Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008132.1 Hibiscus syriacus cultivar Beakdansim tig00110687_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 357788
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
File 1 of 2
Found at i:925 original size:34 final size:36
Alignment explanation
Indices: 867--936 Score: 108
Period size: 34 Copynumber: 2.0 Consensus size: 36
857 TTTTGCCGTA
*
867 GAATGCTTTTGGTATCAATCTAACA-GATCTTTGTG
1 GAATGCTTTTGGTATCAATATAACAGGATCTTTGTG
*
902 GAATGC-TTTGGTATTAATATAACAGGATCTTTGTG
1 GAATGCTTTTGGTATCAATATAACAGGATCTTTGTG
937 TGCATATCTC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
34 16 0.50
35 16 0.50
ACGTcount: A:0.27, C:0.11, G:0.21, T:0.40
Consensus pattern (36 bp):
GAATGCTTTTGGTATCAATATAACAGGATCTTTGTG
Found at i:2827 original size:22 final size:22
Alignment explanation
Indices: 2797--2845 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
2787 TAAATAGAAT
*
2797 AAATTGCATTAAATAATGACTA
1 AAATAGCATTAAATAATGACTA
2819 AAATAGCATTAAATAATGACTA
1 AAATAGCATTAAATAATGACTA
2841 AAATA
1 AAATA
2846 AAAGGAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.55, C:0.08, G:0.08, T:0.29
Consensus pattern (22 bp):
AAATAGCATTAAATAATGACTA
Found at i:3077 original size:71 final size:73
Alignment explanation
Indices: 2951--3090 Score: 248
Period size: 71 Copynumber: 1.9 Consensus size: 73
2941 ATAAAAGAAA
2951 TTTATATTTAATTAATATCTATATAATAAGTCAAATAGTATTAATTTCTACTATGATTAAAAATG
1 TTTATATTTAATTAATATC-ATATAATAAGTCAAATAGTATTAATTTCTACTATGATTAAAAATG
3016 GATAGAATG
65 GATAGAATG
*
3025 TTTATATTTAATTAATATC-TAT-ATAAGTCAAATAGTATTAATTTCTATTATGATTAAAAATGG
1 TTTATATTTAATTAATATCATATAATAAGTCAAATAGTATTAATTTCTACTATGATTAAAAATGG
3088 ATA
66 ATA
3091 ATGGAAAGTA
Statistics
Matches: 65, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
71 43 0.66
72 3 0.05
74 19 0.29
ACGTcount: A:0.43, C:0.05, G:0.09, T:0.44
Consensus pattern (73 bp):
TTTATATTTAATTAATATCATATAATAAGTCAAATAGTATTAATTTCTACTATGATTAAAAATGG
ATAGAATG
Found at i:5545 original size:2 final size:2
Alignment explanation
Indices: 5538--5568 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
5528 TAAATTTTAA
5538 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
5569 AATCGTGAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11483 original size:78 final size:78
Alignment explanation
Indices: 11318--11483 Score: 230
Period size: 78 Copynumber: 2.1 Consensus size: 78
11308 AGAAAAATAT
* * * *
11318 TATATTATTCATGAATTTATATTCGATTAAAATATAGTATTATAATTTTGGCATCATTGTTATAC
1 TATATTATTTATGAATTTATATTCGATTAAAATATAGTATTATAATTCTGACATCATTGATATAC
*
11383 CTTAATTTTGAAA
66 CTTAATTTTAAAA
*
11396 TATATTATTTATGAATTTATATTCGATTAAAATA-AGGTATTATAGTTCTGACAAT-ATTGATAT
1 TATATTATTTATGAATTTATATTCGATTAAAATATA-GTATTATAATTCTGAC-ATCATTGATAT
11459 ACCTT-ATTTTCAAAA
64 ACCTTAATTTT-AAAA
11474 TATATTATTT
1 TATATTATTT
11484 CCAATTATAT
Statistics
Matches: 79, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
77 6 0.08
78 71 0.90
79 2 0.03
ACGTcount: A:0.37, C:0.07, G:0.08, T:0.48
Consensus pattern (78 bp):
TATATTATTTATGAATTTATATTCGATTAAAATATAGTATTATAATTCTGACATCATTGATATAC
CTTAATTTTAAAA
Found at i:21561 original size:23 final size:24
Alignment explanation
Indices: 21535--21585 Score: 86
Period size: 23 Copynumber: 2.2 Consensus size: 24
21525 AAATTCTTCT
21535 AACATTCATAGAAACC-AAACATA
1 AACATTCATAGAAACCAAAACATA
*
21558 AACATTCATAGAAACCAAAACATG
1 AACATTCATAGAAACCAAAACATA
21582 AACA
1 AACA
21586 ATAAATTTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 16 0.62
24 10 0.38
ACGTcount: A:0.57, C:0.22, G:0.06, T:0.16
Consensus pattern (24 bp):
AACATTCATAGAAACCAAAACATA
Found at i:21937 original size:2 final size:2
Alignment explanation
Indices: 21872--21923 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
21862 ATTTTTTTTA
21872 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21914 AT AT AT AT AT
1 AT AT AT AT AT
21924 GGATGGATAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25671 original size:29 final size:29
Alignment explanation
Indices: 25629--25687 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
25619 ATTTTCACCT
25629 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
25658 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
25687 A
1 A
25688 TTAATTTAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.24
Consensus pattern (29 bp):
AACTAAATTGATGTAAGCAATGACATCAA
Found at i:30357 original size:29 final size:29
Alignment explanation
Indices: 30315--30373 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
30305 ATTTTCACCT
30315 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
30344 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
30373 A
1 A
30374 TTAATTTAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.24
Consensus pattern (29 bp):
AACTAAATTGATGTAAGCAATGACATCAA
Found at i:32582 original size:105 final size:103
Alignment explanation
Indices: 32395--32586 Score: 244
Period size: 106 Copynumber: 1.8 Consensus size: 103
32385 TAAGCCCCGA
* * * *
32395 CCAGGTGATTTTGGGGATTTGGTTTTCGTCTTTCGTCCCCAAAGCTGCTACGCGATTAGGGTGTT
1 CCAGGTGATTTTGGGGATTAGGTTTTCGTCTTTCATCCCAAAAGCTGCTACGCGATTAGGGTATT
*
32460 CTTAGCTAGTTTTGGTGAGACTATTTTTATCTATCCAG
66 CTTACCTAGTTTTGGTGAGACTATTTTTATCTATCCAG
* * * *
32498 CCAGTTGATTTTGGGGATTAGGTTTCATTCAG-CTTTCATCCCAAAAGTTGCTACGCGTTTTGGG
1 CCAGGTGATTTTGGGGATTAGG-TT--TTC-GTCTTTCATCCCAAAAGCTGCTACGCGATTAGGG
*
32562 TATTC-TCCCTAGTTTTGGTGAGACT
62 TATTCTTACCTAGTTTTGGTGAGACT
32587 GTTTCATTCT
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
103 20 0.27
104 2 0.03
105 18 0.24
106 34 0.45
107 1 0.01
ACGTcount: A:0.17, C:0.19, G:0.24, T:0.40
Consensus pattern (103 bp):
CCAGGTGATTTTGGGGATTAGGTTTTCGTCTTTCATCCCAAAAGCTGCTACGCGATTAGGGTATT
CTTACCTAGTTTTGGTGAGACTATTTTTATCTATCCAG
Found at i:37079 original size:2 final size:2
Alignment explanation
Indices: 37072--37129 Score: 109
Period size: 2 Copynumber: 29.5 Consensus size: 2
37062 TGGAAGCGGA
37072 AT AT AT AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
37113 AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
37130 AGCTGGTGAT
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 54 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:38576 original size:5 final size:5
Alignment explanation
Indices: 38566--38821 Score: 373
Period size: 5 Copynumber: 50.6 Consensus size: 5
38556 GCATTATGCC
38566 TTATA TTATA TTATA TTATA -TATA TTATA TATATA TTATA TTATATA
1 TTATA TTATA TTATA TTATA TTATA TTATA T-TATA TTATA -T-TATA
38613 TTATA TTATA TTATTA TATATA TTTATA TTATA TTATA -TATA TTATA
1 TTATA TTATA TTA-TA T-TATA -TTATA TTATA TTATA TTATA TTATA
38660 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATTA TATATA TTAT-
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTA-TA T-TATA TTATA
38711 TTATA TTATA -TATA TTATA TTATA TTATATA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA -T-TATA TTATA TTATA TTATA TTATA
38762 TTATA TTATA TTATA TTATA TTATA TTATA -T-TA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
38810 -TATA TTATA TTA
1 TTATA TTATA TTA
38822 AAATTGACAA
Statistics
Matches: 234, Mismatches: 0, Indels: 34
0.87 0.00 0.13
Matches are distributed among these distances:
3 2 0.01
4 22 0.09
5 173 0.74
6 24 0.10
7 13 0.06
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TTATA
Found at i:38695 original size:72 final size:71
Alignment explanation
Indices: 38566--38821 Score: 407
Period size: 72 Copynumber: 3.6 Consensus size: 71
38556 GCATTATGCC
38566 TTATATTATATTATATTATA-TATATTATATATATATTATATTATATATTATATTATATTATTAT
1 TTATATTATA-TATATTATATTATATTATAT-TATATTATA-T-TATATTATATTATATTATTAT
38630 ATATATTTATA
62 ATATA-TTATA
38641 TTATATTATATATATTATATTATATTATATTATATTATATTATATTATATTATATTATTATATAT
1 TTATATTATATATATTATATTATATTATATTATATTATATTATATTATATTATATTATTATATAT
38706 ATTAT-
66 ATTATA
38711 TTATATTATATATATTATATTATATTATATATTATATTATATTATATTATATTATATTA-TAT-T
1 TTATATTATATATATTATATTATA-T-TATATTATATTATATTATATTATATTATATTATTATAT
38774 ATATTATA
64 ATATTATA
38782 TTATATTATAT-TATTATATTATATTATA-TATATTATATTA
1 TTATATTATATATATTATATTATATTATATTATATTATATTA
38822 AAATTGACAA
Statistics
Matches: 177, Mismatches: 0, Indels: 16
0.92 0.00 0.08
Matches are distributed among these distances:
67 12 0.07
68 4 0.02
69 1 0.01
70 44 0.25
71 19 0.11
72 58 0.33
73 1 0.01
74 18 0.10
75 20 0.11
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (71 bp):
TTATATTATATATATTATATTATATTATATTATATTATATTATATTATATTATATTATTATATAT
ATTATA
Found at i:43475 original size:45 final size:45
Alignment explanation
Indices: 43424--43525 Score: 141
Period size: 45 Copynumber: 2.3 Consensus size: 45
43414 CACTTATATG
* * * *
43424 CATTTCAATTATGTCATCCTTACATGTCTTTTATACACTATTATA
1 CATTTCATTTATGGCATCCTTACATGCCTTTGATACACTATTATA
* * *
43469 CCTTTCATTTATGGCATCCTTTCATGCCTTTGATACACTGTTATA
1 CATTTCATTTATGGCATCCTTACATGCCTTTGATACACTATTATA
43514 CATTTCATTTAT
1 CATTTCATTTAT
43526 AACATTCATT
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.25, C:0.22, G:0.07, T:0.47
Consensus pattern (45 bp):
CATTTCATTTATGGCATCCTTACATGCCTTTGATACACTATTATA
Found at i:43538 original size:45 final size:45
Alignment explanation
Indices: 43424--43538 Score: 115
Period size: 45 Copynumber: 2.6 Consensus size: 45
43414 CACTTATATG
* ** * *
43424 CATTTCAATTATGTCATCC-TTACATGTCTTTTATACACTATTATA
1 CATTTCATTTATAACATCCATT-CATGCCTTTGATACACTATTATA
* ** * *
43469 CCTTTCATTTATGGCATCCTTTCATGCCTTTGATACACTGTTATA
1 CATTTCATTTATAACATCCATTCATGCCTTTGATACACTATTATA
*
43514 CATTTCATTTATAACATTCATTCAT
1 CATTTCATTTATAACATCCATTCAT
43539 ACAATTATGC
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
45 56 0.97
46 2 0.03
ACGTcount: A:0.26, C:0.22, G:0.06, T:0.46
Consensus pattern (45 bp):
CATTTCATTTATAACATCCATTCATGCCTTTGATACACTATTATA
Found at i:43566 original size:2 final size:2
Alignment explanation
Indices: 43559--43592 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
43549 AATGTGTACA
43559 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
43593 CATCCCTTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:43764 original size:80 final size:79
Alignment explanation
Indices: 43627--43865 Score: 275
Period size: 80 Copynumber: 3.0 Consensus size: 79
43617 AAAAATTCCC
* ** *
43627 TTATTCTCTTACTCAAC-AGTGTTTAA-CGTTCGTCTAACTGCATAATTGACAACTTTCTGCCAA
1 TTATTCTTTTACTCAACGA-TACTTAACCGTTCATCTAACTGCATAATTGAC-ACTTTCTGCCAA
43690 ATGCACAGCTAGGCCA
64 ATGCACAGCTAGGCCA
* * * **
43706 TTATTCTTTTACTCAATGGTACTTAACCGTTCATCTAACTGACATAATTTACACTTTCTATCAAA
1 TTATTCTTTTACTCAACGATACTTAACCGTTCATCTAACTG-CATAATTGACACTTTCTGCCAAA
* *
43771 TTCATAGCTAGGCCA
65 TGCACAGCTAGGCCA
* ** * *
43786 TTATTCTTTTACTCAACGATACATAACTATTAATTTAACTGGCATAATTGACACCTTTCTGCCAA
1 TTATTCTTTTACTCAACGATACTTAACCGTTCATCTAACT-GCATAATTGACA-CTTTCTGCCAA
43851 ATGCACAGCTAGGCC
64 ATGCACAGCTAGGCC
43866 TCAAAGACAC
Statistics
Matches: 132, Mismatches: 23, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
79 20 0.15
80 80 0.61
81 32 0.24
ACGTcount: A:0.30, C:0.24, G:0.11, T:0.35
Consensus pattern (79 bp):
TTATTCTTTTACTCAACGATACTTAACCGTTCATCTAACTGCATAATTGACACTTTCTGCCAAAT
GCACAGCTAGGCCA
Found at i:43908 original size:68 final size:68
Alignment explanation
Indices: 43821--44338 Score: 704
Period size: 68 Copynumber: 7.7 Consensus size: 68
43811 ACTATTAATT
* * * * * **
43821 TAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCTCAAAGACACTTAGTTTTTC
1 TAACTGGCATAAATGACACCTTTCTGTCATATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTC
*
43886 ATA
66 ATC
* * *
43889 TAACTAGCATAAATGACACCTTTCTATCATATGAACAGTTAGGCCTCAAAGGCACTTAGCCTTTC
1 TAACTGGCATAAATGACACCTTTCTGTCATATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTC
43954 ATC
66 ATC
* * * * *
43957 TAAC-AGCATAAATGACACATTTCTGTCAAATGCACAGTTAGGTCTCAAAGGCATTTAGCCTTTC
1 TAACTGGCATAAATGACACCTTTCTGTCATATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTC
*
44021 ATT
66 ATC
** * *
44024 TAACTGAAATAAATGACACCTTTCTGTCATGTGCACAGTTAGGCCTCAAAGGCACTTAGCCGTTC
1 TAACTGGCATAAATGACACCTTTCTGTCATATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTC
44089 ATC
66 ATC
* * * *
44092 TAACTGGCATAAA-GACA-CTTTCTATCAAATGCACAATTAGGCCTCAAAGGCACTTAGTCTTTC
1 TAACTGGCATAAATGACACCTTTCTGTCATATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTC
44155 ATC
66 ATC
* *
44158 TAACTGGCATAAATGACATCTTTCTGTCATATACACAGTTAGGCCTCAAAGGCACTTAGCCTTTC
1 TAACTGGCATAAATGACACCTTTCTGTCATATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTC
44223 ATC
66 ATC
* * *
44226 TAACTGGCATAAATGATACCTTTTTGTCATATG-ACAGTTAGGCCTCAAAGGCATTTAGCCTTTC
1 TAACTGGCATAAATGACACCTTTCTGTCATATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTC
44290 ATC
66 ATC
* *
44293 TAACTGGCATAAATGACACCTTTATGTTATATGCACA-TTAAGGCCT
1 TAACTGGCATAAATGACACCTTTCTGTCATATGCACAGTT-AGGCCT
44339 ATTGATCTTT
Statistics
Matches: 396, Mismatches: 49, Indels: 10
0.87 0.11 0.02
Matches are distributed among these distances:
66 56 0.14
67 133 0.34
68 207 0.52
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (68 bp):
TAACTGGCATAAATGACACCTTTCTGTCATATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTC
ATC
Found at i:44069 original size:135 final size:136
Alignment explanation
Indices: 43821--44338 Score: 706
Period size: 135 Copynumber: 3.8 Consensus size: 136
