Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 14 of 222
Found at i:4588094 original size:27 final size:27
Alignment explanation
Indices: 4588042--4588094 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
4588032 ATATATTTTA
* *
4588042 TGTTTTATATATTTATACATTCATATG
1 TGTTTTATATATCTATACATTAATATG
*
4588069 TGTTTTATAT-TCTATAACTTTAATAT
1 TGTTTTATATATCTAT-ACATTAATAT
4588095 ATATATATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.30, C:0.08, G:0.06, T:0.57
Consensus pattern (27 bp):
TGTTTTATATATCTATACATTAATATG
Found at i:4588248 original size:26 final size:26
Alignment explanation
Indices: 4588219--4588284 Score: 82
Period size: 26 Copynumber: 2.6 Consensus size: 26
4588209 ACGTATACTT
*
4588219 ATATATATAGATATATCTTATAATAC
1 ATATATATACATATATCTTATAATAC
* *
4588245 ATATATGTACATATATTTTATAAT--
1 ATATATATACATATATCTTATAATAC
*
4588269 TTATATATACATATAT
1 ATATATATACATATAT
4588285 ATATTTGTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
24 14 0.40
26 21 0.60
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (26 bp):
ATATATATACATATATCTTATAATAC
Found at i:4591752 original size:23 final size:22
Alignment explanation
Indices: 4591708--4591750 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
4591698 ACATATGCAC
4591708 ATACTTACATTTTTATTTTATA
1 ATACTTACATTTTTATTTTATA
*
4591730 ATACTTACAGTTTT-TTTTATA
1 ATACTTACATTTTTATTTTATA
4591751 TATGTATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.30, C:0.09, G:0.02, T:0.58
Consensus pattern (22 bp):
ATACTTACATTTTTATTTTATA
Found at i:4596265 original size:51 final size:51
Alignment explanation
Indices: 4596175--4596273 Score: 135
Period size: 51 Copynumber: 1.9 Consensus size: 51
4596165 ATTTTTTTTT
* * * *
4596175 ATTTTTTAGAATTAGGACCAAATTGAGAATATTTGTAAATTTTGAGGGTTA
1 ATTTTTTAAAATTAGGACCAAATTGAGAATATATATAAATGTTGAGGGTTA
* * *
4596226 ATTTTTTAAAATTAGGACTAAATTGATATTATATATAAATGTTGAGGG
1 ATTTTTTAAAATTAGGACCAAATTGAGAATATATATAAATGTTGAGGG
4596274 CTAAATTTGT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 41 1.00
ACGTcount: A:0.37, C:0.03, G:0.18, T:0.41
Consensus pattern (51 bp):
ATTTTTTAAAATTAGGACCAAATTGAGAATATATATAAATGTTGAGGGTTA
Found at i:4601853 original size:3 final size:3
Alignment explanation
Indices: 4601845--4601879 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
4601835 ATAGTCCTTG
*
4601845 TTA TTA TTA TTA TTA TTA TTA ATA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
4601880 GTTAATGTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:4612822 original size:24 final size:22
Alignment explanation
Indices: 4612795--4612839 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
4612785 ACACATATAG
4612795 TTAGCCAACTATAAAAAAAAAAAA
1 TTAGCC-ACT-TAAAAAAAAAAAA
* *
4612819 TTAGGCACTTAAAATAAAAAA
1 TTAGCCACTTAAAAAAAAAAA
4612840 TTTACAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 11 0.58
23 3 0.16
24 5 0.26
ACGTcount: A:0.62, C:0.11, G:0.07, T:0.20
Consensus pattern (22 bp):
TTAGCCACTTAAAAAAAAAAAA
Found at i:4619977 original size:14 final size:14
Alignment explanation
Indices: 4619958--4619987 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
4619948 TCAAATCACC
4619958 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
4619972 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
4619986 GG
1 GG
4619988 CCTAAATGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.07, C:0.13, G:0.47, T:0.33
Consensus pattern (14 bp):
GGGCCAGTTTGGTT
Found at i:4625500 original size:18 final size:19
Alignment explanation
Indices: 4625473--4625517 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
4625463 AGCAATTATT
4625473 TTTTTAATATTTAAAAATA
1 TTTTTAATATTTAAAAATA
* *
4625492 TTTTT-ATATTTTATAATA
1 TTTTTAATATTTAAAAATA
4625510 -TTTTAATA
1 TTTTTAATA
4625518 ATTTTTATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 4 0.17
18 14 0.61
19 5 0.22
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTTTAATATTTAAAAATA
Found at i:4625502 original size:29 final size:28
Alignment explanation
Indices: 4625469--4625560 Score: 89
Period size: 29 Copynumber: 3.2 Consensus size: 28
4625459 CGTTAGCAAT
4625469 TATTTTTTTAATATTTAAAAATATTTTTA
1 TATTTTTTTAATATTTAAAAAT-TTTTTA
* *
4625498 TA-TTTTATAATATTTTAATAATTTTTATA
1 TATTTTTTTAATA-TTTAAAAATTTTT-TA
* * * *
4625527 TAGTTTTTGAATTTTTAAAAATTTATT-
1 TATTTTTTTAATATTTAAAAATTTTTTA
4625554 TATTTTT
1 TATTTTT
4625561 GACATGGCAT
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
27 6 0.12
28 14 0.27
29 25 0.48
30 7 0.13
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (28 bp):
TATTTTTTTAATATTTAAAAATTTTTTA
Found at i:4625510 original size:10 final size:10
Alignment explanation
Indices: 4625472--4625526 Score: 53
Period size: 10 Copynumber: 5.7 Consensus size: 10
4625462 TAGCAATTAT
*
4625472 TTTTTTAATA
1 TTTTATAATA
* *
4625482 TTTAAAAATA
1 TTTTATAATA
4625492 TTTT-T-ATA
1 TTTTATAATA
4625500 TTTTATAATA
1 TTTTATAATA
4625510 TTTTAATAAT-
1 TTTT-ATAATA
4625520 TTTTATA
1 TTTTATA
4625527 TAGTTTTTGA
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
8 7 0.19
9 4 0.11
10 21 0.57
11 5 0.14
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
TTTTATAATA
Found at i:4626066 original size:16 final size:15
Alignment explanation
Indices: 4626038--4626067 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
4626028 TATGAACTAA
4626038 TTTCTTTTATATATT
1 TTTCTTTTATATATT
4626053 TTTCTTTATATATAT
1 TTTCTTT-TATATAT
4626068 ATTTACATGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTCTTTTATATATT
Found at i:4628020 original size:21 final size:22
Alignment explanation
Indices: 4627990--4628036 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
4627980 TTTATTTTTT
4627990 ATTTTTATTTTTAT-TTT-AAA
1 ATTTTTATTTTTATATTTCAAA
4628010 ATTTTTAATTTTTATATTTCAAA
1 ATTTTT-ATTTTTATATTTCAAA
4628033 ATTT
1 ATTT
4628037 AAAATTTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 6 0.25
21 8 0.33
22 3 0.12
23 7 0.29
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (22 bp):
ATTTTTATTTTTATATTTCAAA
Found at i:4628027 original size:23 final size:20
Alignment explanation
Indices: 4627990--4628036 Score: 58
Period size: 23 Copynumber: 2.2 Consensus size: 20
4627980 TTTATTTTTT
*
4627990 ATTTTTATTTTTATTTTAAA
1 ATTTTTATTTTTATTTCAAA
4628010 ATTTTTAATTTTTATATTTCAAA
1 ATTTTT-A-TTTT-TATTTCAAA
4628033 ATTT
1 ATTT
4628037 AAAATTTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 6 0.26
21 1 0.04
22 4 0.17
23 12 0.52
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (20 bp):
ATTTTTATTTTTATTTCAAA
Found at i:4628037 original size:21 final size:20
Alignment explanation
Indices: 4627990--4628051 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 20
4627980 TTTATTTTTT
*
4627990 ATTTTTATTTTTATTTTAAA
1 ATTTTAATTTTTATTTTAAA
4628010 ATTTTTAATTTTTATATTTCAAA
1 A-TTTTAATTTTTAT-TTT-AAA
* * *
4628033 ATTTAAAATTTAATTTTAA
1 ATTTTAATTTTTATTTTAA
4628052 TTATTACTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
20 3 0.09
21 15 0.43
22 13 0.37
23 4 0.11
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (20 bp):
ATTTTAATTTTTATTTTAAA
Found at i:4632238 original size:10 final size:10
Alignment explanation
Indices: 4632214--4632276 Score: 60
Period size: 10 Copynumber: 6.6 Consensus size: 10
4632204 ACCAGAAAAG
4632214 TATAAA-AAT
1 TATAAATAAT
*
4632223 TGTAAATAAT
1 TATAAATAAT
* *
4632233 TATAAAGAAA
1 TATAAATAAT
4632243 T-TAAA-AAT
1 TATAAATAAT
*
4632251 GATAAATAAT
1 TATAAATAAT
*
4632261 TGTAAATAAT
1 TATAAATAAT
4632271 TATAAA
1 TATAAA
4632277 AAAGATAAAA
Statistics
Matches: 42, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
8 2 0.05
9 13 0.31
10 27 0.64
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.33
Consensus pattern (10 bp):
TATAAATAAT
Found at i:4632256 original size:28 final size:28
Alignment explanation
Indices: 4632216--4632301 Score: 86
Period size: 28 Copynumber: 3.1 Consensus size: 28
4632206 CAGAAAAGTA
*
4632216 TAAAAATTG-TAAATAATTATAAAGAAAT
1 TAAAAA-TGATAAATAATTATAAAAAAAT
* * *
4632244 TAAAAATGATAAATAATTGTAAATAATT
1 TAAAAATGATAAATAATTATAAAAAAAT
* *
4632272 ATAAAAAAGATAAA-AATTACAAAAAAAT
1 -TAAAAATGATAAATAATTATAAAAAAAT
4632300 TA
1 TA
4632302 TAGAAAATAG
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
27 4 0.08
28 32 0.67
29 12 0.25
ACGTcount: A:0.64, C:0.01, G:0.06, T:0.29
Consensus pattern (28 bp):
TAAAAATGATAAATAATTATAAAAAAAT
Found at i:4632286 original size:38 final size:37
Alignment explanation
Indices: 4632215--4632288 Score: 114
Period size: 38 Copynumber: 2.0 Consensus size: 37
4632205 CCAGAAAAGT
*
4632215 ATAAAAATTGTAAATAATTATAAAGAAATTAAAAATG
1 ATAAAAATTGTAAATAATTATAAAGAAAATAAAAATG
4632252 ATAAATAATTGTAAATAATTATAAA-AAAGATAAAAAT
1 ATAAA-AATTGTAAATAATTATAAAGAAA-ATAAAAAT
4632289 TACAAAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
37 8 0.24
38 26 0.76
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.30
