Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167982.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_24, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 18142777
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 63000 characters in sequence are not A, C, G, or T
File 47 of 84
Found at i:10831702 original size:36 final size:36
Alignment explanation
Indices: 10831627--10831708 Score: 105
Period size: 36 Copynumber: 2.2 Consensus size: 36
10831617 ATAAAATATG
10831627 AAAATAATATTTTAAATTATTAAAAATATTCATTTTT
1 AAAATAATATTTTAAATTATT-AAAATATTCATTTTT
* *
10831664 AAAATAATATTATTATATTATT-ATATATT-ATTTATT
1 AAAATAATATT-TTAAATTATTAAAATATTCATTT-TT
10831700 AAAATAATA
1 AAAATAATA
10831709 AAAATATTGT
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
35 4 0.10
36 17 0.41
37 11 0.27
38 9 0.22
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (36 bp):
AAAATAATATTTTAAATTATTAAAATATTCATTTTT
Found at i:10831748 original size:39 final size:39
Alignment explanation
Indices: 10831653--10831748 Score: 97
Period size: 39 Copynumber: 2.5 Consensus size: 39
10831643 TTATTAAAAA
* * * * *
10831653 TATTCATTTTTAAAATAATATTATTATATTATTATATAT
1 TATTTATTATTAAAATAAAAATATTATATTAATATATAT
* *
10831692 TATTTATTA-AAATAATAAAAATATTGT-TTAATATATCAT
1 TATTTATTATTAA-AATAAAAATATTATATTAATATAT-AT
10831731 TATTTATTATTAAAATAA
1 TATTTATTATTAAAATAA
10831749 TAACATAATA
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
38 10 0.22
39 34 0.74
40 2 0.04
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.51
Consensus pattern (39 bp):
TATTTATTATTAAAATAAAAATATTATATTAATATATAT
Found at i:10831810 original size:25 final size:25
Alignment explanation
Indices: 10831746--10831810 Score: 71
Period size: 24 Copynumber: 2.7 Consensus size: 25
10831736 ATTATTAAAA
* * *
10831746 TAATAACA-TAATAGTATTTATTTT
1 TAATAACATTAAAAATATTTATGTT
* *
10831770 TGA-AATATTAAAAATATTTATGTT
1 TAATAACATTAAAAATATTTATGTT
10831794 TAATAACATTAAAAATA
1 TAATAACATTAAAAATA
10831811 GAAATATTTA
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
23 3 0.09
24 17 0.53
25 12 0.38
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.43
Consensus pattern (25 bp):
TAATAACATTAAAAATATTTATGTT
Found at i:10832050 original size:19 final size:20
Alignment explanation
Indices: 10832028--10832065 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
10832018 TTTATGTAAA
10832028 ATTAA-ATAAAAATATTTTT
1 ATTAATATAAAAATATTTTT
*
10832047 ATTAATATAATAATATTTT
1 ATTAATATAAAAATATTTT
10832066 AGGTTAGGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
ATTAATATAAAAATATTTTT
Found at i:10832239 original size:22 final size:22
Alignment explanation
Indices: 10832211--10832257 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
10832201 ATTTTAGAAA
* *
10832211 AATAAGTTATTTTTTATTTATC
1 AATAAGTTATTTTTCATTGATC
10832233 AATAAGTTATTTTTCATTGATC
1 AATAAGTTATTTTTCATTGATC
10832255 AAT
1 AAT
10832258 TAATTTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.53
Consensus pattern (22 bp):
AATAAGTTATTTTTCATTGATC
Found at i:10833326 original size:128 final size:128
Alignment explanation
Indices: 10833164--10833419 Score: 494
Period size: 128 Copynumber: 2.0 Consensus size: 128
10833154 GACAAACGTA
