Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold500
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: 2046043
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 10
Found at i:705983 original size:2 final size:2
Alignment explanation
Indices: 705976--706007 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
705966 GATAAAAGTT
705976 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
706008 ACATGGCTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:708008 original size:17 final size:18
Alignment explanation
Indices: 707986--708019 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
707976 AAAATAATTT
707986 AATTTTT-TTTACTTTAA
1 AATTTTTATTTACTTTAA
*
708003 AATTTTTATTTATTTTA
1 AATTTTTATTTACTTTA
708020 GTAGTTATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (18 bp):
AATTTTTATTTACTTTAA
Found at i:709221 original size:2 final size:2
Alignment explanation
Indices: 709214--709241 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
709204 ATAAAACCAC
709214 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
709242 TGGTTTGTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:710463 original size:35 final size:36
Alignment explanation
Indices: 710397--710486 Score: 92
Period size: 35 Copynumber: 2.5 Consensus size: 36
710387 TTTAAAAAAT
* ** * *
710397 AAAATAAAATTTATTTATAACATTGTTAAATTT-TA
1 AAAATAATATTTATTTATAACATAATAAAATTTAAA
* *
710432 AAAATAATATTTATTTTTAATATAATAAAATTTAAA
1 AAAATAATATTTATTTATAACATAATAAAATTTAAA
*
710468 ATAAAAAATATTTATTTAT
1 A-AAATAATATTTATTTAT
710487 CATACTCTTA
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
35 27 0.61
36 2 0.05
37 15 0.34
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (36 bp):
AAAATAATATTTATTTATAACATAATAAAATTTAAA
Found at i:710464 original size:21 final size:19
Alignment explanation
Indices: 710427--710465 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
710417 CATTGTTAAA
*
710427 TTTTAAAAATAATATTTAT
1 TTTTAAAAATAAAATTTAT
710446 TTTTAATATAATAAAATTTA
1 TTTTAA-A-AATAAAATTTA
710466 AAATAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 1 0.06
21 10 0.59
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TTTTAAAAATAAAATTTAT
Found at i:715011 original size:25 final size:25
Alignment explanation
Indices: 714966--715029 Score: 64
Period size: 24 Copynumber: 2.6 Consensus size: 25
714956 CCGAACAGAT
714966 TAAATTGATTTAATTATTTAAATAA
1 TAAATTGATTTAATTATTTAAATAA
* *
714991 TAAATTTA-TTAATTTTATTAAAT--
1 TAAATTGATTTAATTAT-TTAAATAA
715014 TAAA-TGAGTTTAATTA
1 TAAATTGA-TTTAATTA
715030 AATAATTAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
22 2 0.06
23 4 0.12
24 13 0.41
25 13 0.41
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (25 bp):
TAAATTGATTTAATTATTTAAATAA
Found at i:716403 original size:3 final size:3
Alignment explanation
Indices: 716395--716419 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
716385 TTACTTGACC
716395 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
716420 CAAAGATCAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:716652 original size:7 final size:6
Alignment explanation
Indices: 716629--716676 Score: 55
Period size: 6 Copynumber: 8.2 Consensus size: 6
716619 GCTTTTATTT
* *
716629 TTTATT TTTA-A TTTATA TTCTATA TTTATA TTTA-A TATATA TTTATA
1 TTTATA TTTATA TTTATA TT-TATA TTTATA TTTATA TTTATA TTTATA
716676 T
1 T
716677 AAAAATATAA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
5 8 0.22
6 22 0.61
7 6 0.17
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (6 bp):
TTTATA
Found at i:716656 original size:24 final size:23
Alignment explanation
Indices: 716629--716676 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
716619 GCTTTTATTT
* *
716629 TTTATTTTTAATTTATATTCTATA
1 TTTATATTTAATATATATT-TATA
716653 TTTATATTTAATATATATTTATA
1 TTTATATTTAATATATATTTATA
716676 T
1 T
716677 AAAAATATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 5 0.23
24 17 0.77
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (23 bp):
TTTATATTTAATATATATTTATA
Found at i:717698 original size:22 final size:22
Alignment explanation
Indices: 717655--717702 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
717645 TTAAGATCTT
717655 AATT-TTTTTTTACATTTAATA
1 AATTATTTTTTTACATTTAATA
*
717676 AATTATTTTTATTAGATTT-ATA
1 AATTATTTTT-TTACATTTAATA
717698 AATTA
1 AATTA
717703 ATGTATTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 4 0.17
22 13 0.54
23 7 0.29
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (22 bp):
AATTATTTTTTTACATTTAATA
Found at i:719426 original size:11 final size:12
Alignment explanation
Indices: 719410--719482 Score: 53
Period size: 12 Copynumber: 6.1 Consensus size: 12
719400 ATTTTTTTAA
*
719410 AAATATTTA-TT
1 AAATATATATTT
719421 AAATATATATTT
1 AAATATATATTT
*
719433 AAATATAAATATTA
1 AAATAT--ATATTT
719447 AAATATAATATTT
1 AAATAT-ATATTT
*
719460 -TATATAT-TTT
1 AAATATATATTT
* *
719470 AAAAATAAATTT
1 AAATATATATTT
719482 A
1 A
719483 TCTTTAATTT
Statistics
Matches: 50, Mismatches: 7, Indels: 9
0.76 0.11 0.14
Matches are distributed among these distances:
10 3 0.06
11 14 0.28
12 16 0.32
13 6 0.12
14 11 0.22
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
AAATATATATTT
Found at i:719433 original size:25 final size:27
Alignment explanation
Indices: 719405--719459 Score: 69
Period size: 25 Copynumber: 2.1 Consensus size: 27
719395 ATTTAATTTT
**
719405 TTTAAAAATATTTATT-AAATAT-ATA
1 TTTAAAAATAAATATTAAAATATAATA
*
719430 TTTAAATATAAATATTAAAATATAATA
1 TTTAAAAATAAATATTAAAATATAATA
719457 TTT
1 TTT
719460 TATATATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 13 0.52
26 6 0.24
27 6 0.24
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (27 bp):
TTTAAAAATAAATATTAAAATATAATA
Found at i:719450 original size:14 final size:13
Alignment explanation
Indices: 719417--719458 Score: 52
Period size: 14 Copynumber: 3.3 Consensus size: 13
719407 TAAAAATATT
719417 TATT-AAATAT-A
1 TATTAAAATATAA
*
719428 TATTTAAATATAAA
1 TATTAAAATAT-AA
719442 TATTAAAATATAA
1 TATTAAAATATAA
719455 TATT
1 TATT
719459 TTATATATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
11 4 0.15
12 6 0.22
13 6 0.22
14 11 0.41
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
TATTAAAATATAA
Found at i:721753 original size:21 final size:21
Alignment explanation
Indices: 721729--721776 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
721719 AATTATTTAT
721729 TTTTATTT-ATTTAAATTATAA
1 TTTTATTTAATTTAAA-TATAA
* **
721750 TTTTTTTTAATTTTTATATAA
1 TTTTATTTAATTTAAATATAA
721771 TTTTAT
1 TTTTAT
721777 CACATATTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (21 bp):
TTTTATTTAATTTAAATATAA
Found at i:721795 original size:10 final size:10
Alignment explanation
Indices: 721721--721798 Score: 50
Period size: 10 Copynumber: 7.4 Consensus size: 10
721711 AATTTTATAA
*
721721 TTATTTATTT
1 TTATTTAATT
721731 TTATTT-ATT
1 TTATTTAATT
*
721740 TAAATTATAATT
1 T-TATT-TAATT
*
721752 TTTTTTAATTT
1 TTATTTAA-TT
*
721763 TTATATAATT
1 TTATTTAATT
**
721773 TTATCACATATT
1 TTAT-TTA-ATT
721785 TTATTTAATT
1 TTATTTAATT
721795 TTAT
1 TTAT
721799 AAAAAAATTA
Statistics
Matches: 53, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
9 3 0.06
10 25 0.47
11 14 0.26
12 11 0.21
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (10 bp):
TTATTTAATT
Found at i:723135 original size:75 final size:75
Alignment explanation
Indices: 723012--723176 Score: 276
Period size: 75 Copynumber: 2.2 Consensus size: 75
723002 CAACGTTCCC
* * * *
723012 GATGTTGAAACCAAATCTGATGAAACACTTTCTCAAGAGAATGTTTCCACTCTTTCCAATGGCGA
1 GATGTTCAAACCAAATCTAATGAAACACTTTCTCAAGAGAATATTTCCACACTTTCCAATGGCGA
723077 TGAACAAACT
66 TGAACAAACT
* *
723087 GATGTTCAAACCCAATCTAATGAAACACTTTCTCAAGAGAATATTTCCACACTTTCCAATGGTGA
1 GATGTTCAAACCAAATCTAATGAAACACTTTCTCAAGAGAATATTTCCACACTTTCCAATGGCGA
723152 TGAACAAACT
66 TGAACAAACT
723162 GATGTTCAAACCAAA
1 GATGTTCAAACCAAA
723177 GGTGATGGAA
Statistics
Matches: 83, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
75 83 1.00
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.27
Consensus pattern (75 bp):
GATGTTCAAACCAAATCTAATGAAACACTTTCTCAAGAGAATATTTCCACACTTTCCAATGGCGA
TGAACAAACT
Found at i:723196 original size:75 final size:75
Alignment explanation
Indices: 723012--723200 Score: 245
Period size: 75 Copynumber: 2.5 Consensus size: 75