43811 ACTATTAATT
* * * * **
43821 TAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCTCAAAGACACTTAGTTTTTC
1 TAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTC
* * *
43886 ATATAACT-AGCATAAATGACACCTTTCTATCATATGAACAGTTAGGCCTCAAAGGCACTTAGCC
66 ATCTAACTGA-CATAAATGACACCTTTCTGTCATATGCACAGTTAGGCCTCAAAGGCACTTAGCC
43950 TTTCATC
130 TTTCATC
* * * *
43957 TAAC-AGCATAAATGACACATTTCTGTCAAATGCACAGTTAGGTCTCAAAGGCATTTAGCCTTTC
1 TAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTC
* * * *
44021 ATTTAACTGAAATAAATGACACCTTTCTGTCATGTGCACAGTTAGGCCTCAAAGGCACTTAGCCG
66 ATCTAACTGACATAAATGACACCTTTCTGTCATATGCACAGTTAGGCCTCAAAGGCACTTAGCCT
44086 TTCATC
131 TTCATC
* * *
44092 TAACTGGCATAAA-GACA-CTTTCTATCAAATGCACAATTAGGCCTCAAAGGCACTTAGTCTTTC
1 TAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTC
* * *
44155 ATCTAACTGGCATAAATGACATCTTTCTGTCATATACACAGTTAGGCCTCAAAGGCACTTAGCCT
66 ATCTAACTGACATAAATGACACCTTTCTGTCATATGCACAGTTAGGCCTCAAAGGCACTTAGCCT
44220 TTCATC
131 TTCATC
* * * *
44226 TAACTGGCATAAATGATACCTTTTTGTCATATG-ACAGTTAGGCCTCAAAGGCATTTAGCCTTTC
1 TAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTC
* * *
44290 ATCTAACTGGCATAAATGACACCTTTATGTTATATGCACA-TTAAGGCCT
66 ATCTAACTGACATAAATGACACCTTTCTGTCATATGCACAGTT-AGGCCT
44339 ATTGATCTTT
Statistics
Matches: 336, Mismatches: 41, Indels: 11
0.87 0.11 0.03
Matches are distributed among these distances:
134 119 0.35
135 194 0.58
136 23 0.07
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (136 bp):
TAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTC
ATCTAACTGACATAAATGACACCTTTCTGTCATATGCACAGTTAGGCCTCAAAGGCACTTAGCCT
TTCATC
Found at i:44890 original size:116 final size:116
Alignment explanation
Indices: 44715--44938 Score: 312
Period size: 116 Copynumber: 1.9 Consensus size: 116
44705 CCCATACGGA
* * * *
44715 AATTCATATACATAGTATGAATTTCTTGTCCTTTAGCACACAAGGTGCCCAATACAGAAATTTAT
1 AATTCATACACATAGTATGAATTTCTTATCATTTAGCACACAAGGTGCCCAATACAGAAATTCAT
*
44780 ACACTTAGTATGAATTT-CTTATCATGTTAGCACACGAAGTGCCATATCTGG
66 ACACTTACTATG-ATTTCCTTATCATGTTAGCACACGAAGTGCCATATCTGG
* *
44831 AATTCATACACATAGT-TGATTTTCTTATCATGTTAGCACACGAA-GTGCCCTAT-CTAGAAATT
1 AATTCATACACATAGTATGAATTTCTTATCAT-TTAGCACAC-AAGGTGCCCAATAC-AGAAATT
*
44893 CATACACTTACTATGATTTCCTTATCATTTTAGCACACGAAGTGCC
63 CATACACTTACTATGATTTCCTTATCATGTTAGCACACGAAGTGCC
44939 CTATTTGGTA
Statistics
Matches: 96, Mismatches: 8, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
115 17 0.18
116 77 0.80
117 2 0.02
ACGTcount: A:0.32, C:0.21, G:0.13, T:0.34
Consensus pattern (116 bp):
AATTCATACACATAGTATGAATTTCTTATCATTTAGCACACAAGGTGCCCAATACAGAAATTCAT
ACACTTACTATGATTTCCTTATCATGTTAGCACACGAAGTGCCATATCTGG
Found at i:44936 original size:59 final size:58
Alignment explanation
Indices: 44713--44942 Score: 272
Period size: 58 Copynumber: 3.9 Consensus size: 58
44703 TTCCCATACG
* * * * *
44713 GAAATTCATATACATAGTATGAATTTCTTGTCCT-TTAGCACAC-AAGGTGCCCAATAC-A
1 GAAATTCATACACTTAGTATG-ATTTCTTATCATGTTAGCACACGAA-GTGCCCTAT-CTA
* *
44771 GAAATTTATACACTTAGTATGAATTTCTTATCATGTTAGCACACGAAGTGCCATATCT-
1 GAAATTCATACACTTAGTATG-ATTTCTTATCATGTTAGCACACGAAGTGCCCTATCTA
* *
44829 GGAATTCATACACATAGT-TGATTTTCTTATCATGTTAGCACACGAAGTGCCCTATCTA
1 GAAATTCATACACTTAGTATGA-TTTCTTATCATGTTAGCACACGAAGTGCCCTATCTA
* *
44887 GAAATTCATACACTTACTATGATTTCCTTATCATTTTAGCACACGAAGTGCCCTAT
1 GAAATTCATACACTTAGTATGATTT-CTTATCATGTTAGCACACGAAGTGCCCTAT
44943 TTGGTAATCA
Statistics
Matches: 150, Mismatches: 15, Indels: 13
0.84 0.08 0.07
Matches are distributed among these distances:
56 1 0.01
57 36 0.24
58 63 0.42
59 48 0.32
60 2 0.01
ACGTcount: A:0.32, C:0.20, G:0.13, T:0.34
Consensus pattern (58 bp):
GAAATTCATACACTTAGTATGATTTCTTATCATGTTAGCACACGAAGTGCCCTATCTA
Found at i:45953 original size:3 final size:3
Alignment explanation
Indices: 45945--45972 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
45935 GCACCCACGT
45945 GAA GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA G
45973 TATAGAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:46163 original size:24 final size:24
Alignment explanation
Indices: 46136--46187 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
46126 TTTACCAATT
46136 ATTCAATTCAATCATCAAATTTTA
1 ATTCAATTCAATCATCAAATTTTA
** *
46160 ATTCTTTTCAATTATCAAATTTTA
1 ATTCAATTCAATCATCAAATTTTA
46184 ATTC
1 ATTC
46188 TTTTCAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.15, G:0.00, T:0.48
Consensus pattern (24 bp):
ATTCAATTCAATCATCAAATTTTA
Found at i:46188 original size:24 final size:24
Alignment explanation
Indices: 46142--46196 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
46132 AATTATTCAA
*
46142 TTCAATCATCAAATTTTAATTCTT
1 TTCAATTATCAAATTTTAATTCTT
46166 TTCAATTATCAAATTTTAATTCTT
1 TTCAATTATCAAATTTTAATTCTT
46190 TTCAATT
1 TTCAATT
46197 TAGTCCTTGA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.33, C:0.15, G:0.00, T:0.53
Consensus pattern (24 bp):
TTCAATTATCAAATTTTAATTCTT
Found at i:48570 original size:45 final size:45
Alignment explanation
Indices: 48489--48590 Score: 134
Period size: 45 Copynumber: 2.3 Consensus size: 45
48479 CACCTATATG
* * * *
48489 CATTTCAATTATGTCATCTTTACATGTCTTTTATACACTATTATA
1 CATTTCATTTATGGCATCTTTACATGCCTTTGATACACTATTATA
* *
48534 CCTTTTATTTATGGCATCCTTT-CATGCCTTTGATACACTATTATA
1 CATTTCATTTATGGCAT-CTTTACATGCCTTTGATACACTATTATA
48579 CATTTCATTTAT
1 CATTTCATTTAT
48591 AACATCCATT
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
45 44 0.92
46 4 0.08
ACGTcount: A:0.25, C:0.20, G:0.06, T:0.49
Consensus pattern (45 bp):
CATTTCATTTATGGCATCTTTACATGCCTTTGATACACTATTATA
Found at i:48597 original size:45 final size:45
Alignment explanation
Indices: 48489--48603 Score: 133
Period size: 45 Copynumber: 2.6 Consensus size: 45
48479 CACCTATATG
* * * *
48489 CATTTCAATTATGTCAT-CTTTACATGTCTTTTATACACTATTATA
1 CATTTCATTTATGACATCCTTT-CATGCCTTTGATACACTATTATA
* * *
48534 CCTTTTATTTATGGCATCCTTTCATGCCTTTGATACACTATTATA
1 CATTTCATTTATGACATCCTTTCATGCCTTTGATACACTATTATA
* *
48579 CATTTCATTTATAACATCCATTCAT
1 CATTTCATTTATGACATCCTTTCAT
48604 ACAATTATGC
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
45 54 0.93
46 4 0.07
ACGTcount: A:0.27, C:0.21, G:0.05, T:0.47
Consensus pattern (45 bp):
CATTTCATTTATGACATCCTTTCATGCCTTTGATACACTATTATA
Found at i:48829 original size:68 final size:67
Alignment explanation
Indices: 48720--49195 Score: 538
Period size: 68 Copynumber: 7.0 Consensus size: 67
48710 TATTCTTTTA
* * * * * * * * *
48720 CTCAACGGTACTTAACCGTTCATCTAACTGACATAATTGACACTTTTTTTCCAAATGCACAGCTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAAATGACACTTTCTGT-CAAATGCACAGTTA
48785 GGC
65 GGC
* * * *
48788 CTCAAAGACACTTAGTCTTTCATCTAATTGGCATAAATGACATCTTTCTGTCATATGCACAGTTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAAATGACA-CTTTCTGTCAAATGCACAGTTA
48853 GGC
65 GGC
* * * * *
48856 CTCAAAGGTACTTAGCCTTTCATCTAATTGGCATAAATGACACCTTTCTATAAAACGCACAGTTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAAATGACA-CTTTCTGTCAAATGCACAGTTA
48921 GGC
65 GGC
* * * * *
48924 CTCAAAGACACTTAGCCTTTCATATAATTGGCATAAATGACACCTTTCTGTCATATGTACAGTTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAAATGACA-CTTTCTGTCAAATGCACAGTTA
48989 GGC
65 GGC
* * * * * * * *
48992 CTTAAAGGTACCTAGTCTTTCATGTAACTGGCATAAATGACTCATTTATGTCAAATGCACTGTTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAAATGACAC-TTTCTGTCAAATGCACAGTTA
49057 GGC
65 GGC
* *
49060 CTCAAAGGCAATTAGCCTTTCATCTAACTGGCATAAATGACACATTTCTGTCATATGCACAGTTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAAATGACAC-TTTCTGTCAAATGCACAGTTA
*
49125 GGT
65 GGC
* * * * *
49128 CTCAAAGGCATTTAGCCTTTCATCGAACTGGCATAAATGACACCTTTCTATCATATGCACGGTTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAAATGACA-CTTTCTGTCAAATGCACAGTTA
49193 GGC
65 GGC
49196 TTCTTGATCT
Statistics
Matches: 348, Mismatches: 57, Indels: 6
0.85 0.14 0.01
Matches are distributed among these distances:
67 1 0.00
68 340 0.98
69 7 0.02
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.32
Consensus pattern (67 bp):
CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAAATGACACTTTCTGTCAAATGCACAGTTAG
GC
Found at i:48964 original size:136 final size:135
Alignment explanation
Indices: 48720--49195 Score: 621
Period size: 136 Copynumber: 3.5 Consensus size: 135
48710 TATTCTTTTA
* * * * * * * *
48720 CTCAACGGTACTTAACCGTTCATCTAACTGACATAATTGACA-CTTTTTTTCCAAATGCACAGCT
1 CTCAAAGGTACTTAGCCTTTCATCTAACTGGCATAAATGACACCTTTCTAT-CAAATGCACAGTT
*
48784 AGGCCTCAAAGACACTTAGTCTTTCATCTAATTGGCATAAATGACATCTTTCTGTCATATGCACA
65 AGGCCTCAAAGACACTTAGCCTTTCATCTAATTGGCATAAATGACA-CTTTCTGTCATATGCACA
48849 GTTAGGC
129 GTTAGGC
* * *
48856 CTCAAAGGTACTTAGCCTTTCATCTAATTGGCATAAATGACACCTTTCTATAAAACGCACAGTTA
1 CTCAAAGGTACTTAGCCTTTCATCTAACTGGCATAAATGACACCTTTCTATCAAATGCACAGTTA
* *
48921 GGCCTCAAAGACACTTAGCCTTTCATATAATTGGCATAAATGACACCTTTCTGTCATATGTACAG
66 GGCCTCAAAGACACTTAGCCTTTCATCTAATTGGCATAAATGACA-CTTTCTGTCATATGCACAG
48986 TTAGGC
130 TTAGGC
* * * * * * * * *
48992 CTTAAAGGTACCTAGTCTTTCATGTAACTGGCATAAATGACTCATTTATGTCAAATGCACTGTTA
1 CTCAAAGGTACTTAGCCTTTCATCTAACTGGCATAAATGACACCTTTCTATCAAATGCACAGTTA
* * *
49057 GGCCTCAAAGGCAATTAGCCTTTCATCTAACTGGCATAAATGACACATTTCTGTCATATGCACAG
66 GGCCTCAAAGACACTTAGCCTTTCATCTAATTGGCATAAATGACAC-TTTCTGTCATATGCACAG
*
49122 TTAGGT
130 TTAGGC
* * * * *
49128 CTCAAAGGCATTTAGCCTTTCATCGAACTGGCATAAATGACACCTTTCTATCATATGCACGGTTA
1 CTCAAAGGTACTTAGCCTTTCATCTAACTGGCATAAATGACACCTTTCTATCAAATGCACAGTTA
49193 GGC
66 GGC
49196 TTCTTGATCT
Statistics
Matches: 292, Mismatches: 46, Indels: 4
0.85 0.13 0.01
Matches are distributed among these distances:
135 1 0.00
136 285 0.98
137 6 0.02
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.32
Consensus pattern (135 bp):
CTCAAAGGTACTTAGCCTTTCATCTAACTGGCATAAATGACACCTTTCTATCAAATGCACAGTTA
GGCCTCAAAGACACTTAGCCTTTCATCTAATTGGCATAAATGACACTTTCTGTCATATGCACAGT
TAGGC
Found at i:49694 original size:59 final size:59
Alignment explanation
Indices: 49567--49803 Score: 318
Period size: 59 Copynumber: 4.0 Consensus size: 59
49557 TATGTTTCCC
* * * *
49567 ATATGGAAATTCATACACTTAGTATGAATTTCTTGTCCT-TTAGCACAC-AAGGTGCCCA
1 ATATAGAAATTCATACACTTAGTATGAATTTCTTATCATGTTAGCACACGAA-GTGCCCT
* * *
49625 ATACAGAAATTTATACACTTAGTATAAATTTCTTATCATGTTAGCACACGAAGTGCCCT
1 ATATAGAAATTCATACACTTAGTATGAATTTCTTATCATGTTAGCACACGAAGTGCCCT
* * *
49684 ATATGGAAATTCATACACTTAGTATGATTTTCTTTTCATGTTAGCACACGAAGTGCCCT
1 ATATAGAAATTCATACACTTAGTATGAATTTCTTATCATGTTAGCACACGAAGTGCCCT
* * *
49743 ATATAGAAATTCATACACTTAGTATG-CTTTACTTATCATTTTAGCACACAAAGTGCCCT
1 ATATAGAAATTCATACACTTAGTATGAATTT-CTTATCATGTTAGCACACGAAGTGCCCT
49802 AT
1 AT
49804 CTGGTAATCA
Statistics
Matches: 158, Mismatches: 18, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
58 36 0.23
59 120 0.76
60 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.35
Consensus pattern (59 bp):
ATATAGAAATTCATACACTTAGTATGAATTTCTTATCATGTTAGCACACGAAGTGCCCT
Found at i:53298 original size:20 final size:20
Alignment explanation
Indices: 53269--53307 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
53259 TTTCCACCAC
*
53269 ATGCAACTATATGCTCCTAA
1 ATGCAACTATATGATCCTAA
*
53289 ATGCATCTATATGATCCTA
1 ATGCAACTATATGATCCTA
53308 TGTGGCTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.33
Consensus pattern (20 bp):
ATGCAACTATATGATCCTAA
Found at i:62088 original size:21 final size:21
Alignment explanation
Indices: 62062--62109 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
62052 TTGAGGGTCT
*
62062 TATGTGGTCCTTCGGGAAAAA
1 TATGTGGTCCTTCGAGAAAAA
*
62083 TATGTGGTCCTTCGAGACAAA
1 TATGTGGTCCTTCGAGAAAAA
62104 TATGTG
1 TATGTG
62110 ACACTTCGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (21 bp):
TATGTGGTCCTTCGAGAAAAA
Found at i:62137 original size:23 final size:23
Alignment explanation
Indices: 62104--62156 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
62094 TCGAGACAAA
*
62104 TATGTGACACTTCGGTGCAAACC
1 TATGTGGCACTTCGGTGCAAACC
* *
62127 TATGTGGCACTTCGGTGTACACC
1 TATGTGGCACTTCGGTGCAAACC
62150 TATGTGG
1 TATGTGG
62157 TCCTTTGGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.21, C:0.23, G:0.26, T:0.30
Consensus pattern (23 bp):
TATGTGGCACTTCGGTGCAAACC
Found at i:63042 original size:25 final size:26
Alignment explanation
Indices: 63014--63068 Score: 62
Period size: 24 Copynumber: 2.2 Consensus size: 26
63004 GCGAAAAACC
*
63014 TAAAAACGATA-AGGAAAATAAA-AAG
1 TAAAAACGATATA-AAAAATAAACAAG
*
63039 T-AAAACTATATAAAAAATAAACAAG
1 TAAAAACGATATAAAAAATAAACAAG
63064 TAAAA
1 TAAAA
63069 TACAAATGCT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
24 16 0.64
25 6 0.24
26 3 0.12
ACGTcount: A:0.69, C:0.05, G:0.09, T:0.16
Consensus pattern (26 bp):
TAAAAACGATATAAAAAATAAACAAG
Found at i:72795 original size:335 final size:335
Alignment explanation
Indices: 72185--72801 Score: 1117
Period size: 335 Copynumber: 1.8 Consensus size: 335
72175 GACAATATGA
72185 AAATGCAAATTGGTGAAGTCAGCTTAGAAATTTAGTTCTCGACAGTAAGTTTAGAAAATCACCAT
1 AAATGCAAATTGGTGAAGTCAGCTTAGAAATTTAGTTCTCGACAGTAAGTTTAGAAAATCACCAT
*
72250 AAATTCTAAAACAATTATTAGAGGATTATTTTTATACCGTTGGATTATTATATCATTCTAGTTTG
66 AAATTCTAAAACAATTATTAGAGGATTATATTTATACCGTTGGATTATTATATCATTCTAGTTTG
* *
72315 GTTTAGAACAAACGGAATCTGATTTTGAGGTATATACAAAAAGATATGAATTGTTAACCGAGGAT
