Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12
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: 24583705
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1509421 characters in sequence are not A, C, G, or T
File 13 of 75
Found at i:3730582 original size:22 final size:22
Alignment explanation
Indices: 3730552--3730604 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
3730542 ATTTCCTCTC
3730552 AATTCCTCTCAATTTCCTTCCAA
1 AATT-CTCTCAATTTCCTTCCAA
3730575 AATTCTCTCAATTTCCTTCCAA
1 AATTCTCTCAATTTCCTTCCAA
3730597 AATTCTCT
1 AATTCTCT
3730605 TAAATCCATA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 26 0.87
23 4 0.13
ACGTcount: A:0.26, C:0.32, G:0.00, T:0.42
Consensus pattern (22 bp):
AATTCTCTCAATTTCCTTCCAA
Found at i:3730628 original size:40 final size:40
Alignment explanation
Indices: 3730582--3730671 Score: 162
Period size: 40 Copynumber: 2.2 Consensus size: 40
3730572 CAAAATTCTC
* *
3730582 TCAATTTCCTTCCAAAATTCTCTTAAATCCATATTTAATT
1 TCAATTTCCTTCCAAAAGTCTCTCAAATCCATATTTAATT
3730622 TCAATTTCCTTCCAAAAGTCTCTCAAATCCATATTTAATT
1 TCAATTTCCTTCCAAAAGTCTCTCAAATCCATATTTAATT
3730662 TCAATTTCCT
1 TCAATTTCCT
3730672 CTCAATTTCC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.31, C:0.24, G:0.01, T:0.43
Consensus pattern (40 bp):
TCAATTTCCTTCCAAAAGTCTCTCAAATCCATATTTAATT
Found at i:3731849 original size:7 final size:7
Alignment explanation
Indices: 3731839--3731876 Score: 60
Period size: 7 Copynumber: 5.4 Consensus size: 7
3731829 ATTCGATTGA
3731839 TATTTAG
1 TATTTAG
3731846 TATTTAG
1 TATTTAG
3731853 TATTTAG
1 TATTTAG
3731860 TATTTAG
1 TATTTAG
3731867 T-TTTATG
1 TATTTA-G
3731874 TAT
1 TAT
3731877 ATAACTAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 4 0.14
7 24 0.83
8 1 0.03
ACGTcount: A:0.26, C:0.00, G:0.13, T:0.61
Consensus pattern (7 bp):
TATTTAG
Found at i:3733029 original size:29 final size:29
Alignment explanation
Indices: 3732990--3733066 Score: 145
Period size: 29 Copynumber: 2.7 Consensus size: 29
3732980 AAAACAGAAA
*
3732990 TTAATTAAAAACCCTAACCCTAACTTAAT
1 TTAATTAAAAACCCTAACCCTAACCTAAT
3733019 TTAATTAAAAACCCTAACCCTAACCTAAT
1 TTAATTAAAAACCCTAACCCTAACCTAAT
3733048 TTAATTAAAAACCCTAACC
1 TTAATTAAAAACCCTAACC
3733067 NNNNNNNNNN
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 47 1.00
ACGTcount: A:0.45, C:0.26, G:0.00, T:0.29
Consensus pattern (29 bp):
TTAATTAAAAACCCTAACCCTAACCTAAT
Found at i:3733629 original size:17 final size:18
Alignment explanation
Indices: 3733588--3733629 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
3733578 TTTACTAACC
* *
3733588 ATTAATACAATTTTTTGA
1 ATTAATACAATTTTATCA
*
3733606 GTTAATACAA-TTTATCA
1 ATTAATACAATTTTATCA
3733623 ATTAATA
1 ATTAATA
3733630 ATTGCACAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.43, C:0.07, G:0.05, T:0.45
Consensus pattern (18 bp):
ATTAATACAATTTTATCA
Found at i:3737305 original size:6 final size:6
Alignment explanation
Indices: 3737258--3737398 Score: 61
Period size: 6 Copynumber: 22.8 Consensus size: 6
3737248 AATATTGAAA
* * * * *
3737258 TAAAAT TAAACT TCAAAT CAAATAT AAAAAT TAAGCAT TAAAAT TAAAAT
1 TAAAAT TAAAAT TAAAAT TAAA-AT TAAAAT TAA-AAT TAAAAT TAAAAT
* * * * * * *
3737308 T-ACAT ATAAGAT ATATAAT TAAAA- TAAAAT TATAAAC TACATT TAATAT
1 TAAAAT -TAAAAT -TAAAAT TAAAAT TAAAAT TA-AAAT TAAAAT TAAAAT
* * * * *
3737357 ATAAAAG TAAAAG TAAAAT TAAAAC TATATT TAAAAT TAAAA
1 -TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAAA
3737399 AGAATTACAT
Statistics
Matches: 98, Mismatches: 30, Indels: 14
0.69 0.21 0.10
Matches are distributed among these distances:
5 8 0.08
6 63 0.64
7 27 0.28
ACGTcount: A:0.60, C:0.06, G:0.03, T:0.32
Consensus pattern (6 bp):
TAAAAT
Found at i:3737359 original size:37 final size:37
Alignment explanation
Indices: 3737296--3737398 Score: 120
Period size: 37 Copynumber: 2.8 Consensus size: 37
3737286 AATTAAGCAT
* * * *
3737296 TAAAATTAAAATTACATATAAGATATATAATTAAAA-
1 TAAAATTAAAACTACATTTAAGATATAAAAGTAAAAG
*
3737332 TAAAATTATAAACTACATTTAATATATAAAAGTAAAAG
1 TAAAATTA-AAACTACATTTAAGATATAAAAGTAAAAG
* *
3737370 TAAAATTAAAACTATATTTAAAAT-TAAAA
1 TAAAATTAAAACTACATTTAAGATATAAAA
3737399 AGAATTACAT
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
36 13 0.22
37 37 0.64
38 8 0.14
ACGTcount: A:0.60, C:0.04, G:0.03, T:0.33
Consensus pattern (37 bp):
TAAAATTAAAACTACATTTAAGATATAAAAGTAAAAG
Found at i:3737531 original size:14 final size:13
Alignment explanation
Indices: 3737512--3737550 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
3737502 TTGTTTCATT
3737512 GAAAATGACTTTA
1 GAAAATGACTTTA
*
3737525 GGAAAATGATTTTTA
1 -GAAAATGA-CTTTA
3737540 GAAAATGACTT
1 GAAAATGACTT
3737551 ACTTTCCTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
13 2 0.09
14 16 0.73
15 4 0.18
ACGTcount: A:0.44, C:0.05, G:0.18, T:0.33
Consensus pattern (13 bp):
GAAAATGACTTTA
Found at i:3738123 original size:16 final size:17
Alignment explanation
Indices: 3738099--3738134 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
3738089 ATGTGAAGAA
3738099 TATTATTTAAAA-TTAT
1 TATTATTTAAAATTTAT
*
3738115 TATTTTTTAAAATTTAT
1 TATTATTTAAAATTTAT
3738132 TAT
1 TAT
3738135 CAAAATAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TATTATTTAAAATTTAT
Found at i:3738175 original size:16 final size:19
Alignment explanation
Indices: 3738144--3738205 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 19
3738134 TCAAAATAAA
*
3738144 ATTAAAATATTAAATAATTT
1 ATTAATATATT-AATAATTT
3738164 ATTAA-A-A-TAATAAATTAT
1 ATTAATATATTAAT-AATT-T
3738182 ATTAATTATATTAATAATTT
1 ATTAA-TATATTAATAATTT
3738202 ATTA
1 ATTA
3738206 TATGGCTAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
16 3 0.08
17 5 0.14
18 7 0.19
19 1 0.03
20 11 0.31
21 5 0.14
22 4 0.11
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
ATTAATATATTAATAATTT
Found at i:3738843 original size:16 final size:16
Alignment explanation
Indices: 3738806--3738845 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
3738796 TTAATAAAAT
* *
3738806 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
3738822 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
3738838 TAAAATTA
1 TAAAATTA
3738846 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:3738924 original size:59 final size:59
Alignment explanation
Indices: 3738856--3738995 Score: 271
Period size: 59 Copynumber: 2.4 Consensus size: 59
3738846 TCAAATTATT
*
3738856 AATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
3738915 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
3738974 AATTATTAATTGTATTAATTGT
1 AATTATTAATTGTATTAATTGT
3738996 ATTAATTGTT
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
59 80 1.00
ACGTcount: A:0.39, C:0.04, G:0.09, T:0.47
Consensus pattern (59 bp):
AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
Found at i:3738989 original size:9 final size:9
Alignment explanation
Indices: 3738977--3739004 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
3738967 TTTATCAAAT
3738977 TATTAATTG
1 TATTAATTG
3738986 TATTAATTG
1 TATTAATTG
3738995 TATTAATTG
1 TATTAATTG
3739004 T
1 T
3739005 TGTAACAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:3739128 original size:24 final size:22
Alignment explanation
Indices: 3739101--3739144 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 22
3739091 AAATAAACTT
3739101 AAAATAAAAAAATATTATATTTTA
1 AAAAT-AAAAAATA-TATATTTTA
3739125 AAAATAAAAAATATATATTT
1 AAAATAAAAAATATATATTT
3739145 AATATTTTCC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 8 0.40
24 5 0.25
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (22 bp):
AAAATAAAAAATATATATTTTA
Found at i:3740698 original size:417 final size:416
Alignment explanation
Indices: 3739918--3740755 Score: 1658
Period size: 417 Copynumber: 2.0 Consensus size: 416
3739908 CAATTCCTCC
*
3739918 ACATCTAAGAACCACTTGTCCTGGCCAGGTCTCTTTCTCATCTCTCTCTCCCTTCCTTTTTGTCC
1 ACATCCAAGAACCACTTGTCCTGGCCAGGTCTCTTTCTCATCTCTCTCTCCCTTCCTTTTTGTCC
3739983 TTTGATTTATTGAAGTAAGGAATAATTTGTTCAGATATATTATGTACAAGGCGGCGTGGCCAGGA
66 TTTGATTTATTGAAGTAAGGAATAATTTGTTCAGATATATTATGTACAAGGCGGCGTGGCCAGGA
3740048 ACATAGCCGAATGCATGACAAAACTTGGAGCTCAGCCTTTTATGATTAGTGCTTTGGGATTTGAC
131 ACATAGCCGAATGCATGACAAAACTTGGAGCTCAGCCTTTTATGATTAGTGCTTTGGGATTTGAC
3740113 ATGCCAGGTCATTTCCTTTAAACCTTTCTCTAATGCAGCCTTATGATAATCTATACATTTTTCAT
196 ATGCCAGGTCATTTCCTTTAAACCTTTCTCTAATGCAGCCTTATGATAATCTATACATTTTTCAT
3740178 AATATGGTTTACCAGGAATCACTTTGTAATATCTCTGATAATCCTGAATATCATGTAATTATCTG
261 AATATGGTTTACCAGGAATCACTTTGTAATATCTCTGATAATCCTGAATATCATGTAATTATCTG
3740243 ATATCCATGGAACCTTGGTGCAGGAAAAAATCTGAATAATCTAGTTTGATCACTGAGATACATAT
326 ATATCCATGGAACCTTGGTGCAGGAAAAAATCTGAATAATCTAGTTTGATCACTGAGATACATAT
3740308 GCGCTTACCTATGTCCAATTTTATTT
391 GCGCTTACCTATGTCCAATTTTATTT
3740334 AACATCCAAGAACCACTTGTCCTGGCCAGGTCTCTTTCTCATCTCTCTCTCCCTTCCTTTTTGTC
1 -ACATCCAAGAACCACTTGTCCTGGCCAGGTCTCTTTCTCATCTCTCTCTCCCTTCCTTTTTGTC
3740399 CTTTGATTTATTGAAGTAAGGAATAATTTGTTCAGATATATTATGTACAAGGCGGCGTGGCCAGG
65 CTTTGATTTATTGAAGTAAGGAATAATTTGTTCAGATATATTATGTACAAGGCGGCGTGGCCAGG
3740464 AACATAGCCGAATGCATGACAAAACTTGGAGCTCAGCCTTTTATGATTAGTGCTTTGGGATTTGA
130 AACATAGCCGAATGCATGACAAAACTTGGAGCTCAGCCTTTTATGATTAGTGCTTTGGGATTTGA
3740529 CATGCCAGGTCATTTCCTTTAAACCTTTCTCTAATGCAGCCTTATGATAATCTATACATTTTTCA
195 CATGCCAGGTCATTTCCTTTAAACCTTTCTCTAATGCAGCCTTATGATAATCTATACATTTTTCA
3740594 TAATATGGTTTACCAGGAATCACTTTGTAATATCTCTGATAATCCTGAATATCATGTAATTATCT
260 TAATATGGTTTACCAGGAATCACTTTGTAATATCTCTGATAATCCTGAATATCATGTAATTATCT
3740659 GATATCCATGGAACCTTGGTGCAGGAAAAAATCTGAATAATCTAGTTTGATCACTGAGATACATA
325 GATATCCATGGAACCTTGGTGCAGGAAAAAATCTGAATAATCTAGTTTGATCACTGAGATACATA
3740724 TGCGCTTACCTATGTCCAATTTTATTT
390 TGCGCTTACCTATGTCCAATTTTATTT
3740751 ACATC
1 ACATC
3740756 AAAATATGTC
Statistics
Matches: 420, Mismatches: 1, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
416 5 0.01
417 415 0.99
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.36
Consensus pattern (416 bp):
ACATCCAAGAACCACTTGTCCTGGCCAGGTCTCTTTCTCATCTCTCTCTCCCTTCCTTTTTGTCC
TTTGATTTATTGAAGTAAGGAATAATTTGTTCAGATATATTATGTACAAGGCGGCGTGGCCAGGA
ACATAGCCGAATGCATGACAAAACTTGGAGCTCAGCCTTTTATGATTAGTGCTTTGGGATTTGAC
ATGCCAGGTCATTTCCTTTAAACCTTTCTCTAATGCAGCCTTATGATAATCTATACATTTTTCAT
AATATGGTTTACCAGGAATCACTTTGTAATATCTCTGATAATCCTGAATATCATGTAATTATCTG
ATATCCATGGAACCTTGGTGCAGGAAAAAATCTGAATAATCTAGTTTGATCACTGAGATACATAT
GCGCTTACCTATGTCCAATTTTATTT
Found at i:3743229 original size:24 final size:25
Alignment explanation
Indices: 3743185--3743243 Score: 70
Period size: 24 Copynumber: 2.4 Consensus size: 25
3743175 TTTTAATATA
3743185 ATTTAATATAAAAAATATTAAATTG
1 ATTTAATATAAAAAATATTAAATTG
* *
3743210 ATTT-ATATAAAATATGTTAAA-T-
1 ATTTAATATAAAAAATATTAAATTG
3743232 ATTCTAATATAA
1 ATT-TAATATAA
3743244 TTTATTATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
22 3 0.10
23 2 0.07
24 21 0.70
25 4 0.13
