Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold36
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: 4808052
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 18886 characters in sequence are not A, C, G, or T
File 26 of 28
Found at i:4057390 original size:13 final size:13
Alignment explanation
Indices: 4057367--4057405 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
4057357 AACTGGAAGG
4057367 TTTTTTAATATTTA
1 TTTTTT-ATATTTA
4057381 TTTTTTATATTTA
1 TTTTTTATATTTA
* *
4057394 TATTTAATATTT
1 TTTTTTATATTT
4057406 TTAAATTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 17 0.74
14 6 0.26
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTTTATATTTA
Found at i:4059873 original size:49 final size:47
Alignment explanation
Indices: 4059820--4059916 Score: 117
Period size: 50 Copynumber: 2.0 Consensus size: 47
4059810 ATGATGTCAA
**
4059820 ATATATATATA-AAAAATTATTTTTAAT-TATTTAAATAATATATTTATAT
1 ATATATATATACAAAAACAATTTTTAATCT-TTT-AA-AATATATTT-TAT
*
4059869 ATATATATATACAGAAACAATTTTTAATCTTTTAAAATATATTTTAT
1 ATATATATATACAAAAACAATTTTTAATCTTTTAAAATATATTTTAT
4059916 A
1 A
4059917 GTAAAAGAGT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
47 4 0.09
48 9 0.21
49 13 0.30
50 16 0.37
51 1 0.02
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.48
Consensus pattern (47 bp):
ATATATATATACAAAAACAATTTTTAATCTTTTAAAATATATTTTAT
Found at i:4060294 original size:24 final size:22
Alignment explanation
Indices: 4060259--4060307 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 22
4060249 TTAATGTTAT
* *
4060259 TTTAAAATTTAATTAACACTTA
1 TTTAAAATTTAATTAAAAATTA
4060281 TTTATAAATGTTAATTAAAAATTA
1 TTTA-AAAT-TTAATTAAAAATTA
4060305 TTT
1 TTT
4060308 TAATAATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 4 0.17
23 4 0.17
24 15 0.65
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (22 bp):
TTTAAAATTTAATTAAAAATTA
Found at i:4061604 original size:2 final size:2
Alignment explanation
Indices: 4061599--4061628 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4061589 GACACACTAT
4061599 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4061629 CACATGCATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4061824 original size:18 final size:18
Alignment explanation
Indices: 4061801--4061836 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
4061791 ATGTCAAGAT
4061801 GCAAAGGGACTTTTATCA
1 GCAAAGGGACTTTTATCA
4061819 GCAAAGGGACTTTTATCA
1 GCAAAGGGACTTTTATCA
4061837 CTCATTTACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (18 bp):
GCAAAGGGACTTTTATCA
Found at i:4062975 original size:2 final size:2
Alignment explanation
Indices: 4062968--4062992 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4062958 TTTATCAGAC
4062968 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
4062993 TTGTATTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4063360 original size:11 final size:11
Alignment explanation
Indices: 4063289--4063362 Score: 59
Period size: 11 Copynumber: 7.2 Consensus size: 11
4063279 CCATCACAAA
*
4063289 TATATTAAATT
1 TATATTATATT
*
4063300 TAT-TTATATC
1 TATATTATATT
4063310 T-TATT-TA-T
1 TATATTATATT
*
4063318 TATATTATTTT
1 TATATTATATT
*
4063329 TATATT-TATA
1 TATATTATATT
* *
4063339 AATAATATATT
1 TATATTATATT
4063350 TATATTATATT
1 TATATTATATT
4063361 TA
1 TA
4063363 AAATTATTAA
Statistics
Matches: 47, Mismatches: 11, Indels: 10
0.69 0.16 0.15
Matches are distributed among these distances:
8 1 0.02
9 7 0.15
10 15 0.32
11 24 0.51
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (11 bp):
TATATTATATT
Found at i:4063376 original size:26 final size:25
Alignment explanation
Indices: 4063286--4063377 Score: 73
Period size: 26 Copynumber: 3.6 Consensus size: 25
4063276 TCTCCATCAC
4063286 AAATATATTAAATTTATTTATATCTT-
1 AAAT-TATTAAATTTATTTATAT-TTA
* * *
4063312 -ATTTATTATATTATTTTTATATTTA
1 AAATTATTAAATT-TATTTATATTTA
* *
4063337 TAAA-TAATATATTTATATTATATTTA
1 -AAATTATTAAATTTAT-TTATATTTA
4063363 AAATTATTAAATTTA
1 AAATTATTAAATTTA
4063378 ATTTTAATTT
Statistics
Matches: 52, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
24 10 0.19
25 15 0.29
26 26 0.50
27 1 0.02
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (25 bp):
AAATTATTAAATTTATTTATATTTA
Found at i:4063547 original size:21 final size:21
Alignment explanation
Indices: 4063506--4063562 Score: 55
Period size: 21 Copynumber: 2.7 Consensus size: 21
4063496 TATAATAAAA
*
4063506 ATAT-TTTTATATTTATATTT
1 ATATATTTTATATTAATATTT
4063526 ATATATTTTATAATTAAT-TTT
1 ATATATTTTAT-ATTAATATTT
* *
4063547 AAATAATTTTTTATTA
1 ATAT-ATTTTATATTA
4063563 TATAAATATT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 4 0.13
21 16 0.52
22 11 0.35
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (21 bp):
ATATATTTTATATTAATATTT
Found at i:4064298 original size:13 final size:13
Alignment explanation
Indices: 4064282--4064306 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4064272 TAAAAAAAAA
4064282 AAAAGAAAAGAAG
1 AAAAGAAAAGAAG
4064295 AAAAGAAAAGAA
1 AAAAGAAAAGAA
4064307 AAGATCAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (13 bp):
AAAAGAAAAGAAG
Found at i:4065620 original size:2 final size:2
Alignment explanation
Indices: 4065613--4065644 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4065603 GCAAGGAGAC
4065613 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4065645 AATTTAGAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4066542 original size:26 final size:24
Alignment explanation
Indices: 4066481--4066544 Score: 60
Period size: 26 Copynumber: 2.6 Consensus size: 24
4066471 CATTTTTGAA
4066481 ATTTAAAATAT-TTTTTTAATTAT
1 ATTTAAAATATATTTTTTAATTAT
* *
4066504 -TTGAAAGATTATATTTTTGTATTTAT
1 ATTTAAA-A-TATATTTTT-TAATTAT
4066530 ATTTAAATATATATT
1 ATTTAAA-ATATATT
4066545 AAATATAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
22 5 0.16
23 1 0.03
24 3 0.09
25 5 0.16
26 12 0.38
27 6 0.19
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.58
Consensus pattern (24 bp):
ATTTAAAATATATTTTTTAATTAT
Found at i:4068229 original size:15 final size:15
Alignment explanation
Indices: 4068209--4068239 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
4068199 GGCAATTAAA
4068209 ATGATAACAAAGTAC
1 ATGATAACAAAGTAC
4068224 ATGATAACAAAGTAC
1 ATGATAACAAAGTAC
4068239 A
1 A
4068240 GTGCAACCTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.55, C:0.13, G:0.13, T:0.19
Consensus pattern (15 bp):
ATGATAACAAAGTAC
Found at i:4077140 original size:42 final size:42
Alignment explanation
Indices: 4077083--4077166 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
4077073 TCCGTTAGTT
4077083 TTTATAAATCTAATATTTTATATAATTGAAGATCAGATCAAG
1 TTTATAAATCTAATATTTTATATAATTGAAGATCAGATCAAG
4077125 TTTATAAATCTAATATTTTATATAATTGAAGATCAGATCAAG
1 TTTATAAATCTAATATTTTATATAATTGAAGATCAGATCAAG
4077167 ACATCTGCAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (42 bp):
TTTATAAATCTAATATTTTATATAATTGAAGATCAGATCAAG
Found at i:4081113 original size:29 final size:29
Alignment explanation
Indices: 4081081--4081141 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
4081071 TTTATAAATA
*
4081081 TTAA-TTAAAAATATTTAATATATTATTTT
1 TTAATTTAAAAATATATAATA-ATTATTTT
*
4081110 TTAATTTAAAAATATATATTAATTATTTT
1 TTAATTTAAAAATATATAATAATTATTTT
4081139 TTA
1 TTA
4081142 TAAATATCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 15 0.52