131 GTTTAGAACAAACGGAATCTGATTTCGAGGTATATACAAAAAGATATGAATTGTTAACCAAGGAT
* *
72380 AGGTCAGAAAATGGGGCAGCAGATTCTGCTCAAAACAGATTATGTCGGTCTAGTTTAAAAATTCA
196 AGGTCAGAAAATAGGGCAGCAGATTCCGCTCAAAACAGATTATGTCGGTCTAGTTTAAAAATTCA
*
72445 CCATAAATTGTACAAATTGAAAGTGACAGAGTTAATATGGTATGGAGTGACTCCTAAAGTGTTAT
261 CCATAAATTGTACAAATCGAAAGTGACAGAGTTAATATGGTATGGAGTGACTCCTAAAGTGTTAT
72510 GTGATTTGCG
326 GTGATTTGCG
72520 AAATGCAAATTGGTGAAGTCAGCTTAGAAATTTAGTTCTCGACAGTAAGTTTAGAAAATCACCAT
1 AAATGCAAATTGGTGAAGTCAGCTTAGAAATTTAGTTCTCGACAGTAAGTTTAGAAAATCACCAT
* *
72585 AAATTCTAAAACAATTATTAGAGGATTATATTTATATCGTTGGATTATTATATCATTCTATTTTG
66 AAATTCTAAAACAATTATTAGAGGATTATATTTATACCGTTGGATTATTATATCATTCTAGTTTG
* * *
72650 GTTTAGAACAAACGGAATCTGATTTCGAGTTATATACAAAAATATATGAATTTTTAACCAAGGAT
131 GTTTAGAACAAACGGAATCTGATTTCGAGGTATATACAAAAAGATATGAATTGTTAACCAAGGAT
* *
72715 AGGTCAGAAAATAGGGCAGCAGATTCCGCTCAAAACATATTATGTCGGTCTAGTTTGAAAATTCA
196 AGGTCAGAAAATAGGGCAGCAGATTCCGCTCAAAACAGATTATGTCGGTCTAGTTTAAAAATTCA
72780 CCATAAATTGTACAAATCGAAA
261 CCATAAATTGTACAAATCGAAA
72802 TAGAAGGATT
Statistics
Matches: 269, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
335 269 1.00
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.32
Consensus pattern (335 bp):
AAATGCAAATTGGTGAAGTCAGCTTAGAAATTTAGTTCTCGACAGTAAGTTTAGAAAATCACCAT
AAATTCTAAAACAATTATTAGAGGATTATATTTATACCGTTGGATTATTATATCATTCTAGTTTG
GTTTAGAACAAACGGAATCTGATTTCGAGGTATATACAAAAAGATATGAATTGTTAACCAAGGAT
AGGTCAGAAAATAGGGCAGCAGATTCCGCTCAAAACAGATTATGTCGGTCTAGTTTAAAAATTCA
CCATAAATTGTACAAATCGAAAGTGACAGAGTTAATATGGTATGGAGTGACTCCTAAAGTGTTAT
GTGATTTGCG
Found at i:78663 original size:31 final size:31
Alignment explanation
Indices: 78626--78694 Score: 120
Period size: 31 Copynumber: 2.2 Consensus size: 31
78616 AGTTTTTCCA
78626 AAGTAACTTTTCATATCATTATGCATCAAAC
1 AAGTAACTTTTCATATCATTATGCATCAAAC
* *
78657 TAGTAACTTTTCATATCATTATGCTTCAAAC
1 AAGTAACTTTTCATATCATTATGCATCAAAC
78688 AAGTAAC
1 AAGTAAC
78695 ACCAATGCAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.38, C:0.19, G:0.07, T:0.36
Consensus pattern (31 bp):
AAGTAACTTTTCATATCATTATGCATCAAAC
Found at i:79949 original size:23 final size:23
Alignment explanation
Indices: 79914--79958 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
79904 TGGCTAAAAT
79914 GAACCAGAAATGAAAAGTTAATTG
1 GAACCAGAAATGAAAAG-TAATTG
79938 GAACCA-AAATGAAAAGTAATT
1 GAACCAGAAATGAAAAGTAATT
79959 ATAATATCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 5 0.24
23 10 0.48
24 6 0.29
ACGTcount: A:0.53, C:0.09, G:0.18, T:0.20
Consensus pattern (23 bp):
GAACCAGAAATGAAAAGTAATTG
Found at i:83760 original size:30 final size:30
Alignment explanation
Indices: 83726--84063 Score: 242
Period size: 30 Copynumber: 11.4 Consensus size: 30
83716 CAAAAAATTG
* *
83726 AAGGATTAAAATAGTAAAAATAGAAAGTTA
1 AAGGACTAAAATAGTAAAAATAGAAACTTA
* * * *
83756 AAGGACTAAAA-ATTAAAAATTGATA-TTT
1 AAGGACTAAAATAGTAAAAATAGAAACTTA
* *
83784 AAGTGACTAAAATCA-TAAAAACAAAAACTTA
1 AAG-GACTAAAAT-AGTAAAAATAGAAACTTA
* *
83815 AGGGACTAAAATAGTAAAATTAGAAACTTA
1 AAGGACTAAAATAGTAAAAATAGAAACTTA
* ** * *
83845 AGGGACTAAAATAACAAAAACAAAAACTTA
1 AAGGACTAAAATAGTAAAAATAGAAACTTA
* * * * *
83875 AATGACTAAAATAGTACAAAGAGGAATTTA
1 AAGGACTAAAATAGTAAAAATAGAAACTTA
* * * * *
83905 AAAGACTAAAATAGAAAAAAAAGAATCTCA
1 AAGGACTAAAATAGTAAAAATAGAAACTTA
* **
83935 AAGGGCTAAAATAGTAAAAATAGAAGTTTA
1 AAGGACTAAAATAGTAAAAATAGAAACTTA
*
83965 AAGGACTAAACTAGT-AAAATAGAAACTTA
1 AAGGACTAAAATAGTAAAAATAGAAACTTA
* * * *
83994 AAGG-GTCGAAACAGT-AAAAT-TAAACTTA
1 AAGGACT-AAAATAGTAAAAATAGAAACTTA
* * * *
84022 AGGGTCT-AAATAGCAAATATAGAAACTTA
1 AAGGACTAAAATAGTAAAAATAGAAACTTA
* *
84051 GAGGACCAAAATA
1 AAGGACTAAAATA
84064 AAATAAACAG
Statistics
Matches: 236, Mismatches: 62, Indels: 20
0.74 0.19 0.06
Matches are distributed among these distances:
27 5 0.02
28 20 0.08
29 57 0.24
30 149 0.63
31 5 0.02
ACGTcount: A:0.56, C:0.08, G:0.14, T:0.21
Consensus pattern (30 bp):
AAGGACTAAAATAGTAAAAATAGAAACTTA
Found at i:86151 original size:133 final size:133
Alignment explanation
Indices: 85990--86256 Score: 534
Period size: 133 Copynumber: 2.0 Consensus size: 133
85980 AGTTTTCGGT
85990 TCTCCATTCTTGCAAACCATGGAACAAAGAATGAAGATCAAAAACCTCCCACTACACCAACAAGA
1 TCTCCATTCTTGCAAACCATGGAACAAAGAATGAAGATCAAAAACCTCCCACTACACCAACAAGA
86055 TATGCGTGCTAGACGCTAAAGTCATGACGGTAACATCGACGAGCATCAAAGATCCCAAATTGTAT
66 TATGCGTGCTAGACGCTAAAGTCATGACGGTAACATCGACGAGCATCAAAGATCCCAAATTGTAT
86120 CTC
131 CTC
86123 TCTCCATTCTTGCAAACCATGGAACAAAGAATGAAGATCAAAAACCTCCCACTACACCAACAAGA
1 TCTCCATTCTTGCAAACCATGGAACAAAGAATGAAGATCAAAAACCTCCCACTACACCAACAAGA
86188 TATGCGTGCTAGACGCTAAAGTCATGACGGTAACATCGACGAGCATCAAAGATCCCAAATTGTAT
66 TATGCGTGCTAGACGCTAAAGTCATGACGGTAACATCGACGAGCATCAAAGATCCCAAATTGTAT
86253 CTC
131 CTC
86256 T
1 T
86257 TCATCATTGA
Statistics
Matches: 134, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
133 134 1.00
ACGTcount: A:0.37, C:0.26, G:0.16, T:0.21
Consensus pattern (133 bp):
TCTCCATTCTTGCAAACCATGGAACAAAGAATGAAGATCAAAAACCTCCCACTACACCAACAAGA
TATGCGTGCTAGACGCTAAAGTCATGACGGTAACATCGACGAGCATCAAAGATCCCAAATTGTAT
CTC
Found at i:87119 original size:2 final size:2
Alignment explanation
Indices: 87112--87166 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
87102 TTATTAAGAG
87112 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
87154 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
87167 CTGTTGTAAT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:89476 original size:19 final size:19
Alignment explanation
Indices: 89452--89495 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
89442 ATGAAAGTCA
89452 TATATGATAAATTATGATT
1 TATATGATAAATTATGATT
89471 TATATGATAAATTATGATT
1 TATATGATAAATTATGATT
89490 TATATG
1 TATATG
89496 GTATAAGTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (19 bp):
TATATGATAAATTATGATT
Found at i:94078 original size:2 final size:2
Alignment explanation
Indices: 94071--94141 Score: 142
Period size: 2 Copynumber: 35.5 Consensus size: 2
94061 TCAATCTACA
94071 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
94113 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
94142 ATTTACAAAA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 69 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:94360 original size:26 final size:26
Alignment explanation
Indices: 94298--94362 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 26
94288 AATGACGCTC
*
94298 AATGAACGTCATAAATGAGCGTTATA
1 AATGAACGTCATAAATGAGCGTCATA
*** * *
94324 AATGTGTGTCATAAATGTGTGTCATA
1 AATGAACGTCATAAATGAGCGTCATA
*
94350 AATGCACGTCATA
1 AATGAACGTCATA
94363 GATTTATGAC
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (26 bp):
AATGAACGTCATAAATGAGCGTCATA
Found at i:103573 original size:32 final size:31
Alignment explanation
Indices: 103506--103577 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 31
103496 AAGACTATTT
* * *
103506 GGTAGGCTCTGCGGCCCTGAGATCATTCTTG
1 GGTAGGCCCTGCGGCCCTAAGATCATTCTTA
*
103537 GGTAGGCCCTGCGGCCCTAAGAAGT-GTTCTTA
1 GGTAGGCCCTGCGGCCCTAAG-A-TCATTCTTA
103569 GGTAGGCCC
1 GGTAGGCCC
103578 CGTGGCCCCG
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
31 19 0.54
32 15 0.43
33 1 0.03
ACGTcount: A:0.15, C:0.26, G:0.33, T:0.25
Consensus pattern (31 bp):
GGTAGGCCCTGCGGCCCTAAGATCATTCTTA
Found at i:112569 original size:132 final size:132
Alignment explanation
Indices: 112322--112576 Score: 366
Period size: 132 Copynumber: 1.9 Consensus size: 132
112312 AAGGACGTGA
* * * ** *
112322 TTCTACTAACCTGTGTTTGAGGGAGGAGATTTTGCTAACCCGCACCTTTTAATGAAACGGTGTGC
1 TTCTACTAACATGTGCTTGAGAGAGGAGATTTTGCTAACCCGCACAATTTAATGAAACGGTGCGC
* * * * * *
112387 ACGGGAAAATGGAAAAATTCCCTGTTAAATGTGTGATCCGCTCAGCCTTTAATGAAAAGAGTGTG
66 ACGGGAAAATGGAAAAATTCCCTGCTAAATGCGTGACCCACTCAGACTTTAATAAAAAGAGTGTG
112452 GG
131 GG
* *
112454 TTCTGCTAACATGTGCTTGAGAGAGGAGATTTTGCTAACGCGCACAATTTAATGAAACGGTGCGC
1 TTCTACTAACATGTGCTTGAGAGAGGAGATTTTGCTAACCCGCACAATTTAATGAAACGGTGCGC
* *
112519 ACGGGAAAATGGAAAAATTCCCTGCTGAATGCGTGACCCACTCATACTTTAATAAAAA
66 ACGGGAAAATGGAAAAATTCCCTGCTAAATGCGTGACCCACTCAGACTTTAATAAAAA
112577 AAATTCTCAC
Statistics
Matches: 107, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
132 107 1.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (132 bp):
TTCTACTAACATGTGCTTGAGAGAGGAGATTTTGCTAACCCGCACAATTTAATGAAACGGTGCGC
ACGGGAAAATGGAAAAATTCCCTGCTAAATGCGTGACCCACTCAGACTTTAATAAAAAGAGTGTG
GG
Found at i:112696 original size:4 final size:4
Alignment explanation
Indices: 112683--112724 Score: 50
Period size: 4 Copynumber: 10.2 Consensus size: 4
112673 AAGTACATGG
*
112683 AAAT -AAT AAAT AAAT AAAT AAAT AAATT AATT AAATT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA-T AAAT AAA-T AAAT A
112725 TAACAAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
3 3 0.09
4 23 0.70
5 7 0.21
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (4 bp):
AAAT
Found at i:112722 original size:26 final size:25
Alignment explanation
Indices: 112689--112738 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
112679 ATGGAAATAA
*
112689 TAAATAAATA-AATAAATAAATTAAT
1 TAAATAAATATAACAAA-AAATTAAT
112714 TAAATTAAATATAACAAAAAATTAA
1 TAAA-TAAATATAACAAAAAATTAA
112739 AAATGGGTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 4 0.18
26 13 0.59
27 5 0.23
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (25 bp):
TAAATAAATATAACAAAAAATTAAT
Found at i:122577 original size:20 final size:20
Alignment explanation
Indices: 122554--122603 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
122544 TTTGAATTAA
*
122554 TTAAAATATTTTTAAAG-TGT
1 TTAAAATATGTTTAAAGCT-T
*
122574 TTAAAATGTGTTTAAAGCTT
1 TTAAAATATGTTTAAAGCTT
122594 TTAAAATATG
1 TTAAAATATG
122604 AAAAATACTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 25 0.96
21 1 0.04
ACGTcount: A:0.40, C:0.02, G:0.12, T:0.46
Consensus pattern (20 bp):
TTAAAATATGTTTAAAGCTT
Found at i:132582 original size:36 final size:36
Alignment explanation
Indices: 132540--132615 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
132530 TTATAGCTAA
*
132540 AAAAATCGTCTTTATTCGAATTTTGCCAAAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
132576 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
132612 AAAA
1 AAAA
132616 TCCCGAAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (36 bp):
AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
Found at i:138270 original size:20 final size:20
Alignment explanation
Indices: 138240--138277 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
138230 TGTCTTCTAG
138240 TTTCTATATAGTTATGAATGT
1 TTTCTATATAGTT-TGAATGT
138261 TTTCTA-ATAGTTTGAAT
1 TTTCTATATAGTTTGAAT
138278 AAGATTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 6 0.35
21 6 0.35
ACGTcount: A:0.29, C:0.05, G:0.13, T:0.53
Consensus pattern (20 bp):
TTTCTATATAGTTTGAATGT
Found at i:140589 original size:20 final size:20
Alignment explanation
Indices: 140559--140596 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
140549 TGTCTTCTAG
140559 TTTCTATATAGTTATGAATGT
1 TTTCTATATAGTT-TGAATGT
140580 TTTCTA-ATAGTTTGAAT
1 TTTCTATATAGTTTGAAT
140597 AAGATTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 6 0.35
21 6 0.35
ACGTcount: A:0.29, C:0.05, G:0.13, T:0.53
Consensus pattern (20 bp):
TTTCTATATAGTTTGAATGT
Found at i:142900 original size:19 final size:21
Alignment explanation
Indices: 142862--142900 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
142852 TGTCTTCTAG
142862 TTTCTATATAGTTATGAATGT
1 TTTCTATATAGTTATGAATGT
142883 TTTCTA-ATAGTT-TGAATG
1 TTTCTATATAGTTATGAATG
142901 AGATTTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.33
20 6 0.33
21 6 0.33
ACGTcount: A:0.28, C:0.05, G:0.15, T:0.51
Consensus pattern (21 bp):
TTTCTATATAGTTATGAATGT
Found at i:147982 original size:20 final size:20
Alignment explanation
Indices: 147952--147989 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
147942 TATCTTCTAG
147952 TTTCTATATATTTATGAATGT
1 TTTCTATATATTT-TGAATGT
147973 TTTCTA-ATATTTTGAAT
1 TTTCTATATATTTTGAAT
147990 AAGATTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 6 0.35
21 6 0.35
ACGTcount: A:0.29, C:0.05, G:0.08, T:0.58
Consensus pattern (20 bp):
TTTCTATATATTTTGAATGT
Found at i:153048 original size:20 final size:20
Alignment explanation
Indices: 153018--153055 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
153008 TATCTTCTAG
153018 TTTCTATATAGTTATGAATGT
1 TTTCTATATAGTT-TGAATGT
153039 TTTCTA-ATAGTTTGAAT
1 TTTCTATATAGTTTGAAT
153056 AAGATTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 6 0.35
21 6 0.35
ACGTcount: A:0.29, C:0.05, G:0.13, T:0.53
Consensus pattern (20 bp):
TTTCTATATAGTTTGAATGT
Found at i:155949 original size:32 final size:32
Alignment explanation
Indices: 155913--155998 Score: 99
Period size: 28 Copynumber: 2.8 Consensus size: 32
155903 TCACTCTCGG
155913 GGTAGGCCCTGTGGCCCTAAGATGTTTTCTTA
1 GGTAGGCCCTGTGGCCCTAAGATGTTTTCTTA
* **
155945 GGTAGGCCC-GTGG-CCT-CGA-ACTTTCTTA
1 GGTAGGCCCTGTGGCCCTAAGATGTTTTCTTA
* *
155973 GGTAGGCTCTCTGGCCCTAAGATGTT
1 GGTAGGCCCTGTGGCCCTAAGATGTT
155999 CCTTTAGGTT
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
28 15 0.36
29 5 0.12
30 6 0.14
31 6 0.14
32 10 0.24
ACGTcount: A:0.15, C:0.24, G:0.29, T:0.31
Consensus pattern (32 bp):
GGTAGGCCCTGTGGCCCTAAGATGTTTTCTTA