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.42
Consensus pattern (25 bp):
ATTTAATATAAAAAATATTAAATTG
Found at i:3743282 original size:56 final size:58
Alignment explanation
Indices: 3743171--3743295 Score: 191
Period size: 56 Copynumber: 2.2 Consensus size: 58
3743161 TCGTAAAAAC
*
3743171 AATATTTTAATATAATTTAATATAAAAAATATTAAATTGATTTATATAAAATATGTTA
1 AATATTTTAATATAATTTAATATAAAAAATATTAAATTAATTTATATAAAATATGTTA
* * * *
3743229 AATATTCTAATATAATTT-AT-TATAAAATATTAAATTAATTTATGTAAACTATGTTA
1 AATATTTTAATATAATTTAATATAAAAAATATTAAATTAATTTATATAAAATATGTTA
3743285 AATATTTTAAT
1 AATATTTTAAT
3743296 CTAAAATATT
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
56 42 0.69
57 2 0.03
58 17 0.28
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (58 bp):
AATATTTTAATATAATTTAATATAAAAAATATTAAATTAATTTATATAAAATATGTTA
Found at i:3743306 original size:56 final size:56
Alignment explanation
Indices: 3743196--3743307 Score: 161
Period size: 56 Copynumber: 2.0 Consensus size: 56
3743186 TTTAATATAA
* **
3743196 AAAATATTAAATTGATTTATATAAAATATGTTAAATATTCTAATATAATTTATTAT
1 AAAATATTAAATTAATTTATATAAAATATGTTAAATATTCTAATATAAAATATTAT
* * * *
3743252 AAAATATTAAATTAATTTATGTAAACTATGTTAAATATTTTAATCTAAAATATTAT
1 AAAATATTAAATTAATTTATATAAAATATGTTAAATATTCTAATATAAAATATTAT
3743308 TTCCAAATTT
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
56 49 1.00
ACGTcount: A:0.48, C:0.03, G:0.04, T:0.46
Consensus pattern (56 bp):
AAAATATTAAATTAATTTATATAAAATATGTTAAATATTCTAATATAAAATATTAT
Found at i:3749703 original size:4 final size:4
Alignment explanation
Indices: 3749694--3749722 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
3749684 TCAATTGATT
3749694 ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
3749723 CCTTCACCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:3750514 original size:13 final size:13
Alignment explanation
Indices: 3750496--3750520 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3750486 ATATACTACA
3750496 GTCAGCTTGATCG
1 GTCAGCTTGATCG
3750509 GTCAGCTTGATC
1 GTCAGCTTGATC
3750521 AAACTTCTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.24, G:0.28, T:0.32
Consensus pattern (13 bp):
GTCAGCTTGATCG
Found at i:3753974 original size:37 final size:37
Alignment explanation
Indices: 3753933--3754056 Score: 101
Period size: 37 Copynumber: 3.2 Consensus size: 37
3753923 TATAATTTAT
3753933 TTATTTATAAAATTTTATGGTCAAATATTGACTTAAC
1 TTATTTATAAAATTTTATGGTCAAATATTGACTTAAC
** ** * * *
3753970 TTATTTATATGCCCATGTTATATATTACAAA-AAT-A-ATATAT
1 TTATTTATA---AAAT-TT-TATGGT-CAAATATTGACTTA-AC
3754011 TTATTTATAAAATTTTATGGTCAAATATTGACTTAAC
1 TTATTTATAAAATTTTATGGTCAAATATTGACTTAAC
3754048 TTATTTATA
1 TTATTTATA
3754057 TGCCCATGTT
Statistics
Matches: 63, Mismatches: 14, Indels: 20
0.65 0.14 0.21
Matches are distributed among these distances:
35 4 0.06
36 6 0.10
37 22 0.35
38 4 0.06
40 4 0.06
41 13 0.21
42 6 0.10
43 4 0.06
ACGTcount: A:0.39, C:0.08, G:0.06, T:0.47
Consensus pattern (37 bp):
TTATTTATAAAATTTTATGGTCAAATATTGACTTAAC
Found at i:3753974 original size:41 final size:41
Alignment explanation
Indices: 3753929--3754055 Score: 101
Period size: 41 Copynumber: 3.2 Consensus size: 41
3753919 GTTTTATAAT
3753929 TTATTTATTTATAAAATTTTATGGTCAAATATTGACTTAAC
1 TTATTTATTTATAAAATTTTATGGTCAAATATTGACTTAAC
*** **
3753970 TTATTTA--TATGCCCATGTTATATATTACAAA-A---A--TAA-
1 TTATTTATTTAT-AAAAT-TT-TATGGT-CAAATATTGACTTAAC
3754006 TATATTTATTTATAAAATTTTATGGTCAAATATTGACTTAAC
1 T-TATTTATTTATAAAATTTTATGGTCAAATATTGACTTAAC
3754048 TTATTTAT
1 TTATTTAT
3754056 ATGCCCATGT
Statistics
Matches: 62, Mismatches: 10, Indels: 28
0.62 0.10 0.28
Matches are distributed among these distances:
35 4 0.06
36 6 0.10
37 11 0.18
38 2 0.03
39 8 0.13
40 2 0.03
41 19 0.31
42 6 0.10
43 4 0.06
ACGTcount: A:0.38, C:0.08, G:0.06, T:0.48
Consensus pattern (41 bp):
TTATTTATTTATAAAATTTTATGGTCAAATATTGACTTAAC
Found at i:3754004 original size:45 final size:45
Alignment explanation
Indices: 3753955--3754082 Score: 118
Period size: 37 Copynumber: 3.1 Consensus size: 45
3753945 TTTTATGGTC
3753955 AAATATTGACTTAACTTATTTATATGCCCATGTTATATATTACAA
1 AAATATTGACTTAACTTATTTATATGCCCATGTTATATATTACAA
* * ** **
3754000 AAATAAT-A--T-ATTTATTTATA---AAAT-TT-TATGGT-C--
1 AAATATTGACTTAACTTATTTATATGCCCATGTTATATATTACAA
3754033 AAATATTGACTTAACTTATTTATATGCCCATGTTATATATTACAA
1 AAATATTGACTTAACTTATTTATATGCCCATGTTATATATTACAA
3754078 AAATA
1 AAATA
3754083 ATATATTTAT
Statistics
Matches: 59, Mismatches: 12, Indels: 24
0.62 0.13 0.25
Matches are distributed among these distances:
33 6 0.10
34 1 0.02
35 1 0.02
36 5 0.08
37 12 0.20
38 2 0.03
40 2 0.03
41 12 0.20
42 5 0.08
43 1 0.02
44 1 0.02
45 11 0.19
ACGTcount: A:0.41, C:0.10, G:0.06, T:0.43
Consensus pattern (45 bp):
AAATATTGACTTAACTTATTTATATGCCCATGTTATATATTACAA
Found at i:3754017 original size:78 final size:78
Alignment explanation
Indices: 3753924--3754100 Score: 345
Period size: 78 Copynumber: 2.3 Consensus size: 78
3753914 TGAAAGTTTT
*
3753924 ATAATTTATTTATTTATAAAATTTTATGGTCAAATATTGACTTAACTTATTTATATGCCCATGTT
1 ATAATATATTTATTTATAAAATTTTATGGTCAAATATTGACTTAACTTATTTATATGCCCATGTT
3753989 ATATATTACAAAA
66 ATATATTACAAAA
3754002 ATAATATATTTATTTATAAAATTTTATGGTCAAATATTGACTTAACTTATTTATATGCCCATGTT
1 ATAATATATTTATTTATAAAATTTTATGGTCAAATATTGACTTAACTTATTTATATGCCCATGTT
3754067 ATATATTACAAAA
66 ATATATTACAAAA
3754080 ATAATATATTTATTTATAAAA
1 ATAATATATTTATTTATAAAA
3754101 AAATGTTATA
Statistics
Matches: 98, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 98 1.00
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.46
Consensus pattern (78 bp):
ATAATATATTTATTTATAAAATTTTATGGTCAAATATTGACTTAACTTATTTATATGCCCATGTT
ATATATTACAAAA
Found at i:3761860 original size:13 final size:13
Alignment explanation
Indices: 3761842--3761867 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3761832 TTGTTTTATA
3761842 ATATTTTAAATGT
1 ATATTTTAAATGT
3761855 ATATTTTAAATGT
1 ATATTTTAAATGT
3761868 TTTATAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (13 bp):
ATATTTTAAATGT
Found at i:3773848 original size:70 final size:69
Alignment explanation
Indices: 3773735--3774091 Score: 471
Period size: 70 Copynumber: 5.1 Consensus size: 69
3773725 TGATATTATA
* *
3773735 AAGGCTCGTATGTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAGTGTACGCTCCCAACTAGA
1 AAGGCTCGTAGGTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAGT-TACGCTCCCAACTGGA
3773800 ATCTT
65 ATCTT
* * *
3773805 AAGGCTCGTAGGTTCAATACCACAGCCTCCAAAACAGCTAGCGCGAGCGTACGCTCCCAACTGGA
1 AAGGCTCGTAGGTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAG-TTACGCTCCCAACTGGA
*
3773870 ATCTC
65 ATCTT
* * *
3773875 AAGGCTCGTAGGTTCAATACCGCAGCCTCCAAAATAGTTAGTGCGAGCTTACGCTCCCAACTAGA
1 AAGGCTCGTAGGTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAG-TTACGCTCCCAACTGGA
3773940 ATCTT
65 ATCTT
* * * * * * * *
3773945 AAGGCTCGCAGGTTCAATACCACAGCCTTCAAAATAGTTAGCTCGAGCCTATGCTCCCAGCTGGA
1 AAGGCTCGTAGGTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAG-TTACGCTCCCAACTGGA
3774010 ATCTT
65 ATCTT
* * * **
3774015 AAGGCTCGCAGGTTCAATATCGCAGCCTCCAAAACAGTTAGCGCGAGCTTACACTCCCAGTTGGA
1 AAGGCTCGTAGGTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAG-TTACGCTCCCAACTGGA
3774080 ATCTT
65 ATCTT
3774085 AAGGCTC
1 AAGGCTC
3774092 ACTGGTTTAA
Statistics
Matches: 255, Mismatches: 31, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
70 255 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (69 bp):
AAGGCTCGTAGGTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAGTTACGCTCCCAACTGGAA
TCTT
Found at i:3773992 original size:140 final size:140
Alignment explanation
Indices: 3773735--3774091 Score: 536
Period size: 140 Copynumber: 2.5 Consensus size: 140
3773725 TGATATTATA
*
3773735 AAGGCTCGTATGTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAG-TGTACGCTCCCAACTAG
1 AAGGCTCGTAGGTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAGCT-TACGCTCCCAACTAG
* *
3773799 AATCTTAAGGCTCGTAGGTTCAATACCACAGCCTCCAAAACAGCTAGCGCGAGCGTACGCTCCCA
65 AATCTTAAGGCTCGCAGGTTCAATACCACAGCCTCCAAAACAGCTAGCGCGAGCCTACGCTCCCA
3773864 ACTGGAATCTC
130 ACTGGAATCTC
* *
3773875 AAGGCTCGTAGGTTCAATACCGCAGCCTCCAAAATAGTTAGTGCGAGCTTACGCTCCCAACTAGA
1 AAGGCTCGTAGGTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAGCTTACGCTCCCAACTAGA
* * * * * *
3773940 ATCTTAAGGCTCGCAGGTTCAATACCACAGCCTTCAAAATAGTTAGCTCGAGCCTATGCTCCCAG
66 ATCTTAAGGCTCGCAGGTTCAATACCACAGCCTCCAAAACAGCTAGCGCGAGCCTACGCTCCCAA
*
3774005 CTGGAATCTT
131 CTGGAATCTC
* * * ** *
3774015 AAGGCTCGCAGGTTCAATATCGCAGCCTCCAAAACAGTTAGCGCGAGCTTACACTCCCAGTTGGA
1 AAGGCTCGTAGGTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAGCTTACGCTCCCAACTAGA
3774080 ATCTTAAGGCTC
66 ATCTTAAGGCTC
3774092 ACTGGTTTAA
Statistics
Matches: 196, Mismatches: 20, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
140 195 0.99
141 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (140 bp):
AAGGCTCGTAGGTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAGCTTACGCTCCCAACTAGA
ATCTTAAGGCTCGCAGGTTCAATACCACAGCCTCCAAAACAGCTAGCGCGAGCCTACGCTCCCAA
CTGGAATCTC
Found at i:3774121 original size:210 final size:210
Alignment explanation
Indices: 3773735--3774121 Score: 526
Period size: 210 Copynumber: 1.8 Consensus size: 210
3773725 TGATATTATA
* * * **
3773735 AAGGCTCGTATGTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAGTGTACGCTCCCAACTAGA
1 AAGGCTCGCAGGTTCAATACCACAGCCTCCAAAACAGTTAGCGCGAGCCTACGCTCCCAACTAGA
* *
3773800 ATCTTAAGGCTCGTAGGTTCAATACCACAGCCTCCAAAACAGCTAGCGCGAGCGTACGCTCCCAA
66 ATCTTAAGGCTCGCAGGTTCAATACCACAGCCTCCAAAACAGCTAGCGCGAGCGTACACTCCCAA
* *
3773865 CTGGAATCTCAAGGCTCGTAGGTTCAATACCGCAGCCTCCAAAATAGTTAGTGCGAGCTTACGCT
131 CTGGAATCTCAAGGCTCCTAGGTTCAATACCGCAGCCTCAAAAATAGTTAGTGCGAGCTTACGCT
3773930 CCCAACTAGAATCTT
196 CCCAACTAGAATCTT
* * * * * *
3773945 AAGGCTCGCAGGTTCAATACCACAGCCTTCAAAATAGTTAGCTCGAGCCTATGCTCCCAGCTGGA
1 AAGGCTCGCAGGTTCAATACCACAGCCTCCAAAACAGTTAGCGCGAGCCTACGCTCCCAACTAGA
* * * * *
3774010 ATCTTAAGGCTCGCAGGTTCAATATCGCAGCCTCCAAAACAGTTAGCGCGAGCTTACACTCCCAG
66 ATCTTAAGGCTCGCAGGTTCAATACCACAGCCTCCAAAACAGCTAGCGCGAGCGTACACTCCCAA
* * * *
3774075 TTGGAATCTTAAGGCTCACT-GGTTTAATATCGC-GACCTCAAAAATAG
131 CTGGAATCTCAAGGCTC-CTAGGTTCAATACCGCAG-CCTCAAAAATAG
3774122 CTGGCGAACC
Statistics
Matches: 151, Mismatches: 24, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
209 1 0.01
210 149 0.99
211 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (210 bp):
AAGGCTCGCAGGTTCAATACCACAGCCTCCAAAACAGTTAGCGCGAGCCTACGCTCCCAACTAGA
ATCTTAAGGCTCGCAGGTTCAATACCACAGCCTCCAAAACAGCTAGCGCGAGCGTACACTCCCAA
CTGGAATCTCAAGGCTCCTAGGTTCAATACCGCAGCCTCAAAAATAGTTAGTGCGAGCTTACGCT
CCCAACTAGAATCTT
Found at i:3774590 original size:14 final size:15
Alignment explanation
Indices: 3774571--3774602 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
3774561 TTTGTAATAA
3774571 AAATTTT-AAAACTT
