Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 17174986
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 21 of 78
Found at i:4562288 original size:72 final size:75
Alignment explanation
Indices: 4562186--4562338 Score: 206
Period size: 72 Copynumber: 2.1 Consensus size: 75
4562176 TTGAGATTAT
* * *
4562186 TTTTTCTCAAAACTGACTTTGTCTCACTTGAGACTGTTTT-ACTCGAAAGAA-TATTT-ATTTCA
1 TTTTTCTCAAAACAGACTTTGTCTCACTTGAGACCGTTTTCACTCGAAAGAAGCATTTCATTTCA
*
4562248 CTCAAGATTG
66 CTCAAGACTG
* *
4562258 TTTTTCTTAAAACAAGA-TTTGTCTCGCTTGAGACCGTTTTCACTCGAAAGAAGGCATTTCATTT
1 TTTTTCTCAAAAC-AGACTTTGTCTCACTTGAGACCGTTTTCACTCGAAAGAA-GCATTTCATTT
4562322 CACTCAAGACTG
64 CACTCAAGACTG
4562334 TTTTT
1 TTTTT
4562339 TTTATAAAAA
Statistics
Matches: 70, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
72 33 0.47
73 13 0.19
75 4 0.06
76 20 0.29
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.41
Consensus pattern (75 bp):
TTTTTCTCAAAACAGACTTTGTCTCACTTGAGACCGTTTTCACTCGAAAGAAGCATTTCATTTCA
CTCAAGACTG
Found at i:4562408 original size:37 final size:37
Alignment explanation
Indices: 4562355--4562427 Score: 110
Period size: 37 Copynumber: 2.0 Consensus size: 37
4562345 AAAAAAAAAG
* *
4562355 AATTTTGTCTCTCTTGAGATAGTTTCCCTCGAAACAA
1 AATTTTGTCTCCCTTGAGACAGTTTCCCTCGAAACAA
* *
4562392 AATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA
1 AATTTTGTCTCCCTTGAGACAGTTTCCCTCGAAACA
4562428 TAAACATTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.26, C:0.22, G:0.14, T:0.38
Consensus pattern (37 bp):
AATTTTGTCTCCCTTGAGACAGTTTCCCTCGAAACAA
Found at i:4562477 original size:36 final size:35
Alignment explanation
Indices: 4562434--4562518 Score: 98
Period size: 37 Copynumber: 2.3 Consensus size: 35
4562424 AACATAAACA
* * * *
4562434 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAG
1 TTTCCCTTGAAA-AAATTTCGTCTCCCTTGAGACAG
4562470 TTTCCCTTGAAGCAAAATTTCGTCTCCCTTGAGACAG
1 TTTCCCTTGAA--AAAATTTCGTCTCCCTTGAGACAG
*
4562507 TTTCTCTTGAAA
1 TTTCCCTTGAAA
4562519 CATAAACATT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
35 1 0.02
36 11 0.26
37 29 0.69
38 1 0.02
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.40
Consensus pattern (35 bp):
TTTCCCTTGAAAAAATTTCGTCTCCCTTGAGACAG
Found at i:4562592 original size:37 final size:37
Alignment explanation
Indices: 4562551--4562623 Score: 110
Period size: 37 Copynumber: 2.0 Consensus size: 37
4562541 CCTGAAAATG
* * *
4562551 AATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAA
1 AATTTTGTCTCCCTAGAGACAGTTTCCCTTGAAACAA
*
4562588 AATTTTGTCTCCCTAGAGACAGTTTCTCTTGAAACA
1 AATTTTGTCTCCCTAGAGACAGTTTCCCTTGAAACA
4562624 TAAACATTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.38
Consensus pattern (37 bp):
AATTTTGTCTCCCTAGAGACAGTTTCCCTTGAAACAA
Found at i:4562697 original size:102 final size:102
Alignment explanation
Indices: 4562429--4563158 Score: 1157
Period size: 102 Copynumber: 7.2 Consensus size: 102
4562419 CTTGAAACAT
* *
4562429 AAACATTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAGCAAAATTTCGTC
1 AAACATTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTC
4562494 TCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGA
66 TCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGA
4562531 AAACATTTTCCC-TGAAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTG
1 AAACA-TTTCCCTTG-AAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTG
*
4562595 TCTCCCTAGAGACAGTTTCTCTTGAAACATAAACATTGA
64 TCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGA
*
4562634 AAACATTTCCCTTGAAATAAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTC
1 AAACATTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTC
4562699 TCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGA
66 TCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGA
4562736 AAACATTTCCC-TGAAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGT
1 AAACATTTCCCTTG-AAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGT
*
4562800 CTCCAC-AGAGACAGTTTCTCTTGAAACATAAACATTGA
65 CTCC-CTTGAGACAGTTTCTCTTGAAACATAAACATTGA
*
4562838 AAACATTTCCCTTGAAATGAATTTTGTCTATCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTC
1 AAACATTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTC
* * *
4562903 TCCCTAGAGACAGTTTCTGTTGCAACATAAACATTGA
66 TCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGA
* * *
4562940 AAACATTTCCCTTAAAATGAA-TTT-TCTCTCTTAAGATAGTTTCCCTTGAAGCAAAATTTTGTC
1 AAACATTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTC
* * *
4563003 TCCCTTGAAATAGATTCTCTTGAAACATAAACATTGA
66 TCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGA
* * * *
4563040 AACCATTTTCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCCTTGAAGC-GAATTTTGT
1 AAACATTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTT-CCCTTGAAACAAAATTTTGT
* * * *
4563104 TTCCCTTGAGGCAGTTCCTCTTGAAACATAAACTTTGA
65 CTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGA
*
4563142 AAACGTTTCCCTTGAAA
1 AAACATTTCCCTTGAAA
4563159 CACAAAATAT
Statistics
Matches: 583, Mismatches: 35, Indels: 20
0.91 0.05 0.03
Matches are distributed among these distances:
100 85 0.15
101 9 0.02
102 378 0.65
103 111 0.19
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (102 bp):
AAACATTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTC
TCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGA
Found at i:4562700 original size:37 final size:37
Alignment explanation
Indices: 4562639--4562802 Score: 138
Period size: 37 Copynumber: 4.7 Consensus size: 37
4562629 ATTGAAAACA
*
4562639 TTTCCCTTGAAA-TAAATTTTGTCTCTCTTGAGATAG
1 TTTCCCTTGAAACAAAATTTTGTCTCTCTTGAGATAG
* *
4562675 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACAAAATTTTGTCTCTCTTGAGATAG
* * * *
4562712 TTTCTCTTGAAACATAAA--------C-ATTGA-AAACA
1 TTTCCCTTGAAACA-AAATTTTGTCTCTCTTGAGATA-G
*
4562741 TTTCCC-TGAAA-ATGAATTTTGTCTCTCTTGAGATAG
1 TTTCCCTTGAAACA-AAATTTTGTCTCTCTTGAGATAG
4562777 TTTCCCTTGAAACAAAATTTTGTCTC
1 TTTCCCTTGAAACAAAATTTTGTCTC
4562803 CACAGAGACA
Statistics
Matches: 100, Mismatches: 13, Indels: 29
0.70 0.09 0.20
Matches are distributed among these distances:
27 4 0.04
28 7 0.07
29 9 0.09
30 1 0.01
35 1 0.01
36 22 0.22
37 52 0.52
38 4 0.04
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.39
Consensus pattern (37 bp):
TTTCCCTTGAAACAAAATTTTGTCTCTCTTGAGATAG
Found at i:4562816 original size:37 final size:36
Alignment explanation
Indices: 4562755--4562919 Score: 107
Period size: 37 Copynumber: 4.7 Consensus size: 36
4562745 CCTGAAAATG
* * *
4562755 AATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAA
1 AATTTTGTCT-ACTAGAGACAGTTTCCCTTGAAACAA
*
4562792 AATTTTGTCTCCAC-AGAGACAGTTTCTCTTGAAACATA
1 AATTTTGTCT--ACTAGAGACAGTTTCCCTTGAAACA-A
** **
4562830 AACATTG---A--A-A-ACA-TTTCCCTTGAAA-TG
1 AATTTTGTCTACTAGAGACAGTTTCCCTTGAAACAA
* *
4562857 AATTTTGTCTATCTTGAGATAGTTTCCCTTGAAACAA
1 AATTTTGTCTA-CTAGAGACAGTTTCCCTTGAAACAA
*
4562894 AATTTTGTCTCCCTAGAGACAGTTTC
1 AATTTTGTCT-ACTAGAGACAGTTTC
4562920 TGTTGCAACA
Statistics
Matches: 97, Mismatches: 18, Indels: 26
0.69 0.13 0.18
Matches are distributed among these distances:
27 5 0.05
29 11 0.11
30 4 0.04
31 1 0.01
32 1 0.01
33 1 0.01
34 1 0.01
35 2 0.02
36 12 0.12
37 51 0.53
38 8 0.08
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.37
Consensus pattern (36 bp):
AATTTTGTCTACTAGAGACAGTTTCCCTTGAAACAA
Found at i:4565091 original size:16 final size:16
Alignment explanation
Indices: 4565072--4565106 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
4565062 TTGTTTTCAT
* *
4565072 TTTATTTTTATTTTTC
1 TTTATTCTTACTTTTC
4565088 TTTATTCTTACTTTTC
1 TTTATTCTTACTTTTC
4565104 TTT
1 TTT
4565107 TATATTTGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTATTCTTACTTTTC
Found at i:4565107 original size:27 final size:27
Alignment explanation
Indices: 4565065--4565134 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
4565055 TTTTCATTTG
* *
4565065 TTTTCATTTTATTTTTATTTTTCTTT-A
1 TTTT-ATTTTACTTTTATATTTCTTTAA
*
4565092 TTCTTACTTTT-CTTTTATATTTGTTTAA
1 TT-TTA-TTTTACTTTTATATTTCTTTAA
4565120 TTTTATTTTACTTTT
1 TTTTATTTTACTTTT
4565135 GATTCTACTT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
26 4 0.11
27 23 0.64
28 9 0.25
ACGTcount: A:0.16, C:0.09, G:0.01, T:0.74
Consensus pattern (27 bp):
TTTTATTTTACTTTTATATTTCTTTAA
Found at i:4565279 original size:6 final size:6
Alignment explanation
Indices: 4565268--4565313 Score: 51
Period size: 6 Copynumber: 7.8 Consensus size: 6
4565258 TTTTTACTCT
* *
4565268 TTTTTA TTTTTA TTTGT- TTTTTA TTATTT- TATTTA TTTTTA TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TT-TTTA TTTTTA TTTTTA TTTTT
4565314 TATCTAACAC
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
5 7 0.21
6 23 0.70
7 3 0.09
ACGTcount: A:0.15, C:0.00, G:0.02, T:0.83
Consensus pattern (6 bp):
TTTTTA
Found at i:4565296 original size:20 final size:18
Alignment explanation
Indices: 4565267--4565316 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
4565257 CTTTTTACTC
*
4565267 TTTTTTATTTTTATTTGTT
1 TTTTTTA-TTTTATTTATT
4565286 TTTTATTATTTTATTTATT
1 TTTT-TTATTTTATTTATT
*
4565305 TTTATT-TTTTAT
1 TTTTTTATTTTAT
4565317 CTAACACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 6 0.21
18 2 0.07
19 17 0.61
20 3 0.11
ACGTcount: A:0.16, C:0.00, G:0.02, T:0.82
Consensus pattern (18 bp):
TTTTTTATTTTATTTATT
Found at i:4565297 original size:25 final size:25
Alignment explanation
Indices: 4565269--4565316 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
4565259 TTTTACTCTT
*
4565269 TTTTATTT-TTATTTGTTTTTTATTA
1 TTTTATTTATT-TTTATTTTTTATTA
4565294 TTTTATTTATTTTTATTTTTTAT
1 TTTTATTTATTTTTATTTTTTAT
4565317 CTAACACATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 19 0.90
26 2 0.10
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.81
Consensus pattern (25 bp):
TTTTATTTATTTTTATTTTTTATTA
Found at i:4565308 original size:10 final size:10
Alignment explanation
Indices: 4565270--4565311 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
4565260 TTTACTCTTT
4565270 TTTATTTTTA
1 TTTATTTTTA
*
4565280 TTTGTTTTT-
1 TTTATTTTTA
4565289 TATTA-TTTTA
1 T-TTATTTTTA
4565299 TTTATTTTTA
1 TTTATTTTTA
4565309 TTT
1 TTT
4565312 TTTATCTAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
9 8 0.30
10 19 0.70
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.81
Consensus pattern (10 bp):
TTTATTTTTA
Found at i:4567455 original size:31 final size:31
Alignment explanation
Indices: 4567417--4567510 Score: 188
Period size: 31 Copynumber: 3.0 Consensus size: 31
4567407 CCAGCAGGTC
4567417 GGGGATTGAATGGGGAGTAAGTGTAACATTT
1 GGGGATTGAATGGGGAGTAAGTGTAACATTT
4567448 GGGGATTGAATGGGGAGTAAGTGTAACATTT
1 GGGGATTGAATGGGGAGTAAGTGTAACATTT
4567479 GGGGATTGAATGGGGAGTAAGTGTAACATTT
1 GGGGATTGAATGGGGAGTAAGTGTAACATTT
4567510 G
1 G
4567511 TCCACCATGT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 63 1.00
ACGTcount: A:0.29, C:0.03, G:0.39, T:0.29
Consensus pattern (31 bp):
GGGGATTGAATGGGGAGTAAGTGTAACATTT
