Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 208 of 216
Found at i:64418063 original size:25 final size:25
Alignment explanation
Indices: 64417919--64418071 Score: 97
Period size: 25 Copynumber: 6.2 Consensus size: 25
64417909 AATAGTTGGT
*
64417919 AGCTCCGATA-AGCCAT-TAACGGGA
1 AGCTCCGA-AGAGCCATATATCGGGA
* * *
64417943 AGCTCCGGATAGCCATATATCTGGA
1 AGCTCCGAAGAGCCATATATCGGGA
* *
64417968 AG-TTC-AAGTG--AGTCATATCGGGA
1 AGCTCCGAAGAGCCA-T-ATATCGGGA
* *
64417991 AGCTCCGGAGAGCCAT-TAATCAGGA
1 AGCTCCGAAGAGCCATAT-ATCGGGA
* *
64418016 AGCTCACAAAGAGCC-TTTAATCGGGA
1 AGCTC-CGAAGAGCCATAT-ATCGGGA
64418042 AGCTCCGAAGAGCCATATATCGGGA
1 AGCTCCGAAGAGCCATATATCGGGA
*
64418067 CGCTC
1 AGCTC
64418072 ATAAGAACTG
Statistics
Matches: 99, Mismatches: 18, Indels: 23
0.71 0.13 0.16
Matches are distributed among these distances:
21 1 0.01
22 1 0.01
23 13 0.13
24 18 0.18
25 42 0.42
26 23 0.23
27 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.26, T:0.20
Consensus pattern (25 bp):
AGCTCCGAAGAGCCATATATCGGGA
Found at i:64422936 original size:2 final size:2
Alignment explanation
Indices: 64422929--64422961 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
64422919 AAGATACTTT
64422929 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
64422962 TGTGTAAGGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:64423596 original size:14 final size:13
Alignment explanation
Indices: 64423568--64423592 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
64423558 TGTCTATTCT
64423568 TTTTTAATATTTA
1 TTTTTAATATTTA
64423581 TTTTTAATATTT
1 TTTTTAATATTT
64423593 TATTATACCT
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:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTTAATATTTA
Found at i:64426328 original size:12 final size:13
Alignment explanation
Indices: 64426303--64426327 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
64426293 AAATTATTTA
64426303 AAAATGATTTTTT
1 AAAATGATTTTTT
64426316 AAAATGATTTTT
1 AAAATGATTTTT
64426328 ATTTTTTAAC
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:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (13 bp):
AAAATGATTTTTT
Found at i:64445120 original size:16 final size:15
Alignment explanation
Indices: 64445088--64445121 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
64445078 TTTTCGTATA
* *
64445088 TTTAAAATTTTTATT
1 TTTAAAAATTTAATT
64445103 TTTAAAAATTTAATT
1 TTTAAAAATTTAATT
64445118 TTTA
1 TTTA
64445122 TACTTTTAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTAAAAATTTAATT
Found at i:64449329 original size:15 final size:16
Alignment explanation
Indices: 64449295--64449351 Score: 64
Period size: 15 Copynumber: 3.6 Consensus size: 16
64449285 TTTTCTAAAG
*
64449295 TTTATATATTATTAAT
1 TTTATTTATTATTAAT
*
64449311 TTTATTTATT-TTTAT
1 TTTATTTATTATTAAT
64449326 TTTATTTATT-TTAAT
1 TTTATTTATTATTAAT
*
64449341 ATTATATTATT
1 TTTAT-TTATT
64449352 CTTTAAAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
15 22 0.61
16 14 0.39
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTATTTATTATTAAT
Found at i:64449391 original size:15 final size:15
Alignment explanation
Indices: 64449371--64449400 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
64449361 TTAGTTATTG
64449371 TTTAAAAATTTAAAA
1 TTTAAAAATTTAAAA
*
64449386 TTTAAAATTTTAAAA
1 TTTAAAAATTTAAAA
64449401 ATAAAATGTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
TTTAAAAATTTAAAA
Found at i:64449394 original size:14 final size:14
Alignment explanation
Indices: 64449375--64449418 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
64449365 TTATTGTTTA
*
64449375 AAAATTTAAAATTT
1 AAAATTTAAAATAT
64449389 AAAATTTTAAAA-AT
1 AAAA-TTTAAAATAT
*
64449403 AAAATGTAAAATAT
1 AAAATTTAAAATAT
64449417 AA
1 AA
64449419 TTTATCAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
13 6 0.23
14 13 0.50
15 7 0.27
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (14 bp):
AAAATTTAAAATAT
Found at i:64458160 original size:24 final size:24
Alignment explanation
Indices: 64458106--64458160 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 24
64458096 CTTGTTGGTA
* * *
64458106 TTATATTCTTTGTATTGTGTTTTAG
1 TTAT-TTCTCTGTATTGTCTTGTAG
64458131 TTATTTCTCTGTATTGTCTTGT-G
1 TTATTTCTCTGTATTGTCTTGTAG
64458154 TTCATTT
1 TT-ATTT
64458161 TTAAAAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
23 3 0.12
24 19 0.73
25 4 0.15
ACGTcount: A:0.13, C:0.09, G:0.15, T:0.64
Consensus pattern (24 bp):
TTATTTCTCTGTATTGTCTTGTAG
Found at i:64461111 original size:8 final size:8
Alignment explanation
Indices: 64461098--64461124 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
64461088 CATGGCATAT
64461098 TATGTGTG
1 TATGTGTG
64461106 TATGTGTG
1 TATGTGTG
64461114 TATGTGTG
1 TATGTGTG
64461122 TAT
1 TAT
64461125 ACATGTGTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.33, T:0.52
Consensus pattern (8 bp):
TATGTGTG
Found at i:64461893 original size:168 final size:168
Alignment explanation
Indices: 64461612--64461947 Score: 600
Period size: 168 Copynumber: 2.0 Consensus size: 168
64461602 ATTCTCATTC
64461612 ACTTTCAACCTAAACCTTTTTAGTTCTTTTTCTTTTGATTCATTCTGGGAAAGTCAATGACTTGC
1 ACTTTCAACCTAAACCTTTTTAGTTCTTTTTCTTTTGATTCATTCTGGGAAAGTCAATGACTTGC
*
64461677 ATGTCCTGGTTTCCAAAATCTCAACACTTTAGTTCAGCAAACTATTCTTAAAATTGGTTTTTGCC
66 ATGTCCTGGTTTCCAAAATCTCAACACTTCAGTTCAGCAAACTATTCTTAAAATTGGTTTTTGCC
* *
64461742 CCTTAGTAAAAAACTTGAGATTAATCTTTTCAGTTTTT
131 CCTTAGTAAAAAACTTAAGATTAATCGTTTCAGTTTTT
*
64461780 ACTTTCAACCTAAACCTTTTTAGTTCTTTTTCTTTTGATTCATTCTGGGGAAGTCAATGACTTGC
1 ACTTTCAACCTAAACCTTTTTAGTTCTTTTTCTTTTGATTCATTCTGGGAAAGTCAATGACTTGC
* * *
64461845 ATGTCCTGGTTTCCAGAATCTCAACACTTCAGTTCAGCAAATTATTCTTAAAATTGTTTTTTGCC
66 ATGTCCTGGTTTCCAAAATCTCAACACTTCAGTTCAGCAAACTATTCTTAAAATTGGTTTTTGCC
*
64461910 CCTTAGTAAAAAACTTAAGATTTATCGTTTCAGTTTTT
131 CCTTAGTAAAAAACTTAAGATTAATCGTTTCAGTTTTT
64461948 GATTAGATGC
Statistics
Matches: 160, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
168 160 1.00
ACGTcount: A:0.26, C:0.19, G:0.12, T:0.43
Consensus pattern (168 bp):
ACTTTCAACCTAAACCTTTTTAGTTCTTTTTCTTTTGATTCATTCTGGGAAAGTCAATGACTTGC
ATGTCCTGGTTTCCAAAATCTCAACACTTCAGTTCAGCAAACTATTCTTAAAATTGGTTTTTGCC
CCTTAGTAAAAAACTTAAGATTAATCGTTTCAGTTTTT
Found at i:64462677 original size:44 final size:44
Alignment explanation
Indices: 64462627--64462715 Score: 151
Period size: 44 Copynumber: 2.0 Consensus size: 44
64462617 AAGAAGAGAA
64462627 ACCTCTTTCATATATTACTAATGAGTAAAGAATTGTACACATTT
1 ACCTCTTTCATATATTACTAATGAGTAAAGAATTGTACACATTT
* * *
64462671 ACCTCTTTCGTATATTACTAATGAGTGAAGAATTGTACATATTT
1 ACCTCTTTCATATATTACTAATGAGTAAAGAATTGTACACATTT
64462715 A
1 A
64462716 TAGTCTACGA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.39
Consensus pattern (44 bp):
ACCTCTTTCATATATTACTAATGAGTAAAGAATTGTACACATTT
Found at i:64465988 original size:21 final size:21
Alignment explanation
Indices: 64465962--64466003 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
64465952 CCCCAACATA
64465962 ACATAATGTTTGGTTTACTGT
1 ACATAATGTTTGGTTTACTGT
64465983 ACATAATGTTTGGTTTACTGT
1 ACATAATGTTTGGTTTACTGT
64466004 CTCCATACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.10, G:0.19, T:0.48
Consensus pattern (21 bp):
ACATAATGTTTGGTTTACTGT
Found at i:64482678 original size:18 final size:18
Alignment explanation
Indices: 64482652--64482690 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
64482642 TGTGTGGGCT
*
64482652 ATACGGACATGTGGACCC
1 ATACAGACATGTGGACCC
*
64482670 ATACAGACATGTGGGCCC
1 ATACAGACATGTGGACCC
64482688 ATA
1 ATA
64482691 ATTCTGAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.31, C:0.26, G:0.26, T:0.18
Consensus pattern (18 bp):
ATACAGACATGTGGACCC
Found at i:64485595 original size:3 final size:3
Alignment explanation
Indices: 64485587--64485633 Score: 67
Period size: 3 Copynumber: 15.7 Consensus size: 3
64485577 AATAAATAGG
* * *
64485587 TAA TAA TAA TAA TAG TAG TAG TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
64485634 GGGCTAATTC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:64487455 original size:46 final size:46
Alignment explanation
Indices: 64487388--64487781 Score: 323
Period size: 46 Copynumber: 8.8 Consensus size: 46
64487378 ATATCTCTAG
* *
64487388 CTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATT
1 CTTCGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATT
* * * * *
64487434 CTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTG---GT
1 CTTCGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATT
* * * * * *
64487477 -GT-GATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCT-TAGTT
1 CTTCGATCTGCTCCACTGTAATC-TCAGGGAGATAAGAT-CTGAAATT
* * * * * *
64487521 -TT-AATCCGCTCCACTGTAATATCAGGGAGATAGGAT-T--ACTAG
1 CTTCGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAAT-T
* * *
64487563 CTTCAATCTACTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATT
1 CTTCGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATT
* *
64487609 CTTCGGTCTACTCCACTGTAATCTCAGGGAGATAAGATCTGAAATT
1 CTTCGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATT
* * * * *
64487655 CTTTGGTCTGTTCCACTGTAATCTCAGGGAGATAAGATCT---CTGG
1 CTTCGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAAT-T
* * * *
64487699 CTTCAATCTGCTCCTCTATAACCTCAGGGAGATAAGATCTGAAATT
1 CTTCGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATT
* * *
64487745 CTTTGGTCTGTTCCACTGTAATCTCAGGGAGATAAGA
1 CTTCGATCTGCTCCACTGTAATCTCAGGGAGATAAGA
64487782 CCTGTATAAT
Statistics
Matches: 275, Mismatches: 57, Indels: 32
0.76 0.16 0.09
Matches are distributed among these distances:
40 1 0.00
41 27 0.10
42 4 0.01
43 4 0.01
44 90 0.33
45 1 0.00
46 145 0.53
47 3 0.01