10833164 GTGCAAACATAAGCTAGCTTTGCATGCATTTACATATGATGGAACAAACTTTGCTGTCTGCTATA
1 GTGCAAACATAAGCTAGCTTTGCATGCATTTACATATGATGGAACAAACTTTGCTGTCTGCTATA
*
10833229 CAATATGTTTTTACGTGAAACACATGTTTGAAGACATACCTTCAACAATCACTGCTAAAAGTT
66 CAATATGTTTTTACATGAAACACATGTTTGAAGACATACCTTCAACAATCACTGCTAAAAGTT
*
10833292 GTGCAAACATAAGCTAGCTTTGCATGCATTTACATATGATGGAACAAACTTTGCTGTCTGCTGTA
1 GTGCAAACATAAGCTAGCTTTGCATGCATTTACATATGATGGAACAAACTTTGCTGTCTGCTATA
10833357 CAATATGTTTTTACATGAAACACATGTTTGAAGACATACCTTCAACAATCACTGCTAAAAGTT
66 CAATATGTTTTTACATGAAACACATGTTTGAAGACATACCTTCAACAATCACTGCTAAAAGTT
10833420 ATAGACTATG
Statistics
Matches: 126, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
128 126 1.00
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.32
Consensus pattern (128 bp):
GTGCAAACATAAGCTAGCTTTGCATGCATTTACATATGATGGAACAAACTTTGCTGTCTGCTATA
CAATATGTTTTTACATGAAACACATGTTTGAAGACATACCTTCAACAATCACTGCTAAAAGTT
Found at i:10835860 original size:8 final size:8
Alignment explanation
Indices: 10835849--10835875 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
10835839 TATAACTATA
10835849 GTATGTAC
1 GTATGTAC
10835857 GTATGTAC
1 GTATGTAC
10835865 GTATGTAC
1 GTATGTAC
10835873 GTA
1 GTA
10835876 CTTAATAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.26, C:0.11, G:0.26, T:0.37
Consensus pattern (8 bp):
GTATGTAC
Found at i:10837665 original size:14 final size:14
Alignment explanation
Indices: 10837636--10837681 Score: 67
Period size: 14 Copynumber: 3.4 Consensus size: 14
10837626 ATAAATTTTA
*
10837636 TATAATATTA-AAT
1 TATAATATAATAAT
*
10837649 TATAATTTAATAAT
1 TATAATATAATAAT
10837663 TATAATATAATAAT
1 TATAATATAATAAT
10837677 TATAA
1 TATAA
10837682 AGAATATACT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
13 8 0.28
14 21 0.72
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
TATAATATAATAAT
Found at i:10839553 original size:13 final size:13
Alignment explanation
Indices: 10839535--10839560 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10839525 CATTCTACTA
10839535 CTTTAATGTTTTT
1 CTTTAATGTTTTT
10839548 CTTTAATGTTTTT
1 CTTTAATGTTTTT
10839561 AAAGAACATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.08, G:0.08, T:0.69
Consensus pattern (13 bp):
CTTTAATGTTTTT
Found at i:10849953 original size:1 final size:1
Alignment explanation
Indices: 10849947--10849971 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
10849937 ATACACACAC
10849947 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
10849972 CTGAAATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:10856492 original size:2 final size:2
Alignment explanation
Indices: 10856485--10856525 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
10856475 TAATCTCTTA
*
10856485 CT CT CT CT CT CT CT CT CT CT -T CG 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 CT CT
10856526 ATATATATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.00, C:0.49, G:0.02, T:0.49
Consensus pattern (2 bp):
CT
Found at i:10860869 original size:232 final size:225
Alignment explanation
Indices: 10860427--10860859 Score: 520
Period size: 232 Copynumber: 1.9 Consensus size: 225
10860417 TTGAACTTTT
* *
10860427 AATAAATCATTTACGAATATGTTTAATTTTTATTTATTTATATTTGACTATTAAATTTAATAAAC
