Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 297 of 356
Found at i:96738777 original size:21 final size:22
Alignment explanation
Indices: 96738751--96738793 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
96738741 GAATTGAATT
96738751 TAAAGTTATGAAT-TAT-ATATA
1 TAAAGTT-TGAATGTATGATATA
96738772 TAAAGTTTGAATGTATGATATA
1 TAAAGTTTGAATGTATGATATA
96738794 AGTTCTTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 5 0.25
21 10 0.50
22 5 0.25
ACGTcount: A:0.44, C:0.00, G:0.14, T:0.42
Consensus pattern (22 bp):
TAAAGTTTGAATGTATGATATA
Found at i:96738792 original size:20 final size:21
Alignment explanation
Indices: 96738751--96738794 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
96738741 GAATTGAATT
*
96738751 TAAAGTTATGAATTATATATA
1 TAAAGTTATGAATTATAGATA
96738772 TAAAGTT-TGAATGTAT-GATA
1 TAAAGTTATGAAT-TATAGATA
96738792 TAA
1 TAA
96738795 GTTCTTTGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.45, C:0.00, G:0.14, T:0.41
Consensus pattern (21 bp):
TAAAGTTATGAATTATAGATA
Found at i:96738927 original size:63 final size:62
Alignment explanation
Indices: 96738788--96738945 Score: 196
Period size: 63 Copynumber: 2.5 Consensus size: 62
96738778 TTGAATGTAT
* *
96738788 GATAT-AAGTTCTTTGAGCTGAATTTAATGTATGAATTTTACATACATATGGTTCGAATATA
1 GATATCAAATTCTTTGAGCTGAATTTAATGTATGAATTTCACATACATATGGTTCGAATATA
* *
96738849 TATATTTCAAGTTC-TTGAGCTGAATTTAATGTATGAATTTCACATACATATGTGGTTCGAATAT
1 GATA--TCAAATTCTTTGAGCTGAATTTAATGTATGAATTTCACATACATA--TGGTTCGAATAT
96738913 A
62 A
*
96738914 GGCTA-CAAATTCTTTGAGCTGAATTTTAATGT
1 -GATATCAAATTCTTTGAGCTGAA-TTTAATGT
96738946 TGTAAATTAT
Statistics
Matches: 84, Mismatches: 5, Indels: 12
0.83 0.05 0.12
Matches are distributed among these distances:
61 3 0.04
63 42 0.50
64 16 0.19
65 21 0.25
66 2 0.02
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.41
Consensus pattern (62 bp):
GATATCAAATTCTTTGAGCTGAATTTAATGTATGAATTTCACATACATATGGTTCGAATATA
Found at i:96739225 original size:82 final size:82
Alignment explanation
Indices: 96739128--96739287 Score: 302
Period size: 82 Copynumber: 2.0 Consensus size: 82
96739118 GGTGAATTAT
*
96739128 ATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGCTATAAGCCTAGCAGGCT
1 ATCAGGTTATAAACCTAGCAGGCTAAGTGCCAGTGATCTAAATCAGGCTATAAGCCTAGCAGGCT
96739193 AAGTGCCGGTGATATGA
66 AAGTGCCGGTGATATGA
*
96739210 ATCAGGTTATAAACCTAGCAGGCTAAGTGCCAGTGATCTGAATCAGGCTATAAGCCTAGCAGGCT
1 ATCAGGTTATAAACCTAGCAGGCTAAGTGCCAGTGATCTAAATCAGGCTATAAGCCTAGCAGGCT
96739275 AAGTGCCGGTGAT
66 AAGTGCCGGTGAT
96739288 CCGAATATGA
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
82 76 1.00
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (82 bp):
ATCAGGTTATAAACCTAGCAGGCTAAGTGCCAGTGATCTAAATCAGGCTATAAGCCTAGCAGGCT
AAGTGCCGGTGATATGA
Found at i:96739287 original size:41 final size:41
Alignment explanation
Indices: 96739128--96739293 Score: 260
Period size: 41 Copynumber: 4.0 Consensus size: 41
96739118 GGTGAATTAT
* *
96739128 ATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTAA
1 ATCAGGCTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGA
* *
96739169 ATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATATGA
1 ATCAGGCTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGA
* *
96739210 ATCAGGTTATAAACCTAGCAGGCTAAGTGCCAGTGATCTGA
1 ATCAGGCTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGA
* *
96739251 ATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATCCGA
1 ATCAGGCTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGA
96739292 AT
1 AT
96739294 ATGATGAATT
Statistics
Matches: 113, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 113 1.00
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (41 bp):
ATCAGGCTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGA
Found at i:96745443 original size:72 final size:72
Alignment explanation
Indices: 96745326--96745581 Score: 503
Period size: 72 Copynumber: 3.6 Consensus size: 72
96745316 ACAACTTGAC
*
96745326 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
96745391 ACTAACA
66 ACTAACA
96745398 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
96745463 ACTAACA
66 ACTAACA
96745470 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
96745535 ACTAACA
66 ACTAACA
96745542 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
96745582 AATAATAATA
Statistics
Matches: 183, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 183 1.00
ACGTcount: A:0.42, C:0.24, G:0.06, T:0.27
Consensus pattern (72 bp):
AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
ACTAACA
Found at i:96745590 original size:3 final size:3
Alignment explanation
Indices: 96745582--96745631 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
96745572 ATTACATCCA
96745582 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
96745630 AA
1 AA
96745632 AACATGTGAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:96747854 original size:16 final size:16
Alignment explanation
Indices: 96747833--96747865 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
96747823 TCTTGTTGCT
*
96747833 TTGTTACTATAGAATA
1 TTGTTACTATAAAATA
96747849 TTGTTACTATAAAATA
1 TTGTTACTATAAAATA
96747865 T
1 T
96747866 AGAACACTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.09, T:0.45
Consensus pattern (16 bp):
TTGTTACTATAAAATA
Found at i:96748641 original size:18 final size:18
Alignment explanation
Indices: 96748614--96748648 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
96748604 ACATACAGAG
*
96748614 CCACCGTTCACCATGCTA
1 CCACCATTCACCATGCTA
96748632 CCACCATTCACCATGCT
1 CCACCATTCACCATGCT
96748649 GCCATTGCAT
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:0.23, C:0.46, G:0.09, T:0.23
Consensus pattern (18 bp):
CCACCATTCACCATGCTA
Found at i:96755332 original size:21 final size:21
Alignment explanation
Indices: 96755298--96755338 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
96755288 AACTTCTCTC
*
96755298 CTAAACATATTATTTACATAA
1 CTAAACATAGTATTTACATAA
*
96755319 CTAAATATAGTATTTACATA
1 CTAAACATAGTATTTACATA
96755339 TTTAATAGAT
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:0.46, C:0.12, G:0.02, T:0.39
Consensus pattern (21 bp):
CTAAACATAGTATTTACATAA
Found at i:96755353 original size:19 final size:19
Alignment explanation
Indices: 96755325--96755365 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
96755315 ATAACTAAAT
96755325 ATAGTATTTACATAT-TTA
1 ATAGTATTTACATATCTTA
96755343 ATAGATATTTACATATCTTA
1 ATAG-TATTTACATATCTTA
96755363 ATA
1 ATA
96755366 TTTTCATTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 4 0.19
19 11 0.52
20 6 0.29
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.46
Consensus pattern (19 bp):
ATAGTATTTACATATCTTA
Found at i:96759613 original size:6 final size:6
Alignment explanation
Indices: 96759602--96759652 Score: 75
Period size: 6 Copynumber: 8.3 Consensus size: 6
96759592 TACTCGTTAC
* *
96759602 AAAAAT AAAAAT AAAAGAT AAAAAT AAAAAT AAACAT AAACAT AAAAAT
1 AAAAAT AAAAAT AAAA-AT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
96759651 AA
1 AA
96759653 TCGAACTCAA
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
6 36 0.86
7 6 0.14
ACGTcount: A:0.78, C:0.04, G:0.02, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:96761774 original size:19 final size:19
Alignment explanation
Indices: 96761746--96761786 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
96761736 GAAGAAAGAA
* * *
96761746 GAGGAGAAAGAGAAAGGGG
1 GAGGAAAAAGAAAAAAGGG
96761765 GAGGAAAAAGAAAAAAGGG
1 GAGGAAAAAGAAAAAAGGG
96761784 GAG
1 GAG
96761787 AGAGATGTGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (19 bp):
GAGGAAAAAGAAAAAAGGG
Found at i:96771608 original size:21 final size:21
Alignment explanation
Indices: 96771582--96771622 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
96771572 AACTTCTCTC
*
96771582 CTAAATATGTTATTTACATAA
1 CTAAATATATTATTTACATAA
96771603 CTAAATATATTATTTACATA
1 CTAAATATATTATTTACATA
96771623 TTGAACATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.44
Consensus pattern (21 bp):
CTAAATATATTATTTACATAA
Found at i:96772824 original size:22 final size:22
Alignment explanation
Indices: 96772799--96772840 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
96772789 TTGGAACTGA
*
96772799 TGTGTTATTGTTACCAGTTTGT
1 TGTGTTATTGCTACCAGTTTGT
*
96772821 TGTGTTATTGCTACTAGTTT
1 TGTGTTATTGCTACCAGTTT
96772841 ATTGGAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.14, C:0.10, G:0.21, T:0.55
Consensus pattern (22 bp):
TGTGTTATTGCTACCAGTTTGT
Found at i:96774494 original size:22 final size:25
Alignment explanation
Indices: 96774459--96774509 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
96774449 TAAAATAATG
*
96774459 AAAT-TATAATTTTACT-A-TCTAA
1 AAATATATAATTTTAATCAGTCTAA
96774481 AAATATATAA-TTTAATCAGTCTAA
1 AAATATATAATTTTAATCAGTCTAA
96774505 AAATA
1 AAATA
96774510 ATTTTTCGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
22 9 0.36
23 6 0.24
24 10 0.40
ACGTcount: A:0.51, C:0.08, G:0.02, T:0.39
Consensus pattern (25 bp):
AAATATATAATTTTAATCAGTCTAA
Found at i:96776742 original size:18 final size:18
Alignment explanation
Indices: 96776715--96776750 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
96776705 TCAACCACAA
*
96776715 TCATCGGATGTATGAGGT
1 TCATCCGATGTATGAGGT
96776733 TCATCCGATGTATGAGGT
1 TCATCCGATGTATGAGGT
96776751 AACTAAAGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.14, G:0.31, T:0.33
Consensus pattern (18 bp):
TCATCCGATGTATGAGGT
Found at i:96777340 original size:21 final size:21
Alignment explanation
Indices: 96777310--96777365 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
96777300 ACAAAAGATA
*
96777310 GAAGTGCCATTTCAGTGGAAT
1 GAAGTCCCATTTCAGTGGAAT
96777331 GAAGTCCCATTTCAGTGGAAT
1 GAAGTCCCATTTCAGTGGAAT
96777352 GAAGTCCCATTTCA
1 GAAGTCCCATTTCA
96777366 AATGCATCAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.29
Consensus pattern (21 bp):
GAAGTCCCATTTCAGTGGAAT
Found at i:96784839 original size:17 final size:17
Alignment explanation
Indices: 96784817--96784854 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
96784807 CGAAATACAT
*
96784817 AATATACAATAATTTAA
1 AATATAAAATAATTTAA
*
96784834 AATATAAAATAATTTGA
1 AATATAAAATAATTTAA