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.31
Consensus pattern (46 bp):
CTTCGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATT
Found at i:64487702 original size:136 final size:136
Alignment explanation
Indices: 64487530--64487781 Score: 398
Period size: 136 Copynumber: 1.9 Consensus size: 136
64487520 TTTAATCCGC
* * *
64487530 TCCACTGTAATATCAGGGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGGGAGA
1 TCCACTGTAATATCAGGGAGATAAGATTACTAGCTTCAATCTACTCCGCTATAACCTCAGGGAGA
64487595 TAAGATCTGAAATTCTTCGGTCTACTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTTG
66 TAAGATCTGAAATTCTTCGGTCTACTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTTG
64487660 GTCTGT
131 GTCTGT
* * * *
64487666 TCCACTGTAATCTCAGGGAGATAAGATCT-CTGGCTTCAATCTGCTCCTCTATAACCTCAGGGAG
1 TCCACTGTAATATCAGGGAGATAAGAT-TACTAGCTTCAATCTACTCCGCTATAACCTCAGGGAG
* **
64487730 ATAAGATCTGAAATTCTTTGGTCTGTTCCACTGTAATCTCAGGGAGATAAGA
65 ATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAATCTCAGGGAGATAAGA
64487782 CCTGTATAAT
Statistics
Matches: 105, Mismatches: 10, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
136 104 0.99
137 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (136 bp):
TCCACTGTAATATCAGGGAGATAAGATTACTAGCTTCAATCTACTCCGCTATAACCTCAGGGAGA
TAAGATCTGAAATTCTTCGGTCTACTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTTG
GTCTGT
Found at i:64487745 original size:90 final size:90
Alignment explanation
Indices: 64487578--64487781 Score: 302
Period size: 90 Copynumber: 2.2 Consensus size: 90
64487568 ATCTACTCCG
* ** * *
64487578 CTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAATCTCAGGGAGATA
1 CTGTAATCTCAGGGAGATAAGATCT--AATGCTTCAATCTACTCCACTATAACCTCAGGGAGATA
64487643 AGATCTGAAATTCTTTGGTCTGTTCCA
64 AGATCTGAAATTCTTTGGTCTGTTCCA
* * *
64487670 CTGTAATCTCAGGGAGATAAGATCT-CTGGCTTCAATCTGCTCCTCTATAACCTCAGGGAGATAA
1 CTGTAATCTCAGGGAGATAAGATCTAAT-GCTTCAATCTACTCCACTATAACCTCAGGGAGATAA
64487734 GATCTGAAATTCTTTGGTCTGTTCCA
65 GATCTGAAATTCTTTGGTCTGTTCCA
64487760 CTGTAATCTCAGGGAGATAAGA
1 CTGTAATCTCAGGGAGATAAGA
64487782 CCTGTATAAT
Statistics
Matches: 103, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
89 1 0.01
90 77 0.75
92 25 0.24
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.31
Consensus pattern (90 bp):
CTGTAATCTCAGGGAGATAAGATCTAATGCTTCAATCTACTCCACTATAACCTCAGGGAGATAAG
ATCTGAAATTCTTTGGTCTGTTCCA
Found at i:64499988 original size:3 final size:3
Alignment explanation
Indices: 64499980--64500026 Score: 67
Period size: 3 Copynumber: 15.7 Consensus size: 3
64499970 AATAAATAGG
* * *
64499980 TAA TAA TAA TAA TAG TAG TAG TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
64500027 GGGCTAATTC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:64500472 original size:10 final size:9
Alignment explanation
Indices: 64500459--64500483 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
64500449 ATGAAAAGAG
64500459 AAAAAAATA
1 AAAAAAATA
64500468 AAAAAAATA
1 AAAAAAATA
64500477 AAAAAAA
1 AAAAAAA
64500484 GAAACAGGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (9 bp):
AAAAAAATA
Found at i:64509375 original size:31 final size:31
Alignment explanation
Indices: 64509296--64509375 Score: 83
Period size: 31 Copynumber: 2.6 Consensus size: 31
64509286 TGTACATATG
* *
64509296 AACTTT-AATTTGATGTAATTATATACATAA
1 AACTTTAAATTTGATTTAAATATATACATAA
* * * *
64509326 AACTCTAATTGTTG-TTTAAATGTATACTTAA
1 AACTTTAAAT-TTGATTTAAATATATACATAA
64509357 AACTTTAAATTTGATTTAA
1 AACTTTAAATTTGATTTAA
64509376 TCATACATAT
Statistics
Matches: 39, Mismatches: 8, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
30 8 0.21
31 28 0.72
32 3 0.08
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.45
Consensus pattern (31 bp):
AACTTTAAATTTGATTTAAATATATACATAA
Found at i:64518898 original size:3 final size:3
Alignment explanation
Indices: 64518890--64518928 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
64518880 CAAAAAGAGG
64518890 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
64518929 CAACTTTTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:64520534 original size:19 final size:21
Alignment explanation
Indices: 64520507--64520546 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
64520497 AACCCTTATA
64520507 ATATATTTTATATAA-TATTT
1 ATATATTTTATATAATTATTT
*
64520527 ATAT-TTTTATGTAATTATTT
1 ATATATTTTATATAATTATTT
64520547 TCCTATTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (21 bp):
ATATATTTTATATAATTATTT
Found at i:64521869 original size:14 final size:11
Alignment explanation
Indices: 64521823--64521889 Score: 68
Period size: 11 Copynumber: 6.2 Consensus size: 11
64521813 TATTTATATT
*
64521823 ATATTATTCTA
1 ATATTATTTTA
*
64521834 ATATTA--ATA
1 ATATTATTTTA
64521843 AT-TTATTTTA
1 ATATTATTTTA
*
64521853 TATAATCATTTTA
1 -AT-ATTATTTTA
64521866 ATATTATTTTA
1 ATATTATTTTA
64521877 ATATTATTTTA
1 ATATTATTTTA
64521888 AT
1 AT
64521890 GTTTATATTA
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
8 3 0.06
9 4 0.09
10 2 0.04
11 29 0.62
12 2 0.04
13 7 0.15
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (11 bp):
ATATTATTTTA
Found at i:64524529 original size:22 final size:22
Alignment explanation
Indices: 64524487--64524576 Score: 85
Period size: 23 Copynumber: 4.0 Consensus size: 22
64524477 GAAGATGAAA
***
64524487 CTGGAAATTGTTGCAATTTGTT
1 CTGGAAATTGTTTTGATTTGTT
* *
64524509 -TTGATATTGTTATTGATTTGTT
1 CTGGAAATTGTT-TTGATTTGTT
64524531 CTGGAAATTGTTTTGA-TTGTCT
1 CTGGAAATTGTTTTGATTTGT-T
64524553 GCTGGAAATTGTTCTTGATTTGTT
1 -CTGGAAATTGTT-TTGATTTGTT
64524577 AGTCAGTACA
Statistics
Matches: 55, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
21 13 0.24
22 12 0.22
23 21 0.38
24 5 0.09
25 4 0.07
ACGTcount: A:0.19, C:0.07, G:0.22, T:0.52
Consensus pattern (22 bp):
CTGGAAATTGTTTTGATTTGTT
Found at i:64525551 original size:23 final size:23
Alignment explanation
Indices: 64525525--64525577 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
64525515 CAAAATTAGC
* *
64525525 ATTAAAATAAATATAATATAAAA
1 ATTAAAATAAATACAACATAAAA
**
64525548 ATTAATTTAAATACAACATAAAA
1 ATTAAAATAAATACAACATAAAA
*
64525571 AATAAAA
1 ATTAAAA
64525578 CCAGTAAAGT
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (23 bp):
ATTAAAATAAATACAACATAAAA
Found at i:64529402 original size:91 final size:91
Alignment explanation
Indices: 64529274--64529482 Score: 303
Period size: 91 Copynumber: 2.3 Consensus size: 91
64529264 ATTGATTTTA
* *
64529274 ATAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTATTAAATTA
1 ATAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTA
* *
64529339 TATTTAAT-ATTAATTATTTTAAATTGT
65 TATGTAATAATT-ATTATTTTAAATTAT
* *
64529366 ATAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTAT
1 ATAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTAT
64529431 ATGTAATAATTATTATTTTAAATTAT
66 ATGTAATAATTATTATTTTAAATTAT
* * * *
64529457 ACAAATTCATAAAATATAATTTATTA
1 ATAAATTCATATAAGAAAATTTATTA
64529483 GTTATAATTA
Statistics
Matches: 106, Mismatches: 10, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
91 86 0.81
92 20 0.19
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (91 bp):
ATAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTAT
ATGTAATAATTATTATTTTAAATTAT
Found at i:64529622 original size:120 final size:120
Alignment explanation
Indices: 64529498--64529790 Score: 491
Period size: 120 Copynumber: 2.4 Consensus size: 120
64529488 AATTATTTTA
* * * *
64529498 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTT-TCTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT--AATTTATATT
*
64529561 TTATAGTATCATATATTATGATTTCAGTAAATTCATATAAGAATATTAATTATTAAG
64 TTACAGTATCATATATTATGATTTCAGTAAATTCATATAAGAATATTAATTATTAAG
64529618 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
* *
64529683 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTCTTAAG
66 ACAGTATCATATATTATGATTTCAGTAAATTCATATAAGAATATTAATTATTAAG
64529738 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
64529791 TAAATATGAT
Statistics
Matches: 164, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
119 5 0.03
120 157 0.96
121 2 0.01
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTCAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:64529658 original size:15 final size:15
Alignment explanation
Indices: 64529623--64529674 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
64529613 TTAAGAATTT
*
64529623 TATTAAATTAT-ATA
1 TATTTAATTATAATA
64529637 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
64529651 TATTTAATAATAAT-
1 TATTTAATTATAATA
64529665 TATGTTAATT
1 TAT-TTAATT
64529675 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:64529773 original size:16 final size:16
Alignment explanation
Indices: 64529752--64529793 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
64529742 TTATTAAATT
*
64529752 ATATATTTTAATTATA
1 ATATATTTTAATAATA
64529768 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
64529783 AT-TATGTTTAA
1 ATATAT-TTTAA
64529794 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:64529778 original size:15 final size:15
Alignment explanation
Indices: 64529743--64529784 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
64529733 TTAAGAATTT
*
64529743 TATTAAATTAT-ATA
1 TATTTAATTATAATA
64529757 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
64529771 TATTTAATAATAAT
1 TATTTAATTATAAT
64529785 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:64529906 original size:157 final size:157
Alignment explanation
Indices: 64529727--64530043 Score: 589
Period size: 157 Copynumber: 2.0 Consensus size: 157
64529717 ATAAGAATAT
* *
64529727 TAATTCTTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
*