1 AATAAATCATTTACGAATATATTTAATTTTTATTTATTTATATTTGACTATTAAACTTAATAAAC
* * * * *
10860492 AATCGTAAATAGTATTTTTATATTTATTTATTAAATGAATTAAATACAAATAGAGATCTAACAAA
66 AATCATAAATAATATTTTTACATTCATTTATTAAACGAATTAAATACAAATAGAGA-CT-----A
** * * * *
10860557 GGTCATTTGATTTGTTTATGTTCACAAATAAATTCATTTAAAAATCATTTAAAATTTATTTATTT
125 GGTCATTTGATTCATTTATATTCACAAACAAACTCATTTAAAAATCATTTAAAACTTATTTATTT
10860622 AAGATGTGTTTATATTCATTAATATTCGTTTA-TATTC
190 AAGATGTGTTTATATT--TTAATATTCGTTTATTATTC
* * *
10860659 AATAAATCATTTATGAATATATTTAATTTTTATTTGTTTATATTT-ATCTATTAAGCTTAATAAA
1 AATAAATCATTTACGAATATATTTAATTTTTATTTATTTATATTTGA-CTATTAAACTTAATAAA
*
10860723 CAATCATAAATAATATTTTTACATTCATTTATTAAACG-ATTCAAATACAAATA-A-A-T-GTTC
65 CAATCATAAATAATATTTTTACATTCATTTATTAAACGAATT-AAATACAAATAGAGACTAGGTC
* ** * * *
10860783 ATTTGATTCATTTATATTTATGAACAAACTCATTTAAAAATCATTTAAAACTTGTTTATTTATGG
129 ATTTGATTCATTTATATTCACAAACAAACTCATTTAAAAATCATTTAAAACTTATTTATTTAAGA
10860848 TGTGTTTATATT
194 TGTGTTTATATT
10860860 CATTTATATT
Statistics
Matches: 176, Mismatches: 23, Indels: 14
0.83 0.11 0.07
Matches are distributed among these distances:
222 68 0.39
228 1 0.01
230 1 0.01
231 5 0.03
232 101 0.57
ACGTcount: A:0.39, C:0.08, G:0.07, T:0.47
Consensus pattern (225 bp):
AATAAATCATTTACGAATATATTTAATTTTTATTTATTTATATTTGACTATTAAACTTAATAAAC
AATCATAAATAATATTTTTACATTCATTTATTAAACGAATTAAATACAAATAGAGACTAGGTCAT
TTGATTCATTTATATTCACAAACAAACTCATTTAAAAATCATTTAAAACTTATTTATTTAAGATG
TGTTTATATTTTAATATTCGTTTATTATTC
Found at i:10861017 original size:14 final size:15
Alignment explanation
Indices: 10860980--10861018 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
10860970 GTTTATGATC
10860980 TATTTATT-TAAATT
1 TATTTATTATAAATT
10860994 TATTTGATTAT-AATT
1 TATTT-ATTATAAATT
10861009 TATTTATTAT
1 TATTTATTAT
10861019 TCATGAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 10 0.43
15 12 0.52
16 1 0.04
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (15 bp):
TATTTATTATAAATT
Found at i:10861049 original size:14 final size:14
Alignment explanation
Indices: 10861027--10861060 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
10861017 ATTCATGAAT
* *
10861027 ATATTTATTTATAC
1 ATATATATTTATAA
10861041 ATATATATTTATAA
1 ATATATATTTATAA
10861055 ATATAT
1 ATATAT
10861061 TCGTTTAATA
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:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (14 bp):
ATATATATTTATAA
Found at i:10861090 original size:23 final size:23
Alignment explanation
Indices: 10861045--10861092 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
10861035 TTATACATAT
* * *
10861045 ATATTTATAAATATATTCGTTTA
1 ATATTCATAAATAAATTCATTTA
*
10861068 ATATTCATAAATAAATTTATTTA
1 ATATTCATAAATAAATTCATTTA
10861091 AT
1 AT
10861093 CAAATCTAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (23 bp):
ATATTCATAAATAAATTCATTTA
Found at i:10862761 original size:29 final size:29
Alignment explanation
Indices: 10862707--10862765 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
10862697 TATTTTTATT
* *
10862707 TTTTATTATATAAAAAATTAATTAATAAA
1 TTTTATTATATAAAAAATAAACTAATAAA
10862736 TTTTATTATTATAAAAAA-AAACTAATAAA
1 TTTTATTA-TATAAAAAATAAACTAATAAA
10862765 T
1 T