96784851 AATA
1 AATA
96784855 AATATATAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.34
Consensus pattern (17 bp):
AATATAAAATAATTTAA
Found at i:96786667 original size:44 final size:44
Alignment explanation
Indices: 96786562--96787233 Score: 352
Period size: 44 Copynumber: 15.5 Consensus size: 44
96786552 ATTTCCAGCT
* * * * *
96786562 TGTTACCCTACTACTTAGGGGGTTAA-GATCTGT-AAATTC-AGCC
1 TGTTACCCTACTGCTTAGGGGGTTAAGGCTCT-TCGACTTCGA-TC
* * *
96786605 TGTTACCCTACTACTTAGGGGGTTAAGGCCCTTCGCCTTCGATC
1 TGTTACCCTACTGCTTAGGGGGTTAAGGCTCTTCGACTTCGATC
* * * ** * * *
96786649 TGTTTCCCTACTACTTAGGGGGTTAA-GATCTGTAAATTTAG-CC
1 TGTTACCCTACTGCTTAGGGGGTTAAGGCTCT-TCGACTTCGATC
*
96786692 TGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTC-ACCTTCGATC
1 TGTTACCCTACTGCTTAGGGGGTTAAGGCTCTTCGA-CTTCGATC
* * * * * *
96786736 TGTTTCCCTACTGCTTAGGGGGTTAA-GATCTGT-AAATTTG-CC
1 TGTTACCCTACTGCTTAGGGGGTTAAGGCTCT-TCGACTTCGATC
* *
96786778 TGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGTCTTCGATC
1 TGTTACCCTACTGCTTAGGGGGTTAAGGCTCTTCGACTTCGATC
** * * * * * *
96786822 TGTTTTCCTACTGCTTAGGGAGATAA-GATC-T-GTAATTCAACC
1 TGTTACCCTACTGCTTAGGGGGTTAAGGCTCTTCG-ACTTCGATC
* * *
96786864 TGTTACCCTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGAT-
1 TGTTACCCTACTGCTTAGGGGGTTAAGGCTCTTCGACTTCGATC
* * * * * *
96786907 TATCT-CCACTAATGCTTAGGGAGATAA-GATC-T-GTAATTCGATC
1 TGT-TACC-CTACTGCTTAGGGGGTTAAGGCTCTTCG-ACTTCGATC
* * * * * * *
96786950 TGTTACCCTACTGCTTAAGGGTTTAAGACCCTTTGTCTTTGATC
1 TGTTACCCTACTGCTTAGGGGGTTAAGGCTCTTCGACTTCGATC
* * * * * * *
96786994 TGTTTCCCCACTACTTA-GGGGATAAGG-TCTGC-AATTCGGTC
1 TGTTACCCTACTGCTTAGGGGGTTAAGGCTCTTCGACTTCGATC
* * * * *
96787035 TGTTACCCTACTGCTCAGGGGTTTAAGACCCTTCGTCTTCGATC
1 TGTTACCCTACTGCTTAGGGGGTTAAGGCTCTTCGACTTCGATC
* * * ** *
96787079 TGTTTCCCTACTGCTTAAGGGGTTAA-GATCTGTAAATCTTC-AGCC
1 TGTTACCCTACTGCTTAGGGGGTTAAGGCTCT-TCGA-CTTCGA-TC
* * *
96787124 TGTTACCCTACTGCTTAGGGGGTTAAGGCT-TGT-AAATTC-AGC
1 TGTTACCCTACTGCTTAGGGGGTTAAGGCTCT-TCGACTTCGATC
* * *
96787166 TTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATC-ATCTTCGATC
1 -TGTTACCCTACTGCTTAGGGGGTTAAGGCTCTTCGA-CTTCGATC
* *
96787211 TATTTCCCTACTGCTTAGGGGGT
1 TGTTACCCTACTGCTTAGGGGGT
96787234 CAAGATCTGC
Statistics
Matches: 468, Mismatches: 125, Indels: 71
0.70 0.19 0.11
Matches are distributed among these distances:
41 20 0.04
42 87 0.19
43 134 0.29
44 188 0.40
45 37 0.08
46 2 0.00
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (44 bp):
TGTTACCCTACTGCTTAGGGGGTTAAGGCTCTTCGACTTCGATC
Found at i:96786667 original size:87 final size:87
Alignment explanation
Indices: 96786562--96787152 Score: 755
Period size: 86 Copynumber: 6.8 Consensus size: 87
96786552 ATTTCCAGCT
* * *
96786562 TGTTACCCTACTACTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTACTTAGGGGG
1 TGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGG
*
96786627 TTAAGGCCCTTCGCCTTCGATC
66 TTAAGGCCCTTCGTCTTCGATC
* *
96786649 TGTTTCCCTACTACTTAGGGGGTTAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGG
1 TGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGG
**
96786714 TTAAGGCCCTTCACCTTCGATC
66 TTAAGGCCCTTCGTCTTCGATC
*
96786736 TGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATT-TGCCTGTTACCCTACTGCTTAGGGGG
1 TGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGG
96786800 TTAAGGCCCTTCGTCTTCGATC
66 TTAAGGCCCTTCGTCTTCGATC
* * * * *
96786822 TGTTTTCCTACTGCTTAGGGAGATAAGATCTGT-AATTCAACCTGTTACCCTACTGCTTAGGGGT
1 TGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGG
**
96786886 TTAAGGTTCTTCGTCTTCGAT-
66 TTAAGGCCCTTCGTCTTCGATC
* * * * * * *
96786907 TATCTCCACTAATGCTTAGGGAGATAAGATCTGT-AATTC-GATCTGTTACCCTACTGCTTAAGG
1 TGTTTCC-CTACTGCTTAGGGGGTTAAGATCTGTAAATTCAG-CCTGTTACCCTACTGCTTAGGG
* * * *
96786970 GTTTAAGACCCTTTGTCTTTGATC
64 GGTTAAGGCCCTTCGTCTTCGATC
* * * * * * * * *
96786994 TGTTTCCCCACTACTTA-GGGGATAAGGTCTG-CAATTCGGTCTGTTACCCTACTGCTCAGGGGT
1 TGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGG
*
96787057 TTAAGACCCTTCGTCTTCGATC
66 TTAAGGCCCTTCGTCTTCGATC
*
96787079 TGTTTCCCTACTGCTTAAGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGG
1 TGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAA--TTCAGCCTGTTACCCTACTGCTTAGGG
96787144 GGTTAAGGC
64 GGTTAAGGC
96787153 TTGTAAATTC
Statistics
Matches: 445, Mismatches: 49, Indels: 18
0.87 0.10 0.04
Matches are distributed among these distances:
85 82 0.18
86 205 0.46
87 127 0.29
89 31 0.07
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (87 bp):
TGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGG
TTAAGGCCCTTCGTCTTCGATC
Found at i:96795375 original size:19 final size:20
Alignment explanation
Indices: 96795339--96795380 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
96795329 GTCTTTTCGC
* *
96795339 GAAATTTAATACACATG-AT
1 GAAATGTAATACAAATGAAT
*
96795358 GAAATGTAATTCAAATGAAT
1 GAAATGTAATACAAATGAAT
96795378 GAA
1 GAA
96795381 TGCAAAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.50, C:0.07, G:0.14, T:0.29
Consensus pattern (20 bp):
GAAATGTAATACAAATGAAT
Found at i:96799719 original size:17 final size:17
Alignment explanation
Indices: 96799697--96799734 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
96799687 CGAAATACAT
*
96799697 AATATACAATAATTTAA
1 AATATAAAATAATTTAA
*
96799714 AATATAAAATAATTTGA
1 AATATAAAATAATTTAA
96799731 AATA
1 AATA
96799735 AATATATAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.34
Consensus pattern (17 bp):
AATATAAAATAATTTAA
Found at i:96805048 original size:21 final size:22
Alignment explanation
Indices: 96805015--96805055 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
96805005 TTCATTTATG
*
96805015 TTTCATTGGCACATA-ATCATA
1 TTTCATTGCCACATACATCATA
*
96805036 TTTCATTTCCACATACATCA
1 TTTCATTGCCACATACATCA
96805056 CAATACATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.32, C:0.24, G:0.05, T:0.39
Consensus pattern (22 bp):
TTTCATTGCCACATACATCATA
Found at i:96807018 original size:10 final size:10
Alignment explanation
Indices: 96807005--96807050 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
96806995 TAATTTCTAC
96807005 TTATTTTTAT
1 TTATTTTTAT
96807015 TTA--TTTAT
1 TTATTTTTAT
*
96807023 TTCTATTTTAT
1 TTAT-TTTTAT
96807034 TTATTTTTAT
1 TTATTTTTAT
*
96807044 TTGTTTT
1 TTATTTT
96807051 CTAGACATTC
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
8 7 0.23
10 15 0.50
11 8 0.27
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.78
Consensus pattern (10 bp):
TTATTTTTAT
Found at i:96807888 original size:43 final size:43
Alignment explanation
Indices: 96807800--96807890 Score: 101
Period size: 43 Copynumber: 2.1 Consensus size: 43
96807790 TTCCTTGGTC
* * * * ** *
96807800 CACACGGGCATGTACCTCAGTCACACGGTCATGTGCTTCTTTT
1 CACACAGGCATGTACCTCAGCCACACAGCCATGTGCCCCTCTT
* *
96807843 CACACAGGCGTGTGCCTCAGCCACACAGCCATGTGCCCCTCTT
1 CACACAGGCATGTACCTCAGCCACACAGCCATGTGCCCCTCTT
96807886 CACAC
1 CACAC
96807891 TGGCTTTTGA
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.20, C:0.37, G:0.20, T:0.23
Consensus pattern (43 bp):
CACACAGGCATGTACCTCAGCCACACAGCCATGTGCCCCTCTT
Found at i:96813097 original size:17 final size:17
Alignment explanation
Indices: 96813075--96813108 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
96813065 ACCGGTTATG
*
96813075 ATTCTGTTGCAATTAGT
1 ATTCTGTTACAATTAGT
96813092 ATTCTGTTACAATTAGT
1 ATTCTGTTACAATTAGT
96813109 TACAGTTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.12, G:0.15, T:0.47
Consensus pattern (17 bp):
ATTCTGTTACAATTAGT
Found at i:96813476 original size:33 final size:33
Alignment explanation
Indices: 96813434--96813808 Score: 435
Period size: 33 Copynumber: 11.0 Consensus size: 33
96813424 GGCATCATCC
* *
96813434 CCTGCTACCTCTCCTCTGGAAAAAGAAACGACA
1 CCTGCTACCTCTCCTCCGGAAAAAGAAACGACT
* *
96813467 CCTGCTACCTCTCCTCCGGAAAAGGTAACGACT
1 CCTGCTACCTCTCCTCCGGAAAAAGAAACGACT
* *
96813500 GCTGCTACCTCTCCTCCGGAAAAAGGAACGACT
1 CCTGCTACCTCTCCTCCGGAAAAAGAAACGACT
*
96813533 CCTGCTACCTCTCCTCCGGAAAATGAAACGACT
1 CCTGCTACCTCTCCTCCGGAAAAAGAAACGACT
96813566 CCTGCTACCTCTCCTCCGGAAAAAGAAACGACT
1 CCTGCTACCTCTCCTCCGGAAAAAGAAACGACT
* * * *
96813599 CCTGTTACCTTTCCTCCGGAAAAGGTAACGACT
1 CCTGCTACCTCTCCTCCGGAAAAAGAAACGACT
* * * * **
96813632 TCTTCGACCTCTCCTCTGGAAAAAGTAACAACTCCT
1 CCTGCTACCTCTCCTCCGGAAAAAG--A-AACGACT
*
96813668 GCTACTGCTACCTCTCCTCCGGAAAAAGTAACGACT
1 -C--CTGCTACCTCTCCTCCGGAAAAAGAAACGACT
*
96813704 CCTGCTACTGCCACCTCTCCTCCGGCAAAAGAAACGACT
1 CCTG---CT---ACCTCTCCTCCGGAAAAAGAAACGACT
*
96813743 CCTGCTACCTCTCCTCCGGCAAAAGAAACGACT
1 CCTGCTACCTCTCCTCCGGAAAAAGAAACGACT
** *
96813776 CCTGCTACCTCTCCTTTGGAAAAAGTAACGACT
1 CCTGCTACCTCTCCTCCGGAAAAAGAAACGACT
96813809 TCTGAAAAAG
Statistics
Matches: 292, Mismatches: 38, Indels: 24
0.82 0.11 0.07
Matches are distributed among these distances:
33 227 0.78
35 1 0.00
36 14 0.05
39 50 0.17
ACGTcount: A:0.27, C:0.35, G:0.16, T:0.22
Consensus pattern (33 bp):
CCTGCTACCTCTCCTCCGGAAAAAGAAACGACT
Found at i:96814499 original size:183 final size:183
Alignment explanation
Indices: 96814191--96814560 Score: 704
Period size: 183 Copynumber: 2.0 Consensus size: 183
96814181 GTGGGTCAAG
*
96814191 TTCAAATGGTCACAACCAAGACGATTCTATGATAAAAAATGGTGAATACTGGGCTCCACATGGTG
1 TTCAAATGGTCACAACCAAGACGATTCTATGATAAAAAATGGTGAATACTGGGCTCCACATGATG
96814256 AAACACGTGGTGCTTGTTTCAATACTTCAGAAGTGACGACTGAAAAAACTAAGGATAACGCAAAT
66 AAACACGTGGTGCTTGTTTCAATACTTCAGAAGTGACGACTGAAAAAACTAAGGATAACGCAAAT
96814321 GATGGCGTGGTTGAGATTTCCGGTGATGAAAGGTGGCGTAGGATGTTGGATTT
131 GATGGCGTGGTTGAGATTTCCGGTGATGAAAGGTGGCGTAGGATGTTGGATTT
*
96814374 TTCAAATGGTCACAACCAAGGCGATTCTATGATAAAAAATGGTGAATACTGGGCTCCACATGATG
1 TTCAAATGGTCACAACCAAGACGATTCTATGATAAAAAATGGTGAATACTGGGCTCCACATGATG
*
96814439 AAACACGTGGTGCTTGTTTCAATGCTTCAGAAGTGACGACTGAAAAAACTAAGGATAACGCAAAT
66 AAACACGTGGTGCTTGTTTCAATACTTCAGAAGTGACGACTGAAAAAACTAAGGATAACGCAAAT
*
96814504 GATGGCGTGGTTGAGATTTCCGGTGATGAAAGGTGGTGTAGGATGTTGGATTT
131 GATGGCGTGGTTGAGATTTCCGGTGATGAAAGGTGGCGTAGGATGTTGGATTT
96814557 TTCA
1 TTCA
96814561 TCTAAAAACA
Statistics
Matches: 183, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
183 183 1.00
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.27