64529792 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
64529857 TAATAATTTACCAAAACAAATTTCTGC
131 TAATAATTTACCAAAACAAATTTATGC
64529884 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
64529949 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
64530014 TAATCATTTACCAAAACAAATTTATGC
131 TAATAATTTACCAAAACAAATTTATGC
64530041 TAA
1 TAA
64530044 GGGTATTCTA
Statistics
Matches: 155, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
157 155 1.00
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.44
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTATGC
Found at i:64529924 original size:18 final size:17
Alignment explanation
Indices: 64529896--64529930 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
64529886 ATTATTAAGA
*
64529896 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
64529913 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
64529931 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:64530187 original size:16 final size:16
Alignment explanation
Indices: 64530166--64530213 Score: 82
Period size: 16 Copynumber: 3.1 Consensus size: 16
64530156 GATTTGTTAT
64530166 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
64530182 TACACCTCTAAT--AA
1 TACACCTCTAATCCAA
64530196 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
64530212 TA
1 TA
64530214 GATTAAACCA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
14 14 0.47
16 16 0.53
ACGTcount: A:0.40, C:0.33, G:0.00, T:0.27
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:64534290 original size:44 final size:44
Alignment explanation
Indices: 64534236--64534332 Score: 167
Period size: 44 Copynumber: 2.2 Consensus size: 44
64534226 TGCGTGCTGT
64534236 TGACAGAACTTTGAGAGACTTGTCAATGCTAACAATTCTGAATTA
1 TGACA-AACTTTGAGAGACTTGTCAATGCTAACAATTCTGAATTA
**
64534281 TGACAAACTTTGAGAGACTTGTTTATGCTAACAATTCTGAATTA
1 TGACAAACTTTGAGAGACTTGTCAATGCTAACAATTCTGAATTA
64534325 TGACAAAC
1 TGACAAAC
64534333 GGCACGACGG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
44 45 0.90
45 5 0.10
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.32
Consensus pattern (44 bp):
TGACAAACTTTGAGAGACTTGTCAATGCTAACAATTCTGAATTA
Found at i:64541862 original size:19 final size:20
Alignment explanation
Indices: 64541838--64541877 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
64541828 AATAAACACC
*
64541838 AAAAAATTATTTTAAAAATA
1 AAAAAAGTATTTTAAAAATA
64541858 AAAAAAGTATTTTAAAAATA
1 AAAAAAGTATTTTAAAAATA
64541878 TTTTAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (20 bp):
AAAAAAGTATTTTAAAAATA
Found at i:64543303 original size:41 final size:41
Alignment explanation
Indices: 64543246--64543513 Score: 428
Period size: 41 Copynumber: 6.5 Consensus size: 41
64543236 TTTAACATAT
* * * *
64543246 TCACCGGCAATTAGCCTACTAGGCTTATAGCCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
64543287 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
**
64543328 TCACTAGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
* *
64543369 TCACCGACACTTAGCCTGCTAGGTTTATAGCCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
64543410 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
* * *
64543451 TCACTGACACTTAGCCTGCTAGGTTTATAACCTAATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
*
64543492 TCACCGGCACTTAGTCTGCTAG
1 TCACCGGCACTTAGCCTGCTAG
64543514 ACTTAAAGTC
Statistics
Matches: 209, Mismatches: 18, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 209 1.00
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.29
Consensus pattern (41 bp):
TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
Found at i:64543553 original size:123 final size:123
Alignment explanation
Indices: 64543246--64543567 Score: 427
Period size: 123 Copynumber: 2.6 Consensus size: 123
64543236 TTTAACATAT
* * * * * *
64543246 TCACCGGCAATTAGCCTACTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGGT
1 TCACCGACACTTAGCCTGCTAGACTTAAAGCCTGATTCAGATCACCAGCACTTAGCCTGCTAGGT
*
64543311 TTATAACCTGATTCAGATCACTAGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
66 TTATAACCTGATTCAGATCACTAGCACTTAGCCTGCTAGGTTTATAACCTAATTCAGA
** * *
64543369 TCACCGACACTTAGCCTGCTAGGTTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGGT
1 TCACCGACACTTAGCCTGCTAGACTTAAAGCCTGATTCAGATCACCAGCACTTAGCCTGCTAGGT
64543434 TTATAACCTGATTCAGATCACT-GACACTTAGCCTGCTAGGTTTATAACCTAATTCAGA
66 TTATAACCTGATTCAGATCACTAG-CACTTAGCCTGCTAGGTTTATAACCTAATTCAGA
* * * ** *
64543492 TCACCGGCACTTAGTCTGCTAGACTTAAAGTCTGAATT-ATTTCACCAGC-CTTAAGCTTGCTAG
1 TCACCGACACTTAGCCTGCTAGACTTAAAGCCTG-ATTCAGATCACCAGCACTT-AGCCTGCTAG
64543555 GTTT-TAAACCTGA
64 GTTTAT-AACCTGA
64543568 ACATTTCAAT
Statistics
Matches: 180, Mismatches: 15, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
122 5 0.03
123 172 0.96
124 3 0.02
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.30
Consensus pattern (123 bp):
TCACCGACACTTAGCCTGCTAGACTTAAAGCCTGATTCAGATCACCAGCACTTAGCCTGCTAGGT
TTATAACCTGATTCAGATCACTAGCACTTAGCCTGCTAGGTTTATAACCTAATTCAGA
Found at i:64545610 original size:36 final size:36
Alignment explanation
Indices: 64545570--64545760 Score: 238
Period size: 36 Copynumber: 5.0 Consensus size: 36
64545560 GGTAGCTTTA
64545570 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
64545606 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGAT-A-----AG---T
64545651 AGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 -GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
64545688 GTTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
64545724 GCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
64545760 G
1 G
64545761 GTAGCTTAGC
Statistics
Matches: 137, Mismatches: 8, Indels: 20
0.83 0.05 0.12
Matches are distributed among these distances:
36 99 0.72
37 2 0.01
40 2 0.01
42 2 0.01
45 2 0.01
46 30 0.22
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.29
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:64545671 original size:82 final size:82
Alignment explanation
Indices: 64545534--64545724 Score: 330
Period size: 82 Copynumber: 2.3 Consensus size: 82
64545524 TTTGAGTACT
64545534 TCTGATCAAGAGATAAAA-TGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAG
1 TCTGATCAAGAGA-AAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAG
64545598 TGATAAGTGCTACACTTA
65 TGATAAGTGCTACACTTA
*
64545616 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
* *
64545681 GATAAGTGTTATACTTA
66 GATAAGTGCTACACTTA
*
64545698 TCTGATCAAGTGAAAAAGTGATAAGTG
1 TCTGATCAAGAGAAAAAGTGATAAGTG
64545725 CTATACTTAT
Statistics
Matches: 103, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
81 3 0.03
82 100 0.97
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (82 bp):
TCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
GATAAGTGCTACACTTA
Found at i:64548940 original size:11 final size:11
Alignment explanation
Indices: 64548894--64548934 Score: 66
Period size: 11 Copynumber: 3.8 Consensus size: 11
64548884 GAGCTCTCTG
64548894 TTTT-TTTTAT
1 TTTTCTTTTAT
*
64548904 GTTTCTTTTAT
1 TTTTCTTTTAT
64548915 TTTTCTTTTAT
1 TTTTCTTTTAT
64548926 TTTTCTTTT
1 TTTTCTTTT
64548935 CGTTTTGGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
10 3 0.11
11 25 0.89
ACGTcount: A:0.07, C:0.07, G:0.02, T:0.83
Consensus pattern (11 bp):
TTTTCTTTTAT
Found at i:64548940 original size:22 final size:21
Alignment explanation
Indices: 64548893--64548940 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
64548883 TGAGCTCTCT
64548893 GTTTTTTTTATGTTTCTTTTA
1 GTTTTTTTTATGTTTCTTTTA
* * *
64548914 TTTTTCTTTTATTTTTCTTTTC
1 GTTTT-TTTTATGTTTCTTTTA
64548936 GTTTT
1 GTTTT
64548941 GGAAAAATGA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.06, C:0.08, G:0.06, T:0.79
Consensus pattern (21 bp):
GTTTTTTTTATGTTTCTTTTA
Found at i:64553035 original size:27 final size:26
Alignment explanation
Indices: 64553012--64553061 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
64553002 AGCTTTATAT
64553012 ATATTTTT-TCTAATTTGGTATTTAA
1 ATATTTTTGTCTAATTTGGTATTTAA
*
64553037 ATTTTTTTGGTCTAATTTGGTATTT
1 ATATTTTT-GTCTAATTTGGTATTT
64553062 GAACTTGACT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 7 0.32
27 15 0.68
ACGTcount: A:0.22, C:0.04, G:0.12, T:0.62
Consensus pattern (26 bp):
ATATTTTTGTCTAATTTGGTATTTAA
Found at i:64554005 original size:27 final size:27
Alignment explanation
Indices: 64553928--64554011 Score: 105
Period size: 27 Copynumber: 3.1 Consensus size: 27
64553918 CATGTTGCGG
* * *
64553928 CTATTTGATAGGCGCAACTAGTTAAGC
1 CTATCTGAAAGGCGCAACTAGTTGAGC
* *
64553955 CTATCTCAAAGGCGCGACTAGTTGAGC
1 CTATCTGAAAGGCGCAACTAGTTGAGC
* *
64553982 CTATCTGACAGGCGCAACTAGTTGTGC
1 CTATCTGAAAGGCGCAACTAGTTGAGC
64554009 CTA
1 CTA
64554012 ACTCAGATGC
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (27 bp):
CTATCTGAAAGGCGCAACTAGTTGAGC
Found at i:64554023 original size:27 final size:27
Alignment explanation
Indices: 64553937--64554016 Score: 106
Period size: 27 Copynumber: 3.0 Consensus size: 27
64553927 GCTATTTGAT
*
64553937 AGGCGCAACTAGTTAAGCCTATCTCAA
1 AGGCGCAACTAGTTGAGCCTATCTCAA
* * *
64553964 AGGCGCGACTAGTTGAGCCTATCTGAC
1 AGGCGCAACTAGTTGAGCCTATCTCAA
* *
64553991 AGGCGCAACTAGTTGTGCCTAACTCA
1 AGGCGCAACTAGTTGAGCCTATCTCA
64554017 GATGCGCGAA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.28, C:0.26, G:0.24, T:0.23
Consensus pattern (27 bp):
AGGCGCAACTAGTTGAGCCTATCTCAA
Found at i:64554038 original size:54 final size:54
Alignment explanation
Indices: 64553928--64554038 Score: 123
Period size: 54 Copynumber: 2.1 Consensus size: 54
64553918 CATGTTGCGG
* * * * *
64553928 CTATTTGATAGGCGCAACTAGTTAAGCCTATCTCAAAGGCGCGACTAGTTGAGC
1 CTATCTGACAGGCGCAACTAGTTAAGCCTAACTCAAAGGCGCGAATAGTGGAGC