30 14 0.48
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (29 bp):
TTAATTTAAAAATATATAATAATTATTTT
Found at i:4081252 original size:22 final size:21
Alignment explanation
Indices: 4081198--4081253 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
4081188 TTACTTTTTT
4081198 AAAT-TTAAAAAAATTTTATC
1 AAATATTAAAAAAATTTTATC
** *
4081218 AAATATTTTAAAAATTTTATT
1 AAATATTAAAAAAATTTTATC
*
4081239 AATTTATTAAAAAAA
1 AA-ATATTAAAAAAA
4081254 AGACACATAC
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
20 4 0.14
21 15 0.54
22 9 0.32
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (21 bp):
AAATATTAAAAAAATTTTATC
Found at i:4081750 original size:24 final size:24
Alignment explanation
Indices: 4081717--4081780 Score: 69
Period size: 26 Copynumber: 2.6 Consensus size: 24
4081707 AAAATTTAAA
4081717 TTTATT-TTAATT-TGAAAATATAT
1 TTTATTATTAATTATGAAAATAT-T
*
4081740 TTTATTATTAATATATTAAAATATT
1 TTTATTATTAAT-TATGAAAATATT
*
4081765 TTATATTAATAATTAT
1 TT-TATTATTAATTAT
4081781 AAACTCTTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
23 6 0.17
24 5 0.14
25 7 0.20
26 17 0.49
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (24 bp):
TTTATTATTAATTATGAAAATATT
Found at i:4081760 original size:26 final size:23
Alignment explanation
Indices: 4081731--4081779 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 23
4081721 TTTTAATTTG
4081731 AAAATATATTTTATTATTAATATATT
1 AAAA-ATATTTTA-TATTAATA-ATT
4081757 -AAAATATTTTATATTAATAATT
1 AAAAATATTTTATATTAATAATT
4081779 A
1 A
4081780 TAAACTCTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
22 3 0.14
23 8 0.36
24 8 0.36
25 3 0.14
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
AAAAATATTTTATATTAATAATT
Found at i:4081783 original size:24 final size:24
Alignment explanation
Indices: 4081736--4081779 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
4081726 ATTTGAAAAT
4081736 ATATTTTATTATTAATATATTAAA
1 ATATTTTATTATTAATATATTAAA
4081760 ATATTTTA-TATTAATA-ATTA
1 ATATTTTATTATTAATATATTA
4081780 TAAACTCTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 4 0.20
23 8 0.40
24 8 0.40
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (24 bp):
ATATTTTATTATTAATATATTAAA
Found at i:4082358 original size:13 final size:13
Alignment explanation
Indices: 4082332--4082365 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
4082322 TATTATATAT
4082332 ATATATAAATAAA
1 ATATATAAATAAA
4082345 ATAT-TAAATAAAA
1 ATATATAAAT-AAA
4082358 ATATATAA
1 ATATATAA
4082366 TATATAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 5 0.26
13 11 0.58
14 3 0.16
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
ATATATAAATAAA
Found at i:4082389 original size:17 final size:17
Alignment explanation
Indices: 4082325--4082388 Score: 60
Period size: 17 Copynumber: 3.6 Consensus size: 17
4082315 ACGGCACTAT
4082325 TATATATATATATAAATAA
1 TATATA-ATATATAAA-AA
* *
4082344 -A-ATATTAAATAAAAA
1 TATATAATATATAAAAA
4082359 TATATAATATATAAAAA
1 TATATAATATATAAAAA
4082376 TTTATATAATATA
1 --TATATAATATA
4082389 ATTATTATGA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
15 2 0.05
16 8 0.22
17 15 0.41
18 1 0.03
19 11 0.30
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TATATAATATATAAAAA
Found at i:4082758 original size:2 final size:2
Alignment explanation
Indices: 4082745--4082782 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
4082735 CGACGAAGAG
*
4082745 AT AT AT AA AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4082783 CAGATCATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:4084965 original size:19 final size:19
Alignment explanation
Indices: 4084938--4084996 Score: 50
Period size: 19 Copynumber: 3.0 Consensus size: 19
4084928 TTATTTAAAA
4084938 TAATATTAAAATTTTAT-TT
1 TAAT-TTAAAATTTTATATT
*
4084957 TAAATTTAATA-TTTATGATT
1 T-AATTTAAAATTTTAT-ATT
*
4084977 TAATTTAAATATTTTTTATT
1 TAATTTAAA-ATTTTATATT
4084997 ATTTAAATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
18 5 0.16
19 13 0.41
20 10 0.31
21 4 0.12
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (19 bp):
TAATTTAAAATTTTATATT
Found at i:4089629 original size:2 final size:2
Alignment explanation
Indices: 4089622--4089663 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
4089612 AGCTGAAAAC
4089622 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
4089664 CTGGAACCTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4090454 original size:3 final size:3
Alignment explanation
Indices: 4090446--4090505 Score: 111
Period size: 3 Copynumber: 20.0 Consensus size: 3
4090436 AAACATTAAA
4090446 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
4090494 AAT AAT AGT AAT
1 AAT AAT AAT AAT
4090506 TTACATGCAT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:4094178 original size:18 final size:18
Alignment explanation
Indices: 4094152--4094196 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
4094142 ATTTTAATTT
4094152 TATTATATAATTT-TTTTA
1 TATTATAT-ATTTATTTTA
*
4094170 TATTTTATATTTATTTTA
1 TATTATATATTTATTTTA
4094188 T-TTAT-TATT
1 TATTATATATT
4094197 GATTGATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
16 4 0.17
17 7 0.29
18 13 0.54
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
TATTATATATTTATTTTA
Found at i:4094189 original size:16 final size:17
Alignment explanation
Indices: 4094148--4094190 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
4094138 CAAAATTTTA
*
4094148 ATTTTATTATATAATTT
1 ATTTTATTTTATAATTT
*
4094165 TTTTATATTTTAT-ATTT
1 ATTT-TATTTTATAATTT
4094182 ATTTTATTT
1 ATTTTATTT
4094191 ATTATTGATT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
16 5 0.23
17 10 0.45
18 7 0.32
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (17 bp):
ATTTTATTTTATAATTT
Found at i:4095765 original size:15 final size:15
Alignment explanation
Indices: 4095745--4095774 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4095735 TAAAATTAAG
*
4095745 TTTTTAATTTTAAAT
1 TTTTTAAATTTAAAT
4095760 TTTTTAAATTTAAAT
1 TTTTTAAATTTAAAT
4095775 ACGTATAATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TTTTTAAATTTAAAT
Found at i:4096214 original size:20 final size:21
Alignment explanation
Indices: 4096186--4096225 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
4096176 TTTGATAATT
4096186 TTAAATATA-ATAATAAAAAA
1 TTAAATATATATAATAAAAAA
*
4096206 TTAATTATATTATAATAAAA
1 TTAAATATA-TATAATAAAA
4096226 TAAAATATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
22 9 0.53
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
TTAAATATATATAATAAAAAA
Found at i:4096241 original size:20 final size:20
Alignment explanation
Indices: 4096188--4096247 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
4096178 TGATAATTTT
*
4096188 AAATATAATAATAA-AAAATT
1 AAATATAA-AATAATAAAATA
* **
4096208 AATTATATTATAATAAAATA
1 AAATATAAAATAATAAAATA
4096228 AAATATAAAATAATATAAAT
1 AAATATAAAATAATA-AAAT
4096248 TTATAAATTT
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
19 4 0.13
20 23 0.74
21 4 0.13
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
AAATATAAAATAATAAAATA
Found at i:4096244 original size:25 final size:25
Alignment explanation
Indices: 4096189--4096245 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
4096179 GATAATTTTA
*
4096189 AATATAATAATAAAAAATTAATTAT
1 AATATAATAATAAAAAATTAATAAT
*