Consensus pattern (183 bp):
TTCAAATGGTCACAACCAAGACGATTCTATGATAAAAAATGGTGAATACTGGGCTCCACATGATG
AAACACGTGGTGCTTGTTTCAATACTTCAGAAGTGACGACTGAAAAAACTAAGGATAACGCAAAT
GATGGCGTGGTTGAGATTTCCGGTGATGAAAGGTGGCGTAGGATGTTGGATTT
Found at i:96814738 original size:45 final size:45
Alignment explanation
Indices: 96814688--96814776 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
96814678 TCTTATATTC
* *
96814688 TACCATTAAACCATCATCCTTTCATTTCACCAGCTGGGGGAGTCG
1 TACCATTAAACCATCATCCCTTCATTTCACCAGCTGGGAGAGTCG
96814733 TACCATTAAACCATCATCCCTTCATTTCACCAGCTGGGAGAGTC
1 TACCATTAAACCATCATCCCTTCATTTCACCAGCTGGGAGAGTC
96814777 AGTGATCATG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (45 bp):
TACCATTAAACCATCATCCCTTCATTTCACCAGCTGGGAGAGTCG
Found at i:96833364 original size:42 final size:42
Alignment explanation
Indices: 96833317--96833400 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
96833307 AATACCTATG
96833317 CCCTATGTAATGATCCGATTTTTATCGGTGTAGAAAAATTCA
1 CCCTATGTAATGATCCGATTTTTATCGGTGTAGAAAAATTCA
96833359 CCCTATGTAATGATCCGATTTTTATCGGTGTAGAAAAATTCA
1 CCCTATGTAATGATCCGATTTTTATCGGTGTAGAAAAATTCA
96833401 ATTTTTTAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.36
Consensus pattern (42 bp):
CCCTATGTAATGATCCGATTTTTATCGGTGTAGAAAAATTCA
Found at i:96833787 original size:19 final size:19
Alignment explanation
Indices: 96833759--96833797 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
96833749 ACGTGACAAG
96833759 TCTCTCCTCAACCTATAAA
1 TCTCTCCTCAACCTATAAA
* *
96833778 TCTCTTCTCAATCTATAAA
1 TCTCTCCTCAACCTATAAA
96833797 T
1 T
96833798 AGGAGGATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.38
Consensus pattern (19 bp):
TCTCTCCTCAACCTATAAA
Found at i:96835990 original size:62 final size:57
Alignment explanation
Indices: 96835864--96836000 Score: 157
Period size: 62 Copynumber: 2.3 Consensus size: 57
96835854 TAATTCATAT
* * * * * *
96835864 AATAATTATATTAAGAATGTTATTAAATTATATATTATTTTATTAAATTATATTTAAT
1 AATAATTATATTAA-AATATGATTAAATTATATAGTATTTTATAAAAATATATTTAAC
96835922 AATAATTATATTAAAATATGATTAAATTATTTAGTAGTATTTTTAATAAAAATATATTTAAC
1 AATAATTATATTAAAATATGATTAAATTA--TA-TAGTA-TTTT-ATAAAAATATATTTAAC
*
96835984 AATAATTTTATTAAAAT
1 AATAATTATATTAAAAT
96836001 TTAATAGCAA
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
57 13 0.19
58 14 0.21
59 2 0.03
60 4 0.06
61 4 0.06
62 30 0.45
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.48
Consensus pattern (57 bp):
AATAATTATATTAAAATATGATTAAATTATATAGTATTTTATAAAAATATATTTAAC
Found at i:96836189 original size:16 final size:16
Alignment explanation
Indices: 96836168--96836222 Score: 83
Period size: 16 Copynumber: 3.4 Consensus size: 16
96836158 TGAATTACTG
96836168 ATTACAGCCCTATTCC
1 ATTACAGCCCTATTCC
* *
96836184 ATTACAGCTCTATTCA
1 ATTACAGCCCTATTCC
*
96836200 ATTACAGCCCTATTTC
1 ATTACAGCCCTATTCC
96836216 ATTACAG
1 ATTACAG
96836223 TGAACCAAAC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.29, C:0.29, G:0.07, T:0.35
Consensus pattern (16 bp):
ATTACAGCCCTATTCC
Found at i:96837612 original size:24 final size:21
Alignment explanation
Indices: 96837591--96837633 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
96837581 AATTTAAATT
96837591 TAATATTTATCATAAAAATAAA
1 TAATA-TTATCATAAAAATAAA
* *
96837613 TACTATTATTATAAAAATAAA
1 TAATATTATCATAAAAATAAA
96837634 AAAATTGTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (21 bp):
TAATATTATCATAAAAATAAA
Found at i:96838723 original size:31 final size:31
Alignment explanation
Indices: 96838675--96838733 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
96838665 TCATATACGC
96838675 AAAATTTAAATTATGATT-AATGTGTATATAT
1 AAAATTTAAATTATGATTCAAT-TGTATATAT
*
96838706 AAAACTTT-AATTTTGATTCAATTGTATA
1 AAAA-TTTAAATTATGATTCAATTGTATA
96838734 AATTTAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
31 19 0.76
32 6 0.24
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.46
Consensus pattern (31 bp):
AAAATTTAAATTATGATTCAATTGTATATAT
Found at i:96840389 original size:3 final size:3
Alignment explanation
Indices: 96840383--96840447 Score: 55
Period size: 3 Copynumber: 22.3 Consensus size: 3
96840373 TTCTAAGATT
* ** *
96840383 TTA TTA TTA TTA TTA TTAA TTA TTA GTA TGG TT- TTA -TA TTA -AA
1 TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
96840426 TTA ATA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA T
96840448 GGTTCATATT
Statistics
Matches: 49, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
2 5 0.10
3 41 0.84
4 3 0.06
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:96840863 original size:22 final size:21
Alignment explanation
Indices: 96840831--96840871 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
96840821 TAAACAAAGT
96840831 AAATAAAAGAATA-AAAGAATG
1 AAATAAAAGAA-ACAAAGAATG
96840852 AAATAAAAAGAAACAAAGAA
1 AAAT-AAAAGAAACAAAGAA
96840872 AAGAAAGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.76, C:0.02, G:0.12, T:0.10
Consensus pattern (21 bp):
AAATAAAAGAAACAAAGAATG
Found at i:96841839 original size:21 final size:21
Alignment explanation
Indices: 96841783--96841843 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 21
96841773 TTTACTGATC
*
96841783 AGGCACTTTATGTGTCTATTTT
1 AGGCACTTTATGTGTC-GTTTT
* **
96841805 AGGCACCTCGTGTGTCGTTTT
1 AGGCACTTTATGTGTCGTTTT
96841826 AGGCACTTTATGTGTCGT
1 AGGCACTTTATGTGTCGT
96841844 ATTCTGATCA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 19 0.59
22 13 0.41
ACGTcount: A:0.15, C:0.18, G:0.25, T:0.43
Consensus pattern (21 bp):
AGGCACTTTATGTGTCGTTTT
Found at i:96845837 original size:21 final size:21
Alignment explanation
Indices: 96845813--96846068 Score: 74
Period size: 21 Copynumber: 12.2 Consensus size: 21
96845803 CTTTCTTTTT
*
96845813 AGCTCTTTCAAGCTTCTGTTA
1 AGCTCTTACAAGCTTCTGTTA
*
96845834 AGCTCTTACGAGCTTCTGTTCA
1 AGCTCTTACAAGCTTCTGTT-A
* * ** * *
96845856 A-CCCCTATGAGTTTCTATTTA
1 AGCTCTTACAAGCTTCT-GTTA
*
96845877 A-CTCTTACAAGCATCTGTTCA
1 AGCTCTTACAAGCTTCTGTT-A
* ** *
96845898 A-CTTTTATGAGTTTCTGTTA
1 AGCTCTTACAAGCTTCTGTTA
* **
96845918 AGCTTTTATGAGCTTCTGTTCA
1 AGCTCTTACAAGCTTCTGTT-A
* **** * *
96845940 A-CTTTTTTGGGTTTTTGTTA
1 AGCTCTTACAAGCTTCTGTTA
* *
96845960 AGCTCTTACGAGCTTTTGTTTA
1 AGCTCTTACAAGCTTCTG-TTA
** * *
96845982 A-CTCTTATGAGTTTCTGTTC
1 AGCTCTTACAAGCTTCTGTTA
* *
96846002 AGCTCTTACGAGCTTTTGTTCA
1 AGCTCTTACAAGCTTCTGTT-A
** * * *
96846024 A-CTCTTATGAGTTTCTATTC
1 AGCTCTTACAAGCTTCTGTTA
* *
96846044 AGCTCTTACGAGCTTCTGTTC
1 AGCTCTTACAAGCTTCTGTTA
96846065 AGCT
1 AGCT
96846069 TTCGAGTTTC
Statistics
Matches: 180, Mismatches: 45, Indels: 20
0.73 0.18 0.08
Matches are distributed among these distances:
20 10 0.06
21 159 0.88
22 11 0.06
ACGTcount: A:0.19, C:0.21, G:0.16, T:0.45
Consensus pattern (21 bp):
AGCTCTTACAAGCTTCTGTTA
Found at i:96845895 original size:42 final size:42
Alignment explanation
Indices: 96845826--96846065 Score: 277
Period size: 42 Copynumber: 5.7 Consensus size: 42
96845816 TCTTTCAAGC
* * *
96845826 TTCTGTTAAGCTCTTACGAGCTTCTGTTCAACCCCTATGAGT
1 TTCTTTTAAGCTCTTACGAGCTTCTGTTCAACTCTTATGAGT
* * *
96845868 TTCTATTTAA-CTCTTACAAGCATCTGTTCAACTTTTATGAGT
1 TTCT-TTTAAGCTCTTACGAGCTTCTGTTCAACTCTTATGAGT
* * * * * *
96845910 TTCTGTTAAGCTTTTATGAGCTTCTGTTCAACTTTTTTGGGT
1 TTCTTTTAAGCTCTTACGAGCTTCTGTTCAACTCTTATGAGT
* *
96845952 TT-TTGTTAAGCTCTTACGAGCTTTTGTTTAACTCTTATGAGT
1 TTCTT-TTAAGCTCTTACGAGCTTCTGTTCAACTCTTATGAGT
* * *
96845994 TTCTGTTCAGCTCTTACGAGCTTTTGTTCAACTCTTATGAGT
1 TTCTTTTAAGCTCTTACGAGCTTCTGTTCAACTCTTATGAGT
* *
96846036 TTCTATTCAGCTCTTACGAGCTTCTGTTCA
1 TTCTTTTAAGCTCTTACGAGCTTCTGTTCA
96846066 GCTTTCGAGT
Statistics
Matches: 168, Mismatches: 26, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
41 5 0.03
42 158 0.94
43 5 0.03
ACGTcount: A:0.19, C:0.20, G:0.15, T:0.46
Consensus pattern (42 bp):
TTCTTTTAAGCTCTTACGAGCTTCTGTTCAACTCTTATGAGT
Found at i:96850235 original size:46 final size:46
Alignment explanation
Indices: 96850183--96850502 Score: 435
Period size: 46 Copynumber: 7.0 Consensus size: 46
96850173 AGTGTGCTCT
* *
96850183 CTGATATGAAATGTGTAAGACCATAGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
96850229 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
96850275 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
96850321 GTGATATGAAATGAATAAGATCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** * *
96850367 ATGACGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
96850413 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
96850459 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
96850503 TCATGTCAAA
Statistics
Matches: 253, Mismatches: 20, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 1 0.00
46 252 1.00
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:96850809 original size:16 final size:17
Alignment explanation
Indices: 96850788--96850820 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
96850778 ATGATGGAGC
96850788 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
96850804 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
96850821 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:96872144 original size:18 final size:18
Alignment explanation
Indices: 96872117--96872163 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
96872107 TTACACCAAA
* *
96872117 AAAATTTAAAATATATAT-
1 AAAATATAAAAGA-ATATC
*
96872135 AAAATCTAAAAGAATATC
1 AAAATATAAAAGAATATC
96872153 AAAATATAAAA
1 AAAATATAAAA
96872164 AAAAAAATTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 4 0.16
18 21 0.84
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.28
Consensus pattern (18 bp):
AAAATATAAAAGAATATC
Found at i:96881737 original size:24 final size:24
Alignment explanation
Indices: 96881683--96881728 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
96881673 GGCACCAGCT
96881683 GAACCATTTTCTTGACAGTCAAAA
1 GAACCATTTTCTTGACAGTCAAAA
96881707 GAACCATTTTCTTGACAGTCAA
1 GAACCATTTTCTTGACAGTCAA
96881729 CAAATCCATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.30
Consensus pattern (24 bp):
GAACCATTTTCTTGACAGTCAAAA
Found at i:96883244 original size:89 final size:89
Alignment explanation
Indices: 96883093--96883271 Score: 349
Period size: 89 Copynumber: 2.0 Consensus size: 89
96883083 GCAATGTGTT