Found at i:4573123 original size:20 final size:20
Alignment explanation
Indices: 4573098--4573136 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
4573088 TGACATGTAT
4573098 TTAAAT-AAGAGACAATGCAC
1 TTAAATAAAG-GACAATGCAC
4573118 TTAAATAAAGGACAATGCA
1 TTAAATAAAGGACAATGCA
4573137 AGCAAATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 15 0.83
21 3 0.17
ACGTcount: A:0.51, C:0.13, G:0.15, T:0.21
Consensus pattern (20 bp):
TTAAATAAAGGACAATGCAC
Found at i:4573752 original size:16 final size:17
Alignment explanation
Indices: 4573731--4573762 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
4573721 TTTAAATAAA
4573731 ATTTTTAAT-ATTTTAT
1 ATTTTTAATAATTTTAT
4573747 ATTTTTAATAATTTTA
1 ATTTTTAATAATTTTA
4573763 AGATATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
ATTTTTAATAATTTTAT
Found at i:4573768 original size:27 final size:26
Alignment explanation
Indices: 4573730--4573781 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
4573720 ATTTAAATAA
* * *
4573730 AATTTTTAATATTTTATATTTTTAAT
1 AATTTTAAATATTTAAAATTTTTAAT
4573756 AATTTTAAGATATTTAAAATTTTTAA
1 AATTTTAA-ATATTTAAAATTTTTAA
4573782 AAGTATTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (26 bp):
AATTTTAAATATTTAAAATTTTTAAT
Found at i:4577344 original size:3 final size:3
Alignment explanation
Indices: 4577336--4577377 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
4577326 ATATTACAGC
4577336 TAT TAT TAT TAT TAT TAT TA- TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
4577378 TATGCAAGCC
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:4577361 original size:17 final size:17
Alignment explanation
Indices: 4577339--4577373 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
4577329 TTACAGCTAT
4577339 TATTATTATTATTATTA
1 TATTATTATTATTATTA
4577356 TATTATTATTATTATTA
1 TATTATTATTATTATTA
4577373 T
1 T
4577374 TATTTATGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TATTATTATTATTATTA
Found at i:4577361 original size:20 final size:20
Alignment explanation
Indices: 4577336--4577380 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
4577326 ATATTACAGC
4577336 TATTATTATTATTATTATTA
1 TATTATTATTATTATTATTA
4577356 TATTATTATTATTATTATTA
1 TATTATTATTATTATTATTA
4577376 T-TTAT
1 TATTAT
4577381 GCAAGCCAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 4 0.16
20 21 0.84
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
TATTATTATTATTATTATTA
Found at i:4579968 original size:22 final size:22
Alignment explanation
Indices: 4579943--4580008 Score: 89
Period size: 22 Copynumber: 3.0 Consensus size: 22
4579933 ACACTTTTGA
4579943 TTACATAACGTTCTCATCACCC
1 TTACATAACGTTCTCATCACCC
* *
4579965 TTACAAAATGTTCTCATCACCC
1 TTACATAACGTTCTCATCACCC
4579987 TTACATAATCGTTC-CAATCACC
1 TTACATAA-CGTTCTC-ATCACC
4580009 AAATATTTGG
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 28 0.74
23 10 0.26
ACGTcount: A:0.30, C:0.33, G:0.05, T:0.32
Consensus pattern (22 bp):
TTACATAACGTTCTCATCACCC
Found at i:4580268 original size:14 final size:14
Alignment explanation
Indices: 4580251--4580284 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
4580241 AAATTAATTT
4580251 TATTTTTTAAAAAA
1 TATTTTTTAAAAAA
*
4580265 TATTTTTTAGAAAA
1 TATTTTTTAAAAAA
*
4580279 TGTTTT
1 TATTTT
4580285 ACGATGTTTA
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:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (14 bp):
TATTTTTTAAAAAA
Found at i:4580271 original size:20 final size:21
Alignment explanation
Indices: 4580230--4580271 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
4580220 ATTTGAAAAA
*
4580230 TATTTTTTGAAAAATTAATTT
1 TATTTTTTGAAAAAATAATTT
*
4580251 TATTTTTT-AAAAAATATTTT
1 TATTTTTTGAAAAAATAATTT
4580271 T
1 T
4580272 TAGAAAATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (21 bp):
TATTTTTTGAAAAAATAATTT
Found at i:4580423 original size:14 final size:14
Alignment explanation
Indices: 4580404--4580438 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
4580394 AACTTAACAT
4580404 TATTATTTTTAAAA
1 TATTATTTTTAAAA
*
4580418 TATTATTTTTATAA
1 TATTATTTTTAAAA
*
4580432 TTTTATT
1 TATTATT
4580439 AATAAAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TATTATTTTTAAAA
Found at i:4580689 original size:18 final size:18
Alignment explanation
Indices: 4580668--4580702 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4580658 TAATATCTTA
4580668 TATTATTATAATATAATT
1 TATTATTATAATATAATT
* *
4580686 TATTATTTTATTATAAT
1 TATTATTATAATATAAT
4580703 ATTAAAAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TATTATTATAATATAATT
Found at i:4583209 original size:6 final size:6
Alignment explanation
Indices: 4583163--4583200 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
4583153 AAAGAAGGGT
* *
4583163 GGTGGA GGTGGG GGTGGG GGTGGA GGTGGA GGTGGA GG
1 GGTGGA GGTGGA GGTGGA GGTGGA GGTGGA GGTGGA GG
4583201 AGGTGGAGGC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.11, C:0.00, G:0.74, T:0.16
Consensus pattern (6 bp):
GGTGGA
Found at i:4583358 original size:3 final size:3
Alignment explanation
Indices: 4583350--4583380 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
4583340 GGTTGTAGCT
4583350 GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG G
1 GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG G
4583381 GGGAGGGGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.68, T:0.32
Consensus pattern (3 bp):
GTG
Found at i:4584029 original size:2 final size:2
Alignment explanation
Indices: 4584017--4584051 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
4584007 AATTTTAAAA
4584017 AT AT A- 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
4584052 TAAAATATTC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4585506 original size:3 final size:3
Alignment explanation
Indices: 4585493--4585558 Score: 80
Period size: 3 Copynumber: 21.0 Consensus size: 3
4585483 AACATTTTAC
4585493 TTA TTA TTTA TTA TTA TTTA TTA TTA TTA TTA TTA TTA CTTA TTA TT-
1 TTA TTA -TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
*
4585540 TAA TTAA TTA TTA TTA TTA
1 TTA TT-A TTA TTA TTA TTA
4585559 CATTTGTACA
Statistics
Matches: 56, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
2 1 0.02
3 43 0.77
4 12 0.21
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:4585508 original size:10 final size:10
Alignment explanation
Indices: 4585488--4585557 Score: 85
Period size: 10 Copynumber: 7.2 Consensus size: 10
4585478 ACGAAAACAT
4585488 TTTACTTATTA
1 TTTA-TTATTA
4585499 TTTATTATTA
1 TTTATTATTA
4585509 TTTATTATTA
1 TTTATTATTA
4585519 -TTATTATTA
1 TTTATTATTA
4585528 -TTACTTATTA
1 TTTA-TTATTA
4585538 TTTA--ATTA
1 TTTATTATTA
*
4585546 ATTATTATTA
1 TTTATTATTA
4585556 TT
1 TT
4585558 ACATTTGTAC
Statistics
Matches: 53, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
8 7 0.13
9 12 0.23
10 27 0.51
11 7 0.13
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (10 bp):
TTTATTATTA
Found at i:4585525 original size:22 final size:23
Alignment explanation
Indices: 4585493--4585558 Score: 68
Period size: 22 Copynumber: 3.0 Consensus size: 23
4585483 AACATTTTAC
4585493 TTATTATT-TATTATTATTTATTA
1 TTATTATTAT-TTATTATTTATTA
*
4585516 TTATTATTA-TTATTACTTATTA
1 TTATTATTATTTATTATTTATTA
* *
4585538 TT-TAATTAATTATTA-TTATTA
1 TTATTATTATTTATTATTTATTA
4585559 CATTTGTACA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
21 11 0.28
22 20 0.51
23 8 0.21
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (23 bp):
TTATTATTATTTATTATTTATTA
Found at i:4588379 original size:20 final size:21
Alignment explanation
Indices: 4588341--4588382 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
4588331 TTTTTGCTAC
* *
4588341 ATTATATATATTTATTATATT
1 ATTATATATAATTAATATATT
4588362 ATTA-ATATAATTAATATATT
1 ATTATATATAATTAATATATT
4588382 A
1 A
4588383 AACTTTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
ATTATATATAATTAATATATT
Found at i:4590390 original size:19 final size:20
Alignment explanation
Indices: 4590358--4590409 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
4590348 AATGTTAATA
4590358 AAAACAC-A-TTAAATA-TT
1 AAAACACTATTTAAATATTT
4590375 AAAACACTATTTAAATATTT
1 AAAACACTATTTAAATATTT
* *
4590395 AGAACATTATTTAAA
1 AAAACACTATTTAAA
4590410 CAATTAATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
17 7 0.23
18 1 0.03
19 7 0.23
20 15 0.50
ACGTcount: A:0.54, C:0.10, G:0.02, T:0.35
Consensus pattern (20 bp):
AAAACACTATTTAAATATTT
Found at i:4592120 original size:3 final size:3
Alignment explanation
Indices: 4592114--4592149 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
4592104 CCCGTACTCG
4592114 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
4592150 ATGTTCACGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:4593198 original size:3 final size:3
Alignment explanation
Indices: 4593190--4593250 Score: 122
Period size: 3 Copynumber: 20.3 Consensus size: 3
4593180 ATATTATCAA
4593190 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
4593238 ATT ATT ATT ATT A
1 ATT ATT ATT ATT A
4593251 AGTGTGTTTA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:4595494 original size:19 final size:19
Alignment explanation
Indices: 4595455--4595494 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
4595445 TCCTCTTTTT
*
4595455 AAATAATTAATTTGAAGTA
1 AAATAATTAATTTCAAGTA
4595474 AAATAATTAAATTTCAA-TA
1 AAATAATT-AATTTCAAGTA
4595493 AA
1 AA
4595495 TGGATCATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (19 bp):
AAATAATTAATTTCAAGTA
Found at i:4606807 original size:8 final size:8
Alignment explanation
Indices: 4606775--4606862 Score: 73
Period size: 8 Copynumber: 11.5 Consensus size: 8
4606765 TGAAGAAAAA
*
4606775 AAAAAAGG
1 AAAAAATG
*
4606783 AACAAAT-
1 AAAAAATG
4606790 AAAAAGATG
1 AAAAA-ATG
4606799 AAAAAATG
1 AAAAAATG
4606807 AAAAAAATG
1 -AAAAAATG
4606816 --AAAATG
1 AAAAAATG
4606822 AAAAAAATG
1 -AAAAAATG
4606831 -AAAAATG
1 AAAAAATG
4606838 -AAAAA--
1 AAAAAATG
*
4606843 AATAAATG
1 AAAAAATG
4606851 AAAAAATG
1 AAAAAATG
4606859 AAAA
1 AAAA
4606863 GAGAAAAAGG
Statistics
Matches: 66, Mismatches: 5, Indels: 18
0.74 0.06 0.20
Matches are distributed among these distances:
6 10 0.15
7 16 0.24
8 21 0.32
9 19 0.29
ACGTcount: A:0.75, C:0.01, G:0.12, T:0.11
Consensus pattern (8 bp):
AAAAAATG
Found at i:4606811 original size:9 final size:9
Alignment explanation
Indices: 4606786--4606845 Score: 62
Period size: 9 Copynumber: 7.4 Consensus size: 9
4606776 AAAAAGGAAC
4606786 AAAT-AAAA
1 AAATGAAAA
*
4606794 AGATG-AAA
1 AAATGAAAA
4606802 AAATGAAAA
1 AAATGAAAA
4606811 AAATG---A
1 AAATGAAAA
4606817 AAATGAAAA
1 AAATGAAAA
4606826 AAATG--AA
1 AAATGAAAA
4606833 AAATGAAAA
1 AAATGAAAA
4606842 AAAT
1 AAAT
4606846 AAATGAAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 13
0.74 0.03 0.22
Matches are distributed among these distances:
6 6 0.14
7 7 0.16
8 10 0.23
9 20 0.47
ACGTcount: A:0.75, C:0.00, G:0.12, T:0.13
Consensus pattern (9 bp):
AAATGAAAA