4096214 ATTATAATAA-AATAAAATATAA-AAT
1 AATATAATAATAA-AAAAT-TAATAAT
4096239 AATATAA
1 AATATAA
4096246 ATTTATAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 2 0.07
25 22 0.81
26 3 0.11
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (25 bp):
AATATAATAATAAAAAATTAATAAT
Found at i:4098815 original size:2 final size:2
Alignment explanation
Indices: 4098810--4098844 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
4098800 TGTGTGTGTC
4098810 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4098845 GTACACACCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4103541 original size:21 final size:22
Alignment explanation
Indices: 4103515--4103558 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
4103505 ATCTGCAAGT
*
4103515 AAACAAAATCTGC-AATGATCG
1 AAACAAAATCTACAAATGATCG
*
4103536 AAACAAAATGTACAAATGATCG
1 AAACAAAATCTACAAATGATCG
4103558 A
1 A
4103559 TCAAATGCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.52, C:0.16, G:0.14, T:0.18
Consensus pattern (22 bp):
AAACAAAATCTACAAATGATCG
Found at i:4106549 original size:3 final size:3
Alignment explanation
Indices: 4106543--4106574 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
4106533 ATTATTATTA
4106543 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
4106575 TTGACAATGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:4107931 original size:3 final size:3
Alignment explanation
Indices: 4107925--4107951 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
4107915 CAACAACAAC
4107925 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
4107952 TATTATTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:4107956 original size:3 final size:3
Alignment explanation
Indices: 4107950--4107990 Score: 73
Period size: 3 Copynumber: 13.3 Consensus size: 3
4107940 AATAATAATA
4107950 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATAT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT A
4107991 ATTTGGAGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 34 0.92
4 3 0.08
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:4121209 original size:15 final size:15
Alignment explanation
Indices: 4121154--4121206 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 15
4121144 AAATCGATTA
4121154 AAATT-AATTTAATT
1 AAATTAAATTTAATT
*
4121168 AAA--AAA-ATAATT
1 AAATTAAATTTAATT
4121180 AAATTAAATTTAATT
1 AAATTAAATTTAATT
*
4121195 -AATTTAATTTAA
1 AAATTAAATTTAA
4121207 ATTTTGATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
12 8 0.25
13 2 0.06
14 17 0.53
15 5 0.16
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
AAATTAAATTTAATT
Found at i:4121326 original size:14 final size:14
Alignment explanation
Indices: 4121307--4121334 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
4121297 AATTAATATT
4121307 TAAAATATATTTAA
1 TAAAATATATTTAA
4121321 TAAAATATATTTAA
1 TAAAATATATTTAA
4121335 AATCAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
TAAAATATATTTAA
Found at i:4125793 original size:21 final size:21
Alignment explanation
Indices: 4125768--4125809 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
4125758 TCAACGTAAC
4125768 ATTGAGGATTGATGTAATAAT
1 ATTGAGGATTGATGTAATAAT
4125789 ATTGAGGATTGATGTAATAAT
1 ATTGAGGATTGATGTAATAAT
4125810 GTAACATGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.24, T:0.38
Consensus pattern (21 bp):
ATTGAGGATTGATGTAATAAT
Found at i:4129401 original size:2 final size:2
Alignment explanation
Indices: 4129396--4129423 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4129386 AGAAGAGAGA
4129396 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
4129424 TGGCTATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4131277 original size:14 final size:14
Alignment explanation
Indices: 4131260--4131306 Score: 51
Period size: 13 Copynumber: 3.2 Consensus size: 14
4131250 TATTTTATTT
*
4131260 TATTTAATTATAAA
1 TATTTAAATATAAA
4131274 TA-TTAAATATAAA
1 TATTTAAATATAAA
4131287 TATTTATTTAATATAAA
1 TATTTA---AATATAAA
4131304 TAT
1 TAT
4131307 ATTTAATATT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 12 0.43
14 5 0.18
17 11 0.39
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
TATTTAAATATAAA
Found at i:4131299 original size:17 final size:16
Alignment explanation
Indices: 4131259--4131315 Score: 68
Period size: 17 Copynumber: 3.7 Consensus size: 16
4131249 TTATTTTATT
4131259 TTATTTAATTATAAATA
1 TTATTTAA-TATAAATA
4131276 TTA---AATATAAATA
1 TTATTTAATATAAATA
4131289 TTTATTTAATATAAATA
1 -TTATTTAATATAAATA
4131306 -TATTTAATAT
1 TTATTTAATAT
4131316 TTTTTAAATT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
13 8 0.22
14 5 0.14
15 10 0.28
17 13 0.36
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TTATTTAATATAAATA
Found at i:4131345 original size:21 final size:21
Alignment explanation
Indices: 4131321--4131361 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
4131311 AATATTTTTT
4131321 AAATTATT-TTATATATTTAAA
1 AAATTATTATT-TATATTTAAA
4131342 AAATTATTATTTATATTTAA
1 AAATTATTATTTATATTTAA
4131362 TTATAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
AAATTATTATTTATATTTAAA
Found at i:4132773 original size:4 final size:4
Alignment explanation
Indices: 4132764--4132790 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
4132754 ATGAATTAGC
4132764 ATTA ATTA ATTA ATTA ATTA ATTA ATT
1 ATTA ATTA ATTA ATTA ATTA ATTA ATT
4132791 TTTTTTTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
ATTA
Found at i:4145169 original size:22 final size:22
Alignment explanation
Indices: 4145128--4145171 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
4145118 AATAGCTATT
*
4145128 AAAATATATTAAAAAATTTTAA
1 AAAATATATCAAAAAATTTTAA
* *
4145150 AAAATATATCACAAATTTTTAA
1 AAAATATATCAAAAAATTTTAA
4145172 TTTTATTTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (22 bp):
AAAATATATCAAAAAATTTTAA
Found at i:4145758 original size:15 final size:15
Alignment explanation
Indices: 4145740--4145795 Score: 55
Period size: 15 Copynumber: 3.8 Consensus size: 15
4145730 AAAAAATATA
4145740 TATTTAAATTAAATT
1 TATTTAAATTAAATT
*
4145755 TATTTATTATT-AATT
1 TATTTA-AATTAAATT
*
4145770 AATTTTAAATTAAA--
1 TA-TTTAAATTAAATT
4145784 TATTTAAATTAA
1 TATTTAAATTAA
4145796 TATCAAAGTT
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
13 10 0.29
14 1 0.03
15 14 0.41
16 9 0.26
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TATTTAAATTAAATT
Found at i:4146247 original size:18 final size:17
Alignment explanation
Indices: 4146204--4146239 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
4146194 TGAGTTGAAA
4146204 TTTAA-AAAATTATATT
1 TTTAATAAAATTATATT
4146220 TTTAATAAAATTATATT
1 TTTAATAAAATTATATT
4146237 TTT
1 TTT
4146240 TATCAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTAATAAAATTATATT
Found at i:4146248 original size:19 final size:18
Alignment explanation
Indices: 4146208--4146260 Score: 63
Period size: 17 Copynumber: 2.9 Consensus size: 18
4146198 TTGAAATTTA
4146208 AAAAATTATATTTTTAAT
1 AAAAATTATATTTTTAAT
*
4146226 -AAAATTATATTTTTTAT
1 AAAAATTATATTTTTAAT
*
4146243 CAAAAATCATTATTTTTA
1 -AAAAATTA-TATTTTTA
4146261 GCCAAAATCC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 16 0.55
19 6 0.21
20 7 0.24
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (18 bp):
AAAAATTATATTTTTAAT
Found at i:4148501 original size:2 final size:2
Alignment explanation