96883093 AACTTTTTTACATCTGCTCAAATGACGTTCGTTTTTTTATCCTTCCATTTACAAAGAAGTTAAAG
1 AACTTTTTTACATCTGCTCAAATGACGTTCGTTTTTTTATCCTTCCATTTACAAAGAAGTTAAAG
96883158 CTTCCACGGAGTTCAAATCTGTAA
66 CTTCCACGGAGTTCAAATCTGTAA
96883182 AACTTTTTTACATCTGCTCAAATGACGTTCGTTTTTTTATCCTTCCATTTACAAAGAAGTTAAAG
1 AACTTTTTTACATCTGCTCAAATGACGTTCGTTTTTTTATCCTTCCATTTACAAAGAAGTTAAAG
*
96883247 CTTCCATGGAGTTCAAATCTGTAA
66 CTTCCACGGAGTTCAAATCTGTAA
96883271 A
1 A
96883272 TGCGACCCCC
Statistics
Matches: 89, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
89 89 1.00
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.39
Consensus pattern (89 bp):
AACTTTTTTACATCTGCTCAAATGACGTTCGTTTTTTTATCCTTCCATTTACAAAGAAGTTAAAG
CTTCCACGGAGTTCAAATCTGTAA
Found at i:96889037 original size:9 final size:9
Alignment explanation
Indices: 96889021--96889081 Score: 104
Period size: 9 Copynumber: 6.8 Consensus size: 9
96889011 GGTATTTTTC
96889021 GGTAATTCG
1 GGTAATTCG
*
96889030 GTTAATTCG
1 GGTAATTCG
*
96889039 GTTAATTCG
1 GGTAATTCG
96889048 GGTAATTCG
1 GGTAATTCG
96889057 GGTAATTCG
1 GGTAATTCG
96889066 GGTAATTCG
1 GGTAATTCG
96889075 GGTAATT
1 GGTAATT
96889082 TTTAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 50 1.00
ACGTcount: A:0.23, C:0.10, G:0.30, T:0.38
Consensus pattern (9 bp):
GGTAATTCG
Found at i:96889259 original size:12 final size:12
Alignment explanation
Indices: 96889242--96889266 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
96889232 AGTAATTTCG
96889242 GGTCGGTTAACC
1 GGTCGGTTAACC
96889254 GGTCGGTTAACC
1 GGTCGGTTAACC
96889266 G
1 G
96889267 AATGAACACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:96892258 original size:61 final size:61
Alignment explanation
Indices: 96892099--96892259 Score: 164
Period size: 61 Copynumber: 2.6 Consensus size: 61
96892089 TCCTCTAATG
* * * * * *
96892099 TTTACACATTCTATCAATTT-GATCCTAAATATAAAAAATTCAACAAATTTAGCCTTCAATA
1 TTTACACAATCTTTCAATTTAG-TCCTAAATCTAAAAATTTCAACAAATTTAGCCCTCAACA
* * * * * * *
96892160 TTTACAAAAT-TTGACATTTTAGTTCTAATTCTAAAAATTTCAATAAATTTGGCCCTCAACA
1 TTTACACAATCTT-TCAATTTAGTCCTAAATCTAAAAATTTCAACAAATTTAGCCCTCAACA
*
96892221 TTTACACAATCTTTCAATTTAGTCCTAACTCTAAAAATT
1 TTTACACAATCTTTCAATTTAGTCCTAAATCTAAAAATT
96892260 AAAAAATATA
Statistics
Matches: 79, Mismatches: 18, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
60 1 0.01
61 75 0.95
62 3 0.04
ACGTcount: A:0.39, C:0.18, G:0.04, T:0.39
Consensus pattern (61 bp):
TTTACACAATCTTTCAATTTAGTCCTAAATCTAAAAATTTCAACAAATTTAGCCCTCAACA
Found at i:96903051 original size:17 final size:18
Alignment explanation
Indices: 96903029--96903063 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
96903019 AAGTGGGACG
96903029 TGTGGG-CTACACGAGTA
1 TGTGGGCCTACACGAGTA
*
96903046 TGTGGGCCTATACGAGTA
1 TGTGGGCCTACACGAGTA
96903064 AACCATACGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.23, C:0.17, G:0.34, T:0.26
Consensus pattern (18 bp):
TGTGGGCCTACACGAGTA
Found at i:96905779 original size:26 final size:27
Alignment explanation
Indices: 96905691--96905767 Score: 127
Period size: 27 Copynumber: 2.9 Consensus size: 27
96905681 TGCATACATA
*
96905691 ACATAAGGGCAAAACAGTCATTTTACC
1 ACATAAGGGCAAAATAGTCATTTTACC
*
96905718 ACATAAGGGCAAAATAGTTATTTTACC
1 ACATAAGGGCAAAATAGTCATTTTACC
*
96905745 ACATGAGGGCAAAATAGTCATTT
1 ACATAAGGGCAAAATAGTCATTT
96905768 ATCAATCTAG
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (27 bp):
ACATAAGGGCAAAATAGTCATTTTACC
Found at i:96914901 original size:48 final size:46
Alignment explanation
Indices: 96914802--96914970 Score: 130
Period size: 46 Copynumber: 3.6 Consensus size: 46
96914792 TATTGTGAGT
* ** * *
96914802 TAGTGTTAGACATGTCTGTGACATGCATCGGTCATATTATGGGAGC
1 TAGTGTTAGACATGTCTGGGACATGCATCGGTCATAAGACGAGAGC
* *
96914848 CAGTGTTAGACCATGTCTGGGGCATAGCATCGG-CATTAAGACGAGAGC
1 TAGTGTTAGA-CATGTCTGGGACAT-GCATCGGTCA-TAAGACGAGAGC
* * * *
96914896 TAGTGTAAGACATGT-TAGGGACATGTATCGG-CCTCGAGACGTA-AGC
1 TAGTGTTAGACATGTCT-GGGACATGCATCGGTCAT-AAGACG-AGAGC
* * *
96914942 CAGTGTAAGACATGTTTGGGACATGCATC
1 TAGTGTTAGACATGTCTGGGACATGCATC
96914971 AGCTATGAAA
Statistics
Matches: 101, Mismatches: 15, Indels: 14
0.78 0.12 0.11
Matches are distributed among these distances:
45 1 0.01
46 50 0.50
47 27 0.27
48 23 0.23
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.26
Consensus pattern (46 bp):
TAGTGTTAGACATGTCTGGGACATGCATCGGTCATAAGACGAGAGC
Found at i:96928334 original size:16 final size:16
Alignment explanation
Indices: 96928313--96928343 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
96928303 ATCAAGTTAA
*
96928313 AAAAATTATTTAATTG
1 AAAAATTAATTAATTG
96928329 AAAAATTAATTAATT
1 AAAAATTAATTAATT
96928344 AATTTAAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (16 bp):
AAAAATTAATTAATTG
Found at i:96939007 original size:15 final size:16
Alignment explanation
Indices: 96938987--96939016 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
96938977 AATTTATATT
96938987 TTAGAA-AATAAAAAA
1 TTAGAAGAATAAAAAA
96939002 TTAGAAGAATAAAAA
1 TTAGAAGAATAAAAA
96939017 GAAACTCTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.70, C:0.00, G:0.10, T:0.20
Consensus pattern (16 bp):
TTAGAAGAATAAAAAA
Found at i:96948404 original size:25 final size:24
Alignment explanation
Indices: 96948350--96948404 Score: 58
Period size: 26 Copynumber: 2.2 Consensus size: 24
96948340 TTTTTAAAAC
*
96948350 TATTTTAAAATTATTAAAATATTA
1 TATTTTAAAATTATTAAAATATCA
*
96948374 TAATTTTCAATATTATTAAACATA-CA
1 T-ATTTT-AAAATTATTAAA-ATATCA
96948400 TATTT
1 TATTT
96948405 AATTATTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 1 0.04
25 9 0.35
26 13 0.50
27 3 0.12
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.49
Consensus pattern (24 bp):
TATTTTAAAATTATTAAAATATCA
Found at i:96948513 original size:15 final size:16
Alignment explanation
Indices: 96948486--96948515 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
96948476 AATTTTATTT
96948486 AATAATAAATTTTAAA
1 AATAATAAATTTTAAA
96948502 AATAAT-AATTTTAA
1 AATAATAAATTTTAA
96948516 GTAATATTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
AATAATAAATTTTAAA
Found at i:96958608 original size:21 final size:21
Alignment explanation
Indices: 96958582--96958632 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
96958572 GCGGTGGCGG
*
96958582 TGAGATTAGTTACTGTAGCGA
1 TGAGATTAGGTACTGTAGCGA
* *
96958603 TGAGATTGGGTACTGTAGCGG
1 TGAGATTAGGTACTGTAGCGA
96958624 TGAGATTAG
1 TGAGATTAG
96958633 AAATAATAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.25, C:0.08, G:0.35, T:0.31
Consensus pattern (21 bp):
TGAGATTAGGTACTGTAGCGA
Found at i:96960666 original size:27 final size:28
Alignment explanation
Indices: 96960613--96960671 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 28
96960603 AATACCAAAC
*
96960613 ATAAAAAGTAGCATACATTAGTTTTACA
1 ATAAAAAGTAGCATACATTAGTATTACA
* *
96960641 TATAAAAAGTAGTATA-GTTA-TATTACA
1 -ATAAAAAGTAGCATACATTAGTATTACA
96960668 ATAA
1 ATAA
96960672 TATTTCTAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 4 0.15
27 6 0.22
28 3 0.11
29 14 0.52
ACGTcount: A:0.49, C:0.07, G:0.10, T:0.34
Consensus pattern (28 bp):
ATAAAAAGTAGCATACATTAGTATTACA
Found at i:96962298 original size:64 final size:64
Alignment explanation
Indices: 96962197--96962343 Score: 285
Period size: 64 Copynumber: 2.3 Consensus size: 64
96962187 ATGTTATATT
96962197 AGTTCGAATCCTCTAATTTTGATTGAATTAATAAGGTTAGAAATTTGAGAATTTTAAAATCTTA
1 AGTTCGAATCCTCTAATTTTGATTGAATTAATAAGGTTAGAAATTTGAGAATTTTAAAATCTTA
*
96962261 AGTTCGAATCCTTTAATTTTGATTGAATTAATAAGGTTAGAAATTTGAGAATTTTAAAATCTTA
1 AGTTCGAATCCTCTAATTTTGATTGAATTAATAAGGTTAGAAATTTGAGAATTTTAAAATCTTA
96962325 AGTTCGAATCCTCTAATTT
1 AGTTCGAATCCTCTAATTT
96962344 AAATACTATA
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 81 1.00
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.41
Consensus pattern (64 bp):
AGTTCGAATCCTCTAATTTTGATTGAATTAATAAGGTTAGAAATTTGAGAATTTTAAAATCTTA
Found at i:96962995 original size:15 final size:15
Alignment explanation
Indices: 96962975--96963006 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
96962965 TGTAAGTTTC
96962975 TTAGAAATAAAATGA
1 TTAGAAATAAAATGA
*
96962990 TTAGAAATAAGATGA
1 TTAGAAATAAAATGA
96963005 TT
1 TT
96963007 GGGGAAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.16, T:0.31
Consensus pattern (15 bp):
TTAGAAATAAAATGA
Found at i:96963686 original size:378 final size:379
Alignment explanation
Indices: 96962990--96963733 Score: 1436
Period size: 378 Copynumber: 2.0 Consensus size: 379
96962980 AATAAAATGA
96962990 TTAGAAATAAGATGATTGGGGAAATTTGGGTCAAAATTAAGGAAAAAGCAGTGAAGATAATCCTG
1 TTAGAAATAAGATGATTGGGGAAATTTGGGTCAAAATTAAGGAAAAAGCAGTGAAGATAATCCTG
*
96963055 GGAAGTGAATGGGAAACTTCCCAATCCAGGTGTTGAATGCAACAGTTTTTTCCTTTGAAATGAAT
66 GGAAGTGAATGGGAAACTTCCCAATCCAGGTGTTGAATGCAACAGTTTTTTCCTTTGAAATGAAC
*
96963120 GACCGAAAGAGTGAGCTCTTTTTTTTCCTTCTTGTTGTTGATTTAATTTGTGCTTTCTTTGCTTC
131 GACCGAAAGAGTGAGCTCTTTTTTTTCCTTCTTGTTGTTGATTTAATTTGTGCTTTCTTTGATTC
96963185 TTTTCATTTGGTTAACGAATCTCTGAATCTTTTCATTTGATTTAATTTGTGCTTTCTTCGCTTTT
196 TTTTCATTTGGTTAACGAATCTCTGAATCTTTTCATTTGATTTAATTTGTGCTTTCTTCGCTTTT
96963250 TTTCATTTGGTTTGATTTATCCTCTCCCTCTCTCTTTGTCTCACACATATGCACATCAACAGACG
261 TTTCATTTGGTTTGATTTATCCTCTCCCTCTCTCTTTGTCTCACACATATGCACATCAACAGACG
*
96963315 CAATTGTGTGCTCATCTCTTGTTTTCATTATAATTTATTGCATTTGTAAGTTTC
326 CAATTGTGTGCTCATCTCTTGTTCTCATTATAATTTATTGCATTTGTAAGTTTC
*
96963369 TTAGAAATAAGATGATTGGGGAAATTTGGGTCAAAATTGAGGAAAAAGCAGTGAAGATAATCCTG
1 TTAGAAATAAGATGATTGGGGAAATTTGGGTCAAAATTAAGGAAAAAGCAGTGAAGATAATCCTG
96963434 GGAAGTGAATGGGAAACTTCCCAATCCAGGTGTTGAATGCAACAGTTTTTTCCTTTGAAATGAAC
66 GGAAGTGAATGGGAAACTTCCCAATCCAGGTGTTGAATGCAACAGTTTTTTCCTTTGAAATGAAC
96963499 GACCGAAAGAGTGAGCTC-TTTTTTTCCTTCTTGTTGTTGATTTAATTTGTGCTTTCTTTGATTC
131 GACCGAAAGAGTGAGCTCTTTTTTTTCCTTCTTGTTGTTGATTTAATTTGTGCTTTCTTTGATTC
96963563 TTTTCATTTGGTTAACGAATCTCTGAATCTTTTCATTTGATTTAATTTGTGCTTTCTTCGCTTTT
196 TTTTCATTTGGTTAACGAATCTCTGAATCTTTTCATTTGATTTAATTTGTGCTTTCTTCGCTTTT
96963628 TTTCATTTGGTTTGATTTATCCTCTCCCTCTCTCTTTGTCTCACACATATGCACATCAACAGACG
261 TTTCATTTGGTTTGATTTATCCTCTCCCTCTCTCTTTGTCTCACACATATGCACATCAACAGACG
*
96963693 CAATTGTGTGTTCATCTCTTGTTCTCATTATAATTTATTGC