723002 CAACGTTCCC
* * * * * *
723012 GATGTTGAAACCAAATCTGATGAAACACTTTCTCAAGAGAATGTTTCCACTCTTTCCAATGGCGA
1 GATGTTCAAACCAAAGCTAATGAAACACTGTCTCAAGAGAATATTTCCACACTTTCCAATGGCGA
723077 TGAACAAACT
66 TGAACAAACT
* * * *
723087 GATGTTCAAACCCAATCTAATGAAACACTTTCTCAAGAGAATATTTCCACACTTTCCAATGGTGA
1 GATGTTCAAACCAAAGCTAATGAAACACTGTCTCAAGAGAATATTTCCACACTTTCCAATGGCGA
723152 TGAACAAACT
66 TGAACAAACT
* * *
723162 GATGTTCAAACCAAAGGTGATGGAAA-TCTGTCTCAAGAG
1 GATGTTCAAACCAAAGCTAAT-GAAACACTGTCTCAAGAG
723201 CTTGCATCTT
Statistics
Matches: 101, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
75 97 0.96
76 4 0.04
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.27
Consensus pattern (75 bp):
GATGTTCAAACCAAAGCTAATGAAACACTGTCTCAAGAGAATATTTCCACACTTTCCAATGGCGA
TGAACAAACT
Found at i:724406 original size:2 final size:2
Alignment explanation
Indices: 724399--724424 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
724389 AGTTGCAAAG
724399 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
724425 TTTAAGTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:724593 original size:15 final size:15
Alignment explanation
Indices: 724573--724613 Score: 64
Period size: 17 Copynumber: 2.6 Consensus size: 15
724563 TATATAAAAA
724573 ATTAAATATATTTTT
1 ATTAAATATATTTTT
724588 ATTAAAAATATATTTTT
1 ATT--AAATATATTTTT
724605 ATTAAATAT
1 ATTAAATAT
724614 TCATATCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.38
17 15 0.62
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATTAAATATATTTTT
Found at i:724598 original size:17 final size:17
Alignment explanation
Indices: 724576--724610 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
724566 ATAAAAAATT
724576 AAATATATTTTTATTAA
1 AAATATATTTTTATTAA
724593 AAATATATTTTTATTAA
1 AAATATATTTTTATTAA
724610 A
1 A
724611 TATTCATATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
AAATATATTTTTATTAA
Found at i:727049 original size:118 final size:118
Alignment explanation
Indices: 726841--727076 Score: 400
Period size: 118 Copynumber: 2.0 Consensus size: 118
726831 GTCTGAGGAA
* * * *
726841 ATGTTTTATTGGTTCCTTATTATAATTTTGTATTTTGAGCTCTGAAGTAGTTTCCCTTGCTTATT
1 ATGTTTTATTGGTTCCTTATAATAATTTTGCATTTTGAGCTCTGAAGTAATTTCCCTTGCTAATT
* *
726906 TGTTGCCTGAATTTCTACCTTTAGCAAAAATAGTTCGGCTGAAACAAGTCAAG
66 TGTTGCCTGAATTTCTACCTTTAGCAAAAATAGCTCGGCTGAAACAAGCCAAG
*
726959 ATGTTTTATTTGTTCCTTATAATAATTTTGCATTTTGAGCTCTGAAGTAATTTCCCTTGCTAATT
1 ATGTTTTATTGGTTCCTTATAATAATTTTGCATTTTGAGCTCTGAAGTAATTTCCCTTGCTAATT
*
727024 TGTTGCCTGAATTTCTACCTTTAGCAAAAATGGCTCGGCTGAAACAAGCCAAG
66 TGTTGCCTGAATTTCTACCTTTAGCAAAAATAGCTCGGCTGAAACAAGCCAAG
727077 GAAGAGGCTG
Statistics
Matches: 110, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
118 110 1.00
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.42
Consensus pattern (118 bp):
ATGTTTTATTGGTTCCTTATAATAATTTTGCATTTTGAGCTCTGAAGTAATTTCCCTTGCTAATT
TGTTGCCTGAATTTCTACCTTTAGCAAAAATAGCTCGGCTGAAACAAGCCAAG
Found at i:728291 original size:2 final size:2
Alignment explanation
Indices: 728284--728326 Score: 61
Period size: 2 Copynumber: 21.5 Consensus size: 2
728274 TCACCCTACA
*
728284 AT AT AT AT AT AT AT AT AT AT AT AT A- AT GT AT AT CAT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT
728326 A
1 A
728327 ATCGACACAA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
1 1 0.03
2 34 0.92
3 2 0.05
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:730003 original size:6 final size:6
Alignment explanation
Indices: 729992--730020 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
729982 GAATTTAACA
729992 AATGGT AATGGT AATGGT AATGGT AATGG
1 AATGGT AATGGT AATGGT AATGGT AATGG
730021 GCACATTTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.31
Consensus pattern (6 bp):
AATGGT
Found at i:730960 original size:3 final size:3
Alignment explanation
Indices: 730954--730980 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
730944 AAACAGCAGC
730954 TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT
730981 ACTGCTGTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:735089 original size:6 final size:6
Alignment explanation
Indices: 735078--735112 Score: 52
Period size: 6 Copynumber: 5.5 Consensus size: 6
735068 CACCAGATTT
735078 TTTTTC TTTTTC TTTTTC TTTTTC TCCTTTTC TTT
1 TTTTTC TTTTTC TTTTTC TTTTTC T--TTTTC TTT
735113 AAACTGTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 21 0.78
8 6 0.22
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTTC
Found at i:740336 original size:2 final size:2
Alignment explanation
Indices: 740329--740370 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
740319 GTTTAAACTT
740329 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
740371 AACAACAAAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:740834 original size:15 final size:17
Alignment explanation
Indices: 740809--740840 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
740799 AAGTTTAAAC
740809 TTAATATTAA-TATTTT
1 TTAATATTAATTATTTT
740825 TTAA-ATTAATTATTTT
1 TTAATATTAATTATTTT
740841 ATATAATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTAATATTAATTATTTT
Found at i:740955 original size:28 final size:28
Alignment explanation
Indices: 740894--740963 Score: 81
Period size: 28 Copynumber: 2.5 Consensus size: 28
740884 AATTCATATC
740894 ATTTAATTTAATTTATATATTTTTTAAAT
1 ATTTAATTT-ATTTATATATTTTTTAAAT
*
740923 ATTT-ATTATATTTA-ATATTTATTTAATT
1 ATTTAATT-TATTTATATATTT-TTTAAAT
*
740951 TTTTAATTTATTT
1 ATTTAATTTATTT
740964 CAAATTTCGA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
27 6 0.17
28 22 0.61
29 8 0.22
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (28 bp):
ATTTAATTTATTTATATATTTTTTAAAT
Found at i:740957 original size:8 final size:9
Alignment explanation
Indices: 740894--740963 Score: 51
Period size: 8 Copynumber: 7.9 Consensus size: 9
740884 AATTCATATC
740894 ATTTAATTTA
1 ATTT-ATTTA
*
740904 ATTTATAT-
1 ATTTATTTA
740912 ATTT-TTTA
1 ATTTATTTA
*
740920 A-ATATTT-
1 ATTTATTTA
740927 ATTATATTTAA
1 ATT-TATTT-A
740938 TATTTATTTA
1 -ATTTATTTA
740948 ATTT-TTTA
1 ATTTATTTA
740956 ATTTATTT
1 ATTTATTT
740964 CAAATTTCGA
Statistics
Matches: 48, Mismatches: 4, Indels: 17
0.70 0.06 0.25
Matches are distributed among these distances:
7 4 0.08
8 16 0.33
9 15 0.31
10 5 0.10
11 5 0.10
12 3 0.06
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (9 bp):
ATTTATTTA
Found at i:740961 original size:17 final size:16
Alignment explanation
Indices: 740900--740963 Score: 58
Period size: 17 Copynumber: 3.8 Consensus size: 16
740890 TATCATTTAA
*
740900 TTTAATTTATATATTT
1 TTTAATTTATTTATTT
*
740916 TTTAA-ATATTTATTAT
1 TTTAATTTATTTATT-T
740932 ATTTAATATTTATTTAATTT
1 -TTT-A-ATTTATTT-ATTT
740952 TTTAATTTATTT
1 TTTAATTTATTT
740964 CAAATTTCGA
Statistics
Matches: 39, Mismatches: 3, Indels: 11
0.74 0.06 0.21
Matches are distributed among these distances:
15 7 0.18
16 6 0.15
17 11 0.28
18 2 0.05
19 4 0.10
20 6 0.15
21 3 0.08
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTAATTTATTTATTT
Found at i:745220 original size:17 final size:16
Alignment explanation
Indices: 745181--745221 Score: 50
Period size: 14 Copynumber: 2.6 Consensus size: 16
745171 TAAAAATATT
*
745181 ATATAAAAATAAAAAT
1 ATATAAAAATAAAAAA
745197 A-AT-AAAATAAATAAA
1 ATATAAAAATAAA-AAA
745212 ATATAAAAAT
1 ATATAAAAAT
745222 TTACGTGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
14 8 0.38
15 5 0.24
16 3 0.14
17 5 0.24
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (16 bp):
ATATAAAAATAAAAAA
Found at i:745636 original size:3 final size:3
Alignment explanation
Indices: 745628--745668 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
745618 AAAGGAAAGC
745628 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
745669 ATCATTTTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:746030 original size:27 final size:24
Alignment explanation
Indices: 745985--746042 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 24
745975 TGTTATTAAA
745985 ATAATTT-TTTTTTACTTAATTTT
1 ATAATTTATTTTTTACTTAATTTT
746008 ATAATTTATTTTATTATCTTTAATTTT
1 ATAATTTATTTT-TTA-C-TTAATTTT
746035 -TATATTTA
1 ATA-ATTTA
746043 AATTATTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
23 7 0.23
24 4 0.13
25 3 0.10
26 3 0.10
27 13 0.43
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.67