Found at i:4606826 original size:16 final size:15
Alignment explanation
Indices: 4606801--4606862 Score: 94
Period size: 15 Copynumber: 4.3 Consensus size: 15
4606791 AAAAGATGAA
4606801 AAAATGAAAAAAATG
1 AAAATGAAAAAAATG
4606816 AAAATGAAAAAAATG
1 AAAATGAAAAAAATG
4606831 AAAAATGAAAAAAAT-
1 -AAAATGAAAAAAATG
4606846 -AAATG-AAAAAATG
1 AAAATGAAAAAAATG
4606859 AAAA
1 AAAA
4606863 GAGAAAAAGG
Statistics
Matches: 44, Mismatches: 0, Indels: 7
0.86 0.00 0.14
Matches are distributed among these distances:
12 7 0.16
13 5 0.11
14 3 0.07
15 15 0.34
16 14 0.32
ACGTcount: A:0.76, C:0.00, G:0.11, T:0.13
Consensus pattern (15 bp):
AAAATGAAAAAAATG
Found at i:4606868 original size:15 final size:14
Alignment explanation
Indices: 4606769--4606870 Score: 66
Period size: 15 Copynumber: 6.9 Consensus size: 14
4606759 TATGCTTGAA
*
4606769 GAAAAA-AAAAAAG
1 GAAAAAGAAAAAAT
*
4606782 GAACAAATAAAAAGAT
1 GAA-AAAGAAAAA-AT
4606798 GAAAAAATGAAAAAAAT
1 G-AAAAA-G-AAAAAAT
*
4606815 GAAAATGAAAAAAAT
1 GAAAAAG-AAAAAAT
4606830 GAAAAATGAAAAAA-
1 GAAAAA-GAAAAAAT
*
4606844 -ATAAATGAAAAAAT
1 GA-AAAAGAAAAAAT
4606858 GAAAAGAGAAAAA
1 GAAAA-AGAAAAA
4606871 GGAGGGTTTG
Statistics
Matches: 72, Mismatches: 6, Indels: 20
0.73 0.06 0.20
Matches are distributed among these distances:
13 11 0.15
14 9 0.12
15 32 0.44
16 10 0.14
17 5 0.07
18 5 0.07
ACGTcount: A:0.75, C:0.01, G:0.14, T:0.10
Consensus pattern (14 bp):
GAAAAAGAAAAAAT
Found at i:4608314 original size:105 final size:105
Alignment explanation
Indices: 4608094--4608348 Score: 332
Period size: 105 Copynumber: 2.4 Consensus size: 105
4608084 CTCGCTTGAG
*
4608094 GGATCGACATTTCCAATGAAGAGTTCATAATGAGAAGAACTCATCATAAAGGAGAAAGTTCATAA
1 GGATCAACATTTCC-A-GAAGAGTTCATAATGAGAAGAACTCATCATAAAGGAGAAAGTTCATAA
* * * * *
4608159 TGAGAAGAACTTGTTCCTTTCAAATTCACCACAGATGGAGGT
64 TGAGAAAAACATGTTCCTTTCAAATCCACCACAAAAGGAGGT
* * * * *
4608201 GAACCAACATTTCCAGAAGAGTTTATAATGAGAAGAACTCGTCCTAAAGGAGAAAGTTCATAATG
1 GGATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCATAAAGGAGAAAGTTCATAATG
* * **
4608266 AGAAAAACATGTT-CTTTCTAAGTCCACCGCAAAAGGATTT
66 AGAAAAACATGTTCCTTTC-AAATCCACCACAAAAGGAGGT
*
4608306 GGATCAACATTTCCAAAAGAGTTCATAATGAGAAGAACTCATC
1 GGATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATC
4608349 CACGAGAAAA
Statistics
Matches: 127, Mismatches: 20, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
104 5 0.04
105 110 0.87
106 1 0.01
107 11 0.09
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.25
Consensus pattern (105 bp):
GGATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCATAAAGGAGAAAGTTCATAATG
AGAAAAACATGTTCCTTTCAAATCCACCACAAAAGGAGGT
Found at i:4608529 original size:3 final size:3
Alignment explanation
Indices: 4608514--4608565 Score: 79
Period size: 3 Copynumber: 17.7 Consensus size: 3
4608504 AGTTAAAAAA
* *
4608514 TAT TAT TA- AAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAG TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4608561 TAT TA
1 TAT TA
4608566 AGTGTGTTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
2 1 0.02
3 43 0.98
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:4610814 original size:19 final size:19
Alignment explanation
Indices: 4610775--4610814 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
4610765 TCCTCTTTTT
*
4610775 AAATAATTAATTTGAAGTA
1 AAATAATTAATTTCAAGTA
4610794 AAATAATTAAATTTCAA-TA
1 AAATAATT-AATTTCAAGTA
4610813 AA
1 AA
4610815 TGGATCATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (19 bp):
AAATAATTAATTTCAAGTA
Found at i:4613797 original size:22 final size:22
Alignment explanation
Indices: 4613766--4613820 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
4613756 TATTTAGTCA
4613766 TACTCTAACAATAATCACAAGG
1 TACTCTAACAATAATCACAAGG
*
4613788 TACTCCAACAATAATCACAAGG
1 TACTCTAACAATAATCACAAGG
*
4613810 CACTCTAACAA
1 TACTCTAACAA
4613821 AAGGTTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.45, C:0.27, G:0.07, T:0.20
Consensus pattern (22 bp):
TACTCTAACAATAATCACAAGG
Found at i:4614192 original size:23 final size:23
Alignment explanation
Indices: 4614166--4614215 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
4614156 TAAGATATTT
4614166 TATCATCTCTTTAACGAAAAAAA
1 TATCATCTCTTTAACGAAAAAAA
4614189 TATCATCTCTTTAACGAAAAAAA
1 TATCATCTCTTTAACGAAAAAAA
4614212 TATC
1 TATC
4614216 TTTATCATCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.46, C:0.18, G:0.04, T:0.32
Consensus pattern (23 bp):
TATCATCTCTTTAACGAAAAAAA
Found at i:4614884 original size:2 final size:2
Alignment explanation
Indices: 4614877--4614901 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4614867 TCTAAATCAT
4614877 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
4614902 TGTTAAACAA
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:4619610 original size:21 final size:21
Alignment explanation
Indices: 4619597--4619656 Score: 111
Period size: 21 Copynumber: 2.9 Consensus size: 21
4619587 ACGAGAAGAG
*
4619597 CATTCATCAAGACGAGAATGT
1 CATTCATCAAGACGAGAATGC
4619618 CATTCATCAAGACGAGAATGC
1 CATTCATCAAGACGAGAATGC
4619639 CATTCATCAAGACGAGAA
1 CATTCATCAAGACGAGAA
4619657 GACCCTTCAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.40, C:0.22, G:0.18, T:0.20
Consensus pattern (21 bp):
CATTCATCAAGACGAGAATGC
Found at i:4619665 original size:21 final size:21
Alignment explanation
Indices: 4619586--4619682 Score: 108
Period size: 21 Copynumber: 4.6 Consensus size: 21
4619576 TCGTACCAAG
*
4619586 GACGAGAAGAGCATTCATCAA
1 GACGAGAAGACCATTCATCAA
*
4619607 GACGAGAATG-TCATTCATCAA
1 GACGAGAA-GACCATTCATCAA
4619628 GACGAGAATG-CCATTCATCAA
1 GACGAGAA-GACCATTCATCAA
* *
4619649 GACGAGAAGACCCTTCATGAA
1 GACGAGAAGACCATTCATCAA
* *
4619670 AATGAGAAGACCA
1 GACGAGAAGACCA
4619683 CATCGCATGG
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
20 1 0.01
21 65 0.97
22 1 0.01
ACGTcount: A:0.41, C:0.21, G:0.22, T:0.16
Consensus pattern (21 bp):
GACGAGAAGACCATTCATCAA
Found at i:4623763 original size:126 final size:125
Alignment explanation
Indices: 4623571--4623824 Score: 357
Period size: 126 Copynumber: 2.0 Consensus size: 125
4623561 AATACCCACA
* * **
4623571 TTGGGGCACGATTGAACCCCCATCATTTTGAAATGACAAGATTCAGACAAAGAAGGCATCAAGAA
1 TTGGGGCACGACTGAACCCACATCATGATGAAATGACAAGATTCAGACAAAGAAGGCATCAAGAA
* * * * *
4623636 TGAGCCTTACAATTTGAGGTGA-TGGGGCATTTTTGAAGGCCCGTACCAGTATGAGATAATG
66 TGAGCCTTACAATTTGAGAT-ATTGAGGCA-TTTTGAAGGCCCGTACCAGAATAAAATAATG
* * **
4623697 TTGGGGCGCGACTGAACCCACATCATGATGAAATGACAAGATTCAGACCAAGAAGGCATTGAGAA
1 TTGGGGCACGACTGAACCCACATCATGATGAAATGACAAGATTCAGACAAAGAAGGCATCAAGAA
*
4623762 TGAGCCTTATAATTTGAGATATTGAGGCATTTTGAAGGCCCGTACCAGAATAAAATAATG
66 TGAGCCTTACAATTTGAGATATTGAGGCATTTTGAAGGCCCGTACCAGAATAAAATAATG
4623822 TTG
1 TTG
4623825 CGACATTAGT
Statistics
Matches: 113, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
125 32 0.28
126 81 0.72
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.24
Consensus pattern (125 bp):
TTGGGGCACGACTGAACCCACATCATGATGAAATGACAAGATTCAGACAAAGAAGGCATCAAGAA
TGAGCCTTACAATTTGAGATATTGAGGCATTTTGAAGGCCCGTACCAGAATAAAATAATG
Found at i:4625165 original size:36 final size:36
Alignment explanation
Indices: 4625000--4625197 Score: 229
Period size: 36 Copynumber: 5.5 Consensus size: 36
4624990 GATTGGAGAA
*
4625000 AAACCATCCTAAGCCTTCACCGGAGAATAGTGAAGC
1 AAACCATCTTAAGCCTTCACCGGAGAATAGTGAAGC
*
4625036 AAACCATCTGAAGCCTTCACCGGAGAATAGTGAAGC
1 AAACCATCTTAAGCCTTCACCGGAGAATAGTGAAGC
* * * *
4625072 AATCAATCTGAAGCCTTCACCGGAAAATAGTGAAGC
1 AAACCATCTTAAGCCTTCACCGGAGAATAGTGAAGC
* * * *
4625108 AAACCATCATAAGTCTTCACCAGAGAGTAGTGAAGC
1 AAACCATCTTAAGCCTTCACCGGAGAATAGTGAAGC
* * *
4625144 AAAGCATCTTAAGTCTTCACC--AAAAGTAGTGAAGC
1 AAACCATCTTAAGCCTTCACCGGAGAA-TAGTGAAGC
* *
4625179 AGATCCATTTTAAGCCTTC
1 A-AACCATCTTAAGCCTTC
4625198 TCAGAAGAGT
Statistics
Matches: 139, Mismatches: 21, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
34 2 0.01
35 10 0.07
36 127 0.91
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.21
Consensus pattern (36 bp):
AAACCATCTTAAGCCTTCACCGGAGAATAGTGAAGC
Found at i:4625194 original size:108 final size:107
Alignment explanation
Indices: 4625000--4625197 Score: 263
Period size: 108 Copynumber: 1.8 Consensus size: 107
4624990 GATTGGAGAA
* * *
4625000 AAACCATCCTAAGCCTTCACCGGAGAATAGTGAAGCAAACCATCTGAAGCCTTCACCGGAGAATA
1 AAACCATCATAAGCCTTCACCAGAGAATAGTGAAGCAAACCATCTGAAGCCTTCACC-GAAAATA
4625065 GTGAAGCAATCAATCTGAAGCCTTCACCGGAAAATAGTGAAGC
65 GTGAAGCAATCAATCTGAAGCCTTCACCGGAAAATAGTGAAGC
* * * * *
4625108 AAACCATCATAAGTCTTCACCAGAGAGTAGTGAAGCAAAGCATCTTAAGTCTTCACC-AAAAGTA
1 AAACCATCATAAGCCTTCACCAGAGAATAGTGAAGCAAACCATCTGAAGCCTTCACCGAAAA-TA
* * *
4625172 GTGAAGCAGATCCATTTTAAGCCTTC
65 GTGAAGCA-ATCAATCTGAAGCCTTC
4625198 TCAGAAGAGT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
106 3 0.04
107 10 0.13
108 64 0.83
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.21
Consensus pattern (107 bp):
AAACCATCATAAGCCTTCACCAGAGAATAGTGAAGCAAACCATCTGAAGCCTTCACCGAAAATAG
TGAAGCAATCAATCTGAAGCCTTCACCGGAAAATAGTGAAGC
Found at i:4625644 original size:51 final size:51
Alignment explanation
Indices: 4625579--4626134 Score: 644
Period size: 51 Copynumber: 10.8 Consensus size: 51
4625569 AAGATTATTT
* * * *
4625579 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTCC
1 GAGTTCTATACTCCCTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
* * * * *
4625630 GAGTTCCATACTCCCTAGAGAAAGAAGGAGCGAACCCGTGTGAAGATATGC
1 GAGTTCTATACTCCCTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
*
4625681 GAGTTCTATACTCCTTAAAG--A-AAGGAGCGAACCCGTTTGAAGA-GATGTC
1 GAGTTCTATACTCCCTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATG-T-TC
* *
4625730 TGAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCAG-TTGAAGATGTTC
1 -GAGTTCTATACTCCCTAAAGAAAGAAGGAGCGAACCC-GTTTGAAGATGTTC
** * ** * *
4625782 GAGTTCTATACTCTTTAAAGAGAGAAGGAGCGAACCCGTAAGAAGAAGATTTTT
1 GAGTTCTATACTCCCTAAAGAAAGAAGGAGCGAACCCGT---TTGAAGATGTTC
*
4625836 GAGTTCTATACTCCCTGAAGAAA-AAGGGAGCGAACCCAG-TTGAAGATGTTC
1 GAGTTCTATACTCCCTAAAGAAAGAA-GGAGCGAACCC-GTTTGAAGATGTTC
* * *
4625887 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCG--TGAAGAGATGTTC
1 GAGTTCTATACTCCCTAAAGAAAGAAGGAGCGAACCCGTTTG-A-AGATGTTC
*
4625938 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTC
1 GAGTTCTATACTCCCTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
* * *
4625989 GAGTTCTATACTCCTTAAAGAAAGAAGTAACGAACCCGTTTGAAGATGTTC
1 GAGTTCTATACTCCCTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
*
4626040 GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGAGATGTTC
1 GAGTTCTATACTCCCTAAAGAAAGAAGGAGCGAACCCGTTTG-A-AGATGTTC
* * * *
4626093 GAGTTCTATACTCCCTAGAGAAATAGGGAGCGAACCCATTTG
1 GAGTTCTATACTCCCTAAAGAAAGAAGGAGCGAACCCGTTTG
4626135 TTGAAGTTTG
Statistics
Matches: 441, Mismatches: 43, Indels: 40
0.84 0.08 0.08
Matches are distributed among these distances:
48 22 0.05
49 4 0.01
50 22 0.05
51 276 0.63
52 6 0.01
53 70 0.16
54 40 0.09