Consensus pattern (37 bp):
ATAAAAATTGTAAATAATTATAAAGAAAATAAAAATG
Found at i:4632323 original size:24 final size:24
Alignment explanation
Indices: 4632295--4632341 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
4632285 AAATTACAAA
*
4632295 AAAATTATAGAAA-ATAGAAAATAG
1 AAAA-TATAGAAATATACAAAATAG
*
4632319 AAAATATGGAAATATACAAAATA
1 AAAATATAGAAATATACAAAATA
4632342 TATAAAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.66, C:0.02, G:0.11, T:0.21
Consensus pattern (24 bp):
AAAATATAGAAATATACAAAATAG
Found at i:4632763 original size:7 final size:7
Alignment explanation
Indices: 4632751--4632777 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
4632741 AACTCGGTTA
4632751 TTTTTAT
1 TTTTTAT
4632758 TTTTTAT
1 TTTTTAT
4632765 TTTTTAT
1 TTTTTAT
4632772 TTTTTA
1 TTTTTA
4632778 CATAAATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTTAT
Found at i:4636094 original size:5 final size:5
Alignment explanation
Indices: 4636084--4636111 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
4636074 ATCAACCTGC
4636084 AAGAG AAGAG AAGAG AAGAG AAGAG AAG
1 AAGAG AAGAG AAGAG AAGAG AAGAG AAG
4636112 GATATATTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (5 bp):
AAGAG
Found at i:4638553 original size:179 final size:179
Alignment explanation
Indices: 4638242--4638598 Score: 615
Period size: 179 Copynumber: 2.0 Consensus size: 179
4638232 AAGCATCAAT
**
4638242 CATTAGCTTTGCATCTTCAAAACCTTTTACCTAAAGGAAGATTTAAATGCACAAGGACATAAACT
1 CATTAGCTTTGCATCTTCAAAACCTTTTACCTAAAGGAAGAACTAAATGCACAAGGACATAAACT
4638307 TCAAAAGAGATTCATCATTAAACATTAAATGCTTCCCTAGATAATGGTGTAGAAATACAGAATGA
66 TCAAAAGAGATTCATCATTAAACATTAAATGCTTCCCTAGATAATGGTGTAGAAATACAGAATGA
*
4638372 ACGGAACAAATTCAAAATCAAACCTATATCTATTATGAAGAGACTAAAA
131 ACGGAACAAATTCAAAATCAAACCTATACCTATTATGAAGAGACTAAAA
*
4638421 CATTAGCTTTGCATCTTCAAAACCTTTTTCCTAAAGGAAGAACTAAATGCACAAGGACATAAACT
1 CATTAGCTTTGCATCTTCAAAACCTTTTACCTAAAGGAAGAACTAAATGCACAAGGACATAAACT
* * * * * *
4638486 TCAAAAGAGGTTCATCATTAAACATTAGATTCTTCCCTAGGTAATGGTGTAGAAATGCAGGATGA
66 TCAAAAGAGATTCATCATTAAACATTAAATGCTTCCCTAGATAATGGTGTAGAAATACAGAATGA
*
4638551 ACGGCACAAATTCAAAATCAAACCTATACCTATTATGAAGAGACTAAA
131 ACGGAACAAATTCAAAATCAAACCTATACCTATTATGAAGAGACTAAA
4638599 GCCAGTGTAG
Statistics
Matches: 167, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
179 167 1.00
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.27
Consensus pattern (179 bp):
CATTAGCTTTGCATCTTCAAAACCTTTTACCTAAAGGAAGAACTAAATGCACAAGGACATAAACT
TCAAAAGAGATTCATCATTAAACATTAAATGCTTCCCTAGATAATGGTGTAGAAATACAGAATGA
ACGGAACAAATTCAAAATCAAACCTATACCTATTATGAAGAGACTAAAA
Found at i:4639686 original size:18 final size:18
Alignment explanation
Indices: 4639663--4639707 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
4639653 GAAATTAGCG
4639663 GATGATCA-AAACAATGGT
1 GATGATCATAAAC-ATGGT
* *
4639681 GATGATCATCATCATGGT
1 GATGATCATAAACATGGT
4639699 GATGATCAT
1 GATGATCAT
4639708 CATGGAACAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 22 0.92
19 2 0.08
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.29
Consensus pattern (18 bp):
GATGATCATAAACATGGT
Found at i:4639701 original size:15 final size:15
Alignment explanation
Indices: 4639683--4639712 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4639673 ACAATGGTGA
4639683 TGATCATCATCATGG
1 TGATCATCATCATGG
*
4639698 TGATGATCATCATGG
1 TGATCATCATCATGG
4639713 AACAGAGATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (15 bp):
TGATCATCATCATGG
Found at i:4639708 original size:18 final size:18
Alignment explanation
Indices: 4639676--4639710 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
4639666 GATCAAAACA
4639676 ATGGTGATGATCATCATC
1 ATGGTGATGATCATCATC
4639694 ATGGTGATGATCATCAT
1 ATGGTGATGATCATCAT
4639711 GGAACAGAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.34
Consensus pattern (18 bp):
ATGGTGATGATCATCATC
Found at i:4643633 original size:27 final size:27
Alignment explanation
Indices: 4643599--4643659 Score: 122
Period size: 27 Copynumber: 2.3 Consensus size: 27
4643589 TGAACTTTTA
4643599 AAAAAATTTAACCCAATACCTTTAAAT
1 AAAAAATTTAACCCAATACCTTTAAAT
4643626 AAAAAATTTAACCCAATACCTTTAAAT
1 AAAAAATTTAACCCAATACCTTTAAAT
4643653 AAAAAAT
1 AAAAAAT
4643660 CATTGGCTAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (27 bp):
AAAAAATTTAACCCAATACCTTTAAAT
Found at i:4650022 original size:23 final size:22
Alignment explanation
Indices: 4649983--4650026 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
4649973 TTAAAAAACT
**
4649983 TTATATAT-TTTATTTTTTAAA
1 TTATATATATTTAAATTTTAAA
4650004 TTATATATATTTAAATTTTAAA
1 TTATATATATTTAAATTTTAAA
4650026 T
1 T
4650027 GATGGTATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (22 bp):
TTATATATATTTAAATTTTAAA
Found at i:4650272 original size:17 final size:18
Alignment explanation
Indices: 4650252--4650297 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 18
4650242 ATTAAAAATT
4650252 ATAAAAAATTAAA-ATCA
1 ATAAAAAATTAAATATCA
*
4650269 ATAAAAACTATAAATATCA
1 ATAAAAAAT-TAAATATCA
*
4650288 TTAAAAAATT
1 ATAAAAAATT
4650298 TACTAAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
17 8 0.33
18 5 0.21
19 11 0.46
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.28
Consensus pattern (18 bp):
ATAAAAAATTAAATATCA
Found at i:4657145 original size:61 final size:60
Alignment explanation
Indices: 4657078--4657205 Score: 204
Period size: 61 Copynumber: 2.1 Consensus size: 60
4657068 TAAACATGTA
* *
4657078 AATTAAAATTTATGTTGAAAATTATTTTCAATG-TCTATAGTATTTTCAACTTTTTTTAATT
1 AATTAAAATTTATGTTAAAAATTATTTTCAATGTTC-ATAGTATTTTCAACTATTTTT-ATT
4657139 AATTAAAATTTATGTTAAAAATTATTTTCAATGTTCATAGTATTTTCAACTATTTTTATT
1 AATTAAAATTTATGTTAAAAATTATTTTCAATGTTCATAGTATTTTCAACTATTTTTATT
*
4657199 ATTTAAA
1 AATTAAA
4657206 TTTGCACCAG
Statistics
Matches: 63, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
60 9 0.14
61 52 0.83
62 2 0.03
ACGTcount: A:0.37, C:0.06, G:0.05, T:0.52
Consensus pattern (60 bp):
AATTAAAATTTATGTTAAAAATTATTTTCAATGTTCATAGTATTTTCAACTATTTTTATT
Found at i:4658019 original size:11 final size:11
Alignment explanation
Indices: 4658000--4658107 Score: 60
Period size: 11 Copynumber: 9.7 Consensus size: 11
4657990 TATTAATTCG
4658000 TTGTTATTTTA
1 TTGTTATTTTA
* **
4658011 TTGTCATTTCG
1 TTGTTATTTTA
4658022 TTGTTATTTTA
1 TTGTTATTTTA
*
4658033 TTTTTGTTATTTGA
1 ---TTGTTATTTTA
* * * *
4658047 ATATTATATAA
1 TTGTTATTTTA
* *
4658058 TTCTTATTTTG
1 TTGTTATTTTA
4658069 TTGTTAATTTTA
1 TTGTT-ATTTTA
*
4658081 TTATTATTTTA
1 TTGTTATTTTA
4658092 ---TTATTTTA
1 TTGTTATTTTA
4658100 TTGTTATT
1 TTGTTATT
4658108 AATGCTAAGT
Statistics
Matches: 71, Mismatches: 19, Indels: 14
0.68 0.18 0.13
Matches are distributed among these distances:
8 8 0.11
11 44 0.62
12 9 0.13
14 10 0.14
ACGTcount: A:0.21, C:0.03, G:0.08, T:0.68
Consensus pattern (11 bp):
TTGTTATTTTA
Found at i:4660935 original size:21 final size:22
Alignment explanation
Indices: 4660892--4660937 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
4660882 GCCTGACCCG
*
4660892 TTTTCTAAACGGGCTTCATTTT
1 TTTTCAAAACGGGCTTCATTTT
4660914 TTTTCAAAACGGGCTTCATTTT
1 TTTTCAAAACGGGCTTCATTTT
4660936 TT
1 TT
4660938 GCCCAAACCC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.20, C:0.17, G:0.13, T:0.50
Consensus pattern (22 bp):
TTTTCAAAACGGGCTTCATTTT
Found at i:4660945 original size:22 final size:22
Alignment explanation
Indices: 4660898--4660945 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
4660888 CCCGTTTTCT
**
4660898 AAACGGGCTTCATTTTTTTTCA
1 AAACGGGCTTCATTTTTTGCCA
*
4660920 AAACGGGCTTCATTTTTTGCCC
1 AAACGGGCTTCATTTTTTGCCA
4660942 AAAC
1 AAAC
4660946 CCATATTTCG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.38
Consensus pattern (22 bp):
AAACGGGCTTCATTTTTTGCCA
Found at i:4662017 original size:33 final size:33
Alignment explanation
Indices: 4661975--4662045 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
4661965 GTGGCATAAG
*
4661975 GCCCACCTTACCATGAAAACCCCAACATCATGC
1 GCCCACCTTACCATGAAAAACCCAACATCATGC
*
4662008 GCCCACCTTACCATGAAAAACCCAATATCATGC
1 GCCCACCTTACCATGAAAAACCCAACATCATGC
*
4662041 ACCCA
1 GCCCA
4662046 ACACCACAAC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.35, C:0.41, G:0.08, T:0.15
Consensus pattern (33 bp):
GCCCACCTTACCATGAAAAACCCAACATCATGC
Found at i:4662401 original size:15 final size:15
Alignment explanation
Indices: 4662360--4662401 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
4662350 GAGAGTAATG
4662360 GGAA-AAGAAGA-AGA
1 GGAAGAAGAAGAGA-A
4662374 GGAAGAAGAAGAGAA
1 GGAAGAAGAAGAGAA
*
4662389 GGAAGAGGAAGAG
1 GGAAGAAGAAGAG
4662402 CCTATACTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 4 0.16
15 20 0.80
16 1 0.04
ACGTcount: A:0.57, C:0.00, G:0.43, T:0.00
Consensus pattern (15 bp):
GGAAGAAGAAGAGAA
Found at i:4667418 original size:17 final size:17
Alignment explanation
