Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2
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: 5794061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 68655 characters in sequence are not A, C, G, or T
File 3 of 38
Found at i:390485 original size:20 final size:20
Alignment explanation
Indices: 390450--390595 Score: 105
Period size: 20 Copynumber: 6.8 Consensus size: 20
390440 AAAAAGACAA
* *
390450 AATGTATCCATTCATTGAAG
1 AATGTATCGATACATTGAAG
*
390470 AATGTATCGATACATTCATA-
1 AATGTATCGATACATTGA-AG
* * *
390490 CATGTTTCGATACATTGAAA
1 AATGTATCGATACATTGAAG
390510 AATGTATCGATACATCTAGATAAAAAGACAG
1 AATGTATCGATACA--T---T-----GA-AG
390541 AATGTATCGATACATTGAAG
1 AATGTATCGATACATTGAAG
* *
390561 AATGTATCGATACATTAAAA
1 AATGTATCGATACATTGAAG
390581 AATGTATCGATACAT
1 AATGTATCGATACAT
390596 CTAGGTAAAA
Statistics
Matches: 102, Mismatches: 11, Indels: 26
0.73 0.08 0.19
Matches are distributed among these distances:
19 1 0.01
20 77 0.75
21 3 0.03
22 1 0.01
25 1 0.01
26 1 0.01
29 1 0.01
30 2 0.02
31 15 0.15
ACGTcount: A:0.42, C:0.13, G:0.14, T:0.31
Consensus pattern (20 bp):
AATGTATCGATACATTGAAG
Found at i:390543 original size:71 final size:71
Alignment explanation
Indices: 390468--390606 Score: 217
Period size: 71 Copynumber: 2.0 Consensus size: 71
390458 CATTCATTGA
* * *
390468 AGAATGTATCGATACATTCATA-CATGTTTCGATACATTGAAAAATGTATCGATACATCTAGATA
1 AGAATGTATCGATACATTCA-AGAATGTATCGATACATTAAAAAATGTATCGATACATCTAGATA
390532 AAAAGAC
65 AAAAGAC
* *
390539 AGAATGTATCGATACATTGAAGAATGTATCGATACATTAAAAAATGTATCGATACATCTAGGTAA
1 AGAATGTATCGATACATTCAAGAATGTATCGATACATTAAAAAATGTATCGATACATCTAGATAA
390604 AAA
66 AAA
390607 TGTGAATTTT
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
70 1 0.02
71 61 0.98
ACGTcount: A:0.44, C:0.12, G:0.15, T:0.29
Consensus pattern (71 bp):
AGAATGTATCGATACATTCAAGAATGTATCGATACATTAAAAAATGTATCGATACATCTAGATAA
AAAGAC
Found at i:390560 original size:91 final size:91
Alignment explanation
Indices: 390400--390595 Score: 284
Period size: 91 Copynumber: 2.2 Consensus size: 91
390390 TTTTAACTAG
** * * * *
390400 ATGTATCGATACATTGAATTATGTATCGATGCATCTGGGTAAAAAGACAAAATGTATCCATTCAT
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTAGATAAAAAGACAAAATGTATCCATACAT
* * *
390465 TGAAGAATGTATCGATACATTCATAC
66 TGAAGAATGTATCGATACATTAAAAA
* * *
390491 ATGTTTCGATACATTGAAAAATGTATCGATACATCTAGATAAAAAGACAGAATGTATCGATACAT
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTAGATAAAAAGACAAAATGTATCCATACAT
390556 TGAAGAATGTATCGATACATTAAAAA
66 TGAAGAATGTATCGATACATTAAAAA
390582 ATGTATCGATACAT
1 ATGTATCGATACAT
390596 CTAGGTAAAA
Statistics
Matches: 92, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
91 92 1.00
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.31
Consensus pattern (91 bp):
ATGTATCGATACATTGAAAAATGTATCGATACATCTAGATAAAAAGACAAAATGTATCCATACAT
TGAAGAATGTATCGATACATTAAAAA
Found at i:390609 original size:24 final size:21
Alignment explanation
Indices: 390541--390609 Score: 88
Period size: 20 Copynumber: 3.2 Consensus size: 21
390531 AAAAAGACAG
*
390541 AATGTATCGATACATT-GAAG
1 AATGTATCGATACATTAGAAA
390561 AATGTATCGATACATTA-AAA
1 AATGTATCGATACATTAGAAA
390581 AATGTATCGATACATCTAGGTAAA
1 AATGTATCGATACAT-TA-G-AAA
390605 AATGT
1 AATGT
390610 GAATTTTTCA
Statistics
Matches: 43, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
20 33 0.77
21 2 0.05
24 8 0.19
ACGTcount: A:0.43, C:0.10, G:0.16, T:0.30
Consensus pattern (21 bp):
AATGTATCGATACATTAGAAA
Found at i:391577 original size:28 final size:28
Alignment explanation
Indices: 391505--392005 Score: 572
Period size: 28 Copynumber: 17.5 Consensus size: 28
391495 CACTAACTTG
* *
391505 TGTGGGCTTTGAAAAGAGTTGCCACTAACTT
1 TGTGGGCTTTG-AAAG-GGTGCCACTGAC-T
*
391536 GTGTGGGCTTTGAAAGGGTGCCACCGACT
1 -TGTGGGCTTTGAAAGGGTGCCACTGACT
*
391565 TGTGGGCTTTGAAAGGGTATGCCACTAACT
1 TGTGGGCTTTGAAAGGG--TGCCACTGACT
* *
391595 TGTGGGCTTTGAAAGGGTTCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
391623 TGTGGGCTTTGAAAGGGTACCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
391651 TATGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
391679 TGTGGGCTTTAAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
391707 TATGGGCTTTGGAAGGGTGCCACTGATTT
1 TGTGGGCTTTGAAAGGGTGCCACTGA-CT
391736 GTGTGGGCTTTGAAAGGGTATGCCACTGACT
1 -TGTGGGCTTTGAAAGGG--TGCCACTGACT
* *
391767 TGTGGGCTTTGAAAAGGTGCTACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
391795 TGTAGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
391823 TATGGTCTTTGGAAGAGATGCCACTGACT
1 TGTGGGCTTTGAAAG-GGTGCCACTGACT
* **
391852 TGTGGTCTTT-ATAAGAAATGCCACTGACT
1 TGTGGGCTTTGA-AAG-GGTGCCACTGACT
* * *
391881 TGTGGGCTTTGAAAGGATGCAACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
391909 TGTAGGCTTTGAAAAGATGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
391937 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
391965 TGTGGGCTTTGAAATGATGCCATTGACC
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
391993 TGTGGGCTTTGAA
1 TGTGGGCTTTGAA
392006 GAGATGAACG
Statistics
Matches: 413, Mismatches: 47, Indels: 22
0.86 0.10 0.05
Matches are distributed among these distances:
28 269 0.65
29 52 0.13
30 67 0.16
31 5 0.01
32 20 0.05
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGGTGCCACTGACT
Found at i:393279 original size:8 final size:8
Alignment explanation
Indices: 393253--393300 Score: 53
Period size: 8 Copynumber: 5.8 Consensus size: 8
393243 TCTAGACCCC
393253 TTTTTTGT
1 TTTTTTGT
*
393261 TTGTTTG-
1 TTTTTTGT
393268 TTTTTTGTT
1 TTTTTTG-T
393277 TTTTTTGGGT
1 TTTTTT--GT
393287 TTTTTTGT
1 TTTTTTGT
393295 TTTTTT
1 TTTTTT
393301 TTTGTACGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
7 6 0.18
8 14 0.41
9 6 0.18
10 7 0.21
11 1 0.03
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.83
Consensus pattern (8 bp):
TTTTTTGT
Found at i:406890 original size:20 final size:19
Alignment explanation
Indices: 406860--407027 Score: 111
Period size: 20 Copynumber: 7.9 Consensus size: 19
406850 GTAAAAAGAC
406860 AAAATGTATCGATACATTG
1 AAAATGTATCGATACATTG
* *
406879 AAGAACGTATCGATACATTC
1 AA-AATGTATCGATACATTG
*
406899 ATACATGTATCGATACATTG
1 A-AAATGTATCGATACATTG
406919 AAAAATGTATCGATACATTTGGGTAAAAAG
1 -AAAATGTATCGATACA--T---T-----G
*
406949 ACAGAATGTATTGATACATTG
1 A-A-AATGTATCGATACATTG
*
406970 AAGAATGTATCGATACATTC
1 AA-AATGTATCGATACATTG
*
406990 ATACATGTATCGATACATTG
1 A-AAATGTATCGATACATTG
*
407010 AAAAATGTATCGAAACAT
1 -AAAATGTATCGATACAT
407028 CTGGGTAAAA
Statistics
Matches: 119, Mismatches: 13, Indels: 33
0.72 0.08 0.20
Matches are distributed among these distances:
19 2 0.02
20 91 0.76
21 6 0.05
22 1 0.01
25 1 0.01
26 1 0.01
29 2 0.02
30 2 0.02
31 13 0.11
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.30
Consensus pattern (19 bp):
AAAATGTATCGATACATTG
Found at i:406890 original size:51 final size:49
Alignment explanation
Indices: 406812--406988 Score: 167
Period size: 51 Copynumber: 3.7 Consensus size: 49
406802 TTTTAACTAG
** *
406812 ATGTATCGATACATT-ATTCAATATATCGATACATCTGGGTAAAAAGACAAA
1 ATGTATCGATACATTGA-AGAATGTATCGATACAT-TGGGTAAAAAGAC-AA
* * *
406863 ATGTATCGATACATTGAAGAACGTATCGATACA-T---T---CATAC--
1 ATGTATCGATACATTGAAGAATGTATCGATACATTGGGTAAAAAGACAA
*
406903 ATGTATCGATACATTGAAAAATGTATCGATACATTTGGGTAAAAAGACAGA
1 ATGTATCGATACATTGAAGAATGTATCGATACA-TTGGGTAAAAAGACA-A
*
406954 ATGTATTGATACATTGAAGAATGTATCGATACATT
1 ATGTATCGATACATTGAAGAATGTATCGATACATT
406989 CATACATGTA
Statistics
Matches: 102, Mismatches: 12, Indels: 25
0.73 0.09 0.18
Matches are distributed among these distances:
40 31 0.30
42 1 0.01
43 3 0.03
45 1 0.01
46 1 0.01
48 3 0.03
49 1 0.01
50 2 0.02
51 58 0.57
52 1 0.01
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.31
Consensus pattern (49 bp):
ATGTATCGATACATTGAAGAATGTATCGATACATTGGGTAAAAAGACAA
Found at i:406967 original size:91 final size:91
Alignment explanation
Indices: 406812--407038 Score: 366
Period size: 91 Copynumber: 2.5 Consensus size: 91
406802 TTTTAACTAG
** *
406812 ATGTATCGATACATT-ATTCAATATATCGATACATCTGGGTAAAAAGACAAAATGTATCGATACA
1 ATGTATCGATACATTGA-AAAATGTATCGATACATCTGGGTAAAAAGACAAAATGTATCGATACA
406876 TTGAAGAACGTATCGATACATTCATAC
65 TTGAAGAACGTATCGATACATTCATAC
* * *
406903 ATGTATCGATACATTGAAAAATGTATCGATACATTTGGGTAAAAAGACAGAATGTATTGATACAT
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAGACAAAATGTATCGATACAT
*
406968 TGAAGAATGTATCGATACATTCATAC
66 TGAAGAACGTATCGATACATTCATAC
*
406994 ATGTATCGATACATTGAAAAATGTATCGAAACATCTGGGTAAAAA
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAA
407039 TGTGACGTTT
Statistics
Matches: 126, Mismatches: 9, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
91 125 0.99
92 1 0.01
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.30
Consensus pattern (91 bp):
ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAGACAAAATGTATCGATACAT
TGAAGAACGTATCGATACATTCATAC
Found at i:408286 original size:13 final size:13
Alignment explanation
Indices: 408268--408294 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
408258 ACATCATGCT
408268 TTGTATCGATACA
1 TTGTATCGATACA
408281 TTGTATCGATACA
1 TTGTATCGATACA
408294 T
1 T
408295 GTTTATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:408304 original size:19 final size:19
Alignment explanation
Indices: 408280--408334 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
408270 GTATCGATAC
**
408280 ATTGTATCGATACATGTTT
1 ATTGTATCGATACATGTCA
* *
408299 ATTGTATCAATACATACTCA
1 ATTGTATCGATACAT-GTCA
408319 ATTGTATCGATACATG
1 ATTGTATCGATACATG
408335 AAAGTGGCAA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.40
Consensus pattern (19 bp):
ATTGTATCGATACATGTCA
Found at i:408388 original size:20 final size:20
Alignment explanation
Indices: 408363--408414 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
408353 CTAAGTGAAA
* *
408363 TGTATCGATACATGGAGCAT
1 TGTATCGATACATGAAGAAT
408383 TGTATCGATACATGAAGAAT
1 TGTATCGATACATGAAGAAT
408403 TGTATCGATACA
1 TGTATCGATACA
408415 ATATGCCCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.31
Consensus pattern (20 bp):
TGTATCGATACATGAAGAAT
Found at i:415718 original size:37 final size:37
Alignment explanation
Indices: 415668--415741 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
415658 TATCCATGTA
*
415668 GTCTTTGCAAAACCAAACTTAATTTTAAAAATTATTT
1 GTCTTTGCAAAACCAAACCTAATTTTAAAAATTATTT
*
415705 GTCTTTGCCAAACCAAACCTAATTTTAAAAATTATTT
1 GTCTTTGCAAAACCAAACCTAATTTTAAAAATTATTT
415742 TCTCCTAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.39, C:0.16, G:0.05, T:0.39
Consensus pattern (37 bp):
GTCTTTGCAAAACCAAACCTAATTTTAAAAATTATTT
Found at i:418968 original size:35 final size:34
Alignment explanation
Indices: 418870--418947 Score: 138
Period size: 34 Copynumber: 2.3 Consensus size: 34
418860 ACCTTACAAA
418870 CCTATCTTTTCACAAGCTAAGATAGAACCTTCTC
1 CCTATCTTTTCACAAGCTAAGATAGAACCTTCTC
* *
418904 CCTATCTTTTCACAATCTAAGATAGAACCTTTTC
1 CCTATCTTTTCACAAGCTAAGATAGAACCTTCTC
418938 CCTATCTTTT
1 CCTATCTTTT
418948 TCAAAGGCTA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 42 1.00
ACGTcount: A:0.27, C:0.28, G:0.06, T:0.38
Consensus pattern (34 bp):
CCTATCTTTTCACAAGCTAAGATAGAACCTTCTC
Found at i:419438 original size:22 final size:20
Alignment explanation
Indices: 419389--419444 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 20
419379 CGTTGGACCA
*
419389 AATGTATCGATACAATTCTT