Consensus pattern (24 bp):
ATAATTTATTTTTTACTTAATTTT
Found at i:749785 original size:2 final size:2
Alignment explanation
Indices: 749778--749816 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
749768 CTTCTCCTTG
749778 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
749817 TTTTTACATG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:750752 original size:2 final size:2
Alignment explanation
Indices: 750745--750774 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
750735 AGTTAAAGTA
750745 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
750775 GAAAAAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:757628 original size:22 final size:21
Alignment explanation
Indices: 757588--757628 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
757578 ATTTGATATA
*
757588 TTTAAATTATATTTATTAAAT
1 TTTAAATTAAATTTATTAAAT
*
757609 TTTAAATATAAATTTTTTAA
1 TTTAAAT-TAAATTTATTAA
757629 TATAAAATCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
TTTAAATTAAATTTATTAAAT
Found at i:757642 original size:14 final size:14
Alignment explanation
Indices: 757613--757689 Score: 59
Period size: 14 Copynumber: 5.5 Consensus size: 14
757603 TTAAATTTTA
* *
757613 AATATAAATTTTTT
1 AATATAAAATTATT
*
757627 AATATAAAATCATT
1 AATATAAAATTATT
*
757641 AATAAAAAATTATTT
1 AATATAAAATTA-TT
** *
757656 AA-ATTTAATTATA
1 AATATAAAATTATT
757669 AATATATAAA-TATT
1 AATATA-AAATTATT
757683 AATATAA
1 AATATAA
757690 TTTTTTATTA
Statistics
Matches: 48, Mismatches: 12, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
13 4 0.08
14 38 0.79
15 6 0.12
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (14 bp):
AATATAAAATTATT
Found at i:757663 original size:21 final size:21
Alignment explanation
Indices: 757627--757686 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
757617 TAAATTTTTT
757627 AATATA-AAATCATTAATAAAA
1 AATATATAAAT-ATTAATAAAA
* * *
757648 AATTATTTAAAT-TTAATTATA
1 AA-TATATAAATATTAATAAAA
757669 AATATATAAATATTAATA
1 AATATATAAATATTAATA
757687 TAATTTTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
20 8 0.26
21 16 0.52
22 3 0.10
23 4 0.13
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (21 bp):
AATATATAAATATTAATAAAA
Found at i:765410 original size:2 final size:2
Alignment explanation
Indices: 765403--765427 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
765393 CATTAGGGTT
765403 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 T
765428 GGAAGGGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:766159 original size:11 final size:12
Alignment explanation
Indices: 766126--766180 Score: 53
Period size: 12 Copynumber: 4.8 Consensus size: 12
766116 TTATAAAAAT
* *
766126 ATATAAATATTA
1 ATATAATTAATA
766138 ATA-AA-TAATA
1 ATATAATTAATA
766148 ATAT-ATTAATA
1 ATATAATTAATA
*
766159 ATATAATAAATA
1 ATATAATTAATA
*
766171 ATAAAATTAA
1 ATATAATTAA
766181 ATTTTAAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
10 8 0.22
11 11 0.31
12 17 0.47
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (12 bp):
ATATAATTAATA
Found at i:766164 original size:16 final size:17
Alignment explanation
Indices: 766126--766175 Score: 61
Period size: 16 Copynumber: 3.1 Consensus size: 17
766116 TTATAAAAAT
766126 ATATAA-ATATTAATAA
1 ATATAATATATTAATAA
766142 ATAATAATATATTAAT-A
1 AT-ATAATATATTAATAA
*
766159 ATATAATA-AATAATAA
1 ATATAATATATTAATAA
766175 A
1 A
766176 ATTAAATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
15 5 0.17
16 10 0.33
17 7 0.23
18 8 0.27
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
ATATAATATATTAATAA
Found at i:766165 original size:26 final size:24
Alignment explanation
Indices: 766118--766187 Score: 79
Period size: 24 Copynumber: 2.9 Consensus size: 24
766108 AAATATATTT
*
766118 ATAAAAATATATAAATATTAATAA
1 ATAATAATATATAAATATTAATAA
*
766142 ATAATAATATATTAATAATATAATAA
1 ATAATAATATATAAAT-AT-TAATAA
* *
766168 ATAATAAAAT-TAAATTTTAA
1 ATAATAATATATAAATATTAA
766188 ATTAATTTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
23 3 0.08
24 15 0.38
25 6 0.15
26 15 0.38
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (24 bp):
ATAATAATATATAAATATTAATAA
Found at i:766967 original size:21 final size:20
Alignment explanation
Indices: 766935--766981 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
766925 ATTTAAAAAC
766935 TAAATTATTAT-TTTTAT-AT
1 TAAATT-TTATATTTTATAAT
766954 TAATATTTTATATTTTATAAT
1 TAA-ATTTTATATTTTATAAT
766975 TAAATTT
1 TAAATTT
766982 AAATAAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 7 0.28
20 13 0.52
21 5 0.20
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TAAATTTTATATTTTATAAT
Found at i:767040 original size:20 final size:20
Alignment explanation
Indices: 766971--767059 Score: 59
Period size: 19 Copynumber: 4.8 Consensus size: 20
766961 TTATATTTTA
* *
766971 TAATTAAATTTAAATAAAAA
1 TAATTTAATTTAAATAAAAT
*
766991 T-ATTT-GTATTAAAT-AAA-
1 TAATTTAAT-TTAAATAAAAT
767008 TAA--TAATTT-AATAAAAT
1 TAATTTAATTTAAATAAAAT
*
767025 TAATTTAATTTAAATATAAT
1 TAATTTAATTTAAATAAAAT
* *
767045 T-ATTTGATATAAATA
1 TAATTTAATTTAAATA
767060 TTTTTTTTAA
Statistics
Matches: 55, Mismatches: 6, Indels: 17
0.71 0.08 0.22
Matches are distributed among these distances:
15 3 0.05
16 6 0.11
17 5 0.09
18 5 0.09
19 27 0.49
20 9 0.16
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (20 bp):
TAATTTAATTTAAATAAAAT
Found at i:768602 original size:4 final size:4
Alignment explanation
Indices: 768593--768623 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
768583 TAGTCACAAA
768593 TATC TATC TATC TATC TATC TATC TATC TAT
1 TATC TATC TATC TATC TATC TATC TATC TAT
768624 ATATATATAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.26, C:0.23, G:0.00, T:0.52
Consensus pattern (4 bp):
TATC
Found at i:770594 original size:14 final size:15
Alignment explanation
Indices: 770564--770602 Score: 71
Period size: 14 Copynumber: 2.7 Consensus size: 15
770554 CAAAGAAGAC
770564 TTTATTATTTCAAAA
1 TTTATTATTTCAAAA
770579 TTTATTATTT-AAAA
1 TTTATTATTTCAAAA
770593 TTTATTATTT
1 TTTATTATTT
770603 TATTTTTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 14 0.58
15 10 0.42
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTATTATTTCAAAA
Found at i:770625 original size:21 final size:22
Alignment explanation
Indices: 770579--770623 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
770569 TATTTCAAAA
*
770579 TTTATTATTTAAAATTTATTAT
1 TTTATTATTTAAAATTTATGAT
770601 TTTATT-TTTAAAA-TTATGAT
1 TTTATTATTTAAAATTTATGAT
770621 TTT
1 TTT
770624 TAAGAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 9 0.41
21 7 0.32
22 6 0.27
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (22 bp):
TTTATTATTTAAAATTTATGAT
Found at i:771048 original size:2 final size:2
Alignment explanation
Indices: 771005--771029 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
770995 CAAAAAATGT
771005 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
771030 TTGCGTTTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:771351 original size:21 final size:21
Alignment explanation
Indices: 771327--771391 Score: 62
Period size: 21 Copynumber: 2.9 Consensus size: 21
771317 AAAAATTTGA
771327 TAATATTAA-ATA-AAAATATAT
1 TAATA-TAATATACAAAATA-AT
771348 TAATATAATATACAAAATAAT
1 TAATATAATATACAAAATAAT
771369 TAAAATATAATATAACATAAATA
1 T--AATATAATAT-ACA-AAATA
771392 TTTTTTAAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
20 3 0.08
21 11 0.29
22 6 0.16
23 10 0.26
24 3 0.08
25 5 0.13
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (21 bp):
TAATATAATATACAAAATAAT
Found at i:771364 original size:23 final size:25
Alignment explanation
Indices: 771338--771392 Score: 64
Period size: 23 Copynumber: 2.3 Consensus size: 25
771328 AATATTAAAT
771338 AAAAATATATT-AATATAATAT-AC
1 AAAAATATATTAAATATAATATAAC
771361 -AAAATA-ATTAAAATATAATATAAC
1 AAAAATATATT-AAATATAATATAAC
*
771385 ATAAATAT
1 AAAAATAT
771393 TTTTTAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 6 0.23
23 10 0.38
24 2 0.08
25 5 0.19
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.33
Consensus pattern (25 bp):
AAAAATATATTAAATATAATATAAC
Found at i:771416 original size:16 final size:16
Alignment explanation
Indices: 771397--771463 Score: 61
Period size: 16 Copynumber: 4.2 Consensus size: 16
771387 AAATATTTTT
771397 TAAATTTTATATAATA
1 TAAATTTTATATAATA
*