Found at i:161240 original size:18 final size:18
Alignment explanation
Indices: 161206--161241 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
161196 TGCGAGTGTG
161206 TTTATATATTTTGACTAT
1 TTTATATATTTTGACTAT
161224 TTTATGATATTTT-ACTAT
1 TTTAT-ATATTTTGACTAT
161242 GATTTGGTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.28, C:0.06, G:0.06, T:0.61
Consensus pattern (18 bp):
TTTATATATTTTGACTAT
Found at i:169402 original size:6 final size:7
Alignment explanation
Indices: 169385--169417 Score: 57
Period size: 7 Copynumber: 4.6 Consensus size: 7
169375 TGATTTTGAA
169385 AAAAATT
1 AAAAATT
169392 AAAAATT
1 AAAAATT
169399 AAAAATT
1 AAAAATT
169406 AAAATATT
1 AAAA-ATT
169414 AAAA
1 AAAA
169418 CAGATTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 18 0.72
8 7 0.28
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
AAAAATT
Found at i:170792 original size:31 final size:31
Alignment explanation
Indices: 170752--170811 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
170742 TATATCAATT
* *
170752 TAGCTCTCAACGTTGTTTAGGGGCATCATAC
1 TAGCCCTCAAAGTTGTTTAGGGGCATCATAC
170783 TAGCCCTCAAAGTTGTTTAGGGGCATCAT
1 TAGCCCTCAAAGTTGTTTAGGGGCATCAT
170812 TCTATATCGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (31 bp):
TAGCCCTCAAAGTTGTTTAGGGGCATCATAC
Found at i:172663 original size:31 final size:31
Alignment explanation
Indices: 172625--172780 Score: 269
Period size: 31 Copynumber: 5.0 Consensus size: 31
172615 AGGGTCGAGG
172625 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
172656 GTTTACCTTTGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
172687 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
172718 ATTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
172749 GTTTACCTAGGTTCTTCGGGATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
172780 G
1 G
172781 GTCCTTCGGG
Statistics
Matches: 119, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
31 118 0.99
32 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.39
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:175707 original size:31 final size:31
Alignment explanation
Indices: 175669--175824 Score: 269
Period size: 31 Copynumber: 5.0 Consensus size: 31
175659 AGGGTCGAGG
175669 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
175700 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
175731 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
175762 ATTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
175793 GTTTACCTAGGTTCTTCAGGATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
175824 G
1 G
175825 GTCCTTCGGG
Statistics
Matches: 120, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
31 119 0.99
32 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.22, T:0.38
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:177994 original size:64 final size:64
Alignment explanation
Indices: 177925--178079 Score: 179
Period size: 64 Copynumber: 2.4 Consensus size: 64
177915 TTGAAGGTGT
** *** *
177925 ATCGATGCATTGGTAGTGCATCGATGCACT-CTTTTAA-AATAAAAACATCGAATGCAATTCATG
1 ATCGATGCATAAGTAGTGCATCGATGCA-TACCAGTAATAAT-AAAACATCGAATACAATTCATG
177988 C
64 C
* * * *
177989 ATCGATGCATAAGTAGTGCATCGTTGCATACCAGTAATAATACAACATCGAATACATTTTATGC
1 ATCGATGCATAAGTAGTGCATCGATGCATACCAGTAATAATAAAACATCGAATACAATTCATGC
*
178053 ATCGATGCATCAGTAGTGCATCGATGC
1 ATCGATGCATAAGTAGTGCATCGATGC
178080 TTACTTTAAT
Statistics
Matches: 77, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
63 1 0.01
64 73 0.95
65 3 0.04
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (64 bp):
ATCGATGCATAAGTAGTGCATCGATGCATACCAGTAATAATAAAACATCGAATACAATTCATGC
Found at i:178744 original size:31 final size:31
Alignment explanation
Indices: 178706--178830 Score: 207
Period size: 31 Copynumber: 4.0 Consensus size: 31
178696 AGGGTCGAGG
*
178706 GTTTACCTATGTTCTTCGGGATATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
178737 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
178768 GTTTACCTATGTTCTTCGGGACATTTGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
178799 GTTTACCTAGGTTCTTCGGGATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
178830 G
1 G
178831 GTCCTTCGGG
Statistics
Matches: 89, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
31 88 0.99
32 1 0.01
ACGTcount: A:0.18, C:0.18, G:0.24, T:0.40
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:180839 original size:31 final size:31
Alignment explanation
Indices: 180801--180893 Score: 107
Period size: 35 Copynumber: 2.9 Consensus size: 31
180791 TGACTAGTCG
180801 GTGCTGAACCTATACAAGGAATTACCAAT-A
1 GTGCTGAACCTATACAAGGAATTACCAATCA
* * *
180831 GTGACTGAACCTGCCAGAGATAGGAATTACCAGTCA
1 GTG-CTGAACCT---ATACA-AGGAATTACCAATCA
180867 GTGCTGAACCTATACAAGGAATTACCA
1 GTGCTGAACCTATACAAGGAATTACCA
180894 GCAGCTACTG
Statistics
Matches: 52, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
30 3 0.06
31 19 0.37
32 3 0.06
34 3 0.06
35 20 0.38
36 4 0.08
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.22
Consensus pattern (31 bp):
GTGCTGAACCTATACAAGGAATTACCAATCA
Found at i:180892 original size:66 final size:66
Alignment explanation
Indices: 180786--180915 Score: 190
Period size: 66 Copynumber: 2.0 Consensus size: 66
180776 TAAGTCTATA
* * * *
180786 AGGAATGACTAGTCGGTGCTGAACCTATACAAGGAATTACCAATAG-TGACTGAACCTGCCAGAG
1 AGGAATGACCAGTCAGTGCTGAACCTATACAAGGAATTACCAACAGCT-ACTGAACATGCCAGAG
180850 AT
65 AT
* *
180852 AGGAATTACCAGTCAGTGCTGAACCTATACAAGGAATTACCAGCAGCTACTGAACATGCCAGAG
1 AGGAATGACCAGTCAGTGCTGAACCTATACAAGGAATTACCAACAGCTACTGAACATGCCAGAG
180916 TCTTCTTACC
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
66 56 0.98
67 1 0.02
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (66 bp):
AGGAATGACCAGTCAGTGCTGAACCTATACAAGGAATTACCAACAGCTACTGAACATGCCAGAGA
T
Found at i:180894 original size:31 final size:31
Alignment explanation
Indices: 180785--180894 Score: 114
Period size: 31 Copynumber: 3.4 Consensus size: 31
180775 TTAAGTCTAT
* * *
180785 AAGGAATGACTAGTCGGTGCTGAACCTATAC
1 AAGGAATTACCAGTCAGTGCTGAACCTATAC
* * *
180816 AAGGAATTACCAAT-AGTGACTGAACCTGCCAGAG
1 AAGGAATTACCAGTCAGTG-CTGAACCT---ATAC
180850 ATAGGAATTACCAGTCAGTGCTGAACCTATAC
1 A-AGGAATTACCAGTCAGTGCTGAACCTATAC
180882 AAGGAATTACCAG
1 AAGGAATTACCAG
180895 CAGCTACTGA
Statistics
Matches: 64, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
30 3 0.05
31 31 0.48
32 3 0.05
34 3 0.05
35 20 0.31
36 4 0.06
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.21
Consensus pattern (31 bp):
AAGGAATTACCAGTCAGTGCTGAACCTATAC
Found at i:180905 original size:31 final size:30
Alignment explanation
Indices: 180804--180906 Score: 98
Period size: 31 Copynumber: 3.2 Consensus size: 30
180794 CTAGTCGGTG
**
180804 CTGAACCTATACAAGGAATTACCAATAGTGA
1 CTGAACCTATACAAGGAATTACCAGCAGT-A
* * *
180835 CTGAACCTGCCAGAGATAGGAATTACCAGTCAGTG
1 CTGAACCT---ATACA-AGGAATTACCAG-CAGTA
180870 CTGAACCTATACAAGGAATTACCAGCAGCTA
1 CTGAACCTATACAAGGAATTACCAGCAG-TA
180901 CTGAAC
1 CTGAAC
180907 ATGCCAGAGT
Statistics
Matches: 58, Mismatches: 8, Indels: 12
0.74 0.10 0.15
Matches are distributed among these distances:
30 3 0.05
31 27 0.47
32 3 0.05
34 3 0.05
35 19 0.33
36 3 0.05
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.20
Consensus pattern (30 bp):
CTGAACCTATACAAGGAATTACCAGCAGTA
Found at i:180995 original size:12 final size:12
Alignment explanation
Indices: 180978--181002 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
180968 AAGCAGAGAT
180978 ATCAGAAATCAG
1 ATCAGAAATCAG
180990 ATCAGAAATCAG
1 ATCAGAAATCAG
181002 A
1 A
181003 AATCAGGACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (12 bp):
ATCAGAAATCAG
Found at i:181002 original size:19 final size:19
Alignment explanation
Indices: 180978--181021 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
180968 AAGCAGAGAT
180978 ATCAGAAATCA-GATCAGAA
1 ATCAGAAATCAGGA-CAGAA
*
180997 ATCAGAAATCAGGACATAA
1 ATCAGAAATCAGGACAGAA
181016 ATCAGA
1 ATCAGA
181022 GAAAATATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 21 0.91
20 2 0.09
ACGTcount: A:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (19 bp):
ATCAGAAATCAGGACAGAA
Found at i:183061 original size:11 final size:11
Alignment explanation
Indices: 183047--183078 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
183037 GATCAACGAC
183047 GGTCAACGGTT
1 GGTCAACGGTT
183058 GGTCAACGGTT
1 GGTCAACGGTT
183069 GGTCAACGGT
1 GGTCAACGGT
183079 CAGCGGGTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.38, T:0.25
Consensus pattern (11 bp):
GGTCAACGGTT
Found at i:186704 original size:19 final size:18
Alignment explanation
Indices: 186676--186712 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
186666 GTTTTAGGTG
*
186676 TATATTTTACTTATATTAT
1 TATATATTACTT-TATTAT
186695 TATATATTACTTTATTAT
1 TATATATTACTTTATTAT
186713 ATACATAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.62
Consensus pattern (18 bp):
TATATATTACTTTATTAT
Found at i:190548 original size:9 final size:9
Alignment explanation
Indices: 190513--190581 Score: 58
Period size: 9 Copynumber: 8.0 Consensus size: 9
190503 GATAACACAG
*
190513 AGAGACAAA
1 AGAGAAAAA
190522 AGA-AAAAA
1 AGAGAAAAA
*
190530 TATAGGAAAAA
1 -AGA-GAAAAA
*
190541 AGGGAAAAA
1 AGAGAAAAA
190550 A-AGAAAAA
1 AGAGAAAAA
190558 AGAG--AAA
1 AGAGAAAAA
190565 AGAGAAAAA
1 AGAGAAAAA
190574 AGA-AAAAA
1 AGAGAAAAA
190582 GAAAAAATAA
Statistics
Matches: 49, Mismatches: 5, Indels: 13
0.73 0.07 0.19
Matches are distributed among these distances:
7 7 0.14
8 16 0.33
9 20 0.41
10 1 0.02
11 5 0.10
ACGTcount: A:0.75, C:0.01, G:0.20, T:0.03
Consensus pattern (9 bp):
AGAGAAAAA
Found at i:190556 original size:7 final size:7
Alignment explanation
Indices: 190546--190603 Score: 71
Period size: 7 Copynumber: 7.9 Consensus size: 7
190536 AAAAAAGGGA
190546 AAAAAAG
1 AAAAAAG
190553 AAAAAAG
1 AAAAAAG
190560 AGAAAAGAG
1 A-AAAA-AG
190569 AAAAAAG
1 AAAAAAG
190576 AAAAAAG
1 AAAAAAG
*
190583 AAAAAAT
1 AAAAAAG
*
190590 AAGAAAG
1 AAAAAAG
190597 AAGAAAA
1 AA-AAAA
190604 TAGTCACATC
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
7 30 0.68
8 11 0.25
9 3 0.07
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (7 bp):
AAAAAAG
Found at i:190567 original size:14 final size:15
Alignment explanation
Indices: 190544--190603 Score: 68
Period size: 16 Copynumber: 3.9 Consensus size: 15
190534 GGAAAAAAGG
190544 GAAAAAAAGAAAAAA
1 GAAAAAAAGAAAAAA
*
190559 GAGAAAAGAGAAAAAA
1 GA-AAAAAAGAAAAAA
190575 G-AAAAAAGAAAAAA
1 GAAAAAAAGAAAAAA
*
190589 TAAGAAAGAAGAAAA
1 GAA-AAA-AAGAAAA
190604 TAGTCACATC
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
14 12 0.32
15 3 0.08
16 16 0.42
17 7 0.18
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (15 bp):
GAAAAAAAGAAAAAA
Found at i:190588 original size:9 final size:9
Alignment explanation
Indices: 190519--190595 Score: 55
Period size: 9 Copynumber: 7.9 Consensus size: 9
190509 ACAGAGAGAC
190519 AAAAGAAAA
1 AAAAGAAAA
*
190528 AATATAGGAAA
1 AA-A-AGAAAA
* *
190539 AAAGGGAAA
1 AAAAGAAAA
190548 AAAAGAAAA
1 AAAAGAAAA
*
190557 AAGAGAAAA
1 AAAAGAAAA
*
190566 GAGAAAAAAGAA
1 -A-AAAGAA-AA
190578 AAAAGAAAA
1 AAAAGAAAA
190587 AATAAGAAA
1 AA-AAGAAA
190596 GAAGAAAATA
Statistics
Matches: 54, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
9 26 0.48
10 14 0.26
11 12 0.22
12 2 0.04
ACGTcount: A:0.78, C:0.00, G:0.18, T:0.04
Consensus pattern (9 bp):
AAAAGAAAA
Found at i:191294 original size:28 final size:28
Alignment explanation
Indices: 191235--191295 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 28
191225 AAGAGGCCAG
*
191235 CCTGAAACACATTACCTCCCCAAATTAA
1 CCTGAAACACATTACCTCCCCAAATCAA
* * *
191263 CCTGAAACACATTACCTTCCCAAGTCAT
1 CCTGAAACACATTACCTCCCCAAATCAA
191291 CCTGA
1 CCTGA
191296 GCCTTTTATC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.34, C:0.36, G:0.07, T:0.23
Consensus pattern (28 bp):
CCTGAAACACATTACCTCCCCAAATCAA
Found at i:192541 original size:42 final size:42
Alignment explanation
Indices: 192495--192602 Score: 148
Period size: 42 Copynumber: 2.6 Consensus size: 42
192485 AAGGGTTTCT
192495 TGATGAGTAAGTCCTTCGGGCCATC-AGTAAGTCTTTCGAGCA
1 TGATGAGTAAGTCCTTCGGGCCATCTA-TAAGTCTTTCGAGCA
* * **
192537 TGATGCGTAAGTCCTCCGATCCATCTATAAGTCTTTCGAGCA
1 TGATGAGTAAGTCCTTCGGGCCATCTATAAGTCTTTCGAGCA
*
192579 AGATGA-TAAGTCCTTCGGGCCATC
1 TGATGAGTAAGTCCTTCGGGCCATC
192603 CATGAGACCC
Statistics
Matches: 56, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
41 15 0.27
42 40 0.71
43 1 0.02
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (42 bp):
TGATGAGTAAGTCCTTCGGGCCATCTATAAGTCTTTCGAGCA
Found at i:192723 original size:37 final size:36
Alignment explanation
Indices: 192681--192766 Score: 100
Period size: 37 Copynumber: 2.4 Consensus size: 36
192671 TTGACGATAA
* *
192681 TCTCAAAAAAAAAATTGTCTCACTTGAGACAATTTT
1 TCTCAAAATAAAAATTGTCTCACTTGAGACAATTTC
*** **
192717 TACTCAAAATAATTTTTGTCTCTTTTGAGACAATTTC
1 T-CTCAAAATAAAAATTGTCTCACTTGAGACAATTTC
192754 TCTCAAAATAAAA
1 TCTCAAAATAAAA
192767 GCATAAGTCT
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
36 11 0.28
37 29 0.73
ACGTcount: A:0.40, C:0.16, G:0.07, T:0.37
Consensus pattern (36 bp):
TCTCAAAATAAAAATTGTCTCACTTGAGACAATTTC
Found at i:192804 original size:21 final size:23
Alignment explanation