1 AATGTATCGATATAATTCTT
419409 AATGTATCGATATAATT-TT
1 AATGTATCGATATAATTCTT
419428 AAACATGTATCGATATA
1 --A-ATGTATCGATATA
419445 TTCAAAGGGA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 2 0.06
20 16 0.50
21 1 0.03
22 13 0.41
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (20 bp):
AATGTATCGATATAATTCTT
Found at i:427694 original size:28 final size:28
Alignment explanation
Indices: 427632--427694 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
427622 CATTGAGAGC
**
427632 AAAAATTAATAAACTTTTGAGTCAAGAA
1 AAAAATTAATAAACTTTTGAAACAAGAA
* *
427660 GACAATTAATAAGACTTTT-AAACAAGAA
1 AAAAATTAATAA-ACTTTTGAAACAAGAA
427688 AAAAATT
1 AAAAATT
427695 CAAGGCACCA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
28 22 0.79
29 6 0.21
ACGTcount: A:0.56, C:0.08, G:0.10, T:0.27
Consensus pattern (28 bp):
AAAAATTAATAAACTTTTGAAACAAGAA
Found at i:428257 original size:51 final size:50
Alignment explanation
Indices: 428009--428325 Score: 206
Period size: 51 Copynumber: 6.2 Consensus size: 50
427999 AAACTCATCC
** *
428009 AAAT-CAAGTCCACATTAGCTGGTACCTGTATAAGAAGGTCAAACCCTATA
1 AAATCCAAGTCCACATTAGCTGACACCTGTATAAG-AGGTCAAGCCCTATA
*** ** *
428059 AAATCTTGGTCCACATTAATTGACACCTCTATAAGGAGGTCAAGCCCTATA
1 AAATCCAAGTCCACATTAGCTGACACCTGTATAA-GAGGTCAAGCCCTATA
* * * * * * * * * *
428110 GAACCCAAAGTCCACAGTAGTTGACACCTATGTAACGAAGTAAAACCTTATA
1 AAATCC-AAGTCCACATTAGCTGACACCTGTATAA-GAGGTCAAGCCCTATA
* * * * * * * * ** *
428162 GAATCTAGGTCCACACTAGCTAACACTTTTGTGGGGAGGCCAAGCCCTATA
1 AAATCCAAGTCCACATTAGCTGACACCTGTAT-AAGAGGTCAAGCCCTATA
** * *
428213 AAATCCAAGTCCACATTAGCTGGTACTTGTATAGAGAGGTCAAG-CTTATA
1 AAATCCAAGTCCACATTAGCTGACACCTGTATA-AGAGGTCAAGCCCTATA
* *
428263 AAACCCCAAGTCCACATTAGCTGGCACCTGTATAAGGAGGTCAAGCCCTATA
1 AAA-TCCAAGTCCACATTAGCTGACACCTGTATAA-GAGGTCAAGCCCTATA
* *
428315 GAATCAAAGTC
1 AAATCCAAGTC
428326 TTTGCTAGCT
Statistics
Matches: 201, Mismatches: 58, Indels: 15
0.73 0.21 0.05
Matches are distributed among these distances:
50 13 0.06
51 142 0.71
52 46 0.23
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (50 bp):
AAATCCAAGTCCACATTAGCTGACACCTGTATAAGAGGTCAAGCCCTATA
Found at i:428423 original size:85 final size:86
Alignment explanation
Indices: 428269--428445 Score: 232
Period size: 85 Copynumber: 2.1 Consensus size: 86
428259 TATAAAACCC
* *** *
428269 CAAGTCCACATTAGCTGGCACCTGTATAAGGAGGTCAAGCCCTATAGAATCAAAGTCTTTGCTAG
1 CAAGTCCACATTAGCTGGCACCTGTATAAAGAGGTCAAGCCCTATAGAATCAAAGTCTACACTAA
428334 CTAGCACCTATATA-GGAGGT
66 CTAGCACCTATATAGGGAGGT
* * * **
428354 CAAGTCCACGTTAGTTGGCACCTAGTA-AAAGAGTTCAAGCTGTATAGAATCAAAGTCTACACTA
1 CAAGTCCACATTAGCTGGCACCT-GTATAAAGAGGTCAAGCCCTATAGAATCAAAGTCTACACTA
*
428418 ACTAGCACCTGTATAGGGAGGT
65 ACTAGCACCTATATAGGGAGGT
428440 CAAGTC
1 CAAGTC
428446 TGATAGAGTC
Statistics
Matches: 79, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
85 64 0.81
86 15 0.19
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.24
Consensus pattern (86 bp):
CAAGTCCACATTAGCTGGCACCTGTATAAAGAGGTCAAGCCCTATAGAATCAAAGTCTACACTAA
CTAGCACCTATATAGGGAGGT
Found at i:429044 original size:113 final size:115
Alignment explanation
Indices: 428916--429185 Score: 318
Period size: 113 Copynumber: 2.3 Consensus size: 115
428906 CTAACTTGTT
428916 TATTTAATAAATTTATTTGAGCTTATTTT-TTTAATTATATTAGGTCATAAATTA-TTTAATTTG
1 TATTTAAT-AATTTATTTGAGCTTATTTTATTTAATTAT-TTAGGTCATAAATTATTTTAATTTG
* * * * *
428979 AGGCCAAATTTTATAAAAAAA-ATGCATTT-ATAAAATAAGG-CCCACACGTA
64 AAGCCAAACTTTATAAAAAAATATACATTTCATAAAAT-AGGACCCAAACGCA
*
429029 TATTTAACTAATTTATTT-AGACTTATTTTATTTAATCATTTAGGTCATAAATTATTTTAATTTG
1 TATTTAA-TAATTTATTTGAG-CTTATTTTATTTAATTATTTAGGTCATAAATTATTTTAATTTG
* * * *
429093 AAGCCAAGCTTTATAAAAAAATATACATTTCGATCAAATAGGATCCAAATGCA
64 AAGCCAAACTTTATAAAAAAATATACATTTC-ATAAAATAGGACCCAAACGCA
* *
429146 TATTTAATTAATTTATTTGAGGCCTATTTTATTTAGTTAT
1 TATTTAA-TAATTTATTTGA-GCTTATTTTATTTAATTAT
429186 GATTGAGCTA
Statistics
Matches: 133, Mismatches: 14, Indels: 15
0.82 0.09 0.09
Matches are distributed among these distances:
112 2 0.02
113 39 0.29
114 36 0.27
115 7 0.05
116 3 0.02
117 29 0.22
118 16 0.12
119 1 0.01
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.44
Consensus pattern (115 bp):
TATTTAATAATTTATTTGAGCTTATTTTATTTAATTATTTAGGTCATAAATTATTTTAATTTGAA
GCCAAACTTTATAAAAAAATATACATTTCATAAAATAGGACCCAAACGCA
Found at i:432077 original size:13 final size:13
Alignment explanation
Indices: 432059--432083 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
432049 CATAAAGTGT
432059 TGTATCGATACAA
1 TGTATCGATACAA
432072 TGTATCGATACA
1 TGTATCGATACA
432084 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:432082 original size:33 final size:33
Alignment explanation
Indices: 432039--432105 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
432029 TTCAACGATT
*
432039 TGTATTGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
432072 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
432105 T
1 T
432106 TTAAGCTACT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:432162 original size:13 final size:13
Alignment explanation
Indices: 432144--432183 Score: 80
Period size: 13 Copynumber: 3.1 Consensus size: 13
432134 ACATTACTCA
432144 AATGTATCGATAC
1 AATGTATCGATAC
432157 AATGTATCGATAC
1 AATGTATCGATAC
432170 AATGTATCGATAC
1 AATGTATCGATAC
432183 A
1 A
432184 CTGATCTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:432297 original size:43 final size:47
Alignment explanation
Indices: 432192--432306 Score: 166
Period size: 43 Copynumber: 2.5 Consensus size: 47
432182 CACTGATCTT
*
432192 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTCGATACATATAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTAGATACATATAA
* *
432239 TGTATCGATACATGCAGGC-AA-TTG-CCAGATGTATATACA-CTAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTAGATACATATAA
*
432282 TGTATCGATACATGCAGGTAAATTT
1 TGTATCGATACATGCAGGCAAATTT
432307 TCATATTTCG
Statistics
Matches: 62, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
43 21 0.34
44 15 0.24
45 5 0.08
46 2 0.03
47 19 0.31
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (47 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTAGATACATATAA
Found at i:436080 original size:18 final size:16
Alignment explanation
Indices: 436051--436098 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 16
436041 TGTTCTTTTC
436051 CAAAAAAGAAACAAAA
1 CAAAAAAGAAACAAAA
436067 CAAAAAAG---CAAAA
1 CAAAAAAGAAACAAAA
*
436080 CAAAGAAGAAAC-AAA
1 CAAAAAAGAAACAAAA
436095 CAAA
1 CAAA
436099 CAAACAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
13 12 0.43
15 7 0.25
16 9 0.32
ACGTcount: A:0.77, C:0.15, G:0.08, T:0.00
Consensus pattern (16 bp):
CAAAAAAGAAACAAAA
Found at i:436088 original size:29 final size:27
Alignment explanation
Indices: 436051--436114 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 27
436041 TGTTCTTTTC
*
436051 CAAAAAAGAAACAAAACAAA-AAAGCAAAA
1 CAAAGAAGAAAC-AAACAAACAAA-C-AAA
436080 CAAAGAAGAAACAAACAAACAAACAAA
1 CAAAGAAGAAACAAACAAACAAACAAA
436107 -AAAGAAGA
1 CAAAGAAGA
436115 GAAAGGAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
26 8 0.24
27 3 0.09
28 8 0.24
29 14 0.42
ACGTcount: A:0.77, C:0.14, G:0.09, T:0.00
Consensus pattern (27 bp):
CAAAGAAGAAACAAACAAACAAACAAA
Found at i:436117 original size:28 final size:29
Alignment explanation
Indices: 436052--436118 Score: 79
Period size: 28 Copynumber: 2.4 Consensus size: 29
436042 GTTCTTTTCC
436052 AAAA-AAGAAACAAAACAAAAAAGCAAAA
1 AAAAGAAGAAACAAAACAAAAAAGCAAAA
*
436080 CAAAGAAGAAAC-AAACAAACAAA-CAAAA
1 AAAAGAAGAAACAAAACAAA-AAAGCAAAA
436108 AAGAAG-AGAAA
1 AA-AAGAAGAAA
436119 GGAAAAACCC
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
28 21 0.62
29 13 0.38
ACGTcount: A:0.78, C:0.12, G:0.10, T:0.00
Consensus pattern (29 bp):
AAAAGAAGAAACAAAACAAAAAAGCAAAA
Found at i:436945 original size:8 final size:8
Alignment explanation
Indices: 436932--436977 Score: 65
Period size: 8 Copynumber: 5.6 Consensus size: 8
436922 TTGTGCTGTA
436932 ATCATGAC
1 ATCATGAC
436940 ATCATGAC
1 ATCATGAC
436948 ATCATGAC
1 ATCATGAC
*
436956 ATCATAAC
1 ATCATGAC
*
436964 ATCAATAAC
1 ATC-ATGAC
436973 ATCAT
1 ATCAT
436978 TATTTGCATC
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
8 28 0.78
9 8 0.22
ACGTcount: A:0.43, C:0.24, G:0.07, T:0.26
Consensus pattern (8 bp):
ATCATGAC
Found at i:437182 original size:34 final size:33
Alignment explanation
Indices: 437138--437463 Score: 150
Period size: 34 Copynumber: 9.9 Consensus size: 33
437128 TAGTGGCATC
* *
437138 TCTTTCCAAAGTCCACGACTCCGTGGCACCTCCT
1 TCTTTCCAAAGCCCACAACTCCGTGGCA-CTCCT
*
437172 TCTTTTCAAAGCCCACAACTCCGTGGCACTCCT
1 TCTTTCCAAAGCCCACAACTCCGTGGCACTCCT
*
437205 TC--T---AAGCCCACAACTCTGTGGCAC-CC-
1 TCTTTCCAAAGCCCACAACTCCGTGGCACTCCT
437231 T-TTT---AAGCCCACAACTCCGTGGCACT-CT
1 TCTTTCCAAAGCCCACAACTCCGTGGCACTCCT
* * * **
437259 T-TTTCCTTCTAAGTCCACAACTTCGTGGCTACCTTTT
1 TCTTT-C--CAAAGCCCACAACTCCGTGGC-A-CTCCT
** *
437296 TCTTT-TTAAGCCCACAACTCTGTGGCACT-CT
1 TCTTTCCAAAGCCCACAACTCCGTGGCACTCCT
* * * **
437327 T-TTTCCTTCTAAGTCCACAACTCCGTAGCACCTTTT
1 TCTTT-C--CAAAGCCCACAACTCCGTGGCA-CTCCT
** *
437363 TCTTTTTAAAGCCCACAACTCCATGGCACT-CT
1 TCTTTCCAAAGCCCACAACTCCGTGGCACTCCT
* * *
437395 T-TTTCCTTCTAAGTCCACAACTCCGTGGCACTCTTT
1 TCTTT-C--CAAAGCCCACAACTCCGTGGCACTC-CT
*
437431 TCCCCTTT-TAAAGCCCACAACTCCGTGGCACTC
1 T---CTTTCCAAAGCCCACAACTCCGTGGCACTC
437464 TTTGTTCCTT
Statistics
Matches: 228, Mismatches: 34, Indels: 58
0.71 0.11 0.18
Matches are distributed among these distances:
26 1 0.00
27 24 0.11
28 24 0.11
30 3 0.01
31 6 0.03
32 4 0.02
33 10 0.04
34 114 0.50
35 3 0.01
36 28 0.12
37 5 0.02
38 3 0.01
40 3 0.01
ACGTcount: A:0.20, C:0.36, G:0.12, T:0.32
Consensus pattern (33 bp):
TCTTTCCAAAGCCCACAACTCCGTGGCACTCCT
Found at i:437220 original size:28 final size:28
Alignment explanation
Indices: 437180--437257 Score: 131
Period size: 27 Copynumber: 2.8 Consensus size: 28
437170 CTTCTTTTCA
437180 AAGCCCACAACTCCGTGGCACTCCTTCT
1 AAGCCCACAACTCCGTGGCACTCCTTCT
* *
437208 AAGCCCACAACTCTGTGGCAC-CCTTTT
1 AAGCCCACAACTCCGTGGCACTCCTTCT
437235 AAGCCCACAACTCCGTGGCACTC
1 AAGCCCACAACTCCGTGGCACTC
437258 TTTTTCCTTC
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
27 25 0.54
28 21 0.46
ACGTcount: A:0.23, C:0.41, G:0.15, T:0.21
Consensus pattern (28 bp):
AAGCCCACAACTCCGTGGCACTCCTTCT
Found at i:437340 original size:68 final size:67
Alignment explanation
Indices: 437146--437481 Score: 408
Period size: 68 Copynumber: 5.1 Consensus size: 67
437136 TCTCTTTCCA
* ** *
437146 AAGTCCACGACTCCGTGGCACCTCCTTCTTTTCAAAGCCCACAACTCCGTGGCA--C----TCCT
1 AAGTCCACAACTCCGTGGCACCTTTTTCTTTT-TAAGCCCACAACTCCGTGGCACTCTTTTTCCT
437205 TCT
65 TCT
* *
437208 AAGCCCACAACTCTGTGGCACC-----C-TTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCTTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTT
437267 CT
66 CT
* *
437269 AAGTCCACAACTTCGTGGCTACCTTTTTCTTTTTAAGCCCACAACTCTGTGGCACTCTTTTTCCT
1 AAGTCCACAACTCCGTGGC-ACCTTTTTCTTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCT
437334 TCT
65 TCT
* *
437337 AAGTCCACAACTCCGTAGCACCTTTTTCTTTTTAAAGCCCACAACTCCATGGCACTCTTTTTCCT
1 AAGTCCACAACTCCGTGGCACCTTTTTCTTTTT-AAGCCCACAACTCCGTGGCACTCTTTTTCCT
437402 TCT
65 TCT
* *
437405 AAGTCCACAACTCCGTGGCACTCTTTTCCCCTTTTAAAGCCCACAACTCCGTGGCACTCTTTGTT
1 AAGTCCACAACTCCGTGGCAC-CTTTT--TCTTTTTAAGCCCACAACTCCGTGGCACTCTTT-TT
*
437470 CCTTTT