326 CAATTGTGTGCTCATCTCTTGTTCTCATTATAATTTATTGC
96963734 TATTGAATGC
Statistics
Matches: 360, Mismatches: 5, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
378 214 0.59
379 146 0.41
ACGTcount: A:0.24, C:0.17, G:0.18, T:0.42
Consensus pattern (379 bp):
TTAGAAATAAGATGATTGGGGAAATTTGGGTCAAAATTAAGGAAAAAGCAGTGAAGATAATCCTG
GGAAGTGAATGGGAAACTTCCCAATCCAGGTGTTGAATGCAACAGTTTTTTCCTTTGAAATGAAC
GACCGAAAGAGTGAGCTCTTTTTTTTCCTTCTTGTTGTTGATTTAATTTGTGCTTTCTTTGATTC
TTTTCATTTGGTTAACGAATCTCTGAATCTTTTCATTTGATTTAATTTGTGCTTTCTTCGCTTTT
TTTCATTTGGTTTGATTTATCCTCTCCCTCTCTCTTTGTCTCACACATATGCACATCAACAGACG
CAATTGTGTGCTCATCTCTTGTTCTCATTATAATTTATTGCATTTGTAAGTTTC
Found at i:96966056 original size:21 final size:21
Alignment explanation
Indices: 96966030--96966073 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
96966020 AAATAGAGCT
96966030 TCTTTGAGTCTGCTGTGAGTG
1 TCTTTGAGTCTGCTGTGAGTG
96966051 TCTTTGAGTCTGCTGTGAGTG
1 TCTTTGAGTCTGCTGTGAGTG
96966072 TC
1 TC
96966074 AATTGAAGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.09, C:0.16, G:0.32, T:0.43
Consensus pattern (21 bp):
TCTTTGAGTCTGCTGTGAGTG
Found at i:96971735 original size:18 final size:19
Alignment explanation
Indices: 96971712--96971747 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
96971702 CTCCATGCCA
96971712 AAGTGAAAAAA-GATTTTT
1 AAGTGAAAAAATGATTTTT
96971730 AAGTGAAAAAATGATTTT
1 AAGTGAAAAAATGATTTT
96971748 GGCCACATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.50, C:0.00, G:0.17, T:0.33
Consensus pattern (19 bp):
AAGTGAAAAAATGATTTTT
Found at i:96971927 original size:48 final size:49
Alignment explanation
Indices: 96971817--96971928 Score: 147
Period size: 48 Copynumber: 2.3 Consensus size: 49
96971807 TGCATTAATA
* * *
96971817 TGACACTGTTCACAATTTTGATTATGTAGCAGTATATCTATGATTTTTG
1 TGACACTGTTCACAATATAGATTATGTAGCAGTATATCTATGATTTTGG
* * * *
96971866 TGGC-TTGTCCACAATATAGATTAT-TAGCAGTTTATCTATGATTTTGG
1 TGACACTGTTCACAATATAGATTATGTAGCAGTATATCTATGATTTTGG
96971913 TGACACTGTTCACAAT
1 TGACACTGTTCACAAT
96971929 TTGGTGTGTT
Statistics
Matches: 52, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
47 24 0.46
48 25 0.48
49 3 0.06
ACGTcount: A:0.27, C:0.14, G:0.17, T:0.42
Consensus pattern (49 bp):
TGACACTGTTCACAATATAGATTATGTAGCAGTATATCTATGATTTTGG
Found at i:96979949 original size:28 final size:28
Alignment explanation
Indices: 96979871--96979951 Score: 82
Period size: 27 Copynumber: 3.0 Consensus size: 28
96979861 AAAATGTGGG
*
96979871 ACAATTTTTAAAAT--AAAATA-A-AAT
1 ACAATTTTTAAAATAAAAAATACATAAA
* * *
96979895 ACAAGATCTTAAAATAAATAAT-CATAAA
1 ACAA-TTTTTAAAATAAAAAATACATAAA
96979923 ACAATTTTTAAAATAAAAAATACATAAA
1 ACAATTTTTAAAATAAAAAATACATAAA
96979951 A
1 A
96979952 ATAAAAAATA
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
24 4 0.09
25 8 0.18
27 19 0.43
28 13 0.30
ACGTcount: A:0.63, C:0.07, G:0.01, T:0.28
Consensus pattern (28 bp):
ACAATTTTTAAAATAAAAAATACATAAA
Found at i:96979952 original size:17 final size:17
Alignment explanation
Indices: 96979932--96979969 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
96979922 AACAATTTTT
96979932 AAAATAAAAAATACATA
1 AAAATAAAAAATACATA
*
96979949 AAAATAAAAAATATATA
1 AAAATAAAAAATACATA
96979966 AAAA
1 AAAA
96979970 ATAGTTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (17 bp):
AAAATAAAAAATACATA
Found at i:96980085 original size:25 final size:24
Alignment explanation
Indices: 96980055--96980111 Score: 60
Period size: 26 Copynumber: 2.3 Consensus size: 24
96980045 AAGAAAGTTA
* *
96980055 AATAAAAAAATTGAAATAAATAAT
1 AATAAAAAAATTAAAATAAACAAT
* *
96980079 ATATAAAGAGATTTAAAATAAACAAT
1 A-ATAAA-AAAATTAAAATAAACAAT
96980105 AATAAAA
1 AATAAAA
96980112 CAGAAAAGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
24 2 0.07
25 10 0.37
26 15 0.56
ACGTcount: A:0.68, C:0.02, G:0.05, T:0.25
Consensus pattern (24 bp):
AATAAAAAAATTAAAATAAACAAT
Found at i:96981445 original size:89 final size:89
Alignment explanation
Indices: 96981352--96981623 Score: 218
Period size: 89 Copynumber: 3.1 Consensus size: 89
96981342 TAATTTAAAC
**
96981352 CTGCTCTCTTACTACCTCAGAGAGATAAGGCTGGTGGCTAAAGTCTGCTTCATTGCCGATACATG
1 CTGCTCTCTTACTACCTCAGAGAGATAATACTGGTGGCTAAAGTCTGCTTCATTGCCGATACATG
*
96981417 AAGGTAAGATTCGTCATCTTCGAT
66 AAGATAAGATTCGTCATCTTCGAT
* * * * * *** ** * * *
96981441 CTGCTC-C--ACTACTGCTTAGGGATATAATATTTGTAATTTTCAGTATGCTTCCTTGCTAC-CT
1 CTGCTCTCTTACTAC--CTCAGAGAGATAATACTGGT-GGCTAAAGTCTGCTTCATTGC--CGAT
* * * * *
96981502 -CAGGAAGATAAGAATAGT-ATCTTCAAC
61 ACATGAAGATAAGATTCGTCATCTTCGAT
* *
96981529 CTGCTCTCTTACTACCTCAGAGAGATAATACTGGTGGCTAAAATCTGC-TCTATTGCTGATACAT
1 CTGCTCTCTTACTACCTCAGAGAGATAATACTGGTGGCTAAAGTCTGCTTC-ATTGCCGATACAT
96981593 -AGAGATAAGATTCGTCATCTTCGAT
65 GA-AGATAAGATTCGTCATCTTCGAT
96981618 CTGCTC
1 CTGCTC
96981624 CACTACTGCT
Statistics
Matches: 129, Mismatches: 41, Indels: 26
0.66 0.21 0.13
Matches are distributed among these distances:
86 5 0.04
87 4 0.03
88 50 0.39
89 63 0.49
90 1 0.01
91 6 0.05
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (89 bp):
CTGCTCTCTTACTACCTCAGAGAGATAATACTGGTGGCTAAAGTCTGCTTCATTGCCGATACATG
AAGATAAGATTCGTCATCTTCGAT
Found at i:96981790 original size:44 final size:44
Alignment explanation
Indices: 96981715--96981855 Score: 112
Period size: 44 Copynumber: 3.2 Consensus size: 44
96981705 GCCTATTTCC
* **
96981715 CTACTGCTTAGGGGGATGA-AGCTCACCATCTTCGATCCACTCCA
1 CTACTGCTTAGGGGGATGAGATCT-ATAATCTTCGATCCACTCCA
* ***
96981759 CTACTGCTTAGGGTGATGAGATCTATAATCTTC-AGTCTGTTTCC-
1 CTACTGCTTAGGGGGATGAGATCTATAATCTTCGA-TC-CACTCCA
* * *
96981803 CTACTGCTTAGGGGGATAAG-TCT-TACGTCTTCGATCCGCTCCA
1 CTACTGCTTAGGGGGATGAGATCTATA-ATCTTCGATCCACTCCA
*
96981846 CTACCGCTTA
1 CTACTGCTTA
96981856 AGGAGATAAA
Statistics
Matches: 77, Mismatches: 14, Indels: 13
0.74 0.13 0.12
Matches are distributed among these distances:
42 5 0.06
43 20 0.26
44 46 0.60
45 6 0.08
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.31
Consensus pattern (44 bp):
CTACTGCTTAGGGGGATGAGATCTATAATCTTCGATCCACTCCA
Found at i:96981893 original size:87 final size:88
Alignment explanation
Indices: 96981703--96982263 Score: 718
Period size: 88 Copynumber: 6.4 Consensus size: 88
96981693 TTCTAATCTT
* * *
96981703 CAGCCTATTTCCCTACTGCTTAGGGGGATGAA-GCTCACCATCTTCGATCCACTCCACTACTGCT
1 CAGCCTATTTCCCTACTGCTTAGGGGG-TTAAGGCTCACCGTCTTCGATCCGCTCCACTACTGCT
* * *
96981767 TAGGGTGATGAGATCTATAATCTT-
65 TAGGGAGATAAGATCTGTAAT-TTC
* * * * * *
96981791 CAGTCTGTTTCCCTACTGCTTAGGGGGATAAGTCTTA-CGTCTTCGATCCGCTCCACTACCGCTT
1 CAGCCTATTTCCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATCCGCTCCACTACTGCTT
* *
96981855 AAGGAGATAAAATCTGTAATTTC
66 AGGGAGATAAGATCTGTAATTTC
* * * *
96981878 CAGCCTATTTTCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTTGATCTGCTCCATTACTGCTT
1 CAGCCTATTTCCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATCCGCTCCACTACTGCTT
96981943 A-GGAGATAAGATCTGTAATTTC
66 AGGGAGATAAGATCTGTAATTTC
* * * * * ** *
96981965 CAGCCTGTTTTCCTACTGCTTAAGGGGTTAAGGCTCACCATCTTTGATCTTCTTCACTACTGCTT
1 CAGCCTATTTCCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATCCGCTCCACTACTGCTT
96982030 AGGGAGATAAGATCTGTAATTTC
66 AGGGAGATAAGATCTGTAATTTC
* *
96982053 CAGCCTATTTCCCTACTGCTTAGAGGGTTAAGGCTCACCGTCTTCGATCTGCTCCACTACTGCTT
1 CAGCCTATTTCCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATCCGCTCCACTACTGCTT
96982118 AGGGAGATAAGATCTGTAATTTC
66 AGGGAGATAAGATCTGTAATTTC
* * * * * * *
96982141 TAGCCTATTTCTCTACTACTTAGGGGGTTAAGGCTCACCGTCTTTGATCCACTCGACTACTACTT
1 CAGCCTATTTCCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATCCGCTCCACTACTGCTT
* *
96982206 GGGGAGATCAA-ATCTGTAATTGC
66 AGGGAGAT-AAGATCTGTAATTTC
*
96982229 CAGCCTATTTCCCTACTACTTAGGGGGTTAAGGCT
1 CAGCCTATTTCCCTACTGCTTAGGGGGTTAAGGCT
96982264 AGTGAATTCA
Statistics
Matches: 416, Mismatches: 52, Indels: 10
0.87 0.11 0.02
Matches are distributed among these distances:
86 2 0.00
87 152 0.37
88 260 0.62
89 2 0.00
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (88 bp):
CAGCCTATTTCCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATCCGCTCCACTACTGCTT
AGGGAGATAAGATCTGTAATTTC
Found at i:96982038 original size:175 final size:176
Alignment explanation
Indices: 96981680--96982263 Score: 743
Period size: 175 Copynumber: 3.3 Consensus size: 176
96981670 TTGCAACTTC
* *
96981680 AGGGAGATAAAA-CTTCTAATCTT-CAGCCTATTTCCCTACTGCTTAGGGGGATGAA-GCTCACC
1 AGGGAGATAAAATC-TGTAAT-TTCCAGCCTATTTCCCTACTGCTTAGGGGG-TTAAGGCTCACC
* ** * * * * *
96981742 ATCTTCGATCCACTCCACTACTGCTTAGGGTGATGAGATCTATAATCTT-CAGTCTGTTTCCCTA
63 GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAT-TTCCAGCCTGTTTTCCTA
* * * * * * *
96981806 CTGCTTAGGGGGATAAGTCTTA-CGTCTTCGATCCGCTCCACTACCGCTT
127 CTGCTTAGGGGGTTAAGGCTCACCGTCTTTGATCCACTTCACTACTGCTT
* *
96981855 AAGGAGATAAAATCTGTAATTTCCAGCCTATTTTCCTACTGCTTAGGGGGTTAAGGCTCACCGTC
1 AGGGAGATAAAATCTGTAATTTCCAGCCTATTTCCCTACTGCTTAGGGGGTTAAGGCTCACCGTC
* *
96981920 TTTGATCTGCTCCATTACTGCTTA-GGAGATAAGATCTGTAATTTCCAGCCTGTTTTCCTACTGC
66 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTTCCTACTGC
* * **
96981984 TTAAGGGGTTAAGGCTCACCATCTTTGATCTTCTTCACTACTGCTT
131 TTAGGGGGTTAAGGCTCACCGTCTTTGATCCACTTCACTACTGCTT
* *
96982030 AGGGAGATAAGATCTGTAATTTCCAGCCTATTTCCCTACTGCTTAGAGGGTTAAGGCTCACCGTC
1 AGGGAGATAAAATCTGTAATTTCCAGCCTATTTCCCTACTGCTTAGGGGGTTAAGGCTCACCGTC
* * *
96982095 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCTAGCCT-ATTTCTCTACTA
66 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTTC-CTACTG
*
96982159 CTTAGGGGGTTAAGGCTCACCGTCTTTGATCCAC-TCGACTACTACTT
130 CTTAGGGGGTTAAGGCTCACCGTCTTTGATCCACTTC-ACTACTGCTT
* * * *
96982206 GGGGAGATCAAATCTGTAATTGCCAGCCTATTTCCCTACTACTTAGGGGGTTAAGGCT
1 AGGGAGATAAAATCTGTAATTTCCAGCCTATTTCCCTACTGCTTAGGGGGTTAAGGCT
96982264 AGTGAATTCA
Statistics
Matches: 357, Mismatches: 44, Indels: 15
0.86 0.11 0.04
Matches are distributed among these distances:
173 2 0.01
174 51 0.14
175 181 0.51
176 123 0.34
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.33
Consensus pattern (176 bp):
AGGGAGATAAAATCTGTAATTTCCAGCCTATTTCCCTACTGCTTAGGGGGTTAAGGCTCACCGTC
TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTTCCTACTGC
TTAGGGGGTTAAGGCTCACCGTCTTTGATCCACTTCACTACTGCTT