1 AAATTTTGAAAACTT
3774585 AAATTTTGAAAACTT
1 AAATTTTGAAAACTT
3774600 AAA
1 AAA
3774603 AATTTGGAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (15 bp):
AAATTTTGAAAACTT
Found at i:3781954 original size:41 final size:39
Alignment explanation
Indices: 3781909--3782054 Score: 143
Period size: 41 Copynumber: 3.6 Consensus size: 39
3781899 GGTTCTGTAC
3781909 CTAGCAGGCTTAATGCCGGTGAAGTAATTCAGACTTTACGT
1 CTAGCAGGCTTAATGCCGGTGAA-TAATTCAGACTTTA-GT
*
3781950 CTAGCAGGCTTAATGCCGGTG-ATACATTTCAGACTATATGT
1 CTAGCAGGCTTAATGCCGGTGAATA-A-TTCAGACTTTA-GT
* * * * * *
3781991 CTAGCAGGC-TAAGCGCCGGTGTACTAAATCAGGCTTGAGC
1 CTAGCAGGCTTAA-TGCCGGTG-AATAATTCAGACTTTAGT
*
3782031 CTAGCAGGCTAAATGCCGGTGAAT
1 CTAGCAGGCTTAATGCCGGTGAAT
3782055 TTGTTTAAAT
Statistics
Matches: 87, Mismatches: 12, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
39 4 0.05
40 22 0.25
41 58 0.67
42 1 0.01
43 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (39 bp):
CTAGCAGGCTTAATGCCGGTGAATAATTCAGACTTTAGT
Found at i:3783335 original size:37 final size:37
Alignment explanation
Indices: 3783285--3783355 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
3783275 CTTGAAGAAT
*
3783285 GCTTTCTTTTTTATCATTATAATTTTTAAAGTAAAAC
1 GCTTTCTTTTTTATCATTATAATTATTAAAGTAAAAC
3783322 GCTTTCTTTTTTATCATTATAATTATTAAAGTAA
1 GCTTTCTTTTTTATCATTATAATTATTAAAGTAA
3783356 TCTTCACTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.32, C:0.10, G:0.06, T:0.52
Consensus pattern (37 bp):
GCTTTCTTTTTTATCATTATAATTATTAAAGTAAAAC
Found at i:3784288 original size:16 final size:16
Alignment explanation
Indices: 3784267--3784309 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
3784257 TCAAAGTTTC
3784267 TCCAAATTTTTAAGTT
1 TCCAAATTTTTAAGTT
*
3784283 TCCAAA-ATTTAAGTT
1 TCCAAATTTTTAAGTT
**
3784298 TTAAAATTTTTA
1 TCCAAATTTTTA
3784310 TTACAAATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.37, C:0.09, G:0.05, T:0.49
Consensus pattern (16 bp):
TCCAAATTTTTAAGTT
Found at i:3784413 original size:20 final size:20
Alignment explanation
Indices: 3784388--3784445 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 20
3784378 AATAAATTTT
3784388 AAATTTTTATATTTTTATTA
1 AAATTTTTATATTTTTATTA
* *
3784408 AAA-TTTAATAATTTTT-CTA
1 AAATTTTTAT-ATTTTTATTA
*
3784427 AAATTTATTATTTTTTTAT
1 AAATTT-TTATATTTTTAT
3784446 ATTTTTTCTA
Statistics
Matches: 29, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
19 10 0.34
20 16 0.55
21 3 0.10
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (20 bp):
AAATTTTTATATTTTTATTA
Found at i:3784422 original size:19 final size:18
Alignment explanation
Indices: 3784384--3784444 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 18
3784374 GCTTAATAAA
* * *
3784384 TTTTAAATTTTTATATTT
1 TTTTAAAATTTAATAATT
3784402 TTATTAAAATTTAATAATT
1 TT-TTAAAATTTAATAATT
* *
3784421 TTTCTAAAATTTATTATTT
1 TTT-TAAAATTTAATAATT
3784440 TTTTA
1 TTTTA
3784445 TATTTTTTCT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
18 5 0.14
19 31 0.86
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (18 bp):
TTTTAAAATTTAATAATT
Found at i:3784441 original size:18 final size:19
Alignment explanation
Indices: 3784393--3784441 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
3784383 ATTTTAAATT
*
3784393 TTTA-TATTTTTATTAAAA
1 TTTATTATTTTTACTAAAA
*
3784411 TTTAATAATTTTT-CTAAAA
1 TTT-ATTATTTTTACTAAAA
3784430 TTTATTATTTTT
1 TTTATTATTTTT
3784442 TTATATTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 11 0.42
19 9 0.35
20 6 0.23
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTATTATTTTTACTAAAA
Found at i:3785389 original size:13 final size:13
Alignment explanation
Indices: 3785353--3785391 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 13
3785343 GATATATTTG
*
3785353 TAATTTGAAAGCT
1 TAATTTGAAAACT
3785366 TAAGTTTTGAAAACT
1 TAA--TTTGAAAACT
3785381 TAATTTGAAAA
1 TAATTTGAAAA
3785392 TTTGAAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 11 0.48
15 12 0.52
ACGTcount: A:0.44, C:0.05, G:0.13, T:0.38
Consensus pattern (13 bp):
TAATTTGAAAACT
Found at i:3785709 original size:35 final size:35
Alignment explanation
Indices: 3785670--3785848 Score: 195
Period size: 34 Copynumber: 5.2 Consensus size: 35
3785660 GAATATTTCA
*
3785670 TGTTCATGCATTATTTTGTTGCAAGGAATCTCTCC
1 TGTTCACGCATTATTTTGTTGCAAGGAATCTCTCC
* * * *
3785705 TGTTCACACA-TCTTTTCTTGCAGGGAATCTCTCC
1 TGTTCACGCATTATTTTGTTGCAAGGAATCTCTCC
3785739 TGTTCACGCATTATTTTGTTGC-AGGAAATCTCTCC
1 TGTTCACGCATTATTTTGTTGCAAGG-AATCTCTCC
* * * * *
3785774 TGTTCACACATCA-TTTCTTGCAGGGAATATCTCC
1 TGTTCACGCATTATTTTGTTGCAAGGAATCTCTCC
* *
3785808 TGTTCACGCATTATGTTGTTGC-AGAGAATCGCTCC
1 TGTTCACGCATTATTTTGTTGCAAG-GAATCTCTCC
*
3785843 TATTCA
1 TGTTCA
3785849 TGTATCAGTT
Statistics
Matches: 117, Mismatches: 22, Indels: 10
0.79 0.15 0.07
Matches are distributed among these distances:
34 59 0.50
35 58 0.50
ACGTcount: A:0.21, C:0.24, G:0.17, T:0.39
Consensus pattern (35 bp):
TGTTCACGCATTATTTTGTTGCAAGGAATCTCTCC
Found at i:3785732 original size:34 final size:35
Alignment explanation
Indices: 3785646--3785848 Score: 194
Period size: 35 Copynumber: 5.9 Consensus size: 35
3785636 TATTCACTTG
* * * * **
3785646 TCTTTACTTGCAGGGAATATTTCATGTTCATGCAT
1 TCTTTTCTTGCAGGGAATCTCTCCTGTTCACACAT
* * *
3785681 TATTTTGTTGCAAGGAATCTCTCCTGTTCACACA-
1 TCTTTTCTTGCAGGGAATCTCTCCTGTTCACACAT
*
3785715 TCTTTTCTTGCAGGGAATCTCTCCTGTTCACGCAT
1 TCTTTTCTTGCAGGGAATCTCTCCTGTTCACACAT
* * *
3785750 TATTTTGTTGCAGGAAATCTCTCCTGTTCACACA-
1 TCTTTTCTTGCAGGGAATCTCTCCTGTTCACACAT
* * *
3785784 TCATTTCTTGCAGGGAATATCTCCTGTTCACGCAT
1 TCTTTTCTTGCAGGGAATCTCTCCTGTTCACACAT
* * * * * *
3785819 TATGTTGTTGCAGAGAATCGCTCCTATTCA
1 TCTTTTCTTGCAGGGAATCTCTCCTGTTCA
3785849 TGTATCAGTT
Statistics
Matches: 135, Mismatches: 31, Indels: 4
0.79 0.18 0.02
Matches are distributed among these distances:
34 58 0.43
35 77 0.57
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.39
Consensus pattern (35 bp):
TCTTTTCTTGCAGGGAATCTCTCCTGTTCACACAT
Found at i:3785750 original size:69 final size:68
Alignment explanation
Indices: 3785646--3785848 Score: 298
Period size: 69 Copynumber: 2.9 Consensus size: 68
3785636 TATTCACTTG
* * * *
3785646 TCTTTACTTGCAGGGAATATTTCATGTTCATGCATTATTTTGTTGCAAGGAATCTCTCCTGTTCA
1 TCTTTTCTTGCAGGGAATATCTCCTGTTCACGCATTATTTTGTTGC-AGGAATCTCTCCTGTTCA
3785711 CACA
65 CACA
*
3785715 TCTTTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGAAATCTCTCCTGTTCA
1 TCTTTTCTTGCAGGGAATATCTCCTGTTCACGCATTATTTTGTTGCAGG-AATCTCTCCTGTTCA
3785780 CACA
65 CACA
* * * *
3785784 TCATTTCTTGCAGGGAATATCTCCTGTTCACGCATTATGTTGTTGCAGAGAATCGCTCCTATTCA
1 TCTTTTCTTGCAGGGAATATCTCCTGTTCACGCATTATTTTGTTGCAG-GAATCTCTCCTGTTCA
3785849 TGTATCAGTT
Statistics
Matches: 122, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
68 3 0.02
69 118 0.97
70 1 0.01
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.39
Consensus pattern (68 bp):
TCTTTTCTTGCAGGGAATATCTCCTGTTCACGCATTATTTTGTTGCAGGAATCTCTCCTGTTCAC
ACA
Found at i:3793133 original size:3 final size:3
Alignment explanation
Indices: 3793125--3793170 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
3793115 GAGCAAAGAA
*
3793125 AAT AAT AAT AAT AAT AAC AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
3793171 GTTCAGATCA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:3794567 original size:58 final size:58
Alignment explanation
Indices: 3794472--3794590 Score: 193
Period size: 58 Copynumber: 2.1 Consensus size: 58
3794462 GATTAGGGTC
*
3794472 ATATCTAAGAGGAAAGGAAAAAAGGACATCCTCATCCATTGGAGCATACATTGAGGAA
1 ATATCTAAGAGGAAAGGAAAAAAGGACATCCTCATCCATTGGAGCATACATTAAGGAA
* * * *
3794530 ATATCTAAGAGGAAAGGAAGAAATGACATCCTTATCCATTGGAGCATCCATTAAGGAA
1 ATATCTAAGAGGAAAGGAAAAAAGGACATCCTCATCCATTGGAGCATACATTAAGGAA
3794588 ATA
1 ATA
3794591 GTTGCAATCT
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.43, C:0.15, G:0.21, T:0.21
Consensus pattern (58 bp):
ATATCTAAGAGGAAAGGAAAAAAGGACATCCTCATCCATTGGAGCATACATTAAGGAA
Found at i:3798633 original size:17 final size:15
Alignment explanation
Indices: 3798611--3798684 Score: 60
Period size: 17 Copynumber: 4.6 Consensus size: 15
3798601 GCAACCAAAT
3798611 TTTTATTTTTATTTAA
1 TTTTATTTTTATTT-A
3798627 TTATTA-TTTTATTTA
1 TT-TTATTTTTATTTA
* *
3798642 TTATTTTATTTTCTTTA
1 TT-TTAT-TTTTATTTA
*
3798659 CTTTATTTATTATTTTA
1 TTTTATTT-TTA-TTTA
3798676 TTTTATTTT
1 TTTTATTTT
3798685 ATTAGTTATT
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
15 8 0.17
16 16 0.34
17 23 0.49
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTATTTTTATTTA
Found at i:3798638 original size:5 final size:5
Alignment explanation
Indices: 3798611--3798687 Score: 66
Period size: 5 Copynumber: 14.4 Consensus size: 5
3798601 GCAACCAAAT
* *
3798611 TTTTA TTTTTA TTTAA TTATTA TTTTA TTTATTA TTTTA TTTT- CTTTA
1 TTTTA -TTTTA TTTTA TT-TTA TTTTA -TT-TTA TTTTA TTTTA TTTTA
*
3798659 CTTTA TTTATTA TTTTA TTTTA TTTTA TT
1 TTTTA -TT-TTA TTTTA TTTTA TTTTA TT
3798688 AGTTATTAGT
Statistics
Matches: 61, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
4 3 0.05
5 36 0.59
6 16 0.26
7 6 0.10
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:3798685 original size:22 final size:22
Alignment explanation
Indices: 3798611--3798687 Score: 84
Period size: 26 Copynumber: 3.3 Consensus size: 22
3798601 GCAACCAAAT
*
3798611 TTTTATTT-TTATTTAATTATTA
1 TTTTATTTATTATTTTATT-TTA
3798633 TTTTATTTATTATTTTATTTTCTTTA
1 TTTTATTTATTATTTTA---T-TTTA
*
3798659 CTTTATTTATTATTTTATTTTA
1 TTTTATTTATTATTTTATTTTA
3798681 TTTTATT
1 TTTTATT
3798688 AGTTATTAGT
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
22 18 0.38
23 8 0.17
26 20 0.43
27 1 0.02
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (22 bp):
TTTTATTTATTATTTTATTTTA
Found at i:3798693 original size:22 final size:21
Alignment explanation
Indices: 3798611--3798694 Score: 79
Period size: 22 Copynumber: 4.1 Consensus size: 21
3798601 GCAACCAAAT
*
3798611 TTTTATTTTTATTTAATTATTA
1 TTTTA-TTTTATTTTATTATTA
3798633 TTTTA-TTTA--TTATT-TTA
1 TTTTATTTTATTTTATTATTA
* *
3798650 TTTT-CTTTACTTTATTTATTA
1 TTTTATTTTATTTTA-TTATTA
3798671 TTTTATTTTATTTTATTAGTTA
1 TTTTATTTTATTTTATTA-TTA
3798693 TT
1 TT
3798695 AGTTATTTGG
Statistics
Matches: 52, Mismatches: 3, Indels: 14
0.75 0.04 0.20
Matches are distributed among these distances:
17 11 0.21
18 4 0.08
19 3 0.06
20 6 0.12
21 10 0.19
22 18 0.35
ACGTcount: A:0.23, C:0.02, G:0.01, T:0.74
Consensus pattern (21 bp):
TTTTATTTTATTTTATTATTA
Found at i:3799789 original size:20 final size:20
Alignment explanation
Indices: 3799751--3799789 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
3799741 TATAAATAAA
* *
3799751 AAATAAATATAAATCAAAAT
1 AAATAAATAAAAAACAAAAT
*
3799771 AAATAAATAAAAAAGAAAA
1 AAATAAATAAAAAACAAAA
3799790 AATATAATTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.77, C:0.03, G:0.03, T:0.18
Consensus pattern (20 bp):