62 CCTTCT
437476 AAGTCC
1 AAGTCC
437482 TTAATGGCAT
Statistics
Matches: 239, Mismatches: 17, Indels: 27
0.84 0.06 0.10
Matches are distributed among these distances:
55 20 0.08
56 3 0.01
57 2 0.01
61 23 0.10
62 22 0.09
67 15 0.06
68 106 0.44
69 5 0.02
70 25 0.10
71 18 0.08
ACGTcount: A:0.20, C:0.35, G:0.12, T:0.33
Consensus pattern (67 bp):
AAGTCCACAACTCCGTGGCACCTTTTTCTTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTT
CT
Found at i:437399 original size:102 final size:101
Alignment explanation
Indices: 437150--437477 Score: 337
Period size: 102 Copynumber: 3.3 Consensus size: 101
437140 TTTCCAAAGT
* **
437150 CCACGACTCCGTGGCAC-CTCCTT-CTTTTCAAAGCCCACAACTCCGTGGCACTC-----CTTCT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTT-AAAGCCCACAACTCCGTGGCACTCTTTTTCTTCT
437208 AAGCCCACAACTCTGTGGCA--C----CCTTTTAAGC
65 AAGCCCACAACTCTGTGGCACTCTTTTCCTTTTAAGC
* * * *
437239 CCACAACTCCGTGGCACTCTTTTTCCTTCT-AAGTCCACAACTTCGTGGCTAC-CTTTTTCTTTT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAAGCCCACAACTCCGTGGC-ACTCTTTTTC-TTC
* *
437302 TAAGCCCACAACTCTGTGGCACTCTTTTTCCTTCTAAGT
64 TAAGCCCACAACTCTGTGGCACTC-TTTTCCTTTTAAGC
* * *
437341 CCACAACTCCGTAGCAC-CTTTTTCTTTTTAAAGCCCACAACTCCATGGCACTCTTTTTCCTTCT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT-CTTCT
* *
437405 AAGTCCACAACTCCGTGGCACTCTTTTCCCCTTTTAAAGC
65 AAGCCCACAACTCTGTGGCACTCTTTT--CCTTTT-AAGC
437445 CCACAACTCCGTGGCACTCTTTGTTCCTTTTAA
1 CCACAACTCCGTGGCACTCTTT-TTCCTTTTAA
437478 GTCCTTAATG
Statistics
Matches: 193, Mismatches: 22, Indels: 31
0.78 0.09 0.13
Matches are distributed among these distances:
89 34 0.18
90 6 0.03
91 4 0.02
94 1 0.01
95 23 0.12
97 1 0.01
101 16 0.08
102 70 0.36
103 6 0.03
104 19 0.10
105 4 0.02
106 9 0.05
ACGTcount: A:0.20, C:0.36, G:0.12, T:0.33
Consensus pattern (101 bp):
CCACAACTCCGTGGCACTCTTTTTCCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTTCTA
AGCCCACAACTCTGTGGCACTCTTTTCCTTTTAAGC
Found at i:437541 original size:23 final size:23
Alignment explanation
Indices: 437498--437543 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
437488 GCATCTTGTC
* *
437498 TCAAAGTCCACGACTTAGTGGCA
1 TCAAAGTCCACAACTCAGTGGCA
*
437521 TCAAAGTCCACAACTCCGTGGCA
1 TCAAAGTCCACAACTCAGTGGCA
437544 CTCTTGGTCC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (23 bp):
TCAAAGTCCACAACTCAGTGGCA
Found at i:437712 original size:33 final size:33
Alignment explanation
Indices: 437524--437704 Score: 195
Period size: 36 Copynumber: 5.4 Consensus size: 33
437514 AGTGGCATCA
*
437524 AAGTCCACAACTCCGTGGCACTCTTGGTCCCTTTT
1 AAGTCCACAACTCCGTGGCAC-CTT-GTTCCTTTT
*
437559 AAAGTCCACAACTCTGTGGCACCTTGTTCCTTTT
1 -AAGTCCACAACTCCGTGGCACCTTGTTCCTTTT
** * **
437593 AAGTCCATGACTCCGTGGCACCTTCTT--TTCA
1 AAGTCCACAACTCCGTGGCACCTTGTTCCTTTT
* * *
437624 AAGCCCACAACTCTGTGGCACTCTTTTTCCTTTTT
1 AAGTCCACAACTCCGTGGCAC-CTTGTTCC-TTTT
*
437659 CAAGCCCACAACTCCGTGGCACCTTGTTCCTTTT
1 -AAGTCCACAACTCCGTGGCACCTTGTTCCTTTT
437693 AAGTCCACAACT
1 AAGTCCACAACT
437705 TCATGGCATC
Statistics
Matches: 122, Mismatches: 18, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
31 19 0.16
32 5 0.04
33 34 0.28
34 12 0.10
35 12 0.10
36 40 0.33
ACGTcount: A:0.20, C:0.33, G:0.14, T:0.33
Consensus pattern (33 bp):
AAGTCCACAACTCCGTGGCACCTTGTTCCTTTT
Found at i:437712 original size:100 final size:100
Alignment explanation
Indices: 437521--437712 Score: 276
Period size: 100 Copynumber: 1.9 Consensus size: 100
437511 CTTAGTGGCA
* * *
437521 TCAAAGTCCACAACTCCGTGGCACTCTTGGTCCCTTTTAAAGTCCACAACTCTGTGGCACCTTGT
1 TCAAAGCCCACAACTCCGTGGCACTCTTGGTCCCTTTTAAAGCCCACAACTCCGTGGCACCTTGT
** *
437586 TCCTTTTAAGTCCATGACTCCGTGGCACCTTCTTT
66 TCCTTTTAAGTCCACAACTCCATGGCACCTTCTTT
* ** * *
437621 TCAAAGCCCACAACTCTGTGGCACTCTTTTTCCTTTTTCAAGCCCACAACTCCGTGGCACCTTGT
1 TCAAAGCCCACAACTCCGTGGCACTCTTGGTCCCTTTTAAAGCCCACAACTCCGTGGCACCTTGT
*
437686 TCCTTTTAAGTCCACAACTTCATGGCA
66 TCCTTTTAAGTCCACAACTCCATGGCA
437713 TCTTTCACCC
Statistics
Matches: 80, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
100 80 1.00
ACGTcount: A:0.20, C:0.33, G:0.15, T:0.32
Consensus pattern (100 bp):
TCAAAGCCCACAACTCCGTGGCACTCTTGGTCCCTTTTAAAGCCCACAACTCCGTGGCACCTTGT
TCCTTTTAAGTCCACAACTCCATGGCACCTTCTTT
Found at i:437755 original size:32 final size:32
Alignment explanation
Indices: 437719--437958 Score: 355
Period size: 32 Copynumber: 7.5 Consensus size: 32
437709 GGCATCTTTC
437719 ACCCTTTCTAAAGCCCACACAAGTCGGTGGCA
1 ACCCTTTCTAAAGCCCACACAAGTCGGTGGCA
437751 ACCC-TTCTCAAAGCCCACACAAGTCGGTGGCA
1 ACCCTTTCT-AAAGCCCACACAAGTCGGTGGCA
*
437783 ACCCTCTCTAAAGCCCACACAAGTCGGTGGCA
1 ACCCTTTCTAAAGCCCACACAAGTCGGTGGCA
437815 ACCC-TTCTCAAAGCCCACACAAGTCGGTGGCA
1 ACCCTTTCT-AAAGCCCACACAAGTCGGTGGCA
* *
437847 ACCCTCTCTAAAGCCCACATAAGTCGGTGGCA
1 ACCCTTTCTAAAGCCCACACAAGTCGGTGGCA
*
437879 A-CCTTTTTCAAAGCCCACACAAGTCGGTGGCA
1 ACCCTTTCT-AAAGCCCACACAAGTCGGTGGCA
* *
437911 ACCTTCTTCTAAAGCCCACACAAGTTGGTGGCA
1 ACCCT-TTCTAAAGCCCACACAAGTCGGTGGCA
437944 ACCC-TTCT-AAGCCCA
1 ACCCTTTCTAAAGCCCA
437959 ATATAGCTGG
Statistics
Matches: 190, Mismatches: 11, Indels: 16
0.88 0.05 0.07
Matches are distributed among these distances:
30 7 0.04
31 16 0.08
32 131 0.69
33 33 0.17
34 3 0.02
ACGTcount: A:0.28, C:0.35, G:0.18, T:0.19
Consensus pattern (32 bp):
ACCCTTTCTAAAGCCCACACAAGTCGGTGGCA
Found at i:437794 original size:64 final size:64
Alignment explanation
Indices: 437719--437958 Score: 403
Period size: 64 Copynumber: 3.8 Consensus size: 64
437709 GGCATCTTTC
*
437719 ACCCTTTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTCAAAGCCCACACAAGTCGGTGGCA
1 ACCCTCTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTCAAAGCCCACACAAGTCGGTGGCA
437783 ACCCTCTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTCAAAGCCCACACAAGTCGGTGGCA
1 ACCCTCTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTCAAAGCCCACACAAGTCGGTGGCA
* * *
437847 ACCCTCTCTAAAGCCCACATAAGTCGGTGGCAACCTTTTTCAAAGCCCACACAAGTCGGTGGCA
1 ACCCTCTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTCAAAGCCCACACAAGTCGGTGGCA
* *
437911 ACCTTCTTCTAAAGCCCACACAAGTTGGTGGCAACCCTTCT--AAGCCCA
1 ACCCTC-TCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTCAAAGCCCA
437959 ATATAGCTGG
Statistics
Matches: 166, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
63 7 0.04
64 129 0.78
65 30 0.18
ACGTcount: A:0.28, C:0.35, G:0.18, T:0.19
Consensus pattern (64 bp):
ACCCTCTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTCAAAGCCCACACAAGTCGGTGGCA
Found at i:438045 original size:43 final size:43
Alignment explanation
Indices: 437997--438362 Score: 437
Period size: 43 Copynumber: 8.1 Consensus size: 43
437987 GCACCTTCAT
*
437997 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* *
438040 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----C
*
438087 ATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* * *
438132 CTTTAAGTACAATATCA-CTGGCCTTGAATTAGCATATTGGCATCTTC
1 CTTTAAGTCCAATAT-AGCTGGCCTTGAATCAGCACATTGGCA----C
*
438179 ATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* * *
438224 CTTTAAGTCCAATATCGCAGGCCTTGAATCAGCATATTGGCACC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-C
*
438268 TTCTTCCTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 --C-T--TTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
*
438316 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
438359 CTTT
1 CTTT
438363 TCCATCTTTA
Statistics
Matches: 279, Mismatches: 24, Indels: 40
0.81 0.07 0.12
Matches are distributed among these distances:
43 156 0.56
44 2 0.01
45 3 0.01
46 2 0.01
47 3 0.01
48 2 0.01
49 111 0.40
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (43 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:438113 original size:92 final size:92
Alignment explanation
Indices: 437946--438406 Score: 742
Period size: 92 Copynumber: 5.0 Consensus size: 92
437936 TGGTGGCAAC
* * * *
437946 CCTTCTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTAGCACCTTCATCTTTAAGTCCAATG
1 CCTT-TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATG
438011 TAGCTGGCCTTGAATCAGCACATTGGCA
65 TAGCTGGCCTTGAATCAGCACATTGGCA
438039 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
438104 AGCTGGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* * *
438131 CCTTTAAGTACAATATCACTGGCCTTGAATTAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
438196 AGCTGGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* * * *
438223 CCTTTAAGTCCAATATCGCAGGCCTTGAATCAGCATATTGGCACCTTCTTCCTTAAGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
438288 AGCTGGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* * *
438315 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAA
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA--TCTT-CATCTTTAAGTCCAA
* *
438380 TGTAGCTAGCCTTAAATCAGCACATTG
63 TGTAGCTGGCCTTGAATCAGCACATTG
438407 ACATCTTTTT
Statistics
Matches: 342, Mismatches: 23, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
92 299 0.87
93 4 0.01
94 2 0.01
95 37 0.11
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.31
Consensus pattern (92 bp):
CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
AGCTGGCCTTGAATCAGCACATTGGCA
Found at i:438226 original size:21 final size:20
Alignment explanation
Indices: 438202--438269 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 20
438192 ATGTAGCTGG
438202 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAGCA-ATTGGCA
* *
438223 CCTTTAAGTC--CAATATCGCA
1 CCTTGAA-TCAGCAAT-TGGCA
438243 GGCCTTGAATCAGCATATTGGCA
1 --CCTTGAATCAGCA-ATTGGCA
438266 CCTT
1 CCTT
438270 CTTCCTTAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 14
0.67 0.07 0.26
Matches are distributed among these distances:
19 2 0.06
20 6 0.17
21 12 0.33
22 8 0.22
23 6 0.17
24 2 0.06
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (20 bp):
CCTTGAATCAGCAATTGGCA
Found at i:438398 original size:52 final size:55
Alignment explanation
Indices: 438316--438655 Score: 155
Period size: 52 Copynumber: 6.1 Consensus size: 55
438306 ACATTGGCAC
* * * *
438316 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-C-CTTTTC-CAT
1 CTTTAAGTCCAATATAGCTAGCCTTAAATCAGCACATTGACATCTCTTTTCTCAT
* * *
438368 CTTTAAGTTCAATGTAGCTAGCCTTAAATCAGCACATTGACATCTTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTAGCCTTAAATCAGCACATTGACATCTCTTTTCTCAT
* * * * * * * * *
438423 CTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCACTTTTCTCATCTTC
1 CTTTAAGTCCAATATAGCTAGCCTTAAATCAGCACATT-G-A-C---AT--CTCTT-T--TC-TC
438488 AT
54 AT
* * * *
438490 CTTTAAGTCCAATATTGCTAGCCTTGAATCAGCATATTGGCA-C-C--TTCATCAT
1 CTTTAAGTCCAATATAGCTAGCCTTAAATCAGCACATTGACATCTCTTTTC-TCAT
** * * * * * *
438542 CTTTAAAACCCAATGTTGTTGGCCTTGAATCAGCACATTGGCA--T-TTTTCTCAT
1 CTTT-AAGTCCAATATAGCTAGCCTTAAATCAGCACATTGACATCTCTTTTCTCAT
* * * * *
438595 CTTCAAGTCTAATGTCGCT-GACCTTGAATCAGCACATTGACATC-CTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTAG-CCTTAAATCAGCACATTGACATCTC-TTTTCTCAT
438650 CTTTAA
1 CTTTAA
438656 ACCCAATAGC
Statistics
Matches: 224, Mismatches: 40, Indels: 45
0.72 0.13 0.15
Matches are distributed among these distances:
51 1 0.00
52 76 0.34
53 40 0.18
54 9 0.04
55 45 0.20
56 1 0.00
57 1 0.00
58 2 0.01
61 3 0.01
63 5 0.02
64 2 0.01
66 3 0.01
67 36 0.16
ACGTcount: A:0.25, C:0.24, G:0.13, T:0.37
Consensus pattern (55 bp):
CTTTAAGTCCAATATAGCTAGCCTTAAATCAGCACATTGACATCTCTTTTCTCAT
Found at i:438527 original size:67 final size:68