** * * * *
64553982 CTATCTGACAGGCGCAACTAGTTGTGCCTAACTCAGATGCGCGAATGGTGGGGC
1 CTATCTGACAGGCGCAACTAGTTAAGCCTAACTCAAAGGCGCGAATAGTGGAGC
64554036 CTA
1 CTA
64554039 CTGCTGCTTA
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
54 46 1.00
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (54 bp):
CTATCTGACAGGCGCAACTAGTTAAGCCTAACTCAAAGGCGCGAATAGTGGAGC
Found at i:64554443 original size:11 final size:12
Alignment explanation
Indices: 64554425--64554453 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
64554415 CTGACAGACA
64554425 TGACCCGTATTT
1 TGACCCGTATTT
64554437 T-ACCCGTATTT
1 TGACCCGTATTT
64554448 TGACCC
1 TGACCC
64554454 ATTGACTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.17, C:0.31, G:0.14, T:0.38
Consensus pattern (12 bp):
TGACCCGTATTT
Found at i:64559400 original size:31 final size:34
Alignment explanation
Indices: 64559365--64559426 Score: 85
Period size: 31 Copynumber: 1.9 Consensus size: 34
64559355 TGTCTCCCTA
*
64559365 AACTTCACAATTGT-TTCT-ATATT-GGGCCATG
1 AACTTCACAATCGTATTCTCATATTAGGGCCATG
*
64559396 AACTTGACAATCGTATTCTCATATTAGGGCC
1 AACTTCACAATCGTATTCTCATATTAGGGCC
64559427 TAAATTTTGG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
31 12 0.46
32 4 0.15
33 5 0.19
34 5 0.19
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.35
Consensus pattern (34 bp):
AACTTCACAATCGTATTCTCATATTAGGGCCATG
Found at i:64568026 original size:10 final size:11
Alignment explanation
Indices: 64568010--64568058 Score: 50
Period size: 10 Copynumber: 4.6 Consensus size: 11
64568000 TCATTTATTA
64568010 AAATATTTTTT
1 AAATATTTTTT
*
64568021 -AATA-TTTTA
1 AAATATTTTTT
64568030 AAATAATTTTTT
1 AAAT-ATTTTTT
*
64568042 GAAT-TTTTTT
1 AAATATTTTTT
64568052 AAATATT
1 AAATATT
64568059 AAAAATTAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
9 4 0.13
10 16 0.53
11 3 0.10
12 7 0.23
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (11 bp):
AAATATTTTTT
Found at i:64568032 original size:20 final size:21
Alignment explanation
Indices: 64568007--64568058 Score: 70
Period size: 22 Copynumber: 2.5 Consensus size: 21
64567997 ATCTCATTTA
64568007 TTAAAATATTTTTT-AATATT
1 TTAAAATATTTTTTGAATATT
*
64568027 TTAAAATAATTTTTTGAATTTT
1 TTAAAAT-ATTTTTTGAATATT
*
64568049 TTTAAATATT
1 TTAAAATATT
64568059 AAAAATTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 7 0.25
21 10 0.36
22 11 0.39
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (21 bp):
TTAAAATATTTTTTGAATATT
Found at i:64583047 original size:208 final size:209
Alignment explanation
Indices: 64582638--64583055 Score: 759
Period size: 209 Copynumber: 2.0 Consensus size: 209
64582628 AGTCCACTAA
* * *
64582638 AATTCATGCTACACATAACATGAAACCTGTAATTCAATCATTTGGATCTAGCAGCATACAAAGGA
1 AATTCATGC-ACACACAACATGAAACCTGTAATTCAATCATTTGGATCCAGCAGCATAAAAAGGA
64582703 AATTGAAGGGCCAAAATGAAAAAGAAATTTTTATATCATTGTGTAATCTTGTTTCTAGAACAGAA
65 AATTGAAGGGCCAAAATGAAAAAGAAATTTTTATATCATTGTGTAATCTTGTTTCTAGAACAGAA
*
64582768 TCAATCACAAGTACTGTAGGGCTAAAATGTAATGAACCACCCATACTTTAGTGACTTGAGCAAAG
130 TCAATCACAAGTACTATAGGGCTAAAATGTAATGAACCACCCATACTTTAGTGACTTGAGCAAAG
64582833 GGCATTCATACCAGT
195 GGCATTCATACCAGT
64582848 AATTCATGC-CACACAACATGAAACCTGTAATTCAATCATTTGGATCCAGCAGCATAAAAAGGAA
1 AATTCATGCACACACAACATGAAACCTGTAATTCAATCATTTGGATCCAGCAGCATAAAAAGGAA
64582912 ATTGAAGGGCCAAAATGAAAAAGAAATTTTTTATATCATTGTGTAATCTTGTTTCTAGAACAGAA
66 ATTGAAGGGCCAAAATGAAAAAGAAA-TTTTTATATCATTGTGTAATCTTGTTTCTAGAACAGAA
*
64582977 TCAATCACAAGTATTATAGGGCTAAAATGTAATGAACCACCCATACTTTAGTGACTTGAGCAAA-
130 TCAATCACAAGTACTATAGGGCTAAAATGTAATGAACCACCCATACTTTAGTGACTTGAGCAAAG
64583041 GGCATTCATACCAGT
195 GGCATTCATACCAGT
64583056 CAGTAATTAT
Statistics
Matches: 202, Mismatches: 5, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
208 93 0.46
209 100 0.50
210 9 0.04
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.28
Consensus pattern (209 bp):
AATTCATGCACACACAACATGAAACCTGTAATTCAATCATTTGGATCCAGCAGCATAAAAAGGAA
ATTGAAGGGCCAAAATGAAAAAGAAATTTTTATATCATTGTGTAATCTTGTTTCTAGAACAGAAT
CAATCACAAGTACTATAGGGCTAAAATGTAATGAACCACCCATACTTTAGTGACTTGAGCAAAGG
GCATTCATACCAGT
Found at i:64595524 original size:10 final size:10
Alignment explanation
Indices: 64595498--64595571 Score: 53
Period size: 10 Copynumber: 7.1 Consensus size: 10
64595488 TAAAAAAAGG
64595498 TATTTTAAAAA
1 TATTTT-AAAA
*
64595509 TATTTTAAAC
1 TATTTTAAAA
64595519 TATTTTAAAA
1 TATTTTAAAA
***
64595529 T-TAAAAAAA
1 TATTTTAAAA
64595538 T-TTTTAAAAAA
1 TATTTT--AAAA
64595549 GTATTTTAAAAA
1 -TATTTT-AAAA
64595561 TATTTTAAAA
1 TATTTTAAAA
64595571 T
1 T
64595572 TAAAAAAAAT
Statistics
Matches: 51, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
9 7 0.14
10 18 0.35
11 16 0.31
12 6 0.12
13 4 0.08
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (10 bp):
TATTTTAAAA
Found at i:64595546 original size:12 final size:12
Alignment explanation
Indices: 64595529--64595570 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
64595519 TATTTTAAAA
64595529 TTAAAAAAATTT
1 TTAAAAAAATTT
*
64595541 TTAAAAAAGTATT
1 TTAAAAAAAT-TT
*
64595554 TTAAAAATA-TT
1 TTAAAAAAATTT
64595565 TTAAAA
1 TTAAAA
64595571 TTAAAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
11 8 0.31
12 9 0.35
13 9 0.35
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (12 bp):
TTAAAAAAATTT
Found at i:64595553 original size:52 final size:53
Alignment explanation
Indices: 64595490--64595611 Score: 155
Period size: 52 Copynumber: 2.3 Consensus size: 53
64595480 TAAAAAATTA
**
64595490 AAAAAAGGTATTTTAAAAATATTTTAAACTATT-TTAAAATTAAAAAAA-T-TTTT
1 AAAAAA-GTATTTTAAAAATATTTTAAA--ATTAAAAAAATTAAAAAAAGTATTTT
64595543 AAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAAATTAAAAAAAGTATTTT
1 AAAAAAGTATTTTAAAAATATTTTAAAATT-AAAAAAATTAAAAAAAGTATTTT
64595597 -AAAAA-TATTTTAAAA
1 AAAAAAGTATTTTAAAA
64595612 TTAAAAAAAA
Statistics
Matches: 63, Mismatches: 2, Indels: 9
0.85 0.03 0.12
Matches are distributed among these distances:
50 3 0.05
52 44 0.70
53 12 0.19
54 4 0.06
ACGTcount: A:0.58, C:0.01, G:0.03, T:0.38
Consensus pattern (53 bp):
AAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATTAAAAAAAGTATTTT
Found at i:64595554 original size:41 final size:41
Alignment explanation
Indices: 64595483--64595706 Score: 256
Period size: 41 Copynumber: 5.4 Consensus size: 41
64595473 TTTATTTTAA
* *
64595483 AAAATTAAAAAAAGGTATTTTAAAAA-TATTTTAAACTATTTT
1 AAAATTAAAAAAA--TATTTAAAAAAGTATTTTAAAATATTTT
*
64595525 AAAATTAAAAAAATTTTTAAAAAAGTATTTTAAAAATATTTT
1 AAAATTAAAAAAATATTTAAAAAAGTATTTT-AAAATATTTT
*
64595567 AAAATTAAAAAAA-ATTAAAAAAAGTATTTTAAAAATATTTT
1 AAAATTAAAAAAATATTTAAAAAAGTATTTT-AAAATATTTT
* * *
64595608 AAAATTAAAAAAA-ATTAAAAAAAGTATGTAAAAATATTTT
1 AAAATTAAAAAAATATTTAAAAAAGTATTTTAAAATATTTT
*** * **
64595648 AAAATTAAAATTTTTTTTAAAAAAAGTATGTAAAAAATATTTT
1 AAAATTAAAAAAATATTT-AAAAAAGTAT-TTTAAAATATTTT
64595691 AAAATTAAAAAAATAT
1 AAAATTAAAAAAATAT
64595707 ATATATTTAT
Statistics
Matches: 159, Mismatches: 18, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
40 29 0.18
41 62 0.39
42 45 0.28
43 23 0.14
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (41 bp):
AAAATTAAAAAAATATTTAAAAAAGTATTTTAAAATATTTT
Found at i:64595586 original size:9 final size:10
Alignment explanation
Indices: 64595567--64595630 Score: 51
Period size: 10 Copynumber: 6.3 Consensus size: 10
64595557 AAAATATTTT
64595567 AAAATTAAAA
1 AAAATTAAAA
64595577 AAAATTAAAA
1 AAAATTAAAA
*
64595587 AAAGTATTTTAAA
1 AAA--A-TTAAAA
* **
64595600 AATATT--TT
1 AAAATTAAAA
64595608 AAAATTAAAA
1 AAAATTAAAA
64595618 AAAATTAAAA
1 AAAATTAAAA
64595628 AAA
1 AAA
64595631 GTATGTAAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
8 5 0.12
10 28 0.67
11 1 0.02
12 1 0.02
13 7 0.17
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (10 bp):
AAAATTAAAA
Found at i:64595669 original size:83 final size:83
Alignment explanation
Indices: 64595504--64595706 Score: 270
Period size: 83 Copynumber: 2.5 Consensus size: 83
64595494 AAGGTATTTT
* * * *
64595504 AAAAA-TATTTT-AAACTATTTTAAAATTAAAAAAATTTTTAAAAAAGTATTTTAAAAATATTTT
1 AAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATATTAAAAAAAGTATTGTAAAAATATTTT
64595567 AAAATTAAAAAAAATTAA
66 AAAATTAAAAAAAATTAA
64595585 AAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAA-ATTAAAAAAAGTA-TGTAAAAATATTTT
1 AAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATATTAAAAAAAGTATTGTAAAAATATTTT
****
64595648 AAAATTAAAATTTTTTTTAA
66 AAAATTAAAA--AAAATTAA
* *
64595668 AAAAAGTATGTAAAAAATATTTTAAAATTAAAAAAATAT
1 AAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATAT
64595707 ATATATTTAT
Statistics
Matches: 107, Mismatches: 10, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
81 28 0.26
82 17 0.16
83 60 0.56
84 2 0.02
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (83 bp):
AAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATATTAAAAAAAGTATTGTAAAAATATTTT
AAAATTAAAAAAAATTAA
Found at i:64604660 original size:34 final size:34
Alignment explanation
Indices: 64604611--64604679 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 34
64604601 GCCAGTAAAA
64604611 TATTTTTCGTAAAATGATTT-CTGGAAAATATTT
1 TATTTTTCGTAAAATGATTTACTGGAAAATATTT
64604644 TATTTTTCTGTAAAATGATTTACTGGAAAATATTT
1 TATTTTTC-GTAAAATGATTTACTGGAAAATATTT
64604679 T
1 T
64604680 CTGGTGTTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
33 8 0.24
34 12 0.35
35 14 0.41
ACGTcount: A:0.33, C:0.06, G:0.12, T:0.49
Consensus pattern (34 bp):
TATTTTTCGTAAAATGATTTACTGGAAAATATTT
Found at i:64608094 original size:21 final size:21
Alignment explanation
Indices: 64608068--64608107 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
64608058 CCAAGCTCCT
* *
64608068 ATCTTCTTCCTCTTCATCGTC
1 ATCTTCTTCATCGTCATCGTC