55 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (51 bp):
GAGTTCTATACTCCCTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
Found at i:4626099 original size:257 final size:257
Alignment explanation
Indices: 4625579--4626134 Score: 817
Period size: 257 Copynumber: 2.2 Consensus size: 257
4625569 AAGATTATTT
* *
4625579 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCC-GTTTGAAGATGTCCGAGTTCCATACTC
1 GAGTTCTATACTCCCTAGAGAAAAAGGGAGCGAACCCAGTTTGAAGATGTCCGAGTTCCATACTC
* *
4625643 CCTAGAGAAAGAAGGAGCGAACCCGTGTGAAGATATGCGAGTTCTATACTCCTTAAAGAAAGGAG
66 CCTAGAGAAAGAAGGAGCGAACCCG-GTGAAGAGATGCGAGTTCTATACTCCCTAAAGAAAGGAG
*
4625708 CGAACCCGTTTGAAGAGATGTCTGAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCAGTTG
130 CGAACCCGTTTGAAGAGATGTCTGAGTTCCATACTCCTTAAAGAAAGAAGGAACGAACCCAGTTG
* * * *
4625773 AAGATGTTCGAGTTCTATACTCTTTAAAGAGAGAAGGAGCGAACCCGTAAGAAGAAGATTTTT
195 AAGATGTTCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTAAGAAGAAGATGTTC
*
4625836 GAGTTCTATACTCCCT-GAAGAAAAAGGGAGCGAACCCAG-TTGAAGATGTTCGAGTTCCATACT
1 GAGTTCTATACTCCCTAG-AGAAAAAGGGAGCGAACCCAGTTTGAAGATGTCCGAGTTCCATACT
*
4625899 CCCTAGAGAAAGAGGGAGCGAACCC-GTGAAGAGATGTTCGAGTTCTATACTCCCTAAAGAAAGA
65 CCCTAGAGAAAGAAGGAGCGAACCCGGTGAAGAGATG--CGAGTTCTATACTCCCTAAAG-AA-A
* *
4625963 GGGAGCGAACCCGTTTG-A-AGATGT-TCGAGTTCTATACTCCTTAAAGAAAGAAGTAACGAACC
126 -GGAGCGAACCCGTTTGAAGAGATGTCT-GAGTTCCATACTCCTTAAAGAAAGAAGGAACGAACC
**
4626025 C-GTTTGAAGATGTTCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAG-AGA
189 CAG-TTGAAGATGTTCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTAAGAAGAAGA
4626088 TGTTC
253 TGTTC
*
4626093 GAGTTCTATACTCCCTAGAGAAATAGGGAGCGAACCCA-TTTG
1 GAGTTCTATACTCCCTAGAGAAAAAGGGAGCGAACCCAGTTTG
4626135 TTGAAGTTTG
Statistics
Matches: 272, Mismatches: 16, Indels: 22
0.88 0.05 0.07
Matches are distributed among these distances:
255 10 0.04
256 1 0.00
257 146 0.54
258 97 0.36
259 2 0.01
260 16 0.06
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (257 bp):
GAGTTCTATACTCCCTAGAGAAAAAGGGAGCGAACCCAGTTTGAAGATGTCCGAGTTCCATACTC
CCTAGAGAAAGAAGGAGCGAACCCGGTGAAGAGATGCGAGTTCTATACTCCCTAAAGAAAGGAGC
GAACCCGTTTGAAGAGATGTCTGAGTTCCATACTCCTTAAAGAAAGAAGGAACGAACCCAGTTGA
AGATGTTCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTAAGAAGAAGATGTTC
Found at i:4626173 original size:55 final size:56
Alignment explanation
Indices: 4626079--4626403 Score: 352
Period size: 55 Copynumber: 6.0 Consensus size: 56
4626069 GCGAACCCGT
* * * *
4626079 TTGAAGAGATGTTCGAGT-TCTATACTCCCT-AGAGAAATAGGGAGC-GA-ACCCATTTG
1 TTGAAGA-TTGTTCGAGTCT-TATACTCTCTGAAAGAAATAGGGAGCAGACA-CGA-TTG
*
4626135 TTGAAGTTTGTTCGAGTCTTATACTCTCTGAAAG-AATAGGGAGCAGACACGATTG
1 TTGAAGATTGTTCGAGTCTTATACTCTCTGAAAGAAATAGGGAGCAGACACGATTG
* * * *
4626190 TTGAAGATTATTCAAGTCTCATACTCTCTGAAAG-AATAGGGAGTAGACACGATTG
1 TTGAAGATTGTTCGAGTCTTATACTCTCTGAAAGAAATAGGGAGCAGACACGATTG
* *
4626245 TTGAAGATTGTTCGAGTCTTATACTCTCTG-AAGAAATAGGGGGCAGACGCGATTG
1 TTGAAGATTGTTCGAGTCTTATACTCTCTGAAAGAAATAGGGAGCAGACACGATTG
* * * *
4626300 ATGAAGATTG-T-GGGTCTTATACTCTCTG-AAGAAATAGGGGGCAGACGCGATTG
1 TTGAAGATTGTTCGAGTCTTATACTCTCTGAAAGAAATAGGGAGCAGACACGATTG
* * * *
4626353 ATGAAGATTG-TAG-GTCTTATACTCTCTG-AAGATATAGGGGGCAGACACGAT
1 TTGAAGATTGTTCGAGTCTTATACTCTCTGAAAGAAATAGGGAGCAGACACGAT
4626404 CGTGGAAGCA
Statistics
Matches: 243, Mismatches: 20, Indels: 15
0.87 0.07 0.05
Matches are distributed among these distances:
53 88 0.36
54 5 0.02
55 135 0.56
56 14 0.06
57 1 0.00
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (56 bp):
TTGAAGATTGTTCGAGTCTTATACTCTCTGAAAGAAATAGGGAGCAGACACGATTG
Found at i:4632145 original size:15 final size:14
Alignment explanation
Indices: 4632128--4632154 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
4632118 AAAGATTTAT
4632128 TTTTTTAAAAATAG
1 TTTTTTAAAAATAG
4632142 TTTTTTAAAAATA
1 TTTTTTAAAAATA
4632155 AATTATTCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (14 bp):
TTTTTTAAAAATAG
Found at i:4632291 original size:8 final size:8
Alignment explanation
Indices: 4632278--4632552 Score: 361
Period size: 8 Copynumber: 34.4 Consensus size: 8
4632268 TTTTCCCCAA
*
4632278 ATACATAC
1 ATACACAC
*
4632286 ATACATAC
1 ATACACAC
*
4632294 ATACATAC
1 ATACACAC
*
4632302 ATACATAC
1 ATACACAC
* *
4632310 ATACATAT
1 ATACACAC
* *
4632318 ATATATAC
1 ATACACAC
*
4632326 ATACATAC
1 ATACACAC
* *
4632334 ATACATAT
1 ATACACAC
*
4632342 ATACATAC
1 ATACACAC
*
4632350 ATACATAC
1 ATACACAC
* *
4632358 AGACAGAC
1 ATACACAC
* * *
4632366 AGACAGAT
1 ATACACAC
*
4632374 ATACAGAC
1 ATACACAC
4632382 ATACACAC
1 ATACACAC
4632390 ATACACAC
1 ATACACAC
4632398 ATACACAC
1 ATACACAC
4632406 ATACACAC
1 ATACACAC
4632414 ATACACAC
1 ATACACAC
*
4632422 ATACAAAC
1 ATACACAC
4632430 ATACACAC
1 ATACACAC
4632438 ATACACAC
1 ATACACAC
4632446 ATACACAC
1 ATACACAC
4632454 ATACACAC
1 ATACACAC
4632462 ATACACAC
1 ATACACAC
4632470 ATACACAC
1 ATACACAC
4632478 ATACACAC
1 ATACACAC
4632486 ATACACAC
1 ATACACAC
4632494 ATACACAC
1 ATACACAC
4632502 ATACACAC
1 ATACACAC
4632510 ATACACAC
1 ATACACAC
4632518 ATACACAC
1 ATACACAC
4632526 ATACACAC
1 ATACACAC
4632534 ATACACAC
1 ATACACAC
*
4632542 ATACATAC
1 ATACACAC
4632550 ATA
1 ATA
4632553 TTAAGTAATT
Statistics
Matches: 252, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
8 252 1.00
ACGTcount: A:0.51, C:0.30, G:0.02, T:0.17
Consensus pattern (8 bp):
ATACACAC
Found at i:4633423 original size:59 final size:58
Alignment explanation
Indices: 4633309--4633424 Score: 128
Period size: 59 Copynumber: 2.0 Consensus size: 58
4633299 AAATAGTCCA
* * * *
4633309 ATGAACATTTTATAACTTTTAATAGTCGTGAACTCAACAAAACAATACCCTATAATCG
1 ATGAACATTTTATAACTTTTAATAGTCATAAACTCAACAAAACAACACCCAATAATCG
* **
4633367 ATGAACTATTCTT-TAACTTTTAATAGTCAATAAACTCAA-TAAACAACGTCCAATAATC
1 ATGAAC-ATT-TTATAACTTTTAATAGTC-ATAAACTCAACAAAACAACACCCAATAATC
4633425 AAGAAATCAT
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
58 6 0.12
59 32 0.67
60 10 0.21
ACGTcount: A:0.42, C:0.19, G:0.07, T:0.32
Consensus pattern (58 bp):
ATGAACATTTTATAACTTTTAATAGTCATAAACTCAACAAAACAACACCCAATAATCG
Found at i:4641290 original size:97 final size:97
Alignment explanation
Indices: 4641121--4641314 Score: 273
Period size: 97 Copynumber: 2.0 Consensus size: 97
4641111 AAAGTAGGGT
* * * *
4641121 GGTTTAGACGTACTTGTAAGTAAATCTCCCTATTCGTGCAACACCTTCTTCAGCTCTTCCCACCA
1 GGTTTAGACCTACTCGTAAGCAAATCTCCCTATTCATGCAACACCTTCTTCAGCTCTTCCCACCA
*
4641186 GCCGAATGCTGTTTCCTTTTCTTGGTTATTCG
66 GCCGAATGCTGTTTCCTTTTCTTGATTATTCG
**
4641218 GGTTTAGACCTACTCGTAAGCAAATCTCCCTATTCATGCAACACCTTCTTC-GTCTCTTCTGACC
1 GGTTTAGACCTACTCGTAAGCAAATCTCCCTATTCATGCAACACCTTCTTCAG-CTCTTCCCACC
* ** *
4641282 CGTTGAATGCTGTTTTCTTTTCTTGATTATTCG
65 AGCCGAATGCTGTTTCCTTTTCTTGATTATTCG
4641315 AGGTGATCTT
Statistics
Matches: 85, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
96 1 0.01
97 84 0.99
ACGTcount: A:0.19, C:0.27, G:0.15, T:0.39
Consensus pattern (97 bp):
GGTTTAGACCTACTCGTAAGCAAATCTCCCTATTCATGCAACACCTTCTTCAGCTCTTCCCACCA
GCCGAATGCTGTTTCCTTTTCTTGATTATTCG
Found at i:4642132 original size:6 final size:6
Alignment explanation
Indices: 4642121--4642158 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
4642111 TCCTTTTTAC
*
4642121 TATGTT TATGTT TATGTT TA-GTT TAAGTCT TATGTT TA
1 TATGTT TATGTT TATGTT TATGTT TATGT-T TATGTT TA
4642159 GCAGCTGCTG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
5 5 0.17
6 19 0.66
7 5 0.17
ACGTcount: A:0.21, C:0.03, G:0.16, T:0.61
Consensus pattern (6 bp):
TATGTT
Found at i:4648058 original size:21 final size:20
Alignment explanation
Indices: 4648029--4648072 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
4648019 AATTTGAGGG
*
4648029 TTATAGTTTAAGTCTAGGGTT
1 TTATAGTTTAAGTCCA-GGTT
* *
4648050 TTATGGTTTTAGTCCAGGTT
1 TTATAGTTTAAGTCCAGGTT
4648070 TTA
1 TTA
4648073 GGGGTATGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.20, C:0.07, G:0.23, T:0.50
Consensus pattern (20 bp):
TTATAGTTTAAGTCCAGGTT
Found at i:4651593 original size:23 final size:23
Alignment explanation
Indices: 4651565--4651625 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
4651555 ATTGAACATA
* *
4651565 TAAACGAACGATAAAATGAACAC
1 TAAACGAACGCTAAAATAAACAC
4651588 TAAACGAACGCTAAAATAAACAC
1 TAAACGAACGCTAAAATAAACAC
* *
4651611 TGAATGAACGCTAAA
1 TAAACGAACGCTAAA
4651626 CGAACATTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.54, C:0.18, G:0.13, T:0.15
Consensus pattern (23 bp):
TAAACGAACGCTAAAATAAACAC
Found at i:4651684 original size:24 final size:23
Alignment explanation
Indices: 4651656--4651718 Score: 81
Period size: 24 Copynumber: 2.7 Consensus size: 23
4651646 TCGTAAATGC
4651656 TAAATGAACATGTTCATGAATAT
1 TAAATGAACATGTTCATGAATAT
* **
4651679 ATAAATGAAAATGTTTGTGAATAT
1 -TAAATGAACATGTTCATGAATAT
*
4651703 TAAATGAACATATTCA
1 TAAATGAACATGTTCA
4651719 CGAACAATAT
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
23 12 0.38
24 20 0.62
ACGTcount: A:0.46, C:0.06, G:0.13, T:0.35
Consensus pattern (23 bp):
TAAATGAACATGTTCATGAATAT
Found at i:4654174 original size:7 final size:7
Alignment explanation
Indices: 4654162--4654186 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
4654152 TATTGCCTAT
4654162 AACACTG
1 AACACTG
4654169 AACACTG
1 AACACTG
4654176 AACACTG
1 AACACTG
4654183 AACA
1 AACA
4654187 ATTTTTGCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.48, C:0.28, G:0.12, T:0.12
Consensus pattern (7 bp):
AACACTG
Found at i:4666100 original size:5 final size:6
Alignment explanation
Indices: 4666086--4666122 Score: 58
Period size: 6 Copynumber: 6.2 Consensus size: 6
4666076 AACTAGGACT
4666086 AAAATA AAAATA AAAATA AAAAT- AAAATA AAGAATA A
1 AAAATA AAAATA AAAATA AAAATA AAAATA AA-AATA A
4666123 TAATTAAAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
5 5 0.17
6 19 0.66
7 5 0.17
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:4666184 original size:12 final size:12
Alignment explanation
Indices: 4666085--4666187 Score: 50
Period size: 12 Copynumber: 8.0 Consensus size: 12
4666075 TAACTAGGAC
4666085 TAAAATAAAA-A
1 TAAAATAAAATA
4666096 TAAAAATAAAA-A
1 T-AAAATAAAATA
4666108 TAAAATAAAGA-A
1 TAAAATAAA-ATA
*
4666120 TAATAATTAAAGTA
1 TAA-AA-TAAAATA
*
4666134 CTAAATTAAAAATA
1 -TAAAAT-AAAATA
* **
4666148 TTGAAACTAAAGAGG
1 -T-AAAATAAA-ATA
4666163 TAATAATAAAATA
1 TAA-AATAAAATA
4666176 TAAAATAAAATA
1 TAAAATAAAATA
4666188 AAATAGTGAC
Statistics
Matches: 72, Mismatches: 10, Indels: 19
0.71 0.10 0.19
Matches are distributed among these distances:
11 9 0.12
12 25 0.35
13 9 0.12
14 21 0.29
15 8 0.11
ACGTcount: A:0.68, C:0.02, G:0.06, T:0.24
Consensus pattern (12 bp):
TAAAATAAAATA
Found at i:4667461 original size:37 final size:37
Alignment explanation
Indices: 4667371--4667467 Score: 140
Period size: 37 Copynumber: 2.6 Consensus size: 37
4667361 CATTTTCGTC
4667371 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
4667408 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
** *
4667445 CTACTATTATTTAAACTCCTAAA
1 CTACTAGGATTCAAACTCCTAAA