Alignment explanation
Indices: 438419--438545 Score: 175
Period size: 67 Copynumber: 1.9 Consensus size: 68
438409 ATCTTTTTTC
* * * *
438419 TCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCA-CTTTTCTCA
1 TCATCTTTAAGCCCAATATCGCTAGCCGTGAATCAACATATTGGCACCTTCATCATCTTTTCTCA
438483 TCT
66 TCT
* * * *
438486 TCATCTTTAAGTCCAATATTGCTAGCCTTGAATCAGCATATTGGCACCTTCATCATCTTT
1 TCATCTTTAAGCCCAATATCGCTAGCCGTGAATCAACATATTGGCACCTTCATCATCTTT
438546 AAAACCCAAT
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
67 47 0.92
68 4 0.08
ACGTcount: A:0.24, C:0.25, G:0.12, T:0.39
Consensus pattern (68 bp):
TCATCTTTAAGCCCAATATCGCTAGCCGTGAATCAACATATTGGCACCTTCATCATCTTTTCTCA
TCT
Found at i:438595 original size:53 final size:52
Alignment explanation
Indices: 438486--438662 Score: 158
Period size: 52 Copynumber: 3.3 Consensus size: 52
438476 TTTCTCATCT
** * * * * **
438486 TCATCTTTAAGTCCAATATTGCTAGCCTTGAATCAGCATATTGGCA-CCTTC
1 TCATCTTTAAACCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATTTTTC
* *
438537 ATCATCTTTAAAACCCAATGTTGTTGGCCTTGAATCAGCACATTGGCATTTTTC
1 -TCATCTTT-AAACCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATTTTTC
* ** * * *
438591 TCATCTTCAAGTCTAATGTCGCTGACCTTGAATCAGCACATTGACATCCTTTTTC
1 TCATCTTTAAACCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA---TTTTTC
438646 TCATCTTTAAACCCAAT
1 TCATCTTTAAACCCAAT
438663 AGCATTGGCC
Statistics
Matches: 100, Mismatches: 20, Indels: 7
0.79 0.16 0.06
Matches are distributed among these distances:
52 39 0.39
53 39 0.39
54 3 0.03
55 19 0.19
ACGTcount: A:0.26, C:0.25, G:0.12, T:0.36
Consensus pattern (52 bp):
TCATCTTTAAACCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATTTTTC
Found at i:439315 original size:13 final size:13
Alignment explanation
Indices: 439297--439321 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
439287 CATAAAGTGT
439297 TGTATCGATACAA
1 TGTATCGATACAA
439310 TGTATCGATACA
1 TGTATCGATACA
439322 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:439402 original size:13 final size:13
Alignment explanation
Indices: 439384--439408 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
439374 ATTACTCAAA
439384 TGTATCGATACAT
1 TGTATCGATACAT
439397 TGTATCGATACA
1 TGTATCGATACA
439409 CTAATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:439473 original size:52 final size:52
Alignment explanation
Indices: 439417--439545 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
439407 CACTAATCTT
*
439417 TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATAAAA
* *
439469 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATAAAA
*
439521 TGTATCGATACATGCAGGTAAATTT
1 TGTATCGATACATGCAGGCAAATTT
439546 TCATATTTCG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATAAAA
Found at i:440425 original size:21 final size:22
Alignment explanation
Indices: 440391--440431 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
440381 TCATGTTAAC
440391 AGCTCATGATTCATGCATTTTG
1 AGCTCATGATTCATGCATTTTG
*
440413 AGCT-ATGTTTCATGCATTT
1 AGCTCATGATTCATGCATTT
440432 ACAGCATGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.22, C:0.17, G:0.17, T:0.44
Consensus pattern (22 bp):
AGCTCATGATTCATGCATTTTG
Found at i:450707 original size:10 final size:10
Alignment explanation
Indices: 450689--450736 Score: 53
Period size: 10 Copynumber: 4.6 Consensus size: 10
450679 TAGTACAAGA
450689 TTTTT-AATT
1 TTTTTAAATT
450698 TTTTTAAATTT
1 TTTTTAAA-TT
*
450709 TGTTTTTAATT
1 T-TTTTAAATT
450720 TTTTTAAATT
1 TTTTTAAATT
450730 TTGTTTA
1 TT-TTTA
450737 TTTAAATTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
9 5 0.15
10 12 0.36
11 10 0.30
12 6 0.18
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.73
Consensus pattern (10 bp):
TTTTTAAATT
Found at i:450717 original size:22 final size:22
Alignment explanation
Indices: 450689--450735 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
450679 TAGTACAAGA
450689 TTTTTAATTTTTTTAAATTTTG
1 TTTTTAATTTTTTTAAATTTTG
450711 TTTTTAATTTTTTTAAATTTTG
1 TTTTTAATTTTTTTAAATTTTG
450733 TTT
1 TTT
450736 ATTTAAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.21, C:0.00, G:0.04, T:0.74
Consensus pattern (22 bp):
TTTTTAATTTTTTTAAATTTTG
Found at i:450746 original size:22 final size:21
Alignment explanation
Indices: 450689--450749 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 21
450679 TAGTACAAGA
*
450689 TTTTTAATTTTTTTAAATTTTG
1 TTTTTAA-TATTTTAAATTTTG
*
450711 TTTTTAATTTTTTTAAATTTTG
1 TTTTTAA-TATTTTAAATTTTG
450733 TTTATTTAA-ATTTTAAA
1 -TT-TTTAATATTTTAAA
450750 ATCCATTTCT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
22 29 0.81
23 2 0.06
24 5 0.14
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (21 bp):
TTTTTAATATTTTAAATTTTG
Found at i:451023 original size:2 final size:2
Alignment explanation
Indices: 451018--451058 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
451008 ATATGTTTAA
451018 AT AT AT AT AT 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 AT AT AT AT AT A
451059 CATGAATGGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:451690 original size:2 final size:2
Alignment explanation
Indices: 451683--451714 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
451673 AATTTATGTG
451683 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
451715 ATGGTATGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:451997 original size:16 final size:16
Alignment explanation
Indices: 451958--451997 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
451948 TATGCACTTA
*
451958 AATAATTATAATATAT
1 AATAATTATAATAAAT
*
451974 AGTAATTATAATAAAT
1 AATAATTATAATAAAT
*
451990 AATTATTA
1 AATAATTA
451998 AAAAGGAAAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (16 bp):
AATAATTATAATAAAT
Found at i:452261 original size:7 final size:7
Alignment explanation
Indices: 452251--452316 Score: 60
Period size: 7 Copynumber: 9.0 Consensus size: 7
452241 CAATTAGATA
452251 ATATAAT
1 ATATAAT
*
452258 ATATTAT
1 ATATAAT
* * *
452265 TTGTATT
1 ATATAAT
452272 ATATAAT
1 ATATAAT
452279 ATTATATTAT
1 A-TATA--AT
*
452289 ATATATT
1 ATATAAT
452296 ATATAAT
1 ATATAAT
452303 ATATAAT
1 ATATAAT
452310 ATATAAT
1 ATATAAT
452317 TATTTTTATA
Statistics
Matches: 46, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
7 35 0.76
8 4 0.09
9 4 0.09
10 3 0.07
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (7 bp):
ATATAAT
Found at i:452278 original size:26 final size:25
Alignment explanation
Indices: 452243--452319 Score: 90
Period size: 24 Copynumber: 3.2 Consensus size: 25
452233 ATAATTTACA
* * *
452243 ATTAGATAATATAATATATTATTTGT
1 ATTATATAATAT-ATATATTATATAT
452269 ATTATATAATAT-TATATTATATAT
1 ATTATATAATATATATATTATATAT
452293 ATTATATAATATATA-A-TATATA-
1 ATTATATAATATATATATTATATAT
452315 ATTAT
1 ATTAT
452320 TTTTATAGAA
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
22 5 0.11
23 6 0.13
24 23 0.49
25 2 0.04
26 11 0.23
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.51
Consensus pattern (25 bp):
ATTATATAATATATATATTATATAT
Found at i:452326 original size:26 final size:26
Alignment explanation
Indices: 452214--452347 Score: 73
Period size: 26 Copynumber: 5.1 Consensus size: 26
452204 TTAATTTTAT
*
452214 TTTATATAATATA-AATA-A-AATAA
1 TTTATATAATATATAATATATAATTA
* * *
452237 TTTACA-ATTAGATAATATAATATATTA
1 TTTATATAATATATAATAT-ATA-ATTA
* * * *
452264 TTTGTATTATATAATATTATATTATATA
1 TTTATATAATAT-ATAATATATAAT-TA
452292 TATTATATAATATATAATATATAATTA
1 T-TTATATAATATATAATATATAATTA
* *
452319 TTTTTATAGA-ATA-ATATAAATAATTA
1 TTTATATA-ATATATA-ATATATAATTA
452345 TTT
1 TTT
452348 GTTAAAACCC
Statistics
Matches: 83, Mismatches: 17, Indels: 19
0.70 0.14 0.16
Matches are distributed among these distances:
22 4 0.05
23 9 0.11
25 2 0.02
26 23 0.28
27 13 0.16
28 17 0.20
29 15 0.18
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.49
Consensus pattern (26 bp):
TTTATATAATATATAATATATAATTA
Found at i:453020 original size:41 final size:41
Alignment explanation
Indices: 452975--453054 Score: 135
Period size: 41 Copynumber: 2.0 Consensus size: 41
452965 TTTGACTTTG
452975 GTTAGAATAATATC-ATATATTTGAATTGTTATTCAAATATA
1 GTTAGAATAATATCGA-ATATTTGAATTGTTATTCAAATATA
*
453016 GTTAGAATAGTATCGAATATTTGAATTGTTATTCAAATA
1 GTTAGAATAATATCGAATATTTGAATTGTTATTCAAATA
453055 CACTTTATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
41 36 0.97
42 1 0.03
ACGTcount: A:0.40, C:0.05, G:0.12, T:0.42
Consensus pattern (41 bp):
GTTAGAATAATATCGAATATTTGAATTGTTATTCAAATATA
Found at i:454015 original size:22 final size:21
Alignment explanation
Indices: 453983--454036 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
453973 AATTTTGTAG
*
453983 TTTT-AAAATAAT-TTTTAATT
1 TTTTAAAAATAATATATTAA-T
454003 TTGTTAAAAATAATATATTAAT
1 TT-TTAAAAATAATATATTAAT
454025 TTTTAAAAATAA
1 TTTTAAAAATAA
454037 AATTTGAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
20 2 0.07
21 12 0.40
22 11 0.37
23 5 0.17
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (21 bp):
TTTTAAAAATAATATATTAAT
Found at i:454774 original size:29 final size:28
Alignment explanation
Indices: 454721--454786 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 28
454711 AAAGTTTTAA
454721 AATAATTTTACTTATTATTATTTAATAT
1 AATAATTTTACTTATTATTATTTAATAT
** *
454749 TTTAATTTTCACTTA-TATTTTATTAATAT
1 AATAATTTT-ACTTATTATTAT-TTAATAT
454778 AATAATTTT
1 AATAATTTT
454787 TTAATTTAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
28 12 0.39
29 19 0.61
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (28 bp):
AATAATTTTACTTATTATTATTTAATAT
Found at i:454796 original size:16 final size:17
Alignment explanation
Indices: 454765--454799 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
454755 TTTCACTTAT
454765 ATTTTATTAATATAATA
1 ATTTTATTAATATAATA
*
454782 ATTTT-TTAATTTAATA
1 ATTTTATTAATATAATA
454798 AT
1 AT
454800 ACAGAAGACC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
ATTTTATTAATATAATA
Found at i:454964 original size:19 final size:20
Alignment explanation
Indices: 454942--454983 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
454932 AATAAAAAAA
454942 TAATACAT--AAATATATAAG
1 TAATACATCAAAATATAT-AG
*
454961 TAATGCATCAAAATATATAG
1 TAATACATCAAAATATATAG
454981 TAA
1 TAA
454984 ATTATTAGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 7 0.35
20 5 0.25
21 8 0.40
ACGTcount: A:0.55, C:0.07, G:0.07, T:0.31
Consensus pattern (20 bp):
TAATACATCAAAATATATAG
Found at i:458482 original size:74 final size:74
Alignment explanation
Indices: 458397--458546 Score: 291
Period size: 74 Copynumber: 2.0 Consensus size: 74
458387 TGGTCATGTC
*
458397 AAGGTTGTGCTTGACATTTAATCTAGTGGGACTGTAGCTGCCAAGTAATCTGTTTTGCTGTTTGC
1 AAGGTTGTGCTTGACATTTAATCTAGTGGGACTGTAGCGGCCAAGTAATCTGTTTTGCTGTTTGC
458462 AATCACTGT
66 AATCACTGT
458471 AAGGTTGTGCTTGACATTTAATCTAGTGGGACTGTAGCGGCCAAGTAATCTGTTTTGCTGTTTGC
1 AAGGTTGTGCTTGACATTTAATCTAGTGGGACTGTAGCGGCCAAGTAATCTGTTTTGCTGTTTGC
458536 AATCACTGT
66 AATCACTGT
458545 AA
1 AA
458547 CCATCAATGG
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 75 1.00
ACGTcount: A:0.23, C:0.16, G:0.25, T:0.37
Consensus pattern (74 bp):
AAGGTTGTGCTTGACATTTAATCTAGTGGGACTGTAGCGGCCAAGTAATCTGTTTTGCTGTTTGC
AATCACTGT
Found at i:461390 original size:3 final size:3
Alignment explanation
Indices: 461378--461408 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
461368 TTTCAATCTC
461378 TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