64608089 ATCTTCTTCATCGTCATCG
1 ATCTTCTTCATCGTCATCG
64608108 AACTCCGAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.12, C:0.35, G:0.07, T:0.45
Consensus pattern (21 bp):
ATCTTCTTCATCGTCATCGTC
Found at i:64608098 original size:15 final size:15
Alignment explanation
Indices: 64608078--64608106 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
64608068 ATCTTCTTCC
64608078 TCTTCATCGTCATCT
1 TCTTCATCGTCATCT
64608093 TCTTCATCGTCATC
1 TCTTCATCGTCATC
64608107 GAACTCCGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.34, G:0.07, T:0.45
Consensus pattern (15 bp):
TCTTCATCGTCATCT
Found at i:64610003 original size:47 final size:47
Alignment explanation
Indices: 64609940--64610034 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
64609930 TTAAAATACA
64609940 TAGCCAGCAACCAGTCTAAGTGCTAAACCAATCTTGCAAACACATAT
1 TAGCCAGCAACCAGTCTAAGTGCTAAACCAATCTTGCAAACACATAT
64609987 TAGCCAGCAACCAGTCTAAGTGCTAAACCAATCTTGCAAACACATAT
1 TAGCCAGCAACCAGTCTAAGTGCTAAACCAATCTTGCAAACACATAT
64610034 T
1 T
64610035 TACAAAAGCA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.38, C:0.27, G:0.13, T:0.22
Consensus pattern (47 bp):
TAGCCAGCAACCAGTCTAAGTGCTAAACCAATCTTGCAAACACATAT
Found at i:64612468 original size:15 final size:17
Alignment explanation
Indices: 64612435--64612470 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
64612425 TTTTTGTTTT
64612435 TACTTCCTTTTTATATA
1 TACTTCCTTTTTATATA
64612452 TACTTCCTTTTTATATA
1 TACTTCCTTTTTATATA
64612469 TA
1 TA
64612471 AAAGAGTAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.25, C:0.17, G:0.00, T:0.58
Consensus pattern (17 bp):
TACTTCCTTTTTATATA
Found at i:64624339 original size:18 final size:18
Alignment explanation
Indices: 64624316--64624350 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
64624306 CGATAAATCT
64624316 TTAAAATATTTATTTTAC
1 TTAAAATATTTATTTTAC
*
64624334 TTAAAATTTTTATTTTA
1 TTAAAATATTTATTTTA
64624351 AATTAAGTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (18 bp):
TTAAAATATTTATTTTAC
Found at i:64626955 original size:19 final size:20
Alignment explanation
Indices: 64626933--64626975 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
64626923 AATAATTTAA
64626933 CAAA-CAATACATCATTTTC
1 CAAACCAATACATCATTTTC
* *
64626952 CAAACCCATACTTCATTTTC
1 CAAACCAATACATCATTTTC
64626972 CAAA
1 CAAA
64626976 TTTAATATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.40, C:0.30, G:0.00, T:0.30
Consensus pattern (20 bp):
CAAACCAATACATCATTTTC
Found at i:64629386 original size:11 final size:10
Alignment explanation
Indices: 64629368--64629421 Score: 58
Period size: 10 Copynumber: 5.3 Consensus size: 10
64629358 TTTTTTTAAA
64629368 ATTT-TAATT
1 ATTTATAATT
64629377 CATTTATAATTT
1 -ATTTATAA-TT
*
64629389 ATTTATGATT
1 ATTTATAATT
64629399 ATTTATATATT
1 ATTTATA-ATT
64629410 -TTTATAATT
1 ATTTATAATT
64629419 ATT
1 ATT
64629422 AGATTTTTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
9 3 0.08
10 20 0.53
11 13 0.34
12 2 0.05
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (10 bp):
ATTTATAATT
Found at i:64629681 original size:29 final size:29
Alignment explanation
Indices: 64629614--64629682 Score: 86
Period size: 28 Copynumber: 2.4 Consensus size: 29
64629604 CGAATATAAT
* *
64629614 AAATATATATTTTTAATTTTTTAATTTTA
1 AAATAAATTTTTTTAATTTTTTAATTTTA
* * *
64629643 AAAT-ACTTTTTTTTATTTTTTATTTTTA
1 AAATAAATTTTTTTAATTTTTTAATTTTA
64629671 AAATAAATTTTT
1 AAATAAATTTTT
64629683 AGTGTTTATT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
28 23 0.70
29 10 0.30
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (29 bp):
AAATAAATTTTTTTAATTTTTTAATTTTA
Found at i:64636354 original size:26 final size:27
Alignment explanation
Indices: 64636305--64636364 Score: 113
Period size: 26 Copynumber: 2.3 Consensus size: 27
64636295 AAAAATAACT
64636305 AAAATATTATAACTTTTTTTATTTACC
1 AAAATATTATAACTTTTTTTATTTACC
64636332 AAAATATTATAA-TTTTTTTATTTACC
1 AAAATATTATAACTTTTTTTATTTACC
64636358 AAAATAT
1 AAAATAT
64636365 ACCAAAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 21 0.64
27 12 0.36
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (27 bp):
AAAATATTATAACTTTTTTTATTTACC
Found at i:64636777 original size:19 final size:19
Alignment explanation
Indices: 64636753--64636818 Score: 80
Period size: 19 Copynumber: 3.5 Consensus size: 19
64636743 ATTAAAATAG
64636753 TTTAATTTAATAACTCTAT
1 TTTAATTTAATAACTCTAT
* *
64636772 TTTAATGTAATAA-ACTAT
1 TTTAATTTAATAACTCTAT
* * *
64636790 TCTCATTTAATAACTTTAT
1 TTTAATTTAATAACTCTAT
64636809 TTTAATTTAA
1 TTTAATTTAA
64636819 AAAAATTAAA
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
18 14 0.38
19 23 0.62
ACGTcount: A:0.38, C:0.09, G:0.02, T:0.52
Consensus pattern (19 bp):
TTTAATTTAATAACTCTAT
Found at i:64637089 original size:18 final size:19
Alignment explanation
Indices: 64637050--64637108 Score: 84
Period size: 19 Copynumber: 3.2 Consensus size: 19
64637040 AATTTATATT
64637050 TTAAATGAAAATAGAGTTA
1 TTAAATGAAAATAGAGTTA
* *
64637069 TTAAATGAGAATAG-TTTA
1 TTAAATGAAAATAGAGTTA
*
64637087 TTAAATTAAAATAGAGTTA
1 TTAAATGAAAATAGAGTTA
64637106 TTA
1 TTA
64637109 CTTAATTAGA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
18 15 0.44
19 19 0.56
ACGTcount: A:0.49, C:0.00, G:0.14, T:0.37
Consensus pattern (19 bp):
TTAAATGAAAATAGAGTTA
Found at i:64639894 original size:23 final size:23
Alignment explanation
Indices: 64639863--64639907 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
64639853 TAAATATGTA
*
64639863 TAAATCTAAAAAA-TTCTTAAAAG
1 TAAAACTAAAAAAGTT-TTAAAAG
64639886 TAAAACTAAAAAAGTTTTAAAA
1 TAAAACTAAAAAAGTTTTAAAA
64639908 CTAATGCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 18 0.90
24 2 0.10
ACGTcount: A:0.60, C:0.07, G:0.04, T:0.29
Consensus pattern (23 bp):
TAAAACTAAAAAAGTTTTAAAAG
Found at i:64642054 original size:3 final size:3
Alignment explanation
Indices: 64642046--64642078 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
64642036 ACAAGAAAAT
64642046 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
64642079 GCAATTTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:64643020 original size:17 final size:17
Alignment explanation
Indices: 64642958--64643112 Score: 107
Period size: 18 Copynumber: 8.8 Consensus size: 17
64642948 ACTTTTTTTG
*
64642958 TTTTT-AAACACGAGAA
1 TTTTTGAAACACGAAAA
*
64642974 -TTTTGAAACACAATAATAA
1 TTTTTGAAACAC--GAA-AA
*
64642993 TTTTTGAAAACACGAAGA
1 TTTTTG-AAACACGAAAA
**
64643011 TTTTTGAAACACGGAATT
1 TTTTTGAAACAC-GAAAA
*
64643029 TTTTTGAAAACACGGAAA
1 TTTTTG-AAACACGAAAA
* * * *
64643047 TTTTCGATACATGAGAA
1 TTTTTGAAACACGAAAA
***
64643064 TTTTTTTGACACGAAAA
1 TTTTTGAAACACGAAAA
*
64643081 ATTTTGAAAACACGAAAA
1 TTTTTG-AAACACGAAAA
64643099 TTTTTGAAACACGA
1 TTTTTGAAACACGA
64643113 TTTTTTTTAA
Statistics
Matches: 105, Mismatches: 25, Indels: 17
0.71 0.17 0.12
Matches are distributed among these distances:
15 4 0.04
16 6 0.06
17 36 0.34
18 38 0.36
19 10 0.10
20 5 0.05
21 6 0.06
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.32
Consensus pattern (17 bp):
TTTTTGAAACACGAAAA
Found at i:64643111 original size:35 final size:34
Alignment explanation
Indices: 64642958--64643112 Score: 100
Period size: 35 Copynumber: 4.4 Consensus size: 34
64642948 ACTTTTTTTG
* *
64642958 TTTTT-AAACACG-AGAATTTTGAAACACAATAATAA
1 TTTTTGAAACACGAAAAATTTTGAAACAC--GAA-AA
* * **
64642993 TTTTTGAAAACACGAAGATTTTTGAAACACGGAATT
1 TTTTTG-AAACACGAAAAATTTTGAAACAC-GAAAA
* * * *
64643029 TTTTTGAAAACACG-GAAATTTTCGATACATGAGAA
1 TTTTTG-AAACACGAAAAATTTT-GAAACACGAAAA
***
64643064 TTTTTTTGACACGAAAAATTTTGAAAACACGAAAA
1 TTTTTGAAACACGAAAAATTTTG-AAACACGAAAA
64643099 TTTTTGAAACACGA
1 TTTTTGAAACACGA
64643113 TTTTTTTTAA
Statistics
Matches: 91, Mismatches: 23, Indels: 12
0.72 0.18 0.10
Matches are distributed among these distances:
34 6 0.07
35 43 0.47
36 19 0.21
37 9 0.10
38 14 0.15
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.32
Consensus pattern (34 bp):
TTTTTGAAACACGAAAAATTTTGAAACACGAAAA
Found at i:64644076 original size:16 final size:17
Alignment explanation
Indices: 64644050--64644093 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 17
64644040 AATAGTTTAC
64644050 AATAAATAATTT-AAACA
1 AATAAA-AATTTAAAACA
64644067 AATAAAAATTTAAAAACA
1 AATAAAAATTT-AAAACA
64644085 AATAAAAAT
1 AATAAAAAT
64644094 AAAAAGAGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.20
17 6 0.24
18 14 0.56
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (17 bp):
AATAAAAATTTAAAACA
Found at i:64645283 original size:15 final size:14
Alignment explanation
Indices: 64645258--64645300 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
64645248 CATTTTTTGA
*
64645258 TTTGGGCTAGGGTT
1 TTTGGGTTAGGGTT
64645272 TATTGGGTTAGGGGTT
1 T-TTGGGTTA-GGGTT
*
64645288 TTTGGATTAGGGT
1 TTTGGGTTAGGGT
64645301 AGGTTAGTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 5 0.20
15 14 0.56
16 6 0.24
ACGTcount: A:0.12, C:0.02, G:0.42, T:0.44
Consensus pattern (14 bp):
TTTGGGTTAGGGTT
Found at i:64646047 original size:73 final size:72
Alignment explanation
Indices: 64645924--64646119 Score: 295
Period size: 73 Copynumber: 2.7 Consensus size: 72
64645914 AACATGTGAA
* * * *
64645924 CTGAGGCTCAACTCACTT-TCGCAATATGAGTTGATTTTTTTGACAACAGAAATTGAAATTACCT
1 CTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA--ATTTTGAAAACAGAAATTGAAAATACCT
*
64645988 CAGCATGTC
64 CAACATGTC
64645997 CTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTC
1 CTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAAATACCTC
*
64646062 AACGTGTC
65 AACATGTC
*
64646070 TTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAA
1 CTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAA
64646120 TATGAGTTGA
Statistics
Matches: 114, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
72 13 0.11
73 85 0.75
74 16 0.14
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (72 bp):
CTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCA
ACATGTC
Found at i:64646705 original size:75 final size:75
Alignment explanation
Indices: 64646528--64646865 Score: 445
Period size: 75 Copynumber: 4.5 Consensus size: 75
64646518 AGTGTGTAAT
* *
64646528 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAAAACAGAAATTGAAAATAC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTT-GAAAACAGAAATTGAAAATAC
* *
64646593 CTCAGCATGTGAAC
65 CTCA--ACGTG-TC
*
64646607 C-GAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTGAAAACAGAAATTGAAAATACC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAACAGAAATTGAAAATACC
64646671 TCAACGTGTC
66 TCAACGTGTC
* ** * *
64646681 TTGAGGCTCAACTCATTTCTCGCAATAT-AGTTGA---ATTTTGAAAACAGAAATTGAAATTACC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAACAGAAATTGAAAATACC
*
64646742 TCAGCGTGTC
66 TCAACGTGTC
** *
64646752 CTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTT-AACAACAGAAATTGAAATTAC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAA-AACAGAAATTGAAAATAC
*
64646816 CTCAGCGTGTC
65 CTCAACGTGTC
*
64646827 CTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
64646866 GAAAAACAAA
Statistics
Matches: 237, Mismatches: 16, Indels: 16
0.88 0.06 0.06
Matches are distributed among these distances:
71 61 0.26
72 6 0.03
74 9 0.04
75 97 0.41
77 24 0.10
78 39 0.16
79 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (75 bp):
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAACAGAAATTGAAAATACC
TCAACGTGTC
Found at i:64646791 original size:146 final size:148
Alignment explanation
Indices: 64646528--64646883 Score: 463
Period size: 146 Copynumber: 2.4 Consensus size: 148
64646518 AGTGTGTAAT
* * *
64646528 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAAAACAGAAATTGAAAATAC
1 CTGAGGCTCAACTCACCTCTAGCAATATGAGTTGA----TTTTGAAAAACAGAAATTGAAAATAC
64646593 CTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTGAA-AACAG
62 CTCAGCA-GTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTT-AACAACAG
64646657 AAATTGAAAATACCTCAACGTGTC
125 AAATTGAAAATACCTCAACGTGTC
* ** * *
64646681 TTGAGGCTCAACTCATTTCTCGCAATAT-AGTTGAATTTTG-AAAACAGAAATTGAAATTACCTC
1 CTGAGGCTCAACTCACCTCTAGCAATATGAGTTG-ATTTTGAAAAACAGAAATTGAAAATACCTC
* ** *
64646744 AGC-GTG-TCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTAACAACAGAAAT
65 AGCAGTGAACC-GAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTAACAACAGAAAT
* *
64646807 TGAAATTACCTCAGCGTGTC
129 TGAAAATACCTCAACGTGTC
*
64646827 CTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATT-AAAA
1 CTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAGAAATTGAAAA
64646884 GGCTTAACTC
Statistics
Matches: 180, Mismatches: 18, Indels: 17
0.84 0.08 0.08
Matches are distributed among these distances:
145 4 0.02
146 101 0.56
147 16 0.09
148 25 0.14
149 4 0.02
152 5 0.03
153 25 0.14
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.31
Consensus pattern (148 bp):
CTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAGAAATTGAAAATACCTCA
GCAGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTAACAACAGAAATTG
AAAATACCTCAACGTGTC
Found at i:64647035 original size:66 final size:67
Alignment explanation
Indices: 64646883--64647052 Score: 195
Period size: 66 Copynumber: 2.5 Consensus size: 67
64646873 AAAAATTAAA
* * * **
64646883 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTAAAACATAAACTAAAAATACCTCGGCGTG
1 AGGCTCAACTCA-CTCTCGCAATATGAGTTGATTTTAAAACATAAAC-AAAAATACCTCAACGTG
64646947 CCCG
64 CCCG
*
64646951 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAA-A-AAA-AAAAATACCTCAACGTGT
1 AGGCTCAACTCAC-TCTCGCAATATGAGTTGATTTTAAAACATAAACAAAAATACCTCAACGTG-
**
64647013 CTTG
64 CCCG
64647017 AGGCTCAACTCATCTCTCGCAATATGAGTTGATTTT
1 AGGCTCAACTCA-CTCTCGCAATATGAGTTGATTTT
64647053 CCTTGGAAAG
Statistics
Matches: 90, Mismatches: 8, Indels: 10
0.83 0.07 0.09
Matches are distributed among these distances:
65 15 0.17
66 36 0.40
67 5 0.06
68 26 0.29
69 8 0.09
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (67 bp):
AGGCTCAACTCACTCTCGCAATATGAGTTGATTTTAAAACATAAACAAAAATACCTCAACGTGCC
CG
Found at i:64656837 original size:17 final size:17
Alignment explanation
Indices: 64656775--64656929 Score: 107
Period size: 18 Copynumber: 8.8 Consensus size: 17
64656765 ACTTTTTTTG
*
64656775 TTTTT-AAACACGAGAA
1 TTTTTGAAACACGAAAA
*
64656791 -TTTTGAAACACAATAATAA
1 TTTTTGAAACAC--GAA-AA
*
64656810 TTTTTGAAAACACGAAGA
1 TTTTTG-AAACACGAAAA
**
64656828 TTTTTGAAACACGGAATT
1 TTTTTGAAACAC-GAAAA
*
64656846 TTTTTGAAAACACGGAAA
1 TTTTTG-AAACACGAAAA
* * * *
64656864 TTTTCGATACATGAGAA
1 TTTTTGAAACACGAAAA
***
64656881 TTTTTTTGACACGAAAA
1 TTTTTGAAACACGAAAA
*
64656898 ATTTTGAAAACACGAAAA
1 TTTTTG-AAACACGAAAA
64656916 TTTTTGAAACACGA
1 TTTTTGAAACACGA
64656930 TTTTTTTAAA
Statistics
Matches: 105, Mismatches: 25, Indels: 17
0.71 0.17 0.12
Matches are distributed among these distances:
15 4 0.04
16 6 0.06
17 36 0.34
18 38 0.36
19 10 0.10
20 5 0.05
21 6 0.06
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.32
Consensus pattern (17 bp):
TTTTTGAAACACGAAAA
Found at i:64656928 original size:35 final size:34
Alignment explanation
Indices: 64656775--64656929 Score: 100
Period size: 35 Copynumber: 4.4 Consensus size: 34
64656765 ACTTTTTTTG
* *
64656775 TTTTT-AAACACG-AGAATTTTGAAACACAATAATAA
1 TTTTTGAAACACGAAAAATTTTGAAACAC--GAA-AA
* * **
64656810 TTTTTGAAAACACGAAGATTTTTGAAACACGGAATT
1 TTTTTG-AAACACGAAAAATTTTGAAACAC-GAAAA
* * * *
64656846 TTTTTGAAAACACG-GAAATTTTCGATACATGAGAA
1 TTTTTG-AAACACGAAAAATTTT-GAAACACGAAAA
***
64656881 TTTTTTTGACACGAAAAATTTTGAAAACACGAAAA
1 TTTTTGAAACACGAAAAATTTTG-AAACACGAAAA
64656916 TTTTTGAAACACGA
1 TTTTTGAAACACGA
64656930 TTTTTTTAAA
Statistics
Matches: 91, Mismatches: 23, Indels: 12
0.72 0.18 0.10
Matches are distributed among these distances:
34 6 0.07
35 43 0.47
36 19 0.21
37 9 0.10
38 14 0.15
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.32
Consensus pattern (34 bp):
TTTTTGAAACACGAAAAATTTTGAAACACGAAAA
Found at i:64657900 original size:16 final size:17
Alignment explanation
Indices: 64657874--64657917 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 17
64657864 AATAGTTTAC
64657874 AATAAATAATTT-AAACA
1 AATAAA-AATTTAAAACA
64657891 AATAAAAATTTAAAAACA
1 AATAAAAATTT-AAAACA
64657909 AATAAAAAT
1 AATAAAAAT
64657918 AAAAGAGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.20
17 6 0.24
18 14 0.56
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (17 bp):
AATAAAAATTTAAAACA
Found at i:64659108 original size:15 final size:14
Alignment explanation
Indices: 64659083--64659125 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
64659073 CATTTTTTGA
*
64659083 TTTGGGCTAGGGTT
1 TTTGGGTTAGGGTT
64659097 TATTGGGTTAGGGGTT
1 T-TTGGGTTA-GGGTT
*
64659113 TTTGGATTAGGGT
1 TTTGGGTTAGGGT
64659126 AGGTTAGTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 5 0.20
15 14 0.56
16 6 0.24
ACGTcount: A:0.12, C:0.02, G:0.42, T:0.44
Consensus pattern (14 bp):
TTTGGGTTAGGGTT
Found at i:64662570 original size:116 final size:118
Alignment explanation
Indices: 64662429--64662663 Score: 402
Period size: 118 Copynumber: 2.0 Consensus size: 118
64662419 AAACAATGAA
* * *
64662429 AAACGAGTAAGATAAAAGTGAATGGATATTTAT-TTTA-TTTTTTTGTGAAAGTTAAAAGATTGA
1 AAACGAGTAAGATAAAAGTGAATGGATATATATATATATTTTTTTTGTGAAAGTTAAAAGACTGA
* *
64662492 TTTTTGATGAGATTGAATGTGAAAATTTTAGCCGTAAAATTCTTGGTTTTTTT
66 TTTTTGATGAGATTGAATGTGAAAATTTTAGCCGCAAAATTCTTGATTTTTTT
*
64662545 AAACGAGTAAGATAAAAGTGAATGGATATATATATATATTTTTTTTGTGAAAGTTAAAAGACTGG
1 AAACGAGTAAGATAAAAGTGAATGGATATATATATATATTTTTTTTGTGAAAGTTAAAAGACTGA
64662610 TTTTTGATGAGATTGAATGTGAAAATTTTAGCCGCAAAATTCTTGATTTTTTT
66 TTTTTGATGAGATTGAATGTGAAAATTTTAGCCGCAAAATTCTTGATTTTTTT
64662663 A
1 A
64662664 GATGCAATTG
Statistics
Matches: 111, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
116 32 0.29
117 3 0.03
118 76 0.68
ACGTcount: A:0.36, C:0.04, G:0.19, T:0.41
Consensus pattern (118 bp):
AAACGAGTAAGATAAAAGTGAATGGATATATATATATATTTTTTTTGTGAAAGTTAAAAGACTGA
TTTTTGATGAGATTGAATGTGAAAATTTTAGCCGCAAAATTCTTGATTTTTTT
Found at i:64663713 original size:11 final size:11
Alignment explanation
Indices: 64663697--64663726 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
64663687 TGTCACTCAA
64663697 TTTTAAAAAAG
1 TTTTAAAAAAG
64663708 TTTTAAAAAAG
1 TTTTAAAAAAG
*
64663719 TTATAAAA
1 TTTTAAAA
64663727 TGATCACTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.37
Consensus pattern (11 bp):
TTTTAAAAAAG
Found at i:64664245 original size:3 final size:3
Alignment explanation
Indices: 64664237--64664332 Score: 192
Period size: 3 Copynumber: 32.0 Consensus size: 3
64664227 ATGCTTTTGG
64664237 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
64664285 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
64664333 TTATATGGTT
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 93 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:64665213 original size:9 final size:9
Alignment explanation
Indices: 64665199--64665226 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
64665189 TTTTGTTACA
64665199 ACAATTAAT
1 ACAATTAAT
64665208 ACAATTAAT
1 ACAATTAAT
64665217 ACAATTAAT
1 ACAATTAAT
64665226 A
1 A
64665227 ATTTGACAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:64665248 original size:68 final size:67
Alignment explanation
Indices: 64665169--64665387 Score: 296
Period size: 77 Copynumber: 3.1 Consensus size: 67
64665159 TCAAGTTTGT
* *