Indices: 4148494--4148520 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4148484 TTTGTAAAAC
4148494 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
4148521 GCTGGACAAG
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4161979 original size:22 final size:21
Alignment explanation
Indices: 4161944--4162065 Score: 64
Period size: 21 Copynumber: 6.0 Consensus size: 21
4161934 ATTAAATTTT
4161944 TTAATA-AAATATATTTATAA
1 TTAATATAAATATATTTATAA
*
4161964 TTAATATAAATGATATTATTAAAA
1 TTAATATAAAT-ATA-T-TTATAA
* * **
4161988 TTTAAGA-AATTATAAATATAA
1 -TTAATATAAATATATTTATAA
4162009 --AAT-TAAA-ATATTT-T--
1 TTAATATAAATATATTTATAA
* *
4162023 TTAATAAAAATAAATTTATAA
1 TTAATATAAATATATTTATAA
*
4162044 TTAATATAAATGATATTAATAA
1 TTAATATAAAT-ATATTTATAA
4162066 ATTTTAAAAA
Statistics
Matches: 73, Mismatches: 15, Indels: 26
0.64 0.13 0.23
Matches are distributed among these distances:
16 4 0.05
17 7 0.10
18 9 0.12
19 1 0.01
20 6 0.08
21 18 0.25
22 11 0.15
23 4 0.05
24 8 0.11
25 5 0.07
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (21 bp):
TTAATATAAATATATTTATAA
Found at i:4161992 original size:25 final size:24
Alignment explanation
Indices: 4161923--4161992 Score: 67
Period size: 25 Copynumber: 3.0 Consensus size: 24
4161913 CAATGATGTA
*
4161923 ATAAATATATTATTAAATTTTTTAAT
1 ATAAATATATTATTAAA--ATTTAAT
*
4161949 A-AAATATA-T-TTATAA-TTAAT
1 ATAAATATATTATTAAAATTTAAT
4161969 ATAAATGATATTATTAAAATTTAA
1 ATAAAT-ATATTATTAAAATTTAA
4161993 GAAATTATAA
Statistics
Matches: 36, Mismatches: 3, Indels: 11
0.72 0.06 0.22
Matches are distributed among these distances:
20 6 0.17
21 4 0.11
22 3 0.08
23 5 0.14
24 6 0.17
25 11 0.31
26 1 0.03
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (24 bp):
ATAAATATATTATTAAAATTTAAT
Found at i:4162045 original size:80 final size:77
Alignment explanation
Indices: 4161939--4162093 Score: 247
Period size: 80 Copynumber: 2.0 Consensus size: 77
4161929 ATATTATTAA
* * *
4161939 ATTTTTTAATAAAATATATTTATAATTAATATAAATGATATTATTAAAATTTAAGAAATTATAAA
1 ATTTTTTAATAAAATAAATTTATAATTAATATAAATGATATTAATAAAATTTAAAAAATT-TAAA
4162004 TATAAAATTAAAAT
65 T-TAAAATTAAAAT
*
4162018 ATTTTTTAATAAAAATAAATTTATAATTAATATAAATGATATTAATAAATTTTAAAAAATTTAAA
1 ATTTTTTAAT-AAAATAAATTTATAATTAATATAAATGATATTAATAAAATTTAAAAAATTTAAA
4162083 TTAAAATTAAA
65 TTAAAATTAAA
4162094 GATGATATCA
Statistics
Matches: 71, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
78 10 0.14
79 15 0.21
80 46 0.65
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (77 bp):
ATTTTTTAATAAAATAAATTTATAATTAATATAAATGATATTAATAAAATTTAAAAAATTTAAAT
TAAAATTAAAAT
Found at i:4162078 original size:40 final size:39
Alignment explanation
Indices: 4161956--4162086 Score: 117
Period size: 40 Copynumber: 3.3 Consensus size: 39
4161946 AATAAAATAT
*
4161956 ATTTATAATTAATATAAATGATATTATTAAAATTTAAGAA
1 ATTTATAATTAATATAAATGATATTATT-AAATTTAAAAA
* * * **
4161996 A-TTATAAATATAAAATTAAA--ATATTTTTTAATAAAAATAA
1 ATTTAT-AAT-TAATA-TAAATGATATTATTAAATTTAAA-AA
*
4162036 ATTTATAATTAATATAAATGATATTAATAAATTTTAAAAA
1 ATTTATAATTAATATAAATGATATTATTAAA-TTTAAAAA
4162076 ATTTA-AATTAA
1 ATTTATAATTAA
4162087 AATTAAAGAT
Statistics
Matches: 71, Mismatches: 12, Indels: 17
0.71 0.12 0.17
Matches are distributed among these distances:
38 4 0.06
39 19 0.27
40 32 0.45
41 12 0.17
42 4 0.06
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (39 bp):
ATTTATAATTAATATAAATGATATTATTAAATTTAAAAA
Found at i:4162235 original size:17 final size:18
Alignment explanation
Indices: 4162208--4162241 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
4162198 TAAATGGCTA
*
4162208 TTTTAATAATTTTAATTT
1 TTTTAATAATTTAAATTT
4162226 TTTTAA-AATTTAAATT
1 TTTTAATAATTTAAATT
4162242 AATATGTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTTAATAATTTAAATTT
Found at i:4162476 original size:2 final size:2
Alignment explanation
Indices: 4162463--4162492 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
4162453 ATGAAATCGG
*
4162463 AT AT AT AC 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
4162493 TAAAGGCAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:4167845 original size:17 final size:16
Alignment explanation
Indices: 4167823--4167864 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
4167813 TCTCATTAAA
4167823 TTTTTAATATTATATT-T
1 TTTTTAATATT-T-TTAT
*
4167840 TTTTTATTATTTTTAT
1 TTTTTAATATTTTTAT
4167856 TTTTTAATA
1 TTTTTAATA
4167865 ATTTATAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 2 0.09
16 10 0.45
17 10 0.45
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTTTAATATTTTTAT
Found at i:4175120 original size:22 final size:22
Alignment explanation
Indices: 4175065--4175139 Score: 91
Period size: 22 Copynumber: 3.5 Consensus size: 22
4175055 TCAAGTGGTA
* * *
4175065 TGTTAGGTAAACATATTAGGTTA
1 TGTTAGGTGAGCATATTAGG-TG
*
4175088 TGTTAGATGAGCATATTAGGTG
1 TGTTAGGTGAGCATATTAGGTG
4175110 TGTTAGGTGAGCATATTA-G-G
1 TGTTAGGTGAGCATATTAGGTG
4175130 TGTTAGGTGA
1 TGTTAGGTGA
4175140 TATGTTAGGT
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
20 11 0.23
21 1 0.02
22 18 0.38
23 17 0.36
ACGTcount: A:0.28, C:0.04, G:0.31, T:0.37
Consensus pattern (22 bp):
TGTTAGGTGAGCATATTAGGTG
Found at i:4175671 original size:34 final size:34
Alignment explanation
Indices: 4175591--4175674 Score: 114
Period size: 34 Copynumber: 2.5 Consensus size: 34
4175581 TAAATTATCT
* * *
4175591 TGCTTACCTAACACATCACCTAACACACCTAATA
1 TGCTCACCTAACACACCACCGAACACACCTAATA
* *
4175625 TGCTCACTTAACATACCACCGAACACACCTAATA
1 TGCTCACCTAACACACCACCGAACACACCTAATA
*
4175659 TGCTCGCCTAACACAC
1 TGCTCACCTAACACAC
4175675 TTAATATGTT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 42 1.00
ACGTcount: A:0.36, C:0.37, G:0.06, T:0.21
Consensus pattern (34 bp):
TGCTCACCTAACACACCACCGAACACACCTAATA
Found at i:4175690 original size:22 final size:22
Alignment explanation
Indices: 4175641--4175682 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
4175631 CTTAACATAC
*
4175641 CACCGAACACACCTAATATGCT
1 CACCTAACACACCTAATATGCT
* *
4175663 CGCCTAACACACTTAATATG
1 CACCTAACACACCTAATATG
4175683 TTTACCTACT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.36, C:0.33, G:0.10, T:0.21
Consensus pattern (22 bp):
CACCTAACACACCTAATATGCT
Found at i:4175728 original size:21 final size:23
Alignment explanation
Indices: 4175695--4175738 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
4175685 TACCTACTAC
4175695 CTAACATACTTAACAAAGATATT
1 CTAACATACTTAACAAAGATATT
*
4175718 CTAA-ATA-TTAATAAAGATATT
1 CTAACATACTTAACAAAGATATT
4175739 TTATATGGGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 13 0.65
22 3 0.15
23 4 0.20
ACGTcount: A:0.50, C:0.11, G:0.05, T:0.34
Consensus pattern (23 bp):
CTAACATACTTAACAAAGATATT
Found at i:4176730 original size:2 final size:2
Alignment explanation
Indices: 4176723--4176748 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4176713 CAAAGCTACA
4176723 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
4176749 CTCAACACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4182313 original size:2 final size:2
Alignment explanation
Indices: 4182308--4182339 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4182298 TGTGTGTGTG
4182308 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4182340 ATAAAAATAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4185063 original size:2 final size:2