Indices: 4667396--4667429 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
4667386 ATTGTTGTCC
4667396 CTTATCGAATTTTTTAA
1 CTTATCGAATTTTTTAA
4667413 CTTATCGAATTTTTTAA
1 CTTATCGAATTTTTTAA
4667430 GTGCCTGTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.53
Consensus pattern (17 bp):
CTTATCGAATTTTTTAA
Found at i:4669094 original size:28 final size:29
Alignment explanation
Indices: 4669062--4669125 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 29
4669052 AAAAATAACT
*
4669062 AAAATATTAT-AACTTTTTTTTATTTACC
1 AAAATATTATAAAATTTTTTTTATTTACC
4669090 AAAATATTATAAAATTTTTTTTATTTACC
1 AAAATATTATAAAATTTTTTTTATTTACC
4669119 AAAATAT
1 AAAATAT
4669126 ACCAAAAAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 10 0.29
29 24 0.71
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (29 bp):
AAAATATTATAAAATTTTTTTTATTTACC
Found at i:4669213 original size:27 final size:27
Alignment explanation
Indices: 4669183--4669234 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
4669173 GGCCAATCAT
4669183 ATTGGCGGCACCAATGGTGCCAATGTG
1 ATTGGCGGCACCAATGGTGCCAATGTG
*
4669210 ATTGGCGGCACCAATTGTGCCAATG
1 ATTGGCGGCACCAATGGTGCCAATG
4669235 GACTAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.23, C:0.23, G:0.31, T:0.23
Consensus pattern (27 bp):
ATTGGCGGCACCAATGGTGCCAATGTG
Found at i:4669612 original size:18 final size:19
Alignment explanation
Indices: 4669563--4669628 Score: 80
Period size: 19 Copynumber: 3.5 Consensus size: 19
4669553 TTTAATTTTT
*
4669563 TTAAATTAAAATATAGTTA
1 TTAAATTAAAATAGAGTTA
* * *
4669582 TTAAATGAGAATAG-TTTA
1 TTAAATTAAAATAGAGTTA
*
4669600 TTACATTAAAATAGAGTTA
1 TTAAATTAAAATAGAGTTA
4669619 TTAAATTAAA
1 TTAAATTAAA
4669629 CTATTTTAAT
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
18 14 0.38
19 23 0.62
ACGTcount: A:0.50, C:0.02, G:0.09, T:0.39
Consensus pattern (19 bp):
TTAAATTAAAATAGAGTTA
Found at i:4669800 original size:80 final size:80
Alignment explanation
Indices: 4669701--4669850 Score: 300
Period size: 80 Copynumber: 1.9 Consensus size: 80
4669691 TAACGGAAAC
4669701 ATAAACTATTTTATCTATTTATAAATTTAATATATTCTTAATAGACTTATAACATAAACATGTTA
1 ATAAACTATTTTATCTATTTATAAATTTAATATATTCTTAATAGACTTATAACATAAACATGTTA
4669766 GACTAAATAATGGAA
66 GACTAAATAATGGAA
4669781 ATAAACTATTTTATCTATTTATAAATTTAATATATTCTTAATAGACTTATAACATAAACATGTTA
1 ATAAACTATTTTATCTATTTATAAATTTAATATATTCTTAATAGACTTATAACATAAACATGTTA
4669846 GACTA
66 GACTA
4669851 TTTTAATTAA
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 70 1.00
ACGTcount: A:0.44, C:0.09, G:0.05, T:0.41
Consensus pattern (80 bp):
ATAAACTATTTTATCTATTTATAAATTTAATATATTCTTAATAGACTTATAACATAAACATGTTA
GACTAAATAATGGAA
Found at i:4669943 original size:19 final size:19
Alignment explanation
Indices: 4669919--4669977 Score: 75
Period size: 19 Copynumber: 3.2 Consensus size: 19
4669909 ATTTTATATT
4669919 TTAAATGAAAATAGAGTTA
1 TTAAATGAAAATAGAGTTA
* **
4669938 TTAAATGAGAATA-TTTTA
1 TTAAATGAAAATAGAGTTA
*
4669956 TTAAATTAAAATAGAGTTA
1 TTAAATGAAAATAGAGTTA
4669975 TTA
1 TTA
4669978 CTTAATTAGA
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
18 14 0.44
19 18 0.56
ACGTcount: A:0.49, C:0.00, G:0.12, T:0.39
Consensus pattern (19 bp):
TTAAATGAAAATAGAGTTA
Found at i:4671871 original size:18 final size:18
Alignment explanation
Indices: 4671848--4671883 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
4671838 TGTGTCAGGT
*
4671848 TTTTTTTTCTATTTTTTG
1 TTTTTTTTCTATATTTTG
*
4671866 TTTTTTTTGTATATTTTG
1 TTTTTTTTCTATATTTTG
4671884 GTAAATAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.08, C:0.03, G:0.08, T:0.81
Consensus pattern (18 bp):
TTTTTTTTCTATATTTTG
Found at i:4671906 original size:27 final size:27
Alignment explanation
Indices: 4671876--4671939 Score: 110
Period size: 27 Copynumber: 2.4 Consensus size: 27
4671866 TTTTTTTTGT
*
4671876 ATATTTTGGTAAATAAAAAAATTTATA
1 ATATTTTGGTAAATAAAAAAAGTTATA
4671903 ATATTTTGGTAAATAAAAAAAGTTATA
1 ATATTTTGGTAAATAAAAAAAGTTATA
*
4671930 ACATTTTGGT
1 ATATTTTGGT
4671940 TATTTTTTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.47, C:0.02, G:0.11, T:0.41
Consensus pattern (27 bp):
ATATTTTGGTAAATAAAAAAAGTTATA
Found at i:4687463 original size:69 final size:69
Alignment explanation
Indices: 4687314--4687442 Score: 181
Period size: 69 Copynumber: 1.9 Consensus size: 69
4687304 GAAATATCAA
* * **
4687314 AATATTTGA-ATTTAAGATTTTTGTTTCGAGTTCAATTTTTAAATAAATTTTTATTTGTTACCCG
1 AATATTT-ATATTTAAGATTTTTGTCTCGAGTTCAATTTTTAAATAAATTTTTATTTGTAACCAA
4687378 TTATC
65 TTATC
*
4687383 AATATTTATATTTAAGATTTTTGTCTCGAGTTCGATTTTTAAAT-AATTTTTATTTCGTAA
1 AATATTTATATTTAAGATTTTTGTCTCGAGTTCAATTTTTAAATAAATTTTTATTT-GTAA
4687443 TGAATTATTT
Statistics
Matches: 55, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
68 12 0.22
69 43 0.78
ACGTcount: A:0.29, C:0.08, G:0.10, T:0.53
Consensus pattern (69 bp):
AATATTTATATTTAAGATTTTTGTCTCGAGTTCAATTTTTAAATAAATTTTTATTTGTAACCAAT
TATC
Found at i:4688259 original size:20 final size:19
Alignment explanation
Indices: 4688236--4688308 Score: 87
Period size: 19 Copynumber: 3.7 Consensus size: 19
4688226 AAAAATTTCA
4688236 AAAAACATTCAAAATAATTT
1 AAAAA-ATTCAAAATAATTT
4688256 AAAAAATTCAAAATAAATTT
1 AAAAAATTCAAAAT-AATTT
*
4688276 -TAAAATTCAAAAT-ATTT
1 AAAAAATTCAAAATAATTT
4688293 ATAAAAATTTCAAAAT
1 A-AAAAA-TTCAAAAT
4688309 TTATATATTT
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
17 4 0.09
19 25 0.53
20 18 0.38
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAAAATTCAAAATAATTT
Found at i:4690939 original size:19 final size:19
Alignment explanation
Indices: 4690915--4690953 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
4690905 AGGCTTGGTA
4690915 TAGATAATAATGAATAGCT
1 TAGATAATAATGAATAGCT
4690934 TAGATAATAATGAATAGCT
1 TAGATAATAATGAATAGCT
4690953 T
1 T
4690954 TGAGAGTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.46, C:0.05, G:0.15, T:0.33
Consensus pattern (19 bp):
TAGATAATAATGAATAGCT
Found at i:4693966 original size:23 final size:22
Alignment explanation
Indices: 4693932--4693978 Score: 53
Period size: 22 Copynumber: 2.1 Consensus size: 22
4693922 TGTTAAAAAG
4693932 TTGTTATTTAATTAATGTT-AATT
1 TTGTTATTTAA-TAA-GTTGAATT
4693955 TTGTT-TTGTAATAAGTTGAATT
1 TTGTTATT-TAATAAGTTGAATT
4693977 TT
1 TT
4693979 AATTGAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
21 3 0.14
22 11 0.50
23 8 0.36
ACGTcount: A:0.28, C:0.00, G:0.13, T:0.60
Consensus pattern (22 bp):
TTGTTATTTAATAAGTTGAATT
Found at i:4694678 original size:9 final size:9
Alignment explanation
Indices: 4694665--4694722 Score: 80
Period size: 9 Copynumber: 6.4 Consensus size: 9
4694655 TTTGGTTAAA
*
4694665 AATTAACCA
1 AATTAACCG
*
4694674 AATTACCCG
1 AATTAACCG
4694683 AATTAACCG
1 AATTAACCG
*
4694692 AATTTACCG
1 AATTAACCG
4694701 AATTAACCG
1 AATTAACCG
*
4694710 AATTAACCA
1 AATTAACCG
4694719 AATT
1 AATT
4694723 GAATCACTAT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 43 1.00
ACGTcount: A:0.45, C:0.22, G:0.07, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:4694865 original size:18 final size:18
Alignment explanation
Indices: 4694825--4694868 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
4694815 AATTTTTATG
**
4694825 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGAATA
4694843 ATTGGGTTGGGTTGAATA
1 ATTGGGTTGGGTTGAATA
*
4694861 CTTGGGTT
1 ATTGGGTT
4694869 TAGGTGAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.02, G:0.43, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGAATA
Found at i:4699663 original size:21 final size:21
Alignment explanation
Indices: 4699635--4699729 Score: 86
Period size: 21 Copynumber: 4.4 Consensus size: 21
4699625 GGCCCAGCCC
4699635 ATAT-TAAATATATATATTTA
1 ATATATAAATATATATATTTA
*
4699655 ATATATAAAATATATATATTTG
1 ATATAT-AAATATATATATTTA
*
4699677 AT-TAAAAATAATATATATTTGA
1 ATATATAAAT-ATATATATTT-A
* * *
4699699 TTAAAAATAAAAATATATATTTA
1 --ATATATAAATATATATATTTA
4699722 ATATATAA
1 ATATATAA
4699730 TTCGGGCTGG
Statistics
Matches: 59, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
20 8 0.14
21 19 0.32
22 16 0.27
23 1 0.02
24 11 0.19
25 4 0.07
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (21 bp):
ATATATAAATATATATATTTA
Found at i:4702579 original size:2 final size:2
Alignment explanation
Indices: 4702572--4702625 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
4702562 ACATACCATT
4702572 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
4702614 TC TC TC TC TC TC
1 TC TC TC TC TC TC
4702626 ACACACACAC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:4710379 original size:31 final size:31
Alignment explanation
Indices: 4710338--4710398 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
4710328 GAAATGATTA
* *
4710338 CTAAATTATTCACAAGTTTTCATTTAAGTCG
1 CTAAACTATTCAAAAGTTTTCATTTAAGTCG
*
4710369 CTAAACTATTCAAAAGTTTTTATTTAAGTC
1 CTAAACTATTCAAAAGTTTTCATTTAAGTC