Found at i:96982069 original size:44 final size:43
Alignment explanation
Indices: 96981935--96982075 Score: 112
Period size: 44 Copynumber: 3.2 Consensus size: 43
96981925 TCTGCTCCAT
*
96981935 TACTGCTTA-GGAGATAAGATCTGTAATTTCCAGCCTGTTTTCC
1 TACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCT-TTTCCC
* * * ** * *
96981978 TACTGCTTAAGGG-GTTAAG-GCT-CACCATCTTTGA-TCTTCTTCAC
1 TACTGCTT-AGGGAGATAAGATCTGTA--AT-TTCCAGCCTT-TTCCC
96982022 TACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTATTTCCC
1 TACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCT-TTTCCC
96982066 TACTGCTTAG
1 TACTGCTTAG
96982076 AGGGTTAAGG
Statistics
Matches: 72, Mismatches: 15, Indels: 21
0.67 0.14 0.19
Matches are distributed among these distances:
42 1 0.01
43 18 0.25
44 44 0.61
45 8 0.11
46 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.36
Consensus pattern (43 bp):
TACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTTTTCCC
Found at i:96982157 original size:44 final size:44
Alignment explanation
Indices: 96982017--96982165 Score: 117
Period size: 44 Copynumber: 3.4 Consensus size: 44
96982007 TTTGATCTTC
96982017 TTCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTAT
1 TTCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTAT
* * * * * * * **
96982061 TTCCCTACTGCTTAGAGG-GTTAAGGCTCACCGT--CTTCGA-TCTGC
1 TTCACTACTGCTTAG-GGAGATAA-GAT--CTGTAATTTCCAGCCTAT
* *
96982105 TCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCTAGCCTAT
1 TTCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTAT
* *
96982149 TTCTCTACTACTTAGGG
1 TTCACTACTGCTTAGGG
96982166 GGTTAAGGCT
Statistics
Matches: 75, Mismatches: 22, Indels: 16
0.66 0.19 0.14
Matches are distributed among these distances:
41 3 0.04
43 8 0.11
44 53 0.71
45 8 0.11
47 3 0.04
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.34
Consensus pattern (44 bp):
TTCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTAT
Found at i:96982433 original size:64 final size:64
Alignment explanation
Indices: 96982332--96982459 Score: 204
Period size: 64 Copynumber: 2.0 Consensus size: 64
96982322 TCATGTATCT
*
96982332 ATGCTTATGCTAAATAATTAGGATACTATGATTGAAATGAATCAAATGCTCCTAACTAGATGTG
1 ATGCTTATGCTAAATAATTAGGATACTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
* * *
96982396 ATGCTTATG-TCAAATAGTTAGGATGCTATGATCGAAATGAATCCAATGCTCCTAACTAGATGTG
1 ATGCTTATGCT-AAATAATTAGGATACTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
96982460 TTATGAATGA
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
63 1 0.02
64 58 0.98
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.32
Consensus pattern (64 bp):
ATGCTTATGCTAAATAATTAGGATACTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
Found at i:96986891 original size:19 final size:19
Alignment explanation
Indices: 96986867--96986912 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
96986857 TGTGAAGTTT
* *
96986867 AATGCACATG-ATGCAATG
1 AATGCAAATGCATGAAATG
96986885 CAATGCAAATGCATGAAATG
1 -AATGCAAATGCATGAAATG
96986905 AATGCAAA
1 AATGCAAA
96986913 AGAAAGTAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.46, C:0.15, G:0.20, T:0.20
Consensus pattern (19 bp):
AATGCAAATGCATGAAATG
Found at i:96989200 original size:19 final size:19
Alignment explanation
Indices: 96989178--96989218 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
96989168 AACAATTTTT
96989178 AAAATAAAAAATACATAAA
1 AAAATAAAAAATACATAAA
* *
96989197 AAAATAAATAATATATAAA
1 AAAATAAAAAATACATAAA
96989216 AAA
1 AAA
96989219 TAGTTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (19 bp):
AAAATAAAAAATACATAAA
Found at i:96989608 original size:20 final size:20
Alignment explanation
Indices: 96989583--96989622 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
96989573 CGTAAAATGA
* *
96989583 TTTCTGGAAAGTGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
96989603 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
96989623 GGAAAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.25, C:0.10, G:0.15, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:96990864 original size:13 final size:11
Alignment explanation
Indices: 96990832--96990865 Score: 68
Period size: 11 Copynumber: 3.1 Consensus size: 11
96990822 GCAGGAATTA
96990832 GTACAATATAT
1 GTACAATATAT
96990843 GTACAATATAT
1 GTACAATATAT
96990854 GTACAATATAT
1 GTACAATATAT
96990865 G
1 G
96990866 AGAAAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.35
Consensus pattern (11 bp):
GTACAATATAT
Found at i:96991754 original size:16 final size:16
Alignment explanation
Indices: 96991733--96991766 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
96991723 GGACGAAGAG
*
96991733 GAAATGAGGAGGAAAT
1 GAAATGAGAAGGAAAT
96991749 GAAATGAGAAGGAAAT
1 GAAATGAGAAGGAAAT
96991765 GA
1 GA
96991767 GAGGTTGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.35, T:0.12
Consensus pattern (16 bp):
GAAATGAGAAGGAAAT
Found at i:96994578 original size:46 final size:44
Alignment explanation
Indices: 96994478--96994585 Score: 135
Period size: 44 Copynumber: 2.4 Consensus size: 44
96994468 TGTCTTTGAC
** * * * *
96994478 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTATCTCCAAAGCCATATATAAT
*
96994522 ATGGACTTACATGGCTCAATCCTATCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTATCTCCAAAGCCATA--TATAAT
96994568 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
96994586 TTTCTGTTCT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 32 0.58
46 23 0.42
ACGTcount: A:0.31, C:0.23, G:0.13, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTATCTCCAAAGCCATATATAAT
Found at i:96999318 original size:46 final size:46
Alignment explanation
Indices: 96999248--96999414 Score: 255
Period size: 46 Copynumber: 3.6 Consensus size: 46
96999238 TTCGACAGGA
* * *
96999248 TGCCATAGTGTCTTCCAACTATGGTCTTATTCATTTTCTGTCATGT
1 TGCCATAGTATCTTTCAACCATGGTCTTATTCATTTTCTGTCATGT
*
96999294 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTCTGTCATGT
1 TGCCATAGTATCTTTCAACCATGGTCTTATTCATTTTCTGTCATGT
* *
96999340 TGCCATAGTATCTTTCAACCATGGTCTTATTCA-TTTCTCGTCTTAT
1 TGCCATAGTATCTTTCAACCATGGTCTTATTCATTTTCT-GTCATGT
*
96999386 TGCCATAGTATCTTTCAACTATGGTCTTA
1 TGCCATAGTATCTTTCAACCATGGTCTTA
96999415 CATATCTGAA
Statistics
Matches: 112, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
45 5 0.04
46 107 0.96
ACGTcount: A:0.19, C:0.22, G:0.14, T:0.45
Consensus pattern (46 bp):
TGCCATAGTATCTTTCAACCATGGTCTTATTCATTTTCTGTCATGT
Found at i:96999470 original size:26 final size:26
Alignment explanation
Indices: 96999434--96999486 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
96999424 ATCGTGATGC
96999434 CATAACGTCTTTCAACTATGGTCTTA
1 CATAACGTCTTTCAACTATGGTCTTA
96999460 CATAACGTCTTTCAACTATGGTCTTA
1 CATAACGTCTTTCAACTATGGTCTTA
96999486 C
1 C
96999487 TCATCTGAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.26, C:0.25, G:0.11, T:0.38
Consensus pattern (26 bp):
CATAACGTCTTTCAACTATGGTCTTA
Found at i:96999479 original size:71 final size:71
Alignment explanation
Indices: 96999396--96999531 Score: 220
Period size: 71 Copynumber: 1.9 Consensus size: 71
96999386 TGCCATAGTA
**
96999396 TCTTTCAACTATGGTCTTACAT-ATCTGAATCGTGATGCCATAACGTCTTTCAACTATGGTCTTA
1 TCTTTCAACTATGGTCTTAC-TCATCTGAATCACGATGCCATAACGTCTTTCAACTATGGTCTTA
96999460 CATAACG
65 CATAACG
* *
96999467 TCTTTCAACTATGGTCTTACTCATCTGAATCACGATGCCATAACGTCTTTTAGCTATGGTCTTAC
1 TCTTTCAACTATGGTCTTACTCATCTGAATCACGATGCCATAACGTCTTTCAACTATGGTCTTAC
96999532 TCATTTCTGG
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
70 1 0.02
71 59 0.98
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.38
Consensus pattern (71 bp):
TCTTTCAACTATGGTCTTACTCATCTGAATCACGATGCCATAACGTCTTTCAACTATGGTCTTAC
ATAACG
Found at i:97005744 original size:21 final size:21
Alignment explanation
Indices: 97005720--97005764 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
97005710 CAGTTTTAGC
*
97005720 ATTT-GGATTTAAGATTTTGAG
1 ATTTGGGATTCAA-ATTTTGAG
*
97005741 ATTTGGGATTCAATTTTTGAG
1 ATTTGGGATTCAAATTTTGAG
97005762 ATT
1 ATT
97005765 CAGGATTTCC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.27, C:0.02, G:0.22, T:0.49
Consensus pattern (21 bp):
ATTTGGGATTCAAATTTTGAG
Found at i:97007592 original size:20 final size:20
Alignment explanation
Indices: 97007567--97007612 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
97007557 ATTTAATATC
*
97007567 TTAATGCTTTTTC-CTTACAT
1 TTAATGCATTTTCTC-TACAT
*
97007587 TTAATGCATTTTCTCTGCAT
1 TTAATGCATTTTCTCTACAT
97007607 TTAATG
1 TTAATG
97007613 TCTAAAACTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 22 0.96
21 1 0.04
ACGTcount: A:0.22, C:0.17, G:0.09, T:0.52
Consensus pattern (20 bp):
TTAATGCATTTTCTCTACAT
Found at i:97009191 original size:6 final size:6
Alignment explanation
Indices: 97009175--97009214 Score: 71
Period size: 6 Copynumber: 6.7 Consensus size: 6
97009165 ACTTGCTGGA
*
97009175 TTTTGG ATTTGG TTTTGG TTTTGG TTTTGG TTTTGG TTTT
1 TTTTGG TTTTGG TTTTGG TTTTGG TTTTGG TTTTGG TTTT
97009215 AAGTGCATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.03, C:0.00, G:0.30, T:0.68
Consensus pattern (6 bp):
TTTTGG
Found at i:97009319 original size:43 final size:43
Alignment explanation
Indices: 97009256--97009354 Score: 162
Period size: 43 Copynumber: 2.3 Consensus size: 43
97009246 TTCTGCTGAC
* *
97009256 ATAACTTACTCAAAATAGTATATTTAAACTAATCTTTGAAGGG
1 ATAACTTACTCAAAACAGTATATTCAAACTAATCTTTGAAGGG
97009299 ATAACTTACTCAAAACAGTATATTCAAACTAATCTTTGAAGGG
1 ATAACTTACTCAAAACAGTATATTCAAACTAATCTTTGAAGGG
*
97009342 CTATACTTACTCA
1 ATA-ACTTACTCA
97009355 TTAGATAACT
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
43 43 0.83
44 9 0.17
ACGTcount: A:0.40, C:0.16, G:0.10, T:0.33
Consensus pattern (43 bp):
ATAACTTACTCAAAACAGTATATTCAAACTAATCTTTGAAGGG
Found at i:97011713 original size:34 final size:34
Alignment explanation
Indices: 97011668--97011759 Score: 116
Period size: 34 Copynumber: 2.7 Consensus size: 34
97011658 AGTATTTTTT
*
97011668 AAAATTAATTAAATTAGGGTTTA-ATGATTTTAA-
1 AAAAGTAATTAAATTAGGGTTTAGA-GATTTTAAG
* *
97011701 ATAAAGTAATTAAATTAGAGTTTAGAGTTTTTAAG
1 A-AAAGTAATTAAATTAGGGTTTAGAGATTTTAAG
*
97011736 AAAATTAATTAAATTAGGGTTTAG
1 AAAAGTAATTAAATTAGGGTTTAG