AAATAAATAAAAAACAAAAT
Found at i:3800234 original size:15 final size:15
Alignment explanation
Indices: 3800209--3800243 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
3800199 GACTCTGTTT
*
3800209 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
3800223 TAATTAATATTAAGA
1 TAATTAATATTAAGA
3800238 TAATTA
1 TAATTA
3800244 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:3803135 original size:94 final size:96
Alignment explanation
Indices: 3803010--3803311 Score: 326
Period size: 95 Copynumber: 3.2 Consensus size: 96
3803000 TAAATAATGG
* ** * * * *
3803010 ATTAAGGTTTAGGGTTTGTTAATTAAATTAATTATAAATTTTTCAAAATTGGATTA-GGTTTCGT
1 ATTAGGGTTTAGGGTTACTTGATTAAATTAATTATAAATTTTTAAAAATTAGATTAGGGTTTAGT
** * *
3803074 GTTTATTATTTTTTA-AGAAAAATCAATTAA
66 GTTTAAGAGTTTTTATAGAAAAATCAAATAA
* * * ** *
3803104 ATTAGGGTTTAGGGTTACTTGAGTAATTTAATTAAAAAAATTTAAAAATTAGATTAGGGTTTAGA
1 ATTAGGGTTTAGGGTTACTTGATTAAATTAATTATAAATTTTTAAAAATTAGATTAGGGTTTAGT
* *
3803169 G-TTAAGGGTTTTTATGGAAAAATCAAATAA
66 GTTTAAGAGTTTTTATAGAAAAATCAAATAA
* *
3803199 ATTAGGGTTAAGGATTACTTGATTAAATTAATTATAAATTTTTAAAAAATTAGATTAGGGTTTAG
1 ATTAGGGTTTAGGGTTACTTGATTAAATTAATTATAAATTTTT-AAAAATTAGATTAGGGTTTAG
* *
3803264 TGTTTAAG-GTTTTTA-AGTACAAACTAAAATAA
65 TGTTTAAGAGTTTTTATAG-A-AAAATCAAATAA
*
3803296 ATTAGGGTTTGGGGTT
1 ATTAGGGTTTAGGGTT
3803312 TAGGGTTACT
Statistics
Matches: 169, Mismatches: 33, Indels: 9
0.80 0.16 0.04
Matches are distributed among these distances:
94 54 0.32
95 57 0.34
96 30 0.18
97 28 0.17
ACGTcount: A:0.38, C:0.03, G:0.18, T:0.41
Consensus pattern (96 bp):
ATTAGGGTTTAGGGTTACTTGATTAAATTAATTATAAATTTTTAAAAATTAGATTAGGGTTTAGT
GTTTAAGAGTTTTTATAGAAAAATCAAATAA
Found at i:3803573 original size:126 final size:126
Alignment explanation
Indices: 3803344--3803634 Score: 467
Period size: 126 Copynumber: 2.3 Consensus size: 126
3803334 TTATTAATTT
* *
3803344 AAAGAAGCTCTCACGTGGACGCGCTTTTACTACAGTAGCTCCTGAAAAAATAATTTTGAGTAGAC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTTGAGTAGAC
* *
3803409 GTTTCTGAGCAAATAGTGTTAAAAACGCTTTAAGCAGGATGCTTTGTTAACA-ATAGTACTG
66 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAACAGGATGCTTTGTTAACAGA-AGTACTG
* * *
3803470 AAAGAAGCTCCCAGGTGGACGCGCTTTTGCTACAGTAGCTCTTGAACAAATAATTTTGAGTAGAC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTTGAGTAGAC
* *
3803535 GTTTCTGAGTAAATAGTGTCAAAAACGCTTTAAACAGGATGCTTTGTTAGCAGAAGTACTG
66 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAACAGGATGCTTTGTTAACAGAAGTACTG
* *
3803596 AAAGAAGCTCCCACATGGACGCGTTTTTGCTACAGTAGC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGC
3803635 GCATGTTTGG
Statistics
Matches: 152, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
126 151 0.99
127 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (126 bp):
AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTTGAGTAGAC
GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAACAGGATGCTTTGTTAACAGAAGTACTG
Found at i:3806263 original size:21 final size:21
Alignment explanation
Indices: 3806239--3806279 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
3806229 CCAGCTTTCG
* *
3806239 GCGGGGGTTGTGGTTACTCCA
1 GCGGGGATTCTGGTTACTCCA
*
3806260 GCGGGGATTCTGGTTCCTCC
1 GCGGGGATTCTGGTTACTCC
3806280 GGTAGGGGAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.07, C:0.24, G:0.39, T:0.29
Consensus pattern (21 bp):
GCGGGGATTCTGGTTACTCCA
Found at i:3808425 original size:11 final size:11
Alignment explanation
Indices: 3808411--3808467 Score: 64
Period size: 11 Copynumber: 5.2 Consensus size: 11
3808401 TTTTTTAAAT
3808411 AGGAATTTGAG
1 AGGAATTTGAG
3808422 AGGAATTTGAG
1 AGGAATTTGAG
*
3808433 GGGAATTTGAG
1 AGGAATTTGAG
3808444 A-GAATATT-AG
1 AGGAAT-TTGAG
*
3808454 AGAGAAATTGAG
1 AG-GAATTTGAG
3808466 AG
1 AG
3808468 AAATGATTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
10 7 0.18
11 25 0.64
12 7 0.18
ACGTcount: A:0.40, C:0.00, G:0.35, T:0.25
Consensus pattern (11 bp):
AGGAATTTGAG
Found at i:3817075 original size:32 final size:31
Alignment explanation
Indices: 3817039--3817137 Score: 95
Period size: 31 Copynumber: 3.3 Consensus size: 31
3817029 AAGAGATTAC
3817039 GTACCAAATTAGGAAAAAAGAATCAAGTTTAA
1 GTACCAAATTA-GAAAAAAGAATCAAGTTTAA
* *
3817071 GTACCAAATTAGACAAAA-AA--AA-TCTAA
1 GTACCAAATTAGAAAAAAGAATCAAGTTTAA
3817098 GTACCAAATTAAGAAAAAATG--TCAAGTTT-A
1 GTACCAAATT-AGAAAAAA-GAATCAAGTTTAA
3817128 GATACCAAAT
1 G-TACCAAAT
3817138 ATTACATTAA
Statistics
Matches: 56, Mismatches: 4, Indels: 15
0.75 0.05 0.20
Matches are distributed among these distances:
27 14 0.25
28 9 0.16
30 6 0.11
31 16 0.29
32 11 0.20
ACGTcount: A:0.54, C:0.12, G:0.12, T:0.22
Consensus pattern (31 bp):
GTACCAAATTAGAAAAAAGAATCAAGTTTAA
Found at i:3817589 original size:13 final size:11
Alignment explanation
Indices: 3817562--3817592 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
3817552 CCATCTTCAA
3817562 TCTCTCAAATT
1 TCTCTCAAATT
3817573 TCTCTCAAATT
1 TCTCTCAAATT
3817584 TCTCTCAAA
1 TCTCTCAAA
3817593 GCTCTTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.42
Consensus pattern (11 bp):
TCTCTCAAATT
Found at i:3818764 original size:7 final size:7
Alignment explanation
Indices: 3818752--3818784 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
3818742 TAGTCGATTC
3818752 GTATTTA
1 GTATTTA
3818759 GTATTTA
1 GTATTTA
*
3818766 TTATTTA
1 GTATTTA
3818773 GTATTTA
1 GTATTTA
3818780 GTATT
1 GTATT
3818785 ATGTATATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.27, C:0.00, G:0.12, T:0.61
Consensus pattern (7 bp):
GTATTTA
Found at i:3819395 original size:18 final size:18
Alignment explanation
Indices: 3819372--3819414 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
3819362 TGCCAGGTGC
* *
3819372 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCTTATAT
3819390 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
3819408 GTTTCCT
1 GTATCCT
3819415 TTTTCTAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:3819835 original size:21 final size:22
Alignment explanation
Indices: 3819800--3819840 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
3819790 CATTGATTTT
3819800 TATTTTAATATATTTGTATAAA
1 TATTTTAATATATTTGTATAAA
3819822 TATTTTGAATAT-TTT-TATA
1 TATTTT-AATATATTTGTATA
3819841 TTATTTCATG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.22
22 9 0.50
23 5 0.28
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.59
Consensus pattern (22 bp):
TATTTTAATATATTTGTATAAA
Found at i:3823206 original size:126 final size:126
Alignment explanation
Indices: 3822981--3823248 Score: 484
Period size: 126 Copynumber: 2.1 Consensus size: 126
3822971 GCCAAATAGG
* *
3822981 AACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACATTGCATCT
1 AACTACTGTAGCAAAACAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACATTGCATCC
3823046 TGCTTGAAGCATTTTTGACACTATTTGCTCAGAAAC-TTCTTCTCAAAATTATTTTTTCAGA
66 TGCTTGAAGCATTTTTGACACTATTTGCTCAGAAACATT-TTCTCAAAATTATTTTTTCAGA
3823107 AACTACTGTAGCAAAACAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACATTGCATCC
1 AACTACTGTAGCAAAACAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACATTGCATCC
*
3823172 TGCTTGAAGCGTTTTTGACACTATTTGCTCAGAAACATTTTCTCAAAATTATTTTTTCAGA
66 TGCTTGAAGCATTTTTGACACTATTTGCTCAGAAACATTTTCTCAAAATTATTTTTTCAGA
*
3823233 AACTGCTGTAGCAAAA
1 AACTACTGTAGCAAAA
3823249 GAGAATTTTA
Statistics
Matches: 137, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
126 135 0.99
127 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (126 bp):
AACTACTGTAGCAAAACAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACATTGCATCC
TGCTTGAAGCATTTTTGACACTATTTGCTCAGAAACATTTTCTCAAAATTATTTTTTCAGA
Found at i:3824294 original size:13 final size:13
Alignment explanation
Indices: 3824276--3824300 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3824266 TAAATAGAAG
3824276 TTGATTATGTAAA
1 TTGATTATGTAAA
3824289 TTGATTATGTAA
1 TTGATTATGTAA
3824301 TCTTGTAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (13 bp):
TTGATTATGTAAA
Found at i:3824860 original size:14 final size:14
Alignment explanation
Indices: 3824843--3824874 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
3824833 ATGTAAAAAG
3824843 TTTTACGAAAAATA
1 TTTTACGAAAAATA
3824857 TTTTACGAAAAATA
1 TTTTACGAAAAATA
3824871 TTTT
1 TTTT
3824875 CTGCATTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (14 bp):
TTTTACGAAAAATA
Found at i:3825162 original size:19 final size:18
Alignment explanation
Indices: 3825124--3825182 Score: 61
Period size: 19 Copynumber: 3.4 Consensus size: 18
3825114 ATAAAATATT
3825124 ATATTTTTAAAATAATAA
1 ATATTTTTAAAATAATAA
* *
3825142 ATATTTATTACAATTATAA
1 ATATTT-TTAAAATAATAA
*
3825161 ATA-TATT--AATAATAA
1 ATATTTTTAAAATAATAA
3825176 ATATTTT
1 ATATTTT
3825183 GTAATATAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
15 10 0.29
16 2 0.06
17 2 0.06
18 7 0.21
19 13 0.38
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (18 bp):
ATATTTTTAAAATAATAA
Found at i:3825177 original size:15 final size:16
Alignment explanation
Indices: 3825133--3825179 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 16
3825123 TATATTTTTA
3825133 AAATAATAAATATTTATT
1 AAATAATAAATA--TATT
*
3825151 ACAATTATAAATATATT
1 A-AATAATAAATATATT
3825168 -AATAATAAATAT
1 AAATAATAAATAT
3825180 TTTGTAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 11 0.42
17 4 0.15
18 1 0.04
19 10 0.38
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (16 bp):
AAATAATAAATATATT
Found at i:3826413 original size:38 final size:38
Alignment explanation
Indices: 3826362--3826439 Score: 129
Period size: 38 Copynumber: 2.1 Consensus size: 38
3826352 ATTTACCAAT
* *
3826362 ATTTTGAGTAAAAGAGACAAAATACACTCTAACTTTTA
1 ATTTTGAGTAAAAGAAACAAAATACAATCTAACTTTTA
*
3826400 ATTTTGAGTAAAAGAAACAAAATACAATCTGACTTTTA
1 ATTTTGAGTAAAAGAAACAAAATACAATCTAACTTTTA
3826438 AT
1 AT
3826440 ACACCTTTAC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.46, C:0.12, G:0.10, T:0.32
Consensus pattern (38 bp):
ATTTTGAGTAAAAGAAACAAAATACAATCTAACTTTTA
Found at i:3826507 original size:15 final size:16
Alignment explanation
Indices: 3826482--3826514 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
3826472 ATATTTTAAA
3826482 AATATTCCACAAGGGG
1 AATATTCCACAAGGGG
3826498 AATA-TCCACAAGGGG
1 AATATTCCACAAGGGG
3826513 AA
1 AA
3826515 GTACCAAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.42, C:0.18, G:0.24, T:0.15
Consensus pattern (16 bp):
AATATTCCACAAGGGG
Found at i:3836180 original size:32 final size:30
Alignment explanation
Indices: 3836144--3836202 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
3836134 TTTTCAATTT
*
3836144 TAAAAAGTAAAAAACAATTTTTTAAAAAAAAG
1 TAAAAA-TAAAAAA-AATATTTTAAAAAAAAG
*
3836176 TAAAAATAAAAAAAATATTTTGAAAAA
1 TAAAAATAAAAAAAATATTTTAAAAAA
3836203 CTAAACGGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 12 0.48
31 7 0.28
32 6 0.24
ACGTcount: A:0.68, C:0.02, G:0.05, T:0.25