4710399 ATTGAGCTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.34, C:0.15, G:0.08, T:0.43
Consensus pattern (31 bp):
CTAAACTATTCAAAAGTTTTCATTTAAGTCG
Found at i:4715632 original size:18 final size:18
Alignment explanation
Indices: 4715609--4715655 Score: 94
Period size: 18 Copynumber: 2.6 Consensus size: 18
4715599 AAACTGAAAA
4715609 AATTCGGTTAACCAACCG
1 AATTCGGTTAACCAACCG
4715627 AATTCGGTTAACCAACCG
1 AATTCGGTTAACCAACCG
4715645 AATTCGGTTAA
1 AATTCGGTTAA
4715656 TCGGTCGGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (18 bp):
AATTCGGTTAACCAACCG
Found at i:4716014 original size:9 final size:9
Alignment explanation
Indices: 4716002--4716060 Score: 73
Period size: 9 Copynumber: 6.6 Consensus size: 9
4715992 TCAATTAGGT
4716002 TAATTCGGG
1 TAATTCGGG
4716011 TAATTCGGG
1 TAATTCGGG
4716020 TAATTCGGG
1 TAATTCGGG
**
4716029 TAATTCGAT
1 TAATTCGGG
* *
4716038 TAATTTGGT
1 TAATTCGGG
*
4716047 TAATTCGGC
1 TAATTCGGG
4716056 TAATT
1 TAATT
4716061 TTTAACCAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 44 1.00
ACGTcount: A:0.25, C:0.10, G:0.24, T:0.41
Consensus pattern (9 bp):
TAATTCGGG
Found at i:4717870 original size:16 final size:16
Alignment explanation
Indices: 4717846--4717886 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
4717836 GTCCATGGGC
4717846 CAGGCCGGGTCGGGTT
1 CAGGCCGGGTCGGGTT
*
4717862 CAGGTCGGGTCGGGTT
1 CAGGCCGGGTCGGGTT
4717878 CAGGCCGGG
1 CAGGCCGGG
4717887 CCCAGAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.07, C:0.24, G:0.51, T:0.17
Consensus pattern (16 bp):
CAGGCCGGGTCGGGTT
Found at i:4724317 original size:19 final size:19
Alignment explanation
Indices: 4724283--4724319 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
4724273 TCTAAACAAT
**
4724283 AACAGTAAAATGATAGCAA
1 AACAGTAAAAAAATAGCAA
4724302 AACAGTAAAAAAATAGCA
1 AACAGTAAAAAAATAGCA
4724320 CTTTTTTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.62, C:0.11, G:0.14, T:0.14
Consensus pattern (19 bp):
AACAGTAAAAAAATAGCAA
Found at i:4729451 original size:240 final size:242
Alignment explanation
Indices: 4728997--4729475 Score: 755
Period size: 240 Copynumber: 2.0 Consensus size: 242
4728987 TTTAATCATA
* *
4728997 GTTTTCCAAGACTTAAATGCAAAAAACACATCGCTTTTTTTCTTCAAGAAGAACACCCAAACTTT
1 GTTTTCCAAGACTTAAATGCAAAAAACACATCGCTTTTCTGCTTCAAGAAGAACACCCAAACTTT
*
4729062 TCTAGAAAAATCATCAATAAAAGTTAGCATATAATTAGCTCCACCTCTCGAAGGCAGTCTGGATG
66 TCTAGAAAAATCATCAATAAAAGTTAGCATATAATTAGCTCCACCTCTCGAAGGCACTCTGGATG
* * * *
4729127 GCCCCCACAGATAAAAATGAATATATTCTAATGTTCTCTTCGTGTTATGGATTCCTCTAGTGAAC
131 GCCCCCACAGATAAAAATAAATATACTCCAATGTTCCCTTCGTGTTATGGATTCCTCTAGTGAAC
* *
4729192 CAAACTCTCTTTTGCTTCCCAAAAATGCAGTCCTCACAGAACTTGTT
196 CAAACTCTCTTTTGCTTCCCAAAAACGCAGTCCTCACAAAACTTGTT
* * * **
4729239 GTTTTCCAAGACTTAAATGCAGAAAACACATCGCTTTTCTGCTTTAGGAAGAACGTCCAAACTTT
1 GTTTTCCAAGACTTAAATGCAAAAAACACATCGCTTTTCTGCTTCAAGAAGAACACCCAAACTTT
* * *
4729304 T-TGGAAAAATTATCAATAAAAGTTAGCATATAATTAGCTCCACCTCTTGAAGGCACTCTGGATG
66 TCTAGAAAAATCATCAATAAAAGTTAGCATATAATTAGCTCCACCTCTCGAAGGCACTCTGGATG
* *
4729368 G-CCCCACAGATCAAAATAAATATACTCCAATGTTCCCTTCGTGTTATGGATTCCTCTAGTGAAT
131 GCCCCCACAGATAAAAATAAATATACTCCAATGTTCCCTTCGTGTTATGGATTCCTCTAGTGAAC
* *
4729432 CAAACTCTTTTTTGCTTCCCAAAAACGCAGTGCTCACAAAACTT
196 CAAACTCTCTTTTGCTTCCCAAAAACGCAGTCCTCACAAAACTT
4729476 TAGTTTGCAA
Statistics
Matches: 216, Mismatches: 21, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
240 97 0.45
241 60 0.28
242 59 0.27
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.30
Consensus pattern (242 bp):
GTTTTCCAAGACTTAAATGCAAAAAACACATCGCTTTTCTGCTTCAAGAAGAACACCCAAACTTT
TCTAGAAAAATCATCAATAAAAGTTAGCATATAATTAGCTCCACCTCTCGAAGGCACTCTGGATG
GCCCCCACAGATAAAAATAAATATACTCCAATGTTCCCTTCGTGTTATGGATTCCTCTAGTGAAC
CAAACTCTCTTTTGCTTCCCAAAAACGCAGTCCTCACAAAACTTGTT
Found at i:4731170 original size:24 final size:24
Alignment explanation
Indices: 4731120--4731171 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
4731110 AATTAAAGTC
* **
4731120 AAATATATTATGCGAATAAATGTT
1 AAATATATTATACGAATAAATACT
**
4731144 AAATATATTATACTCATAAATACT
1 AAATATATTATACGAATAAATACT
4731168 AAAT
1 AAAT
4731172 CTTCTAGAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.50, C:0.08, G:0.06, T:0.37
Consensus pattern (24 bp):
AAATATATTATACGAATAAATACT
Found at i:4733759 original size:13 final size:13
Alignment explanation
Indices: 4733697--4733759 Score: 54
Period size: 13 Copynumber: 4.8 Consensus size: 13
4733687 TTGGTATTGT
*
4733697 TTTTGAAAAGTGC
1 TTTTGAAAAGTAC
*
4733710 TTTTGAAAAGTGC
1 TTTTGAAAAGTAC
* * * *
4733723 TGTGGAAAAATAT
1 TTTTGAAAAGTAC
* *
4733736 TTTTTAGAAGTAC
1 TTTTGAAAAGTAC
4733749 TTTTGAAAAGT
1 TTTTGAAAAGT
4733760 TTGGTTTAAG
Statistics
Matches: 37, Mismatches: 13, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
13 37 1.00
ACGTcount: A:0.35, C:0.05, G:0.21, T:0.40
Consensus pattern (13 bp):
TTTTGAAAAGTAC
Found at i:4734052 original size:19 final size:19
Alignment explanation
Indices: 4733980--4734058 Score: 68
Period size: 19 Copynumber: 3.9 Consensus size: 19
4733970 ATTTTTAAGT
* *
4733980 AATAAATATTAATTATTTA
1 AATATATATTAAATATTTA
* * *
4733999 TAAAATTTAATTAGAATATATA
1 -AATATAT-ATTA-AATATTTA
*
4734021 AACTATATTTTAAATATTTA
1 AA-TATATATTAAATATTTA
4734041 AATATATATTAAATATTT
1 AATATATATTAAATATTT
4734059 GTAATTAAAT
Statistics
Matches: 46, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
19 15 0.33
20 13 0.28
21 9 0.20
22 9 0.20
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (19 bp):
AATATATATTAAATATTTA
Found at i:4734070 original size:21 final size:21
Alignment explanation
Indices: 4734030--4734083 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
4734020 AAACTATATT
*
4734030 TTAAATA-TT-TAAATATATA
1 TTAAATATTTGTAAATAAATA
*
4734049 TTAAATATTTGTAATTAAATA
1 TTAAATATTTGTAAATAAATA
*
4734070 TTAACACATTTGTA
1 TTAA-ATATTTGTA
4734084 TTATTTAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 7 0.24
20 2 0.07
21 12 0.41
22 8 0.28
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (21 bp):
TTAAATATTTGTAAATAAATA
Found at i:4734815 original size:16 final size:17
Alignment explanation
Indices: 4734781--4734825 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
4734771 TACAAAATTG
*
4734781 AAAATTAAATTTACCTAA
1 AAAATTAAA-TTACATAA
4734799 AAAATTAAATTA-ATAA
1 AAAATTAAATTACATAA
4734815 AAAATATAAAT
1 AAAAT-TAAAT
4734826 ATTAAGGACT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 8 0.32
17 8 0.32
18 9 0.36
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.31
Consensus pattern (17 bp):
AAAATTAAATTACATAA
Found at i:4736089 original size:125 final size:125
Alignment explanation
Indices: 4735867--4736112 Score: 438
Period size: 125 Copynumber: 2.0 Consensus size: 125
4735857 GAGTTTTTAC
* *
4735867 TAGTTAAATACCGGATTCAGTCCGTAGTCCTAGTTATAACTAACTTGTCCAAATTTGATCTATCG
1 TAGTTAAATACCGGATTCAGTCCATAGTCCTAGCTATAACTAACTTGTCCAAATTTGATCTATCG
* *
4735932 TCGCAGCTATAACTGGCAAATGCTTAACCAAAGATAGATGTTTTTTCCCTGATTTGCCCG
66 TCGCAGCTATAACCGGCAAATGCTTAACCAAAGATAAATGTTTTTTCCCTGATTTGCCCG
*
4735992 TAGTTAAATACTGGATTCAGTCCATAGTCCTAGCTATAACTAACTTGTCCAAATTTGATCTATCG
1 TAGTTAAATACCGGATTCAGTCCATAGTCCTAGCTATAACTAACTTGTCCAAATTTGATCTATCG
*
4736057 TTGCAGCTATAACCGGCAAATGCTTAACCAAAGATAAATGTTTTTTCCCTGATTTG
66 TCGCAGCTATAACCGGCAAATGCTTAACCAAAGATAAATGTTTTTTCCCTGATTTG
4736113 TCCCAAGTGT
Statistics
Matches: 115, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
125 115 1.00
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (125 bp):
TAGTTAAATACCGGATTCAGTCCATAGTCCTAGCTATAACTAACTTGTCCAAATTTGATCTATCG
TCGCAGCTATAACCGGCAAATGCTTAACCAAAGATAAATGTTTTTTCCCTGATTTGCCCG
Found at i:4737801 original size:176 final size:176
Alignment explanation
Indices: 4737507--4737861 Score: 656
Period size: 176 Copynumber: 2.0 Consensus size: 176
4737497 ATACTTGCTT
*
4737507 TTGTAAATTCGAAGTGACATGTTTTTCATGTATTTGGAAAATCATATCTATAACTATGAATGTTA
1 TTGTAAATTCGAAGTGACATGTTTTTCATGTATTTGGAAAATCATATCTATAACCATGAATGTTA
4737572 AATCGGACCAACATAGGTGAATTCAGTCATCTTTATTATTGATGTTTTTGACATGCCTGTACAAC
66 AATCGGACCAACATAGGTGAATTCAGTCATCTTTATTATTGATGTTTTTGACATGCCTGTACAAC
* * *
4737637 CGTCACGACTCGCTGACCAACCTAATGCTATCATTTCCCTGGGTAG
131 CGTCACAACTCGCTGACCAACCTAATACTATCATTTCCCCGGGTAG
4737683 TTGTAAATTCGAAGTGACATGTTTTTCATGTATTTGGAAAATCATATCTATAACCATGAATGTTA
1 TTGTAAATTCGAAGTGACATGTTTTTCATGTATTTGGAAAATCATATCTATAACCATGAATGTTA
*
4737748 AATCGGACCAACATGGGTGAATTCAGTCATCTTTATTATTGATGTTTTTGACATGCCTGTACAAC
66 AATCGGACCAACATAGGTGAATTCAGTCATCTTTATTATTGATGTTTTTGACATGCCTGTACAAC
*
4737813 CGTCACAACTCGCTGGCCAACCTAATACTATCATTTCCCCGGGTAG
131 CGTCACAACTCGCTGACCAACCTAATACTATCATTTCCCCGGGTAG
4737859 TTG
1 TTG
4737862 CACTGTGTTG
Statistics
Matches: 173, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
176 173 1.00
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (176 bp):
TTGTAAATTCGAAGTGACATGTTTTTCATGTATTTGGAAAATCATATCTATAACCATGAATGTTA