Alignment explanation
Indices: 4185056--4185081 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4185046 CTTGGAAAAG
4185056 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
4185082 GTATTTACTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4185402 original size:38 final size:38
Alignment explanation
Indices: 4185350--4185428 Score: 99
Period size: 38 Copynumber: 2.1 Consensus size: 38
4185340 TATTTAGATA
*
4185350 TAAATATTAAATATAATCT-T-TTAAATATATAAAAAATT
1 TAAAAATTAAATAT-ATCTATATTAAATATAT-AAAAATT
* *
4185388 TAAAAATTAAATATATTTATATTAAATATATATAAATT
1 TAAAAATTAAATATATCTATATTAAATATATAAAAATT
4185426 TAA
1 TAA
4185429 TACTCTATCT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
37 3 0.08
38 23 0.64
39 10 0.28
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (38 bp):
TAAAAATTAAATATATCTATATTAAATATATAAAAATT
Found at i:4185430 original size:15 final size:15
Alignment explanation
Indices: 4185391--4185430 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
4185381 AAAAATTTAA
*
4185391 AAATTAAATATATTT
1 AAATTAAATATATAT
*
4185406 ATATTAAATATATAT
1 AAATTAAATATATAT
*
4185421 AAATTTAATA
1 AAATTAAATA
4185431 CTCTATCTCT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AAATTAAATATATAT
Found at i:4186519 original size:2 final size:2
Alignment explanation
Indices: 4186514--4186547 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
4186504 ACACACACAC
4186514 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
4186548 CTTATTTAGA
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4186890 original size:119 final size:119
Alignment explanation
Indices: 4186679--4186912 Score: 441
Period size: 119 Copynumber: 2.0 Consensus size: 119
4186669 TTTGAACTGG
*
4186679 AATGCTTTGACATATTACGAGTACATGAAGAAATGGCACTGCTTAAATAAAAACCAATAAGAAAT
1 AATGCTTTGACATATTACGAGTACATGAAGAAATGGCACTGCTTAAATAAAAAACAATAAGAAAT
*
4186744 TTCGGCCGAATTGATGCTTGAACAACCAAACATAAAGATTTTTTTTTTTTCATA
66 TTCGGCCGAACTGATGCTTGAACAACCAAACATAAAGATTTTTTTTTTTTCATA
4186798 AATGCTTTGACATATTACGAGTACATGAAGAAATGGCACTGCTTAAATAAAAAACAATAAGAAAT
1 AATGCTTTGACATATTACGAGTACATGAAGAAATGGCACTGCTTAAATAAAAAACAATAAGAAAT
*
4186863 TTCTGCCGAACTGATGCTTGAACAACCAAACATAAAGATTTTTTTTTTTT
66 TTCGGCCGAACTGATGCTTGAACAACCAAACATAAAGATTTTTTTTTTTT
4186913 TTTTCATAAA
Statistics
Matches: 112, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
119 112 1.00
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.31
Consensus pattern (119 bp):
AATGCTTTGACATATTACGAGTACATGAAGAAATGGCACTGCTTAAATAAAAAACAATAAGAAAT
TTCGGCCGAACTGATGCTTGAACAACCAAACATAAAGATTTTTTTTTTTTCATA
Found at i:4188113 original size:2 final size:2
Alignment explanation
Indices: 4188106--4188154 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
4188096 CATCATCATC
4188106 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
*
4188148 AC AT AT A
1 AT AT AT A
4188155 AAAGAAGTAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:4196099 original size:19 final size:20
Alignment explanation
Indices: 4196072--4196131 Score: 52
Period size: 21 Copynumber: 2.9 Consensus size: 20
4196062 ATTTAGTTAA
4196072 TTTTA-ATTATTTATATA-G
1 TTTTATATTATTTATATATG
*
4196090 TTTTATATTAAAATTATTATATG
1 TTTTATATT--ATTTA-TATATG
*
4196113 TTATATATTATATTATATA
1 TTTTATATTAT-TTATATA
4196132 AATTATATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
18 5 0.15
19 3 0.09
21 9 0.27
22 7 0.21
23 9 0.27
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.58
Consensus pattern (20 bp):
TTTTATATTATTTATATATG
Found at i:4196119 original size:23 final size:25
Alignment explanation
Indices: 4196076--4196122 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 25
4196066 AGTTAATTTT
*
4196076 AATTATTTATATAGTTTTATATTAA
1 AATTATTTATATAGTTATATATTAA
4196101 AATTA-TTATAT-GTTATATATTA
1 AATTATTTATATAGTTATATATTA
4196123 TATTATATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 10 0.48
24 6 0.29
25 5 0.24
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.55
Consensus pattern (25 bp):
AATTATTTATATAGTTATATATTAA
Found at i:4196121 original size:14 final size:14
Alignment explanation
Indices: 4196077--4196139 Score: 51
Period size: 14 Copynumber: 4.5 Consensus size: 14
4196067 GTTAATTTTA
4196077 ATTAT-TTATATAGT
1 ATTATATTATATA-T
* *
4196091 TTTATATTA-AAATT
1 ATTATATTATATA-T
4196105 ATTATATGT-TATAT
1 ATTATAT-TATATAT
*
4196119 ATTATATTATATAA
1 ATTATATTATATAT
4196133 ATTATAT
1 ATTATAT
4196140 AAGTTGATTA
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
13 1 0.03
14 32 0.82
15 6 0.15
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (14 bp):
ATTATATTATATAT
Found at i:4199168 original size:5 final size:5
Alignment explanation
Indices: 4199158--4199185 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
4199148 ATTTATATTA
4199158 AATAT AATAT AATAT AATAT AATAT AAT
1 AATAT AATAT AATAT AATAT AATAT AAT
4199186 TTTTTAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
AATAT
Found at i:4200765 original size:2 final size:2
Alignment explanation
Indices: 4200758--4200805 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
4200748 TCACTTCCTT
4200758 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4200800 TA -A TA T
1 TA TA TA T
4200806 TAGCTCTCAT
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4208575 original size:17 final size:18
Alignment explanation
Indices: 4208537--4208578 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 18
4208527 TTAAAATTAT
4208537 TTTTTATATTATTTATTTA
1 TTTTTATA-TATTTATTTA
4208556 TTTTTATA-ATTT-TTTA
1 TTTTTATATATTTATTTA
*
4208572 ATTTTAT
1 TTTTTAT
4208579 CTAATAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 10 0.45
17 4 0.18
19 8 0.36
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTTATATATTTATTTA
Found at i:4208655 original size:25 final size:24
Alignment explanation
Indices: 4208594--4208657 Score: 62
Period size: 25 Copynumber: 2.7 Consensus size: 24
4208584 AAAAAATTAA
*
4208594 ATTTAAAATAATAATT--TTAAAAT
1 ATTTAAAAT-TTAATTAATTAAAAT
* *
4208617 -TTTAAAAATAAATTAATTAAAATT
1 ATTTAAAATTTAATTAATTAAAA-T
4208641 ATTTAAAATTTAATTAA
1 ATTTAAAATTTAATTAA
4208658 AAAATAATTA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
21 4 0.12
22 7 0.22
23 6 0.19
24 1 0.03
25 14 0.44
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (24 bp):
ATTTAAAATTTAATTAATTAAAAT
Found at i:4208659 original size:11 final size:10
Alignment explanation
Indices: 4208626--4208659 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
4208616 TTTTAAAAAT
4208626 AAATTAATTA
1 AAATTAATTA
*
4208636 AAATTATTTA
1 AAATTAATTA
4208646 AAATTTAATTA
1 AAA-TTAATTA
4208657 AAA
1 AAA
4208660 AATAATTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
AAATTAATTA
Found at i:4211464 original size:2 final size:2
Alignment explanation
Indices: 4211457--4211494 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
4211447 TAGTTAAAAC
4211457 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
4211495 CTCCAGCTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4219388 original size:19 final size:17
Alignment explanation
Indices: 4219366--4219414 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 17
4219356 TAGTAAATAA
4219366 AAAAAATATTAATAGTATT
1 AAAAAATATTAA-A-TATT
4219385 AAAAAATTATATAAATATT
1 AAAAAA-TAT-TAAATATT
4219404 AATAAAATATT
1 AA-AAAATATT