64665169 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATAATTTGAC
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATA-AATTAATAATTTGAT
64665234 AAA
65 AAA
*
64665237 TTTACTAATCAAATATTAGATTTTATTACAACAATTAATACAATTAATATAATTAATATAATTAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATAC---------AATTAATA-AATTAA
64665302 TAATTTGATAAA
56 TAATTTGATAAA
64665314 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAAT-AATTAATAATTTGATA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAAATTAATAATTTGATA
*
64665378 AT
66 AA
64665380 TTTACTAA
1 TTTACTAA
64665388 CAATTAATTT
Statistics
Matches: 136, Mismatches: 6, Indels: 20
0.84 0.04 0.12
Matches are distributed among these distances:
66 25 0.18
68 46 0.34
77 65 0.48
ACGTcount: A:0.47, C:0.08, G:0.04, T:0.41
Consensus pattern (67 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAAATTAATAATTTGATA
AA
Found at i:64665279 original size:9 final size:9
Alignment explanation
Indices: 64665267--64665303 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
64665257 TTTTATTACA
64665267 ACAATTAAT
1 ACAATTAAT
64665276 ACAATTAAT
1 ACAATTAAT
*
64665285 ATAATTAAT
1 ACAATTAAT
*
64665294 ATAATTAAT
1 ACAATTAAT
64665303 A
1 A
64665304 ATTTGATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (9 bp):
ACAATTAAT
Found at i:64665435 original size:23 final size:22
Alignment explanation
Indices: 64665366--64665435 Score: 86
Period size: 22 Copynumber: 3.0 Consensus size: 22
64665356 ATTAATAATT
* *
64665366 AATAATTTGATAATTTTACTAACA
1 AATAATTT--TAATTTTATTAAAA
*
64665390 ATTAATTTTAATTTTATTAAAA
1 AATAATTTTAATTTTATTAAAA
64665412 AATAATTTTAATTTTAATTAAAA
1 AATAATTTTAATTTT-ATTAAAA
64665435 A
1 A
64665436 TGGGCCGGGC
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
22 26 0.63
23 8 0.20
24 7 0.17
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (22 bp):
AATAATTTTAATTTTATTAAAA
Found at i:64674815 original size:24 final size:24
Alignment explanation
Indices: 64674788--64674834 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
64674778 CATATGAAAA
*
64674788 TTAAATTAACCAAATCA-AATTATT
1 TTAAATCAACCAAA-CATAATTATT
*
64674812 TTAACTCAACCAAACATAATTAT
1 TTAAATCAACCAAACATAATTAT
64674835 AATACGTATC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 2 0.10
24 18 0.90
ACGTcount: A:0.49, C:0.17, G:0.00, T:0.34
Consensus pattern (24 bp):
TTAAATCAACCAAACATAATTATT
Found at i:64678994 original size:6 final size:6
Alignment explanation
Indices: 64678983--64679007 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
64678973 TTTATTCAAA
64678983 TTGATT TTGATT TTGATT TTGATT T
1 TTGATT TTGATT TTGATT TTGATT T
64679008 AAATTTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.16, T:0.68
Consensus pattern (6 bp):
TTGATT
Found at i:64679012 original size:28 final size:27
Alignment explanation
Indices: 64678972--64679024 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
64678962 TGTGGGTAAG
64678972 TTTTATTCAAATTGATTTTGATTTTGA
1 TTTTATTCAAATTGATTTTGATTTTGA
* * *
64678999 TTTTGATTTAAATTTATTTTGGTTTT
1 TTTT-ATTCAAATTGATTTTGATTTT
64679025 TAATTTGTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 4 0.18
28 18 0.82
ACGTcount: A:0.23, C:0.02, G:0.11, T:0.64
Consensus pattern (27 bp):
TTTTATTCAAATTGATTTTGATTTTGA
Found at i:64680929 original size:20 final size:20
Alignment explanation
Indices: 64680886--64680929 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
64680876 TTAAAATATT
* *
64680886 TTTAAAATACTTTTTTTATT
1 TTTAAAATAATTTTTTTATG
*
64680906 TTTAAAATAATTTTTTTGTG
1 TTTAAAATAATTTTTTTATG
64680926 TTTA
1 TTTA
64680930 TTAAAAAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.64
Consensus pattern (20 bp):
TTTAAAATAATTTTTTTATG
Found at i:64680935 original size:23 final size:20
Alignment explanation
Indices: 64680882--64680922 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
64680872 TATTTTAAAA
64680882 TATTTTTAAAATACTTTTTT
1 TATTTTTAAAATACTTTTTT
*
64680902 TATTTTTAAAATAATTTTTT
1 TATTTTTAAAATACTTTTTT
64680922 T
1 T
64680923 GTGTTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (20 bp):
TATTTTTAAAATACTTTTTT
Found at i:64683894 original size:32 final size:31
Alignment explanation
Indices: 64683858--64683918 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 31
64683848 TAGAGATTTC
64683858 TAATTACATCCTTAAATTATTAAATATTATAT
1 TAATTACATCCTTAAATTATTAAA-ATTATAT
** **
64683890 TAATTATGTCCTTTCATTATTAAAATTAT
1 TAATTACATCCTTAAATTATTAAAATTAT
64683919 TAATTTAACC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
31 5 0.20
32 20 0.80
ACGTcount: A:0.39, C:0.10, G:0.02, T:0.49
Consensus pattern (31 bp):
TAATTACATCCTTAAATTATTAAAATTATAT
Found at i:64690025 original size:42 final size:43
Alignment explanation
Indices: 64689946--64690050 Score: 122
Period size: 42 Copynumber: 2.5 Consensus size: 43
64689936 CATTTATATT
* * ** *
64689946 GGCACACACAATGCACCATCAGATATATTGAAGCAATT-TACC
1 GGCACACACAGTGCATCATCAGATATACCGAAACAATTATACC
**
64689988 GGCACACACAGTGCATCATCAGATATACCGAAACAATTATATT
1 GGCACACACAGTGCATCATCAGATATACCGAAACAATTATACC
* *
64690031 GGCACACATAGTGAATCATC
1 GGCACACACAGTGCATCATC
64690051 GAATAAACTG
Statistics
Matches: 53, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 33 0.62
43 20 0.38
ACGTcount: A:0.38, C:0.25, G:0.15, T:0.22
Consensus pattern (43 bp):
GGCACACACAGTGCATCATCAGATATACCGAAACAATTATACC
Found at i:64694184 original size:6 final size:6
Alignment explanation
Indices: 64694168--64694212 Score: 74
Period size: 6 Copynumber: 7.7 Consensus size: 6
64694158 TTAGGAAAGA
*
64694168 AAGGA- AAGGAG AAGGAG AAAGAG AAGGAG AAGGAG AAGGAG AAGG
1 AAGGAG AAGGAG AAGGAG AAGGAG AAGGAG AAGGAG AAGGAG AAGG
64694213 GAGAGTTGTT
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
5 5 0.14
6 32 0.86
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (6 bp):
AAGGAG
Found at i:64694191 original size:12 final size:12
Alignment explanation
Indices: 64694162--64694210 Score: 66
Period size: 12 Copynumber: 4.2 Consensus size: 12
64694152 CCGATGTTAG
64694162 GAAAGA-AAGGA
1 GAAAGAGAAGGA
*
64694173 -AAGGAGAAGGA
1 GAAAGAGAAGGA
64694184 GAAAGAGAAGGA
1 GAAAGAGAAGGA
*
64694196 GAAGGAGAAGGA
1 GAAAGAGAAGGA
64694208 GAA
1 GAA
64694211 GGGAGAGTTG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
10 4 0.12
11 5 0.15
12 24 0.73
ACGTcount: A:0.57, C:0.00, G:0.43, T:0.00
Consensus pattern (12 bp):
GAAAGAGAAGGA
Found at i:64695033 original size:18 final size:18
Alignment explanation
Indices: 64695000--64695052 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
64694990 ATTCACCTAA
*
64695000 ACCCAATCCAAACCCAAGT
1 ACCCAA-CCCAACCCAAGT
** *
64695019 ATTCAACCCAACCCAATT
1 ACCCAACCCAACCCAAGT
64695037 ACCCAACCCAACCCAA
1 ACCCAACCCAACCCAA
64695053 TCATAAAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 24 0.86
19 4 0.14
ACGTcount: A:0.42, C:0.45, G:0.02, T:0.11
Consensus pattern (18 bp):
ACCCAACCCAACCCAAGT
Found at i:64695170 original size:9 final size:9
Alignment explanation
Indices: 64695156--64695195 Score: 71
Period size: 9 Copynumber: 4.4 Consensus size: 9
64695146 GTAGGGATTC
64695156 AATTCGGTT
1 AATTCGGTT
*
64695165 AATTCGGAT
1 AATTCGGTT
64695174 AATTCGGTT
1 AATTCGGTT
64695183 AATTCGGTT
1 AATTCGGTT
64695192 AATT
1 AATT
64695196 GACCGAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.28, C:0.10, G:0.20, T:0.42
Consensus pattern (9 bp):
AATTCGGTT
Found at i:64697299 original size:38 final size:38
Alignment explanation
Indices: 64697257--64697367 Score: 132
Period size: 38 Copynumber: 2.9 Consensus size: 38
64697247 TCTACAGAGG
* *
64697257 ACATGATAAGCATGTCTACTGTTAATGATGAATTGAAA
1 ACATGTTAAACATGTCTACTGTTAATGATGAATTGAAA
* **
64697295 ACATGTTAAACTTGTCTACTGTTAATGATGAATTGAGT
1 ACATGTTAAACATGTCTACTGTTAATGATGAATTGAAA
** * * *
64697333 ACATGTTACCCATGTCTACTGCTAGTGTTGAATTG
1 ACATGTTAAACATGTCTACTGTTAATGATGAATTG
64697368 TTCCATTACA
Statistics
Matches: 62, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 62 1.00
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.36
Consensus pattern (38 bp):
ACATGTTAAACATGTCTACTGTTAATGATGAATTGAAA
Found at i:64697507 original size:44 final size:44
Alignment explanation
Indices: 64697436--64697590 Score: 159
Period size: 44 Copynumber: 3.5 Consensus size: 44
64697426 AGATTAGCAA
* * * *
64697436 TTTATCTGCAAATTTTGTTTTGAATCCACAACATAGTGGCAGAT
1 TTTATCTACGAATTTTGTTGTGAATCCACAACACAGTGGCAGAT
* * * *
64697480 TTTATCTATGAATTTTGTTGTGCATCCACAGCCCAGTGGCAGAT
1 TTTATCTACGAATTTTGTTGTGAATCCACAACACAGTGGCAGAT
* * *
64697524 TTTATCTACGAATTTTGTTGTGTATCCACAGTC-CAGTGGCAAAT
1 TTTATCTACGAATTTTGTTGTGAATCCACA-ACACAGTGGCAGAT
* * *
64697568 TGTATCTGCAAAATTTTGTTGTG
1 TTTATCTAC-GAATTTTGTTGTG
64697591 CATCTACAGC
Statistics
Matches: 94, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
44 81 0.86
45 13 0.14
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.39
Consensus pattern (44 bp):
TTTATCTACGAATTTTGTTGTGAATCCACAACACAGTGGCAGAT
Found at i:64698744 original size:19 final size:19
Alignment explanation
Indices: 64698720--64698759 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
64698710 CGGCCCAAAT
64698720 TAAATAATAAATAAAAA-AA
1 TAAATAAT-AATAAAAATAA
64698739 TAAATAATAATAAAAATAA
1 TAAATAATAATAAAAATAA
64698758 TA
1 TA
64698760 GTCCAATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (19 bp):
TAAATAATAATAAAAATAA
Found at i:64698755 original size:12 final size:13
Alignment explanation
Indices: 64698722--64698759 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 13
64698712 GCCCAAATTA
64698722 AATAATAAATAA-
1 AATAATAAATAAT
*
64698734 AAAAATAAATAAT
1 AATAATAAATAAT
64698747 AATAA-AAATAAT
1 AATAATAAATAAT
64698759 A
1 A
64698760 GTCCAATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