4667468 GATAAGATCC
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 52 1.00
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.31
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:4667935 original size:19 final size:19
Alignment explanation
Indices: 4667870--4667927 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 19
4667860 TTAACCCTTA
*
4667870 TTATTTATATGTATATATGTAT
1 TTATTTA-AT-TATAT-TTTAT
*
4667892 ATATTTAATTATATTTTAT
1 TTATTTAATTATATTTTAT
4667911 TTATTT-ATTATAATTTT
1 TTATTTAATTAT-ATTTT
4667928 TTTCATTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
18 5 0.16
19 14 0.44
20 5 0.16
21 2 0.06
22 6 0.19
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (19 bp):
TTATTTAATTATATTTTAT
Found at i:4668210 original size:24 final size:25
Alignment explanation
Indices: 4668178--4668268 Score: 69
Period size: 25 Copynumber: 3.6 Consensus size: 25
4668168 TTCTATTTAG
*
4668178 TATTTTATTATATTATACATACATT
1 TATTATATTATATTATACATACATT
* *
4668203 T-TTATATTTATATATATATATATATT
1 TATTATA-TTATAT-TATACATACATT
* **
4668229 TATTATTTTAT-TTATACTATTTATT
1 TATTATATTATATTATAC-ATACATT
*
4668254 TATTTTCATTATATT
1 TATTAT-ATTATATT
4668269 TTTAGTTTCT
Statistics
Matches: 52, Mismatches: 8, Indels: 10
0.74 0.11 0.14
Matches are distributed among these distances:
24 8 0.15
25 19 0.37
26 19 0.37
27 6 0.12
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (25 bp):
TATTATATTATATTATACATACATT
Found at i:4668214 original size:6 final size:6
Alignment explanation
Indices: 4668052--4668244 Score: 63
Period size: 6 Copynumber: 32.8 Consensus size: 6
4668042 TTTCCTAACG
* * *
4668052 TTATAT ATATAT ATATAT TCT-TACT TTAT-T TTAT-T TTATAT TTCTAT
1 TTATAT TTATAT TTATAT T-TATA-T TTATAT TTATAT TTATAT TTATAT
* * * *
4668099 GATTACTAT TT-T-T TTA-GT TAATA- TTATAT GTATAT GTATAT TTAT-T
1 --TTA-TAT TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT
* *
4668145 TT-TCT TT-TAT TTAT-T ATTATTAT TTCTAT TTAGTAT TT-TA- TTATAT
1 TTATAT TTATAT TTATAT -TTA-TAT TTATAT TTA-TAT TTATAT TTATAT
* ** * * *
4668191 TATACAT ACATTT TTATAT TTATAT ATATAT ATATAT TTATTAT TT-TAT
1 T-TATAT TTATAT TTATAT TTATAT TTATAT TTATAT TTA-TAT TTATAT
4668240 TTATA
1 TTATA
4668245 CTATTTATTT
Statistics
Matches: 143, Mismatches: 22, Indels: 44
0.68 0.11 0.21
Matches are distributed among these distances:
4 6 0.04
5 38 0.27
6 70 0.49
7 23 0.16
8 3 0.02
9 3 0.02
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.63
Consensus pattern (6 bp):
TTATAT
Found at i:4668265 original size:22 final size:20
Alignment explanation
Indices: 4668149--4668272 Score: 67
Period size: 21 Copynumber: 5.8 Consensus size: 20
4668139 TTTATTTTTC
4668149 TTTTATTTAT-TA-TTATTA
1 TTTTATTTATATATTTATTA
4668167 TTTCTATTTAGTAT-TTTATTA
1 TTT-TATTTA-TATATTTATTA
* ** * *
4668188 TATTATACATACATTTTTATA
1 TTTTATTTATATATTTAT-TA
4668209 TTTATATATATATATATATTTATTA
1 -TT-T-TAT-T-TATATATTTATTA
4668234 TTTTATTTATACTATTTATTTA
1 TTTTATTTATA-TATTTA-TTA
*
4668256 TTTTCA-TTATATTTTTA
1 TTTT-ATTTATATATTTA
4668273 GTTTCTTTGC
Statistics
Matches: 81, Mismatches: 11, Indels: 25
0.69 0.09 0.21
Matches are distributed among these distances:
18 3 0.04
19 8 0.10
20 13 0.16
21 23 0.28
22 16 0.20
23 3 0.04
24 5 0.06
25 2 0.02
26 8 0.10
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.65
Consensus pattern (20 bp):
TTTTATTTATATATTTATTA
Found at i:4669225 original size:20 final size:20
Alignment explanation
Indices: 4669200--4669243 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
4669190 AAGGGTCTGG
4669200 CAAGCCCAAGGGGGCACCGA
1 CAAGCCCAAGGGGGCACCGA
*
4669220 CAAGCCCAAGGGGGCACCGG
1 CAAGCCCAAGGGGGCACCGA
4669240 CAAG
1 CAAG
4669244 GAGAACTCGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.34, G:0.36, T:0.00
Consensus pattern (20 bp):
CAAGCCCAAGGGGGCACCGA
Found at i:4669346 original size:21 final size:21
Alignment explanation
Indices: 4669322--4669367 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
4669312 ACATTTCCGA
4669322 AACCTAGGATATTTTTACCTT
1 AACCTAGGATATTTTTACCTT
4669343 AACCTAGGATATTTTTACCTT
1 AACCTAGGATATTTTTACCTT
4669364 AACC
1 AACC
4669368 ATGTCTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.30, C:0.22, G:0.09, T:0.39
Consensus pattern (21 bp):
AACCTAGGATATTTTTACCTT
Found at i:4672712 original size:34 final size:34
Alignment explanation
Indices: 4672671--4672742 Score: 92
Period size: 34 Copynumber: 2.1 Consensus size: 34
4672661 AAAAAGGGCA
* *
4672671 AAAACAAAAAAGA-AAAGAAGAAAACAAAAAAAAG
1 AAAACAAAAAAAAGAAAGAACAAAA-AAAAAAAAG
**
4672705 AAAACAAAAAAAAGAAAGAACAAAAATCAAAAAG
1 AAAACAAAAAAAAGAAAGAACAAAAAAAAAAAAG
4672739 AAAA
1 AAAA
4672743 AGGGACAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
34 23 0.70
35 10 0.30
ACGTcount: A:0.82, C:0.07, G:0.10, T:0.01
Consensus pattern (34 bp):
AAAACAAAAAAAAGAAAGAACAAAAAAAAAAAAG
Found at i:4672730 original size:14 final size:14
Alignment explanation
Indices: 4672670--4672721 Score: 70
Period size: 14 Copynumber: 3.6 Consensus size: 14
4672660 CAAAAAGGGC
*
4672670 AAAAACAAAA-AAGA
1 AAAAAGAAAACAA-A
4672684 AAAGAAGAAAACAAA
1 AAA-AAGAAAACAAA
4672699 AAAAAGAAAACAAA
1 AAAAAGAAAACAAA
4672713 AAAAAGAAA
1 AAAAAGAAA
4672722 GAACAAAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
14 23 0.66
15 10 0.29
16 2 0.06
ACGTcount: A:0.85, C:0.06, G:0.10, T:0.00
Consensus pattern (14 bp):
AAAAAGAAAACAAA
Found at i:4672742 original size:28 final size:25
Alignment explanation
Indices: 4672672--4672743 Score: 54
Period size: 28 Copynumber: 2.6 Consensus size: 25
4672662 AAAAGGGCAA
*
4672672 AAACAAAAAAGAAAAGAAGAAAACAAA
1 AAAC-AAAAAGAAAAAAAGAAAAC-AA
* *
4672699 AAAAAGAAAACAAAAAAAAGAAAGAACAA
1 AAACA-AAAA-GAAAAAAAG-AA-AACAA
4672728 AAATCAAAAAGAAAAA
1 AAA-CAAAAAGAAAAA
4672744 GGGACAAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 9
0.71 0.10 0.18
Matches are distributed among these distances:
26 1 0.03
27 7 0.20
28 12 0.34
29 11 0.31
30 4 0.11
ACGTcount: A:0.82, C:0.07, G:0.10, T:0.01
Consensus pattern (25 bp):
AAACAAAAAGAAAAAAAGAAAACAA
Found at i:4674466 original size:106 final size:106
Alignment explanation
Indices: 4674340--4675615 Score: 2014
Period size: 106 Copynumber: 12.0 Consensus size: 106
4674330 ATATCGTGCC
* * * *
4674340 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
4674405 AAATTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
4674446 ACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTTAATAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
4674511 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
4674552 ACTCCAGACAACGTAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
4674617 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* ** * * *
4674658 ACTCAAGACATGGCAAGTTCAACTTCATGATGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
4674723 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
4674764 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
4674829 AATTTCAGAGCCAATTTCAACTTCACAACTAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
4674870 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
4674935 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
4674976 ACTCGAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * *
4675041 AATTTCGGATCCAATTTCAACTTCACAGCGAAAGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
4675082 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
4675147 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
4675188 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
4675253 AATTTCAGAGACAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
4675294 ACTCCAGACAACGCAAGTTCAACTTCAAGATGAAGGGACCGTTGGTTGTCAACAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * *
4675359 AATTTCAGAGTCAATTTCAACTTCACAACGAAGGATATTAG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * *
4675400 ACTCGAGACAACGCAAGTTCAACTTCACGATGAAGGGTCCGCTGGTTGTCAACAAATAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * * * *
4675465 ATTTTCGGAGCCAATTTCAACTTCACAACAAAGGATATTAG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * * *
4675506 ACTCGAGACAACACAAGTTCAACTTCACAATGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * *
4675571 GATTCCAGAGCCAATTTCAACTTCAC-GACGGAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAG-CGAAGGATATTGG
4675612 ACTC
1 ACTC
4675616 GGAACAATAC
Statistics
Matches: 1091, Mismatches: 78, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
106 1091 1.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:4676454 original size:37 final size:37
Alignment explanation
Indices: 4676364--4676460 Score: 131
Period size: 37 Copynumber: 2.6 Consensus size: 37
4676354 CCTTTTCGTC
*
4676364 CTACTAGGATTCAAACTCCTAAAAATATGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
4676401 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
** *
4676438 CTACTATTATTTAAACTCCTAAA
1 CTACTAGGATTCAAACTCCTAAA
4676461 GATAAGATCC
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 51 1.00
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.32
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:4676508 original size:13 final size:13
Alignment explanation
Indices: 4676490--4676526 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
4676480 ATAAATAGTC
*
4676490 ATTGTAACTCACT
1 ATTGTAACACACT
4676503 ATTGTAACACACT
1 ATTGTAACACACT
4676516 ATTGTAACACA
1 ATTGTAACACA
4676527 TTAGTAAGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.38, C:0.22, G:0.08, T:0.32
Consensus pattern (13 bp):
ATTGTAACACACT
Found at i:4677179 original size:24 final size:24
Alignment explanation
Indices: 4677147--4677211 Score: 64
Period size: 22 Copynumber: 2.8 Consensus size: 24
4677137 ATTATTACTA
4677147 TTTAGTATTTTATTATACATAAATT
1 TTTAGTATTTTATTATACAT-AATT
* *
4677172 TTTA-TA-TTT-TTATATATATTT
1 TTTAGTATTTTATTATACATAATT
*
4677193 TTTATTATTTTATTTATAC
1 TTTAGTATTTTA-TTATAC
4677212 TATTTATTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
21 7 0.21
22 9 0.27
23 6 0.18
24 2 0.06
25 9 0.27
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.65
Consensus pattern (24 bp):
TTTAGTATTTTATTATACATAATT
Found at i:4677196 original size:21 final size:21
Alignment explanation
Indices: 4677170--4677239 Score: 72
Period size: 22 Copynumber: 3.3 Consensus size: 21
4677160 TATACATAAA
4677170 TTTTTATATTTTTATATATAT
1 TTTTTATATTTTTATATATAT
*
4677191 TTTTTATTATTTTATTTATACTAT
1 TTTTTA-TATTTT-TATATA-TAT
* *
4677215 TTATT-TATTTTCAT-TATAT
1 TTTTTATATTTTTATATATAT
4677234 TTTTTA
1 TTTTTA
4677240 GTTTCTTTGC
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
19 7 0.17
20 2 0.05
21 7 0.17
22 12 0.30
23 5 0.12
24 7 0.17
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (21 bp):
TTTTTATATTTTTATATATAT
Found at i:4677202 original size:46 final size:43
Alignment explanation
Indices: 4677125--4677241 Score: 116
Period size: 44 Copynumber: 2.7 Consensus size: 43
4677115 TTATTTTTTC
* *
4677125 ATTTA-TTATTTT-ATTATTACTATTTAGTATTTTA-TTATACAT