4219415 GAGATATTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
18 1 0.04
19 15 0.56
20 8 0.30
21 3 0.11
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (17 bp):
AAAAAATATTAAATATT
Found at i:4219396 original size:22 final size:21
Alignment explanation
Indices: 4219355--4219410 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
4219345 TTTAAAAATT
*
4219355 ATAGTAAATAAAAAAAATATTA
1 ATAGT-AATAAAAAAAATATAA
* *
4219377 ATAGTATTAAAAAATTATATAA
1 ATAGTAATAAAAAA-AATATAA
*
4219399 ATATTAATAAAA
1 ATAGTAATAAAA
4219411 TATTGAGATA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
21 8 0.29
22 20 0.71
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (21 bp):
ATAGTAATAAAAAAAATATAA
Found at i:4219423 original size:38 final size:38
Alignment explanation
Indices: 4219348--4219423 Score: 93
Period size: 38 Copynumber: 2.0 Consensus size: 38
4219338 TTTGTATTTT
*
4219348 AAAAATTATAGTAAATAAAAAAAATATTAATAGTATTA
1 AAAAATTATAGTAAATAAAAAAAATATTAAGAGTATTA
* *
4219386 AAAAATTATA-TAAATATTAATAAAATATTGAGA-TATTA
1 AAAAATTATAGTAAATA--AAAAAAATATTAAGAGTATTA
4219424 TATAATATGA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
37 6 0.18
38 15 0.45
39 12 0.36
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (38 bp):
AAAAATTATAGTAAATAAAAAAAATATTAAGAGTATTA
Found at i:4219615 original size:14 final size:14
Alignment explanation
Indices: 4219596--4219646 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
4219586 TAAAAATTTG
*
4219596 TAAAATATAAAAAA
1 TAAAATATAAAAAT
* **
4219610 TAAAATATTAATTT
1 TAAAATATAAAAAT
4219624 TAATAATATAAAAAT
1 TAA-AATATAAAAAT
4219639 TAAAATAT
1 TAAAATAT
4219647 TTTTTATTAT
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
14 18 0.62
15 11 0.38
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
TAAAATATAAAAAT
Found at i:4219632 original size:29 final size:29
Alignment explanation
Indices: 4219590--4219668 Score: 92
Period size: 29 Copynumber: 2.7 Consensus size: 29
4219580 TATTTTTAAA
4219590 AATTTGTAA-AATATAAAAAATAAAATATT
1 AATTT-TAATAATATAAAAAATAAAATATT
*
4219619 AATTTTAATAATATAAAAATTAAAATATT
1 AATTTTAATAATATAAAAAATAAAATATT
*
4219648 --TTTTATTATTATATAAAAAAT
1 AATTTTA--ATAATATAAAAAAT
4219669 TTCAATAAAC
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
27 5 0.11
28 3 0.07
29 36 0.82
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (29 bp):
AATTTTAATAATATAAAAAATAAAATATT
Found at i:4224686 original size:17 final size:17
Alignment explanation
Indices: 4224664--4224696 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
4224654 TAAATGTTAA
4224664 ATATTGATATATATTTG
1 ATATTGATATATATTTG
*
4224681 ATATTGTTATATATTT
1 ATATTGATATATATTT
4224697 TTTAAAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.58
Consensus pattern (17 bp):
ATATTGATATATATTTG
Found at i:4233822 original size:32 final size:33
Alignment explanation
Indices: 4233756--4233831 Score: 95
Period size: 34 Copynumber: 2.3 Consensus size: 33
4233746 AATAGTATTA
4233756 ATAT-AATATAAATATAAAAATATATAAAATTTT
1 ATATAAATA-AAATATAAAAATATATAAAATTTT
* *
4233789 ATATAACATAAAATATTAATATAT-TAAAA-TTT
1 ATATAA-ATAAAATATAAAAATATATAAAATTTT
4233821 ATATAAATAAA
1 ATATAAATAAA
4233832 TAATATTTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
31 5 0.13
32 9 0.23
33 9 0.23
34 13 0.33
35 3 0.08
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (33 bp):
ATATAAATAAAATATAAAAATATATAAAATTTT
Found at i:4233837 original size:33 final size:34
Alignment explanation
Indices: 4233756--4233838 Score: 95
Period size: 32 Copynumber: 2.6 Consensus size: 34
4233746 AATAGTATTA
* **
4233756 ATATAATATAAAT-ATAAAAATATATAAAATTTT
1 ATATAACATAAATAATATTAATATATAAAATTTT
4233789 ATATAACAT-AA-AATATTAATATATTAAAA-TTT
1 ATATAACATAAATAATATTAATATA-TAAAATTTT
4233821 ATATAA-ATAAATAATATT
1 ATATAACATAAATAATATT
4233839 TTAAATATGA
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
31 2 0.05
32 22 0.51
33 19 0.44
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (34 bp):
ATATAACATAAATAATATTAATATATAAAATTTT
Found at i:4233881 original size:25 final size:28
Alignment explanation
Indices: 4233822--4233893 Score: 66
Period size: 25 Copynumber: 2.8 Consensus size: 28
4233812 TTAAAATTTA
*
4233822 TATAAATAAATAATATTTTAAATATGAT
1 TATAAATAAATAATATTATAAATATGAT
* *
4233850 CAT-AATAAA-AA-ATTATGAATATG-T
1 TATAAATAAATAATATTATAAATATGAT
*
4233874 TATAAATATATAA-A-TATAAA
1 TATAAATAAATAATATTATAAA
4233894 AATATTTTAA
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
24 3 0.08
25 20 0.56
26 5 0.14
27 6 0.17
28 2 0.06
ACGTcount: A:0.57, C:0.01, G:0.04, T:0.38
Consensus pattern (28 bp):
TATAAATAAATAATATTATAAATATGAT
Found at i:4235821 original size:8 final size:8
Alignment explanation
Indices: 4235808--4235833 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
4235798 TCAAAGATGA
4235808 GCACTTGG
1 GCACTTGG
4235816 GCACTTGG
1 GCACTTGG
4235824 GCACTTGG
1 GCACTTGG
4235832 GC
1 GC
4235834 TTAAATTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.12, C:0.27, G:0.38, T:0.23
Consensus pattern (8 bp):
GCACTTGG
Found at i:4246139 original size:27 final size:28
Alignment explanation
Indices: 4246073--4246139 Score: 68
Period size: 27 Copynumber: 2.4 Consensus size: 28
4246063 TATTAATTGT
*
4246073 ATAAGATATATATTTAAATATAAATATAA
1 ATAA-ATATATTTTTAAATATAAATATAA
* *
4246102 A-ATATAAATTTTTAAATATATAA-A-AA
1 ATAAATATATTTTTAAATATA-AATATAA
4246128 ATAAATATATTT
1 ATAAATATATTT
4246140 ATATTCAACA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
26 3 0.10
27 24 0.77
28 3 0.10
29 1 0.03
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.40
Consensus pattern (28 bp):
ATAAATATATTTTTAAATATAAATATAA
Found at i:4246140 original size:25 final size:28
Alignment explanation
Indices: 4246080--4246140 Score: 78
Period size: 27 Copynumber: 2.3 Consensus size: 28
4246070 TGTATAAGAT
4246080 ATATATTTAAATATAAATATAAAATATAA
1 ATATATTTAAATAT-AATATAAAATATAA
4246109 AT-T-TTTAAATAT-ATA-AAAA-ATAA
1 ATATATTTAAATATAATATAAAATATAA
4246132 ATATATTTA
1 ATATATTTA
4246141 TATTCAACAC
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
23 6 0.20
24 5 0.17
25 7 0.23
27 9 0.30
28 1 0.03
29 2 0.07
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (28 bp):
ATATATTTAAATATAATATAAAATATAA
Found at i:4246466 original size:6 final size:6
Alignment explanation
Indices: 4246457--4246482 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
4246447 TCCTTAGACG
4246457 CTGGTT CTGGTT CTGGTT CTGGTT CT
1 CTGGTT CTGGTT CTGGTT CTGGTT CT
4246483 TGTTGGTTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.19, G:0.31, T:0.50
Consensus pattern (6 bp):
CTGGTT
Found at i:4247893 original size:3 final size:3
Alignment explanation
Indices: 4247885--4247919 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
4247875 GCAAAGCCAA
4247885 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
4247920 ATTTCAATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:4255494 original size:33 final size:33
Alignment explanation
Indices: 4255452--4255530 Score: 92
Period size: 33 Copynumber: 2.5 Consensus size: 33
4255442 TTGTTTTTAA
*
4255452 AATATTTTATATATAGATAAA-TTTAAATATATT
1 AATAATTTATATATAGATAAATTTTAAA-ATATT
*
4255485 AATAATTTATAT-TATATAAATTTTAAAATATT
1 AATAATTTATATATAGATAAATTTTAAAATATT
* *
4255517 TAT-ATTTTTATATA
1 AATAATTTATATATA
4255531 ATATTATTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