10862766 CAATAAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 18 0.67
30 9 0.33
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (29 bp):
TTTTATTATATAAAAAATAAACTAATAAA
Found at i:10862899 original size:17 final size:16
Alignment explanation
Indices: 10862879--10862933 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 16
10862869 AATATTTAAA
10862879 TTTTTATTATATATAAT
1 TTTTTATTATA-ATAAT
* *
10862896 TTTTTATT-TAAAAAAA
1 TTTTTATTAT-AATAAT
10862912 TTTTTA--ATAATAAT
1 TTTTTATTATAATAAT
10862926 TTTTTATT
1 TTTTTATT
10862934 CTCATTACAA
Statistics
Matches: 30, Mismatches: 4, Indels: 9
0.70 0.09 0.21
Matches are distributed among these distances:
14 10 0.33
15 1 0.03
16 10 0.33
17 9 0.30
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TTTTTATTATAATAAT
Found at i:10862915 original size:16 final size:17
Alignment explanation
Indices: 10862876--10862917 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
10862866 TTAAATATTT
* *
10862876 AAATTTTTATTATATAT
1 AAATTTTTATTATAAAA
*
10862893 AATTTTTTATT-TAAAA
1 AAATTTTTATTATAAAA
10862909 AAATTTTTA
1 AAATTTTTA
10862918 ATAATAATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 11 0.52
17 10 0.48
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
AAATTTTTATTATAAAA
Found at i:10864840 original size:40 final size:40
Alignment explanation
Indices: 10864785--10864863 Score: 158
Period size: 40 Copynumber: 2.0 Consensus size: 40
10864775 TATCGGAGAT
10864785 AGAATTTTCATGCTAATTGTTATGTTGTTCCCATTACAAC
1 AGAATTTTCATGCTAATTGTTATGTTGTTCCCATTACAAC
10864825 AGAATTTTCATGCTAATTGTTATGTTGTTCCCATTACAA
1 AGAATTTTCATGCTAATTGTTATGTTGTTCCCATTACAA
10864864 ACCTTCTAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.28, C:0.16, G:0.13, T:0.43
Consensus pattern (40 bp):
AGAATTTTCATGCTAATTGTTATGTTGTTCCCATTACAAC
Found at i:10872887 original size:17 final size:16
Alignment explanation
Indices: 10872845--10872889 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 16
10872835 TAAGTAGATT
10872845 TTAATCCAATTAATTAA
1 TTAAT-CAATTAATTAA
10872862 TTAAT---TTAATTAA
1 TTAATCAATTAATTAA
10872875 TTAATCGAATTAATT
1 TTAATC-AATTAATT
10872890 TTGATTAACT
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
13 13 0.54
17 11 0.46
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.47
Consensus pattern (16 bp):
TTAATCAATTAATTAA
Found at i:10872994 original size:28 final size:28
Alignment explanation
Indices: 10872958--10873013 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
10872948 AAATTGAATT
* * *
10872958 ATCTAAAATTTTAATTAAAATATAACATA
1 ATCTAAAATATAAATTAAAAAAT-ACATA
10872987 ATCT-AAATATAAATTAAAAAATACATA
1 ATCTAAAATATAAATTAAAAAATACATA
10873014 TTTAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 5 0.21
28 15 0.62
29 4 0.17
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (28 bp):
ATCTAAAATATAAATTAAAAAATACATA
Found at i:10873174 original size:325 final size:329
Alignment explanation
Indices: 10872408--10873392 Score: 1485
Period size: 325 Copynumber: 3.0 Consensus size: 329
10872398 GGCAGGCCTA
*
10872408 ACAATCCTGTA-CCATCAAATTCAATAAAACAAAAAATAAAATAAAATATTAATAACTAGGGTTC
1 ACAATCCTGTACCCATCAAATTCAAT-AAACAAAAAAT-AAATAAAATATTAACAACTAGGGTTC
10872472 ACTTGCAAGCAAATTTAGAAGTGTTTATAAGTAGATTTTAATCC-----ATTAATTAATTAATTA