461409 AATAATAGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:462400 original size:20 final size:20
Alignment explanation
Indices: 462375--462421 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
462365 ATTTGGCTGT
*
462375 AATTGTGATTAAGTTTGTCA
1 AATTGTCATTAAGTTTGTCA
*
462395 AATTGTCCTTAAGTTTGTCA
1 AATTGTCATTAAGTTTGTCA
462415 AATTGTC
1 AATTGTC
462422 CTTATTGTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.28, C:0.11, G:0.17, T:0.45
Consensus pattern (20 bp):
AATTGTCATTAAGTTTGTCA
Found at i:462422 original size:20 final size:20
Alignment explanation
Indices: 462383--462425 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
462373 GTAATTGTGA
462383 TTAAGTTTGTCAAATTGTCC
1 TTAAGTTTGTCAAATTGTCC
462403 TTAAGTTTGTCAAATTGTCC
1 TTAAGTTTGTCAAATTGTCC
462423 TTA
1 TTA
462426 TTGTTAAGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.26, C:0.14, G:0.14, T:0.47
Consensus pattern (20 bp):
TTAAGTTTGTCAAATTGTCC
Found at i:465849 original size:16 final size:17
Alignment explanation
Indices: 465810--465850 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
465800 GAATGTTGTA
465810 TTAT-TTTTTTAATTAT
1 TTATATTTTTTAATTAT
* *
465826 TTAAATTTTTTAA-TCT
1 TTATATTTTTTAATTAT
465842 TTATATTTT
1 TTATATTTT
465851 GATTTAAAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (17 bp):
TTATATTTTTTAATTAT
Found at i:466373 original size:16 final size:16
Alignment explanation
Indices: 466354--466399 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
466344 TCAAATCATA
466354 TTAATTTTAAATTTTT
1 TTAATTTTAAATTTTT
** *
466370 TTAAAATTAAAATTTT
1 TTAATTTTAAATTTTT
*
466386 TTAATTTAAAATTT
1 TTAATTTTAAATTT
466400 AAAATTAATT
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TTAATTTTAAATTTTT
Found at i:468202 original size:42 final size:42
Alignment explanation
Indices: 468141--468259 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
468131 TAGCCCTCAA
* *
468141 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
* *
468183 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGACATG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
*
468225 AGAGATAATAGAGAGAGGAGGGATGATAGGAGGAG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAG
468260 GAGAGAAGAA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.43, C:0.02, G:0.45, T:0.10
Consensus pattern (42 bp):
AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
Found at i:473477 original size:17 final size:19
Alignment explanation
Indices: 473442--473482 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
473432 TTATGACATG
*
473442 ATAAAAAATATGTATTTAA
1 ATAAAAAATATGCATTTAA
473461 ATAAAAAATAT-CA-TTAA
1 ATAAAAAATATGCATTTAA
473478 ATAAA
1 ATAAA
473483 TCGTTCATCC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 9 0.43
18 1 0.05
19 11 0.52
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.32
Consensus pattern (19 bp):
ATAAAAAATATGCATTTAA
Found at i:476674 original size:20 final size:20
Alignment explanation
Indices: 476597--476675 Score: 95
Period size: 20 Copynumber: 3.9 Consensus size: 20
476587 TAAAAGTCAG
*
476597 AATGTATCGATACAGTTAAAA
1 AATGTATCGATACA-TTTAAA
*
476618 AATGTATCGATACATTGAAA
1 AATGTATCGATACATTTAAA
* *
476638 AATATATCGATACATTTACA
1 AATGTATCGATACATTTAAA
* *
476658 CATGTATCAATACATTTA
1 AATGTATCGATACATTTA
476676 TTGTTCAATT
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
20 37 0.73
21 14 0.27
ACGTcount: A:0.44, C:0.13, G:0.10, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTTAAA
Found at i:476755 original size:19 final size:18
Alignment explanation
Indices: 476731--476767 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
476721 TGAAACCTTG
*
476731 TATCGATATATTTGAGATA
1 TATCGATACATTT-AGATA
476750 TATCGATACATTTAGATA
1 TATCGATACATTTAGATA
476768 AAAATGTAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.38, C:0.08, G:0.14, T:0.41
Consensus pattern (18 bp):
TATCGATACATTTAGATA
Found at i:483217 original size:78 final size:78
Alignment explanation
Indices: 483124--483303 Score: 206
Period size: 78 Copynumber: 2.3 Consensus size: 78
483114 TCCAGCCTCA
* * * * * * *
483124 TTATTTTTGAAGGGATACTCTAGCCCCTTTTTATTTCCAAAAATATT-GATTTTTCATCTTGGGA
1 TTATTTTTGAAGGGATACTCCAACCCCGTTTTATTT-CAAAAATATTAAAATTTGCATCTCGGGA
483188 ATACTCCAACCCTG
65 ATACTCCAACCCTG
* *
483202 TTATTTTT-AAGGGGATACTCCAACCCCGTTTTATTTTAAAAATATTAAAATTTGCATCTCGGGG
1 TTATTTTTGAA-GGGATACTCCAACCCCGTTTTATTTCAAAAATATTAAAATTTGCATCTCGGGA
*
483266 ATACTCCAACCCCG
65 ATACTCCAACCCTG
* *
483280 -TA-TTCTGAGGGGATACTCCAACCC
1 TTATTTTTGAAGGGATACTCCAACCC
483304 TGCCTCTTTT
Statistics
Matches: 87, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
76 18 0.21
77 14 0.16
78 55 0.63
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.36
Consensus pattern (78 bp):
TTATTTTTGAAGGGATACTCCAACCCCGTTTTATTTCAAAAATATTAAAATTTGCATCTCGGGAA
TACTCCAACCCTG
Found at i:493211 original size:167 final size:169
Alignment explanation
Indices: 492950--493360 Score: 501
Period size: 167 Copynumber: 2.4 Consensus size: 169
492940 GAATGCCTCA
* * * * *
492950 TATTTTTGAAATACGAAGTTTTCTACTTCGTAAA-TATTTTCGAGAGGATTTTTCTTGGTTTTTA
1 TATTTTCGAAATATGGAGTTTTCTACTCCATAAATTATTTTCGAGAGGATTTTTCTTGGTTTTTA
*
493014 ATTTTTAAAATTCATAAAATATTATTATTTAATTCATATTAAATC-AGTTTTCAAAAATTCATTT
66 ATTTTTAAAATTCATAAAATATTATTATTTAATACATATTAAATCTAGTTTTCAAAAATTCATTT
* * *
493078 ATTTTCTTAAGTTTTGAA-TTTTTTGTTTGAAATTCTCT
131 ATTTTCATAAGTTTTGAATTTTTTTCTTTGAAATTCTCC
* * *
493116 TATTTTCGAAATATGGAGTTTTCTACTCCATAAATTCTTTTC-AGGAGGGTTTTTTTTGGTTTTT
1 TATTTTCGAAATATGGAGTTTTCTACTCCATAAATTATTTTCGA-GAGGATTTTTCTTGGTTTTT
* * **
493180 AATTTTTAAAATTCATCAAATATTGTTATTTAATACATATTAAATCTTTTTTTTTTCAAAAATTC
65 AATTTTTAAAATTCATAAAATATTATTATTTAATACATATTAAATC---TAGTTTTCAAAAATTC
* *
493245 ATTTATTTTCATGAGTTTTGAATTTTTTTCTTTGAAATTTTCC
127 ATTTATTTTCATAAGTTTTGAATTTTTTTCTTTGAAATTCTCC
* * * * * * **
493288 TATTTTCAAAAAATCGAGTTTTCTATTCCATAAA-TATTTTCG-GGGAGATTTTTCTTAGTTTAA
1 TATTTTCGAAATATGGAGTTTTCTACTCCATAAATTATTTTCGAGAG-GATTTTTCTTGGTTTTT
493351 AATTTTTAAA
65 AATTTTTAAA
493361 TCTCATCGTA
Statistics
Matches: 207, Mismatches: 29, Indels: 13
0.83 0.12 0.05
Matches are distributed among these distances:
166 30 0.14
167 67 0.32
170 2 0.01
171 61 0.29
172 47 0.23
ACGTcount: A:0.30, C:0.09, G:0.09, T:0.52
Consensus pattern (169 bp):
TATTTTCGAAATATGGAGTTTTCTACTCCATAAATTATTTTCGAGAGGATTTTTCTTGGTTTTTA
ATTTTTAAAATTCATAAAATATTATTATTTAATACATATTAAATCTAGTTTTCAAAAATTCATTT
ATTTTCATAAGTTTTGAATTTTTTTCTTTGAAATTCTCC
Found at i:493929 original size:7 final size:7
Alignment explanation
Indices: 493917--493970 Score: 56
Period size: 8 Copynumber: 7.1 Consensus size: 7
493907 GAAAATGGAG
493917 AAAAGAA
1 AAAAGAA
493924 AAAAGAA
1 AAAAGAA
493931 AAAA-AA
1 AAAAGAA
493937 AAGAAGAA
1 AA-AAGAA
493945 AGAAAGAA
1 A-AAAGAA
493953 AATAAGGAA
1 AA-AA-GAA
493962 AAATAGAA
1 AAA-AGAA
493970 A
1 A
493971 GAAAAAGCTT
Statistics
Matches: 41, Mismatches: 0, Indels: 11
0.79 0.00 0.21
Matches are distributed among these distances:
6 4 0.10
7 14 0.34
8 16 0.39
9 7 0.17
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.04
Consensus pattern (7 bp):
AAAAGAA
Found at i:493938 original size:11 final size:11
Alignment explanation
Indices: 493915--493954 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
493905 AGGAAAATGG
493915 AGAAAAGAAAAA
1 AGAAAA-AAAAA
493927 AGAAAAAAAAA
1 AGAAAAAAAAA
* *
493938 AGAAGAAAGAA
1 AGAAAAAAAAA
493949 AGAAAA
1 AGAAAA
493955 TAAGGAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
11 19 0.76
12 6 0.24
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.00
Consensus pattern (11 bp):
AGAAAAAAAAA
Found at i:493963 original size:25 final size:21
Alignment explanation
Indices: 493917--493974 Score: 64
Period size: 25 Copynumber: 2.6 Consensus size: 21
493907 GAAAATGGAG
493917 AAAAGAAA-AAAGAAAAAAAA
1 AAAAGAAAGAAAGAAAAAAAA
493937 AAGAAGAAAGAAAGAAAATAAGGAA
1 AA-AAGAAAGAAAGAAAA-AA--AA
493962 AAATAGAAAGAAA
1 AAA-AGAAAGAAA
493975 AAGCTTGAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
20 2 0.06
21 6 0.19
22 8 0.25
23 2 0.06
24 1 0.03
25 13 0.41
ACGTcount: A:0.79, C:0.00, G:0.17, T:0.03
Consensus pattern (21 bp):
AAAAGAAAGAAAGAAAAAAAA
Found at i:493969 original size:21 final size:19
Alignment explanation
Indices: 493917--493976 Score: 77
Period size: 18 Copynumber: 3.1 Consensus size: 19
493907 GAAAATGGAG
493917 AAAAGAAAAAAGAAA-AAA
1 AAAAGAAAAAAGAAAGAAA
*
493935 AAAAGAAGAAAGAAAGAAA
1 AAAAGAAAAAAGAAAGAAA
*
493954 ATAAGGAAAAATAGAAAGAAA
1 A-AAAGAAAAA-AGAAAGAAA
493975 AA
1 AA
493977 GCTTGAGATC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
18 14 0.39
19 4 0.11
20 8 0.22
21 10 0.28
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (19 bp):
AAAAGAAAAAAGAAAGAAA
Found at i:494225 original size:30 final size:30
Alignment explanation
Indices: 494191--494260 Score: 124
Period size: 30 Copynumber: 2.3 Consensus size: 30
494181 TGGCCGAACC
494191 TGTTT-GGGTGTGTGATATGGCTTGGATTGG
1 TGTTTAGGG-GTGTGATATGGCTTGGATTGG
494221 TGTTTAGGGGTGTGATATGGCTTGGATTGG
1 TGTTTAGGGGTGTGATATGGCTTGGATTGG
494251 TGTTTAGGGG
1 TGTTTAGGGG
494261 CTATGTTATG
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
30 36 0.92
31 3 0.08
ACGTcount: A:0.11, C:0.03, G:0.44, T:0.41
Consensus pattern (30 bp):
TGTTTAGGGGTGTGATATGGCTTGGATTGG
Found at i:498957 original size:52 final size:52
Alignment explanation
Indices: 498808--498932 Score: 232
Period size: 52 Copynumber: 2.4 Consensus size: 52
498798 CGAAATATGA
*
498808 AAATTTGCCTACATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
*
498860 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
498912 AAATTTGCCTGCATGTATCGA
1 AAATTTGCCTGCATGTATCGA
498933 CACAAAGATC
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
Found at i:499004 original size:28 final size:28
Alignment explanation
Indices: 498969--499066 Score: 142
Period size: 28 Copynumber: 3.5 Consensus size: 28
498959 CACCCTTTTC
498969 AAAAGCCCACAAGTCAGTGGCAACCTTT
1 AAAAGCCCACAAGTCAGTGGCAACCTTT
* * *
498997 AAAAGCCCACAAGTCACTAGCAATCTTT
1 AAAAGCCCACAAGTCAGTGGCAACCTTT
* *
499025 AAAAGCCCACAAGTTAGTGGCAACCTTC
1 AAAAGCCCACAAGTCAGTGGCAACCTTT
*
499053 AAAAGCACACAAGT
1 AAAAGCCCACAAGT
499067 TGATGCAAAC
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 61 1.00
ACGTcount: A:0.40, C:0.28, G:0.15, T:0.17
Consensus pattern (28 bp):
AAAAGCCCACAAGTCAGTGGCAACCTTT
Found at i:499077 original size:28 final size:29
Alignment explanation
Indices: 498965--499087 Score: 121
Period size: 28 Copynumber: 4.3 Consensus size: 29
498955 CATGCACCCT
* *
498965 TTTCAAAAGCCCACAAGTCAGTGGCAACC
1 TTTCAAAAGCACACAAGTTAGTGGCAACC
* * * * *
498994 TTT-AAAAGCCCACAAGTCACTAGCAATC
1 TTTCAAAAGCACACAAGTTAGTGGCAACC
*
499022 TTT-AAAAGCCCACAAGTTAGTGGCAACC
1 TTTCAAAAGCACACAAGTTAGTGGCAACC
499050 -TTCAAAAGCACACAAGTT-GAT-GCAAACC
1 TTTCAAAAGCACACAAGTTAG-TGGC-AACC
499078 TTTCAAAAGC
1 TTTCAAAAGC
499088 CCGCACAAGT
Statistics
Matches: 82, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
27 5 0.06
28 65 0.79
29 12 0.15
ACGTcount: A:0.38, C:0.27, G:0.15, T:0.20
Consensus pattern (29 bp):
TTTCAAAAGCACACAAGTTAGTGGCAACC
Found at i:499183 original size:48 final size:48
Alignment explanation
Indices: 499112--499389 Score: 325
Period size: 48 Copynumber: 5.8 Consensus size: 48
499102 GGCGTCTCCT
* * *