AATCGGACCAACATAGGTGAATTCAGTCATCTTTATTATTGATGTTTTTGACATGCCTGTACAAC
CGTCACAACTCGCTGACCAACCTAATACTATCATTTCCCCGGGTAG
Found at i:4751201 original size:11 final size:11
Alignment explanation
Indices: 4751187--4751229 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
4751177 ATTTTTTAAA
*
4751187 TTTTAAAATAT
1 TTTTAAAATTT
4751198 TTTTAAAATGCTT
1 TTTTAAAAT--TT
*
4751211 TTTTTAAATTT
1 TTTTAAAATTT
4751222 TTTTAAAA
1 TTTTAAAA
4751230 AAGTGGTGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
11 18 0.67
13 9 0.33
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.58
Consensus pattern (11 bp):
TTTTAAAATTT
Found at i:4753501 original size:350 final size:350
Alignment explanation
Indices: 4752775--4753787 Score: 1870
Period size: 350 Copynumber: 2.9 Consensus size: 350
4752765 AATTTTTTTC
* * *
4752775 AAGATGAAAATATTGATATGACATTAAATAATTAAAAAAATAGATACAAATGATTTGGCGTCACA
1 AAGATGAAAATGTTGATATGACATTAAATAATT-AAAAAATAGATACAAATGACTTGGCGTCACT
* *
4752840 ATTTCATACAATCTTTTCCCGTAAAAATCTTAAAGCTGAATTAGATTTTCTCCGCGGTTAAGGCA
65 ATTTCATACAATCTTTTCCCGTAAAAATCGTAAAGCTGAATTAGATTTTCTCCGCAGTTAAGGCA
* *
4752905 ATAAAATAATAAAATAAGAAAA-GGGTTAAATTCTAAGTTTAGTCCATAAATTATTGCTAAATCT
130 ATAAAATAAGAAAATAA-AAAAGGGGTTAAATTCTAAGTTTAGTCCATGAATTATTGCTAAATCT
*
4752969 -AGATCTAATCCATGCACTTTAATTTCAC-TTTTTTTTTTATCTTAGCAATGATGGTAGTTTGAG
194 GAGATCTAATCCATGCACTTTAATTTCACAATTTTTTTTTATCTTAGCAATGATGGTAGTTTGAG
4753032 AAATTAGTCCAAATTGTTGATAGTGTTAGAAACTCGATTAAGCATGAGGTTGACTTTATGGTACA
259 AAATTAGTCCAAATTGTTGATAGTGTTAGAAACTCGATTAAGCATGAGGTTGACTTTATGGTACA
4753097 ATTGATAAAGGTTGAGGTTGACTTACT
324 ATTGATAAAGGTTGAGGTTGACTTACT
**
4753124 AAGATGAAAATGTTGATATGACATTAAATAATTAAAAAATAGATACAAATGACTTGGCGTCGTTA
1 AAGATGAAAATGTTGATATGACATTAAATAATTAAAAAATAGATACAAATGACTTGGCGTCACTA
4753189 TTTCATACAATCTTTTCCCGTAAAAATCGTAAAGCTGAATTAGATTTTCTCCGCAGTTAAGGCAA
66 TTTCATACAATCTTTTCCCGTAAAAATCGTAAAGCTGAATTAGATTTTCTCCGCAGTTAAGGCAA
4753254 TAAAATAAGAAAATAAAAAAGGGGTTAAATTCTAAGTTTAGTCCATGAATTATTGCTAAATCTGA
131 TAAAATAAGAAAATAAAAAAGGGGTTAAATTCTAAGTTTAGTCCATGAATTATTGCTAAATCTGA
4753319 GATCTAATCCATGCACTTTAATTTCACAATTTTTTTTTATCTTAGCAATGATGGTAGTTTGAGAA
196 GATCTAATCCATGCACTTTAATTTCACAATTTTTTTTTATCTTAGCAATGATGGTAGTTTGAGAA
4753384 ATTAGTCCAAATTGTTGATAGTGTTAGAAACTCGATTAAGCATGAGGTTGACTTTATGGTACAAT
261 ATTAGTCCAAATTGTTGATAGTGTTAGAAACTCGATTAAGCATGAGGTTGACTTTATGGTACAAT
4753449 TGATAAAGGTTGAGGTTGACTTACT
326 TGATAAAGGTTGAGGTTGACTTACT
4753474 AAGATGAAAATGTTGATATGACATTAAATAATTAAAAAATAGATACAAATGACTTGGCGTCACTA
1 AAGATGAAAATGTTGATATGACATTAAATAATTAAAAAATAGATACAAATGACTTGGCGTCACTA
*
4753539 TTTCATACAATCTTTTTCCGTAAAAATCGTAAAGCTGAATTAGATTTTCTCCGCAGTTAAGGCAA
66 TTTCATACAATCTTTTCCCGTAAAAATCGTAAAGCTGAATTAGATTTTCTCCGCAGTTAAGGCAA
*
4753604 TAAAATAAGAAAATAAAAAAGGAGTTAAATTCTAAGTTTAGTCCATGAATTATTGCTAAATCTGA
131 TAAAATAAGAAAATAAAAAAGGGGTTAAATTCTAAGTTTAGTCCATGAATTATTGCTAAATCTGA
4753669 GATCTAATCCATGCACTTTAATTTCACAATTTTTTTTTATCTTAGCAATGATGGTAGTTTGAGAA
196 GATCTAATCCATGCACTTTAATTTCACAATTTTTTTTTATCTTAGCAATGATGGTAGTTTGAGAA
*
4753734 ATTAGTCCAAATTGTTGCTAGTGTTAGAAACTCGATTAAGCATGAGGTTGACTT
261 ATTAGTCCAAATTGTTGATAGTGTTAGAAACTCGATTAAGCATGAGGTTGACTT
4753788 ACTAATGAGG
Statistics
Matches: 646, Mismatches: 15, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
347 4 0.01
348 147 0.23
349 60 0.09
350 435 0.67
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (350 bp):
AAGATGAAAATGTTGATATGACATTAAATAATTAAAAAATAGATACAAATGACTTGGCGTCACTA
TTTCATACAATCTTTTCCCGTAAAAATCGTAAAGCTGAATTAGATTTTCTCCGCAGTTAAGGCAA
TAAAATAAGAAAATAAAAAAGGGGTTAAATTCTAAGTTTAGTCCATGAATTATTGCTAAATCTGA
GATCTAATCCATGCACTTTAATTTCACAATTTTTTTTTATCTTAGCAATGATGGTAGTTTGAGAA
ATTAGTCCAAATTGTTGATAGTGTTAGAAACTCGATTAAGCATGAGGTTGACTTTATGGTACAAT
TGATAAAGGTTGAGGTTGACTTACT
Found at i:4756790 original size:7 final size:7
Alignment explanation
Indices: 4756778--4756804 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
4756768 GCAAATCAAG
4756778 TCCCCAC
1 TCCCCAC
4756785 TCCCCAC
1 TCCCCAC
4756792 TCCCCAC
1 TCCCCAC
4756799 TCCCCA
1 TCCCCA
4756805 GTCTTTCCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.70, G:0.00, T:0.15
Consensus pattern (7 bp):
TCCCCAC
Found at i:4756900 original size:2 final size:2
Alignment explanation
Indices: 4756893--4756926 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
4756883 ACCAACTATT
*
4756893 TC TC TC TC TC TC GC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
4756927 GCCCTTTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.03, T:0.47
Consensus pattern (2 bp):
TC
Found at i:4757635 original size:3 final size:3
Alignment explanation
Indices: 4757627--4757676 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
4757617 ACTAGATGAG
4757627 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
4757675 TC
1 TC
4757677 AAGTGATATT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:4760765 original size:15 final size:15
Alignment explanation
Indices: 4760745--4760776 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
4760735 TGTAATTATA
*
4760745 TTTTTCTTTTTAATT
1 TTTTTCTTATTAATT
4760760 TTTTTCTTATTAATT
1 TTTTTCTTATTAATT
4760775 TT
1 TT
4760777 GTATAATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTTCTTATTAATT
Found at i:4762787 original size:22 final size:21
Alignment explanation
Indices: 4762754--4762836 Score: 72
Period size: 19 Copynumber: 4.2 Consensus size: 21
4762744 AATATTTTTA
*
4762754 TTTTTTTTATTTTTAAAATAC
1 TTTTTTTAATTTTTAAAATAC
*
4762775 TTTTTTTAAATTTTTTAAAT--
1 TTTTTTT-AATTTTTAAAATAC
**
4762795 TTTAATT--TTTTTAAAATAC
1 TTTTTTTAATTTTTAAAATAC
4762814 T-TTTTTAA-TTTTAAAATA-
1 TTTTTTTAATTTTTAAAATAC
4762832 TTTTT
1 TTTTT
4762837 AAAATACTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 14
0.70 0.10 0.20
Matches are distributed among these distances:
17 9 0.18
18 4 0.08
19 14 0.29
20 5 0.10
21 7 0.14
22 10 0.20
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.66
Consensus pattern (21 bp):
TTTTTTTAATTTTTAAAATAC
Found at i:4762799 original size:16 final size:16
Alignment explanation
Indices: 4762778--4762809 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
4762768 AAAATACTTT
4762778 TTTTAAATTTTTTAAA
1 TTTTAAATTTTTTAAA
*
4762794 TTTTAATTTTTTTAAA
1 TTTTAAATTTTTTAAA
4762810 ATACTTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTTAAATTTTTTAAA
Found at i:4762837 original size:30 final size:30
Alignment explanation
Indices: 4762756--4762849 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
4762746 TATTTTTATT
* *
4762756 TTTTTTATTTTTAAAATACTTTTTTTAAAT--
1 TTTTTTAATTTTAAAATA--TTTTTAAAATAC
* *
4762786 TTTTTAAATTTT--AATTTTTTTAAAATAC
1 TTTTTTAATTTTAAAATATTTTTAAAATAC
4762814 TTTTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTTTAATTTTAAAATATTTTTAAAATAC
4762844 TTTTTT
1 TTTTTT
4762850 TTTAATTTTT
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
26 9 0.17
28 14 0.26
30 31 0.57
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (30 bp):
TTTTTTAATTTTAAAATATTTTTAAAATAC
Found at i:4763886 original size:83 final size:83
Alignment explanation
Indices: 4763747--4763910 Score: 283
Period size: 83 Copynumber: 2.0 Consensus size: 83
4763737 GTTTCGCTCT
**
4763747 TGTGTATGCTATGTTTTATCATGAATTTTGAAATTCCATTGGAAATGATTATGTGAACACTTTGG
1 TGTGTATGCTATGTTTTATCATGAATTTTGAAATTCCATTGGAAATGATTATGTGAACACTCAGG
4763812 GGGTTTAAATAGATCCCC
66 GGGTTTAAATAGATCCCC
* *
4763830 TGTGTGTGCTATGTTTTATCATGAATTTTGAAATTTCATTGGAAATGATTATGTGAACACTCAGG
1 TGTGTATGCTATGTTTTATCATGAATTTTGAAATTCCATTGGAAATGATTATGTGAACACTCAGG
*
4763895 GGTTTTAAATAGATCC
66 GGGTTTAAATAGATCC
4763911 ATTAATTTGT
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
83 76 1.00
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.40
Consensus pattern (83 bp):
TGTGTATGCTATGTTTTATCATGAATTTTGAAATTCCATTGGAAATGATTATGTGAACACTCAGG
GGGTTTAAATAGATCCCC
Found at i:4769506 original size:89 final size:89
Alignment explanation
Indices: 4769326--4769494 Score: 275
Period size: 89 Copynumber: 1.9 Consensus size: 89
4769316 AGCACCGAAC
* * *
4769326 TGAATAAGTAATTCATAAAACTAACTCGACTCACTATTAAACATGGTTTGCATAGATGGTACTCG
1 TGAATAAGTAATTCATAAAACTAACTCAACTCACGATTAAACATGGTTTACATAGATGGTACTCG
4769391 AACATAGGTATATAAGCTCTGAAT
66 AACATAGGTATATAAGCTCTGAAT
* * * *
4769415 TGAATAATTAATTCGTAAAACTAATTCAACTCACGATTAATCATGGTTTACATAGATGGTACTCG
1 TGAATAAGTAATTCATAAAACTAACTCAACTCACGATTAAACATGGTTTACATAGATGGTACTCG
4769480 AACATAGGTATATAA
66 AACATAGGTATATAA
4769495 CTTGATAATT
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
89 73 1.00
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.31
Consensus pattern (89 bp):
TGAATAAGTAATTCATAAAACTAACTCAACTCACGATTAAACATGGTTTACATAGATGGTACTCG
AACATAGGTATATAAGCTCTGAAT
Found at i:4771757 original size:146 final size:146
Alignment explanation
Indices: 4771473--4771760 Score: 549
Period size: 147 Copynumber: 2.0 Consensus size: 146
4771463 AAAGCAGCTC