1 ATTTATTTATTTTCATTA-TATTTTTTAGTATTTTATTTATAC-T
* *
4677167 AAATTT-TTATATTTTTATATATATTTTTTATTATTTTATTTATACT
1 --ATTTATT-TATTTTCAT-TATATTTTTTAGTATTTTATTTATACT
4677213 ATTTATTTATTTTCATTATATTTTTTAGT
1 ATTTATTTATTTTCATTATATTTTTTAGT
4677242 TTCTTTGCTC
Statistics
Matches: 62, Mismatches: 5, Indels: 13
0.77 0.06 0.16
Matches are distributed among these distances:
43 12 0.19
44 17 0.27
45 8 0.13
46 17 0.27
47 8 0.13
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.66
Consensus pattern (43 bp):
ATTTATTTATTTTCATTATATTTTTTAGTATTTTATTTATACT
Found at i:4677234 original size:43 final size:43
Alignment explanation
Indices: 4677125--4677241 Score: 116
Period size: 46 Copynumber: 2.7 Consensus size: 43
4677115 TTATTTTTTC
* *
4677125 ATTTA-TTATTTTATTATTACTATTTAGTATTTTATTATACATAA
1 ATTTATTTATTTTATTA-TATTTTTTAGTATTTTATTATACAT-A
*
4677169 ATTT-TTATATTTTTATATATATTTTTTATTATTTTATTTATAC-T-
1 ATTTATT-TA-TTTTAT-TATATTTTTTAGTATTTTA-TTATACATA
4677213 ATTTATTTATTTTCATTATATTTTTTAGT
1 ATTTATTTATTTT-ATTATATTTTTTAGT
4677242 TTCTTTGCTC
Statistics
Matches: 62, Mismatches: 4, Indels: 15
0.77 0.05 0.19
Matches are distributed among these distances:
43 16 0.26
44 13 0.21
45 4 0.06
46 21 0.34
47 8 0.13
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.66
Consensus pattern (43 bp):
ATTTATTTATTTTATTATATTTTTTAGTATTTTATTATACATA
Found at i:4677239 original size:22 final size:20
Alignment explanation
Indices: 4677126--4677239 Score: 77
Period size: 21 Copynumber: 5.2 Consensus size: 20
4677116 TATTTTTTCA
* *
4677126 TTTATTATTTTATTATTACTA
1 TTTATTATTTTATTA-TATTT
*
4677147 TTTAGTATTTTATTATACATAAATT
1 TTTATTATTTTATTAT--AT---TT
4677172 TTTA-TATTTTTATATATATTT
1 TTTATTA-TTTTAT-TATATTT
* *
4677193 TTTATTATTTTATTTATACTA
1 TTTATTATTTTA-TTATATTT
4677214 TTTATTTATTTTCATTATATTT
1 TTTA-TTATTTT-ATTATATTT
4677236 TTTA
1 TTTA
4677240 GTTTCTTTGC
Statistics
Matches: 75, Mismatches: 7, Indels: 21
0.73 0.07 0.20
Matches are distributed among these distances:
20 1 0.01
21 34 0.45
22 21 0.28
23 1 0.01
24 4 0.05
25 11 0.15
26 3 0.04
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.67
Consensus pattern (20 bp):
TTTATTATTTTATTATATTT
Found at i:4678523 original size:11 final size:11
Alignment explanation
Indices: 4678507--4678557 Score: 54
Period size: 11 Copynumber: 4.8 Consensus size: 11
4678497 TTGTTAATAA
4678507 TAATAATATAT
1 TAATAATATAT
*
4678518 TAATAATATAA
1 TAATAATATAT
4678529 TAAT-AT-TA-
1 TAATAATATAT
*
4678537 TAACAATATTAT
1 TAATAATA-TAT
4678549 TAATAATAT
1 TAATAATAT
4678558 CGAAAAATGA
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
8 3 0.09
9 4 0.12
10 2 0.06
11 17 0.52
12 7 0.21
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (11 bp):
TAATAATATAT
Found at i:4678523 original size:14 final size:14
Alignment explanation
Indices: 4678504--4678556 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
4678494 TTATTGTTAA
4678504 TAATAATAATATAT
1 TAATAATAATATAT
4678518 TAATAATATAATAATAT
1 TAAT-A-ATAAT-ATAT
*
4678535 T-ATAACAATATTAT
1 TAATAATAATA-TAT
4678549 TAATAATA
1 TAATAATA
4678557 TCGAAAAATG
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
13 1 0.03
14 12 0.38
15 7 0.22
16 7 0.22
17 5 0.16
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (14 bp):
TAATAATAATATAT
Found at i:4678544 original size:19 final size:19
Alignment explanation
Indices: 4678506--4678545 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
4678496 ATTGTTAATA
*
4678506 ATAATAATATATTAATAAT
1 ATAATAATATATTAACAAT
4678525 ATAATAATAT-TATAACAAT
1 ATAATAATATAT-TAACAAT
4678544 AT
1 AT
4678546 TATTAATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 1 0.05
19 18 0.95
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (19 bp):
ATAATAATATATTAACAAT
Found at i:4678982 original size:138 final size:138
Alignment explanation
Indices: 4678731--4678989 Score: 312
Period size: 138 Copynumber: 1.9 Consensus size: 138
4678721 ATGTTGATCA
* *
4678731 ATTCCACTGTTCTTCAGGGAAACTTGAATCGAGGTAGATTTATTCCACTAGCACTCAAGGAATAT
1 ATTCCACTATTCTTCAGGGAAACTTGAATCGAGGTAGACTTATTCCACTAGCACTCAAGGAATAT
* * * *
4678796 CAAATATTGGAATATATGAATCTGTTCCGCTTCTTCTTGAAGGAAATATCAGATCTGGAAGGAGA
66 CAAATATTGGAAAAGATGAACCTGTTCCGCTTCTTCTTGAAGGAAATATCAAATCTGGAAGGAGA
4678861 TGTGATTC
131 TGTGATTC
* * * * * *
4678869 ATTCCACTATTTTTCAGGGGAAA-TTGAATTGAGGTAGACTTGTTTCACTTA-CTCTGAAGGGAA
1 ATTCCACTATTCTTCA-GGGAAACTTGAATCGAGGTAGACTTATTCCAC-TAGCACTCAA-GGAA
* *
4678932 TATCAAATCTTGGAAAAGA-GAGACCTGTTCCGCTTAC-TC-TGAAGGGAATATCAAATCT
63 TATCAAATATTGGAAAAGATGA-ACCTGTTCCGCTT-CTTCTTGAAGGAAATATCAAATCT
4678990 TAAGGAATTT
Statistics
Matches: 102, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
138 59 0.58
139 42 0.41
140 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (138 bp):
ATTCCACTATTCTTCAGGGAAACTTGAATCGAGGTAGACTTATTCCACTAGCACTCAAGGAATAT
CAAATATTGGAAAAGATGAACCTGTTCCGCTTCTTCTTGAAGGAAATATCAAATCTGGAAGGAGA
TGTGATTC
Found at i:4679326 original size:228 final size:226
Alignment explanation
Indices: 4678904--4679444 Score: 848
Period size: 228 Copynumber: 2.4 Consensus size: 226
4678894 GAATTGAGGT
4678904 AGACTTGTTTCACTTACTCTGAAGGGAATATCAAATCTTGGAAAAGAGAGACCTGTTCCGCTTAC
1 AGACTTG-TTCACTTACTCTGAAGGGAATATCAAATCTTGGAAAAGAGAGACCTGTTCCGCTTAC
**
4678969 TCTGAAGGGAATATCAAATCTTAAGGAATTTGATCCATTGAATTGGGGCAAACTTGTTCCACTTA
65 TCTGAAGGGAATATCAAATCTTAAGGAATTTGATCCATTGAATCAGGGCAAACTTGTTCCACTTA
* * * *
4679034 CTCTGTAGGGAATATCAAATATTGGAAAAGAGAGACTTGTTCTGCTTACTCTGAAGGGAATATCA
130 CTCTGAACGGAATATCAAATATTGGAAAAGAGAGACATGTTCCGCTTACTCTGAAGGGAATATCA
* *
4679099 GATCTGGGGTAGTTGATCCATTAAATCGGGGC
195 GATCTGGGGGAATTGATCCATTAAATCGGGGC
* *
4679131 AGACTTGTTCAACTTACTCTGAAGGGAATATCAAATCTTGGAAAAGAGAGACCTATTCCGATTAC
1 AGACTTGTTC-ACTTACTCTGAAGGGAATATCAAATCTTGGAAAAGAGAGACCTGTTCCGCTTAC
* * * * * *
4679196 TCTGAAGGAAATATCAGATCTTGAAGGAGTTTGATCCATTTAATCAGGGCAGACTTGTTCCGCTT
65 TCTGAAGGGAATATCAAATCTT-AAGGAATTTGATCCATTGAATCAGGGCAAACTTGTTCCACTT
* *
4679261 ACTCTGAACGGAATATCAAATCTTGGAAAATAGAGACATGTTCCGCTTACTCTGAAGGGAATATC
129 ACTCTGAACGGAATATCAAATATTGGAAAAGAGAGACATGTTCCGCTTACTCTGAAGGGAATATC
*
4679326 AGATCTGGGGGAATTGATCCATTGAATCGGGGC
194 AGATCTGGGGGAATTGATCCATTAAATCGGGGC
* *
4679359 AGACTTGTTCCACTTACTCTGAAGGGAATATCAAATATTGGAAAAGAGAGACATGTTCCGCTTAC
1 AGACTTGTT-CACTTACTCTGAAGGGAATATCAAATCTTGGAAAAGAGAGACCTGTTCCGCTTAC
*
4679424 TCTGAAGGGAATATCATATCT
65 TCTGAAGGGAATATCAAATCT
4679445 GGGGGACTCT
Statistics
Matches: 286, Mismatches: 25, Indels: 5
0.91 0.08 0.02
Matches are distributed among these distances:
226 3 0.01
227 79 0.28
228 203 0.71
229 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (226 bp):
AGACTTGTTCACTTACTCTGAAGGGAATATCAAATCTTGGAAAAGAGAGACCTGTTCCGCTTACT
CTGAAGGGAATATCAAATCTTAAGGAATTTGATCCATTGAATCAGGGCAAACTTGTTCCACTTAC
TCTGAACGGAATATCAAATATTGGAAAAGAGAGACATGTTCCGCTTACTCTGAAGGGAATATCAG
ATCTGGGGGAATTGATCCATTAAATCGGGGC
Found at i:4679449 original size:113 final size:113
Alignment explanation
Indices: 4678904--4679450 Score: 797
Period size: 113 Copynumber: 4.8 Consensus size: 113
4678894 GAATTGAGGT
* *
4678904 AGACTTGTTTCACTTACTCTGAAGGGAATATCAAATCTTGGAAAAGAGAGACCTGTTCCGCTTAC
1 AGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAAAAGAGAGACATGTTCCGCTTAC
* *** *
4678969 TCTGAAGGGAATATCAAATCTTAAGGAATTTGATCCATTGAATTGGGGC
66 TCTGAAGGGAATATCAGATCTGGGGGAA-TTGATCCATTGAATCGGGGC
* * * * *
4679018 AAACTTGTTCCACTTACTCTGTAGGGAATATCAAATATTGGAAAAGAGAGACTTGTTCTGCTTAC
1 AGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAAAAGAGAGACATGTTCCGCTTAC
* * *
4679083 TCTGAAGGGAATATCAGATCTGGGGTAGTTGATCCATTAAATCGGGGC
66 TCTGAAGGGAATATCAGATCTGGGGGAATTGATCCATTGAATCGGGGC
* * * *
4679131 AGACTTGTTCAACTTACTCTGAAGGGAATATCAAATCTTGGAAAAGAGAGACCTATTCCGATTAC
1 AGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAAAAGAGAGACATGTTCCGCTTAC
* ** * * *
4679196 TCTGAAGGAAATATCAGATCTTGAAGGAGTTTGATCCATTTAATCAGGGC
66 TCTGAAGGGAATATCAGATC-TGGGGGA-ATTGATCCATTGAATCGGGGC
* * *
4679246 AGACTTGTTCCGCTTACTCTGAACGGAATATCAAATCTTGGAAAATAGAGACATGTTCCGCTTAC
1 AGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAAAAGAGAGACATGTTCCGCTTAC
4679311 TCTGAAGGGAATATCAGATCTGGGGGAATTGATCCATTGAATCGGGGC
66 TCTGAAGGGAATATCAGATCTGGGGGAATTGATCCATTGAATCGGGGC
*
4679359 AGACTTGTTCCACTTACTCTGAAGGGAATATCAAATATTGGAAAAGAGAGACATGTTCCGCTTAC
1 AGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAAAAGAGAGACATGTTCCGCTTAC
*
4679424 TCTGAAGGGAATATCATATCTGGGGGA
66 TCTGAAGGGAATATCAGATCTGGGGGA
4679451 CTCTGAATCG
Statistics
Matches: 384, Mismatches: 47, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
113 199 0.52
114 90 0.23
115 95 0.25
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (113 bp):
AGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAAAAGAGAGACATGTTCCGCTTAC
TCTGAAGGGAATATCAGATCTGGGGGAATTGATCCATTGAATCGGGGC
Found at i:4683931 original size:11 final size:11
Alignment explanation
Indices: 4683914--4683943 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
4683904 CAAAAAAGTA
4683914 AATGCAATGTG
1 AATGCAATGTG
*
4683925 GATGCAATGTG
1 AATGCAATGTG
4683936 AATGCAAT
1 AATGCAAT
4683944 ACAGGGTGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.37, C:0.10, G:0.27, T:0.27
Consensus pattern (11 bp):
AATGCAATGTG
Found at i:4686324 original size:42 final size:40
Alignment explanation
Indices: 4686272--4686349 Score: 95
Period size: 41 Copynumber: 1.9 Consensus size: 40
4686262 AGGACTAAAA
* *
4686272 TAAAATAAAGA-ATAATAATTAAAGTACTAAATTAAAAATAT
1 TAAAATAAAGAGATAATAA-TAAAATA-TAAAATAAAAATAT
*
4686313 TAAAACTAAAGAGGTAATAATAAAATATAAAATAAAA
1 TAAAA-TAAAGAGATAATAATAAAATATAAAATAAAA
4686350 TAAAATAGTG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
41 14 0.44
42 12 0.38
43 6 0.19
ACGTcount: A:0.65, C:0.03, G:0.06, T:0.26
Consensus pattern (40 bp):
TAAAATAAAGAGATAATAATAAAATATAAAATAAAAATAT
Found at i:4686890 original size:32 final size:32
Alignment explanation
Indices: 4686824--4686890 Score: 75
Period size: 32 Copynumber: 2.1 Consensus size: 32
4686814 TAATGGTAGC
** *
4686824 ATTTTATTATTATTTTAATTATTCAATATTTT
1 ATTTTATTATTATTTTAAACATTCAATATATT
4686856 ATTTTATT-TTATTTTAAACATT-AGTATATATT
1 ATTTTATTATTATTTTAAACATTCA--ATATATT
4686888 ATT
1 ATT
4686891 AGGATACATA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
30 1 0.03
31 12 0.40
32 17 0.57
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (32 bp):
ATTTTATTATTATTTTAAACATTCAATATATT
Found at i:4687863 original size:197 final size:199
Alignment explanation
Indices: 4687547--4687921 Score: 736
Period size: 197 Copynumber: 1.9 Consensus size: 199
4687537 TCATGGCCGG
4687547 AAAAAATCAAAATAGCTTAAAATGTAGATCTATTAACCCTCTACCCGAATCCACCCTCTTTTTTT
1 AAAAAATCAAAATAGCTTAAAATGTAGATCTATTAACCCTCTACCCGAATCCACCCTCTTTTTTT
4687612 CCCTAAAAAACTTTAAAACGACCTAGATCTAAGATTTTACCTTCGGTAAAACAACTTTTCCGACA
66 CCCTAAAAAACTTTAAAACGACCTAGATCTAAGATTTTACCTTCGGTAAAACAACTTTTCCGACA
4687677 ACGTTTGGGCTTCGACGAAGGT-AGATCTCCTCTCCTTT-TTCTCCTTCGAGTCACTCGTTCTGC
