT AT AT AT CT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4751387 TTAATAATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4757705 original size:2 final size:2
Alignment explanation
Indices: 4757700--4757733 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
4757690 GGTACCCCCC
4757700 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
4757734 AATGGCTTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:4758417 original size:89 final size:91
Alignment explanation
Indices: 4758306--4758505 Score: 230
Period size: 92 Copynumber: 2.2 Consensus size: 91
4758296 TTTATATTTT
* * **
4758306 TCAAGTTCATGGACTAAAATATAGACCTATTTGTCAAGTTCTAGT-AAA-TGGAC-CAAAAAAAA
1 TCAAGTTCAGGGACTAAAATATAGACCTAGTTGTCAAGTTAAAGTCAAAGTGGACTC---AAAAA
*
4758368 AATTACATGTA-TAAAGTGAACCTAATTG
63 AAGTACATGTACTAAAGTGAACCTAATTG
* **
4758396 TCAAGTTCAGGGA-TCAAATATAGATGTAGTTGTCAAGTTAAAGTACCAAAGTGGACTCAAAAAA
1 TCAAGTTCAGGGACTAAAATATAGACCTAGTTGTCAAGTTAAAGT--CAAAGTGGACTCAAAAAA
**
4758460 AGTACATGTACTAAAGTGAATTTAATTG
64 AGTACATGTACTAAAGTGAACCTAATTG
4758488 TCAAGTTCAGGGACTAAA
1 TCAAGTTCAGGGACTAAA
4758506 CATTATATTA
Statistics
Matches: 92, Mismatches: 11, Indels: 11
0.81 0.10 0.10
Matches are distributed among these distances:
89 25 0.27
90 12 0.13
91 15 0.16
92 31 0.34
93 8 0.09
94 1 0.01
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.28
Consensus pattern (91 bp):
TCAAGTTCAGGGACTAAAATATAGACCTAGTTGTCAAGTTAAAGTCAAAGTGGACTCAAAAAAAG
TACATGTACTAAAGTGAACCTAATTG
Found at i:4763419 original size:48 final size:48
Alignment explanation
Indices: 4763364--4763460 Score: 185
Period size: 48 Copynumber: 2.0 Consensus size: 48
4763354 AATAATCTAA
4763364 ACCTAAGCTACTAAAGCTAAAAATGTAATAATTAAATATAAAATATTT
1 ACCTAAGCTACTAAAGCTAAAAATGTAATAATTAAATATAAAATATTT
*
4763412 ACCTAAGCTACTAAAGCTAAAAATGTAATAATTAAATATAAGATATTT
1 ACCTAAGCTACTAAAGCTAAAAATGTAATAATTAAATATAAAATATTT
4763460 A
1 A
4763461 TAAAACAAGC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.52, C:0.10, G:0.07, T:0.31
Consensus pattern (48 bp):
ACCTAAGCTACTAAAGCTAAAAATGTAATAATTAAATATAAAATATTT
Found at i:4766626 original size:24 final size:23
Alignment explanation
Indices: 4766574--4766626 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
4766564 ATTTTTTTCA
* *
4766574 AAAAAATA-TTTTTTATTTTATT
1 AAAATATATTTTTTTATTTTATG
4766596 AAAATATATTTTTTTATTTCTATG
1 AAAATATATTTTTTTATTT-TATG
*
4766620 AATATAT
1 AAAATAT
4766627 TAAATATTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 7 0.27
23 10 0.38
24 9 0.35
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (23 bp):
AAAATATATTTTTTTATTTTATG
Found at i:4770393 original size:30 final size:27
Alignment explanation
Indices: 4770344--4770398 Score: 67
Period size: 28 Copynumber: 1.9 Consensus size: 27
4770334 AAAGCTATAA
4770344 ACTATTAAAATAATAAAATTACATTTTT
1 ACTATTAAAATAATAAAATTA-ATTTTT
4770372 ACTATTATAAA-AATTACAAATTAATTT
1 ACTATTA-AAATAA-TA-AAATTAATTT
4770399 CAACCCTCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