499112 TTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTGTC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTATC
* * * *
499160 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGTACCTCACC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTATC
* *
499208 TTTAAGTCCAATATCA-CTGGCCTTAAATCAGCATATTGGCACCTTCATC
1 TTTAAGTCCAATAT-AGCTGGCCTTGAATCAGCACATTGGCACCTT-ATC
* * *
499257 TTTAAGTCCAATGTAGCTGACATTGAATCAGCACATTGGCA-C----C
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTATC
*
499300 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT--ATC
* *
499352 TTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTG
499390 ACATCCTTTT
Statistics
Matches: 193, Mismatches: 25, Indels: 20
0.81 0.11 0.08
Matches are distributed among these distances:
43 38 0.20
44 1 0.01
48 81 0.42
49 37 0.19
52 36 0.19
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (48 bp):
TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTATC
Found at i:499317 original size:43 final size:43
Alignment explanation
Indices: 499256--499345 Score: 144
Period size: 43 Copynumber: 2.1 Consensus size: 43
499246 GCACCTTCAT
*
499256 CTTTAAGTCCAATGTAGCTGACATTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATATAGCTGACATTGAATCAGCACATTGGCAC
* * *
499299 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
1 CTTTAAGTCCAATATAGCTGACATTGAATCAGCACATTGGCAC
499342 CTTT
1 CTTT
499346 TCCATCTTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (43 bp):
CTTTAAGTCCAATATAGCTGACATTGAATCAGCACATTGGCAC
Found at i:499377 original size:52 final size:55
Alignment explanation
Indices: 499299--499448 Score: 198
Period size: 52 Copynumber: 2.8 Consensus size: 55
499289 ACATTGGCAC
499299 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC-TTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCCTTTTTCTCAT
* * * *
499351 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCCTTTTTCTCAT
* * * * *
499406 CTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAT
499449 TTTTATCACT
Statistics
Matches: 82, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
52 38 0.46
53 2 0.02
54 5 0.06
55 37 0.45
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.35
Consensus pattern (55 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCCTTTTTCTCAT
Found at i:500255 original size:13 final size:13
Alignment explanation
Indices: 500237--500264 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
500227 TACATAAAAT
500237 ATTGTATCGATAC
1 ATTGTATCGATAC
500250 ATTGTATCGATAC
1 ATTGTATCGATAC
500263 AT
1 AT
500265 AAATTTTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.39
Consensus pattern (13 bp):
ATTGTATCGATAC
Found at i:500279 original size:32 final size:33
Alignment explanation
Indices: 500218--500282 Score: 114
Period size: 32 Copynumber: 2.0 Consensus size: 33
500208 TTTCAATGAT
500218 TTGTATCGATACATAAAATATTGTATCGATACA
1 TTGTATCGATACATAAAATATTGTATCGATACA
*
500251 TTGTATCGATACAT-AAATTTTGTATCGATACA
1 TTGTATCGATACATAAAATATTGTATCGATACA
500283 ATTTAAGCTA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 17 0.55
33 14 0.45
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.38
Consensus pattern (33 bp):
TTGTATCGATACATAAAATATTGTATCGATACA
Found at i:500343 original size:13 final size:13
Alignment explanation
Indices: 500325--500349 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
500315 ATTACTTAAA
500325 TGTATCGATACAT
1 TGTATCGATACAT
500338 TGTATCGATACA
1 TGTATCGATACA
500350 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:500483 original size:52 final size:53
Alignment explanation
Indices: 500358--500487 Score: 226
Period size: 53 Copynumber: 2.5 Consensus size: 53
500348 CACTGATCTT
* * *
500358 TGTATCGATACATGCAGGCAGATTTGCCCAGATGTATCGATACATTTTATAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATATAAA
500411 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATA-AAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATATAAA
500463 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
500488 TCATATTTCG
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
52 28 0.38
53 46 0.62
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (53 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATATAAA
Found at i:504475 original size:14 final size:13
Alignment explanation
Indices: 504457--504519 Score: 72
Period size: 13 Copynumber: 4.5 Consensus size: 13
504447 AGTGATGAAA
504457 AAAAAACAAACAAAC
1 AAAAAA-AAA-AAAC
504472 AAAAAAAAAAACAC
1 AAAAAAAAAAA-AC
*
504486 ACAAAAAAAAACAC
1 A-AAAAAAAAAAAC
*
504500 ACAAAAAAAAAAC
1 AAAAAAAAAAAAC
504513 AAAAAAA
1 AAAAAAA
504520 CACAAAAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
13 18 0.43
14 9 0.21
15 15 0.36
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAAAC
Found at i:504475 original size:16 final size:16
Alignment explanation
Indices: 504456--504528 Score: 76
Period size: 16 Copynumber: 4.4 Consensus size: 16
504446 AAGTGATGAA
504456 AAAAAAACAAACAAAC
1 AAAAAAACAAACAAAC
* *
504472 AAAAAAAAAAACACAC
1 AAAAAAACAAACAAAC
*
504488 AAAAAAA-AACACACAAA
1 AAAAAAACAA-ACA-AAC
*
504505 AAAAAAACAAAAAAAC
1 AAAAAAACAAACAAAC
504521 ACAAAAAA
1 A-AAAAAA
504529 AAATGCAAAG
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
15 2 0.04
16 27 0.57
17 16 0.34
18 2 0.04
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (16 bp):
AAAAAAACAAACAAAC
Found at i:504531 original size:14 final size:14
Alignment explanation
Indices: 504455--504519 Score: 78
Period size: 14 Copynumber: 4.4 Consensus size: 14
504445 GAAGTGATGA
504455 AAAAAAAACAAACAAAC
1 AAAAAAAA-AAAC--AC
504472 AAAAAAAAAAACAC
1 AAAAAAAAAAACAC
*
504486 ACAAAAAAAAACAC
1 AAAAAAAAAAACAC
504500 ACAAAAAAAAAACA-
1 A-AAAAAAAAAACAC
504514 AAAAAA
1 AAAAAA
504520 CACAAAAAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
13 5 0.11
14 17 0.38
15 11 0.24
16 4 0.09
17 8 0.18
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAACAC
Found at i:504791 original size:18 final size:17
Alignment explanation
Indices: 504768--504820 Score: 74
Period size: 16 Copynumber: 3.2 Consensus size: 17
504758 GTTCTTTTCC
504768 AAAAAAAGAAACAAAACA
1 AAAAAAAGAAA-AAAACA
504786 AAAAAAAG-AAAAAA-A
1 AAAAAAAGAAAAAAACA
*
504801 AAGAAAAGAAAAAAACA
1 AAAAAAAGAAAAAAACA
504818 AAA
1 AAA
504821 CAGAAAAGCT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
15 8 0.26
16 10 0.32
17 5 0.16
18 8 0.26
ACGTcount: A:0.87, C:0.06, G:0.08, T:0.00
Consensus pattern (17 bp):
AAAAAAAGAAAAAAACA
Found at i:504798 original size:15 final size:14
Alignment explanation
Indices: 504768--504827 Score: 66
Period size: 15 Copynumber: 4.1 Consensus size: 14
504758 GTTCTTTTCC
* *
504768 AAAAAAAGAAACAA
1 AAAAAAAAAAAGAA
*
504782 AACAAAAAAAAGAA
1 AAAAAAAAAAAGAA
504796 AAAAAAAGAAAAGAA
1 AAAAAAA-AAAAGAA
*
504811 AAAAACAAAACAGAA
1 AAAAA-AAAAAAGAA
504826 AA
1 AA
504828 GCTCGATAAG
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
14 17 0.44
15 20 0.51
16 2 0.05
ACGTcount: A:0.85, C:0.07, G:0.08, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAAGAA
Found at i:505888 original size:30 final size:31
Alignment explanation
Indices: 505851--505935 Score: 109
Period size: 30 Copynumber: 2.8 Consensus size: 31
505841 CAAATACCTT
505851 TTCAAAGTCCACGACTCAGTGGCATTTTGTC
1 TTCAAAGTCCACGACTCAGTGGCATTTTGTC
* *
505882 -TCAAAGTCCACGACTTAGTGGCATTTTTTC
1 TTCAAAGTCCACGACTCAGTGGCATTTTGTC
* * * *
505912 TTTAAAGCCCACAACTCTGTGGCA
1 TTCAAAGTCCACGACTCAGTGGCA
505936 CACTTTTTCT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
30 28 0.61
31 18 0.39
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.32
Consensus pattern (31 bp):
TTCAAAGTCCACGACTCAGTGGCATTTTGTC
Found at i:505994 original size:37 final size:36
Alignment explanation
Indices: 505915--506299 Score: 374
Period size: 37 Copynumber: 11.3 Consensus size: 36
505905 TTTTTTCTTT
* * *
505915 AAAGCCCACAACTCTGTGGCACACTTTTT-CTTTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTC
**
505950 AAAGCCCACAACTTTGTGGCACTCTTTTTCCCTTTTC
1 AAAGCCCACAACTCCGTGGCACTCTTTTT-CCTTTTC
*
505987 AAAGCCCACAACTCCGTGGCAC-CTTTTT-CTTTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTC
* * *
506021 ACAGCCCACAGCTCCATGGCACTCTTTTTCCCTTGTT-
1 AAAGCCCACAACTCCGTGGCACTCTTTTT-CCTT-TTC
506058 AAAGCCCACAACTCCGTGGCAC-C---TT-CTTTTC
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTC
506089 AAAGCCCACAACTCCGTGGCA--C-----CCTTTT-
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTC
* * *
506117 -AAGTCCACGACTACGTGGCACTC-TTTTCC-TTT-
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTC
*
506149 AAAGCCCACAACTACGTGGCACTC-TTTTCC--TTC
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTC
*
506182 TAAGCCCACAACTCCGTGGCACTCTTTTTCC--TTC
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTC
*
506216 TAAGCCCACAACTCCGTGGCACTCTTTTTTCCCTTTT-
1 AAAGCCCACAACTCCGTGGCACTC-TTTTT-CCTTTTC
* *
506253 AAAGCCCACAACTCTGTGGCACTCTTTTTCCCTCTTC
1 AAAGCCCACAACTCCGTGGCACTCTTTTT-CCTTTTC
506290 AAAGCCCACA
1 AAAGCCCACA
506300 CAAGTCGGTG
Statistics
Matches: 306, Mismatches: 22, Indels: 42
0.83 0.06 0.11
Matches are distributed among these distances:
27 17 0.06
29 6 0.02
30 3 0.01
31 24 0.08
32 5 0.02
33 53 0.17
34 57 0.19
35 38 0.12
36 20 0.07
37 79 0.26
38 4 0.01
ACGTcount: A:0.21, C:0.35, G:0.12, T:0.32
Consensus pattern (36 bp):
AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTC
Found at i:506041 original size:71 final size:71
Alignment explanation
Indices: 505912--506282 Score: 422
Period size: 71 Copynumber: 5.5 Consensus size: 71
505902 GCATTTTTTC
* * **
505912 TTTAAAGCCCACAACTCTGTGGCACACTTTTTCTTTTTAAAGCCCACAACTTTGTGGCACTCTTT
1 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTT
505977 TTCCCT
66 TTCCCT
* * *
505983 TTTCAAAGCCCACAACTCCGTGGCAC-CTTTTTCTTTTTACAGCCCACAGCTCCATGGCACTCTT
1 TTT-AAAGCCCACAACTCCGTGGCACTCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTT
506047 TTTCCCT
65 TTTCCCT
*
506054 TGTTAAAGCCCACAACTCCGTGGCAC-C---TTCTTTTCAAAGCCCACAACTCCGTGGCA-----
1 T-TTAAAGCCCACAACTCCGTGGCACTCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTT
506110 ---CCCT
65 TTTCCCT
* * * * *
506114 TTT-AAGTCCACGACTACGTGGCACTC-TTTTC-CTTTAAAGCCCACAACTACGTGGCACTC-TT
1 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTT
506175 TT-CCT
66 TTCCCT
* * *
506180 TCT-AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCT-AAGCCCACAACTCCGTGGCACTCTTT
1 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTC-TT
506243 TTTCCCT
65 TTTCCCT
*
506250 TTTAAAGCCCACAACTCTGTGGCACTCTTTTTC
1 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
506283 CCTCTTCAAA
Statistics
Matches: 257, Mismatches: 25, Indels: 36
0.81 0.08 0.11
Matches are distributed among these distances:
58 18 0.07
59 3 0.01
60 27 0.11
61 3 0.01
66 25 0.10
67 27 0.11
68 27 0.11
69 4 0.02
70 5 0.02
71 95 0.37
72 23 0.09
ACGTcount: A:0.20, C:0.35, G:0.12, T:0.33
Consensus pattern (71 bp):
TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTT
TTCCCT
Found at i:506333 original size:34 final size:33
Alignment explanation
Indices: 506285--506419 Score: 211
Period size: 33 Copynumber: 4.1 Consensus size: 33
506275 TCTTTTTCCC
506285 TCTTCAAAGCCCACACAAGTCGGTGGCAACCAT
1 TCTTCAAAGCCCACACAAGTCGGTGGCAACCAT
*
506318 TCTTCTAAAGCCCACACAAGTCGGTGGCAACCCT
1 TCTTC-AAAGCCCACACAAGTCGGTGGCAACCAT
*
506352 TC-TCAAAGCCCACACAAGTCGGTGGTAACCAT
1 TCTTCAAAGCCCACACAAGTCGGTGGCAACCAT
*
506384 TC-TCTAAAGCCCACACAAGTCGGTGGCAACCCT