12 19 0.83
13 4 0.17
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
AATAATAAATAAT
Found at i:64703260 original size:22 final size:20
Alignment explanation
Indices: 64703224--64703282 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 20
64703214 GGCCTTGCCC
64703224 ATTT-TTTTAATAAATACCAAAA
1 ATTTATTTTAA-AAATA--AAAA
64703246 ATTTATTTTAAAAATTAAAAA
1 ATTTATTTTAAAAA-TAAAAA
**
64703267 AAGTATTTTAAAAATA
1 ATTTATTTTAAAAATA
64703283 TTTTAAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 2 0.06
21 16 0.48
22 7 0.21
23 8 0.24
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (20 bp):
ATTTATTTTAAAAATAAAAA
Found at i:64703302 original size:18 final size:17
Alignment explanation
Indices: 64703274--64703376 Score: 89
Period size: 17 Copynumber: 5.7 Consensus size: 17
64703264 AAAAAGTATT
64703274 TTAAAAATATTTTAAAA
1 TTAAAAATATTTTAAAA
64703291 TTAAAAAGTATTTTAAAA
1 TTAAAAA-TATTTTAAAA
****
64703309 TTAAAAAATAAAAAAAATTA
1 TT-AAAAATATTTTAAA--A
64703329 TTTTAAAAATATTTTAAAA
1 --TTAAAAATATTTTAAAA
*
64703348 TTAAAAAAATTTTAAAA
1 TTAAAAATATTTTAAAA
* *
64703365 ATAAATATATTT
1 TTAAAAATATTT
64703377 ATTATATCGG
Statistics
Matches: 68, Mismatches: 12, Indels: 12
0.74 0.13 0.13
Matches are distributed among these distances:
17 32 0.47
18 17 0.25
19 6 0.09
20 1 0.01
21 10 0.15
22 2 0.03
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (17 bp):
TTAAAAATATTTTAAAA
Found at i:64703331 original size:57 final size:56
Alignment explanation
Indices: 64703255--64703369 Score: 185
Period size: 57 Copynumber: 2.0 Consensus size: 56
64703245 AATTTATTTT
* * *
64703255 AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAGTATTTTAAAATTA
1 AAAAATAAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAA-AATTTTAAAAATA
*
64703312 AAAAATAAAAAAAATTATTTTAAAAATATTTTAAAATTAAAAAAATTTTAAAAATA
1 AAAAATAAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATTTTAAAAATA
64703368 AA
1 AA
64703370 TATATTTATT
Statistics
Matches: 54, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
56 13 0.24
57 41 0.76
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (56 bp):
AAAAATAAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATTTTAAAAATA
Found at i:64706792 original size:88 final size:87
Alignment explanation
Indices: 64706635--64706807 Score: 231
Period size: 88 Copynumber: 2.0 Consensus size: 87
64706625 GGTAAAATTA
* * * * *
64706635 AATTAATTCGGTTAATCGGTCGGTTAATTGAATTAATTCAGTCGGGGTTGGTTAATAATTTTTTA
1 AATTAATTCGGTTAATCAGTCGGCTAATCGAATTAATTCAGTCGGAGTCGGTTAATAATTTTTTA
*
64706700 AAAGTTCAGTTAACGGTTAACC
66 AAAGTTCAGTTAACAGTTAACC
* *
64706722 AATTGAATTCGGTTAATCAGTCGGCT-ATCCGAATTAATTCGGTTGGAGTCGGTTAATAATTTTT
1 AATT-AATTCGGTTAATCAGTCGGCTAAT-CGAATTAATTCAGTCGGAGTCGGTTAATAATTTTT
* *
64706786 TGAAAGTTCGGTTAACAGTTAA
64 TAAAAGTTCAGTTAACAGTTAA
64706808 TTCGATTCGA
Statistics
Matches: 74, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
87 6 0.08
88 68 0.92
ACGTcount: A:0.29, C:0.11, G:0.21, T:0.38
Consensus pattern (87 bp):
AATTAATTCGGTTAATCAGTCGGCTAATCGAATTAATTCAGTCGGAGTCGGTTAATAATTTTTTA
AAAGTTCAGTTAACAGTTAACC
Found at i:64720238 original size:21 final size:21
Alignment explanation
Indices: 64720197--64720238 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
64720187 TAGATTTTTC
*
64720197 AAAAATTTTAATAGCCAAATT
1 AAAAATTTCAATAGCCAAATT
* *
64720218 AAAAATTTCAATGGCCTAATT
1 AAAAATTTCAATAGCCAAATT
64720239 CCTTACTTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.48, C:0.12, G:0.07, T:0.33
Consensus pattern (21 bp):
AAAAATTTCAATAGCCAAATT
Found at i:64723164 original size:53 final size:52
Alignment explanation
Indices: 64723100--64723256 Score: 219
Period size: 53 Copynumber: 3.0 Consensus size: 52
64723090 TTCTTATTTA
* *
64723100 TATAATATATTTGAAAATAATAACATATTTATTACCCCCAATTACGACTGAAT
1 TATAA-ATATTTGAAAATAATAATATATTTATTACCCCCAATTACGACTCAAT
*
64723153 TCATAAATATTT-AAATATAATAATATATTTATTACCCCAAATTACGACTCAAT
1 T-ATAAATATTTGAAA-ATAATAATATATTTATTACCCCCAATTACGACTCAAT
* *
64723206 TATTAAATATTTGAATATAATAATATATTTATTA-ACCCAATTACGACTCAA
1 TA-TAAATATTTGAAAATAATAATATATTTATTACCCCCAATTACGACTCAA
64723257 GGATCACAAA
Statistics
Matches: 94, Mismatches: 6, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
52 19 0.20
53 69 0.73
54 6 0.06
ACGTcount: A:0.45, C:0.14, G:0.04, T:0.38
Consensus pattern (52 bp):
TATAAATATTTGAAAATAATAATATATTTATTACCCCCAATTACGACTCAAT
Found at i:64726578 original size:155 final size:155
Alignment explanation
Indices: 64726296--64726608 Score: 626
Period size: 155 Copynumber: 2.0 Consensus size: 155
64726286 ACAACAATGA
64726296 TAATTAAATTTAATAAAAAAACAAAGAACATTGGTTAAATCACAAATAAACTTTTTAGTACATGT
1 TAATTAAATTTAATAAAAAAACAAAGAACATTGGTTAAATCACAAATAAACTTTTTAGTACATGT
64726361 AAAACTTTTTAGATTATTTTCAATAAAAATTTTAGATTATGAAAGTTAATTAATAAAATATTACG
66 AAAACTTTTTAGATTATTTTCAATAAAAATTTTAGATTATGAAAGTTAATTAATAAAATATTACG
64726426 AGTTAGATTCAGTTCGATTAAATTT
131 AGTTAGATTCAGTTCGATTAAATTT
64726451 TAATTAAATTTAATAAAAAAACAAAGAACATTGGTTAAATCACAAATAAACTTTTTAGTACATGT
1 TAATTAAATTTAATAAAAAAACAAAGAACATTGGTTAAATCACAAATAAACTTTTTAGTACATGT
64726516 AAAACTTTTTAGATTATTTTCAATAAAAATTTTAGATTATGAAAGTTAATTAATAAAATATTACG
66 AAAACTTTTTAGATTATTTTCAATAAAAATTTTAGATTATGAAAGTTAATTAATAAAATATTACG
64726581 AGTTAGATTCAGTTCGATTAAATTT
131 AGTTAGATTCAGTTCGATTAAATTT
64726606 TAA
1 TAA
64726609 AAAAATTTTA
Statistics
Matches: 158, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
155 158 1.00
ACGTcount: A:0.46, C:0.07, G:0.09, T:0.38
Consensus pattern (155 bp):
TAATTAAATTTAATAAAAAAACAAAGAACATTGGTTAAATCACAAATAAACTTTTTAGTACATGT
AAAACTTTTTAGATTATTTTCAATAAAAATTTTAGATTATGAAAGTTAATTAATAAAATATTACG
AGTTAGATTCAGTTCGATTAAATTT
Found at i:64729649 original size:15 final size:15
Alignment explanation
Indices: 64729596--64729650 Score: 71
Period size: 15 Copynumber: 3.9 Consensus size: 15
64729586 TCCACCACCG
*
64729596 GGATATCCTCCACAA
1 GGATATCCTCCTCAA
64729611 GGATA---TCCTCAA
1 GGATATCCTCCTCAA
*
64729623 GGTTATCCTCCTCAA
1 GGATATCCTCCTCAA
64729638 GGATATCCTCCTC
1 GGATATCCTCCTC
64729651 CTTACGCCCC
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
12 10 0.29
15 24 0.71
ACGTcount: A:0.25, C:0.33, G:0.15, T:0.27
Consensus pattern (15 bp):
GGATATCCTCCTCAA
Found at i:64730794 original size:20 final size:21
Alignment explanation
Indices: 64730769--64730819 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
64730759 AAAGGAATAT
64730769 TTAAATTATTTATTTT-ATTA
1 TTAAATTATTTATTTTAATTA
* *
64730789 TTAAATTAATTATTTTAATTT
1 TTAAATTATTTATTTTAATTA
*
64730810 TTATATTATT
1 TTAAATTATT
64730820 AAGAAAAATC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 15 0.58
21 11 0.42
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (21 bp):
TTAAATTATTTATTTTAATTA
Found at i:64735927 original size:15 final size:16
Alignment explanation
Indices: 64735891--64735928 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
64735881 GAGCAGTTGC
64735891 AGAAGCAGAAGCTGCA
1 AGAAGCAGAAGCTGCA
*
64735907 A-TAGCAGAAGCTG-A
1 AGAAGCAGAAGCTGCA
64735921 AGAAGCAG
1 AGAAGCAG
64735929 CAAGAGAGGC
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
14 2 0.11
15 16 0.84
16 1 0.05
ACGTcount: A:0.45, C:0.16, G:0.32, T:0.08
Consensus pattern (16 bp):
AGAAGCAGAAGCTGCA
Found at i:64735974 original size:21 final size:21
Alignment explanation
Indices: 64735950--64735989 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
64735940 GAGGTTGCTG
*
64735950 AAGCTGATGCAGAGGCAGCGC
1 AAGCTGATGCAGAAGCAGCGC
**
64735971 AAGCTTTTGCAGAAGCAGC
1 AAGCTGATGCAGAAGCAGC
64735990 AATGAAAACT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.23, G:0.33, T:0.15
Consensus pattern (21 bp):
AAGCTGATGCAGAAGCAGCGC
Found at i:64736306 original size:29 final size:29
Alignment explanation
Indices: 64736274--64736360 Score: 93
Period size: 29 Copynumber: 3.0 Consensus size: 29
64736264 GTGTTGACGA
* *
64736274 TTTTGCAGCAGGCACCCAGTCATCATCGC
1 TTTTGCAGCAGGCACCCAGTAATCATCCC
** **
64736303 TTTTGCAGCAGGCACCTGGTAATTGTCCC
1 TTTTGCAGCAGGCACCCAGTAATCATCCC
* *
64736332 TATTTGTAGCAGGCACCCAGTGATCATCC
1 T-TTTGCAGCAGGCACCCAGTAATCATCC
64736361 TTATTATTTG
Statistics
Matches: 45, Mismatches: 12, Indels: 1
0.78 0.21 0.02
Matches are distributed among these distances:
29 24 0.53
30 21 0.47
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.28
Consensus pattern (29 bp):
TTTTGCAGCAGGCACCCAGTAATCATCCC
Found at i:64738737 original size:9 final size:9
Alignment explanation
Indices: 64738725--64738757 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
64738715 TGTAGGAGGC
64738725 AAAAAAAAG
1 AAAAAAAAG
64738734 AAAAAAAAG
1 AAAAAAAAG
*
64738743 -GAAAAAAG
1 AAAAAAAAG
64738751 AAAAAAA
1 AAAAAAA
64738758 GAACAGCCCC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
8 7 0.33
9 14 0.67
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:64738739 original size:8 final size:8
Alignment explanation
Indices: 64738726--64738760 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
64738716 GTAGGAGGCA
64738726 AAAAAAAG
1 AAAAAAAG
64738734 AAAAAAAAG
1 -AAAAAAAG
*
64738743 GAAAAAAG
1 AAAAAAAG
64738751 AAAAAAAG
1 AAAAAAAG
64738759 AA
1 AA
64738761 CAGCCCCATG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
8 16 0.67
9 8 0.33
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:64746681 original size:21 final size:21
Alignment explanation
Indices: 64746655--64746695 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
64746645 ATCTGCTCAA
* *
64746655 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
64746676 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
64746696 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Done.