4771473 TTTAATTCTAGAACTGCAACAAATTATGATTAAATTACTGAAAACAAGGCAAACCCAAATAAAAA
1 TTTAATTCTAGAACTGCAACAAATTATGATTAAATTACTGAAAACAAGGCAAACCCAAATAAAAA
*
4771538 ATTCTCAAAAAATTAAACTTCCCCATTCTAAATCATTTAGTCTTCCAATAAAATCCCAAACAATC
66 ATTCTCAAAAAATTAAACTTCCCAATTCTAAATCATTTAGTCTTCCAATAAAATCCCAAACAATC
4771603 ATTAAAAAAAAGGTAG
131 ATTAAAAAAAAGGTAG
*
4771619 TTTAATTCTAGAACTGCAACAAATTATGATTAAATTACTGAAAACAAGTCAAACCCAAATAAAAA
1 TTTAATTCTAGAACTGCAACAAATTATGATTAAATTACTGAAAACAAGGCAAACCCAAAT-AAAA
4771684 AATTCTCAAAAAATTAAACTTCCCAATTCTAAATCATTTAGTCTTCCAATAAAATCCCAAACAAT
65 AATTCTCAAAAAATTAAACTTCCCAATTCTAAATCATTTAGTCTTCCAATAAAATCCCAAACAAT
4771749 CATTAAAAAAAA
130 CATTAAAAAAAA
4771761 AAAGGTAGTA
Statistics
Matches: 139, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
146 59 0.42
147 80 0.58
ACGTcount: A:0.49, C:0.18, G:0.06, T:0.27
Consensus pattern (146 bp):
TTTAATTCTAGAACTGCAACAAATTATGATTAAATTACTGAAAACAAGGCAAACCCAAATAAAAA
ATTCTCAAAAAATTAAACTTCCCAATTCTAAATCATTTAGTCTTCCAATAAAATCCCAAACAATC
ATTAAAAAAAAGGTAG
Found at i:4773134 original size:24 final size:23
Alignment explanation
Indices: 4773102--4773157 Score: 58
Period size: 24 Copynumber: 2.4 Consensus size: 23
4773092 ATTGGACCTG
* * *
4773102 AATTTTAAAATATAAATAGACTAA
1 AATTCTAAAAAATAAATA-AATAA
* *
4773126 AATTCTAAAAAATATATAAATTA
1 AATTCTAAAAAATAAATAAATAA
4773149 AATTCTAAA
1 AATTCTAAA
4773158 TTTACGGATA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 12 0.44
24 15 0.56
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (23 bp):
AATTCTAAAAAATAAATAAATAA
Found at i:4775520 original size:3 final size:3
Alignment explanation
Indices: 4775512--4775538 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
4775502 GTTGATCCTT
4775512 ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC
4775539 GTCTTCGCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
ATC
Found at i:4784869 original size:20 final size:20
Alignment explanation
Indices: 4784844--4784883 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
4784834 TTAAAAACCA
4784844 GCCTTCTACAGCCACTGGTT
1 GCCTTCTACAGCCACTGGTT
* *
4784864 GCCTTCTACGGCCGCTGGTT
1 GCCTTCTACAGCCACTGGTT
4784884 ATGTGGGTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.10, C:0.35, G:0.25, T:0.30
Consensus pattern (20 bp):
GCCTTCTACAGCCACTGGTT
Found at i:4791500 original size:16 final size:16
Alignment explanation
Indices: 4791461--4791502 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
4791451 TGATTGTACT
4791461 ATATTTTTCTATTTCTA
1 ATATTTTT-TATTTCTA
4791478 ATA-TTTTTATTT-TA
1 ATATTTTTTATTTCTA
4791492 ATAATTTTTTA
1 AT-ATTTTTTA
4791503 ATAATTTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 4 0.17
15 6 0.26
16 10 0.43
17 3 0.13
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.67
Consensus pattern (16 bp):
ATATTTTTTATTTCTA
Found at i:4791516 original size:12 final size:12
Alignment explanation
Indices: 4791483--4791516 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
4791473 TTCTAATATT
4791483 TTTATTTTAATAA
1 TTTA-TTTAATAA
4791496 TTT-TTTAATAA
1 TTTATTTAATAA
4791507 TTTATTTAAT
1 TTTATTTAAT
4791517 CAAACTGGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 11 0.55
12 6 0.30
13 3 0.15
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
TTTATTTAATAA
Found at i:4791560 original size:17 final size:18
Alignment explanation
Indices: 4791527--4791561 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
4791517 CAAACTGGAC
4791527 CAACTACTCGAACCAATT
1 CAACTACTCGAACCAATT
*
4791545 CAACTACT-GGACCAATT
1 CAACTACTCGAACCAATT
4791562 ATAAAAACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.37, C:0.31, G:0.09, T:0.23
Consensus pattern (18 bp):
CAACTACTCGAACCAATT
Found at i:4798171 original size:3 final size:3
Alignment explanation
Indices: 4798163--4798193 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
4798153 ACAGCCACAC
4798163 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
4798194 TTCTCTCAAG
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:4802031 original size:31 final size:31
Alignment explanation
Indices: 4801972--4802041 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 31
4801962 GAAACCTTTA
* * * * *
4801972 AAGTTTAGGCTTCAATGTGAGAATAATTGTT
1 AAGTTTAGGCTCCAATATAAGAACAATTGTC
*
4802003 AAGTTTATGCTCCAATATAAGAACAATTGTC
1 AAGTTTAGGCTCCAATATAAGAACAATTGTC
4802034 AAGTTTAG
1 AAGTTTAG
4802042 AGATAAAGTT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.36
Consensus pattern (31 bp):
AAGTTTAGGCTCCAATATAAGAACAATTGTC
Found at i:4804853 original size:30 final size:31
Alignment explanation
Indices: 4804800--4804863 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 31
4804790 AAAAAAAGAA
* *
4804800 TTTGGATAGTTGATTGACTTAAATGAAAATT
1 TTTGAATAGTTGAATGACTTAAATGAAAATT
* * *
4804831 TTTGAATAGTTTAATGA-TTAAATTATAATT
1 TTTGAATAGTTGAATGACTTAAATGAAAATT
4804861 TTT
1 TTT
4804864 TTTAGTTAAG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
30 14 0.50
31 14 0.50
ACGTcount: A:0.36, C:0.02, G:0.14, T:0.48
Consensus pattern (31 bp):
TTTGAATAGTTGAATGACTTAAATGAAAATT
Found at i:4808573 original size:22 final size:22
Alignment explanation
Indices: 4808548--4808590 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
4808538 TAATTCCAAG
4808548 TTTAAATT-TGTACTAACTATTC
1 TTTAAATTATGT-CTAACTATTC
**
4808570 TTTATTTTATGTCTAACTATT
1 TTTAAATTATGTCTAACTATT
4808591 GTAATATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.28, C:0.12, G:0.05, T:0.56
Consensus pattern (22 bp):
TTTAAATTATGTCTAACTATTC
Found at i:4812037 original size:24 final size:21
Alignment explanation
Indices: 4811981--4812038 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 21
4811971 AATTCAGGGT
4811981 TTTAATATTTATTTATAATTA
1 TTTAATATTTATTTATAATTA
*
4812002 TTTAAT-TATATTTA-AATTAAA
1 TTTAATATTTATTTATAATT--A
4812023 TTGTTAATATTTATTT
1 -T-TTAATATTTATTT
4812039 TTAAGTTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
19 4 0.13
20 7 0.23
21 7 0.23
22 1 0.03
23 5 0.17
24 6 0.20
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (21 bp):
TTTAATATTTATTTATAATTA
Found at i:4813385 original size:16 final size:16
Alignment explanation
Indices: 4813366--4813399 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4813356 CATTTCAAGT
4813366 TTAGGGTAACTTTGGG
1 TTAGGGTAACTTTGGG
* *
4813382 TTAGGGTCATTTTGGG
1 TTAGGGTAACTTTGGG
4813398 TT
1 TT
4813400 GTACATTTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.15, C:0.06, G:0.35, T:0.44
Consensus pattern (16 bp):
TTAGGGTAACTTTGGG
Found at i:4814385 original size:37 final size:37
Alignment explanation
Indices: 4814328--4814447 Score: 172
Period size: 37 Copynumber: 3.2 Consensus size: 37
4814318 TATGATCACT
*
4814328 TATCAC-TTGTC-CCTGATCAGATAAGTGTAGCCACC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
* *
4814363 TATCACTTTGTTTCTTGATCAGATAAGTGTAGCCACT
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
*
4814400 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCGAAGC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCC--ACC
4814439 TATCACTTT
1 TATCACTTT
4814448 TCACTTTTCA
Statistics
Matches: 75, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
35 6 0.08
36 4 0.05
37 55 0.73
39 10 0.13
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.36
Consensus pattern (37 bp):
TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
Found at i:4814475 original size:52 final size:52
Alignment explanation
Indices: 4814396--4814612 Score: 293
Period size: 52 Copynumber: 4.2 Consensus size: 52
4814386 TAAGTGTAGC
* * *
4814396 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTTT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
4814449 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* *
4814501 CAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* ** *
4814547 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
4814599 CACTTTGTCACTTG
1 CACTTT-TCACTTG
4814613 ATCAGAAGTA
Statistics
Matches: 145, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
46 43 0.30
49 1 0.01
52 86 0.59
53 15 0.10
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (52 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
Found at i:4814516 original size:46 final size:46
Alignment explanation
Indices: 4814448--4814618 Score: 227
Period size: 46 Copynumber: 3.6 Consensus size: 46
4814438 CTATCACTTT
*
4814448 TCACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTA
1 TCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTA
*
4814493 TCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTA
1 TCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTA
* **
4814539 TTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTA
1 TCACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTA
*
4814591 CCACTTATCACTTTGTCACTTGATCAGA
1 TCACTTATCACTTTGTCACTTGATCAGA
4814619 AGTACTCAAA
Statistics