1 TCTTC-AAAGCCCACACAAGTCGGTGGCAACCAT
506417 TCT
1 TCT
506420 AACCCCAATA
Statistics
Matches: 94, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
32 30 0.32
33 35 0.37
34 29 0.31
ACGTcount: A:0.28, C:0.34, G:0.18, T:0.20
Consensus pattern (33 bp):
TCTTCAAAGCCCACACAAGTCGGTGGCAACCAT
Found at i:506417 original size:65 final size:66
Alignment explanation
Indices: 506288--506419 Score: 248
Period size: 65 Copynumber: 2.0 Consensus size: 66
506278 TTTTCCCTCT
506288 TCAAAGCCCACACAAGTCGGTGGCAACCATTCTTCTAAAGCCCACACAAGTCGGTGGCAACCCTT
1 TCAAAGCCCACACAAGTCGGTGGCAACCATTCTTCTAAAGCCCACACAAGTCGGTGGCAACCCTT
506353 C
66 C
*
506354 TCAAAGCCCACACAAGTCGGTGGTAACCATTC-TCTAAAGCCCACACAAGTCGGTGGCAACCCTT
1 TCAAAGCCCACACAAGTCGGTGGCAACCATTCTTCTAAAGCCCACACAAGTCGGTGGCAACCCTT
506418 C
66 C
506419 T
1 T
506420 AACCCCAATA
Statistics
Matches: 65, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
65 34 0.52
66 31 0.48
ACGTcount: A:0.29, C:0.34, G:0.18, T:0.19
Consensus pattern (66 bp):
TCAAAGCCCACACAAGTCGGTGGCAACCATTCTTCTAAAGCCCACACAAGTCGGTGGCAACCCTT
C
Found at i:506528 original size:43 final size:43
Alignment explanation
Indices: 506465--507097 Score: 669
Period size: 43 Copynumber: 14.1 Consensus size: 43
506455 GCACCTTCAT
506465 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
* * *
506508 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
506551 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
* * *
506594 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACATTCAC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG------CAC
506643 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
* * *
506686 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG---
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
*
506726 C----A--CC-A--TAGCTGGCCTTGAATCAGCATATTGGCAC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
*
506760 CTTTATCTTTACGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTC
1 CTTTA-----A-GTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C
506813 ATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCAC
1 --CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG-----CAC
506863 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
* * *
506906 TTTTAAGTCCAATATAGCTGGCCTTGACTCAGCACATTGGCACCTTC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C
506953 ATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 --CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
* *
506998 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG--CA-----C
* *
507048 ATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATC
1 --CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C
507094 CTTT
1 CTTT
507098 TTCTCATCAT
Statistics
Matches: 508, Mismatches: 32, Indels: 99
0.79 0.05 0.15
Matches are distributed among these distances:
31 25 0.05
33 1 0.00
34 3 0.01
36 1 0.00
40 1 0.00
43 238 0.47
44 4 0.01
45 3 0.01
46 3 0.01
47 2 0.00
48 40 0.08
49 138 0.27
50 5 0.01
52 36 0.07
53 1 0.00
54 2 0.00
55 5 0.01
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (43 bp):
CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:506644 original size:92 final size:90
Alignment explanation
Indices: 506424--507040 Score: 639
Period size: 92 Copynumber: 6.9 Consensus size: 90
506414 CCTTCTAACC
*
506424 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCT
1 CCAATATAGCTGGCCTTGAATCAGCATATTGGCA-C-TCACCTTTAAGTCCAATGTAGCTGGCCT
506489 TGAATCAGCACATTGGCACCTTTAAGT
64 TGAATCAGCACATTGGCACCTTTAAGT
*
506516 CCAATATCGCTGGCCTTGAATCAGCATATTGG----CACCTTTAAGTCCAATGTAGCTGGCCTTG
1 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACTCACCTTTAAGTCCAATGTAGCTGGCCTTG
506577 AATCAGCACATTGGCACCTTTAAGT
66 AATCAGCACATTGGCACCTTTAAGT
*
506602 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACATTCACCTTTAAGTCCAATGTAGCTGGCCT
1 CCAATATAGCTGGCCTTGAATCAGCATATTGGCAC--TCACCTTTAAGTCCAATGTAGCTGGCCT
506667 TGAATCAGCACATTGGCACCTTTAAGT
64 TGAATCAGCACATTGGCACCTTTAAGT
* **** * * * * * *
506694 CCAATATCGCTGGCCTTGAATCAGCATATTGGCAC-CA--TAGCTGGCC-TTGAATC-AG-CAT-
1 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACTCACCTTTAAGTCCAATGTAGCTGGCCTTG
** * * * *
506752 -ATTGGCACCTT--TATCTTTACGT
66 AATCAGCACATTGGCACCTTTAAGT
* * * *
506774 CCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCT
1 CCAATATAGCTGGCCTTGAATCAGCATATTGGCA-C-TCACCTTTAAGTCCAATGTAGCTGGCCT
506839 TGAATCAGCACATTGGCACCTCACCTTTAAGT
64 TGAATCAGCACATTGG-----CACCTTTAAGT
* * *
506871 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCACT----TTTAAGTCCAATATAGCTGGCCTTG
1 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACTCACCTTTAAGTCCAATGTAGCTGGCCTTG
*
506932 ACTCAGCACATTGGCACCTTCATCTTTAAGT
66 AATCAGCACATTGGCA----C--CTTTAAGT
* * *
506963 CCAATGTAGCTGGCCTTGAATCAGCACATTGG----CACCTTTAAGTCCAATATAGCTGGCCTTG
1 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACTCACCTTTAAGTCCAATGTAGCTGGCCTTG
*
507024 AATCAGCATATTGGCAC
66 AATCAGCACATTGGCAC
507041 ATTTTCCATC
Statistics
Matches: 449, Mismatches: 43, Indels: 70
0.80 0.08 0.12
Matches are distributed among these distances:
80 38 0.08
81 1 0.00
82 8 0.02
83 2 0.00
84 2 0.00
85 5 0.01
86 95 0.21
87 5 0.01
88 3 0.01
89 2 0.00
90 9 0.02
91 37 0.08
92 199 0.44
95 1 0.00
96 1 0.00
97 41 0.09
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.29
Consensus pattern (90 bp):
CCAATATAGCTGGCCTTGAATCAGCATATTGGCACTCACCTTTAAGTCCAATGTAGCTGGCCTTG
AATCAGCACATTGGCACCTTTAAGT
Found at i:506740 original size:31 final size:31
Alignment explanation
Indices: 506702--506760 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
506692 GTCCAATATC
506702 GCTGGCCTTGAATCAGCATATTGGCACCATA
1 GCTGGCCTTGAATCAGCATATTGGCACCATA
506733 GCTGGCCTTGAATCAGCATATTGGCACC
1 GCTGGCCTTGAATCAGCATATTGGCACC
506761 TTTATCTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (31 bp):
GCTGGCCTTGAATCAGCATATTGGCACCATA
Found at i:506805 original size:49 final size:49
Alignment explanation
Indices: 506731--507097 Score: 481
Period size: 49 Copynumber: 7.7 Consensus size: 49
506721 ATTGGCACCA
* *
506731 TAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTACGTCCAATG
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATG
* *
506780 TAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATG
* *
506829 TAGCTGGCCTTGAATCAGCACATTGGCACC-TCACCTTTAAGTCCAATG
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATG
*
506877 TAGCTGGCCTTGAATCAGCACATTGGCA-C----T-TTTAAGTCCAATA
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATG
* *
506920 TAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATG
*
506969 TAGCTGGCCTTGAATCAGCACATTGGCA-C-----CTTTAAGTCCAATA
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATG
* * *
507012 TAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAATG
1 TAGCTGGCCTTGAATCAGCACATTGGCAC-CTTT--ATCTTTAAGTCCAATG
*
507064 TAGCTGGCCTTGAATCAGCACATTGACATCCTTT
1 TAGCTGGCCTTGAATCAGCACATTGGCA-CCTTT
507098 TTCTCATCAT
Statistics
Matches: 283, Mismatches: 19, Indels: 29
0.85 0.06 0.09
Matches are distributed among these distances:
43 79 0.28
44 1 0.00
47 1 0.00
48 47 0.17
49 113 0.40
52 41 0.14
53 1 0.00
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (49 bp):
TAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATG
Found at i:506989 original size:140 final size:136
Alignment explanation
Indices: 506730--507045 Score: 490
Period size: 140 Copynumber: 2.3 Consensus size: 136
506720 TATTGGCACC
* *
506730 ATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTACGTCCAATGTAGCTGGCCTTGACT
1 ATAGCTGGCCTTGAATCAGCATATTGGCA-C--T-T-TTTAAGTCCAATATAGCTGGCCTTGACT
506795 CAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCT
61 CAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG-----
506860 CACCTTTAAGTCCAAT
121 CACCTTTAAGTCCAAT
* *
506876 GTAGCTGGCCTTGAATCAGCACATTGGCAC-TTTTAAGTCCAATATAGCTGGCCTTGACTCAGCA
1 ATAGCTGGCCTTGAATCAGCATATTGGCACTTTTTAAGTCCAATATAGCTGGCCTTGACTCAGCA
506940 CATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAG
66 CATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAG
507005 TCCAAT
131 TCCAAT
*
507011 ATAGCTGGCCTTGAATCAGCATATTGGCACATTTT
1 ATAGCTGGCCTTGAATCAGCATATTGGCACTTTTT
507046 CCATCTTTAA
Statistics
Matches: 163, Mismatches: 6, Indels: 12
0.90 0.03 0.07
Matches are distributed among these distances:
135 44 0.27
136 4 0.02
140 86 0.53
141 1 0.01
145 1 0.01
146 27 0.17
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.31
Consensus pattern (136 bp):
ATAGCTGGCCTTGAATCAGCATATTGGCACTTTTTAAGTCCAATATAGCTGGCCTTGACTCAGCA
CATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAG
TCCAAT
Found at i:507209 original size:67 final size:68
Alignment explanation
Indices: 507101--507227 Score: 175
Period size: 67 Copynumber: 1.9 Consensus size: 68
507091 ATCCTTTTTC
* * *
507101 TCATCATTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCA-CTTTTCTCA
1 TCATCATTAAGCCCAATATCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTTTCTCA
507165 TCT
66 TCT
* * * * *
507168 TCATCTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATCATCTTT
1 TCATCATTAAGCCCAATATCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTT
507228 AAAACCCAAT
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
67 47 0.92
68 4 0.08
ACGTcount: A:0.24, C:0.25, G:0.13, T:0.38
Consensus pattern (68 bp):
TCATCATTAAGCCCAATATCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTTTCTCA
TCT
Found at i:508036 original size:33 final size:33
Alignment explanation
Indices: 507994--508058 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
507984 TCAACGATTT
507994 GTATCGATACATAAAATGTTGTATCGATACAAC
1 GTATCGATACATAAAATGTTGTATCGATACAAC
*** *
508027 GTATCGATACATATTTTTTTGTATCGATACAA
1 GTATCGATACATAAAATGTTGTATCGATACAA
508059 TTTAAGCTAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (33 bp):
GTATCGATACATAAAATGTTGTATCGATACAAC
Found at i:508118 original size:13 final size:13
Alignment explanation
Indices: 508100--508124 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
508090 ATTACTCAAA
508100 TGTATCGATACAT
1 TGTATCGATACAT
508113 TGTATCGATACA
1 TGTATCGATACA
508125 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:508226 original size:52 final size:52
Alignment explanation
Indices: 508133--508256 Score: 207
Period size: 52 Copynumber: 2.4 Consensus size: 52
508123 CACTGATCTT
*
508133 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACA-TTTTAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATT-AAA
508184 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
*
508236 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
508257 CTTTTCATAT
Statistics
Matches: 69, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
51 19 0.28
52 47 0.68
53 3 0.04
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
Found at i:522567 original size:14 final size:13
Alignment explanation
Indices: 522546--522594 Score: 62
Period size: 13 Copynumber: 3.8 Consensus size: 13
522536 GGCGTCCTCC
522546 ACAAAAAAAAAAA
1 ACAAAAAAAAAAA
*
522559 CCAAAAAAAAAAA
1 ACAAAAAAAAAAA
* *
522572 ACAAAACAAAACA
1 ACAAAAAAAAAAA
*
522585 ACAACAAAAA
1 ACAAAAAAAA
522595 GGTTCCGGAT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (13 bp):
ACAAAAAAAAAAA
Found at i:522583 original size:5 final size:5
Alignment explanation
Indices: 522546--522593 Score: 50
Period size: 5 Copynumber: 10.2 Consensus size: 5
522536 GGCGTCCTCC
*