131 ACGTTTGGGCTTCGACGAAGGTAAGATCTCCTCTCCTTTCTTCTCCTTCGAGTCACTCGTTCTGC
4687740 CGAA
196 CGAA
4687744 AAAAAATCAAAATAGCTTAAAATGTAGATCTATTAACCCTCTACCCGAATCCACCCTCTTTTTTT
1 AAAAAATCAAAATAGCTTAAAATGTAGATCTATTAACCCTCTACCCGAATCCACCCTCTTTTTTT
4687809 CCCTAAAAAACTTTAAAACGACCTAGATCTAAGATTTTACCTTCGGTAAAACAACTTTTCCGACA
66 CCCTAAAAAACTTTAAAACGACCTAGATCTAAGATTTTACCTTCGGTAAAACAACTTTTCCGACA
4687874 ACGTTTGGGCTTCGACGAAGGTAAGATCTCCTCTCCTTTCTTCTCCTT
131 ACGTTTGGGCTTCGACGAAGGTAAGATCTCCTCTCCTTTCTTCTCCTT
4687922 TCGATTTGTT
Statistics
Matches: 176, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
197 152 0.86
198 16 0.09
199 8 0.05
ACGTcount: A:0.31, C:0.26, G:0.11, T:0.32
Consensus pattern (199 bp):
AAAAAATCAAAATAGCTTAAAATGTAGATCTATTAACCCTCTACCCGAATCCACCCTCTTTTTTT
CCCTAAAAAACTTTAAAACGACCTAGATCTAAGATTTTACCTTCGGTAAAACAACTTTTCCGACA
ACGTTTGGGCTTCGACGAAGGTAAGATCTCCTCTCCTTTCTTCTCCTTCGAGTCACTCGTTCTGC
CGAA
Found at i:4688470 original size:3 final size:3
Alignment explanation
Indices: 4688464--4688528 Score: 64
Period size: 3 Copynumber: 22.7 Consensus size: 3
4688454 TTTTTATTGT
* *
4688464 TAA TAA TAA TAA TAA TAA TAA T-A TAT TAA TAA T-A TAA TAA T-A TTA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
4688509 TAA CAA TAT TAT TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TA
4688529 TCGAAAAATG
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
2 6 0.12
3 46 0.88
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:4688495 original size:11 final size:11
Alignment explanation
Indices: 4688464--4688528 Score: 76
Period size: 11 Copynumber: 5.7 Consensus size: 11
4688454 TTTTTATTGT
4688464 TAATAATAATAA
1 TAATAATAAT-A
4688476 TAATAATAATA
1 TAATAATAATA
*
4688487 TATTAATAATA
1 TAATAATAATA
*
4688498 TAATAATATTA
1 TAATAATAATA
* *
4688509 TAACAATATTA
1 TAATAATAATA
4688520 TTAATAATA
1 -TAATAATA
4688529 TCGAAAAATG
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
11 30 0.64
12 17 0.36
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (11 bp):
TAATAATAATA
Found at i:4688504 original size:31 final size:31
Alignment explanation
Indices: 4688466--4688529 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
4688456 TTTATTGTTA
*
4688466 ATAATAATAATAATAATAATA-TATTAATAAT
1 ATAATAAT-ATAATAACAATATTATTAATAAT
*
4688497 ATAATAATATTATAACAATATTATTAATAAT
1 ATAATAATATAATAACAATATTATTAATAAT
4688528 AT
1 AT
4688530 CGAAAAATGA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 10 0.33
31 20 0.67
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (31 bp):
ATAATAATATAATAACAATATTATTAATAAT
Found at i:4688516 original size:19 final size:19
Alignment explanation
Indices: 4688478--4688517 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
4688468 AATAATAATA
*
4688478 ATAATAATATATTAATAAT
1 ATAATAATATATTAACAAT
4688497 ATAATAATAT-TATAACAAT
1 ATAATAATATAT-TAACAAT
4688516 AT
1 AT
4688518 TATTAATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 1 0.05
19 18 0.95
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (19 bp):
ATAATAATATATTAACAAT
Found at i:4688649 original size:60 final size:60
Alignment explanation
Indices: 4688555--4688678 Score: 160
Period size: 60 Copynumber: 2.1 Consensus size: 60
4688545 GACAGTATAC
* * * * * *
4688555 AAATGGTCTCTCAACTATAGGATATTGTTTTGTTGAGTCTTTCAACTATTGAA-AGTTACA
1 AAATAGTCCCTCAACTATAAGACATTATTTTGTTGAGTCTTTCAACTATT-AAGAATTACA
* *
4688615 AAATAGTCCCTCAATTATAAGACATTATTTTGTTGAGTCTTTCGACTATTAAGAATTACA
1 AAATAGTCCCTCAACTATAAGACATTATTTTGTTGAGTCTTTCAACTATTAAGAATTACA
4688675 AAAT
1 AAAT
4688679 GATTATCCGA
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
59 2 0.04
60 53 0.96
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.39
Consensus pattern (60 bp):
AAATAGTCCCTCAACTATAAGACATTATTTTGTTGAGTCTTTCAACTATTAAGAATTACA
Found at i:4689726 original size:21 final size:20
Alignment explanation
Indices: 4689640--4689796 Score: 84
Period size: 21 Copynumber: 7.8 Consensus size: 20
4689630 AAATGACCAA
**
4689640 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
4689659 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
4689679 CAGAATCGCAAATC-AGTTT
1 CAAAATCGCAACGCGATTTT
*
4689698 CCAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
4689719 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
4689740 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
4689760 CAAGAATCGCAACGCGAATAT
1 CAA-AATCGCAACGCGATTTT
*
4689781 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
4689797 ACACATAAAT
Statistics
Matches: 100, Mismatches: 33, Indels: 9
0.70 0.23 0.06
Matches are distributed among these distances:
19 26 0.26
20 29 0.29
21 45 0.45
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:4689825 original size:20 final size:20
Alignment explanation
Indices: 4689764--4689987 Score: 220
Period size: 20 Copynumber: 11.2 Consensus size: 20
4689754 GATTTTCAAG
* ** *
4689764 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
4689784 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
4689804 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
4689824 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
4689844 AATAGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
4689864 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
4689884 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
4689904 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
4689924 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
* *
4689944 AATCGCAATG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
4689964 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
4689984 AATC
1 AATC
4689988 ACACTGAAAT
Statistics
Matches: 169, Mismatches: 29, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
19 2 0.01
20 165 0.98
21 2 0.01
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:4691196 original size:33 final size:32
Alignment explanation
Indices: 4691159--4691390 Score: 126
Period size: 33 Copynumber: 6.7 Consensus size: 32
4691149 GCAACGAGAG
4691159 AATCGCAATGCGAAATGAAAATCCCAACATGAA
1 AATCGCAATGCGAAATGAAAATCCCAA-ATGAA
*
4691192 AATCGCAATGCGGAAATGAAAATCGCAATGCGAATGAA
1 AATCGCAATGC-GAAATGAAAATC-C----CAAATGAA
* * * * *
4691230 AATCGCAACGAGAGAATCG-CAATGCGAAATGAA
1 AATCGCAATGCGA-AAT-GAAAATCCCAAATGAA
4691263 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATC-C----C-AAATGAA
* * * *
4691301 AATCGCAATGAGAGAATCG-CAATGCGAAATGAA
1 AATCGCAATGCGA-AAT-GAAAATCCCAAATGAA
* * * * * **
4691334 AATCGTAACGAGAGAATCACAATGCGGAAATGAA
1 AATCGCAATGCGA-AATGAAAAT-CCCAAATGAA
4691368 AATCGCAATGCGAAATGAAAATC
1 AATCGCAATGCGAAATGAAAATC
4691391 GCATTGCGAT
Statistics
Matches: 154, Mismatches: 26, Indels: 39
0.70 0.12 0.18
Matches are distributed among these distances:
31 1 0.01
32 7 0.05
33 62 0.40
34 30 0.19
35 1 0.01
37 3 0.02
38 40 0.26
39 9 0.06
40 1 0.01
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.15
Consensus pattern (32 bp):
AATCGCAATGCGAAATGAAAATCCCAAATGAA
Found at i:4691266 original size:71 final size:71
Alignment explanation
Indices: 4691187--4691375 Score: 282
Period size: 71 Copynumber: 2.7 Consensus size: 71
4691177 AAATCCCAAC
4691187 ATGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG-AATGAAAATCGCAACGAGAGAATCGCA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCA
4691251 ATGCGAA
65 ATGCGAA
*
4691258 ATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGAGAGAATCGCAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAA
4691323 TGCGAA
66 TGCGAA
* * *
4691329 ATGAAAATCGTAA--CG--A-GAGAATCACAATGCGGAAATGAAAATCGCAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAA
4691376 TGCGAAATGA
Statistics
Matches: 112, Mismatches: 4, Indels: 8
0.90 0.03 0.06
Matches are distributed among these distances:
66 12 0.11
67 17 0.15
69 2 0.02
70 20 0.18
71 61 0.54
ACGTcount: A:0.47, C:0.16, G:0.23, T:0.15
Consensus pattern (71 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAA
TGCGAA
Found at i:4691268 original size:19 final size:19
Alignment explanation
Indices: 4691159--4691399 Score: 254
Period size: 19 Copynumber: 13.7 Consensus size: 19
4691149 GCAACGAGAG
4691159 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
4691178 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
4691192 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
4691212 AATCGCAATGCG-AATGAA
1 AATCGCAATGCGAAATGAA
*
4691230 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
4691244 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
4691263 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
4691282 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
4691301 AATCGCAAT--G--A-GAG
1 AATCGCAATGCGAAATGAA
4691315 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
* *
4691334 AATCGTAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
*
4691348 AATCACAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
4691368 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
4691387 AATCGCATTGCGA
1 AATCGCAATGCGA
4691400 TTCTCGTTGC
Statistics
Matches: 187, Mismatches: 13, Indels: 44
0.77 0.05 0.18
Matches are distributed among these distances:
14 41 0.22
15 3 0.02
16 7 0.04
17 5 0.03
18 16 0.09
19 87 0.47
20 28 0.15
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:4691446 original size:19 final size:19
Alignment explanation
Indices: 4691406--4691503 Score: 134
Period size: 19 Copynumber: 5.4 Consensus size: 19
4691396 GCGATTCTCG
4691406 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
*
4691426 TTGCGATTTGCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
4691445 TTGCGA--TT-ATCTCG--
1 TTGCGATTTTCATTTCGCA
4691459 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
4691478 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
4691497 TTGCGAT
1 TTGCGAT
4691504 AGTCATTTTG
Statistics
Matches: 69, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
14 6 0.09
16 7 0.10
17 6 0.09
19 36 0.52
20 14 0.20
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.45
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:4691495 original size:52 final size:52
Alignment explanation
Indices: 4691389--4691503 Score: 198
Period size: 52 Copynumber: 2.2 Consensus size: 52
4691379 GAAATGAAAA
4691389 TCGCATTGCGA-TTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTGCATT
1 TCGCATTGCGATTTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTGCATT
*
4691440 TCGCATTGCGATTATCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
1 TCGCATTGCGATT-TCTCGTTGCGATTTTCATTTCCGCATTGCGATTTGCATT
4691492 TCGCATTGCGAT
1 TCGCATTGCGAT
4691504 AGTCATTTTG
Statistics
Matches: 61, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
51 11 0.18
52 30 0.49
53 20 0.33
ACGTcount: A:0.15, C:0.23, G:0.19, T:0.43
Consensus pattern (52 bp):
TCGCATTGCGATTTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTGCATT
Found at i:4691641 original size:14 final size:14
Alignment explanation
Indices: 4691608--4691643 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