Indices: 192762--192806 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 23
192752 TCTCTCAAAA
*
192762 TAAAAGCATAAGTCTGTTTCTTT
1 TAAAAGCATAAGTCTGTCTCTTT
*
192785 TAAAA-CA-AAGTTTGTCTCTTT
1 TAAAAGCATAAGTCTGTCTCTTT
192806 T
1 T
192807 GAGACAGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 13 0.65
22 2 0.10
23 5 0.25
ACGTcount: A:0.31, C:0.13, G:0.11, T:0.44
Consensus pattern (23 bp):
TAAAAGCATAAGTCTGTCTCTTT
Found at i:192839 original size:36 final size:36
Alignment explanation
Indices: 192795--192994 Score: 199
Period size: 36 Copynumber: 5.6 Consensus size: 36
192785 TAAAACAAAG
*
192795 TTTGTCTCTTTTGAGACAGTTTCTCTTGAAATGAAT
1 TTTGTCTCTCTTGAGACAGTTTCTCTTGAAATGAAT
* * * * *
192831 TTTATCTCTCTTGAGACAATTTCCCTTGAAACGAGT
1 TTTGTCTCTCTTGAGACAGTTTCTCTTGAAATGAAT
**
192867 TTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAT
1 TTTGTCTCTCTTGAGACAGTTTCTCTTGAAATGAAT
* *
192903 TTTGTCTCCCTTGAAACAGTTTCTCTTGAAAT-AA-
1 TTTGTCTCTCTTGAGACAGTTTCTCTTGAAATGAAT
****** * * * *
192937 AAAAAATCT-TTGAGACCGTTTCCCTTTAAATGAGT
1 TTTGTCTCTCTTGAGACAGTTTCTCTTGAAATGAAT
192972 TTTGTCTCTCTTGAGACAGTTTC
1 TTTGTCTCTCTTGAGACAGTTTC
192995 CCTGGACACC
Statistics
Matches: 128, Mismatches: 33, Indels: 6
0.77 0.20 0.04
Matches are distributed among these distances:
33 18 0.14
34 3 0.02
35 5 0.04
36 102 0.80
ACGTcount: A:0.25, C:0.19, G:0.14, T:0.41
Consensus pattern (36 bp):
TTTGTCTCTCTTGAGACAGTTTCTCTTGAAATGAAT
Found at i:192932 original size:15 final size:15
Alignment explanation
Indices: 192873--192933 Score: 50
Period size: 15 Copynumber: 3.7 Consensus size: 15
192863 GAGTTTTGTC
*
192873 TCTCTTGAGACAGTT
1 TCTCTTGAAACAGTT
*
192888 TCTCTTGAAACAAATTTT
1 TCTCTTGAAAC--A-GTT
192906 GTCTCCCTTGAAACAGTT
1 -TCT--CTTGAAACAGTT
192924 TCTCTTGAAA
1 TCTCTTGAAA
192934 TAAAAAAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 12
0.71 0.06 0.23
Matches are distributed among these distances:
15 17 0.46
17 4 0.11
18 4 0.11
19 4 0.11
21 8 0.22
ACGTcount: A:0.26, C:0.21, G:0.13, T:0.39
Consensus pattern (15 bp):
TCTCTTGAAACAGTT
Found at i:192990 original size:105 final size:108
Alignment explanation
Indices: 192777--192994 Score: 280
Period size: 105 Copynumber: 2.0 Consensus size: 108
192767 GCATAAGTCT
* ** * *** **
192777 GTTTCTTTTAAAACAAAGTTTGTCTCTTTTGAGACAGTTTCTCTTGAAATGAATTTTATCTCTCT
1 GTTTCTCTTAAAACAAAGTTTGTCTCCCTTGAAACAGTTTCTCTTGAAATGAATAAAAAATCTCT
192842 TGAGACAATTTCCCTTGAAACGAGTTTTGTCTCTCTTGAGACA
66 TGAGACAATTTCCCTTGAAACGAGTTTTGTCTCTCTTGAGACA
* *
192885 GTTTCTCTTGAAACAAATTTTGTCTCCCTTGAAACAGTTTCTCTTGAAAT-AA-AAAAAATCT-T
1 GTTTCTCTTAAAACAAAGTTTGTCTCCCTTGAAACAGTTTCTCTTGAAATGAATAAAAAATCTCT
** * *
192947 TGAGACCGTTTCCCTTTAAATGAGTTTTGTCTCTCTTGAGACA
66 TGAGACAATTTCCCTTGAAACGAGTTTTGTCTCTCTTGAGACA
192990 GTTTC
1 GTTTC
192995 CCTGGACACC
Statistics
Matches: 95, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
105 45 0.47
106 4 0.04
107 2 0.02
108 44 0.46
ACGTcount: A:0.26, C:0.18, G:0.14, T:0.41
Consensus pattern (108 bp):
GTTTCTCTTAAAACAAAGTTTGTCTCCCTTGAAACAGTTTCTCTTGAAATGAATAAAAAATCTCT
TGAGACAATTTCCCTTGAAACGAGTTTTGTCTCTCTTGAGACA
Found at i:193868 original size:91 final size:91
Alignment explanation
Indices: 193611--193869 Score: 347
Period size: 91 Copynumber: 2.8 Consensus size: 91
193601 TAACAATTCA
* * * * * *
193611 AATGGAGAGTTCATAATGAGAATAACTCATCCACCAAGGAAGAATAAATTCATTATGAGAAGAAC
1 AATGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGAAGAAGAAGTTCATAATGAGAAGAAC
* * * *** *
193676 TTGTTCGACCCTGCCTTGGCGTTACC
66 TTGTTCAACCTTGCATCAACATTACC
*
193702 AATGGAGAGTTCATAATGAAAAGAACTCATCCAACGAGGAAGAAGAAGTTCATAATGAGAAGAAC
1 AATGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGAAGAAGAAGTTCATAATGAGAAGAAC
* *
193767 TTGTTCAACCTTGGATCAACATTTCC
66 TTGTTCAACCTTGCATCAACATTACC
* * *
193793 AGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAATAAGAAGAAC
1 AATGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGAAGAAGAAGTTCATAATGAGAAGAAC
193858 TTGTTCAACCTT
66 TTGTTCAACCTT
193870 AGCTCGATTC
Statistics
Matches: 148, Mismatches: 20, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
91 148 1.00
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.24
Consensus pattern (91 bp):
AATGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGAAGAAGAAGTTCATAATGAGAAGAAC
TTGTTCAACCTTGCATCAACATTACC
Found at i:193941 original size:118 final size:116
Alignment explanation
Indices: 193778--194140 Score: 546
Period size: 118 Copynumber: 3.1 Consensus size: 116
193768 TGTTCAACCT
*
193778 TGGATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTT
1 TGGATCAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCAA-GAGGGAGAAGAAGTT
* * * *
193843 CATAATAAGAAGAACTTGTTCAACCTTAGCTCGATTCCATCACAGAATGAGG
65 CATAATGAGAAGAACTTGTTCAACCTTGGTTCGATTCCATCACAGAAGGAGG
* * * *
193895 TGGAACAACATTTCCAATGGGAGAGTTTATAATGAGAAGAACTCATCTGAAGAGGGAGAAAAAGT
1 TGGATCAACATTTCCAAT-GGAGAGTTCATAATGAGAAGAACTCATC-CAAGAGGGAGAAGAAGT
*
193960 TCATAATGAGAAGAACTTGTTCAACCTTGGTTCGATTTCATCACAGAAGGAGG
64 TCATAATGAGAAGAACTTGTTCAACCTTGGTTCGATTCCATCACAGAAGGAGG
* *
194013 TGGATCAATATTTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGAGGAGGGAGAAGAAGT
1 TGGATCAACA-TTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCC-AAGAGGGAGAAGAAGT
*
194078 TCATAATGAGAAGAACTTGTTCAACCTTGGTTCGATTCTATCACAGAAGGAGG
64 TCATAATGAGAAGAACTTGTTCAACCTTGGTTCGATTCCATCACAGAAGGAGG
**
194131 TATATCAACA
1 TGGATCAACA
194141 CCGAAATCTC
Statistics
Matches: 221, Mismatches: 21, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
117 16 0.07
118 195 0.88
119 10 0.05
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.25
Consensus pattern (116 bp):
TGGATCAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCAAGAGGGAGAAGAAGTTC
ATAATGAGAAGAACTTGTTCAACCTTGGTTCGATTCCATCACAGAAGGAGG
Found at i:208182 original size:27 final size:27
Alignment explanation
Indices: 208130--208182 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
208120 CTCCTGCAGG
* * *
208130 TATCTCCCTGCTCCAATTTTTGAAACA
1 TATCTCCCTACTCCAATTTCTAAAACA
*
208157 TATCTCCTTACTCCAATTTCTAAAAC
1 TATCTCCCTACTCCAATTTCTAAAAC
208183 TCCTGGAGTC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.28, C:0.30, G:0.04, T:0.38
Consensus pattern (27 bp):
TATCTCCCTACTCCAATTTCTAAAACA
Found at i:211980 original size:19 final size:19
Alignment explanation
Indices: 211958--211994 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
211948 TTCTAATTTT
211958 TTTA-TTGAACATTAATTAA
1 TTTATTTGAA-ATTAATTAA
211977 TTTATTTGAAATTAATTA
1 TTTATTTGAAATTAATTA
211995 TTAGGGAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (19 bp):
TTTATTTGAAATTAATTAA
Found at i:216624 original size:17 final size:17
Alignment explanation
Indices: 216590--216631 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
216580 CCATTCCCTT
* *
216590 TCTTT-GAGATAAATTC
1 TCTTTCGAGAAAAACTC
216606 TCTTTCGAGAAAAACTC
1 TCTTTCGAGAAAAACTC
*
216623 TCATTCGAG
1 TCTTTCGAG
216632 CAACAAACAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.36
Consensus pattern (17 bp):
TCTTTCGAGAAAAACTC
Found at i:218786 original size:137 final size:137
Alignment explanation
Indices: 218529--218809 Score: 395
Period size: 137 Copynumber: 2.1 Consensus size: 137
218519 GTCATAAGTG
* * **
218529 CATTTCGACATACTTTGTATATGATGGTTATTCAATCGATTTTATTTAATACATATGTTGTATTT
1 CATTTCGACATAATTTGTATATGAGGGTTATTCAATCGATTTTATTTAATACATATGTTACATTT
* * *
218594 TCATATCAGTACTATGTGTACTTTCAGTACTATGTGTGCATCCATGGTATGCATAATGAGTTTGT
66 TCATATCAGTACTATGTGTACTTTCAGCACTATGTGTGAATCCATGGAATGCATAATGAGTTTGT
218659 GAATTAC
131 GAATTAC
* * *
218666 CATTTCGACATAGATTTGTTTATGAGGGTTA-TCAATCGATTTTTTTTAATGCATATGTTACATT
1 CATTTCGACATA-ATTTGTATATGAGGGTTATTCAATCGATTTTATTTAATACATATGTTACATT
* * *
218730 TTCGTATCAGTACTATGTGTACTTTC-GACACTATGTGTGAATCTATGGAATTCATAATGAGTTT
65 TTCATATCAGTACTATGTGTACTTTCAG-CACTATGTGTGAATCCATGGAATGCATAATGAGTTT
**
218794 GTGAATTTG
129 GTGAATTAC
218803 CATTTCG
1 CATTTCG
218810 TCACTTAGGT
Statistics
Matches: 127, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
136 1 0.01
137 111 0.87
138 15 0.12
ACGTcount: A:0.26, C:0.13, G:0.17, T:0.44
Consensus pattern (137 bp):
CATTTCGACATAATTTGTATATGAGGGTTATTCAATCGATTTTATTTAATACATATGTTACATTT
TCATATCAGTACTATGTGTACTTTCAGCACTATGTGTGAATCCATGGAATGCATAATGAGTTTGT
GAATTAC
Found at i:219031 original size:21 final size:22
Alignment explanation
Indices: 219006--219051 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
218996 GGTTTTGGTA
*
219006 AAAAGATG-TTTAAA-TAATAAT
1 AAAAG-TGATTTAAAGTAAAAAT
219027 AAAAGTGATTTAAAGTAAAAAT
1 AAAAGTGATTTAAAGTAAAAAT
219049 AAA
1 AAA
219052 GAAAAGATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 2 0.09
21 11 0.50
22 9 0.41
ACGTcount: A:0.61, C:0.00, G:0.11, T:0.28
Consensus pattern (22 bp):
AAAAGTGATTTAAAGTAAAAAT
Found at i:219938 original size:26 final size:26
Alignment explanation
Indices: 219897--219969 Score: 119
Period size: 26 Copynumber: 2.8 Consensus size: 26
219887 GCACACTGAA
*
219897 TAGATCTTCTAGAAACTTCCATTGAC
1 TAGACCTTCTAGAAACTTCCATTGAC
* *
219923 TGGACCTTCTAGAAACTGCCATTGAC
1 TAGACCTTCTAGAAACTTCCATTGAC
219949 TAGACCTTCTAGAAACTTCCA
1 TAGACCTTCTAGAAACTTCCA
219970 CGTCAGACCG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (26 bp):
TAGACCTTCTAGAAACTTCCATTGAC
Found at i:227758 original size:18 final size:18
Alignment explanation
Indices: 227714--227759 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
227704 ATTCACCTGA
*
227714 ATTCGATTCTGATTCTGG
1 ATTCGATTATGATTCTGG
*
227732 ATTCAATTATGATTCTGG
1 ATTCGATTATGATTCTGG
*
227750 ATTTGATTAT
1 ATTCGATTAT
227760 TGTATCATTC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.24, C:0.11, G:0.17, T:0.48
Consensus pattern (18 bp):
ATTCGATTATGATTCTGG
Found at i:244817 original size:124 final size:128
Alignment explanation
Indices: 244524--244817 Score: 321
Period size: 135 Copynumber: 2.3 Consensus size: 128
244514 TCAATAAATG
* * * *
244524 TTGATTCATTCCACTGTTCTTTAGGGAAGATTGAATCGAGAAAGACTTGTTCCATTGTTACCAAG
1 TTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGAAAGACTAGATCCACTGTT---AAG
* * * *
244589 GGAATATCAAATCTTGAAAGAGATGATTCTGATCCGCTTGTTCTTGAGGGGAAAATCAGACATGG
63 GGAAGATCAAATCTTGAAAAAGA-GATTCTGATCCACTTGTTCTTGAAGGGAAAATCAGACAT--
244654 GGACA
125 -GACA
* **
244659 TTGATTCATTCCACTGTTCTTCAGGGAAGGTTGAATCGAGGCAGACTAGATCCACTGTT-AGGGA
1 TTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGAAAGACTAGATCCACTGTTAAGGGA
* * * *
244723 AGATCAAATCTTGAAAAA-AGAATT-TGTTCCACGTT-TTCTT-AAGGGAAAATTAGATAT-ACT
66 AGATCAAATCTTGAAAAAGAG-ATTCTGATCCAC-TTGTTCTTGAAGGGAAAATCAGACATGACA
*
244783 TTGATTCATTTCACTGTTCTTCAGGGAAGATTGAA
1 TTGATTCATTCCACTGTTCTTCAGGGAAGATTGAA
244818 CCAAATTTGA
Statistics
Matches: 140, Mismatches: 17, Indels: 15
0.81 0.10 0.09
Matches are distributed among these distances:
124 35 0.25
128 14 0.10
129 12 0.09
130 6 0.04
131 21 0.15
135 52 0.37
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.32
Consensus pattern (128 bp):
TTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGAAAGACTAGATCCACTGTTAAGGGA
AGATCAAATCTTGAAAAAGAGATTCTGATCCACTTGTTCTTGAAGGGAAAATCAGACATGACA
Found at i:245598 original size:254 final size:256
Alignment explanation
Indices: 245170--245630 Score: 657
Period size: 254 Copynumber: 1.8 Consensus size: 256
245160 TGATCATAAT
* *
245170 GACTTATCATCTTGCTCGAAAGGCTTACAAATGACCTGAAGGATTTAATCATCATGCTCAAAAGA
1 GACTTATCATCTTGCTCGAAAGACTAACAAATGACCTGAAGGATTTAATCATCATGCTCAAAAGA
* * *
245235 CTTACTGATGGCCTGAAAGACTTACCAATTTTGGAAATACTTTACTAGTAAGAAACTTTATAAAT
66 CTTACTGATGGCCTCAAAGACTTACCAATTCTAGAAATACTTTACTAGTAAGAAACTTTATAAAT
* * *
245300 CGGTTTCTTACTCTTTAAAAATTTATTTTTCTATAAATATTTAAAT-TAGAAACTTTGGAAATCG
131 CGCTTTCTTACTCTTTAAAAATTTATTTTTCTATAAAGATTTAAATGT-GAAACTTTGGAAATCA
245364 CTTTCTCATTTTTCAAAAATCGTGGAAACATCCTACGTGAAGGTCATAAAGATGGCCCGAAA
195 CTTTCTCATTTTTCAAAAATCGTGGAAACATCCTACGTGAAGGTCATAAAGATGGCCCGAAA
* * * * *
245426 GACTTGTCATCTTTCTC-AAAGACTAACAAATTACCTGAAGGATTTAATCATCGTGCTCGAAAGA
1 GACTTATCATCTTGCTCGAAAGACTAACAAATGACCTGAAGGATTTAATCATCATGCTCAAAAGA
* * * * *
245490 CTTACTGATGGCC-CAAGGACTTACTAATTCTAGAAATATTTTACTCGTAAGAAACTTTGA-AAC
66 CTTACTGATGGCCTCAAAGACTTACCAATTCTAGAAATACTTTACTAGTAAGAAACTTT-ATAAA
*
245553 TTGCTTTCTTACT-TTTAAAAAATTTCA-TTTTCTGA-AAAGATTTAAATGTGAAACTTTGGAAA
130 TCGCTTTCTTACTCTTT-AAAAATTT-ATTTTTCT-ATAAAGATTTAAATGTGAAACTTTGGAAA
245615 TCACTTTCTCATTTTT
192 TCACTTTCTCATTTTT
245631 TTAATATCAT
Statistics
Matches: 181, Mismatches: 19, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
253 3 0.02
254 104 0.57
255 59 0.33
256 15 0.08
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (256 bp):
GACTTATCATCTTGCTCGAAAGACTAACAAATGACCTGAAGGATTTAATCATCATGCTCAAAAGA
CTTACTGATGGCCTCAAAGACTTACCAATTCTAGAAATACTTTACTAGTAAGAAACTTTATAAAT
CGCTTTCTTACTCTTTAAAAATTTATTTTTCTATAAAGATTTAAATGTGAAACTTTGGAAATCAC
TTTCTCATTTTTCAAAAATCGTGGAAACATCCTACGTGAAGGTCATAAAGATGGCCCGAAA
Found at i:245999 original size:41 final size:41
Alignment explanation
Indices: 245954--246055 Score: 114
Period size: 42 Copynumber: 2.5 Consensus size: 41
245944 AATGTCTTAT
* * * *
245954 AGATGGCCCGAAGGACTTATCATCTTTCTCAAAAGACTGAC
1 AGATGACCCGAAGGACTTATCATCATGCTCAAAACACTGAC
** * *
245995 AGATGACCTAAAGGATTTAATCATCATGCTCAAAACACTTAC
1 AGATGACCCGAAGGACTT-ATCATCATGCTCAAAACACTGAC