771413 TAAATTATTA-ATATATC
1 TAAATT-TTATATA-ATA
771430 TAAA-TTTATATAAGTA
1 TAAATTTTATATAA-TA
771446 TAAATATTT-TA-AATA
1 TAAAT-TTTATATAATA
771461 TAA
1 TAA
771464 TTAATATAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 13
0.74 0.03 0.22
Matches are distributed among these distances:
15 9 0.21
16 20 0.47
17 11 0.26
18 3 0.07
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (16 bp):
TAAATTTTATATAATA
Found at i:771473 original size:15 final size:15
Alignment explanation
Indices: 771408--771477 Score: 56
Period size: 15 Copynumber: 4.9 Consensus size: 15
771398 AAATTTTATA
771408 TAATATAAAT-T-AT
1 TAATATAAATATAAT
**
771421 TAATATATCTA-AAT
1 TAATATAAATATAAT
* * *
771435 TTATATAAGTATAAA
1 TAATATAAATATAAT
* *
771450 TATTTTAAATATAAT
1 TAATATAAATATAAT
771465 TAATATAAATATA
1 TAATATAAATATA
771478 TAAATTATCA
Statistics
Matches: 41, Mismatches: 13, Indels: 4
0.71 0.22 0.07
Matches are distributed among these distances:
13 8 0.20
14 10 0.24
15 23 0.56
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (15 bp):
TAATATAAATATAAT
Found at i:774005 original size:2 final size:2
Alignment explanation
Indices: 773998--774030 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
773988 AGCGTCATCT
*
773998 TA TA TA TA TA TA TA TA CA 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
774031 TAATTATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:775802 original size:2 final size:2
Alignment explanation
Indices: 775797--775825 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
775787 TTTCATCTTC
775797 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
775826 AACACACACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:776238 original size:25 final size:23
Alignment explanation
Indices: 776164--776230 Score: 75
Period size: 25 Copynumber: 2.9 Consensus size: 23
776154 TTATATAATT
*
776164 ATTTATAAAATATAATATTTA-A
1 ATTTTTAAAATATAATATTTATA
* *
776186 A-TTTTAAATTTTAATATTTATAA
1 ATTTTTAAAATATAATATTTAT-A
776209 TATTTTTAAAATATAATATTTA
1 -ATTTTTAAAATATAATATTTA
776231 ATCAATTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
21 16 0.44
22 1 0.03
23 1 0.03
24 1 0.03
25 17 0.47
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
ATTTTTAAAATATAATATTTATA
Found at i:776244 original size:49 final size:48
Alignment explanation
Indices: 776149--776253 Score: 135
Period size: 46 Copynumber: 2.2 Consensus size: 48
776139 CATAATTTAA
*
776149 TTAAT-TTATATAATTATTTATAAAATATAATATTTAAATTTTAAATT
1 TTAATATTATATAATTATTTATAAAATATAATATTTAAATTTAAAATT
*
776196 TTAATATT-TATAA-TATTTTTAAAATATAATATTTAATCAATTTAAAATT
1 TTAATATTATATAATTATTTATAAAATATAATATTT-A--AATTTAAAATT
*
776245 TAAATATTA
1 TTAATATTA
776254 ATATCTATTA
Statistics
Matches: 50, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
46 20 0.40
47 11 0.22
48 2 0.04
49 17 0.34
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (48 bp):
TTAATATTATATAATTATTTATAAAATATAATATTTAAATTTAAAATT
Found at i:776619 original size:41 final size:41
Alignment explanation
Indices: 776572--776653 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
776562 AAAAAAAAAC
*
776572 TAAATAAACTTAGAGTCATGTCTTAATTATGTTTTAAGAAA
1 TAAATAAACTTAGAGTCATGTCTTAATTATGTTCTAAGAAA
*
776613 TAAATAAACTTAGAGTCATGTCTTGATTATGTTCTAAGAAA
1 TAAATAAACTTAGAGTCATGTCTTAATTATGTTCTAAGAAA
776654 ACATGGGAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.38
Consensus pattern (41 bp):
TAAATAAACTTAGAGTCATGTCTTAATTATGTTCTAAGAAA
Found at i:777777 original size:26 final size:24
Alignment explanation
Indices: 777730--777779 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 24
777720 CAATAATTCG
* *
777730 TTTTATATTTATCATGTTTATATT
1 TTTTATATTTATCATATGTATATT
777754 TTTTATATTATAATCATATGTATATT
1 TTTTATATT-T-ATCATATGTATATT
777780 AATTTATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 9 0.41
25 1 0.05
26 12 0.55
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.62
Consensus pattern (24 bp):
TTTTATATTTATCATATGTATATT
Found at i:786668 original size:21 final size:21
Alignment explanation
Indices: 786623--786669 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
786613 TATAATTTTT
* *
786623 TAAAAAATATAATTTTTCATC
1 TAAAAAATAAAATTTTTCATA
786644 TAAAAAATAAAATTTTAT-ATA
1 TAAAAAATAAAATTTT-TCATA
786665 TAAAA
1 TAAAA
786670 TAGTAAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 22 0.96
22 1 0.04
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.38
Consensus pattern (21 bp):
TAAAAAATAAAATTTTTCATA
Found at i:786669 original size:19 final size:19
Alignment explanation
Indices: 786609--786671 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
786599 ATGATATATT
*
786609 AAAATATAATTTT-T-TAA
1 AAAATAAAATTTTATATAA
* *
786626 AAAATATAATTTTTCATCTAA
1 AAAATA-AAATTTT-ATATAA
*
786647 AAAATAAAATTTTATATAT
1 AAAATAAAATTTTATATAA
786666 AAAATA
1 AAAATA
786672 GTAAATAAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
17 6 0.16
18 5 0.14
19 10 0.27
20 7 0.19
21 9 0.24
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (19 bp):
AAAATAAAATTTTATATAA
Found at i:786718 original size:25 final size:25
Alignment explanation
Indices: 786673--786720 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
786663 TATAAAATAG
**
786673 TAAATAAATATTTATTTTATTTTCT
1 TAAATAAATATTTATACTATTTTCT
786698 TAAATAAATATATTA-ACTATTTT
1 TAAATAAATAT-TTATACTATTTT
786721 TTTTTACCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 17 0.85
26 3 0.15
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (25 bp):
TAAATAAATATTTATACTATTTTCT
Found at i:787169 original size:18 final size:17
Alignment explanation
Indices: 787148--787237 Score: 76
Period size: 17 Copynumber: 5.1 Consensus size: 17
787138 AATATTTATA
787148 AATAATTTAAATTAATTT
1 AATAATTT-AATTAATTT
787166 AATAATTTAATTCAATTT
1 AATAATTTAATT-AATTT
* *
787184 AAAAATTTTAATT-ATAT
1 AATAA-TTTAATTAATTT
* *
787201 AAAAATATAA-TATATTT
1 AATAATTTAATTA-ATTT
787218 AATAATTTATATTATATTT
1 AATAATTTA-ATTA-ATTT
787237 A
1 A
787238 GATTTAGAGG
Statistics
Matches: 60, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
15 1 0.02
16 4 0.07
17 22 0.37
18 18 0.30
19 15 0.25
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (17 bp):
AATAATTTAATTAATTT
Found at i:787173 original size:8 final size:8
Alignment explanation
Indices: 787148--787226 Score: 59
Period size: 8 Copynumber: 9.1 Consensus size: 8
787138 AATATTTATA
787148 AATAATTT
1 AATAATTT
787156 AAATTAATTT
1 -AA-TAATTT
787166 AATAATTT
1 AATAATTT
787174 AATTCAATTT
1 AA-T-AATTT
*
787184 AAAAATTTT
1 AATAA-TTT
* *
787193 AATTATAT
1 AATAATTT
* *
787201 AAAAATAT
1 AATAATTT
787209 AATATATTT
1 AATA-ATTT
787218 AATAATTT
1 AATAATTT
787226 A
1 A
787227 TATTATATTT
Statistics
Matches: 57, Mismatches: 8, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
8 26 0.46
9 18 0.32
10 13 0.23
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (8 bp):
AATAATTT
Found at i:787233 original size:19 final size:19
Alignment explanation
Indices: 787148--787237 Score: 70
Period size: 18 Copynumber: 5.1 Consensus size: 19
787138 AATATTTATA
*
787148 AATAATTTAAATTA-ATTT
1 AATAATTTATATTATATTT
787166 AATAATTTA-ATTCA-ATTT
1 AATAATTTATATT-ATATTT
*
787184 AAAAATTT-TAATTATA--T
1 AATAATTTAT-ATTATATTT
* *
787201 AA-AA-ATATAATATATTT
1 AATAATTTATATTATATTT
787218 AATAATTTATATTATATTT
1 AATAATTTATATTATATTT
787237 A
1 A
787238 GATTTAGAGG
Statistics
Matches: 58, Mismatches: 5, Indels: 17
0.73 0.06 0.21
Matches are distributed among these distances:
15 6 0.10
16 3 0.05
17 9 0.16
18 24 0.41
19 16 0.28
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (19 bp):
AATAATTTATATTATATTT
Found at i:787460 original size:2 final size:2
Alignment explanation
Indices: 787453--787479 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
787443 ATTCTTTATG
787453 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 T
787480 GCCTAAAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:791182 original size:221 final size:215
Alignment explanation
Indices: 790790--791227 Score: 546
Period size: 221 Copynumber: 2.0 Consensus size: 215
790780 TGTAATTATA
* *
790790 TCGTAGACATTCCTGTTTTCTTATTATTTCCTTTTTTCTCTTTTGGTGATTTTTATCAATAAAAT
1 TCGTAGACATTCCTGCTTTCTTATTATTTCCTTTTTTCTCTTTTGGTGATTTTTATCAATAAAAA
* * **
790855 ATAAATTATCGGTTTTGAGGTTGTTTTTACTTTCTTTTGGTGAAGGTTTCTTAGTGATTGTTTTG