Matches: 111, Mismatches: 8, Indels: 13
0.84 0.06 0.10
Matches are distributed among these distances:
45 10 0.09
46 59 0.53
48 1 0.01
50 1 0.01
52 40 0.36
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.35
Consensus pattern (46 bp):
TCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTA
Found at i:4814562 original size:98 final size:98
Alignment explanation
Indices: 4814395--4814618 Score: 376
Period size: 98 Copynumber: 2.3 Consensus size: 98
4814385 ATAAGTGTAG
* * * *
4814395 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTTTCACTTTTCACT
1 CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACT
*
4814460 TGTCACTTGATCAGATAAGTGTAGCCGAAGCTA
66 TGTCACTTGATCAGATAAGTGTAGCCAAAGCTA
* *
4814493 TCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACT
1 CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACT
*
4814558 TGTCACTTGATCAGATAAGTGTAGCTAAAGCTA
66 TGTCACTTGATCAGATAAGTGTAGCCAAAGCTA
4814591 CCACTTATCACTTTGTCACTTGATCAGA
1 CCACTTATCACTTTGTCACTTGATCAGA
4814619 AGTACTCAAA
Statistics
Matches: 117, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
98 117 1.00
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (98 bp):
CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACT
TGTCACTTGATCAGATAAGTGTAGCCAAAGCTA
Found at i:4817796 original size:49 final size:50
Alignment explanation
Indices: 4817741--4817944 Score: 241
Period size: 49 Copynumber: 4.0 Consensus size: 50
4817731 TTCGTTTTCT
*
4817741 CGATGCCATAGTCCAACTATGGTCTTACACGTAATCACA-AATCACATAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACATAC
* * *
4817790 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACA-TATCACTTAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACATAC
* *
4817839 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATATCACACATATCACTTAC
1 CGATGCCATAGCCCAACTATGGTCTTACAC-G--T---A-ATCACACA-ATCACATAC
* * *
4817897 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCACAT
1 CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACAT
4817945 GTTCACATGT
Statistics
Matches: 136, Mismatches: 10, Indels: 17
0.83 0.06 0.10
Matches are distributed among these distances:
49 74 0.54
50 7 0.05
51 7 0.05
52 1 0.01
55 1 0.01
56 6 0.04
57 1 0.01
58 39 0.29
ACGTcount: A:0.32, C:0.30, G:0.14, T:0.24
Consensus pattern (50 bp):
CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACATAC
Found at i:4817911 original size:58 final size:59
Alignment explanation
Indices: 4817825--4817943 Score: 231
Period size: 58 Copynumber: 2.0 Consensus size: 59
4817815 TACACGAAAT
4817825 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACAT-ATCA
1 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
4817883 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
1 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
4817942 CA
1 CA
4817944 TGTTCACATG
Statistics
Matches: 60, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
58 54 0.90
59 6 0.10
ACGTcount: A:0.32, C:0.31, G:0.13, T:0.24
Consensus pattern (59 bp):
CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
Found at i:4817924 original size:28 final size:28
Alignment explanation
Indices: 4817834--4817924 Score: 80
Period size: 28 Copynumber: 3.2 Consensus size: 28
4817824 TCACATATCA
4817834 CTTACCGATGCCATAGCCCAGCTATGGT
1 CTTACCGATGCCATAGCCCAGCTATGGT
* * **
4817862 CTTACACGGAAT-CACATATCACA-CATAT-CA
1 CTTAC-C-G-ATGC-CATAGCCCAGC-TATGGT
4817892 CTTACCGATGCCATAGCCCAGCTATGGT
1 CTTACCGATGCCATAGCCCAGCTATGGT
4817920 CTTAC
1 CTTAC
4817925 ACGGAATCAC
Statistics
Matches: 47, Mismatches: 8, Indels: 16
0.66 0.11 0.23
Matches are distributed among these distances:
27 12 0.26
28 13 0.28
29 2 0.04
30 8 0.17
31 12 0.26
ACGTcount: A:0.27, C:0.32, G:0.15, T:0.25
Consensus pattern (28 bp):
CTTACCGATGCCATAGCCCAGCTATGGT
Found at i:4819258 original size:37 final size:37
Alignment explanation
Indices: 4819201--4819320 Score: 172
Period size: 37 Copynumber: 3.2 Consensus size: 37
4819191 TATGATCACT
*
4819201 TATCAC-TTGTC-CCTGATCAGATAAGTGTAGCCACC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
* *
4819236 TATCACTTTGTTTCTTGATCAGATAAGTGTAGCCACT
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
*
4819273 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCGAAGC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCC--ACC
4819312 TATCACTTT
1 TATCACTTT
4819321 TCACTTTTCA
Statistics
Matches: 75, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
35 6 0.08
36 4 0.05
37 55 0.73
39 10 0.13
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.36
Consensus pattern (37 bp):
TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
Found at i:4819348 original size:52 final size:52
Alignment explanation
Indices: 4819269--4819485 Score: 293
Period size: 52 Copynumber: 4.2 Consensus size: 52
4819259 TAAGTGTAGC
* * *
4819269 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTTT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
4819322 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* *
4819374 CAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* ** *
4819420 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
4819472 CACTTTGTCACTTG
1 CACTTT-TCACTTG
4819486 ATCAGAAGTA
Statistics
Matches: 145, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
46 43 0.30
49 1 0.01
52 86 0.59
53 15 0.10
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (52 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
Found at i:4819389 original size:46 final size:46
Alignment explanation
Indices: 4819321--4819491 Score: 227
Period size: 46 Copynumber: 3.6 Consensus size: 46
4819311 CTATCACTTT
*
4819321 TCACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTA
1 TCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTA
*
4819366 TCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTA
1 TCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTA
* **
4819412 TTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTA
1 TCACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTA
*
4819464 CCACTTATCACTTTGTCACTTGATCAGA
1 TCACTTATCACTTTGTCACTTGATCAGA
4819492 AGTACTCAAA
Statistics
Matches: 111, Mismatches: 8, Indels: 13
0.84 0.06 0.10
Matches are distributed among these distances:
45 10 0.09
46 59 0.53
48 1 0.01
50 1 0.01
52 40 0.36
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.35
Consensus pattern (46 bp):
TCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTA
Found at i:4819435 original size:98 final size:98
Alignment explanation
Indices: 4819268--4819491 Score: 376
Period size: 98 Copynumber: 2.3 Consensus size: 98
4819258 ATAAGTGTAG
* * * *
4819268 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTTTCACTTTTCACT
1 CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACT
*
4819333 TGTCACTTGATCAGATAAGTGTAGCCGAAGCTA
66 TGTCACTTGATCAGATAAGTGTAGCCAAAGCTA
* *
4819366 TCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACT
1 CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACT
*
4819431 TGTCACTTGATCAGATAAGTGTAGCTAAAGCTA
66 TGTCACTTGATCAGATAAGTGTAGCCAAAGCTA
4819464 CCACTTATCACTTTGTCACTTGATCAGA
1 CCACTTATCACTTTGTCACTTGATCAGA
4819492 AGTACTCAAA
Statistics
Matches: 117, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
98 117 1.00
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (98 bp):
CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACT
TGTCACTTGATCAGATAAGTGTAGCCAAAGCTA
Found at i:4829162 original size:28 final size:28
Alignment explanation
Indices: 4829109--4829163 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
4829099 TATATTAATG
* * *
4829109 ATAAAAAAAAGTAAACTTTTCTTTATCA
1 ATAAAAAAAAGTAAAATTGTCATTATCA
4829137 ATAAAATAAAA-TAAAATTGTCATTATC
1 ATAAAA-AAAAGTAAAATTGTCATTATC
4829164 CCACGAAACT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 19 0.83
29 4 0.17
ACGTcount: A:0.53, C:0.09, G:0.04, T:0.35
Consensus pattern (28 bp):
ATAAAAAAAAGTAAAATTGTCATTATCA
Found at i:4829359 original size:26 final size:27
Alignment explanation
Indices: 4829321--4829373 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
4829311 TTTTCCATAA
4829321 TATGGAAATCAAAATCAATGAAGACTT
1 TATGGAAATCAAAATCAATGAAGACTT
* *
4829348 TATGTAAA-CAAATTCAATGAAGACTT
1 TATGGAAATCAAAATCAATGAAGACTT
4829374 GCAAATGCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 17 0.71
27 7 0.29
ACGTcount: A:0.47, C:0.11, G:0.13, T:0.28
Consensus pattern (27 bp):
TATGGAAATCAAAATCAATGAAGACTT
Found at i:4829773 original size:16 final size:17
Alignment explanation
Indices: 4829754--4829786 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
4829744 GATTGAGCAA
4829754 ATCAAAT-CAAGATTCG
1 ATCAAATACAAGATTCG
*
4829770 ATCAAATACAGGATTCG
1 ATCAAATACAAGATTCG
4829787 TCGATGACGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.42, C:0.18, G:0.15, T:0.24
Consensus pattern (17 bp):
ATCAAATACAAGATTCG
Found at i:4830430 original size:50 final size:50