97011760 TTTTTTAAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
33 1 0.02
34 48 0.94
35 2 0.04
ACGTcount: A:0.45, C:0.00, G:0.15, T:0.40
Consensus pattern (34 bp):
AAAAGTAATTAAATTAGGGTTTAGAGATTTTAAG
Found at i:97012116 original size:125 final size:124
Alignment explanation
Indices: 97011850--97012195 Score: 411
Period size: 125 Copynumber: 2.8 Consensus size: 124
97011840 GAAGACGGTT
* * *
97011850 CTGAA-AAGATAATGTCAAAAACGCTTCAAGTAGTATGCACTATCA-CAAAAATTACTGAAAAAA
1 CTGAACAA-ATAATGTCAAAAACGTTTCAAGAAG-ATGCACTGTCAGC-AAAATTACTGAAAAAA
* * * * * * * *
97011913 GCT-----TTAGACGCTCTTTTTCTACAGTAATTCCTAAAAAAATAATTTTGAGAAGACGGTT
63 GCTCCCACATGGACGCTCTTTTTCTACAATAGTT-CTTAAAAAATAATTTTGAGAAAACAGTC
*
97011971 CTGAACAAATAGTGTCAAAAACGTTTCAAGCAAGATGCACTGTCAGCAAAATTACTGAAAAAAGC
1 CTGAACAAATAATGTCAAAAACGTTTCAAG-AAGATGCACTGTCAGCAAAATTACTGAAAAAAGC
*
97012036 TCCCACGTGGACGCTCTTTTTCTACAATAGTTCTTAAAAAATAATTTTGAGAAAACAGTC
65 TCCCACATGGACGCTCTTTTTCTACAATAGTTCTTAAAAAATAATTTTGAGAAAACAGTC
* * * *
97012096 CTGAACAAATAATGTTAAAAACGCTTTAAATAGGATGCACTGTCAGCAAAATTGA-TGAAAAAAG
1 CTGAACAAATAATGTCAAAAACG-TTTCAAGAAGATGCACTGTCAGCAAAATT-ACTGAAAAAAG
*
97012160 CTCCCACATGGATGCTCTTTTTCTACAATAGTTCTT
64 CTCCCACATGGACGCTCTTTTTCTACAATAGTTCTT
97012196 GTTTGGCCTT
Statistics
Matches: 196, Mismatches: 19, Indels: 16
0.85 0.08 0.07
Matches are distributed among these distances:
121 54 0.28
122 5 0.03
125 109 0.56
126 28 0.14
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.28
Consensus pattern (124 bp):
CTGAACAAATAATGTCAAAAACGTTTCAAGAAGATGCACTGTCAGCAAAATTACTGAAAAAAGCT
CCCACATGGACGCTCTTTTTCTACAATAGTTCTTAAAAAATAATTTTGAGAAAACAGTC
Found at i:97022909 original size:24 final size:23
Alignment explanation
Indices: 97022853--97022909 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 23
97022843 AAGAACTTCT
*
97022853 ATTTTATTAAAAATATAAAAATA
1 ATTTTATTAAAAATATAAAAACA
97022876 ATTTACTATT-AAAATATTAAAAACA
1 ATTT--TATTAAAAATA-TAAAAACA
97022901 ACTTTTATT
1 A-TTTTATT
97022910 TTATTAAATG
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
23 4 0.14
24 10 0.34
25 12 0.41
26 3 0.10
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (23 bp):
ATTTTATTAAAAATATAAAAACA
Found at i:97025118 original size:30 final size:30
Alignment explanation
Indices: 97025084--97025148 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 30
97025074 ATTAATTAAA
*
97025084 GAGAGATTTGAGAAATTTAAAAAGAAATTT
1 GAGAGATTTGAGAAATCTAAAAAGAAATTT
* * ***
97025114 GAGAGCTTTGTGAAATCTAGGGAGAAATTT
1 GAGAGATTTGAGAAATCTAAAAAGAAATTT
97025144 GAGAG
1 GAGAG
97025149 CTTTTTTGTC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.42, C:0.03, G:0.28, T:0.28
Consensus pattern (30 bp):
GAGAGATTTGAGAAATCTAAAAAGAAATTT
Found at i:97032816 original size:21 final size:21
Alignment explanation
Indices: 97032790--97032831 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
97032780 TACTTTTTCA
97032790 TGCAACTATGTCTGTATACCT
1 TGCAACTATGTCTGTATACCT
97032811 TGCAACTATGTCTGTATACCT
1 TGCAACTATGTCTGTATACCT
97032832 CAATTTGCAG
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:0.24, G:0.14, T:0.38
Consensus pattern (21 bp):
TGCAACTATGTCTGTATACCT
Found at i:97035565 original size:27 final size:27
Alignment explanation
Indices: 97035534--97035607 Score: 87
Period size: 27 Copynumber: 2.7 Consensus size: 27
97035524 GTTTATGGGT
97035534 TTAAGG-TTAGGGTTTTTGAAAAAAAAA
1 TTAAGGTTTAGGGTTTTT-AAAAAAAAA
* * * * *
97035561 TTAAGGTTTATGATTTTTTAAGATAAA
1 TTAAGGTTTAGGGTTTTTAAAAAAAAA
97035588 TTAAGGTTTAGGGTTTTTAA
1 TTAAGGTTTAGGGTTTTTAA
97035608 GATATTTTTA
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
27 29 0.76
28 9 0.24
ACGTcount: A:0.36, C:0.00, G:0.20, T:0.43
Consensus pattern (27 bp):
TTAAGGTTTAGGGTTTTTAAAAAAAAA
Found at i:97042021 original size:43 final size:43
Alignment explanation
Indices: 97041973--97042120 Score: 190
Period size: 43 Copynumber: 3.4 Consensus size: 43
97041963 TGTAATTATA
* *
97041973 TGTAAGACCATGTCTGGGACATTGGCATTG-TATTGTGATTACG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTTA-TATGATTACG
* *
97042016 TGTAAGACCATGTCTGAGACATTGGCATCGTTATATGATTTCG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTTATATGATTACG
* * * *
97042059 TGTAAGACCATGTCTGGGACATTGACATCGATATATGATAACA
1 TGTAAGACCATGTCTGGGACATTGGCATCGTTATATGATTACG
* *
97042102 TGTAAGACTATATCTGGGA
1 TGTAAGACCATGTCTGGGA
97042121 TATGACATTG
Statistics
Matches: 92, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
43 90 0.98
44 2 0.02
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.32
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTTATATGATTACG
Found at i:97061822 original size:22 final size:22
Alignment explanation
Indices: 97061783--97061841 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
97061773 GTTTTAAGAA
*
97061783 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
97061804 TTGTTTTAATATTTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
97061826 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
97061842 GATTTATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 16 0.47
22 11 0.32
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:97061858 original size:26 final size:24
Alignment explanation
Indices: 97061812--97061870 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
97061802 ATTTGTTTTA
*
97061812 ATATTTATTTTTATGTTTTTAAAT
1 ATATTTATTTTTATATTTTTAAAT
97061836 ATATTTGATTTATTATATTTTTAAAT
1 ATATTT-ATTT-TTATATTTTTAAAT
*
97061862 -TTTTTATTT
1 ATATTTATTT
97061871 AATAAAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 10 0.32
25 8 0.26
26 13 0.42
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (24 bp):
ATATTTATTTTTATATTTTTAAAT
Found at i:97067773 original size:38 final size:38
Alignment explanation
Indices: 97067692--97067840 Score: 217
Period size: 38 Copynumber: 3.9 Consensus size: 38
97067682 GAATCCAGTC
* * * *
97067692 ACCAGCACAAAGCCTGTGGGACTTTAAGCTCGGATATAGT
1 ACCAGCACGAAGCCTGCGGGA-TTTAA-CCCGGATATATT
* *
97067732 ACCAGCACTAAGCCTGCAGGATTTAACCCGGATATATT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATT
97067770 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATT
*
97067808 ACCAGCACGAAGCCTGCGGGACTTAACCCGGAT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
97067841 GTATCGAGTG
Statistics
Matches: 101, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
38 78 0.77
39 5 0.05
40 18 0.18
ACGTcount: A:0.30, C:0.27, G:0.23, T:0.20
Consensus pattern (38 bp):
ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATT
Found at i:97075390 original size:58 final size:58
Alignment explanation
Indices: 97075320--97075436 Score: 234
Period size: 58 Copynumber: 2.0 Consensus size: 58
97075310 TGCAAAAGTT
97075320 AAATTTTACTAATTAAATGGATTGAATGGCCTAGGAAATGTAAGTTGGTATATTTAGA
1 AAATTTTACTAATTAAATGGATTGAATGGCCTAGGAAATGTAAGTTGGTATATTTAGA
97075378 AAATTTTACTAATTAAATGGATTGAATGGCCTAGGAAATGTAAGTTGGTATATTTAGA
1 AAATTTTACTAATTAAATGGATTGAATGGCCTAGGAAATGTAAGTTGGTATATTTAGA
97075436 A
1 A
97075437 GGTAATTATG
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.38, C:0.05, G:0.21, T:0.36
Consensus pattern (58 bp):
AAATTTTACTAATTAAATGGATTGAATGGCCTAGGAAATGTAAGTTGGTATATTTAGA
Found at i:97077089 original size:35 final size:35
Alignment explanation
Indices: 97077007--97077092 Score: 138
Period size: 35 Copynumber: 2.5 Consensus size: 35
97076997 TAAAGCTTAT
*
97077007 CAAAAC-AGCGTCATTTTGATTTAAAACACCAAGCG
1 CAAAACGA-CGTCGTTTTGATTTAAAACACCAAGCG
*
97077042 CAAAACGGCGTCGTTTTGATTTAAAACACCAAGCG
1 CAAAACGACGTCGTTTTGATTTAAAACACCAAGCG
97077077 CAAAACGACGTCGTTT
1 CAAAACGACGTCGTTT
97077093 CACCCTTAGG
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
35 47 1.00
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.23
Consensus pattern (35 bp):
CAAAACGACGTCGTTTTGATTTAAAACACCAAGCG
Found at i:97077452 original size:3 final size:3
Alignment explanation
Indices: 97077444--97077558 Score: 97
Period size: 3 Copynumber: 37.7 Consensus size: 3
97077434 TAATTTTAAC
* * *
97077444 ATT ATT ATTT ATT ATT ATTT ATT ATT ATT ACT ATT ATT TTT ATT ACT
1 ATT ATT A-TT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * * *
97077491 ATT ATT ACT ACT ATT -TT CGTT ATT ATT ACT ATT ACT ATT TTT TTT
1 ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
97077536 ACT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT AT
97077559 ATTTTCTTTC
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
2 2 0.02
3 81 0.89
4 8 0.09
ACGTcount: A:0.29, C:0.07, G:0.01, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:97090266 original size:44 final size:44
Alignment explanation
Indices: 97090116--97090284 Score: 128
Period size: 44 Copynumber: 3.8 Consensus size: 44
97090106 AGAATTGTGG
* * * *
97090116 AGCAGATTAAAGCTAT-AGATCTTATCTCCCTAAAGTTGTAGTAG
1 AGCAGATTAAAGCTATAAGA-CTTATCTCTCTGAAGTTGCAGTAA
* * * * * * *
97090160 AGTAGATTGATGATAGCAA-ATCTTATCTCTCTGAAGTTGTAGTAG
1 AGCAGATTAAAGCTA-TAAGA-CTTATCTCTCTGAAGTTGCAGTAA
*
97090205 AGTAGATTAAAGCTATAA-ACATTATCTCTCTGAAGTTGCAGTAA
1 AGCAGATTAAAGCTATAAGAC-TTATCTCTCTGAAGTTGCAGTAA
* * * * *
97090249 AGCAGGTTGAAGTTATAAGTCTTATCTCCCTGAAGT
1 AGCAGATTAAAGCTATAAGACTTATCTCTCTGAAGT
97090285 CACAGTGGAG
Statistics
Matches: 102, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
43 1 0.01
44 63 0.62
45 37 0.36
46 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.33
Consensus pattern (44 bp):
AGCAGATTAAAGCTATAAGACTTATCTCTCTGAAGTTGCAGTAA
Found at i:97090588 original size:44 final size:44
Alignment explanation
Indices: 97090522--97090616 Score: 145
Period size: 44 Copynumber: 2.2 Consensus size: 44
97090512 TACCATGGCG
* * *
97090522 AATCTTGTCTCCCTGAAAGTGCAGTGGAGCAGATTGAAGCCACA
1 AATCTTATCTCCCTGAAAGTGCAATGGAGCAAATTGAAGCCACA
* *
97090566 AATCTTATCTCCTTGAAGGTGCAATGGAGCAAATTGAAGCCACA
1 AATCTTATCTCCCTGAAAGTGCAATGGAGCAAATTGAAGCCACA
97090610 AATCTTA
1 AATCTTA
97090617 AATTACAGTA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAAGTGCAATGGAGCAAATTGAAGCCACA
Found at i:97092385 original size:3 final size:3
Alignment explanation
Indices: 97092367--97092491 Score: 62
Period size: 3 Copynumber: 39.3 Consensus size: 3
97092357 TTATCATTGG
*
97092367 TAT T-T TAT TAT CTAT TAT TAT CAT TAT TAT TAT TAT TATT TAT TCAT