66 AAAAATTATCGGTTTTGAAG-TACTTTTACTTTCTTTTGGTGAAGGTTTCTTAGTGATTGTTTTG
* * *
790920 TCAGTAAAATTATCTGTAATTATCAGTTTTAAATGATGCTCTCCTTTTTATGTGTATTAACATAT
130 TCAGTAAAATTAACTGTAATTATCAGTTTTAAATGATGCTCT--TTTTCATGTATATTAACATAT
* * *
790985 TCCCTAATTTCTTGTGTTTCTTC
193 GCCCTAATTACTTGAGTTTCTTC
*
791008 TCGTAGACATTCCTGCTTTCTTATTATTTCCTTTTTTTTTTTCTTTTGGTGATTTTTATCAA-AA
1 TCGTAGACATTCCTGCTTTCTTATTATTTCC---TTTTTTCTCTTTTGGTGATTTTTATCAATAA
* * *
791072 AAAAAAAATTTATTGGTTTT-AAG-ACTTTTCCTTTCTTTTGGT-AAGGGTTGCCTTCTTGGTGA
63 AAAAAAAA-TTATCGGTTTTGAAGTACTTTTACTTTCTTTTGGTGAA-GG-T---TTCTTAGTGA
* *
791134 TTTTTTTGTTAGTAAAA-TAACTGTAATTAT-AGGTTTTAAATGATGCTCTTTTTCATGTATATT
122 TTGTTTTGTCAGTAAAATTAACTGTAATTATCA-GTTTTAAATGATGCTCTTTTTCATGTATATT
*
791197 AACATATGGCCTAATTACTTGAGTTTCTTC
186 AACATATGCCCTAATTACTTGAGTTTCTTC
791227 T
1 T
791228 TGTTTAAGAA
Statistics
Matches: 191, Mismatches: 19, Indels: 19
0.83 0.08 0.08
Matches are distributed among these distances:
217 2 0.01
218 48 0.25
219 40 0.21
220 11 0.06
221 66 0.35
222 24 0.13
ACGTcount: A:0.22, C:0.13, G:0.14, T:0.51
Consensus pattern (215 bp):
TCGTAGACATTCCTGCTTTCTTATTATTTCCTTTTTTCTCTTTTGGTGATTTTTATCAATAAAAA
AAAAATTATCGGTTTTGAAGTACTTTTACTTTCTTTTGGTGAAGGTTTCTTAGTGATTGTTTTGT
CAGTAAAATTAACTGTAATTATCAGTTTTAAATGATGCTCTTTTTCATGTATATTAACATATGCC
CTAATTACTTGAGTTTCTTC
Found at i:792367 original size:19 final size:19
Alignment explanation
Indices: 792330--792367 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
792320 ATTTAGAAAG
*
792330 TTACTTCTATAGTTTTATT
1 TTACTTCTATAGTTCTATT
*
792349 TTACTTCTATGGTTCTATT
1 TTACTTCTATAGTTCTATT
792368 GTTATTTGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.18, C:0.13, G:0.08, T:0.61
Consensus pattern (19 bp):
TTACTTCTATAGTTCTATT
Found at i:796128 original size:5 final size:5
Alignment explanation
Indices: 796120--796151 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
796110 CATGAAAAGA
796120 AATAT AATAT AATAT AATAT AATAT AATAT AA
1 AATAT AATAT AATAT AATAT AATAT AATAT AA
796152 AACAGATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
AATAT
Found at i:796518 original size:6 final size:6
Alignment explanation
Indices: 796501--796535 Score: 61
Period size: 6 Copynumber: 5.7 Consensus size: 6
796491 ATTACTTCTT
796501 ATTTATA ATTTAA ATTTAA ATTTAA ATTTAA ATTT
1 ATTTA-A ATTTAA ATTTAA ATTTAA ATTTAA ATTT
796536 TTTAACTGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 23 0.82
7 5 0.18
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (6 bp):
ATTTAA
Found at i:797308 original size:228 final size:227
Alignment explanation
Indices: 796883--798475 Score: 1729
Period size: 228 Copynumber: 7.0 Consensus size: 227
796873 CCTTTTGAAA
* * * * *
796883 GATGCAGATCTTTGTGAAAACCCTT-ACCGGCAAGACCATAACTCTCGAGGTCGAGAGTTCCGAC
1 GATGCAGATCTTTGTCAAAA-CCTTGACTGGCAAGACCATCACCCTCGAGGTCGAAAGTTCCGAC
* * *
796947 ACCATCGACAATGTGAAGGCCAAGATCCAGGACAAGGAAGGGATCCCACCTGACCAGCAGCGTCT
65 ACCATCGACAATGTCAAGGCCAAGATCCAGGACAAGGAAGGGATCCCACCAGACCAGCAACG-CT
* * * ** * * *
797012 CATTTTCGCTGGTAAGCAGCTCGAAGATGGCCGTACCCTT-GCCGACTATAACATCCAGAAAGAA
129 TATTTTCGCTGGCAAGCAGCTTGAAGATGGGAGGA-CCTTAGCTGATTATAACATCCAGAAAGAA
* *
797076 TCCACCCTCCACCTTGTCCTCCGTCTTCGTGG-GG
193 TCCACCCTTCACCTTGTTCTCCGTCTTCGTGGAGG
* *
797110 GTATGCAAATCTTCGTCAAAACCTTGACTGGCAAGACCATCACCCTCGAGGTCGAAAGTTCCGAC
1 G-ATGCAGATCTTTGTCAAAACCTTGACTGGCAAGACCATCACCCTCGAGGTCGAAAGTTCCGAC
* * * *
797175 ACGATCGACAACGTCAAGGCCAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAGCAACGTTT
65 ACCATCGACAATGTCAAGGCCAAGATCCAGGACAAGGAAGGGATCCCACCAGACCAGCAACGCTT
* * * * * *
797240 GATTTTCGCTGGGAAGCAGCTTGAGGACGGGAGGACCTTGGCTGATTACAACATTCA-AAAGGAA
130 -ATTTTCGCTGGCAAGCAGCTTGAAGATGGGAGGACCTTAGCTGATTATAACATCCAGAAA-GAA
* ** *
797304 TCCACCCTTCACCTTGTTTTGAGGCTTCGTGGAGG
193 TCCACCCTTCACCTTGTTCTCCGTCTTCGTGGAGG
* * * * * * * * * * *
797339 GATGCAGATCTTTGTCAAGACCTTGACTGGAAAAACAATTACCTTGGAGGTTGAAAGCTCGGATA
1 GATGCAGATCTTTGTCAAAACCTTGACTGGCAAGACCATCACCCTCGAGGTCGAAAGTTCCGACA
* * * * * *
797404 CCATTGACAATGTCAAGGCAAAGATCCAGGACAAGGAAGGAATCCCCCCAGATCAGCAAAGGCTT
66 CCATCGACAATGTCAAGGCCAAGATCCAGGACAAGGAAGGGATCCCACCAGACCAGC-AACGCTT
* *
797469 ATCTTT-GCTGGCAAGCA-ATTGGAAGATGGGAGGACTTTAGCTGATTATAACATCCAGAAAGAA
130 AT-TTTCGCTGGCAAGCAGCTT-GAAGATGGGAGGACCTTAGCTGATTATAACATCCAGAAAGAA
* *
797532 TCCACCCTCCACCTTGTCCTCCGTCTTCGTGG-GG
193 TCCACCCTTCACCTTGTTCTCCGTCTTCGTGGAGG
* *
797566 GTATGCAAATCTTCGTCAAAACCTTGACTGGCAAGACCATCACCCTCGAGGTCGAAAGTTCCGAC
1 G-ATGCAGATCTTTGTCAAAACCTTGACTGGCAAGACCATCACCCTCGAGGTCGAAAGTTCCGAC
* * * *
797631 ACGATCGACAACGTCAAGGCCAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAGCAACGATT
65 ACCATCGACAATGTCAAGGCCAAGATCCAGGACAAGGAAGGGATCCCACCAGACCAGCAACGCTT
* * * * * *
797696 GATTTTCGCTGGGAAGCAGCTTGAGGACGGGAGGACCTTGGCTGATTACAACATTCA-AAAGGAA
130 -ATTTTCGCTGGCAAGCAGCTTGAAGATGGGAGGACCTTAGCTGATTATAACATCCAGAAA-GAA
* ** *
797760 TCCACCCTTCACCTTGTTTTGAGGCTTCGTGGAGG
193 TCCACCCTTCACCTTGTTCTCCGTCTTCGTGGAGG
* * * * * * * * * * *
797795 GATGCAGATCTTTGTCAAGACCTTGACTGGAAAAACAATTACCTTGGAGGTTGAAAGCTCGGATA
1 GATGCAGATCTTTGTCAAAACCTTGACTGGCAAGACCATCACCCTCGAGGTCGAAAGTTCCGACA
* * * * * *
797860 CCATTGACAATGTCAAGGCAAAGATCCAGGACAAGGAAGGAATCCCCCCAGATCAGCAAAGGCTT
66 CCATCGACAATGTCAAGGCCAAGATCCAGGACAAGGAAGGGATCCCACCAGACCAGC-AACGCTT
* *
797925 ATCTTT-GCTGGCAAGCA-ATTGGAAGATGGGAGGACTTTAGCTGATTATAACATCCAGAAAGAA
130 AT-TTTCGCTGGCAAGCAGCTT-GAAGATGGGAGGACCTTAGCTGATTATAACATCCAGAAAGAA
* *
797988 TCCACCCTCCACCTTGTCCTCCGTCTTCGTGG-GG
193 TCCACCCTTCACCTTGTTCTCCGTCTTCGTGGAGG
* *
798022 GTATGCAAATCTTCGTCAAAACCTTGACTGGCAAGACCATCACCCTCGAGGTCGAAAGTTCCGAC
1 G-ATGCAGATCTTTGTCAAAACCTTGACTGGCAAGACCATCACCCTCGAGGTCGAAAGTTCCGAC
* * * *
798087 ACGATCGACAACGTCAAGGCCAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAGCAACGTTT
65 ACCATCGACAATGTCAAGGCCAAGATCCAGGACAAGGAAGGGATCCCACCAGACCAGCAACGCTT
* * * * * *
798152 GATTTTCGCTGGGAAGCAGCTTGAGGACGGGAGGACCTTGGCTGATTACAACATTCA-AAAGGAA
130 -ATTTTCGCTGGCAAGCAGCTTGAAGATGGGAGGACCTTAGCTGATTATAACATCCAGAAA-GAA
* ** *
798216 TCCACCCTTCACCTTGTTTTGAGGCTTCGTGGAGG
193 TCCACCCTTCACCTTGTTCTCCGTCTTCGTGGAGG
* * * * * * * * * * *
798251 GATGCAGATCTTTGTCAAGACCTTGACTGGAAAAACAATTACCTTGGAGGTTGAAAGCTCGGATA
1 GATGCAGATCTTTGTCAAAACCTTGACTGGCAAGACCATCACCCTCGAGGTCGAAAGTTCCGACA
* * * * * *
798316 CCATTGACAATGTCAAGGCAAAGATCCAGGACAAGGAAGGAATCCCCCCAGATCAGCAAAGGCTT
66 CCATCGACAATGTCAAGGCCAAGATCCAGGACAAGGAAGGGATCCCACCAGACCAGC-AACGCTT
* *
798381 ATCTTT-GCTGGCAAGCA-ATTGGAAGATGGGAGGACTTTAGCTGATTATAACATCCAGAAAGAA
130 AT-TTTCGCTGGCAAGCAGCTT-GAAGATGGGAGGACCTTAGCTGATTATAACATCCAGAAAGAA
* * *
798444 TCTACCCTTCATCTTGTTCTCCGTCTACGTGG
193 TCCACCCTTCACCTTGTTCTCCGTCTTCGTGG
798476 TGGGCAGTGA
Statistics
Matches: 1118, Mismatches: 218, Indels: 59
0.80 0.16 0.04
Matches are distributed among these distances:
227 47 0.04
228 1025 0.92
229 46 0.04
ACGTcount: A:0.29, C:0.25, G:0.24, T:0.22
Consensus pattern (227 bp):
GATGCAGATCTTTGTCAAAACCTTGACTGGCAAGACCATCACCCTCGAGGTCGAAAGTTCCGACA
CCATCGACAATGTCAAGGCCAAGATCCAGGACAAGGAAGGGATCCCACCAGACCAGCAACGCTTA
TTTTCGCTGGCAAGCAGCTTGAAGATGGGAGGACCTTAGCTGATTATAACATCCAGAAAGAATCC
ACCCTTCACCTTGTTCTCCGTCTTCGTGGAGG
Found at i:797736 original size:456 final size:456
Alignment explanation
Indices: 796947--798475 Score: 2783
Period size: 456 Copynumber: 3.4 Consensus size: 456
796937 GAGTTCCGAC
* * * * * * * ** *
796947 ACCATCGACAATGTGAAGGCCAAGATCCAGGACAAGGAAGGGATCCCACCTGACCAGCAGCGTCT
1 ACCATTGACAATGTCAAGGCAAAGATCCAGGACAAGGAAGGAATCCCCCCAGATCAGCAAAGGCT
* * ** * ** * * * *
797012 CAT-TTTCGCTGGTAAGCAGCTCGAAGATGGCCGTACCCTT-GCCGACTATAACATCCAGAAAGA
66 TATCTTT-GCTGGCAAGCAATTGGAAGATGGGAGGA-CTTTAGCTGATTATAACATCCAGAAAGA
797075 ATCCACCCTCCACCTTGTCCTCCGTCTTCGTGGGGGTATGCAAATCTTCGTCAAAACCTTGACTG
129 ATCCACCCTCCACCTTGTCCTCCGTCTTCGTGGGGGTATGCAAATCTTCGTCAAAACCTTGACTG
797140 GCAAGACCATCACCCTCGAGGTCGAAAGTTCCGACACGATCGACAACGTCAAGGCCAAGATCCAA
194 GCAAGACCATCACCCTCGAGGTCGAAAGTTCCGACACGATCGACAACGTCAAGGCCAAGATCCAA
797205 GACAAGGAAGGGATCCCACCAGACCAGCAACGTTTGATTTTCGCTGGGAAGCAGCTTGAGGACGG
259 GACAAGGAAGGGATCCCACCAGACCAGCAACGTTTGATTTTCGCTGGGAAGCAGCTTGAGGACGG
797270 GAGGACCTTGGCTGATTACAACATTCAAAAGGAATCCACCCTTCACCTTGTTTTGAGGCTTCGTG
324 GAGGACCTTGGCTGATTACAACATTCAAAAGGAATCCACCCTTCACCTTGTTTTGAGGCTTCGTG
797335 GAGGGATGCAGATCTTTGTCAAGACCTTGACTGGAAAAACAATTACCTTGGAGGTTGAAAGCTCG