4691598 TATCAATTAC
4691608 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
4691622 AC-AATCATCTTTT
1 ACAAATCAACTTTT
4691635 ACAAATCAA
1 ACAAATCAA
4691644 TTAAACAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.44, C:0.22, G:0.00, T:0.33
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:4693623 original size:14 final size:14
Alignment explanation
Indices: 4693604--4693675 Score: 54
Period size: 14 Copynumber: 4.6 Consensus size: 14
4693594 GCGAAATGAA
*
4693604 AATCGCAACGACAG
1 AATCGCAACGAAAG
4693618 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
*
4693635 AAAATCGCAACGAGAG
1 --AATCGCAACGAAAG
4693651 AATCGCAACGCGAAATG
1 AATCGCAA--CGAAA-G
4693668 AATCGCAA
1 AATCGCAA
4693676 TGCGATTTGG
Statistics
Matches: 47, Mismatches: 3, Indels: 13
0.75 0.05 0.21
Matches are distributed among these distances:
14 16 0.34
16 9 0.19
17 14 0.30
19 8 0.17
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:4693631 original size:33 final size:33
Alignment explanation
Indices: 4693585--4693669 Score: 152
Period size: 33 Copynumber: 2.6 Consensus size: 33
4693575 GCGAAACCAA
4693585 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGACAG
* *
4693618 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAACGCGAAATGAAAATCGCAACGACAG
4693651 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
4693670 TCGCAATGCG
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 49 1.00
ACGTcount: A:0.46, C:0.21, G:0.22, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGACAG
Found at i:4693642 original size:19 final size:19
Alignment explanation
Indices: 4693548--4693669 Score: 102
Period size: 19 Copynumber: 6.9 Consensus size: 19
4693538 TAGTTTACTT
* *
4693548 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
4693568 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
4693587 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
4693606 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
4693620 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
4693639 TCGCAA--CG--A-GAGAA
1 TCGCAACGCGAAATGAAAA
4693653 TCGCAACGCGAAATGAA
1 TCGCAACGCGAAATGAA
4693670 TCGCAATGCG
Statistics
Matches: 83, Mismatches: 9, Indels: 21
0.73 0.08 0.19
Matches are distributed among these distances:
14 18 0.22
15 1 0.01
16 7 0.08
17 7 0.08
18 1 0.01
19 37 0.45
20 12 0.14
ACGTcount: A:0.46, C:0.24, G:0.20, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:4693721 original size:33 final size:33
Alignment explanation
Indices: 4693676--4693782 Score: 171
Period size: 33 Copynumber: 3.3 Consensus size: 33
4693666 TGAATCGCAA
*
4693676 TGCGA-TTTGGTTTCGCGTTGCGATTTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
4693708 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
** *
4693741 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
4693774 TGCGATTTT
1 TGCGATTTT
4693783 AAGTTCGTGT
Statistics
Matches: 70, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
32 5 0.07
33 65 0.93
ACGTcount: A:0.07, C:0.19, G:0.27, T:0.47
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:4693729 original size:19 final size:18
Alignment explanation
Indices: 4693676--4693766 Score: 81
Period size: 14 Copynumber: 5.4 Consensus size: 18
4693666 TGAATCGCAA
*
4693676 TGCGATTTGGTTTCGCGT
1 TGCGATTTTGTTTCGCGT
4693694 TGCGATTTTG--T--CGT
1 TGCGATTTTGTTTCGCGT
4693708 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-GTTTCGCGT
*
4693727 TGCGATTCTG--T--CGT
1 TGCGATTTTGTTTCGCGT
*
4693741 TGCGATTTTCATTTCGCGT
1 TGCGATTTT-GTTTCGCGT
4693760 TGCGATT
1 TGCGATT
4693767 CTCTCGTTGC
Statistics
Matches: 59, Mismatches: 4, Indels: 19
0.72 0.05 0.23
Matches are distributed among these distances:
14 23 0.39
15 1 0.02
16 2 0.03
17 2 0.03
18 10 0.17
19 21 0.36
ACGTcount: A:0.08, C:0.18, G:0.29, T:0.46
Consensus pattern (18 bp):
TGCGATTTTGTTTCGCGT
Found at i:4693776 original size:14 final size:14
Alignment explanation
Indices: 4693724--4693780 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
4693714 TTTGGTTTCG
*
4693724 CGTTGCGATTCTGT
1 CGTTGCGATTCTCT
*
4693738 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
4693757 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
4693771 CGTTGCGATT
1 CGTTGCGATT
4693781 TTAAGTTCGT
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 20 0.57
16 3 0.09
17 3 0.09
19 9 0.26
ACGTcount: A:0.09, C:0.23, G:0.25, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:4693795 original size:33 final size:32
Alignment explanation
Indices: 4693687--4693797 Score: 150
Period size: 33 Copynumber: 3.4 Consensus size: 32
4693677 GCGATTTGGT
* *
4693687 TTCGCGTTGCGATTTTGTCGTTGCGATTTTGG
1 TTCGCGTTGCGATTCTGTCGTTGCGATTTTAG
*
4693719 TTTCGCGTTGCGATTCTGTCGTTGCGATTTTCAT
1 -TTCGCGTTGCGATTCTGTCGTTGCGATTTT-AG
*
4693753 TTCGCGTTGCGATTCTCTCGTTGCGATTTTAAG
1 TTCGCGTTGCGATTCTGTCGTTGCGATTTT-AG
*
4693786 TTCGTGTTGCGA
1 TTCGCGTTGCGA
4693798 AAGTAAACTA
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
33 70 1.00
ACGTcount: A:0.09, C:0.19, G:0.27, T:0.45
Consensus pattern (32 bp):
TTCGCGTTGCGATTCTGTCGTTGCGATTTTAG
Found at i:4694231 original size:185 final size:184
Alignment explanation
Indices: 4693895--4694300 Score: 742
Period size: 185 Copynumber: 2.2 Consensus size: 184
4693885 TCAGGGTATT
*
4693895 AGTTTAGCAGAA-TGGTAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAAC-AATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
*
4693959 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAATTTACTT
65 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAAAATTGGCAGCAACCGAACAATTTACTT
4694024 TCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
130 TCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
4694079 AGTTTAGCAGAATTGGCAGCAACCGAACAATTTACTTTCAACCAAAAGACAAAACAAAGACAAAT
1 AGTTTAGCAGAATTGGCAGCAACCGAACAATTTACTTTCAACCAAAAGACAAAACAAAGACAAAT
*
4694144 ACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAAAATTGGCAGCAACTGAACAAATTTACTT
66 ACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAAAATTGGCAGCAACCGAAC-AATTTACTT
4694209 TCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
130 TCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
4694264 AGTTTAGCAGAATTGGCAGCAACCGAATAAATTTACT
1 AGTTTAGCAGAATTGGCAGCAACCGAA-CAATTTACT
4694301 AAGCAATCTA
Statistics
Matches: 215, Mismatches: 4, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
184 102 0.47
185 105 0.49
186 8 0.04
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (184 bp):
AGTTTAGCAGAATTGGCAGCAACCGAACAATTTACTTTCAACCAAAAGACAAAACAAAGACAAAT
ACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAAAATTGGCAGCAACCGAACAATTTACTTT
CAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
Found at i:4694266 original size:93 final size:93
Alignment explanation
Indices: 4693895--4694300 Score: 755
Period size: 92 Copynumber: 4.4 Consensus size: 93
4693885 TCAGGGTATT
*
4693895 AGTTTAGCAGAA-TGGTAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
4693959 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
4693987 AGTTTAGCAGAATTGGCAGCAACCGAAC-AATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
4694051 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
4694079 AGTTTAGCAGAATTGGCAGCAACCGAAC-AATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
4694143 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
* *
4694171 AGTTTAGCAAAATTGGCAGCAACTGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
4694236 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
*
4694264 AGTTTAGCAGAATTGGCAGCAACCGAATAAATTTACT
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
4694301 AAGCAATCTA
Statistics
Matches: 306, Mismatches: 6, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
92 194 0.63
93 112 0.37
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTTAAAGAATACAC
Found at i:4695996 original size:20 final size:20
Alignment explanation
Indices: 4695965--4696071 Score: 104
Period size: 19 Copynumber: 5.7 Consensus size: 20
4695955 TTTTGGTTGA
4695965 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
***
4695985 AATGACTGTCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
4696005 AAATGAAAATCGCAAC--GAG
1 -AATGAAAATCGCAACGAGAG
*
4696024 -A-G--AATCGCAACGCGA-
1 AATGAAAATCGCAACGAGAG
*
4696039 AATGAAAATCGCAACGCGA-
1 AATGAAAATCGCAACGAGAG
4696058 AATGAAAATCGCAA
1 AATGAAAATCGCAA
4696072 TGCGATTTGG
Statistics
Matches: 74, Mismatches: 6, Indels: 15
0.78 0.06 0.16
Matches are distributed among these distances:
14 9 0.12
16 4 0.05
17 2 0.03
19 30 0.41
20 17 0.23
21 12 0.16
ACGTcount: A:0.47, C:0.19, G:0.23, T:0.11
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:4696017 original size:21 final size:21
Alignment explanation
Indices: 4695963--4696027 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
4695953 TCTTTTGGTT
4695963 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
***
4695984 G-AATGACTGTCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
4696004 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
4696025 GAA
1 GAA
4696028 TCGCAACGCG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 17 0.46
21 20 0.54
ACGTcount: A:0.48, C:0.15, G:0.26, T:0.11
Consensus pattern (21 bp):
GAAATGAAAATCGCAACGAGA
Found at i:4696106 original size:14 final size:14
Alignment explanation
Indices: 4696087--4696139 Score: 52
Period size: 14 Copynumber: 3.4 Consensus size: 14
4696077 TTTGGTTTCG
4696087 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
4696101 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
4696120 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
4696134 CGTTGC
1 CGTTGC
4696140 AGATAGTCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
14 16 0.50
16 3 0.09
17 3 0.09
19 10 0.31
ACGTcount: A:0.08, C:0.26, G:0.23, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:4696122 original size:33 final size:35
Alignment explanation
Indices: 4696082--4696164 Score: 125
Period size: 33 Copynumber: 2.4 Consensus size: 35
4696072 TGCGATTTGG
**
4696082 TTTCGCGTTGCGATTCTCTCGTTGC-GATTTTCA-
1 TTTCGCGTTGCGATTCTCTCGTTGCAGATAGTCAT
4696115 TTTCGCGTTGCGATTCTCTCGTTGCAGATAGTCAT
1 TTTCGCGTTGCGATTCTCTCGTTGCAGATAGTCAT
*
4696150 TTTCACGTTGCGATT
1 TTTCGCGTTGCGATT
4696165 TTCATTTATC
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
33 25 0.56
34 6 0.13
35 14 0.31
ACGTcount: A:0.12, C:0.23, G:0.22, T:0.43
Consensus pattern (35 bp):
TTTCGCGTTGCGATTCTCTCGTTGCAGATAGTCAT
Found at i:4696179 original size:21 final size:20
Alignment explanation
Indices: 4696131--4696183 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
4696121 GTTGCGATTC
4696131 TCTCGTTGCAGATAGTCATTT
1 TCTCGTTGC-GATAGTCATTT
* **
4696152 TCACGTTGCGATTTTCATTT
1 TCTCGTTGCGATAGTCATTT
4696172 ATCTCGTTGCGA
1 -TCTCGTTGCGA
4696184 CTCTTCTGCA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 9 0.33
21 18 0.67
ACGTcount: A:0.17, C:0.21, G:0.19, T:0.43
Consensus pattern (20 bp):
TCTCGTTGCGATAGTCATTT
Done.