Consensus pattern (30 bp):
TAAAAATAAAAAAAATATTTTAAAAAAAAG
Found at i:3836756 original size:36 final size:37
Alignment explanation
Indices: 3836693--3836771 Score: 151
Period size: 36 Copynumber: 2.2 Consensus size: 37
3836683 TATTAAATAA
3836693 AAATAATATTTAATCAGTGAAATTAAATATATCAATT
1 AAATAATATTTAATCAGTGAAATTAAATATATCAATT
3836730 AAATAATATTTAATC-GTGAAATTAAATATATCAATT
1 AAATAATATTTAATCAGTGAAATTAAATATATCAATT
3836766 AAATAA
1 AAATAA
3836772 ATTATTAAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
36 27 0.64
37 15 0.36
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.37
Consensus pattern (37 bp):
AAATAATATTTAATCAGTGAAATTAAATATATCAATT
Found at i:3838454 original size:29 final size:29
Alignment explanation
Indices: 3838421--3838483 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
3838411 AATCTCTATT
3838421 TTTAAAT-TTTAAAAATATGTTAAT-TTTTA
1 TTTAAATATTTAAAAAT-T-TTAATATTTTA
*
3838450 TTT-AATATTTAAAAATTTTATTATTTTA
1 TTTAAATATTTAAAAATTTTAATATTTTA
3838478 TTTAAA
1 TTTAAA
3838484 GATTATTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
27 4 0.13
28 12 0.40
29 14 0.47
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (29 bp):
TTTAAATATTTAAAAATTTTAATATTTTA
Found at i:3838468 original size:21 final size:21
Alignment explanation
Indices: 3838442--3838506 Score: 55
Period size: 21 Copynumber: 3.0 Consensus size: 21
3838432 AAAATATGTT
3838442 AATTTTTATTTAATATTTAAA
1 AATTTTTATTTAATATTTAAA
3838463 AATTTTATTATTT--TATTTAAA
1 AA-TTT-TTATTTAATATTTAAA
* *
3838484 GATTATTT-TTTAAAAATTTAAA
1 AATT-TTTATTT-AATATTTAAA
3838506 A
1 A
3838507 CATAAAATTA
Statistics
Matches: 35, Mismatches: 3, Indels: 11
0.71 0.06 0.22
Matches are distributed among these distances:
19 3 0.09
20 4 0.11
21 12 0.34
22 10 0.29
23 6 0.17
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (21 bp):
AATTTTTATTTAATATTTAAA
Found at i:3838477 original size:28 final size:29
Alignment explanation
Indices: 3838428--3838482 Score: 78
Period size: 28 Copynumber: 1.9 Consensus size: 29
3838418 ATTTTTAAAT
3838428 TTTAAAAATATGTTAATTTTTATTTAATA
1 TTTAAAAATATGTTAATTTTTATTTAATA
*
3838457 TTTAAAAAT-T-TTATTATTTTATTTAA
1 TTTAAAAATATGTTAAT-TTTTATTTAA
3838483 AGATTATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 4 0.17
28 11 0.46
29 9 0.38
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (29 bp):
TTTAAAAATATGTTAATTTTTATTTAATA
Found at i:3839685 original size:3 final size:3
Alignment explanation
Indices: 3839672--3839702 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
3839662 AATGACGGTA
*
3839672 AAG ATG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
3839703 GGGAGATATC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.65, C:0.00, G:0.32, T:0.03
Consensus pattern (3 bp):
AAG
Found at i:3841448 original size:23 final size:22
Alignment explanation
Indices: 3841416--3841475 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 22
3841406 TCTTCTTTCT
*
3841416 TTTTTTTTTTTTGGTTTTT-TC
1 TTTTTTTTTTTTGGTTTTTGTA
*
3841437 TCTCTTTTTTTTTTTGTTTTTGTA
1 T-T-TTTTTTTTTTGGTTTTTGTA
3841461 TTTTTTTTTTTTGGT
1 TTTTTTTTTTTTGGT
3841476 AATTAGTGAT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
21 1 0.03
22 13 0.39
23 17 0.52
24 2 0.06
ACGTcount: A:0.02, C:0.05, G:0.10, T:0.83
Consensus pattern (22 bp):
TTTTTTTTTTTTGGTTTTTGTA
Found at i:3841464 original size:29 final size:31
Alignment explanation
Indices: 3841402--3841464 Score: 87
Period size: 29 Copynumber: 2.1 Consensus size: 31
3841392 CGCACTGAGG
*
3841402 TTTCTCTTCTTTCTTTTTTTTTTTTTGGTTT
1 TTTCTCTTCTTTCTTTTTTTTTTTTTGGTAT
3841433 TTTCTC-TCTTT-TTTTTTTTGTTTTT-GTAT
1 TTTCTCTTCTTTCTTTTTTTT-TTTTTGGTAT
3841462 TTT
1 TTT
3841465 TTTTTTTTGG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 14 0.47
30 10 0.33
31 6 0.20
ACGTcount: A:0.02, C:0.11, G:0.06, T:0.81
Consensus pattern (31 bp):
TTTCTCTTCTTTCTTTTTTTTTTTTTGGTAT
Found at i:3841465 original size:31 final size:31
Alignment explanation
Indices: 3841402--3841466 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
3841392 CGCACTGAGG
*
3841402 TTTCTCTTCTTTCTTTTTTTTTTTTTGGTTT
1 TTTCTCTTCTTTCTTTTTTTTTTTTTGATTT
3841433 TTTCTC-TCTTT-TTTTTTTTGTTTTTGTATTT
1 TTTCTCTTCTTTCTTTTTTTT-TTTTTG-ATTT
3841464 TTT
1 TTT
3841467 TTTTTTGGTA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 8 0.26
30 11 0.35
31 12 0.39
ACGTcount: A:0.02, C:0.11, G:0.06, T:0.82
Consensus pattern (31 bp):
TTTCTCTTCTTTCTTTTTTTTTTTTTGATTT
Found at i:3844959 original size:19 final size:19
Alignment explanation
Indices: 3844935--3844977 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
3844925 AGTGTATTAT
* *
3844935 ATTATTTAGTATTTTTGTA
1 ATTATTTAGCACTTTTGTA
3844954 ATTATTTAGCACTTTTGTA
1 ATTATTTAGCACTTTTGTA
3844973 ATTAT
1 ATTAT
3844978 ATTATTGTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.28, C:0.05, G:0.09, T:0.58
Consensus pattern (19 bp):
ATTATTTAGCACTTTTGTA
Found at i:3845098 original size:29 final size:28
Alignment explanation
Indices: 3845044--3845104 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 28
3845034 TGAATTGAAC
*
3845044 TGATTTGGTACAATTCGATACATGAACTT
1 TGATTTGGTACAATTC-ATACATGAAATT
*
3845073 TGATTTGGTGCAATT-ATACATGTGAAATT
1 TGATTTGGTACAATTCATACA--TGAAATT
3845102 TGA
1 TGA
3845105 ATTGTGATTC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 5 0.18
29 23 0.82
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (28 bp):
TGATTTGGTACAATTCATACATGAAATT
Found at i:3848482 original size:34 final size:34
Alignment explanation
Indices: 3848439--3848516 Score: 120
Period size: 34 Copynumber: 2.3 Consensus size: 34
3848429 CTCAAACAAA
* *
3848439 AACCCTAAACCCTACTTTAAATAAACAAAACCCT
1 AACCTTAAACCCTAATTTAAATAAACAAAACCCT
3848473 AACCTTAAACCCTAATTTAAATAAACAAAACCCT
1 AACCTTAAACCCTAATTTAAATAAACAAAACCCT
*
3848507 ACCCCTTAAA
1 A-ACCTTAAA
3848517 AATGACGCTA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
34 33 0.82
35 7 0.17
ACGTcount: A:0.47, C:0.31, G:0.00, T:0.22
Consensus pattern (34 bp):
AACCTTAAACCCTAATTTAAATAAACAAAACCCT
Found at i:3849380 original size:11 final size:11
Alignment explanation
Indices: 3849357--3849392 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
3849347 GGGTTTTAAC
*
3849357 TTTAAAATGTT
1 TTTAAAATTTT
*
3849368 TTTATAATTTT
1 TTTAAAATTTT
3849379 TTTAAAATTTT
1 TTTAAAATTTT
3849390 TTT
1 TTT
3849393 TAAAGAACAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (11 bp):
TTTAAAATTTT
Found at i:3850986 original size:96 final size:97
Alignment explanation
Indices: 3850836--3851031 Score: 385
Period size: 96 Copynumber: 2.0 Consensus size: 97
3850826 CCCAAAAACT
3850836 TGGGCTTGGTATAATTCCTTAGTTTTAAGTTTATTTTAATAGCCCATTTTTATTTATTTTTAATT
1 TGGGCTTGGTATAATTCCTTAGTTTTAAGTTTATTTTAATAGCCCATTTTTATTTATTTTTAATT
3850901 GTTGTATTTATGTCATATTAGCTATAGTTATG
66 GTTGTATTTATGTCATATTAGCTATAGTTATG
3850933 TGGGCTTGGTAT-ATTCCTTAGTTTTAAGTTTATTTTAATAGCCCATTTTTATTTATTTTTAATT
1 TGGGCTTGGTATAATTCCTTAGTTTTAAGTTTATTTTAATAGCCCATTTTTATTTATTTTTAATT
3850997 GTTGTATTTATGTCATATTAGCTATAGTTATG
66 GTTGTATTTATGTCATATTAGCTATAGTTATG
3851029 TGG
1 TGG
3851032 AAATTAATTT
Statistics
Matches: 99, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
96 87 0.88
97 12 0.12
ACGTcount: A:0.23, C:0.08, G:0.15, T:0.54
Consensus pattern (97 bp):
TGGGCTTGGTATAATTCCTTAGTTTTAAGTTTATTTTAATAGCCCATTTTTATTTATTTTTAATT
GTTGTATTTATGTCATATTAGCTATAGTTATG
Found at i:3853404 original size:6 final size:7
Alignment explanation
Indices: 3853387--3853413 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
3853377 TAAAATATTA
3853387 AAAAAGC
1 AAAAAGC
3853394 AAAAAGC
1 AAAAAGC
3853401 AAAAAGC
1 AAAAAGC
3853408 AAAAAG
1 AAAAAG
3853414 GGACCTACAT
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:0.74, C:0.11, G:0.15, T:0.00
Consensus pattern (7 bp):
AAAAAGC
Found at i:3857617 original size:25 final size:25
Alignment explanation
Indices: 3857534--3857648 Score: 81
Period size: 25 Copynumber: 4.6 Consensus size: 25
3857524 CACAGCTTTT
* * *
3857534 ATGAGCATCCTGATATTTGGCTCTC
1 ATGAGCTTCCCGATAATTGGCTCTC
* * *
3857559 ACGAGCTTTCTGATTAA-TGGCTCTC
1 ATGAGCTTCCCGA-TAATTGGCTCTC
* * *
3857584 TTGAACTTCCCGATAATTGGCTCGC
1 ATGAGCTTCCCGATAATTGGCTCTC
* * *
3857609 ATGAGCTTCTCGAT-TTATGGCTCTT
1 ATGAGCTTCCCGATAAT-TGGCTCTC
*
3857634 ATGAGCTTCTCGATA
1 ATGAGCTTCCCGATA
3857649 TATAGCTTGA
Statistics
Matches: 70, Mismatches: 16, Indels: 7
0.75 0.17 0.08
Matches are distributed among these distances:
24 4 0.06
25 64 0.91
26 2 0.03
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.37
Consensus pattern (25 bp):
ATGAGCTTCCCGATAATTGGCTCTC
Found at i:3857648 original size:50 final size:49
Alignment explanation
Indices: 3857532--3857648 Score: 121
Period size: 50 Copynumber: 2.3 Consensus size: 49
3857522 ACCACAGCTT
* * *
3857532 TTATGAGCATCCTGATATTTGGCTCTCACGAGCTTTCTGATTAATGGCTC
1 TTATGAGCTTCC-GATAATTGGCTCGCACGAGCTTTCTGATTAATGGCTC
* * *
3857582 TCT-TGAACTTCCCGATAATTGGCTCGCATGAGC-TTCTCGATTTATGGCTC
1 T-TATGAGCTT-CCGATAATTGGCTCGCACGAGCTTTCT-GATTAATGGCTC
3857632 TTATGAGCTTCTCGATA
1 TTATGAGCTTC-CGATA
3857649 TATAGCTTGA
Statistics
Matches: 55, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
49 6 0.11
50 46 0.84
51 3 0.05
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.38
Consensus pattern (49 bp):
TTATGAGCTTCCGATAATTGGCTCGCACGAGCTTTCTGATTAATGGCTC
Found at i:3857663 original size:25 final size:25
Alignment explanation
Indices: 3857609--3857667 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
3857599 ATTGGCTCGC
* * *
3857609 ATGAGCTTCTCGATTTATGGCTCTT
1 ATGAGCTTCTCGATATATAGCTCTG
3857634 ATGAGCTTCTCGATATATAGCT-TG
1 ATGAGCTTCTCGATATATAGCTCTG
3857658 ATTGAGCTTC
1 A-TGAGCTTC
3857668 CCATTATACA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
24 2 0.07
25 28 0.93
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (25 bp):
ATGAGCTTCTCGATATATAGCTCTG
Found at i:3857675 original size:25 final size:25
Alignment explanation
Indices: 3857634--3857718 Score: 68
Period size: 25 Copynumber: 3.4 Consensus size: 25
3857624 TATGGCTCTT
*
3857634 ATGAGCTTCTCGA-TATATAGCTTGA
1 ATGAGCTTC-CCATTATATAGCTTGA
* * *
3857659 TTGAGCTTCCCATTATACA--TTTA
1 ATGAGCTTCCCATTATATAGCTTGA
* *
3857682 CATGAGCTTCCCATTATATGGCTCGA
1 -ATGAGCTTCCCATTATATAGCTTGA
*
3857708 AAGAGCTTCCC
1 ATGAGCTTCCC
3857719 GTTTACATAT
Statistics
Matches: 46, Mismatches: 10, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
23 3 0.07
24 18 0.39
25 23 0.50
26 2 0.04
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (25 bp):
ATGAGCTTCCCATTATATAGCTTGA
Found at i:3857700 original size:49 final size:48
Alignment explanation
Indices: 3857634--3857726 Score: 107
Period size: 49 Copynumber: 1.9 Consensus size: 48
3857624 TATGGCTCTT
* * **
3857634 ATGAGCTTCTCGATATATAGCTTGATTGAGCTTCCCATTATACATTTAC
1 ATGAGCTTCTCCATATATAGCTCGAAAGAGCTTCCCATT-TACATTTAC
* *