Alignment explanation
Indices: 4830371--4830466 Score: 138
Period size: 50 Copynumber: 1.9 Consensus size: 50
4830361 TTAATTATTA
*
4830371 AATGCGTTTGGAAGTAGCGCCATACTTATTACATTCCGTAAACCTCTCCC
1 AATGCGTTTGGAAGCAGCGCCATACTTATTACATTCCGTAAACCTCTCCC
* * * * *
4830421 AATGCGTTTGGGAGCAGGGCTATACTTATTACCTTCCGTAAGCCTC
1 AATGCGTTTGGAAGCAGCGCCATACTTATTACATTCCGTAAACCTC
4830467 CTCATGCATC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 40 1.00
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (50 bp):
AATGCGTTTGGAAGCAGCGCCATACTTATTACATTCCGTAAACCTCTCCC
Found at i:4830673 original size:10 final size:11
Alignment explanation
Indices: 4830646--4830674 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
4830636 CCAAAATTTT
4830646 TATTTTTAAAA
1 TATTTTTAAAA
4830657 TATTTTTAAAA
1 TATTTTTAAAA
4830668 TATTTTT
1 TATTTTT
4830675 TTTATTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TATTTTTAAAA
Found at i:4830707 original size:22 final size:21
Alignment explanation
Indices: 4830659--4830710 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
4830649 TTTTAAAATA
*
4830659 TTTTTAAAATATTTTTTTTAT
1 TTTTTAAAATATTTTTTGTAT
*
4830680 TTTTTAAAAT-TTTTTTGGTGT
1 TTTTTAAAATATTTTTT-GTAT
4830701 TTATTTAAAA
1 TT-TTTAAAA
4830711 AATGGGACGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 6 0.22
21 14 0.52
22 7 0.26
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (21 bp):
TTTTTAAAATATTTTTTGTAT
Found at i:4839150 original size:9 final size:9
Alignment explanation
Indices: 4839127--4839161 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
4839117 GACTTATAAC
*
4839127 AGCATGATA
1 AGCATTATA
*
4839136 ATCATTATA
1 AGCATTATA
4839145 AGCATTATA
1 AGCATTATA
4839154 AGCATTAT
1 AGCATTAT
4839162 CGATAAAACA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.34
Consensus pattern (9 bp):
AGCATTATA
Found at i:4841388 original size:17 final size:17
Alignment explanation
Indices: 4841366--4841400 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
4841356 AAATGCCAAA
* *
4841366 ACTACAATTACAAGTAT
1 ACTACAAGTACAAATAT
4841383 ACTACAAGTACAAATAT
1 ACTACAAGTACAAATAT
4841400 A
1 A
4841401 TGCCTGACCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.51, C:0.17, G:0.06, T:0.26
Consensus pattern (17 bp):
ACTACAAGTACAAATAT
Found at i:4844507 original size:11 final size:11
Alignment explanation
Indices: 4844491--4844515 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4844481 GGGTTCTATG
4844491 TAATAATATTA
1 TAATAATATTA
4844502 TAATAATATTA
1 TAATAATATTA
4844513 TAA
1 TAA
4844516 AAATTAAAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
TAATAATATTA
Found at i:4849598 original size:18 final size:18
Alignment explanation
Indices: 4849564--4849598 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4849554 TAAACATTAA
*
4849564 ATTTAAAATAATATAAAT
1 ATTTAAAAAAATATAAAT
*
4849582 ATTTAAAAAAATCTAAA
1 ATTTAAAAAAATATAAA
4849599 AAAATGTGGA
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:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (18 bp):
ATTTAAAAAAATATAAAT
Found at i:4852175 original size:5 final size:6
Alignment explanation
Indices: 4852160--4852189 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
4852150 GAATCAGATT
4852160 TTTTTA TTTTTA TTTTTA TTTTTAA TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTT-A TTTTT
4852190 TTTAATTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTA
Found at i:4863276 original size:3 final size:3
Alignment explanation
Indices: 4863268--4863326 Score: 73
Period size: 3 Copynumber: 19.3 Consensus size: 3
4863258 ATGAAAAACC
* * *
4863268 ATA ATA ATA ATA ATTA ATA ATA ATA ATA GTA ATA ATA ATT GTA ATA
1 ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
4863314 ATA AAA ATA ATA A
1 ATA ATA ATA ATA A
4863327 GTCCGTTGTT
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
3 44 0.94
4 3 0.06
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:4863806 original size:15 final size:15
Alignment explanation
Indices: 4863786--4863824 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
4863776 TTTTCTCGAA
4863786 TCGAGTCAAAAAATT
1 TCGAGTCAAAAAATT
* * *
4863801 TCGAGTTACAAATTT
1 TCGAGTCAAAAAATT
4863816 TCGAGTCAA
1 TCGAGTCAA
4863825 TGTTGTGCTA
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (15 bp):
TCGAGTCAAAAAATT
Found at i:4869975 original size:13 final size:12
Alignment explanation
Indices: 4869957--4869989 Score: 57
Period size: 12 Copynumber: 2.7 Consensus size: 12
4869947 GAGAAAACCA
4869957 AAAAAAAATCTTT
1 AAAAAAAAT-TTT
4869970 AAAAAAAATTTT
1 AAAAAAAATTTT
4869982 AAAAAAAA
1 AAAAAAAA
4869990 ATTCTATGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (12 bp):
AAAAAAAATTTT
Found at i:4869990 original size:13 final size:13
Alignment explanation
Indices: 4869956--4869992 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
4869946 TGAGAAAACC
4869956 AAAAAAAAATCTTT
1 AAAAAAAAAT-TTT
4869970 -AAAAAAAATTTT
1 AAAAAAAAATTTT
4869982 AAAAAAAAATT
1 AAAAAAAAATT
4869993 CTATGTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 3 0.14
13 19 0.86
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (13 bp):
AAAAAAAAATTTT
Found at i:4871810 original size:14 final size:14
Alignment explanation
Indices: 4871768--4871818 Score: 59
Period size: 14 Copynumber: 3.7 Consensus size: 14
4871758 TTTTACCCCG
* *
4871768 AACCCCAAACACTA
1 AACCTCAAACCCTA
*
4871782 AACCT-AAATCCTA
1 AACCTCAAACCCTA
*
4871795 AACTTCAAACCCTA
1 AACCTCAAACCCTA
4871809 AACCTCAAAC
1 AACCTCAAAC
4871819 TCCAAACTTC
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
13 10 0.33
14 20 0.67
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.16
Consensus pattern (14 bp):
AACCTCAAACCCTA
Found at i:4871810 original size:21 final size:21
Alignment explanation
Indices: 4871784--4871825 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
4871774 AAACACTAAA
*
4871784 CCTAAATCCT-AAACTTCAAAC
1 CCTAAA-CCTCAAACTCCAAAC
4871805 CCTAAACCTCAAACTCCAAAC
1 CCTAAACCTCAAACTCCAAAC
4871826 TTCAACTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.43, C:0.38, G:0.00, T:0.19
Consensus pattern (21 bp):
CCTAAACCTCAAACTCCAAAC
Found at i:4871825 original size:14 final size:15
Alignment explanation
Indices: 4871779--4871830 Score: 58
Period size: 14 Copynumber: 3.7 Consensus size: 15
4871769 ACCCCAAACA
4871779 CTAAACCT-AAA-TC
1 CTAAACCTCAAACTC
*
4871792 CTAAACTTCAAAC-C
1 CTAAACCTCAAACTC
4871806 CTAAACCTCAAACTC
1 CTAAACCTCAAACTC
*
4871821 C-AAACTTCAA
1 CTAAACCTCAA
4871831 CTCTAAATCT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
13 7 0.21
14 24 0.73
15 2 0.06
ACGTcount: A:0.44, C:0.35, G:0.00, T:0.21
Consensus pattern (15 bp):
CTAAACCTCAAACTC
Found at i:4880148 original size:24 final size:23
Alignment explanation
Indices: 4880121--4880175 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
4880111 AAAAAATTGT
4880121 ATAAAATTATTAAAATAAAATAAA
1 ATAAAATTATTAAAA-AAAATAAA
* * *
4880145 ATAAATATTTTTTAAAAAATTAAA
1 ATAAA-ATTATTAAAAAAAATAAA
*
4880169 AAAAAAT
1 ATAAAAT
4880176 ATACGAGGGC
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 2 0.08
24 16 0.62
25 8 0.31
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (23 bp):
ATAAAATTATTAAAAAAAATAAA
Found at i:4881181 original size:16 final size:16
Alignment explanation
Indices: 4881160--4881193 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
4881150 CTTCAACCTC
*
4881160 TCATTTCCTTCTCATT
1 TCATTTCCTCCTCATT
4881176 TCATTTCCTCCTCATT
1 TCATTTCCTCCTCATT
4881192 TC
1 TC
4881194 CTCTCCGTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.12, C:0.35, G:0.00, T:0.53
Consensus pattern (16 bp):
TCATTTCCTCCTCATT
Found at i:4882091 original size:13 final size:11
Alignment explanation
Indices: 4882063--4882096 Score: 68
Period size: 11 Copynumber: 3.1 Consensus size: 11
4882053 ATTTTTTTCT
4882063 CATATATTGTA
1 CATATATTGTA
4882074 CATATATTGTA
1 CATATATTGTA
4882085 CATATATTGTA
1 CATATATTGTA
4882096 C
1 C
4882097 TAATTCCTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.35, C:0.12, G:0.09, T:0.44
Consensus pattern (11 bp):
CATATATTGTA
Found at i:4883330 original size:20 final size:20
Alignment explanation
Indices: 4883305--4883344 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
4883295 AATATTTTCC
* *
4883305 AGTAAATCATTTTACAGAAA
1 AGTAAAACACTTTACAGAAA
*
4883325 AGTAAAACACTTTCCAGAAA
1 AGTAAAACACTTTACAGAAA
4883345 TTATTTTACG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.15, G:0.10, T:0.25
Consensus pattern (20 bp):
AGTAAAACACTTTACAGAAA
Found at i:4890569 original size:3 final size:3
Alignment explanation
Indices: 4890561--4890594 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
4890551 AATGTACATT
4890561 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
4890595 AATAATAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.35
Consensus pattern (3 bp):
TCA
Done.