28 9 0.38
29 9 0.38
30 6 0.25
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (27 bp):
ACTATTAAAATAATAAAATTAATTTTT
Found at i:4771794 original size:23 final size:23
Alignment explanation
Indices: 4771746--4771794 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
4771736 TTTTGAGCAA
*
4771746 TTTAATTTTTTCTTTTATGTTTT
1 TTTAATTTTTTCTTTTATCTTTT
4771769 TTTAATTTTCTT-TTTT-TCTTTAT
1 TTTAATTTT-TTCTTTTATCTTT-T
4771792 TTT
1 TTT
4771795 TCATTCTCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 4 0.17
23 17 0.74
24 2 0.09
ACGTcount: A:0.12, C:0.06, G:0.02, T:0.80
Consensus pattern (23 bp):
TTTAATTTTTTCTTTTATCTTTT
Found at i:4779100 original size:13 final size:14
Alignment explanation
Indices: 4779077--4779111 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
4779067 AAAACTGATG
4779077 TTTTTGATTTAGTT-
1 TTTTTG-TTTAGTTC
4779091 TTTTTGTTTAGTTC
1 TTTTTGTTTAGTTC
4779105 TTTTTGT
1 TTTTTGT
4779112 AAAATACTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 7 0.35
14 13 0.65
ACGTcount: A:0.09, C:0.03, G:0.14, T:0.74
Consensus pattern (14 bp):
TTTTTGTTTAGTTC
Found at i:4781809 original size:42 final size:42
Alignment explanation
Indices: 4781763--4781909 Score: 170
Period size: 42 Copynumber: 3.3 Consensus size: 42
4781753 CATAATTCAA
4781763 CTATGGTCTTACACATCTTCACATAATGATGCCATAGCCCAG
1 CTATGGTCTTACACATCTTCACATAATGATGCCATAGCCCAG
* * * *
4781805 CTATGGTCTTACACATATTTATATATTGATGCCATAGCCCAG
1 CTATGGTCTTACACATCTTCACATAATGATGCCATAGCCCAG
*
4781847 TTATGGTCTTACACGTAATCACATATCACAT-ATCGATGCCATAGCCCAG
1 CTATGGTCTTACAC---AT--C-T-TCACATAAT-GATGCCATAGCCCAG
4781896 CTATGGTCTTACAC
1 CTATGGTCTTACAC
4781910 GAATCACATA
Statistics
Matches: 87, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
42 51 0.59
45 2 0.02
48 2 0.02
49 32 0.37
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (42 bp):
CTATGGTCTTACACATCTTCACATAATGATGCCATAGCCCAG
Found at i:4781896 original size:91 final size:94
Alignment explanation
Indices: 4781781--4781999 Score: 254
Period size: 95 Copynumber: 2.4 Consensus size: 94
4781771 TTACACATCT
** *
4781781 TCACATAAT-GATGCCATAGCCCAGCTATGGTCTTACAC-AT-ATTTATAT-ATTGATGCCATAG
1 TCACAT-ATCGATGCCATAGCCCAGCTATGGTCTTACACAATCACATATATCACTGATGCCATAG
* *
4781842 CCCAGTTATGGTCTTACAC-GTAATCACATA
65 CCCAGATATGGTCTTACACAGT-AGCACATA
* *
4781872 TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCACTGATGCCATAT
1 TCACATATCGATGCCATAGCCCAGCTATGGTCTTACAC-AATCACATATATCACTGATGCCATAG
* *
4781937 CCCAGATATGGTCTTATACAGTAGCATATA
65 CCCAGATATGGTCTTACACAGTAGCACATA
* * *
4781967 TCAC--ACCGATGCCATATCCCAGATATGGTCTTA
1 TCACATATCGATGCCATAGCCCAGCTATGGTCTTA
4782000 TACGGAAATC
Statistics
Matches: 110, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
90 2 0.02
91 35 0.32
93 28 0.25
94 5 0.05
95 38 0.35
96 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.30
Consensus pattern (94 bp):
TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACAATCACATATATCACTGATGCCATAGC
CCAGATATGGTCTTACACAGTAGCACATA
Done.