389 GAGGGATGCAGATCTTTGTCAAGACCTTGACTGGAAAAACAATTACCTTGGAGGTTGAAAGCTCG
797400 GAT
454 GAT
797403 ACCATTGACAATGTCAAGGCAAAGATCCAGGACAAGGAAGGAATCCCCCCAGATCAGCAAAGGCT
1 ACCATTGACAATGTCAAGGCAAAGATCCAGGACAAGGAAGGAATCCCCCCAGATCAGCAAAGGCT
797468 TATCTTTGCTGGCAAGCAATTGGAAGATGGGAGGACTTTAGCTGATTATAACATCCAGAAAGAAT
66 TATCTTTGCTGGCAAGCAATTGGAAGATGGGAGGACTTTAGCTGATTATAACATCCAGAAAGAAT
797533 CCACCCTCCACCTTGTCCTCCGTCTTCGTGGGGGTATGCAAATCTTCGTCAAAACCTTGACTGGC
131 CCACCCTCCACCTTGTCCTCCGTCTTCGTGGGGGTATGCAAATCTTCGTCAAAACCTTGACTGGC
797598 AAGACCATCACCCTCGAGGTCGAAAGTTCCGACACGATCGACAACGTCAAGGCCAAGATCCAAGA
196 AAGACCATCACCCTCGAGGTCGAAAGTTCCGACACGATCGACAACGTCAAGGCCAAGATCCAAGA
*
797663 CAAGGAAGGGATCCCACCAGACCAGCAACGATTGATTTTCGCTGGGAAGCAGCTTGAGGACGGGA
261 CAAGGAAGGGATCCCACCAGACCAGCAACGTTTGATTTTCGCTGGGAAGCAGCTTGAGGACGGGA
797728 GGACCTTGGCTGATTACAACATTCAAAAGGAATCCACCCTTCACCTTGTTTTGAGGCTTCGTGGA
326 GGACCTTGGCTGATTACAACATTCAAAAGGAATCCACCCTTCACCTTGTTTTGAGGCTTCGTGGA
797793 GGGATGCAGATCTTTGTCAAGACCTTGACTGGAAAAACAATTACCTTGGAGGTTGAAAGCTCGGA
391 GGGATGCAGATCTTTGTCAAGACCTTGACTGGAAAAACAATTACCTTGGAGGTTGAAAGCTCGGA
797858 T
456 T
797859 ACCATTGACAATGTCAAGGCAAAGATCCAGGACAAGGAAGGAATCCCCCCAGATCAGCAAAGGCT
1 ACCATTGACAATGTCAAGGCAAAGATCCAGGACAAGGAAGGAATCCCCCCAGATCAGCAAAGGCT
797924 TATCTTTGCTGGCAAGCAATTGGAAGATGGGAGGACTTTAGCTGATTATAACATCCAGAAAGAAT
66 TATCTTTGCTGGCAAGCAATTGGAAGATGGGAGGACTTTAGCTGATTATAACATCCAGAAAGAAT
797989 CCACCCTCCACCTTGTCCTCCGTCTTCGTGGGGGTATGCAAATCTTCGTCAAAACCTTGACTGGC
131 CCACCCTCCACCTTGTCCTCCGTCTTCGTGGGGGTATGCAAATCTTCGTCAAAACCTTGACTGGC
798054 AAGACCATCACCCTCGAGGTCGAAAGTTCCGACACGATCGACAACGTCAAGGCCAAGATCCAAGA
196 AAGACCATCACCCTCGAGGTCGAAAGTTCCGACACGATCGACAACGTCAAGGCCAAGATCCAAGA
798119 CAAGGAAGGGATCCCACCAGACCAGCAACGTTTGATTTTCGCTGGGAAGCAGCTTGAGGACGGGA
261 CAAGGAAGGGATCCCACCAGACCAGCAACGTTTGATTTTCGCTGGGAAGCAGCTTGAGGACGGGA
798184 GGACCTTGGCTGATTACAACATTCAAAAGGAATCCACCCTTCACCTTGTTTTGAGGCTTCGTGGA
326 GGACCTTGGCTGATTACAACATTCAAAAGGAATCCACCCTTCACCTTGTTTTGAGGCTTCGTGGA
798249 GGGATGCAGATCTTTGTCAAGACCTTGACTGGAAAAACAATTACCTTGGAGGTTGAAAGCTCGGA
391 GGGATGCAGATCTTTGTCAAGACCTTGACTGGAAAAACAATTACCTTGGAGGTTGAAAGCTCGGA
798314 T
456 T
798315 ACCATTGACAATGTCAAGGCAAAGATCCAGGACAAGGAAGGAATCCCCCCAGATCAGCAAAGGCT
1 ACCATTGACAATGTCAAGGCAAAGATCCAGGACAAGGAAGGAATCCCCCCAGATCAGCAAAGGCT
798380 TATCTTTGCTGGCAAGCAATTGGAAGATGGGAGGACTTTAGCTGATTATAACATCCAGAAAGAAT
66 TATCTTTGCTGGCAAGCAATTGGAAGATGGGAGGACTTTAGCTGATTATAACATCCAGAAAGAAT
* * * * *
798445 CTACCCTTCATCTTGTTCTCCGTCTACGTGG
131 CCACCCTCCACCTTGTCCTCCGTCTTCGTGG
798476 TGGGCAGTGA
Statistics
Matches: 1043, Mismatches: 28, Indels: 4
0.97 0.03 0.00
Matches are distributed among these distances:
455 3 0.00
456 1037 0.99
457 3 0.00
ACGTcount: A:0.29, C:0.25, G:0.24, T:0.22
Consensus pattern (456 bp):
ACCATTGACAATGTCAAGGCAAAGATCCAGGACAAGGAAGGAATCCCCCCAGATCAGCAAAGGCT
TATCTTTGCTGGCAAGCAATTGGAAGATGGGAGGACTTTAGCTGATTATAACATCCAGAAAGAAT
CCACCCTCCACCTTGTCCTCCGTCTTCGTGGGGGTATGCAAATCTTCGTCAAAACCTTGACTGGC
AAGACCATCACCCTCGAGGTCGAAAGTTCCGACACGATCGACAACGTCAAGGCCAAGATCCAAGA
CAAGGAAGGGATCCCACCAGACCAGCAACGTTTGATTTTCGCTGGGAAGCAGCTTGAGGACGGGA
GGACCTTGGCTGATTACAACATTCAAAAGGAATCCACCCTTCACCTTGTTTTGAGGCTTCGTGGA
GGGATGCAGATCTTTGTCAAGACCTTGACTGGAAAAACAATTACCTTGGAGGTTGAAAGCTCGGA
T
Found at i:799407 original size:3 final size:3
Alignment explanation
Indices: 799399--799433 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
799389 TTTTGGTCTT
799399 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
799434 CTAGATGAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:800494 original size:2 final size:2
Alignment explanation
Indices: 800487--800523 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
800477 TGAGCCAAGA
*
800487 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
800524 CATGCACTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:801521 original size:21 final size:21
Alignment explanation
Indices: 801495--801534 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
801485 AAATATTAAT
**
801495 ATAAAATAATTATTTTAAATA
1 ATAAAATAAAAATTTTAAATA
801516 ATAAAATAAAAATTTTAAA
1 ATAAAATAAAAATTTTAAA
801535 ATATCAAAAT
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:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
ATAAAATAAAAATTTTAAATA
Found at i:801543 original size:22 final size:20
Alignment explanation
Indices: 801492--801544 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
801482 TATAAATATT
**
801492 AATATAAAATAATTATTTTA
1 AATATAAAATAAAAATTTTA
801512 AATAATAAAATAAAAATTTTAA
1 AAT-ATAAAATAAAAATTTT-A
801534 AATATCAAAAT
1 AATAT-AAAAT
801545 CTAATTCTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 3 0.11
21 16 0.57
22 9 0.32
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (20 bp):
AATATAAAATAAAAATTTTA
Found at i:806669 original size:2 final size:2
Alignment explanation
Indices: 806662--806695 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
806652 TAAGATAGTG
806662 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
806696 AAGATGAGCC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:807089 original size:16 final size:16
Alignment explanation
Indices: 807028--807090 Score: 51
Period size: 16 Copynumber: 3.9 Consensus size: 16
807018 TAAATATTTT
807028 AATATTTATATAATATAA
1 AATA-TTATA-AATATAA
* *
807046 ATTATTA-ACATA-AA
1 AATATTATAAATATAA
807060 AAT-TTATCTAAATATAA
1 AATATTA--TAAATATAA
807077 AATATTATAAATAT
1 AATATTATAAATAT
807091 TCTGAAGAGC
Statistics
Matches: 36, Mismatches: 4, Indels: 12
0.69 0.08 0.23
Matches are distributed among these distances:
13 3 0.08
14 4 0.11
15 3 0.08
16 12 0.33
17 8 0.22
18 6 0.17
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (16 bp):
AATATTATAAATATAA
Found at i:807654 original size:14 final size:14
Alignment explanation
Indices: 807631--807664 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
807621 CTGACTTTTT
*
807631 ATTATATTTAATAA
1 ATTATTTTTAATAA
*
807645 ATTATTTTTATTAA
1 ATTATTTTTAATAA
807659 ATTATT
1 ATTATT
807665 AAACTATCTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
ATTATTTTTAATAA
Found at i:808164 original size:34 final size:34
Alignment explanation
Indices: 808113--808177 Score: 80
Period size: 34 Copynumber: 1.9 Consensus size: 34
808103 TATATAAATT
*
808113 ATAAATTTATAATTTTAT-TAAATTTTTATTATTA
1 ATAAATTAATAATTTTATATAAA-TTTTATTATTA
*
808147 ATAAATTAATTAA-TTTATATTAATTTTATTA
1 ATAAATTAA-TAATTTTATATAAATTTTATTA
808178 AATAATTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
34 21 0.78
35 6 0.22
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (34 bp):
ATAAATTAATAATTTTATATAAATTTTATTATTA
Found at i:808332 original size:22 final size:22
Alignment explanation
Indices: 808293--808352 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
808283 CTTAACGAAG
*
808293 TTAAT-ATAAATAACTTAATTTA
1 TTAATAATAAA-AATTTAATTTA
808315 TTAATAATAAAAATTTAATTTA
1 TTAATAATAAAAATTTAATTTA
* *
808337 TGAA-ATTAAAAATTTA
1 TTAATAATAAAAATTTA
808353 CGATTCACAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
21 11 0.32
22 18 0.53
23 5 0.15
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (22 bp):
TTAATAATAAAAATTTAATTTA
Found at i:808586 original size:23 final size:22
Alignment explanation
Indices: 808554--808596 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
808544 ATTTTTAACC
*
808554 AAATATTTTATAATAAATAAAGA
1 AAATAATTTATAA-AAATAAAGA
*
808577 AAATAATTTATTAAAATAAA
1 AAATAATTTATAAAAATAAA
808597 ACCTATTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (22 bp):
AAATAATTTATAAAAATAAAGA
Found at i:809211 original size:2 final size:2
Alignment explanation
Indices: 809204--809241 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
809194 TCTCTAATGA
809204 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
809242 AAGGTTGAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:810144 original size:2 final size:2
Alignment explanation
Indices: 810139--810175 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
810129 AAAATAAAAT
810139 TA TA 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 TA TA T
810176 CCAATCCATC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:813996 original size:5 final size:5
Alignment explanation
Indices: 813988--814015 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