*
246037 TGATGACCCGAAGGACTTA
1 AGATGACCCGAAGGACTTA
246056 CTTATTTTGA
Statistics
Matches: 48, Mismatches: 12, Indels: 2
0.77 0.19 0.03
Matches are distributed among these distances:
41 15 0.31
42 33 0.69
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.25
Consensus pattern (41 bp):
AGATGACCCGAAGGACTTATCATCATGCTCAAAACACTGAC
Found at i:246145 original size:255 final size:259
Alignment explanation
Indices: 245663--246241 Score: 641
Period size: 255 Copynumber: 2.2 Consensus size: 259
245653 ATCATTTAAA
* * * * **
245663 AAAAACATGTGAAAACATTATACCTGAAGGTCTTATGGATGGCTAGAAGGACTTATCATCTTGCT
1 AAAATCATGTGAAAACATCATACCCGAAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCT
** * * ** * * ** * *
245728 TGAAAGGCTTACAAATGACATGCATGATTTAATCATCATGCTCGAAAGTCTTATTGATAGCCGGA
66 CAAAAGACTGACAAATGACATAAAGGATTTAATCATCATGCTCAAAACACTTACTGATAGCCCGA
* * * *
245793 AGGACTTACTAATTTTGGAAATATTTTACTAGAAGAAACTTTGGGAATCGCTTTCTTACTTTTCA
131 AGGACTTACTAATTTTGAAAATAGTTTACTAGAAGAAACTTTGGAAATCGATTTCTTACTTTTCA
* *
245858 AAAATTTCATTTTCTTAAAAGATTTAAATGAGAAACTTTGGAAATCGC-TT-TC-A-TTTTTCG
196 AAAATTTCATTTTCTGAAAAGATTTAAATGAGAAACTTTGGAAACCGCTTTCTCAATTTTTTCG
* * * * *
245918 AATATCATGTGGAAACATCATGCCCGAATGTCTTATAGATGGCCCGAAGGACTTATCATCTTTCT
1 AAAATCATGTGAAAACATCATACCCGAAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCT
* *
245983 CAAAAGACTGACAGATGACCTAAAGGATTTAATCATCATGCTCAAAACACTTACTGAT-GACCCG
66 CAAAAGACTGACAAATGACATAAAGGATTTAATCATCATGCTCAAAACACTTACTGATAG-CCCG
* * * * * * * *
246047 AAGGACTTACTTATTTTGAAAATAGTTTATTGGGTAATAAATTTTTGAAATCGATTTTTTTCTTT
130 AAGGACTTACTAATTTTGAAAATAGTTTACT-AG-AAGAAACTTTGGAAATCGATTTCTTACTTT
* * *
246112 TC-AAAATTTTATTTTCTGAAAAG-TTTTAATGAGAAACTTTGTAAACCGCTTTCTCAATTTTTT
193 TCAAAAATTTCATTTTCTGAAAAGATTTAAATGAGAAACTTTGGAAACCGCTTTCTCAA-TTTTT
*
246175 TTG
257 TCG
* * * *
246178 AAAATCATGTAAAAACATCCTACCCGAAGGTCTTACAGATGGCCCGAAAGACTTATCATGCTTG
1 AAAATCATGTGAAAACATCATACCCGAAGGTCTTATAGATGGCCCGAAGGACTTATCAT-CTTG
246242 AAAGACTTAC
Statistics
Matches: 263, Mismatches: 52, Indels: 12
0.80 0.16 0.04
Matches are distributed among these distances:
254 1 0.00
255 152 0.58
256 22 0.08
257 27 0.10
258 1 0.00
260 57 0.22
261 3 0.01
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (259 bp):
AAAATCATGTGAAAACATCATACCCGAAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCT
CAAAAGACTGACAAATGACATAAAGGATTTAATCATCATGCTCAAAACACTTACTGATAGCCCGA
AGGACTTACTAATTTTGAAAATAGTTTACTAGAAGAAACTTTGGAAATCGATTTCTTACTTTTCA
AAAATTTCATTTTCTGAAAAGATTTAAATGAGAAACTTTGGAAACCGCTTTCTCAATTTTTTCG
Found at i:246150 original size:542 final size:542
Alignment explanation
Indices: 245122--246175 Score: 1358
Period size: 542 Copynumber: 1.9 Consensus size: 542
245112 TCATTTCTCG
* * * * *
245122 AAAAAATGTGAAAACATCCTACTTGAAGGTCTTGTGGATGATCATAATGACTTATCATCTTGCTC
1 AAAAAATGTGAAAACATCATACCTGAAGGTCTTATGGATGATCAGAAGGACTTATCATCTTGCTC
* * *
245187 GAAAGGCTTACAAATGACCTGAAGGATTTAATCATCATGCTCAAAAGACTTACTGATGGCCTGAA
66 GAAAGGCTTACAAATGACATGAAGGATTTAATCATCATGCTCAAAAGACTTACTGATAGCCGGAA
* *
245252 AGACTTACCAATTTTGGAAATACTTTACTAGTAAGAAACTTTATAAATCGGTTTCTTACTCTTTA
131 AGACTTACCAATTTTGGAAATACTTTACTAGTAAGAAACTTTAGAAATCGCTTTCTTACTCTTTA
* *
245317 AAAATTTATTTTTCTATAAATATTTAAATTAGAAACTTTGGAAATCGCTTTCTCATTTTTCAAAA
196 AAAATTTATTTTTCTATAAAGATTTAAATGAGAAACTTTGGAAATCGCTTTCTCATTTTTCAAAA
* ** *
245382 ATCGTGGAAACATCCTACGTGAAGGTCATAAAGATGGCCCGAAAGACTTGTCATCTTTCTCAAAG
261 ATCGTGGAAACATCATACCCGAAGGTCATAAAGATGGCCCGAAAGACTTATCATCTTTCTCAAAG
* * * * * *
245447 ACTAACAAATTACCTGAAGGATTTAATCATCGTGCTCGAAAGACTTACTGATGGCCCAAGGACTT
326 ACTAACAAATGACCTAAAGGATTTAATCATCATGCTCAAAACACTTACTGATGACCCAAGGACTT
* * *
245512 ACTAATTCTAGAAATATTTTACTCGTAAGAAACTTTGAAACTTGCTTTCTTACTTTTAAAAAATT
391 ACTAATTCTAGAAATAGTTTACTCGTAAGAAACTTTGAAACTCGATTTCTTACTTTTAAAAAATT
* *
245577 TCATTTTCTGAAAAGATTTAAATGTGAAACTTTGGAAATCACTTTCTC-ATTTTTTTAATATCAT
456 TCATTTTCTGAAAAGATTTAAATGAGAAACTTTGGAAACCACTTTCTCAATTTTTTTAATATCAT
245641 GTGGAAACTTTTATCATTTAAA
521 GTGGAAACTTTTATCATTTAAA
* *
245663 AAAAACATGTGAAAACATTATACCTGAAGGTCTTATGGATG-GCTAGAAGGACTTATCATCTTGC
1 AAAAA-ATGTGAAAACATCATACCTGAAGGTCTTATGGATGATC-AGAAGGACTTATCATCTTGC
* * * * * *
245727 TTGAAAGGCTTACAAATGACATGCATGATTTAATCATCATGCTCGAAAGTCTTATTGATAGCCGG
64 TCGAAAGGCTTACAAATGACATGAAGGATTTAATCATCATGCTCAAAAGACTTACTGATAGCCGG
* * * * *
245792 AAGGACTTACTAATTTTGGAAATATTTTACTAG-AAGAAACTTTGGGAATCGCTTTCTTACT-TT
129 AAAGACTTACCAATTTTGGAAATACTTTACTAGTAAGAAACTTTAGAAATCGCTTTCTTACTCTT
245855 TCAAAAATTTCA-TTTTCT-TAAAAGATTTAAATGAGAAACTTTGGAAATCGC-TT-TCATTTTT
194 T-AAAAATTT-ATTTTTCTAT-AAAGATTTAAATGAGAAACTTTGGAAATCGCTTTCTCATTTTT
* * * * * * *
245916 CGAATATCATGTGGAAACATCATGCCCGAATGTCTTATAGATGGCCCGAAGGACTTATCATCTTT
256 CAAAAATC--GTGGAAACATCATACCCGAAGGTCATAAAGATGGCCCGAAAGACTTATCATCTTT
* *
245981 CTCAAAAGACTGACAGATGACCTAAAGGATTTAATCATCATGCTCAAAACACTTACTGATGACCC
319 CTC-AAAGACTAACAAATGACCTAAAGGATTTAATCATCATGCTCAAAACACTTACTGATGACCC
* * * * * * * *
246046 GAAGGACTTACTTATT-TTGAAAATAGTTTATTGGGTAATAAATTTTTGAAA-TCGATTTTTTTC
383 -AAGGACTTACTAATTCTAG-AAATAGTTTACT-CGTAAGAAA-CTTTGAAACTCGATTTCTTAC
* * * * *
246109 TTTT-CAAAATTTTATTTTCTGAAAAG-TTTTAATGAGAAACTTTGTAAACCGCTTTCTCAATTT
444 TTTTAAAAAATTTCATTTTCTGAAAAGATTTAAATGAGAAACTTTGGAAACCACTTTCTCAATTT
246172 TTTT
509 TTTT
246176 TGAAAATCAT
Statistics
Matches: 438, Mismatches: 62, Indels: 24
0.84 0.12 0.05
Matches are distributed among these distances:
539 14 0.03
540 6 0.01
541 122 0.28
542 218 0.50
543 52 0.12
544 19 0.04
545 7 0.02
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.36
Consensus pattern (542 bp):
AAAAAATGTGAAAACATCATACCTGAAGGTCTTATGGATGATCAGAAGGACTTATCATCTTGCTC
GAAAGGCTTACAAATGACATGAAGGATTTAATCATCATGCTCAAAAGACTTACTGATAGCCGGAA
AGACTTACCAATTTTGGAAATACTTTACTAGTAAGAAACTTTAGAAATCGCTTTCTTACTCTTTA
AAAATTTATTTTTCTATAAAGATTTAAATGAGAAACTTTGGAAATCGCTTTCTCATTTTTCAAAA
ATCGTGGAAACATCATACCCGAAGGTCATAAAGATGGCCCGAAAGACTTATCATCTTTCTCAAAG
ACTAACAAATGACCTAAAGGATTTAATCATCATGCTCAAAACACTTACTGATGACCCAAGGACTT
ACTAATTCTAGAAATAGTTTACTCGTAAGAAACTTTGAAACTCGATTTCTTACTTTTAAAAAATT
TCATTTTCTGAAAAGATTTAAATGAGAAACTTTGGAAACCACTTTCTCAATTTTTTTAATATCAT
GTGGAAACTTTTATCATTTAAA
Found at i:246423 original size:211 final size:213
Alignment explanation
Indices: 246017--246446 Score: 582
Period size: 212 Copynumber: 2.0 Consensus size: 213
246007 GGATTTAATC
*
246017 ATCATGCTCAAAACACTTACTGATGACCCGAAGGACTTACTTATTTTGAAAATAGTTTATTGGGT
1 ATCATGCTCAAAACACTTACTGATGACCCGAAGGACTTACTAATTTTGAAAATA-TTTATTGGGT
* * * * * * * *
246082 AATAAATTTTTGAAATCGATTTTTTTCTTTTCAAAATTTTATTTTCTGAAAAGTTTTAATGAGAA
65 AAGAAACTTTGGAAATCGATTTCTTACTTTTAAAAATTTCATTTTCTGAAAAGTTTAAATGAGAA
* * *
246147 ACTTTGTAAACCGCTTTCTCAATTTTTTTTGAAAATCATGTAAAAACATCCTACCCGAAGGTCTT
130 ACTTTGGAAACCACTTTCTCAATTTTTTTTGAAAATCATGTAAAAACATCCTACCCAAAGGTCTT
246212 ACAGATGGCCCGAAAGACTT
195 A-AGATGGCCCGAAAGACTT
** * * * *
246232 ATCATGCTTGAAAGACTTACTGATGGCTCGAA-GACTTACTAATTTTGGAAAT-TTTATTGGGTA
1 ATCATGCTCAAAACACTTACTGATGACCCGAAGGACTTACTAATTTTGAAAATATTTATTGGGTA
*
246295 AGAAACTTTGGAAATCGCTTTCTTACTTTTAAAAATTTCATTTTCT-AAAATGATTTAAATGAGA
66 AGAAACTTTGGAAATCGATTTCTTACTTTTAAAAATTTCATTTTCTGAAAA-G-TTTAAATGAGA
* *
246359 AACTTTGGAAATCACTTTCTC-A-TTTTTTTGAAAATCATGTTAAAACATCCTACCCAAAGGTCT
129 AACTTTGGAAACCACTTTCTCAATTTTTTTTGAAAATCATGTAAAAACATCCTACCCAAAGGTCT
* *
246422 TAAGATTGCCCGAACGACTT
194 TAAGATGGCCCGAAAGACTT
246442 ATCAT
1 ATCAT
246447 ATTGCGAAAG
Statistics
Matches: 190, Mismatches: 23, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
210 21 0.11
211 45 0.24
212 51 0.27
213 28 0.15
214 18 0.09
215 27 0.14
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (213 bp):
ATCATGCTCAAAACACTTACTGATGACCCGAAGGACTTACTAATTTTGAAAATATTTATTGGGTA
AGAAACTTTGGAAATCGATTTCTTACTTTTAAAAATTTCATTTTCTGAAAAGTTTAAATGAGAAA
CTTTGGAAACCACTTTCTCAATTTTTTTTGAAAATCATGTAAAAACATCCTACCCAAAGGTCTTA
AGATGGCCCGAAAGACTT
Found at i:246458 original size:211 final size:214
Alignment explanation
Indices: 246031--246476 Score: 593
Period size: 211 Copynumber: 2.1 Consensus size: 214
246021 TGCTCAAAAC
* * * *
246031 ACTTACTGATGACCCGAAGGACTTACTTATTTTGAAAATAGTTTATTGGGTAATAAATTTTTGAA
1 ACTTACTGATGACCCGAAGGACTTACTAATTTTGAAAATA-TTTATTGGGTAAGAAACTTTGGAA
* * * * * * *
246096 ATCGATTTTTTTCTTTTCAAAATTTTATTTTCTGAAAAGTTTTAATGAGAAACTTTGTAAACCGC
65 ATCGATTTCTTACTTTTAAAAATTTCATTTTCTGAAAAGTTTAAATGAGAAACTTTGGAAACCAC
*
246161 TTTCTCAATTTTTTTTGAAAATCATGTAAAAACATCCTACCCGAAGGTCTTACAGATGGCCCGAA
130 TTTCTCAATTTTTTTTGAAAATCATGTAAAAACATCCTACCCAAAGGTCTTACAGATGGCCCGAA
*
246226 AGACTTATCATGCTTGAAAG
195 AGACTTATCATGATTGAAAG
* * *
246246 ACTTACTGATGGCTCGAA-GACTTACTAATTTTGGAAAT-TTTATTGGGTAAGAAACTTTGGAAA
1 ACTTACTGATGACCCGAAGGACTTACTAATTTTGAAAATATTTATTGGGTAAGAAACTTTGGAAA
* *
246309 TCGCTTTCTTACTTTTAAAAATTTCATTTTCT-AAAATGATTTAAATGAGAAACTTTGGAAATCA
66 TCGATTTCTTACTTTTAAAAATTTCATTTTCTGAAAA-G-TTTAAATGAGAAACTTTGGAAACCA
* *
246373 CTTTCTC-A-TTTTTTTGAAAATCATGTTAAAACATCCTACCCAAAGGTCTTA-AGATTGCCCGA
129 CTTTCTCAATTTTTTTTGAAAATCATGTAAAAACATCCTACCCAAAGGTCTTACAGATGGCCCGA
*
246435 ACGACTTATCAT-ATTGCGAAAG
194 AAGACTTATCATGATT--GAAAG
*
246457 ACTTACAGATGA-CCGAAGGA
1 ACTTACTGATGACCCGAAGGA
246477 TTTAATTATC
Statistics
Matches: 202, Mismatches: 24, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
209 2 0.01
210 25 0.12
211 62 0.31
212 51 0.25
213 28 0.14
214 18 0.09
215 16 0.08
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.36
Consensus pattern (214 bp):
ACTTACTGATGACCCGAAGGACTTACTAATTTTGAAAATATTTATTGGGTAAGAAACTTTGGAAA
TCGATTTCTTACTTTTAAAAATTTCATTTTCTGAAAAGTTTAAATGAGAAACTTTGGAAACCACT
TTCTCAATTTTTTTTGAAAATCATGTAAAAACATCCTACCCAAAGGTCTTACAGATGGCCCGAAA
GACTTATCATGATTGAAAG
Found at i:246521 original size:20 final size:20
Alignment explanation
Indices: 246493--246543 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
246483 TATCATGCAT
*
246493 CGAAAGACTTACTGATTGCC
1 CGAAGGACTTACTGATTGCC
246513 CGAAGGACTTACTGATTGCC
1 CGAAGGACTTACTGATTGCC
*
246533 TGAAGGACTTA
1 CGAAGGACTTA
246544 ATAAATAAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (20 bp):
CGAAGGACTTACTGATTGCC
Found at i:247246 original size:3 final size:3
Alignment explanation
Indices: 247240--247307 Score: 82
Period size: 3 Copynumber: 22.0 Consensus size: 3
247230 TCATTTAAAT
** * *
247240 TTA TTA TTA TTA TTA AAA TTA TTA TTA TTA GTA TTA TTA TTA TAA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
247288 TTA TTA TATA TTA TTTA TTA
1 TTA TTA T-TA TTA -TTA TTA
247308 AATATTACAA
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
3 49 0.89
4 6 0.11
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:248590 original size:12 final size:12
Alignment explanation
Indices: 248560--248597 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
248550 GTTACTTTTA
248560 TATTTTAATTAT
1 TATTTTAATTAT
**
248572 TGCTTTAATTAT
1 TATTTTAATTAT
248584 TATTTT-ATTAT
1 TATTTTAATTAT
248595 TAT
1 TAT
248598 CTAGTCACAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
11 8 0.36
12 14 0.64
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (12 bp):
TATTTTAATTAT
Found at i:249716 original size:101 final size:102
Alignment explanation
Indices: 249541--249740 Score: 384
Period size: 101 Copynumber: 2.0 Consensus size: 102
249531 ATAATCTCAA
249541 TATGGTTGAAACTATTTGCTAGGAATCTCAAAGAAATATTTTCAATTATCACCGACACACAGAAG
1 TATGGTTGAAACTATTTGCTAGGAATCTCAAAGAAATATTTTCAATTATCACCGACACACAGAAG
249606 GCCAAATTCAATGCTGA-ATCTTAAGGAACTGAATAG
66 GCCAAATTCAATGCTGAGATCTTAAGGAACTGAATAG
249642 TATGGTTGAAACTATTTGCTAGGAATCTCAAAGAAATATTTTCAATTATCACCGACACACAGAAG
1 TATGGTTGAAACTATTTGCTAGGAATCTCAAAGAAATATTTTCAATTATCACCGACACACAGAAG
*
249707 GCCAAATTCAATGCTTAGATCTTAAGGAACTGAA
66 GCCAAATTCAATGCTGAGATCTTAAGGAACTGAA
249741 CCCTGGATCA
Statistics
Matches: 97, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
101 81 0.84
102 16 0.16
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.28
Consensus pattern (102 bp):
TATGGTTGAAACTATTTGCTAGGAATCTCAAAGAAATATTTTCAATTATCACCGACACACAGAAG
GCCAAATTCAATGCTGAGATCTTAAGGAACTGAATAG
Found at i:250120 original size:74 final size:73
Alignment explanation
Indices: 250026--250199 Score: 181
Period size: 74 Copynumber: 2.4 Consensus size: 73
250016 ATAGGATAAT
* * * *
250026 ATGGGCTTTCAACATGCCCCAATATTGGCTAATACAAGTGTTCAAAATGCATCAACAGTTCTGAT
1 ATGGGTTTTCAGCATGCCCCAATATTGGCTAATA-AA-TATTCAAAATACATCAACAGTTCTGAT
250091 T-TGATTGAA
64 TCTGATTGAA
* * * ** *
250100 ATGGGTTTTCAGCATGCCCCAGCAT-TTTGCTGATAAATATTCAGAATATTTCAACATTTCTGAT
1 ATGGGTTTTCAGCATGCCCCA--ATATTGGCTAATAAATATTCAAAATACATCAACAGTTCTGAT
*
250164 TCTGTTTGAA
64 TCTGATTGAA
* *
250174 AAGGGTATTCAGCATGCCCCAATATT
1 ATGGGTTTTCAGCATGCCCCAATATT
250200 TGCTTCTTGT
Statistics
Matches: 83, Mismatches: 13, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
72 2 0.02
73 24 0.29
74 47 0.57
75 8 0.10
76 2 0.02
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (73 bp):
ATGGGTTTTCAGCATGCCCCAATATTGGCTAATAAATATTCAAAATACATCAACAGTTCTGATTC
TGATTGAA
Found at i:255570 original size:31 final size:31
Alignment explanation
Indices: 255535--255601 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
255525 GTATTTTAAA
* *
255535 TATTAATATTATAAAAATTATAATTTAGTTT
1 TATTAAAATTATAAAAATTATAATATAGTTT
* * *
255566 TATTAAAATTATTAAAATTTTAATATATTTT