3857683 ATGAGCTTC-CCATTATATGGCTCGAAAGAGCTTCCCGTTTACAT
1 ATGAGCTTCTCCA-TATATAGCTCGAAAGAGCTTCCCATTTACAT
3857727 ATTTGTATAA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
48 7 0.19
49 30 0.81
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (48 bp):
ATGAGCTTCTCCATATATAGCTCGAAAGAGCTTCCCATTTACATTTAC
Found at i:3868086 original size:180 final size:181
Alignment explanation
Indices: 3867768--3868133 Score: 718
Period size: 180 Copynumber: 2.0 Consensus size: 181
3867758 AAATATATTT
3867768 AAATA-ATTAAAAATATTAAATCGATTAATTTAGTTATAAAATTTAAAAATAGATAATGAACGGA
1 AAATATATTAAAAATATTAAATCGATTAATTTAGTTATAAAATTTAAAAATAGATAATGAACGGA
3867832 TATAAATAATTAAATTAACTGTATAATTAATTTAAGCCCCAAACACAGGTATGCTCTCGGCCCTC
66 TATAAATAATTAAATTAACTGTATAATTAATTTAAGCCCCAAACACAGGTATGCTCTCGGCCCTC
3867897 CCCTTTGTGAATATTGTTTGGTATACACGCGAGAAAGCTAGAGCGTGGGGG
131 CCCTTTGTGAATATTGTTTGGTATACACGCGAGAAAGCTAGAGCGTGGGGG
3867948 AAATATATTAAAAATA-TAAATCGATTAATTTAGTTATAAAATTTAAAAATAGATAATGAACGGA
1 AAATATATTAAAAATATTAAATCGATTAATTTAGTTATAAAATTTAAAAATAGATAATGAACGGA
3868012 TATAAATAATTAAATTAACTGTATAATTAATTTAAGCCCCAAACACAGGTATGCTCTCGGCCCTC
66 TATAAATAATTAAATTAACTGTATAATTAATTTAAGCCCCAAACACAGGTATGCTCTCGGCCCTC
3868077 CCCTTTGTGAATATTGTTTGGTATACACGCGAGAAAGCTAGAGCGTGGGGG
131 CCCTTTGTGAATATTGTTTGGTATACACGCGAGAAAGCTAGAGCGTGGGGG
3868128 AAATAT
1 AAATAT
3868134 GGGAAGAGAT
Statistics
Matches: 185, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
180 175 0.95
181 10 0.05
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.31
Consensus pattern (181 bp):
AAATATATTAAAAATATTAAATCGATTAATTTAGTTATAAAATTTAAAAATAGATAATGAACGGA
TATAAATAATTAAATTAACTGTATAATTAATTTAAGCCCCAAACACAGGTATGCTCTCGGCCCTC
CCCTTTGTGAATATTGTTTGGTATACACGCGAGAAAGCTAGAGCGTGGGGG
Found at i:3874408 original size:27 final size:27
Alignment explanation
Indices: 3874333--3874409 Score: 69
Period size: 27 Copynumber: 3.1 Consensus size: 27
3874323 CAGAGAAGAT
3874333 TAGTCATTTGGTTCTTATAAAAGCAAA
1 TAGTCATTTGGTTCTTATAAAAGCAAA
* * *
3874360 TA---AATTAG-AC--ATAAAA-CAAAA
1 TAGTCATTTGGTTCTTATAAAAGC-AAA
3874381 TAGTCATTTGGTTCTTATAAAAGCAAA
1 TAGTCATTTGGTTCTTATAAAAGCAAA
3874408 TA
1 TA
3874410 AATTATTGAA
Statistics
Matches: 36, Mismatches: 6, Indels: 16
0.62 0.10 0.28
Matches are distributed among these distances:
20 1 0.03
21 11 0.31
23 1 0.03
24 8 0.22
25 1 0.03
27 13 0.36
28 1 0.03
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.32
Consensus pattern (27 bp):
TAGTCATTTGGTTCTTATAAAAGCAAA
Found at i:3889338 original size:36 final size:36
Alignment explanation
Indices: 3889292--3889460 Score: 108
Period size: 36 Copynumber: 4.5 Consensus size: 36
3889282 TAAAATGATG
3889292 AAAATAATTTAAATTTTATTTTTTAAATATTTATAA
1 AAAATAATTTAAATTTTATTTTTTAAATATTTATAA
* * **
3889328 AAAAGAATTTAAAATTT-TTTTAAATAATATTTA-AA
1 AAAATAATTTAAATTTTATTTTTTA-AATATTTATAA
* ** * * *** *
3889363 AATCATAAAATAAAATTCATTTTTAGTTTTGTATTTAAATGATG
1 AA-AATAATTTAAATTTTA-TTTT--TTAAATATTT--AT-A-A
3889407 AAAATAATTTAAATTTTATTTTTTAAATATTTATAA
1 AAAATAATTTAAATTTTATTTTTTAAATATTTATAA
*
3889443 AAAAGAATTTAAAATTTT
1 AAAATAATTT-AAATTTT
3889461 TTTAAATAAT
Statistics
Matches: 96, Mismatches: 25, Indels: 23
0.67 0.17 0.16
Matches are distributed among these distances:
35 9 0.09
36 42 0.44
37 8 0.08
38 6 0.06
39 5 0.05
40 7 0.07
41 1 0.01
42 4 0.04
43 12 0.12
44 2 0.02
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.47
Consensus pattern (36 bp):
AAAATAATTTAAATTTTATTTTTTAAATATTTATAA
Found at i:3889407 original size:115 final size:116
Alignment explanation
Indices: 3889273--3889503 Score: 455
Period size: 115 Copynumber: 2.0 Consensus size: 116
3889263 AAAATAAATA
3889273 TTTTGTATTTAAAATGATGAAAATAATTTAAATTTTATTTTTTAAATATTTATAAAAAAGAATTT
1 TTTTGTATTTAAAATGATGAAAATAATTTAAATTTTATTTTTTAAATATTTATAAAAAAGAATTT
3889338 AAAATTTTTTTAAATAATATTTAAAAATCATAAAATAAAATTCATTTTTAG
66 AAAATTTTTTTAAATAATATTTAAAAATCATAAAATAAAATTCATTTTTAG
3889389 TTTTGTATTT-AAATGATGAAAATAATTTAAATTTTATTTTTTAAATATTTATAAAAAAGAATTT
1 TTTTGTATTTAAAATGATGAAAATAATTTAAATTTTATTTTTTAAATATTTATAAAAAAGAATTT
3889453 AAAATTTTTTTAAATAATATTTAAAAATCATAAAATAAAATTCATTTTTAG
66 AAAATTTTTTTAAATAATATTTAAAAATCATAAAATAAAATTCATTTTTAG
3889504 CAAAATAAAT
Statistics
Matches: 115, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
115 105 0.91
116 10 0.09
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (116 bp):
TTTTGTATTTAAAATGATGAAAATAATTTAAATTTTATTTTTTAAATATTTATAAAAAAGAATTT
AAAATTTTTTTAAATAATATTTAAAAATCATAAAATAAAATTCATTTTTAG
Found at i:3889472 original size:36 final size:36
Alignment explanation
Indices: 3889317--3889479 Score: 107
Period size: 36 Copynumber: 4.4 Consensus size: 36
3889307 TTATTTTTTA
3889317 AATATTTATAAAAAAGAATTTAAAATTTTTTTAAAT
1 AATATTTATAAAAAAGAATTTAAAATTTTTTTAAAT
* * ** **
3889353 AATATTTA-AAAATCATAAAATAAAATTCATTTTTAGTTT
1 AATATTTATAAAA-AAGAATTTAAAATT--TTTTTA-AAT
** * * * **
3889392 TGTATTTAAATGATGAAAATAATTTAAATTTTATTTTTTA-
1 AATATTT--AT-A-AAAAAGAATTTAAAATTT-TTTTAAAT
3889432 AATATTTATAAAAAAGAATTTAAAATTTTTTTAAAT
1 AATATTTATAAAAAAGAATTTAAAATTTTTTTAAAT
3889468 AATATTTA-AAAA
1 AATATTTATAAAA
3889480 TCATAAAATA
Statistics
Matches: 94, Mismatches: 22, Indels: 23
0.68 0.16 0.17
Matches are distributed among these distances:
35 13 0.14
36 41 0.44
37 1 0.01
38 8 0.09
39 6 0.06
40 5 0.05
41 3 0.03
42 4 0.04
43 11 0.12
44 2 0.02
ACGTcount: A:0.50, C:0.01, G:0.04, T:0.45
Consensus pattern (36 bp):
AATATTTATAAAAAAGAATTTAAAATTTTTTTAAAT
Found at i:3889536 original size:115 final size:115
Alignment explanation
Indices: 3889284--3889536 Score: 348
Period size: 115 Copynumber: 2.2 Consensus size: 115
3889274 TTTGTATTTA
* **
3889284 AAATGATGAAAATAATTTAAATTTTATTTTTTAAATATTTATAAAAAAGAATTTAAAATTTTTTT
1 AAATAATGAAAATAATAAAAATTTTATTTTTTAAATATTTATAAAAAAGAATTTAAAATTTTTTT
*** ** *
3889349 AAATAATATTTAAAAATCATAAAATAAAATTCATTTTTAGTTTTGTATTT
66 AAATAATATTTAAAAATCATAAAATAAAATTCATTTTTAGAAATAAATCT
* **
3889399 AAATGATGAAAATAATTTAAATTTTATTTTTTAAATATTTATAAAAAAGAATTTAAAATTTTTTT
1 AAATAATGAAAATAATAAAAATTTTATTTTTTAAATATTTATAAAAAAGAATTTAAAATTTTTTT
3889464 AAATAATATTTAAAAATCATAAAATAAAATTCATTTTTAGCAAAATAAATCT
66 AAATAATATTTAAAAATCATAAAATAAAATTCATTTTTAG--AAATAAATCT
* *
3889516 AAA-AATTAATATAA-AAAAATT
1 AAATAATGAAAATAATAAAAATT
3889537 GAGAACCAAA
Statistics
Matches: 125, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
115 110 0.88
116 8 0.06
117 7 0.06
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (115 bp):
AAATAATGAAAATAATAAAAATTTTATTTTTTAAATATTTATAAAAAAGAATTTAAAATTTTTTT
AAATAATATTTAAAAATCATAAAATAAAATTCATTTTTAGAAATAAATCT
Found at i:3899501 original size:354 final size:354
Alignment explanation
Indices: 3898852--3899559 Score: 1389
Period size: 354 Copynumber: 2.0 Consensus size: 354
3898842 TCAAAATACC
3898852 CCAATTCCCAAATCTGCAAAGTGAAACAACAGGAAAAAAAAAAGAATCTTGAAACTAGGGTATTA
1 CCAATTCCCAAATCTGCAAAGTGAAACAACAGGAAAAAAAAAAGAATCTTGAAACTAGGGTATTA
3898917 AAATGAAGGGGAAGTAAACAAACTAACATGTTCTTCCTTCCATTTAGATGGGCTCATTGGGTCTT
66 AAATGAAGGGGAAGTAAACAAACTAACATGTTCTTCCTTCCATTTAGATGGGCTCATTGGGTCTT
3898982 GCCAAAAATTAACCTTTGGAGGTCCATGGTGATCTGCAAAAGAAAACTTGTAAGATCCTATAGTT
131 GCCAAAAATTAACCTTTGGAGGTCCATGGTGATCTGCAAAAGAAAACTTGTAAGATCCTATAGTT
3899047 TCAAGTTTCATCTAGGATCTAAGGTGAAATGAGATTAAAACTGAAGTGGAATCGAGAGACGAATT
196 TCAAGTTTCATCTAGGATCTAAGGTGAAATGAGATTAAAACTGAAGTGGAATCGAGAGACGAATT
*
3899112 TTACCTCTATTGGTTATAAATATATATATATATATATTTAAAAAAACAAGGAAAATGGAGAATAC
261 TTACCTCTATTGGTTATAAATATATATATATATATATTTAAAAAAAAAAGGAAAATGGAGAATAC
*
3899177 CTGCGGCGCCGGCAAGACCACGGGGAGGA
326 CTGCGGCGCCGGCAAGACCACGGCGAGGA
3899206 CCAATTCCCAAATCTGCAAAGTGAAACAACAGGAAAAAAAAAAGAATCTTGAAACTAGGGTATTA
1 CCAATTCCCAAATCTGCAAAGTGAAACAACAGGAAAAAAAAAAGAATCTTGAAACTAGGGTATTA
3899271 AAATGAAGGGGAAGTAAACAAACTAACATGTTCTTCCTTCCATTTAGATGGGCTCATTGGGTCTT
66 AAATGAAGGGGAAGTAAACAAACTAACATGTTCTTCCTTCCATTTAGATGGGCTCATTGGGTCTT
3899336 GCCAAAAATTAACCTTTGGAGGTCCATGGTGATCTGCAAAAGAAAACTTGTAAGATCCTATAGTT
131 GCCAAAAATTAACCTTTGGAGGTCCATGGTGATCTGCAAAAGAAAACTTGTAAGATCCTATAGTT
3899401 TCAAGTTTCATCTAGGATCTAAGGTGAAATGAGATTAAAACTGAAGTGGAATCGAGAGACGAATT
196 TCAAGTTTCATCTAGGATCTAAGGTGAAATGAGATTAAAACTGAAGTGGAATCGAGAGACGAATT
*
3899466 TTACCTCTATTGGTTATAAATATATATATATATATATTTAAAAAAAAAAGGTAAATGGAGAATAC
261 TTACCTCTATTGGTTATAAATATATATATATATATATTTAAAAAAAAAAGGAAAATGGAGAATAC
3899531 CTGCGGCGCCGGCAAGACCACGGCGAGGA
326 CTGCGGCGCCGGCAAGACCACGGCGAGGA
3899560 ATGAGAGAAG
Statistics
Matches: 351, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
354 351 1.00
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.26
Consensus pattern (354 bp):
CCAATTCCCAAATCTGCAAAGTGAAACAACAGGAAAAAAAAAAGAATCTTGAAACTAGGGTATTA
AAATGAAGGGGAAGTAAACAAACTAACATGTTCTTCCTTCCATTTAGATGGGCTCATTGGGTCTT
GCCAAAAATTAACCTTTGGAGGTCCATGGTGATCTGCAAAAGAAAACTTGTAAGATCCTATAGTT
TCAAGTTTCATCTAGGATCTAAGGTGAAATGAGATTAAAACTGAAGTGGAATCGAGAGACGAATT
TTACCTCTATTGGTTATAAATATATATATATATATATTTAAAAAAAAAAGGAAAATGGAGAATAC
CTGCGGCGCCGGCAAGACCACGGCGAGGA
Found at i:3900536 original size:17 final size:18
Alignment explanation
Indices: 3900514--3900548 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
3900504 TTTATGTGAG
3900514 TTTAATTTCTAT-TTTTT
1 TTTAATTTCTATATTTTT
*
3900531 TTTAATTTTTATATTTTT
1 TTTAATTTCTATATTTTT
3900549 GAGATTGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTAATTTCTATATTTTT
Found at i:3901354 original size:21 final size:21
Alignment explanation
Indices: 3901322--3901429 Score: 116
Period size: 21 Copynumber: 5.3 Consensus size: 21
3901312 GTGTTTTACT
*
3901322 TTCTGTTTAGCTTTTATGAGC
1 TTCTGTTCAGCTTTTATGAGC
* * *
3901343 TTCTTTTCAGCTTTTACGAGT
1 TTCTGTTCAGCTTTTATGAGC
* *
3901364 TTCTGTTCAGCTCTTAT--GT
1 TTCTGTTCAGCTTTTATGAGC
* *
3901383 TTCTGTTCAGCTCTTACGAGC
1 TTCTGTTCAGCTTTTATGAGC
3901404 TTCTGTTCAGC-TTT-TGAGC
1 TTCTGTTCAGCTTTTATGAGC
3901423 TTCTGTT
1 TTCTGTT
3901430 GGCTCATTTG
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
19 29 0.39
20 2 0.03
21 43 0.58
ACGTcount: A:0.12, C:0.20, G:0.18, T:0.50
Consensus pattern (21 bp):
TTCTGTTCAGCTTTTATGAGC
Found at i:3901386 original size:19 final size:19
Alignment explanation
Indices: 3901362--3901398 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
3901352 GCTTTTACGA
3901362 GTTTCTGTTCAGCTCTTAT
1 GTTTCTGTTCAGCTCTTAT
3901381 GTTTCTGTTCAGCTCTTA
1 GTTTCTGTTCAGCTCTTA
3901399 CGAGCTTCTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.11, C:0.22, G:0.16, T:0.51
Consensus pattern (19 bp):
GTTTCTGTTCAGCTCTTAT
Found at i:3901427 original size:40 final size:40
Alignment explanation
Indices: 3901322--3901429 Score: 128
Period size: 40 Copynumber: 2.6 Consensus size: 40
3901312 GTGTTTTACT
* * * *
3901322 TTCTGTTTAGCTTTTATGAGCTTCTTTTCAGCTTTTACGAGT
1 TTCTGTTCAGC-TTT-TGAGCTTCTGTTCAGCTCTTACGAGC
* *
3901364 TTCTGTTCAGCTCTT-ATGTTTCTGTTCAGCTCTTACGAGC
1 TTCTGTTCAGCTTTTGA-GCTTCTGTTCAGCTCTTACGAGC