31 7 0.17
32 16 0.40
33 17 0.43
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (33 bp):
AATAATTTATATATAGATAAATTTTAAAATATT
Found at i:4255545 original size:21 final size:22
Alignment explanation
Indices: 4255513--4255558 Score: 76
Period size: 21 Copynumber: 2.1 Consensus size: 22
4255503 AATTTTAAAA
4255513 TATTTATATTTTTATATAATAT
1 TATTTATATTTTTATATAATAT
*
4255535 TATTT-TATTTTTATATTATAT
1 TATTTATATTTTTATATAATAT
4255556 TAT
1 TAT
4255559 ATAATTATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (22 bp):
TATTTATATTTTTATATAATAT
Found at i:4274192 original size:2 final size:2
Alignment explanation
Indices: 4274185--4274218 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
4274175 TTCTTCGTCA
*
4274185 AT AT AT AT AT AT AT AT AT AT AT AT AT AT CT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4274219 TAATTTACGG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4274575 original size:2 final size:2
Alignment explanation
Indices: 4274568--4274595 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4274558 TTCTTTCAGT
4274568 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4274596 ATCATACCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4281166 original size:2 final size:2
Alignment explanation
Indices: 4281159--4281196 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
4281149 ACATTTCCCT
4281159 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
4281197 CTGACATGGG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:4281658 original size:18 final size:18
Alignment explanation
Indices: 4281635--4281671 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
4281625 AGGGTTTTTT
4281635 GAATTGTTCGTTTACTTC
1 GAATTGTTCGTTTACTTC
4281653 GAATTGTTCGTTTACTTC
1 GAATTGTTCGTTTACTTC
4281671 G
1 G
4281672 TTTATGTATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.19, T:0.49
Consensus pattern (18 bp):
GAATTGTTCGTTTACTTC
Found at i:4292515 original size:4 final size:4
Alignment explanation
Indices: 4292498--4292554 Score: 62
Period size: 4 Copynumber: 14.5 Consensus size: 4
4292488 AAGCAACGGT
* * * * *
4292498 AGAA AGAG AGAA AGAA AGAA AGAA AGAA AGAA AGAG AGAG AGAG AGAG
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA
4292546 A-AA AGAA AG
1 AGAA AGAA AG
4292555 TGAAGGATTA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
3 2 0.04
4 46 0.96
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:4293719 original size:21 final size:21
Alignment explanation
Indices: 4293695--4293734 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
4293685 TCACTTGATA
4293695 TAGGGAGGATGTCATTTGACG
1 TAGGGAGGATGTCATTTGACG
4293716 TAGGGAGGATGTCATTTGA
1 TAGGGAGGATGTCATTTGA
4293735 TGCAGCGAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.25, C:0.07, G:0.38, T:0.30
Consensus pattern (21 bp):
TAGGGAGGATGTCATTTGACG
Found at i:4300321 original size:17 final size:16
Alignment explanation
Indices: 4300293--4300334 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
4300283 TGTATGTGGA
*
4300293 TATATATTTAATTATATT
1 TATATTTTTAA-TA-ATT
4300311 TA-ATTTTTAATAATT
1 TATATTTTTAATAATT
4300326 TATATTTTT
1 TATATTTTT
4300335 TTTTTACAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 5 0.23
16 8 0.36
17 7 0.32
18 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TATATTTTTAATAATT
Found at i:4300550 original size:2 final size:2
Alignment explanation
Indices: 4300543--4300581 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
4300533 AAAAATACTT
*
4300543 TA TA TA TA TA TA TA TA TA TA TT TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4300582 TTCCTTTGTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:4305370 original size:27 final size:27
Alignment explanation
Indices: 4305340--4305392 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
4305330 ATTAGATATA
4305340 AATATTTTTAAAAAATTAAAATAAGTG
1 AATATTTTTAAAAAATTAAAATAAGTG
4305367 AATATTTTTAAAAAATTAAAATAAGT
1 AATATTTTTAAAAAATTAAAATAAGT
4305393 TTGTTTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.38
Consensus pattern (27 bp):
AATATTTTTAAAAAATTAAAATAAGTG
Found at i:4305994 original size:65 final size:66
Alignment explanation
Indices: 4305892--4306027 Score: 188
Period size: 69 Copynumber: 2.1 Consensus size: 66
4305882 CTTTACTCTA
* * *
4305892 CGTACGCCACCTACTTTTTTTTTAT-C-TA-TACAGCATGCATGCATGCATGTAAGCAATTTTAT
1 CGTACGCCACCTACTTTCTTTTCATCCATACAACAGCATGCATGCATGCATGTAAGCAATTTTAT
4305954 T
66 T
*
4305955 CGTACTCCAACCTACTTTCCTTTTCATCCATACAACATGCATGCATGCATGCATGTAAGCAATTT
1 CGTACGCC-ACCTACTTT-CTTTTCATCCATACAACA-GCATGCATGCATGCATGTAAGCAATTT
4306020 TATT
63 TATT
4306024 CGTA
1 CGTA
4306028 TTTGCAGTCT
Statistics
Matches: 63, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
63 7 0.11
64 9 0.14
65 6 0.10
66 1 0.02
67 2 0.03
68 3 0.05
69 35 0.56
ACGTcount: A:0.26, C:0.25, G:0.12, T:0.37
Consensus pattern (66 bp):
CGTACGCCACCTACTTTCTTTTCATCCATACAACAGCATGCATGCATGCATGTAAGCAATTTTAT
T
Found at i:4312431 original size:28 final size:28
Alignment explanation
Indices: 4312364--4312434 Score: 76
Period size: 28 Copynumber: 2.5 Consensus size: 28
4312354 TTTGATTTAA
4312364 TTTAAATTAATTATAATAAAATAATATTT
1 TTTAAATTAATT-TAATAAAATAATATTT
* *
4312393 TATTTAA--AATTTAATTATAATAA-ATTT
1 T-TTAAATTAATTTAA-TAAAATAATATTT
4312420 TTTAAATTAATTTAA
1 TTTAAATTAATTTAA
4312435 ATTTAAAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
26 4 0.11
27 8 0.23
28 18 0.51
29 1 0.03
30 4 0.11
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (28 bp):
TTTAAATTAATTTAATAAAATAATATTT
Found at i:4313153 original size:18 final size:17
Alignment explanation
Indices: 4313099--4313153 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
4313089 AGATTAAATA
* *
4313099 TTTATTATATATATATTT
1 TTTATT-TATTTATAATT
*
4313117 TTTATTTATTTAAATATT
1 TTTATTTATTTATA-ATT
4313135 TTTATTTATTTTATAATT
1 TTTATTTA-TTTATAATT
4313153 T
1 T
4313154 AAAATTAATC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
17 6 0.19
18 20 0.65
19 5 0.16
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTATTTATTTATAATT
Found at i:4313942 original size:30 final size:29
Alignment explanation
Indices: 4313885--4313976 Score: 87
Period size: 31 Copynumber: 3.0 Consensus size: 29
4313875 AAAAAATATT
*
4313885 AAAAA-TATCATATTAAATATAACATAAATA
1 AAAAATTAT-ATATTAAATAT-ATATAAATA
4313915 AAAAATTATATATTCAAATATATATAAAATA
1 AAAAATTATATATT-AAATATATAT-AAATA
* * *
4313946 AATTATTTATATATTAAAATTTATATAAATA
1 AA-AAATTATATATT-AAATATATATAAATA
4313977 TATAATATAT
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
30 13 0.25
31 21 0.40
32 19 0.36
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (29 bp):
AAAAATTATATATTAAATATATATAAATA
Found at i:4313995 original size:14 final size:14
Alignment explanation
Indices: 4313880--4314028 Score: 58
Period size: 16 Copynumber: 10.2 Consensus size: 14
4313870 GATAAAAAAA
*
4313880 ATATTAAAAAT-AT
1 ATATTAAATATAAT
4313893 CATATTAAATATAACAT
1 -ATATTAAATAT-A-AT
* * * *
4313910 AAATAAAAAATTAT
1 ATATTAAATATAAT
4313924 ATATTCAAATATATAT
1 ATATT-AAATATA-AT
* * *
4313940 AAAATAAATTATTTAT
1 ATATTAAA-TA-TAAT
*
4313956 ATATTAAA-AT-TT
1 ATATTAAATATAAT
*
4313968 ATATAAATATATAAT
1 ATATTAA-ATATAAT
4313983 ATATTAAATATAATT
1 ATATTAAATATAA-T
4313998 ATAATATAAATAATAAT
1 AT-AT-TAAAT-ATAAT
4314015 A-A--AAATATAAT
1 ATATTAAATATAAT