1 TATTAAAATTATAAAAATTATAATATAGTTT
255597 TATTA
1 TATTA
255602 TTAATATCAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (31 bp):
TATTAAAATTATAAAAATTATAATATAGTTT
Found at i:256691 original size:53 final size:54
Alignment explanation
Indices: 256590--256698 Score: 211
Period size: 53 Copynumber: 2.0 Consensus size: 54
256580 TTATTCTCCA
256590 TGTCAGGTATAGAGAAATGTATCCCCCGAATTGAACTCGATCCGCTTAAGTCTG
1 TGTCAGGTATAGAGAAATGTATCCCCCGAATTGAACTCGATCCGCTTAAGTCTG
256644 TGTCAGGTATAGAGAAATGTAT-CCCCGAATTGAACTCGATCCGCTTAAGTCTG
1 TGTCAGGTATAGAGAAATGTATCCCCCGAATTGAACTCGATCCGCTTAAGTCTG
256697 TG
1 TG
256699 ATGGACTAGG
Statistics
Matches: 55, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
53 33 0.60
54 22 0.40
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (54 bp):
TGTCAGGTATAGAGAAATGTATCCCCCGAATTGAACTCGATCCGCTTAAGTCTG
Found at i:263981 original size:74 final size:72
Alignment explanation
Indices: 263824--263997 Score: 179
Period size: 74 Copynumber: 2.4 Consensus size: 72
263814 ACAAGAAGCA
* * * * *
263824 AATATTGGGGCATGCTGAATACCCTTTTCAAACAGAATCAGAAATGTTGAAATATTCTGAATATT
1 AATATTGGGGCATGCTGAAAACCCATTTCAAACAAAATCAGAAATGTTGAAACATTCTGAACATT
263889 TATCAGC
66 TATCAGC
* * ** *
263896 AAAATGCTGGGGCATGCTGAAAACCCATTTCAATCAAAATCAG-AATGTTGATGCATTTTGAACA
1 AATAT--TGGGGCATGCTGAAAACCCATTTCAAACAAAATCAGAAATGTTGAAACATTCTGAACA
*
263960 CTTGTATTAGCC
64 -TT-TATCAG-C
* *
263972 AATATTGGGGCATGTTGAAAGCCCAT
1 AATATTGGGGCATGCTGAAAACCCAT
263998 ATTATCCTAT
Statistics
Matches: 83, Mismatches: 14, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
72 4 0.05
73 16 0.19
74 53 0.64
75 5 0.06
76 5 0.06
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (72 bp):
AATATTGGGGCATGCTGAAAACCCATTTCAAACAAAATCAGAAATGTTGAAACATTCTGAACATT
TATCAGC
Found at i:264667 original size:82 final size:82
Alignment explanation
Indices: 264512--264679 Score: 304
Period size: 82 Copynumber: 2.0 Consensus size: 82
264502 AGATGAACTG
264512 AGTTTTCATCTATTTTGGTTATCATTTGTATTTCATCCCAACTGCAAAAATTCCATGGATATCTT
1 AGTTTTCATCTATTTTGGTTATCATTTGTATTTCATCCCAACTGCAAAAATTCCATGGATATCTT
264577 TCTGTACATTGATCTAC
66 TCTGTACATTGATCTAC
264594 AGTTTTCATCTATTTTGGTTTTATCATTTGTATTTC-TCCCAACTGCAAAAATTCCATGGATATC
1 AGTTTTCATCTATTTTGG--TTATCATTTGTATTTCATCCCAACTGCAAAAATTCCATGGATATC
264658 -TTCTGTACATTGATCTAC
64 TTTCTGTACATTGATCTAC
264676 AGTT
1 AGTT
264680 GATGTTTCTA
Statistics
Matches: 84, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
82 40 0.48
83 28 0.33
84 16 0.19
ACGTcount: A:0.25, C:0.19, G:0.11, T:0.45
Consensus pattern (82 bp):
AGTTTTCATCTATTTTGGTTATCATTTGTATTTCATCCCAACTGCAAAAATTCCATGGATATCTT
TCTGTACATTGATCTAC
Found at i:265011 original size:54 final size:52
Alignment explanation
Indices: 264929--265034 Score: 158
Period size: 54 Copynumber: 2.0 Consensus size: 52
264919 GATTACGAAT
* *
264929 ATCTGAGCAGAAGCCACAAAAAAGGATGAATGTATTGTCAAATGTTTTACAAAC
1 ATCTGAGCAGAAGCCACAAAAAAGGATGAATGCA-CGTCAAA-GTTTTACAAAC
**
264983 ATCTGAGCAGAAGCCACAGGAAAGGATGAATGCACGTCAAAGTTTTACAAAC
1 ATCTGAGCAGAAGCCACAAAAAAGGATGAATGCACGTCAAAGTTTTACAAAC
265035 CTGTTATTCT
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
52 11 0.23
53 6 0.12
54 31 0.65
ACGTcount: A:0.42, C:0.17, G:0.21, T:0.21
Consensus pattern (52 bp):
ATCTGAGCAGAAGCCACAAAAAAGGATGAATGCACGTCAAAGTTTTACAAAC
Found at i:265426 original size:22 final size:22
Alignment explanation
Indices: 265395--265449 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
265385 ATCTACACTC
*
265395 TTCAAAGATGATAGATTCCCTT
1 TTCAAAGATGACAGATTCCCTT
* *
265417 TTTAAAGATGACAGATTCTCTT
1 TTCAAAGATGACAGATTCCCTT
265439 TTCAAAGATGA
1 TTCAAAGATGA
265450 AAACTTTATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.36
Consensus pattern (22 bp):
TTCAAAGATGACAGATTCCCTT
Found at i:266219 original size:65 final size:66
Alignment explanation
Indices: 266115--267611 Score: 1181
Period size: 65 Copynumber: 20.9 Consensus size: 66
266105 AACTATTCTA
266115 ACATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATATTTCTC
1 ACATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATATTTCTC
266180 -
66 G
266180 ACATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC-GGAGCTTTTTGATATTTCTC
1 ACATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATATTTCTC
266244 -
66 G
*
266244 ACATATGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATATTTCTC
1 ACATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATATTTCTC
266309 -
66 G
266309 ACATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATATTTCTC
1 ACATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATATTTCTC
266374 -
66 G
*
266374 ACATATGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATATTTCTC
1 ACATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATATTTCTC
266439 -
66 G
*
266439 ACATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTCCA
1 ACATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATATTT---
266504 AGCCTTCGGG
63 ---C-TC--G
* * *
266514 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTTTGATGTTTC-C
1 ACATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATATTTCTC
*
266578 A
66 G
* * * *
266579 AGCTTCGGGTCATCTGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTTGATGT
1 A-CATC-TGT-A--AGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATAT
266643 TTCCAAGCCTTCGGG
61 TT------C-TC--G
* * *
266658 TCATCTGTAAGT-CTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCA
1 ACATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGAT-ATTT--
266722 AAGCCTTCG
63 ----C-TCG
** *
266731 -GGTCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTCCA
1 ACATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATATTT---
266795 AGCCTTCGGG
63 ---C-TC--G
* * *
266805 TCATCTGTAAG-CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCA
1 ACATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGAT-ATTT--
266869 AGCCTTCGGG
63 ---C-TC--G
* *
266879 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCC-TCGGGAGCTTTTTGATGTTTTCA
1 ACATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGAT-ATTT--
266943 AAGCCTTCGG
63 ----C-TC-G
* * * *
266953 ATCATCTGTAAGTCCTTCAGTGCATGATGTTTCAAAAAAAACCTTAGGGAGCTTTTTGATGTTTT
1 A-CATCTGTAAGTCCTTCAGTGCATGATGTTTC-CAAAAAGCCTTCGGGAGCTTTTTGAT-ATTT
267018 CAAAACCTTCGGG
63 ------C-TC--G
* * * * *
267031 TCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAAGCCTTCGGGAGCTTTTTTCAAAGCCT
1 ACATCTGTAAGTCCTTCAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGC-TTTTTGATA--TT
***
267096 TAGGG
62 TCTCG
* * *
267101 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGTTTTTTGATGTTT-TC
1 ACATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATATTTCTC
267165 AAAAG
66 ----G
* *
267170 CCTTAGGGTCGTCTGTAAGTCCTTCAGTGCGTGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGA
1 ----A----CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGA
*
267235 TGTTTTCAAGCCTTCGGG
58 T-ATTT-----C-TC--G
* * *
267253 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAAGCCTTCGGGAGCTTTTTCA-AGCCTT
1 ACATCTGTAAGTCCTTCAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTTTTTGATA--TTT
***
267317 AGGG
63 CTCG
* * *
267321 TCATATGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTT-TC
1 ACATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATATTTCTC
267385 AAAAG
66 ----G
*
267390 CCTTAGGGTCATCTGTAAGTCCTTCAGTGCGTGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGA
1 ----A----CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGA
*
267455 TGTTTTCAAAGCCTTCGGG
58 T-ATTT------C-TC--G
* *
267474 TCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCA
1 ACATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATA-TTT--
267539 AAACCTTCGGG
63 ----C-TC--G
*
267550 TCATCTGTAAG-CCATTCAGTGCATGATGTTTCCAAAAAAAAAGCCTTCGGGAGCTTTTTGAT
1 ACATCTGTAAGTCC-TTCAGTGCATGATGTTTCC----AAAAAGCCTTCGGGAGCTTTTTGAT
267612 GTTTTCAAAA
Statistics
Matches: 1248, Mismatches: 90, Indels: 173
0.83 0.06 0.11
Matches are distributed among these distances:
64 63 0.05
65 252 0.20
66 7 0.01
67 26 0.02
68 40 0.03
69 30 0.02
70 72 0.06
71 1 0.00
72 23 0.02
73 81 0.06
74 100 0.08
75 184 0.15
76 133 0.11
77 186 0.15
78 17 0.01
79 2 0.00
80 25 0.02
83 1 0.00
84 1 0.00
85 2 0.00
86 2 0.00
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (66 bp):
ACATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATATTTCTC
G
Found at i:267039 original size:77 final size:76
Alignment explanation
Indices: 266440--267661 Score: 1839
Period size: 77 Copynumber: 16.4 Consensus size: 76
266430 ATATTTCTCA
*
266440 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATG-TTTCCA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
266504 AGCCTTCGGGT
66 AGCCTTCGGGT
* *
266515 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTTTGATG-TTTCCA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
266579 AG-CTTCGGGT
66 AGCCTTCGGGT
*
266589 CATC--T--GTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTTGATG-TTTCCA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
266648 AGCCTTCGGGT
66 AGCCTTCGGGT
*
266659 CATCTGTAAGT-CTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
266723 AGCCTTCGGG-
66 AGCCTTCGGGT
*
266733 --TCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATG-TTTCCA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
266795 AGCCTTCGGGT
66 AGCCTTCGGGT
*
266806 CATCTGTAAG-CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTC-A
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
266869 AGCCTTCGGGT
66 AGCCTTCGGGT
266880 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCC-TCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
266944 AGCCTTCGGAT
66 AGCCTTCGGGT
* * *
266955 CATCTGTAAGTCCTTCAGTGCATGATGTTTCAAAAAAAACCTTAGGGAGCTTTTTGATGTTTTCA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTC-CAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
*
267020 AAACCTTCGGGT
65 AAGCCTTCGGGT
*
267032 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAAGCCTTCGGGAGC----T--T-TTTTCA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
*
267090 AAGCCTTAGGGT
65 AAGCCTTCGGGT
*
267102 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGTTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-A
*
267167 AAGCCTTAGGGT
65 AAGCCTTCGGGT
* *
267179 CGTCTGTAAGTCCTTCAGTGCGTGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-A
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
267243 AGCCTTCGGGT
66 AGCCTTCGGGT
267254 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAAGCCTTCGGGAGC-------T-TTTTC-
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
*
267310 AAGCCTTAGGGT
65 AAGCCTTCGGGT
*
267322 CATATGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-A
*
267387 AAGCCTTAGGGT
65 AAGCCTTCGGGT
*
267399 CATCTGTAAGTCCTTCAGTGCGTGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
267464 AGCCTTCGGGT
66 AGCCTTCGGGT
* *
267475 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
267540 AACCTTCGGGT
66 AGCCTTCGGGT
267551 CATCTGTAAG-CCATTCAGTGCATGATGTTTCCAAAAAAAAAGCCTTCGGGAGCTTTTTGATGTT
1 CATCTGTAAGTCC-TTCAGTGCATGATGTTTCC----AAAAAGCCTTCGGGAGCTTTTTGATGTT
*
267615 TTCAAAAACCTTCGGGT
61 TTC-AAAGCCTTCGGGT
* * *
267632 CATCGGTAAGCCCTTCAGTGCCTGATGTTT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTT
267662 TCAACATTTC
Statistics
Matches: 1064, Mismatches: 40, Indels: 80
0.90 0.03 0.07
Matches are distributed among these distances:
67 17 0.02
68 47 0.04
69 33 0.03
70 98 0.09
71 1 0.00
72 26 0.02
73 83 0.08
74 112 0.11
75 212 0.20
76 142 0.13
77 223 0.21
80 30 0.03
81 38 0.04
82 2 0.00
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTCGGGT
Found at i:267377 original size:220 final size:220
Alignment explanation
Indices: 266116--267661 Score: 1952
Period size: 220 Copynumber: 7.1 Consensus size: 220
266106 ACTATTCTAA
*
266116 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGAT-ATTT---
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
266177 --C-TC---ACATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC-GGAGCTT-TTT
66 GCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTATTT
*** * *
266234 GAT-ATTTCTCA----CATATGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC
131 --TCAAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC
* *
266294 TTTTTGAT-ATTT------C-TC---A
194 TTTTTGATGTTTTCAAAGCCTTCGGGT
*
266310 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGAT-ATTT---
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
266371 --C-TC---ACATATGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTT-TTT
66 GCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTATTT
*** *
266429 GAT-ATTTCTCA----CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC
131 --TCAAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC
*
266489 TTTTTGATG-TTTCCAAGCCTTCGGGT
194 TTTTTGATGTTTTCAAAGCCTTCGGGT
* *
266515 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTTTGATGTTTCCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
266580 G-CTTCGGGTCATC--T--GTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTGA
66 GCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC--TT-A
* *
266640 TGTTTCCAAGCCTTCGGGTCATCTGTAAGT-CTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGG
128 T-TTT-CAAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGG
266704 AGCTTTTTGATGTTTTCAAAGCCTTCGGG-
191 AGCTTTTTGATGTTTTCAAAGCCTTCGGGT
*
266733 --TCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTCCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
266796 GCCTTCGGGTCATCTGTAAG-CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTG
66 GCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC---TT-
*
266860 ATGTTTTCAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCC-TCGG
127 A--TTTTCAAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGG
*
266924 GAGCTTTTTGATGTTTTCAAAGCCTTCGGAT
190 GAGCTTTTTGATGTTTTCAAAGCCTTCGGGT
* * *
266955 CATCTGTAAGTCCTTCAGTGCATGATGTTTCAAAAAAAACCTTAGGGAGCTTTTTGATGTTTTCA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTC-CAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-
* *
267020 AAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAAGCCTTCGGGAGCTT-
64 AAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTTA
267084 TTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGA
128 TTTTC-AAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGA
* *
267149 GTTTTTTGATGTTTTCAAAAGCCTTAGGGT
192 GCTTTTTGATGTTTTC-AAAGCCTTCGGGT
* *
267179 CGTCTGTAAGTCCTTCAGTGCGTGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
267244 GCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAAGCCTTCGGGAGC-T-TT
66 GCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTTATT
*
267307 TTCAAGCCTTAGGGTCATATGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCT
130 TTCAAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCT
*
267372 TTTTGATGTTTTCAAAAGCCTTAGGGT
195 TTTTGATGTTTTC-AAAGCCTTCGGGT
*
267399 CATCTGTAAGTCCTTCAGTGCGTGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-A
*
267464 AGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
65 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC----T
* *
267529 GATATTTTCAAAACCTTCGGGTCATCTGTAAG-CCATTCAGTGCATGATGTTTCCAAAAAAAAAG
126 --TATTTTC-AAGCCTTAGGGTCATCTGTAAGTCC-TTCAGTGCATGATGTTTCC----AAAAAG
*
267593 CCTTCGGGAGCTTTTTGATGTTTTCAAAAACCTTCGGGT
183 CCTTCGGGAGCTTTTTGATGTTTTC-AAAGCCTTCGGGT
* * *
267632 CATCGGTAAGCCCTTCAGTGCCTGATGTTT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTT
267662 TCAACATTTC
Statistics
Matches: 1237, Mismatches: 48, Indels: 95
0.90 0.03 0.07
Matches are distributed among these distances:
194 107 0.09
195 80 0.06
201 1 0.00
202 2 0.00
205 56 0.05
206 2 0.00
210 41 0.03
211 2 0.00
212 3 0.00
213 1 0.00
214 4 0.00
215 5 0.00
216 63 0.05
217 12 0.01
218 45 0.04
219 27 0.02
220 203 0.16
221 117 0.09
222 142 0.11
223 51 0.04
224 69 0.06
225 30 0.02
226 21 0.02
227 22 0.02
228 23 0.02
229 38 0.03
233 70 0.06
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (220 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
GCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTATTT
TCAAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTT
TTTGATGTTTTCAAAGCCTTCGGGT
Found at i:267512 original size:76 final size:76
Alignment explanation
Indices: 267305--267661 Score: 545
Period size: 76 Copynumber: 4.6 Consensus size: 76
267295 TTCGGGAGCT
* * *
267305 TTTTC-AAGCCTTAGGGTCATATGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGA
1 TTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGA
267369 GCTTTTTGATG
66 GCTTTTTGATG
* * *
267380 TTTTCAAAAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCGTGATGTTTCCAAAAAGCCTTCGGG
1 TTTTC-AAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGG
267445 AGCTTTTTGATG
65 AGCTTTTTGATG
267457 TTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGA
1 TTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGA
*
267522 GCTTTTTGATA
66 GCTTTTTGATG
* *
267533 TTTTCAAAACCTTCGGGTCATCTGTAAGCCATTCAGTGCATGATGTTTCCAAAAAAAAAGCCTTC
1 TTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCC----AAAAAGCCTTC
267598 GGGAGCTTTTTGATG
62 GGGAGCTTTTTGATG
* * *
267613 TTTTCAAAAACCTTCGGGTCATCGGTAAGCCCTTCAGTGCCTGATGTTT
1 TTTTC-AAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTT
267662 TCAACATTTC
Statistics
Matches: 263, Mismatches: 12, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
75 5 0.02
76 115 0.44
77 73 0.28
80 30 0.11
81 40 0.15
ACGTcount: A:0.23, C:0.21, G:0.22, T:0.34
Consensus pattern (76 bp):
TTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGA
GCTTTTTGATG
Found at i:267686 original size:297 final size:297
Alignment explanation
Indices: 266116--267661 Score: 1702
Period size: 297 Copynumber: 5.4 Consensus size: 297
266106 ACTATTCTAA
*
266116 CATCTGTAAGTCCTTCAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTTTTTGAT-ATTT--
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
* * * * *
266177 ----C-TC---ACATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCG-GAGC-TTT
66 AAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAA-CCTTCGCTATCATGT
* *** * *
266232 TTGATATTTCTCA----CATATGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAG
130 TTCA-AAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAG
* *
266293 CTTTTTGAT-ATTT------C-TC---ACATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAA
194 CTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAA
* *
266347 GCCTTCGGGAGCTTTTTGAT-ATTT------C-TC---A
259 GCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGT
* *
266375 CATATGTAAGTCCTTCAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTTTTTGAT-ATTT--
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
* * *
266436 ----C-TC---ACATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
66 AAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAA-CCTTC----GC--TA
* * *
266493 TGATGTTTCCAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC
124 TCATGTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC
* *
266558 GAGAGCTTTTTGATG-TTTCCAAG-CTTCGGGTCATC--T--GTCCTTCAGTGCATGATGTTTCC
189 GGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCC
*
266617 AAAAAGCCTTCGGGAGC-TTTTGATG-TTTCCAAGCCTTCGGGT
254 AAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGT
*
266659 CATCTGTAAGT-CTTCAGTGCATGATGTTTCC-AAAAAGCCTTCAGGAGCTTTTTGATGTTTTCA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
* * *
266722 AAGCCTTCGGG---TCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
66 AAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAA-CCTTC----GC--TA
* * *
266784 TGATGTTTCCAAGCCTTCGGGTCATCTGTAAG-CCTTCAGTGCATGATGTTTCCAAAAAGCCTTC
124 TCATGTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC
*
266848 AGGAGCTTTTTGATGTTTTC-AAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCC
189 GGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCC
*
266912 AAAAAGCC-TCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGAT
254 AAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGT
* * *
266955 CATCTGTAAGTCCTTCAGTGCATGATGTTTCAAAAAAAACCTTAGGGAGCTTTTTGATGTTTTCA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
** * * *
267020 AAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAAGCCTTCGGGAGCTTT
66 AAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCC-AAAAA-CCTTCGCTATCATG
267085 TTTCAAAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAG
129 TTTCAAAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAG
* * * *
267150 TTTTTTGATGTTTTCAAAAGCCTTAGGGTCGTCTGTAAGTCCTTCAGTGCGTGATGTTTCCAAAA
194 CTTTTTGATGTTTTC-AAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAA
267215 AGCCTTCGGGAGCTTTTTGATGTTTTC-AAGCCTTCGGGT
258 AGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGT
267254 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAAGCCTTCGGGAGC-------T-TTTTC-
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
* * * * *
267310 AAGCCTTAGGGTCATATGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
66 AAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAA-CCTTC----GC--TA
* *
267375 TGATGTTTTCAAAAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCGTGATGTTTCCAAAAAGCCT
124 TCATG-TTTC-AAAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCT
*
267440 TCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTT
187 TCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTT
* *
267505 CCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAAAACCTTCGGGT
252 CCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGT
267551 CATCTGTAAG-CCATTCAGTGCATGATGTTTCCAAAAAAAAAGCCTTCGGGAGCTTTTTGATGTT
1 CATCTGTAAGTCC-TTCAGTGCATGATGTTTCC---AAAAAAGCCTTCGGGAGCTTTTTGATGTT
* *
267615 TTCAAAAACCTTCGGGTCATCGGTAAGCCCTTCAGTGCCTGATGTTT
62 TTC-AAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTT
267662 TCAACATTTC
Statistics
Matches: 1129, Mismatches: 73, Indels: 119
0.85 0.06 0.09
Matches are distributed among these distances:
259 107 0.09
263 1 0.00
266 3 0.00
267 4 0.00
270 58 0.05
274 10 0.01
275 41 0.04
276 2 0.00
277 1 0.00
279 4 0.00
280 1 0.00
281 2 0.00
283 44 0.04
284 13 0.01
289 11 0.01
290 89 0.08
291 106 0.09
292 1 0.00
293 2 0.00
294 8 0.01
295 40 0.04
296 129 0.11
297 183 0.16
298 40 0.04
299 107 0.09
300 40 0.04
301 29 0.03
302 11 0.01
307 1 0.00
308 5 0.00
310 36 0.03
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (297 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
AAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAACCTTCGCTATCATGTT
TCAAAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCT
TTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGC
CTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGT
Found at i:267799 original size:3 final size:3
Alignment explanation
Indices: 267793--267853 Score: 70
Period size: 3 Copynumber: 20.0 Consensus size: 3
267783 TCATTTAAAT
* * *
267793 TTA TTA TTA TTA -AA ATA TTA TTA TTA TTA TTA TTA TAA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
267840 TATA TTA TTTA TTA
1 T-TA TTA -TTA TTA
267854 AATATTACAA
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
2 1 0.02
3 43 0.86
4 6 0.12
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:269257 original size:22 final size:22
Alignment explanation
Indices: 269232--269277 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
269222 GGTATTTTAA
269232 ATAATTAAATATTATAAAAATT
1 ATAATTAAATATTATAAAAATT
* * * *
269254 ATAATTTAGTTTTATTAAAATT
1 ATAATTAAATATTATAAAAATT
269276 AT
1 AT
269278 TAAATTTTAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (22 bp):
ATAATTAAATATTATAAAAATT
Found at i:269297 original size:30 final size:32
Alignment explanation
Indices: 269235--269299 Score: 80
Period size: 30 Copynumber: 2.1 Consensus size: 32
269225 ATTTTAAATA
*
269235 ATTAAATATTATAAAAATTATAATTTAGTTTT
1 ATTAAATATTATAAAAATTATAATATAGTTTT
* * *
269267 ATTAAA-ATTAT-TAAATTTTAATATATTTTT
1 ATTAAATATTATAAAAATTATAATATAGTTTT
269297 ATT
1 ATT
269300 TATTAATATC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 18 0.62
31 5 0.17
32 6 0.21
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.54
Consensus pattern (32 bp):
ATTAAATATTATAAAAATTATAATATAGTTTT
Found at i:269400 original size:17 final size:17
Alignment explanation
Indices: 269378--269411 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
269368 TCTTACTATA
269378 TTAAAATAAAT-TTTGTC
1 TTAAAA-AAATGTTTGTC
269395 TTAAAAAAATGTTTGTC
1 TTAAAAAAATGTTTGTC
269412 ATTTATTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (17 bp):
TTAAAAAAATGTTTGTC
Found at i:283107 original size:20 final size:22
Alignment explanation
Indices: 283069--283108 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
283059 TTTTAGTAGA
283069 AAAATCATCCCCAAATGGCTCC
1 AAAATCATCCCCAAATGGCTCC
283091 AAAA-CATCCCC-AATGGCT
1 AAAATCATCCCCAAATGGCT
283109 ATATACAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.38, C:0.35, G:0.10, T:0.17
Consensus pattern (22 bp):
AAAATCATCCCCAAATGGCTCC
Found at i:283327 original size:34 final size:33
Alignment explanation
Indices: 283288--283358 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 33
283278 CTTTGTAAAG
* *
283288 GGGAAATGTTCTAG-CTAAGCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGTCTAA-CCCGTG-AAAAACTA
*
283322 GGGAAAGGTTCTAGTTTAACCCGTGAAAAACTA
1 GGGAAAGGTTCTAGTCTAACCCGTGAAAAACTA
283355 GGGA
1 GGGA
283359 GTTGTAAGGT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
33 11 0.33
34 19 0.58
35 3 0.09
ACGTcount: A:0.34, C:0.15, G:0.28, T:0.23
Consensus pattern (33 bp):
GGGAAAGGTTCTAGTCTAACCCGTGAAAAACTA
Found at i:284217 original size:19 final size:20
Alignment explanation
Indices: 284184--284228 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
284174 AACGATTTTC
*
284184 TTTTGAAAACAAAAAT-AGA
1 TTTTGAAAACAAAAATGAAA
* *
284203 TTTTGAAAGCCAAAATGAAA
1 TTTTGAAAACAAAAATGAAA
284223 TTTTGA
1 TTTTGA
284229 GAAAGAATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.49, C:0.07, G:0.13, T:0.31
Consensus pattern (20 bp):
TTTTGAAAACAAAAATGAAA
Found at i:285365 original size:21 final size:21
Alignment explanation
Indices: 285341--285385 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
285331 TTTTCTAAAA
*
285341 TTTGGTGACAATTGATATCAT
1 TTTGGTAACAATTGATATCAT
* * *
285362 TTTGTTAACAATTGGTATCTT
1 TTTGGTAACAATTGATATCAT
285383 TTT
1 TTT
285386 CATTAAATAT
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:0.24, C:0.09, G:0.16, T:0.51
Consensus pattern (21 bp):
TTTGGTAACAATTGATATCAT
Done.