813978 GAAAGAACAG
813988 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
814016 GGAAAATGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:814021 original size:15 final size:15
Alignment explanation
Indices: 813986--814022 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
813976 AAGAAAGAAC
813986 AGAAAATAAAATAAA
1 AGAAAATAAAATAAA
*
814001 ATAAAATAAAATAAA
1 AGAAAATAAAATAAA
*
814016 GGAAAAT
1 AGAAAAT
814023 GCAAGCTGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (15 bp):
AGAAAATAAAATAAA
Found at i:819475 original size:16 final size:18
Alignment explanation
Indices: 819423--819483 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 18
819413 TAATTTATAT
819423 TTATTATATTATTAAAATA
1 TTATT-TATTATTAAAATA
819442 TTATTT-TTATATAAAAATA
1 TTATTTATTAT-T-AAAATA
819461 TT-TTTATTATT-AAATA
1 TTATTTATTATTAAAATA
*
819477 ATATTTA
1 TTATTTA
819484 ATTAAAAATA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
16 6 0.16
17 8 0.22
18 6 0.16
19 17 0.46
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTATTTATTATTAAAATA
Found at i:820905 original size:3 final size:3
Alignment explanation
Indices: 820897--820921 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
820887 CTCTTTTTTC
820897 TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
820922 TAAATCCTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:822975 original size:2 final size:2
Alignment explanation
Indices: 822968--822992 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
822958 ATGTGATAAT
822968 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 T
822993 CAAAGTCCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:823290 original size:20 final size:20
Alignment explanation
Indices: 823262--823351 Score: 66
Period size: 20 Copynumber: 4.7 Consensus size: 20
823252 TAAATACCAT
*
823262 AATATTATAAATATAATATA
1 AATAATATAAATATAATATA
*
823282 AATAATATAAATACACA-ATA
1 AATAATATAAATATA-ATATA
*
823302 AA-ATATATAAATATATTA-A
1 AATA-ATATAAATATAATATA
* *
823321 AAT-TTATATGATATAATATA
1 AATAATATA-AATATAATATA
823341 AA-AA-ATAAATA
1 AATAATATAAATA
823352 AAAAAACCTC
Statistics
Matches: 54, Mismatches: 9, Indels: 16
0.68 0.11 0.20
Matches are distributed among these distances:
18 7 0.13
19 14 0.26
20 32 0.59
21 1 0.02
ACGTcount: A:0.62, C:0.02, G:0.01, T:0.34
Consensus pattern (20 bp):
AATAATATAAATATAATATA
Found at i:825760 original size:26 final size:26
Alignment explanation
Indices: 825707--825762 Score: 69
Period size: 28 Copynumber: 2.1 Consensus size: 26
825697 ACTCATATTT
*
825707 AATATATATTTTTAATATAAATATAAA
1 AATATATATTTTTAATAT-AATAAAAA
*
825734 AATATAATTTTTTTAATAT-ATAAAAA
1 AATAT-ATATTTTTAATATAATAAAAA
825760 AAT
1 AAT
825763 TAAATATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 9 0.35
27 5 0.19
28 12 0.46
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (26 bp):
AATATATATTTTTAATATAATAAAAA
Found at i:825780 original size:14 final size:14
Alignment explanation
Indices: 825761--825804 Score: 56
Period size: 13 Copynumber: 3.3 Consensus size: 14
825751 ATATAAAAAA
825761 ATTAAATATATTAT
1 ATTAAATATATTAT
825775 ATTAAATATA-TAT
1 ATTAAATATATTAT
* *
825788 ATT-TATATATAAT
1 ATTAAATATATTAT
825801 ATTA
1 ATTA
825805 TATTTAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
12 5 0.19
13 11 0.42
14 10 0.38
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
ATTAAATATATTAT
Found at i:825809 original size:18 final size:19
Alignment explanation
Indices: 825766--825810 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
825756 AAAAAATTAA
825766 ATATA-TTATATTAAATAT
1 ATATATTTATATTAAATAT
825784 ATATATTTATA-TATAATAT
1 ATATATTTATATTA-AATAT
825803 -TATATTTA
1 ATATATTTA
825811 AATTCATGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 15 0.60
19 10 0.40
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
ATATATTTATATTAAATAT
Found at i:826488 original size:14 final size:15
Alignment explanation
Indices: 826448--826489 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 15
826438 AAAAAATAAT
826448 AAATTTATATAATATA
1 AAATTTATAT-ATATA
*
826464 AATATTAATATAT-TA
1 AA-ATTTATATATATA
826479 AAATTTATATA
1 AAATTTATATA
826490 AAATTATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 8 0.35
15 4 0.17
16 4 0.17
17 7 0.30
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AAATTTATATATATA
Found at i:826513 original size:15 final size:16
Alignment explanation
Indices: 826442--826515 Score: 61
Period size: 15 Copynumber: 4.8 Consensus size: 16
826432 TCACGAAAAA
826442 AATAATAA-ATTTATAT
1 AATAATAATA-TTATAT
826458 AAT-ATAAATATTAATAT
1 AATAAT-AATATT-ATAT
*
826475 ATTAA-AAT-TTATAT
1 AATAATAATATTATAT
*
826489 AA-AATTATATTATA-
1 AATAATAATATTATAT
826503 AATAATAATATTA
1 AATAATAATATTA
826516 AAATTTATAT
Statistics
Matches: 47, Mismatches: 4, Indels: 15
0.71 0.06 0.23
Matches are distributed among these distances:
13 2 0.04
14 9 0.19
15 18 0.38
16 10 0.21
17 7 0.15
18 1 0.02
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
AATAATAATATTATAT
Found at i:827523 original size:2 final size:2
Alignment explanation
Indices: 827516--827542 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
827506 GTGATTGATT
827516 GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA G
827543 TTAAGTTCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:828024 original size:3 final size:3
Alignment explanation
Indices: 828016--828056 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
828006 TTACTACAAT
828016 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
828057 TGAGTTGGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:828148 original size:20 final size:20
Alignment explanation
Indices: 828123--828164 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
828113 TCACACAAGT
828123 TTAGGATCGTATTTATGAAA
1 TTAGGATCGTATTTATGAAA
*
828143 TTAGGATCTTATTTATGAAA
1 TTAGGATCGTATTTATGAAA
828163 TT
1 TT
828165 CGGACAATTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.05, G:0.17, T:0.45
Consensus pattern (20 bp):
TTAGGATCGTATTTATGAAA
Found at i:835597 original size:21 final size:21
Alignment explanation
Indices: 835573--835613 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
835563 ATATTTAACG
835573 TATCATATTTTATTGAATTAT
1 TATCATATTTTATTGAATTAT
835594 TATCATATTTTATTGAATTA
1 TATCATATTTTATTGAATTA
835614 AAACTATCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.56
Consensus pattern (21 bp):
TATCATATTTTATTGAATTAT
Found at i:835697 original size:21 final size:21
Alignment explanation
Indices: 835670--835735 Score: 61
Period size: 20 Copynumber: 3.3 Consensus size: 21
835660 TGAATAAATG
*
835670 TAATAAAATT-TATATAA-TA
1 TAATAAAATTAAATATAATTA
*
835689 TATATTAAATTAAATATAATTA
1 TA-ATAAAATTAAATATAATTA
*
835711 TAATAAAA-TAAAAAT-ATTA
1 TAATAAAATTAAATATAATTA
835730 -AATAAA
1 TAATAAA
835736 TACATAAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
18 6 0.15
19 6 0.15
20 13 0.32
21 11 0.28
22 4 0.10
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
TAATAAAATTAAATATAATTA
Found at i:835698 original size:20 final size:20
Alignment explanation
Indices: 835681--835736 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
835671 AATAAAATTT
*
835681 ATATAATATATATTAAATTAA
1 ATATAAT-TATAATAAATTAA
*
835702 ATATAATTATAATAAAATAA
1 ATATAATTATAATAAATTAA
*
835722 AAAT-ATTA-AATAAAT
1 ATATAATTATAATAAAT
835737 ACATAAAAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
18 6 0.19
19 4 0.13
20 14 0.45
21 7 0.23
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
ATATAATTATAATAAATTAA
Found at i:836750 original size:2 final size:2
Alignment explanation
Indices: 836743--836768 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
836733 CTTTAGGAAT
836743 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
836769 CCATACATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:837194 original size:25 final size:24
Alignment explanation
Indices: 837153--837204 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 24
837143 ATTAATTATT
* *
837153 ATATTTTTATAATTAATTATGATA
1 ATATTTTTATAATTAATAATAATA
837177 ATATTTATTAT-ATATAATAATAATA
1 ATATTT-TTATAAT-TAATAATAATA
837202 ATA
1 ATA
837205 ATAAATATGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 8 0.33
25 16 0.67
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (24 bp):
ATATTTTTATAATTAATAATAATA