4314026 ATA
1 ATA
4314029 AATATAAATA
Statistics
Matches: 102, Mismatches: 18, Indels: 32
0.67 0.12 0.21
Matches are distributed among these distances:
11 6 0.06
12 12 0.12
13 2 0.02
14 24 0.24
15 19 0.19
16 25 0.25
17 10 0.10
18 4 0.04
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (14 bp):
ATATTAAATATAAT
Found at i:4314009 original size:6 final size:6
Alignment explanation
Indices: 4313968--4314040 Score: 68
Period size: 6 Copynumber: 12.8 Consensus size: 6
4313958 ATTAAAATTT
*
4313968 ATATAA ATATATA ATAT-- AT-TAA ATATAA TTAT-A ATATAA ATA-ATA
1 ATATAA ATATA-A ATATAA ATATAA ATATAA ATATAA ATATAA ATATA-A
*
4314013 ATAAAA ATAT-A ATATAA ATATAA ATATA
1 ATATAA ATATAA ATATAA ATATAA ATATA
4314041 CTAATTTAAC
Statistics
Matches: 56, Mismatches: 3, Indels: 16
0.75 0.04 0.21
Matches are distributed among these distances:
3 1 0.02
4 2 0.04
5 12 0.21
6 35 0.62
7 6 0.11
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (6 bp):
ATATAA
Found at i:4314010 original size:29 final size:28
Alignment explanation
Indices: 4313968--4314038 Score: 88
Period size: 29 Copynumber: 2.3 Consensus size: 28
4313958 ATTAAAATTT
4313968 ATATAAATATATAATATATTAAATATAATTATA
1 ATATAAATA-ATAATA-A--AAATATAA-TATA
4314001 ATATAAATAATAATAAAAATATAATATAA
1 ATATAAATAATAATAAAAATATAATAT-A
4314030 ATATAAATA
1 ATATAAATA
4314039 TACTAATTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
28 3 0.08
29 18 0.49
31 1 0.03
32 6 0.16
33 9 0.24
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (28 bp):
ATATAAATAATAATAAAAATATAATATA
Found at i:4314038 original size:23 final size:23
Alignment explanation
Indices: 4313976--4314038 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 23
4313966 TTATATAAAT
* *
4313976 ATATAATATATTAAATATAATTATA
1 ATATAA-ATA-TAAATAAAAATATA
4314001 ATATAAATA-ATAATAAAAATATA
1 ATATAAATATA-AATAAAAATATA
4314024 ATATAAATATAAATA
1 ATATAAATATAAATA
4314039 TACTAATTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
22 1 0.03
23 23 0.68
24 4 0.12
25 6 0.18
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (23 bp):
ATATAAATATAAATAAAAATATA
Found at i:4314408 original size:17 final size:17
Alignment explanation
Indices: 4314386--4314419 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
4314376 TATAAAAATA
4314386 TATAAAATAATAATTTT
1 TATAAAATAATAATTTT
4314403 TATAAAATAATAATTTT
1 TATAAAATAATAATTTT
4314420 GGGAATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TATAAAATAATAATTTT
Found at i:4314923 original size:2 final size:2
Alignment explanation
Indices: 4314911--4314940 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
4314901 ATTGATGGAA
*
4314911 AT AT GT 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
4314941 CTGATAATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4315938 original size:2 final size:2
Alignment explanation
Indices: 4315927--4315957 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
4315917 TTACACACAC
*
4315927 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4315958 GAAGAGATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:4317161 original size:15 final size:15
Alignment explanation
Indices: 4317120--4317162 Score: 54
Period size: 13 Copynumber: 3.0 Consensus size: 15
4317110 ATTTTAATTA
*
4317120 ATTCGATCAATTTAT
1 ATTCAATCAATTTAT
*
4317135 ATT-AA-AAATTTAT
1 ATTCAATCAATTTAT
4317148 ATTCAATCAATTTAT
1 ATTCAATCAATTTAT
4317163 GTTAATTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
13 10 0.43
14 3 0.13
15 10 0.43
ACGTcount: A:0.42, C:0.09, G:0.02, T:0.47
Consensus pattern (15 bp):
ATTCAATCAATTTAT
Found at i:4320570 original size:67 final size:67
Alignment explanation
Indices: 4320488--4320626 Score: 269
Period size: 67 Copynumber: 2.1 Consensus size: 67
4320478 TATTCGAAGG
4320488 TAAGTATTAGATATTAGTATGAGTCTAAATATATTTAATTTTTTATCAGTTTTTTTCATCTATTT
1 TAAGTATTAGATATTAGTATGAGTCTAAATATATTTAATTTTTTATCAGTTTTTTTCATCTATTT
4320553 GA
66 GA
4320555 TAAGTATTAGATATTAGTATGAGTCTAAATATATTTAATTTTTTATCAGTTTTTTTCATCTATTT
1 TAAGTATTAGATATTAGTATGAGTCTAAATATATTTAATTTTTTATCAGTTTTTTTCATCTATTT
4320620 GA
66 GA
*
4320622 AAAGT
1 TAAGT
4320627 TTTCGAAAGA
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 71 1.00
ACGTcount: A:0.32, C:0.06, G:0.11, T:0.51
Consensus pattern (67 bp):
TAAGTATTAGATATTAGTATGAGTCTAAATATATTTAATTTTTTATCAGTTTTTTTCATCTATTT
GA
Found at i:4324334 original size:108 final size:108
Alignment explanation
Indices: 4324145--4324351 Score: 292
Period size: 108 Copynumber: 1.9 Consensus size: 108
4324135 AAGTTAAAAC
* * * * * *
4324145 CCGAAAGAATTTTTAAAGTGCAATAACTTAATCAAGACATAAAGTAGACTCAGTTTGGTAGTTTC
1 CCGAAAAAATTTTCAAAGTGCAATAACTTAATCAAGACACAAAGTAGACTCAGTTCGGCAGCTTC
* *
4324210 TAAAAATAACTTATTCAAGCTACTTGCATACCAAGTTTTTCTT
66 CAAAAATAACTTATTCAAGCTACTTGCAGACCAAGTTTTTCTT
* *
4324253 CCGAAAAAATTTTCAAAGTGCAATGACTTAATCAAGAGACAAAGT-GAACTCCA-TTCGGCAGCT
1 CCGAAAAAATTTTCAAAGTGCAATAACTTAATCAAGACACAAAGTAG-ACT-CAGTTCGGCAGCT
4324316 TCCAAAAATAACTTATTCAAGCTACTTGCAGACCAA
64 TCCAAAAATAACTTATTCAAGCTACTTGCAGACCAA
4324352 ATTTCTCTCT
Statistics
Matches: 87, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
107 1 0.01
108 84 0.97
109 2 0.02
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.29
Consensus pattern (108 bp):
CCGAAAAAATTTTCAAAGTGCAATAACTTAATCAAGACACAAAGTAGACTCAGTTCGGCAGCTTC
CAAAAATAACTTATTCAAGCTACTTGCAGACCAAGTTTTTCTT
Found at i:4328021 original size:2 final size:2
Alignment explanation
Indices: 4328010--4328041 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
4328000 ATGGAGATAA
4328010 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4328042 ACTCAACTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4328315 original size:36 final size:35
Alignment explanation
Indices: 4328275--4328372 Score: 87
Period size: 36 Copynumber: 2.8 Consensus size: 35
4328265 TGAAGTGACG
*
4328275 ATTTTTTATTAAAAATTTTTAAAAAA-ATTAATAATA
1 ATTTTTTATTAAAAATTTTTAAAAAATA-T-ATAAAA
* *
4328311 ATTTTTCATT-TAAA-TTTTAAAAAATATATAAAA
1 ATTTTTTATTAAAAATTTTTAAAAAATATATAAAA
* *
4328344 ATATTTTA-TAAAAATGTATTTTAAAAATA
1 ATTTTTTATTAAAAAT-T-TTTAAAAAATA
4328373 AAATTTTTTT
Statistics
Matches: 50, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
32 1 0.02
33 14 0.28
34 11 0.22
35 5 0.10
36 19 0.38
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (35 bp):
ATTTTTTATTAAAAATTTTTAAAAAATATATAAAA
Found at i:4328470 original size:15 final size:16
Alignment explanation
Indices: 4328452--4328484 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
4328442 ATAATTTTTA
4328452 ATAATATT-TATATTT
1 ATAATATTATATATTT
*
4328467 ATAATATTATGTATTT
1 ATAATATTATATATTT
4328483 AT
1 AT
4328485 TTTTATATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (16 bp):
ATAATATTATATATTT
Found at i:4328568 original size:32 final size:31
Alignment explanation
Indices: 4328491--4328569 Score: 79
Period size: 32 Copynumber: 2.5 Consensus size: 31
4328481 TTATTTTTAT
* *
4328491 ATAATAAAAATTGTATAATGTATAAATATAAA
1 ATAAT-AAAATTATATAATGTAAAAATATAAA
*
4328523 ATAATATATATTATATAAT-TAAAAATATTAAA
1 ATAATA-AAATTATATAATGTAAAAATA-TAAA
*
4328555 TTAGATAAAATTATA
1 ATA-ATAAAATTATA
4328570 ACCTTAAATT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
31 8 0.21
32 28 0.72
33 3 0.08
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (31 bp):
ATAATAAAATTATATAATGTAAAAATATAAA
Done.