1 TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT T-AT
* * * *
97092414 CTATT TATT TAT TACC CAT T-T TGCACT TA- TAT ATAT TAT TCT GAT T-T
1 -TA-T TA-T TAT TA-T TAT TAT T--A-T TAT TAT -TAT TAT TAT TAT TAT
97092461 CTAT TAT TAT TAT TAT TAT TAT TAT T-T TAT T
1 -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
97092492 TGTTTATATA
Statistics
Matches: 96, Mismatches: 10, Indels: 32
0.70 0.07 0.23
Matches are distributed among these distances:
2 9 0.09
3 62 0.65
4 21 0.22
5 2 0.02
6 2 0.02
ACGTcount: A:0.28, C:0.09, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:97097759 original size:19 final size:19
Alignment explanation
Indices: 97097704--97097762 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
97097694 AATACCAGAC
*
97097704 AAGGTATTGATAAAATTTTT
1 AAGGTATTGAT-AATTTTTT
* *
97097724 AAGGTATCGACT-TTTTTTT
1 AAGGTATTGA-TAATTTTTT
*
97097743 AAGGTATTGATACTTTTTT
1 AAGGTATTGATAATTTTTT
97097762 A
1 A
97097763 TTTTTGCTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
18 1 0.03
19 21 0.66
20 9 0.28
21 1 0.03
ACGTcount: A:0.31, C:0.05, G:0.15, T:0.49
Consensus pattern (19 bp):
AAGGTATTGATAATTTTTT
Found at i:97097759 original size:20 final size:20
Alignment explanation
Indices: 97097704--97097761 Score: 57
Period size: 20 Copynumber: 3.0 Consensus size: 20
97097694 AATACCAGAC
***
97097704 AAGGTATTGATAAAATTTTT
1 AAGGTATTGATACTTTTTTT
*
97097724 AAGGTATCG--ACTTTTTTTT
1 AAGGTATTGATAC-TTTTTTT
97097743 AAGGTATTGATACTTTTTT
1 AAGGTATTGATACTTTTTT
97097762 ATTTTTGCTT
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
18 1 0.03
19 13 0.43
20 14 0.47
21 2 0.07
ACGTcount: A:0.29, C:0.05, G:0.16, T:0.50
Consensus pattern (20 bp):
AAGGTATTGATACTTTTTTT
Found at i:97100431 original size:16 final size:16
Alignment explanation
Indices: 97100394--97100435 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
97100384 TGTTTTTCTT
*
97100394 TTACTATAT-TTATTA
1 TTACTATCTATTATTA
*
97100409 TTA-TATCTATTATTG
1 TTACTATCTATTATTA
97100424 TTACTATCTATT
1 TTACTATCTATT
97100436 TATGTATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 4 0.17
15 11 0.48
16 8 0.35
ACGTcount: A:0.29, C:0.10, G:0.02, T:0.60
Consensus pattern (16 bp):
TTACTATCTATTATTA
Found at i:97101683 original size:22 final size:22
Alignment explanation
Indices: 97101658--97101700 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
97101648 TATCCAAACA
97101658 ATAACAACAAAATAGTAGTAAT
1 ATAACAACAAAATAGTAGTAAT
* * *
97101680 ATAATAGCAAAATGGTAGTAA
1 ATAACAACAAAATAGTAGTAA
97101701 AACTGTAACA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.07, G:0.14, T:0.23
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGTAAT
Found at i:97102001 original size:22 final size:22
Alignment explanation
Indices: 97101976--97102019 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
97101966 CATTCATAAG
97101976 CCAACATTGACTAATCAATCAA
1 CCAACATTGACTAATCAATCAA
97101998 CCAACATTGACTAATCAATCAA
1 CCAACATTGACTAATCAATCAA
97102020 TCTATACGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.45, C:0.27, G:0.05, T:0.23
Consensus pattern (22 bp):
CCAACATTGACTAATCAATCAA
Found at i:97102887 original size:42 final size:43
Alignment explanation
Indices: 97102821--97102946 Score: 184
Period size: 42 Copynumber: 3.0 Consensus size: 43
97102811 CTTCATTTTC
* * *
97102821 TCGATGCCATAGTTCAACTATGGTCTTACACATATTCACATAA
1 TCGATGTCATAGTCCAGCTATGGTCTTACACATATTCACATAA
97102864 T-GATGTCATAGTCCAGCTATGGTCTTACACATATTCACAT-A
1 TCGATGTCATAGTCCAGCTATGGTCTTACACATATTCACATAA
* * *
97102905 TCGATGTCATAGCCCAGCTATGGTCTTACACGTAATCACATA
1 TCGATGTCATAGTCCAGCTATGGTCTTACACATATTCACATA
97102947 TCACATATCG
Statistics
Matches: 75, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
41 2 0.03
42 72 0.96
43 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (43 bp):
TCGATGTCATAGTCCAGCTATGGTCTTACACATATTCACATAA
Found at i:97102947 original size:42 final size:42
Alignment explanation
Indices: 97102838--97102984 Score: 188
Period size: 42 Copynumber: 3.3 Consensus size: 42
97102828 CATAGTTCAA
*
97102838 CTATGGTCTTACACATATTCACATAAT-GATGTCATAGTCCAG
1 CTATGGTCTTACACATATTCACAT-ATCGATGTCATAGCCCAG
97102880 CTATGGTCTTACACATATTCACATATCGATGTCATAGCCCAG
1 CTATGGTCTTACACATATTCACATATCGATGTCATAGCCCAG
* *
97102922 CTATGGTCTTACACGTAATCACATATCACATATCGATGCCATAGCCCAA
1 CTATGGTCTTACAC---AT---AT-TCACATATCGATGTCATAGCCCAG
97102971 CTATGGTCTTACAC
1 CTATGGTCTTACAC
97102985 GGATCACATA
Statistics
Matches: 94, Mismatches: 3, Indels: 9
0.89 0.03 0.08
Matches are distributed among these distances:
41 2 0.02
42 52 0.55
45 2 0.02
48 2 0.02
49 36 0.38
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.31
Consensus pattern (42 bp):
CTATGGTCTTACACATATTCACATATCGATGTCATAGCCCAG
Found at i:97102965 original size:49 final size:48
Alignment explanation
Indices: 97102891--97103099 Score: 192
Period size: 49 Copynumber: 4.2 Consensus size: 48
97102881 TATGGTCTTA
* *
97102891 CACATATTCACATATCGATGTCATAGCCCAGCTATGGTCTTACACGTAAT
1 CACATA-TCACATATCGATGCCATAGCCCAACTATGGTCTTACACG-AAT
*
97102941 CACATATCACATATCGATGCCATAGCCCAACTATGGTCTTACACGGAT
1 CACATATCACATATCGATGCCATAGCCCAACTATGGTCTTACACGAAT
* ** * *
97102989 CACATATCTCACT-T--ATGTAATATCCCAGA-TATGGTCTTACACAGAAG
1 CACATATCACA-TATCGATGCCATAGCCCA-ACTATGGTCTTACAC-GAAT
* * * * *
97103036 AACATAATCACATCACACCGATGCCATAGCCCAACTATGGTTTTATACGGAT
1 CACAT-ATCACAT---ATCGATGCCATAGCCCAACTATGGTCTTACACGAAT
97103088 CACATATCACAT
1 CACATATCACAT
97103100 GTTGCCATGG
Statistics
Matches: 128, Mismatches: 20, Indels: 21
0.76 0.12 0.12
Matches are distributed among these distances:
46 23 0.18
47 8 0.06
48 18 0.14
49 38 0.30
50 6 0.05
51 7 0.05
52 7 0.05
53 21 0.16
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (48 bp):
CACATATCACATATCGATGCCATAGCCCAACTATGGTCTTACACGAAT
Found at i:97108331 original size:22 final size:22
Alignment explanation
Indices: 97108288--97108339 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
97108278 CAATATCCAA
* * *
97108288 AAAATAACAACAAAATAGTAGC
1 AAAACAACAACAAAACAATAGC
97108310 AAAACAACAACAAAACAATAGC
1 AAAACAACAACAAAACAATAGC
*
97108332 GAAACAAC
1 AAAACAAC
97108340 TAATTCAAGC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.65, C:0.19, G:0.08, T:0.08
Consensus pattern (22 bp):
AAAACAACAACAAAACAATAGC
Found at i:97110473 original size:17 final size:18
Alignment explanation
Indices: 97110448--97110484 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
97110438 TCATTTAAAA
97110448 ATTATAAAT-ATATAAATT
1 ATTATAAATAATA-AAATT
97110466 ATTA-AAATAATAAAATT
1 ATTATAAATAATAAAATT
97110483 AT
1 AT
97110485 AATTTTGTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
ATTATAAATAATAAAATT
Found at i:97110809 original size:22 final size:22
Alignment explanation
Indices: 97110781--97110823 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
97110771 ATGTTTCATT
97110781 TACATGGATCGATTATTTTACA
1 TACATGGATCGATTATTTTACA
97110803 TACATGGATCGATTATTTTAC
1 TACATGGATCGATTATTTTAC
97110824 TAGTAAGTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (22 bp):
TACATGGATCGATTATTTTACA
Found at i:97111339 original size:18 final size:18
Alignment explanation
Indices: 97111300--97111357 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 18
97111290 TTAAAAATAC
* *
97111300 AAAT-TTTAAAATTTTTAT
1 AAATATTTAAAA-TTTAAA
97111318 AAATATTTAAAATTTAAA
1 AAATATTTAAAATTTAAA
97111336 AAATATTTTCAAAATTTGAAA
1 AAATA-TTT-AAAATTT-AAA
97111357 A
1 A
97111358 TTACTTTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 13 0.38
19 10 0.29
20 7 0.21
21 4 0.12
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (18 bp):
AAATATTTAAAATTTAAA
Found at i:97111351 original size:20 final size:19
Alignment explanation
Indices: 97111300--97111357 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
97111290 TTAAAAATAC
** *
97111300 AAAT-TTTAAAATTTTTAT
1 AAATATTTAAAATTTGAAA
97111318 AAATATTTAAAATTT-AAA
1 AAATATTTAAAATTTGAAA
97111336 AAATATTTTCAAAATTTGAAA
1 AAATA-TTT-AAAATTTGAAA
97111357 A
1 A
97111358 TTACTTTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 10 0.29
19 13 0.38
20 7 0.21
21 4 0.12
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (19 bp):
AAATATTTAAAATTTGAAA
Found at i:97128770 original size:16 final size:16
Alignment explanation
Indices: 97128734--97128788 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
97128724 AAGGAGTACA
97128734 TGAAGTAAAG-GCTAA-
1 TGAAG-AAAGTGCTAAG
97128749 TCGAAGAAAGTGCTAAG
1 T-GAAGAAAGTGCTAAG
* **
97128766 TGAAGTAAGTTTTAAG
1 TGAAGAAAGTGCTAAG
97128782 TGAAGAA
1 TGAAGAA
97128789 TTTATACTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
15 5 0.15
16 27 0.82
17 1 0.03
ACGTcount: A:0.44, C:0.05, G:0.27, T:0.24
Consensus pattern (16 bp):
TGAAGAAAGTGCTAAG
Found at i:97129001 original size:15 final size:15
Alignment explanation
Indices: 97128981--97129010 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
97128971 TGTAGATTGC
97128981 ACAAAGTGATCGAGT
1 ACAAAGTGATCGAGT
*
97128996 ACAAAGTGTTCGAGT
1 ACAAAGTGATCGAGT
97129011 GTGGTTTGCC
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:0.37, C:0.13, G:0.27, T:0.23
Consensus pattern (15 bp):
ACAAAGTGATCGAGT
Found at i:97134994 original size:20 final size:20
Alignment explanation
Indices: 97134953--97134994 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
97134943 AAAAAAATAT
**
97134953 AAAATTATATAATATTTTAA
1 AAAATTATATAATATTCCAA
97134973 AAAATTA-ATAAATATTCCAA
1 AAAATTATAT-AATATTCCAA
97134993 AA
1 AA
97134995 TCTTGAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 2 0.11
20 17 0.89
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.36
Consensus pattern (20 bp):
AAAATTATATAATATTCCAA
Found at i:97135031 original size:19 final size:18
Alignment explanation
Indices: 97135009--97135062 Score: 58
Period size: 19 Copynumber: 3.0 Consensus size: 18
97134999 GAAAAATTAA
97135009 AAAAATTAAAATTCTTTTT
1 AAAAATTAAAATT-TTTTT
**
97135028 AAAAATTTTAATTTTTTT
1 AAAAATTAAAATTTTTTT
97135046 --AAATTAAAATTATTTTT
1 AAAAATTAAAATT-TTTTT
97135063 TTCTTTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
16 9 0.30
17 5 0.17
18 5 0.17
19 11 0.37
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (18 bp):
AAAAATTAAAATTTTTTT
Done.