Found at i:838148 original size:6 final size:5
Alignment explanation
Indices: 838109--838133 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
838099 TTTGCTACTG
838109 TTTAT TTTAT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT
838134 CATTATTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTAT
Found at i:840780 original size:3 final size:3
Alignment explanation
Indices: 840772--840805 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
840762 CTTAATGGTA
840772 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
840806 ATTGTTTTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:841337 original size:27 final size:28
Alignment explanation
Indices: 841286--841351 Score: 88
Period size: 26 Copynumber: 2.5 Consensus size: 28
841276 ATATATCTAT
841286 TAAATAATTAAA-ATTTTTATATTACAA
1 TAAATAATTAAATATTTTTATATTACAA
841313 -AAATAATTAAATATTTTTA-ATTTACAA
1 TAAATAATTAAATATTTTTATA-TTACAA
841340 TAAAT--TTAAATA
1 TAAATAATTAAATA
841352 AAATACAGCC
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
26 19 0.53
27 13 0.36
28 4 0.11
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (28 bp):
TAAATAATTAAATATTTTTATATTACAA
Found at i:841551 original size:6 final size:6
Alignment explanation
Indices: 841535--841574 Score: 57
Period size: 6 Copynumber: 7.0 Consensus size: 6
841525 GTAGCTTAAG
*
841535 GAAAAA G-AAAA GAAAAA GAAAAA -AAAAA AAAAAA GAAAAA
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA
841575 CACTCGCTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
5 10 0.32
6 21 0.68
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (6 bp):
GAAAAA
Found at i:841551 original size:11 final size:11
Alignment explanation
Indices: 841535--841574 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
841525 GTAGCTTAAG
841535 GAAAAAGAAAA
1 GAAAAAGAAAA
841546 GAAAAAGAAAAA
1 GAAAAAG-AAAA
* *
841558 AAAAAAAAAAA
1 GAAAAAGAAAA
841569 GAAAAA
1 GAAAAA
841575 CACTCGCTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
11 16 0.64
12 9 0.36
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (11 bp):
GAAAAAGAAAA
Found at i:841555 original size:17 final size:17
Alignment explanation
Indices: 841535--841574 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
841525 GTAGCTTAAG
* *
841535 GAAAAAGAAAAGAAAAA
1 GAAAAAAAAAAAAAAAA
841552 GAAAAAAAAAAAAAAAA
1 GAAAAAAAAAAAAAAAA
841569 GAAAAA
1 GAAAAA
841575 CACTCGCTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (17 bp):
GAAAAAAAAAAAAAAAA
Found at i:847272 original size:49 final size:49
Alignment explanation
Indices: 847205--847300 Score: 165
Period size: 49 Copynumber: 2.0 Consensus size: 49
847195 GGCATATTGT
* * *
847205 TGCATACTTGAACTCTCAAGAATTAGAAGACCTCATTCTTGAAGATGTA
1 TGCAGACTTCAACTCTCAAGAATTAGAAGACCTCATTCTTAAAGATGTA
847254 TGCAGACTTCAACTCTCAAGAATTAGAAGACCTCATTCTTAAAGATG
1 TGCAGACTTCAACTCTCAAGAATTAGAAGACCTCATTCTTAAAGATG
847301 AAGCCATTGA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (49 bp):
TGCAGACTTCAACTCTCAAGAATTAGAAGACCTCATTCTTAAAGATGTA
Found at i:847298 original size:24 final size:24
Alignment explanation
Indices: 847222--847298 Score: 68
Period size: 24 Copynumber: 3.2 Consensus size: 24
847212 TTGAACTCTC
*
847222 AAGAATTAGAAGACCTCATTCTTG
1 AAGAATTAGAAGACCTCATTCTTA
* * * *
847246 AAG-ATGTATGCAGACTTCA-ACTCTC
1 AAGAAT-TA-GAAGACCTCATTCT-TA
847271 AAGAATTAGAAGACCTCATTCTTA
1 AAGAATTAGAAGACCTCATTCTTA
847295 AAGA
1 AAGA
847299 TGAAGCCATT
Statistics
Matches: 40, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
23 2 0.05
24 20 0.50
25 16 0.40
26 2 0.05
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (24 bp):
AAGAATTAGAAGACCTCATTCTTA
Found at i:850760 original size:17 final size:19
Alignment explanation
Indices: 850726--850771 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
850716 ATATAGATAT
850726 AAAATTTTAAATATATTAA
1 AAAATTTTAAATATATTAA
850745 AAAATTTTAAA-A-ATTAA
1 AAAATTTTAAATATATTAA
850762 AAAATATTTA
1 AAAAT-TTTA
850772 TTTAAATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
17 10 0.38
18 5 0.19
19 11 0.42
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
AAAATTTTAAATATATTAA
Found at i:853559 original size:2 final size:2
Alignment explanation
Indices: 853552--853577 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
853542 CTGGTTGCTT
853552 CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA
853578 TATATATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:857607 original size:18 final size:17
Alignment explanation
Indices: 857568--857633 Score: 54
Period size: 17 Copynumber: 4.1 Consensus size: 17
857558 AAATATCTCG
*
857568 AAATTTATAT-AAT-TT
1 AAATTTATATAAATATA
857583 AAA-TTAT-TAATATATTA
1 AAATTTATATAA-ATA-TA
857600 AAATTTATATAAATATA
1 AAATTTATATAAATATA
857617 AAATATT-T-TAAATATA
1 AAAT-TTATATAAATATA
857633 A
1 A
857634 TTATAATATA
Statistics
Matches: 43, Mismatches: 1, Indels: 13
0.75 0.02 0.23
Matches are distributed among these distances:
13 1 0.02
14 5 0.12
15 5 0.12
16 9 0.21
17 11 0.26
18 9 0.21
19 3 0.07
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AAATTTATATAAATATA
Found at i:857648 original size:20 final size:20
Alignment explanation
Indices: 857611--857665 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 20
857601 AATTTATATA
*
857611 AATATAAAATATTTTAAA-TAT
1 AATATAAAATA--ATAAATTAT
*
857632 AATTATAATATAATAAATTAT
1 AA-TATAAAATAATAAATTAT
857653 AATATAAAATAAT
1 AATATAAAATAAT
857666 TATACAAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 14 0.48
21 7 0.24
22 8 0.28
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
AATATAAAATAATAAATTAT
Found at i:857652 original size:15 final size:16
Alignment explanation
Indices: 857627--857669 Score: 70
Period size: 15 Copynumber: 2.8 Consensus size: 16
857617 AAATATTTTA
857627 AATATAATTATAATAT
1 AATATAATTATAATAT
857643 AATA-AATTATAATAT
1 AATATAATTATAATAT
*
857658 AAAATAATTATA
1 AATATAATTATA
857670 CAAATTATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 14 0.56
16 11 0.44
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
AATATAATTATAATAT
Found at i:857669 original size:26 final size:26
Alignment explanation
Indices: 857627--857683 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
857617 AAATATTTTA
* *
857627 AATATAATTATAATATAATAAATTA-T
1 AATATAATAATAATAT-ACAAATTATT
857653 AATATAA-AATAATTATACAAATTATT
1 AATATAATAATAA-TATACAAATTATT
857679 AATAT
1 AATAT
857684 TAATGATCAG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 11 0.41
26 16 0.59
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (26 bp):
AATATAATAATAATATACAAATTATT
Found at i:860043 original size:39 final size:38
Alignment explanation
Indices: 860002--860076 Score: 98
Period size: 41 Copynumber: 1.9 Consensus size: 38
859992 ATGATCTATA
860002 TTTA-TTATATTATAATTGTGTCATATTGTACATTAAATAT
1 TTTATTTATATTATAATTGTGT-A-ATTGTA-ATTAAATAT
* *
860042 TTTATTTATGTTATATTTGTGTAATTGTAATTAAA
1 TTTATTTATATTATAATTGTGTAATTGTAATTAAA
860077 ATCATCCAGG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
38 6 0.19
39 6 0.19
40 5 0.16
41 15 0.47
ACGTcount: A:0.33, C:0.03, G:0.09, T:0.55
Consensus pattern (38 bp):
TTTATTTATATTATAATTGTGTAATTGTAATTAAATAT
Found at i:864844 original size:3 final size:3
Alignment explanation
Indices: 864779--864824 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
864769 AGGAAATCAT
864779 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
864825 CAACAACAAC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:865349 original size:16 final size:16
Alignment explanation
Indices: 865322--865357 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 16
865312 GGATTTAAAA
865322 TTTTTCCGTCTTGTTTT
1 TTTTTCCGTCTT-TTTT
865339 TTTTTCC-TCTTTTTT
1 TTTTTCCGTCTTTTTT
865354 TTTT
1 TTTT
865358 GGGATTACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 8 0.42
16 4 0.21
17 7 0.37
ACGTcount: A:0.00, C:0.17, G:0.06, T:0.78
Consensus pattern (16 bp):
TTTTTCCGTCTTTTTT
Found at i:865640 original size:14 final size:14
Alignment explanation
Indices: 865602--865641 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
865592 TATTTAAATA
*
865602 TATTATATTAATTT
1 TATTATATTTATTT
865616 TATTATA-TTATTT
1 TATTATATTTATTT
*
865629 TTTTATATTTATT
1 TATTATATTTATT
865642 AAACATACGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
TATTATATTTATTT
Done.