522546 ACAAA A-AAA A-AAA CCAAA A-AAA A-AAA ACAAA ACAAA ACAACA ACAAA
1 ACAAA ACAAA ACAAA ACAAA ACAAA ACAAA ACAAA ACAAA ACAA-A ACAAA
522593 A
1 A
522594 AGGTTCCGGA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
4 15 0.39
5 18 0.47
6 5 0.13
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (5 bp):
ACAAA
Found at i:522590 original size:11 final size:10
Alignment explanation
Indices: 522546--522593 Score: 50
Period size: 9 Copynumber: 5.1 Consensus size: 10
522536 GGCGTCCTCC
522546 ACAAAA-AAA
1 ACAAAACAAA
*
522555 A-AAACCAAA
1 ACAAAACAAA
522564 A-AAAA-AAA
1 ACAAAACAAA
522572 ACAAAACAAA
1 ACAAAACAAA
522582 ACAACAACAAA
1 ACAA-AACAAA
522593 A
1 A
522594 AGGTTCCGGA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
8 7 0.21
9 12 0.36
10 7 0.21
11 7 0.21
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (10 bp):
ACAAAACAAA
Found at i:524071 original size:29 final size:29
Alignment explanation
Indices: 524032--524205 Score: 174
Period size: 29 Copynumber: 6.0 Consensus size: 29
524022 TTACCCTTCA
524032 AAAGCCCACAAGTCAGTGGCATCTTTTTC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
524061 AAAGCCCACAAGTCAGTGGCATCTTTTTTC
1 AAAGCCCACAAGTCAGTGGCATC-TTTTTC
* * *
524091 -AAGTCCACAAGTCAGTGGCAAC--CTTC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
* * * *
524117 AAAGCCCACAAATTAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTTC
* * *
524147 GAAGCCCACAAGTCGGTGGCATCTTTTCC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
* * * *
524176 AAAGTCCACAACTCCGTGTCACTCTTTTTC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTTC
524206 TTTTGTAAGC
Statistics
Matches: 119, Mismatches: 20, Indels: 11
0.79 0.13 0.07
Matches are distributed among these distances:
26 3 0.03
27 17 0.14
28 1 0.01
29 66 0.55
30 32 0.27
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.26
Consensus pattern (29 bp):
AAAGCCCACAAGTCAGTGGCATCTTTTTC
Found at i:524135 original size:56 final size:58
Alignment explanation
Indices: 524033--524186 Score: 168
Period size: 56 Copynumber: 2.7 Consensus size: 58
524023 TACCCTTCAA
* * * * * *
524033 AAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTTTC-
1 AAGCCCACAAGTCAGTGGCAAC-TCTTCAAAGCCCACAAATCAGTGGCACCCTTTTCCG
* *
524091 AAGTCCACAAGTCAGTGGCAAC-CTTCAAAGCCCACAAATTAGTGGCACCCTTTTCCG
1 AAGCCCACAAGTCAGTGGCAACTCTTCAAAGCCCACAAATCAGTGGCACCCTTTTCCG
* * * *
524148 AAGCCCACAAGTCGGTGGCATCTTTTCCAAAGTCCACAA
1 AAGCCCACAAGTCAGTGGCAACTCTT-CAAAGCCCACAA
524187 CTCCGTGTCA
Statistics
Matches: 80, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
56 28 0.35
57 19 0.24
58 22 0.28
59 11 0.14
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.24
Consensus pattern (58 bp):
AAGCCCACAAGTCAGTGGCAACTCTTCAAAGCCCACAAATCAGTGGCACCCTTTTCCG
Found at i:524144 original size:86 final size:86
Alignment explanation
Indices: 524026--524186 Score: 227
Period size: 86 Copynumber: 1.9 Consensus size: 86
524016 CATTCCTTAC
* * * *
524026 CCTTCAAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTTTC
1 CCTTCAAAAGCCCACAAATCAGTGGCACCTTTTCCAAAGCCCACAAGTCAGTGGCATC-TTTTCC
524091 -AAGTCCACAAGTCAGTGGCAA
65 AAAGTCCACAAGTCAGTGGCAA
* * *
524112 CCTTC-AAAGCCCACAAATTAGTGGCACCCTTTTCCGAAGCCCACAAGTCGGTGGCATCTTTTCC
1 CCTTCAAAAGCCCACAAATCAGTGGCA-CCTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCC
524176 AAAGTCCACAA
65 AAAGTCCACAA
524187 CTCCGTGTCA
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
85 24 0.36
86 42 0.64
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (86 bp):
CCTTCAAAAGCCCACAAATCAGTGGCACCTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCCA
AAGTCCACAAGTCAGTGGCAA
Found at i:524255 original size:34 final size:35
Alignment explanation
Indices: 524181--524255 Score: 100
Period size: 35 Copynumber: 2.2 Consensus size: 35
524171 TTTCCAAAGT
*
524181 CCACAACTCCGTGTCACTCTTTTTCTTTTGTAAGC
1 CCACAACTCCGTGTCACTCTTTTTCCTTTGTAAGC
* *
524216 TCACAACTCTGTAG-CACTCTTTTTCCTTT-TAAGC
1 CCACAACTCCGT-GTCACTCTTTTTCCTTTGTAAGC
524250 CCACAA
1 CCACAA
524256 GTTAATGTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
34 10 0.29
35 24 0.69
36 1 0.03
ACGTcount: A:0.21, C:0.32, G:0.09, T:0.37
Consensus pattern (35 bp):
CCACAACTCCGTGTCACTCTTTTTCCTTTGTAAGC
Found at i:524330 original size:13 final size:13
Alignment explanation
Indices: 524312--524339 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
524302 TACAAAATTT
524312 ATGTATCGATACA
1 ATGTATCGATACA
524325 ATGTATCGATACA
1 ATGTATCGATACA
524338 AT
1 AT
524340 ATTTTATGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:524335 original size:32 final size:33
Alignment explanation
Indices: 524294--524358 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
524284 TAGCTTAAAT
524294 TGTATCGATACAA-AATTTATGTATCGATACAA
1 TGTATCGATACAATAATTTATGTATCGATACAA
*
524326 TGTATCGATACAATATTTTATGTATCGATACAA
1 TGTATCGATACAATAATTTATGTATCGATACAA
524359 ATCATTGAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 13 0.42
33 18 0.58
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.37
Consensus pattern (33 bp):
TGTATCGATACAATAATTTATGTATCGATACAA
Found at i:531434 original size:52 final size:49
Alignment explanation
Indices: 531217--531710 Score: 251
Period size: 49 Copynumber: 10.4 Consensus size: 49
531207 CGAAGAATGA
* * * ** *
531217 CAATGTGCTGATTGAAGGCCAGCGACATTAGAATTCAAA-AAGAA--TGC
1 CAATGTGCTGATTCAAGGCCAACGACATTGGTCTT-AAAGATGAAGGTGC
** ** * * * *
531264 CAATGTGCTGAGACAAGGCCGGCGACATTGGGCTTAGGAATGTTAAAGATGC
1 CAATGTGCTGATTCAAGGCCAACGACATTGGTCTTA--AA-GATGAAGGTGC
* ** * *
531316 CAATATGCCAATTCAAGGCCAACGATATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGC
* *
531365 CAATGTGATGATTCAAGGCCAGCGACATTGGTCTTAAAGATGGTTAAGGTGC
1 CAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGAT-G--AAGGTGC
*
531417 CAATGTGCTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGC
* *
531466 CAATATGGCTGATTC-AGGCCAATCGATATTGG-C-T-----T--A--TGC
1 CAATGT-GCTGATTCAAGGCCAA-CGACATTGGTCTTAAAGATGAAGGTGC
* * *
531505 CAATGTACTGATT-AAGG-CAAGCGAACATTGGTCTTAGAGGA-CAAGGTGC
1 CAATGTGCTGATTCAAGGCCAA-CG-ACATTGGTCTTA-AAGATGAAGGTGC
* * * * *
531554 C-ATCTGCCTGATTTAAGGCCAGCGATATTGGGC-T-----T----GTGC
1 CAATGTG-CTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGC
* *
531593 CAATGTGCTGATTCAAGGCAAACGACATCTTGTCTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAACGACAT-TGGTCTTAAAGATGAAGGTGC
* * * * * **
531643 CAAT-AGCTGATTCAGGGCCATGCAACATTGGTCTTAAAGACGGTGGTGC
1 CAATGTGCTGATTCAAGGCCA-ACGACATTGGTCTTAAAGATGAAGGTGC
*
531692 CAATATGCT-ATT-AAGGCCA
1 CAATGTGCTGATTCAAGGCCA
531711 GCGATATGGG
Statistics
Matches: 342, Mismatches: 62, Indels: 85
0.70 0.13 0.17
Matches are distributed among these distances:
37 5 0.01
38 15 0.04
39 31 0.09
40 8 0.02
41 2 0.01
43 1 0.00
46 2 0.01
47 29 0.08
48 13 0.04
49 116 0.34
50 42 0.12
51 3 0.01
52 75 0.22
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGC
Found at i:531436 original size:101 final size:101
Alignment explanation
Indices: 531217--531486 Score: 291
Period size: 101 Copynumber: 2.7 Consensus size: 101
531207 CGAAGAATGA
* * * * * **
531217 CAATGTGCTGATTGAAGGCCAGCGACATTAGAATTCAAA-AAGAA--TGCCAATGTGCTGAGACA
1 CAATGTGCTGATTCAAGGCCAACGACATTGGACTT-AAAGATGAAGGTGCCAATGTGCTGATTCA
* *
531279 AGGCCGGCGACATTGGGCTTAGGAATGTTAAAGATGC
65 AGGCCAGCGACATTGGGCTTAAGAATGTTAAAGATGC
* ** * *
531316 CAATATGCCAATTCAAGGCCAACGATATTGGACTTAAAGATGAAGGTGCCAATGTGATGATTCAA
1 CAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
* *
531381 GGCCAGCGACATTGGTCTTAA-AGATGGTT-AAGGTGC
66 GGCCAGCGACATTGGGCTTAAGA-AT-GTTAAAGATGC
* * *
531417 CAATGTGCTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGGTGCCAATATGGCTGATTC-
1 CAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGTGCCAATGT-GCTGATTCA
531481 AGGCCA
65 AGGCCA
531487 ATCGATATTG
Statistics
Matches: 141, Mismatches: 24, Indels: 10
0.81 0.14 0.06
Matches are distributed among these distances:
98 3 0.02
99 31 0.22
100 1 0.01
101 96 0.68
102 10 0.07
ACGTcount: A:0.32, C:0.18, G:0.27, T:0.23
Consensus pattern (101 bp):
CAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
GGCCAGCGACATTGGGCTTAAGAATGTTAAAGATGC
Found at i:531662 original size:88 final size:86
Alignment explanation
Indices: 531413--531658 Score: 286
Period size: 88 Copynumber: 2.8 Consensus size: 86
531403 GATGGTTAAG
*
531413 GTGCCAATGTGCTGATTCAAGGCCAACGACATC-GGTCTTAAAGATGAAGGTGCCAATATGGCTG
1 GTGCCAATGTGCTGATTCAAGGCAAACGACATCTGGTCTTAAAGATGAAGGTGCCAATA--GCTG
*
531477 ATTCAGGCCAATCGATATTGGCTT
64 ATTCAGGCC-AGCGATATTGGCTT
* * * * * *
531501 ATGCCAATGTACTGATT-AAGGCAAGCGAACAT-TGGTCTTAGAGGA-CAAGGTGCC-ATCTGCC
1 GTGCCAATGTGCTGATTCAAGGCAAACG-ACATCTGGTCTTA-AAGATGAAGGTGCCAAT-AG-C
*
531562 TGATTTAAGGCCAGCGATATTGGGCTT
62 TGA-TTCAGGCCAGCGATATT-GGCTT
*
531589 GTGCCAATGTGCTGATTCAAGGCAAACGACATCTTGTCTTAAAGATGAAGGTGCCAATAGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCAAACGACATCTGGTCTTAAAGATGAAGGTGCCAATAGCTGAT
531654 TCAGG
66 TCAGG
531659 GCCATGCAAC
Statistics
Matches: 130, Mismatches: 17, Indels: 23
0.76 0.10 0.14
Matches are distributed among these distances:
86 1 0.01
87 27 0.21
88 72 0.55
89 28 0.22
90 2 0.02
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (86 bp):
GTGCCAATGTGCTGATTCAAGGCAAACGACATCTGGTCTTAAAGATGAAGGTGCCAATAGCTGAT
TCAGGCCAGCGATATTGGCTT
Found at i:532048 original size:29 final size:29
Alignment explanation
Indices: 531970--532094 Score: 155
Period size: 28 Copynumber: 4.3 Consensus size: 29
531960 CCCCAACTTG
*
531970 TGTGGGCTTTTGAAAGGGTGCCACCAACT
1 TGTGGGCTTTTGAAAGGGTGCCACCGACT
* * * *
531999 GGT-GGCTTTTGAATGGTTGCCACTGACT
1 TGTGGGCTTTTGAAAGGGTGCCACCGACT
532027 TGTGGGC-TTTGAAAGGGGTGCCACCGACT
1 TGTGGGCTTTTGAAA-GGGTGCCACCGACT
* *
532056 TGTGGGCTTTTAAAAAGGGTGCCACTGACT
1 TGTGGGCTTTT-GAAAGGGTGCCACCGACT
532086 TGTGGGCTT
1 TGTGGGCTT
532095 AAAAGGAGAA
Statistics
Matches: 81, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
28 29 0.36
29 24 0.30
30 25 0.31
31 3 0.04
ACGTcount: A:0.18, C:0.18, G:0.34, T:0.30
Consensus pattern (29 bp):
TGTGGGCTTTTGAAAGGGTGCCACCGACT
Found at i:532129 original size:33 final size:33
Alignment explanation
Indices: 532075--532382 Score: 183
Period size: 33 Copynumber: 9.8 Consensus size: 33
532065 TTAAAAAGGG
* * *
532075 TGCCACTGACTTGTGGGCTTAAAAGGAGAAAGA
1 TGCCACGGAGTTGTGGACTTAAAAGGAGAAAGA
*
532108 TGCCACGGAGTTATGGACTTAAAA-G-G---G-
1 TGCCACGGAGTTGTGGACTTAAAAGGAGAAAGA
*
532135 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
1 TGCCACGGAGTTGTGGACTTAAAAGGAGAAAGA
* *
532168 TGCCACAGAGTTGTGGACTTAAAAGGA-ACAAGG
1 TGCCACGGAGTTGTGGACTTAAAAGGAGA-AAGA
*
532201 TGCCACGGAGTTTTGGACTTAAAA--AG---G-
1 TGCCACGGAGTTGTGGACTTAAAAGGAGAAAGA
* * * *
532228 TGCCACAGAGTTGTGGGCTTTAAAGGA-ACAAGG
1 TGCCACGGAGTTGTGGACTTAAAAGGAGA-AAGA
* *
532261 GGCCACAGAGTTGTGGACTTAAAA-G-G---G-
1 TGCCACGGAGTTGTGGACTTAAAAGGAGAAAGA
* * *
532288 TGCCACAGAGTTGTGGACTTTGAAAA-GAAAAAGG
1 TGCCACGGAGTTGTGGAC-TT-AAAAGGAGAAAGA
** * * *
532322 TGTTACGGAGTTGTGGGCTTTGAAAA-GAAAAAGG
1 TGCCACGGAGTTGTGGAC-TT-AAAAGGAGAAAGA
* *
532356 TGCCACAGAGTTGTGGGCTTTAAAAGG
1 TGCCACGGAGTTGTGGAC-TTAAAAGG
532383 GTGCCACGGA
Statistics
Matches: 225, Mismatches: 26, Indels: 47
0.76 0.09 0.16
Matches are distributed among these distances:
27 60 0.27
28 6 0.03
29 6 0.03
31 2 0.01
32 5 0.02
33 97 0.43
34 49 0.22
ACGTcount: A:0.33, C:0.13, G:0.32, T:0.22
Consensus pattern (33 bp):
TGCCACGGAGTTGTGGACTTAAAAGGAGAAAGA
Done.