3901404 TTCTGTTCAGCTTTTGAGCTTCTGTT
1 TTCTGTTCAGCTTTTGAGCTTCTGTT
3901430 GGCTCATTTG
Statistics
Matches: 56, Mismatches: 8, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
39 1 0.02
40 42 0.75
41 3 0.05
42 10 0.18
ACGTcount: A:0.12, C:0.20, G:0.18, T:0.50
Consensus pattern (40 bp):
TTCTGTTCAGCTTTTGAGCTTCTGTTCAGCTCTTACGAGC
Found at i:3903039 original size:21 final size:21
Alignment explanation
Indices: 3903015--3903059 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
3903005 TAATTTTCAA
* *
3903015 AAATTCAAAAAATATTTTTTT
1 AAATCCAAAAAATATATTTTT
**
3903036 AAATCCAAAATTTATATTTTT
1 AAATCCAAAAAATATATTTTT
3903057 AAA
1 AAA
3903060 AAATTTATAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (21 bp):
AAATCCAAAAAATATATTTTT
Found at i:3903062 original size:17 final size:17
Alignment explanation
Indices: 3903042--3903087 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
3903032 TTTTAAATCC
**
3903042 AAAATTTATATTTTTAA
1 AAAATTTATAAATTTAA
3903059 AAAATTTATAAATTTAA
1 AAAATTTATAAATTTAA
*
3903076 AAAATTTCTAAA
1 AAAATTTATAAA
3903088 GAATATATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (17 bp):
AAAATTTATAAATTTAA
Found at i:3904056 original size:22 final size:22
Alignment explanation
Indices: 3904026--3904068 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
3904016 ACACCATAAC
* *
3904026 AGGCTTTTAGCGGTGCTTTTTT
1 AGGCCTTTAGCGGCGCTTTTTT
3904048 AGGCCTTTAGCGGCGCTTTTT
1 AGGCCTTTAGCGGCGCTTTTT
3904069 AGTGCCGCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.09, C:0.19, G:0.28, T:0.44
Consensus pattern (22 bp):
AGGCCTTTAGCGGCGCTTTTTT
Found at i:3904485 original size:43 final size:43
Alignment explanation
Indices: 3904422--3904548 Score: 114
Period size: 46 Copynumber: 2.9 Consensus size: 43
3904412 CACTTATACA
* **
3904422 GAAAACGCCGC-AATAGACCCTGATCTATAGCGGCGCTTATCTT
1 GAAAACGCCGCTAA-AGACCCTGATCTATAGCGGCGCTTAGCGC
* *
3904465 GAAAACGCCGCTAAATACCCTTTG-TCTATATAGCGGCGCTTCGCGC
1 GAAAACGCCGCTAAAGACCC--TGATC--TATAGCGGCGCTTAGCGC
* * * *
3904511 AAAAACGCTGCTAAAGACCTTAATCTATAGCGGCGCTT
1 GAAAACGCCGCTAAAGACCCTGATCTATAGCGGCGCTT
3904549 TTACCAAAAA
Statistics
Matches: 68, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
43 29 0.43
44 5 0.07
45 4 0.06
46 30 0.44
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (43 bp):
GAAAACGCCGCTAAAGACCCTGATCTATAGCGGCGCTTAGCGC
Found at i:3904516 original size:46 final size:43
Alignment explanation
Indices: 3904444--3904569 Score: 112
Period size: 43 Copynumber: 2.9 Consensus size: 43
3904434 ATAGACCCTG
*** *
3904444 ATCTATAGCGGCGCTTATC-TTGAAAACGCCGCTAAATACCCTTT
1 ATCTATAGCGGCGCTT-TCACCAAAAACGCCGCTAAATA-CCTTA
* * * *
3904488 GTCTATATAGCGGCGC-TTCGCGCAAAAACGCTGCTAAAGACCTTA
1 ATC--TATAGCGGCGCTTTCAC-CAAAAACGCCGCTAAATACCTTA
*
3904533 ATCTATAGCGGCGCTTTTACCAAAAACGCCGCTAAAT
1 ATCTATAGCGGCGCTTTCACCAAAAACGCCGCTAAAT
3904570 TTGGCAGATT
Statistics
Matches: 65, Mismatches: 12, Indels: 11
0.74 0.14 0.12
Matches are distributed among these distances:
43 26 0.40
44 7 0.11
45 7 0.11
46 25 0.38
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.25
Consensus pattern (43 bp):
ATCTATAGCGGCGCTTTCACCAAAAACGCCGCTAAATACCTTA
Found at i:3915357 original size:114 final size:113
Alignment explanation
Indices: 3914963--3915537 Score: 832
Period size: 113 Copynumber: 5.1 Consensus size: 113
3914953 NNNNNNNNNN
* * *
3914963 CCGCTAAAGACCTGAGCATTAGCGGCGCTTTACATAAAACGTCACTAAAGACCCCAAAAACTCAT
1 CCGCTAAAGACCTGAGCATTAGCGGCGCTTTACAT-AAACGCCGCTAAAGACCCCAAAAACTCAG
* * *
3915028 AAAACGGTGCCGTTGGGTTTAGGCTTTTTGCGGCGCTTTTGAGAAAACG
65 AAAACGGTGCCGTTGGGCTTAGGCTTTTTGCGGCGCTTTTAAAAAAACG
*
3915077 CCGCTAAAGACCTCAGCATTAGCGGCGCTTT--ATAAATGCGCCGCTAAAGACCCCAAAAACTCA
1 CCGCTAAAGACCTGAGCATTAGCGGCGCTTTACATAAA--CGCCGCTAAAGACCCCAAAAACTCA
*
3915140 GAAAACGGTGCCGTTGGGCTTAGGCTTTTTGCGGCGCATTTAAAAAAACG
64 GAAAACGGTGCCGTTGGGCTTAGGCTTTTTGCGGCGCTTTTAAAAAAACG
* * *
3915190 CCACTAAAGACCTGAACATTAGCGGCGCTTTACATAAACGCCGCGAAAGACCCCAAAAACTCAGA
1 CCGCTAAAGACCTGAGCATTAGCGGCGCTTTACATAAACGCCGCTAAAGACCCCAAAAACTCAGA
* * *
3915255 AAACGGTGCCGTTGAGCTTAGGGCTTTTTGCGGCGCTTTAAAAAAAACA
66 AAACGGTGCCGTTGGGCTTA-GGCTTTTTGCGGCGCTTTTAAAAAAACG
* * * *
3915304 CCGCTAAAGACATGAGCATTAGCGGCACTTTACATAAACGCCACTAAACACCCC-AAAACTCAGA
1 CCGCTAAAGACCTGAGCATTAGCGGCGCTTTACATAAACGCCGCTAAAGACCCCAAAAACTCAGA
* * *
3915368 AAACGGTGCCGTTGGGTTTAGACTTTTTGCGGCGCTTTTAAAACAACG
66 AAACGGTGCCGTTGGGCTTAGGCTTTTTGCGGCGCTTTTAAAAAAACG
* *
3915416 CCGCTAAAGACCTGAGCATTAGCGGCGCTTTTACAGAAAACGCCGCTAAAGACCCCAAAAAATCA
1 CCGCTAAAGACCTGAGCATTAGCGGCGC-TTTACA-TAAACGCCGCTAAAGACCCCAAAAACTCA
* * * *
3915481 GAAAACGGTGCCGTTTGTCTTTGGCTTTTTGCGGCGCTTTTATAAAAACG
64 GAAAACGGTGCCGTTGGGCTTAGGCTTTTTGCGGCGCTTTTAAAAAAACG
3915531 CCGCTAA
1 CCGCTAA
3915538 TGCTTATTTT
Statistics
Matches: 411, Mismatches: 42, Indels: 15
0.88 0.09 0.03
Matches are distributed among these distances:
111 3 0.01
112 52 0.13
113 175 0.43
114 119 0.29
115 62 0.15
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (113 bp):
CCGCTAAAGACCTGAGCATTAGCGGCGCTTTACATAAACGCCGCTAAAGACCCCAAAAACTCAGA
AAACGGTGCCGTTGGGCTTAGGCTTTTTGCGGCGCTTTTAAAAAAACG
Found at i:3915361 original size:227 final size:223
Alignment explanation
Indices: 3914966--3915537 Score: 813
Period size: 227 Copynumber: 2.5 Consensus size: 223
3914956 NNNNNNNCCG
* * *
3914966 CTAAAGACCTGAGCATTAGCGGCGCTTTACATAAAACGTCACTAAAGACCCCAAAAACTCATAAA
1 CTAAAGACCTGAGCATTAGCGGCGCTTTACAT-AAACGCCGCTAAAGACCCCAAAAACTCAGAAA
* * * *
3915031 ACGGTGCCGTTGGGTTTAGGCTTTTTGCGGCGCTTTTGAGAAAACGCCGCTAAAGACCTCAGCAT
65 ACGGTGCCGTT-GGCTTAGGCTTTTTGCGGCGCTTTTAAAAAAACGCCGCTAAAGACATCAGCAT
* * *
3915096 TAGCGGCGCTTTATAAATGCGCCGCTAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTT
129 TAGCGGCACTTTATAAA-GCGCCACTAAACACCCC-AAAACTCAGAAAACGGTGCCGTTGGGCTT
*
3915161 AGGCTTTTTGCGGCGCATTTAAAAAAACGCCA
192 AGACTTTTTGCGGCGCATTTAAAAAAACGCCA
* *
3915193 CTAAAGACCTGAACATTAGCGGCGCTTTACATAAACGCCGCGAAAGACCCCAAAAACTCAGAAAA
1 CTAAAGACCTGAGCATTAGCGGCGCTTTACATAAACGCCGCTAAAGACCCCAAAAACTCAGAAAA
* * *
3915258 CGGTGCCGTTGAGCTTAGGGCTTTTTGCGGCGCTTTAAAAAAAACACCGCTAAAGACATGAGCAT
66 CGGTGCCGTTG-GCTTA-GGCTTTTTGCGGCGCTTTTAAAAAAACGCCGCTAAAGACATCAGCAT
*
3915323 TAGCGGCACTTTACATAAA-CGCCACTAAACACCCCAAAACTCAGAAAACGGTGCCGTTGGGTTT
129 TAGCGGCACTTT--ATAAAGCGCCACTAAACACCCCAAAACTCAGAAAACGGTGCCGTTGGGCTT
* * *
3915387 AGACTTTTTGCGGCGCTTTTAAAACAACGCCG
192 AGACTTTTTGCGGCGCATTTAAAAAAACGCCA
* *
3915419 CTAAAGACCTGAGCATTAGCGGCGCTTTTACAGAAAACGCCGCTAAAGACCCCAAAAAATCAGAA
1 CTAAAGACCTGAGCATTAGCGGCGC-TTTACA-TAAACGCCGCTAAAGACCCCAAAAACTCAGAA
* * *
3915484 AACGGTGCCGTTTGTCTTTGGCTTTTTGCGGCGCTTTTATAAAAACGCCGCTAA
64 AACGGTGCCG-TTGGCTTAGGCTTTTTGCGGCGCTTTTAAAAAAACGCCGCTAA
3915538 TGCTTATTTT
Statistics
Matches: 309, Mismatches: 29, Indels: 14
0.88 0.08 0.04
Matches are distributed among these distances:
225 1 0.00
226 123 0.40
227 135 0.44
228 42 0.14
229 8 0.03
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (223 bp):
CTAAAGACCTGAGCATTAGCGGCGCTTTACATAAACGCCGCTAAAGACCCCAAAAACTCAGAAAA
CGGTGCCGTTGGCTTAGGCTTTTTGCGGCGCTTTTAAAAAAACGCCGCTAAAGACATCAGCATTA
GCGGCACTTTATAAAGCGCCACTAAACACCCCAAAACTCAGAAAACGGTGCCGTTGGGCTTAGAC
TTTTTGCGGCGCATTTAAAAAAACGCCA
Found at i:3917695 original size:89 final size:89
Alignment explanation
Indices: 3917544--3918030 Score: 780
Period size: 89 Copynumber: 5.5 Consensus size: 89
3917534 AAGACTTGTA
** *
3917544 TCTTCGATCTACTTCGCCACC-GATATGGGAAGACAAGATCTGTTGTCTTTGATCTACTTCACGC
1 TCTTCGATCTGTTTCGCCACCAG-TATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGC
*
3917608 CAATACATGAAGACAAGATCTGCTT
65 CAGTACATGAAGACAAGATCTGCTT
** * * *
3917633 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGACCTGCTT-TCTTCGATCTACTTCACGC
1 TCTTCGATCTGTTTCGCCACCAGTATGGGAAGACAAGATCTG-TTATCTTTGATCTACTTCACGC
*
3917697 CAATACATGAAGACAAGATCTGCTT
65 CAGTACATGAAGACAAGATCTGCTT
* * * *
3917722 TCTTCGATCTGTTTTGCCACTAGTATGGGAAGACAAGATCTGTTACCTTTGATCTATTTCACGCC
1 TCTTCGATCTGTTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCC
3917787 AGTACATGAAGACAAGATCTGCTT
66 AGTACATGAAGACAAGATCTGCTT
3917811 TCTTCGATCTGTTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCC
1 TCTTCGATCTGTTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCC
*
3917876 AGTACATGAAGACAAGATCCGCTT
66 AGTACATGAAGACAAGATCTGCTT
* * *
3917900 TCTTCGATCTGTTTCACCACCAGTACGGGAAGACAAGATCTGGTATCTTTGATCTACTTCACGCC
1 TCTTCGATCTGTTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCC
3917965 AGTACATGAAGACAAGATCTGCTT
66 AGTACATGAAGACAAGATCTGCTT
3917989 TCTTCGATCTGTTTCGCCACCAGTATGGGAAGACAAGATCTG
1 TCTTCGATCTGTTTCGCCACCAGTATGGGAAGACAAGATCTG
3918031 CTTCTTTTTT
Statistics
Matches: 371, Mismatches: 24, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
88 2 0.01
89 366 0.99
90 3 0.01
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (89 bp):
TCTTCGATCTGTTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCC
AGTACATGAAGACAAGATCTGCTT
Found at i:3919147 original size:17 final size:17
Alignment explanation
Indices: 3919125--3919160 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
3919115 TTCGTCGATG
*
3919125 CCCCAAAATGTCGCCTA
1 CCCCAAAATGCCGCCTA
3919142 CCCCAAAATGCCGCCTA
1 CCCCAAAATGCCGCCTA
3919159 CC
1 CC
3919161 TTTTCCTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.28, C:0.47, G:0.11, T:0.14
Consensus pattern (17 bp):
CCCCAAAATGCCGCCTA
Found at i:3919354 original size:13 final size:14
Alignment explanation
Indices: 3919336--3919384 Score: 57
Period size: 13 Copynumber: 3.6 Consensus size: 14
3919326 CCTTAGCCTC
3919336 TCCATTTT-ACTTT
1 TCCATTTTCACTTT
*
3919349 TCCATTTTTCAGTTT
1 TCCA-TTTTCACTTT
3919364 T-CATTTTCACTTT
1 TCCATTTTCACTTT
*
3919377 TTCATTTT
1 TCCATTTT
3919385 TCATCTCATC
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
13 14 0.45
14 12 0.39
15 5 0.16
ACGTcount: A:0.14, C:0.20, G:0.02, T:0.63
Consensus pattern (14 bp):
TCCATTTTCACTTT
Found at i:3919364 original size:7 final size:7
Alignment explanation
Indices: 3919346--3919388 Score: 52
Period size: 7 Copynumber: 6.1 Consensus size: 7
3919336 TCCATTTTAC
*
3919346 TTTTCCA
1 TTTTTCA
3919353 TTTTTCA
1 TTTTTCA
*
3919360 GTTTTCA
1 TTTTTCA
3919367 -TTTTCA
1 TTTTTCA
3919373 CTTTTTCA
1 -TTTTTCA
3919381 TTTTTCA
1 TTTTTCA
3919388 T
1 T
3919389 CTCATCATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 6 0.19
7 20 0.62
8 6 0.19
ACGTcount: A:0.14, C:0.19, G:0.02, T:0.65
Consensus pattern (7 bp):
TTTTTCA
Found at i:3919368 original size:14 final size:15
Alignment explanation
Indices: 3919346--3919387 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
3919336 TCCATTTTAC
3919346 TTTTCCATTTTTCA-G
1 TTTT-CATTTTTCACG
*
3919361 TTTTCA-TTTTCACT
1 TTTTCATTTTTCACG
3919375 TTTTCATTTTTCA
1 TTTTCATTTTTCA
3919388 TCTCATCATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 6 0.25
14 8 0.33
15 10 0.42
ACGTcount: A:0.14, C:0.19, G:0.02, T:0.64
Consensus pattern (15 bp):
TTTTCATTTTTCACG
Found at i:3921911 original size:4 final size:4
Alignment explanation
Indices: 3921902--3921927 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
3921892 GTAACGGTGT
3921902 TTGG TTGG TTGG TTGG TTGG TTGG TT
1 TTGG TTGG TTGG TTGG TTGG TTGG TT
3921928 TCCAGGTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.46, T:0.54
Consensus pattern (4 bp):
TTGG
Found at i:3922072 original size:13 final size:13
Alignment explanation
Indices: 3922054--3922079 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3922044 GTTCAATTTT
3922054 TTTACTAGAAAAC
1 TTTACTAGAAAAC
3922067 TTTACTAGAAAAC
1 TTTACTAGAAAAC
3922080 AAATCTCTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (13 bp):
TTTACTAGAAAAC
Found at i:3923512 original size:113 final size:113
Alignment explanation
Indices: 3923177--3923578 Score: 585
Period size: 114 Copynumber: 3.5 Consensus size: 113
3923167 NNNNNNNNNN
* * * *
3923177 AAAACGGTGCCGTTGGGTTTAGGCTTTTTGCGGCGCTTTTGAGAAAACGCCGCTAAAGACCTCAG
1 AAAACGGTGCCGTTGGGCTTAGGCTTTTTGCGGCGCTTTTAAAAAAACGCCGCTAAAGACCTGAG
3923242 CATTAGCGGCGCTTT--ATAAATGCGCCGCTAAAGACCCCCAAAAACTCAG
66 CATTAGCGGCGCTTTACATAAA--CGCCGCTAAAGA-CCCCAAAAACTCAG
* * *
3923291 AAAACGGTGCCGTTGGGCTTAGGCTTTTTGCGGCGCATTTAAAAAAACGCCACTAAAGACCTGAA
1 AAAACGGTGCCGTTGGGCTTAGGCTTTTTGCGGCGCTTTTAAAAAAACGCCGCTAAAGACCTGAG
*
3923356 CATTAGCGGCGCTTTACATAAACGCCGCGAAAGACCCCAAAAACTCAG
66 CATTAGCGGCGCTTTACATAAACGCCGCTAAAGACCCCAAAAACTCAG
* * * *
3923404 AAAACGGTGCCGTTGAGCTTAGGGCTTTTTGCGGCGCTTTAAAAAAAACACCGCTAAAGACATGA
1 AAAACGGTGCCGTTGGGCTTA-GGCTTTTTGCGGCGCTTTTAAAAAAACGCCGCTAAAGACCTGA
* * *
3923469 GCATTAGCGGCACTTTACATAAACGCCACTAAACACCCC-AAAACTCAG
65 GCATTAGCGGCGCTTTACATAAACGCCGCTAAAGACCCCAAAAACTCAG
* * *
3923517 AAAACGGTGCCGTTGGGTTTAGACTTTTTGCGGCGCTTTTAAAACAACGCCGCTAAAGACCT
1 AAAACGGTGCCGTTGGGCTTAGGCTTTTTGCGGCGCTTTTAAAAAAACGCCGCTAAAGACCT
3923579 AAAGACCCCA
Statistics
Matches: 259, Mismatches: 26, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
112 36 0.14
113 62 0.24
114 156 0.60
116 5 0.02
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (113 bp):
AAAACGGTGCCGTTGGGCTTAGGCTTTTTGCGGCGCTTTTAAAAAAACGCCGCTAAAGACCTGAG
CATTAGCGGCGCTTTACATAAACGCCGCTAAAGACCCCAAAAACTCAG
Found at i:3923631 original size:81 final size:80
Alignment explanation
Indices: 3923497--3923653 Score: 219
Period size: 81 Copynumber: 1.9 Consensus size: 80
3923487 ATAAACGCCA
*
3923497 CTAAACACCCCAAAACTCAGAAAACGGTGCCGTTGGGTTTAGACTTTTTGCGGCGCTTTTA-AAA
1 CTAAACACCCCAAAAATCAGAAAACGGTGCCGTTGGGTTTAGACTTTTTGCGGCGCTTTTATAAA
3923561 CAACGCCGCTAAAGAC
66 -AACGCCGCTAAAGAC
* * * * *
3923577 CTAAAGACCCCAAAAAATCAGAAAACGGTGTCGTT-TGTCTTTGGCTTTTTGCGGCGCTTTTATA
1 CTAAACACCCC-AAAAATCAGAAAACGGTGCCGTTGGGT-TTAGACTTTTTGCGGCGCTTTTATA
3923641 AAAACGCCGCTAA
64 AAAACGCCGCTAA
3923654 TGCTTATTTT
Statistics
Matches: 68, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
80 12 0.18
81 53 0.78
82 3 0.04
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (80 bp):
CTAAACACCCCAAAAATCAGAAAACGGTGCCGTTGGGTTTAGACTTTTTGCGGCGCTTTTATAAA
AACGCCGCTAAAGAC
Found at i:3929076 original size:42 final size:42
Alignment explanation
Indices: 3928976--3929132 Score: 156
Period size: 43 Copynumber: 3.7 Consensus size: 42
3928966 TGTGATCTCG
*
3928976 TGTAAGACCAC-GTTTGGGACATTGGCATCG-ATTTGAGATTTACA
1 TGTAAGACC-CTGTCTGGGACATTGGCATCGTATTT--GATTT-CA
* * * *
3929020 TGTAAGACCATGTCTAGGACATTGGCATCGTATATGATTTCG
1 TGTAAGACCCTGTCTGGGACATTGGCATCGTATTTGATTTCA
* *
3929062 TGTAAGACCCTGTCTGGGACAGTGGCATCGATATTTGATTACA
1 TGTAAGACCCTGTCTGGGACATTGGCATCG-TATTTGATTTCA
* * **
3929105 TGTAAGATCATGTCTGGGATGTTGGCAT
1 TGTAAGACCCTGTCTGGGACATTGGCAT
3929133 TGTACGAGCT
Statistics
Matches: 94, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
42 28 0.30
43 37 0.39
44 26 0.28
45 3 0.03
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.32
Consensus pattern (42 bp):
TGTAAGACCCTGTCTGGGACATTGGCATCGTATTTGATTTCA
Found at i:3929637 original size:100 final size:100
Alignment explanation
Indices: 3929526--3929726 Score: 384
Period size: 100 Copynumber: 2.0 Consensus size: 100
3929516 GCTTGGTTTT
*
3929526 GAATTGTAGATATTTAGCCATGCGAAAATGGCTTAATTTTGATATTAATGCTATGCATGTTCGGT
1 GAATTGTAGATATTTAGCCATGCGAAAATGGCTTAATTTTGATATTAATGCTATGCATATTCGGT
3929591 CATGGCAATAGTTTATTATAGAAGTGGATTTCATG
66 CATGGCAATAGTTTATTATAGAAGTGGATTTCATG
*
3929626 GAATTGTAGATATTTAGCCATGCGAAAATGGCTTAATTTTGATATTAATGTTATGCATATTCGGT
1 GAATTGTAGATATTTAGCCATGCGAAAATGGCTTAATTTTGATATTAATGCTATGCATATTCGGT
3929691 CATGGCAATAGTTTATTATAGAAGTGGATTTCATG
66 CATGGCAATAGTTTATTATAGAAGTGGATTTCATG
3929726 G
1 G
3929727 TATATATATA
Statistics
Matches: 99, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
100 99 1.00
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.38
Consensus pattern (100 bp):
GAATTGTAGATATTTAGCCATGCGAAAATGGCTTAATTTTGATATTAATGCTATGCATATTCGGT
CATGGCAATAGTTTATTATAGAAGTGGATTTCATG
Found at i:3935161 original size:10 final size:10
Alignment explanation
Indices: 3935146--3935302 Score: 50
Period size: 10 Copynumber: 16.4 Consensus size: 10
3935136 ACATGTGACA
3935146 AAAAAATTAT
1 AAAAAATTAT
3935156 -AAAAA--AT
1 AAAAAATTAT
*
3935163 -AAAAATCA-
1 AAAAAATTAT
3935171 ATAAAAATTAT
1 A-AAAAATTAT
3935182 --AAAATTAT
1 AAAAAATTAT
* **
3935190 TAAACTTTAAT
1 AAAAAATT-AT
3935201 AAAAAA-TATT
1 AAAAAATTA-T
* *
3935211 TAAAATTTACT
1 AAAAAATTA-T
*
3935222 A-AAAATTAG
1 AAAAAATTAT
**
3935231 AAAAAAAAAT
1 AAAAAATTAT
**
3935241 ATAAAAATCGT
1 A-AAAAATTAT
3935252 AAAAAA-TAT
1 AAAAAATTAT
*
3935261 -AAAAATTGT
1 AAAAAATTAT
**
3935270 AAAATTTTAT
1 AAAAAATTAT
*
3935280 -AAAAATCAT
1 AAAAAATTAT
3935289 AAAAAATTAT
1 AAAAAATTAT
3935299 AAAA
1 AAAA
3935303 TCTATCAAAA
Statistics
Matches: 104, Mismatches: 28, Indels: 30
0.64 0.17 0.19
Matches are distributed among these distances:
7 7 0.07
8 13 0.12
9 17 0.16
10 52 0.50
11 15 0.14
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.29
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:3935183 original size:9 final size:9
Alignment explanation
Indices: 3935147--3935302 Score: 75
Period size: 9 Copynumber: 16.4 Consensus size: 9
3935137 CATGTGACAA
3935147 AAAAATTAT
1 AAAAATTAT
3935156 AAAAA--AT
1 AAAAATTAT
*
3935163 AAAAATCAAT
1 AAAAAT-TAT
3935173 AAAAATTAT
1 AAAAATTAT
3935182 -AAAATTATT
1 AAAAATTA-T
**
3935191 AAACTTTAAT
1 AAAAATT-AT
*
3935201 AAAAAATATTT
1 -AAAAAT-TAT
*
3935212 AAAATTTACT
1 AAAAATTA-T
*
3935222 AAAAATTAGAAA
1 AAAAATT---AT
*
3935234 AAAAAATAT
1 AAAAATTAT
**
3935243 AAAAATCGT
1 AAAAATTAT
*
3935252 AAAAAATAT
1 AAAAATTAT
*
3935261 AAAAATTGT
1 AAAAATTAT
*
3935270 AAAATTTTAT
1 AAAA-ATTAT
*
3935280 AAAAATCAT
1 AAAAATTAT
3935289 AAAAAATTAT
1 -AAAAATTAT
3935299 AAAA
1 AAAA
3935303 TCTATCAAAA
Statistics
Matches: 108, Mismatches: 25, Indels: 28
0.67 0.16 0.17
Matches are distributed among these distances:
7 7 0.06
8 7 0.06
9 40 0.37
10 40 0.37
11 6 0.06
12 7 0.06
13 1 0.01
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.29
Consensus pattern (9 bp):
AAAAATTAT
Found at i:3935257 original size:18 final size:18
Alignment explanation
Indices: 3935234--3935302 Score: 84
Period size: 18 Copynumber: 3.7 Consensus size: 18
3935224 AAATTAGAAA
3935234 AAAAAATATAAAAATCGT
1 AAAAAATATAAAAATCGT
*
3935252 AAAAAATATAAAAATTGT
1 AAAAAATATAAAAATCGT
** *
3935270 AAAATTTTATAAAAATCAT
1 AAAA-AATATAAAAATCGT
3935289 AAAAAATTATAAAA
1 AAAAAA-TATAAAA
3935303 TCTATCAAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
18 21 0.50
19 21 0.50
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.28
Consensus pattern (18 bp):
AAAAAATATAAAAATCGT
Found at i:3935312 original size:29 final size:27
Alignment explanation
Indices: 3935234--3935314 Score: 76
Period size: 27 Copynumber: 2.9 Consensus size: 27
3935224 AAATTAGAAA
* *
3935234 AAAAAATATAAAAATCGTA-AAAAATAT
1 AAAAATTATAAAATTC-TATAAAAATAT
* *
3935261 AAAAATTGTAAAATTTTATAAAAATCAT
1 AAAAATTATAAAATTCTATAAAAAT-AT
3935289 AAAAAATTATAAAA-TCTATCAAAAAT
1 -AAAAATTATAAAATTCTAT-AAAAAT
3935315 GCCCTTTAAC
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
26 2 0.05
27 18 0.41
28 6 0.14
29 18 0.41
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.28
Consensus pattern (27 bp):
AAAAATTATAAAATTCTATAAAAATAT
Found at i:3935314 original size:19 final size:19
Alignment explanation
Indices: 3935233--3935302 Score: 79
Period size: 19 Copynumber: 3.7 Consensus size: 19
3935223 AAAATTAGAA
* *
3935233 AAAAAAATATAAAAATCGT
1 AAAAAATTATAAAAATCAT
**
3935252 AAAAAA-TATAAAAATTGT
1 AAAAAATTATAAAAATCAT
**
3935270 AAAATTTTATAAAAATCAT
1 AAAAAATTATAAAAATCAT
3935289 AAAAAATTATAAAA
1 AAAAAATTATAAAA
3935303 TCTATCAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
18 15 0.35
19 28 0.65
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.27
Consensus pattern (19 bp):
AAAAAATTATAAAAATCAT
Found at i:3935440 original size:18 final size:18
Alignment explanation
Indices: 3935417--3935459 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
3935407 ATATGTGGCA
3935417 AAAAATAATA-AAAACAAT
1 AAAAATAATAGAAAA-AAT
*
3935435 AAAAATTATAGAAAAAAT
1 AAAAATAATAGAAAAAAT
3935453 ACAAAAT
1 A-AAAAT
3935460 GTTTCTTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 13 0.59
19 9 0.41
ACGTcount: A:0.74, C:0.05, G:0.02, T:0.19
Consensus pattern (18 bp):
AAAAATAATAGAAAAAAT
Found at i:3938979 original size:113 final size:114
Alignment explanation
Indices: 3938838--3939064 Score: 447
Period size: 113 Copynumber: 2.0 Consensus size: 114
3938828 AACATTTTTT
3938838 CCTTTTATCTATTTTTTTTAATATTTGCATTGTAGTAGTATTATATATTACTATAGATTTACTTT
1 CCTTTTATCTATTTTTTTTAATATTTGCATTGTAGTAGTATTATATATTACTATAGATTTACTTT
3938903 TTATGTCTTAAAAATTACATAATATATAAAAATAACATAATACAAAATG
66 TTATGTCTTAAAAATTACATAATATATAAAAATAACATAATACAAAATG
3938952 CCTTTTATCT-TTTTTTTTAATATTTGCATTGTAGTAGTATTATATATTACTATAGATTTACTTT
1 CCTTTTATCTATTTTTTTTAATATTTGCATTGTAGTAGTATTATATATTACTATAGATTTACTTT
3939016 TTATGTCTTAAAAATTACATAATATATAAAAATAACATAATACAAAATG
66 TTATGTCTTAAAAATTACATAATATATAAAAATAACATAATACAAAATG
3939065 TTACAAACTT
Statistics
Matches: 113, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
113 103 0.91
114 10 0.09
ACGTcount: A:0.38, C:0.09, G:0.06, T:0.47
Consensus pattern (114 bp):
CCTTTTATCTATTTTTTTTAATATTTGCATTGTAGTAGTATTATATATTACTATAGATTTACTTT
TTATGTCTTAAAAATTACATAATATATAAAAATAACATAATACAAAATG
Found at i:3939285 original size:35 final size:35
Alignment explanation
Indices: 3939239--3939310 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
3939229 TTTTAGATTT
* *
3939239 TTCCGAATCAAACTAAAAGTTTCGAGAATAATTCC
1 TTCCGAATCAAACTAAAAGATTCAAGAATAATTCC
3939274 TTCCGAATCAAACTAAAAGATTCAAGAATAATTCC
1 TTCCGAATCAAACTAAAAGATTCAAGAATAATTCC
3939309 TT
1 TT
3939311 TTGAGTGATG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.29
Consensus pattern (35 bp):
TTCCGAATCAAACTAAAAGATTCAAGAATAATTCC
Done.