64 ACTTGCAAGCAAATTTAGAAGTGTTTATAAGTAGATTTTAATCCAATTAATTAATTAATTAATTA
*
10872532 ATTAATCGAATTAATTTTGATTAATTAATAAAAATGATTTTAAAATTTTTTTTATTTTTTTATTA
129 ATTAATCGAATTAATTTTGATTAATTAATAAAAATGA-TTTAAAAATTTTTTTA-TTTTTTATTA
10872597 ATTCGTATC-AAAATCGAATTATCTAAAATTTTAATTAAAATATAATATAATCTAAATATAAAAT
192 ATTCGTATCAAAAATCGAATTATCTAAAATTTTAATTAAAATATAATATAATCTAAATAT-AAAT
* *
10872661 CAAAAATACATAAAATATATCATTTAGTTTTATAAGTTAGTGAAAAATTTTAATAAAATATTTTT
256 -----ATA-A-AAAATATATCATTTAATTTTATAAGTTAGTGAAAATTTTTAATAAAATATTTTT
10872726 ATATTTAAATAAAAAT
314 ATATTTAAATAAAAAT
10872742 ACAATCCTGTACCCATCAAATTCAATAAAAACAAAAAATAAAATAAAATATTAACAACTAGGGTT
1 ACAATCCTGTACCCATCAAATTCAAT--AAACAAAAAAT-AAATAAAATATTAACAACTAGGGTT
10872807 CACTTGCAAGCAAATTTAGAAGTGTTTATAAGTAGATTTTAATCCAATTAATTAATTAATTTAAT
63 CACTTGCAAGCAAATTTAGAAGTGTTTATAAGTAGATTTTAATCCAATTAATTAATTAA-TTAAT
* *
10872872 TAATTAATCGAATTAATTTTGATTAACTAATAAAAATGATTTAAAAAATTTTTTATTTTTTATTA
127 TAATTAATCGAATTAATTTTGATTAATTAATAAAAATGATTTAAAAATTTTTTTATTTTTTATTA
* * *
10872937 ACTCGTATCAAAAATTGAATTATCTAAAATTTTAATTAAAATATAACATAATCTAAATATAAAT-
192 ATTCGTATCAAAAATCGAATTATCTAAAATTTTAATTAAAATATAATATAATCTAAATATAAATA
*
10873001 TAAAAAATACAT-ATTTAATTTTATAAGTTAGTGAAAATTTTTAATAAAATATTTTTATATTTAA
257 TAAAAAATATATCATTTAATTTTATAAGTTAGTGAAAATTTTTAATAAAATATTTTTATATTTAA
10873065 ATAAAAAT
322 ATAAAAAT
* *
10873073 ACAATCATGTACCCATCAAATTCAAT-AA-AAAAAAT-AATAAAATATTAACAACCAGGGTTCAC
1 ACAATCCTGTACCCATCAAATTCAATAAACAAAAAATAAATAAAATATTAACAACTAGGGTTCAC
**
10873135 TTGCATTCAAATTTAGAAGTGTTTATAAGTAGATTTTAATCCAATTAATTAATTTAATTAATTAA
66 TTGCAAGCAAATTTAGAAGTGTTTATAAGTAGATTTTAATCCAATTAATTAA-TTAATTAATTAA
* * * **
10873200 TTAATCGAATTATTTTTCATTAATTAAT-AAAATAATTTTTAAATTTTTTTATTTTTTATTAATT
130 TTAATCGAATTAATTTTGATTAATTAATAAAAATGATTTAAAAATTTTTTTATTTTTTATTAATT
* * * * * *
10873264 CGTATAAAAAATCGAATTATCTAAAACTTTAATGAAAATATAATATGATTTAAATA-AAATATAT
195 CGTATCAAAAATCGAATTATCTAAAATTTTAATTAAAATATAATATAATCTAAATATAAATATAA
*
10873328 AAAATATATCATTTAATTTTATAAGTTAGCGAAAATTTTTAATAAAATATTTTTATATTTAAATA
260 AAAATATATCATTTAATTTTATAAGTTAGTGAAAATTTTTAATAAAATATTTTTATATTTAAATA
10873393 TTTTATTAAA
Statistics
Matches: 607, Mismatches: 32, Indels: 33
0.90 0.05 0.05
Matches are distributed among these distances:
323 4 0.01
324 90 0.15
325 163 0.27
326 4 0.01
327 7 0.01
328 2 0.00
331 83 0.14
332 8 0.01
333 1 0.00
334 13 0.02
335 14 0.02
336 82 0.14
340 22 0.04
341 71 0.12
342 43 0.07
ACGTcount: A:0.47, C:0.08, G:0.06, T:0.40
Consensus pattern (329 bp):
ACAATCCTGTACCCATCAAATTCAATAAACAAAAAATAAATAAAATATTAACAACTAGGGTTCAC
TTGCAAGCAAATTTAGAAGTGTTTATAAGTAGATTTTAATCCAATTAATTAATTAATTAATTAAT
TAATCGAATTAATTTTGATTAATTAATAAAAATGATTTAAAAATTTTTTTATTTTTTATTAATTC
GTATCAAAAATCGAATTATCTAAAATTTTAATTAAAATATAATATAATCTAAATATAAATATAAA
AAATATATCATTTAATTTTATAAGTTAGTGAAAATTTTTAATAAAATATTTTTATATTTAAATAA
AAAT
Found at i:10873201 original size:13 final size:13
Alignment explanation
Indices: 10873177--10873201 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10873167 ATTTTAATCC
10873177 AATTAATTAATTT
1 AATTAATTAATTT
10873190 AATTAATTAATT
1 AATTAATTAATT
10873202 AATCGAATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
AATTAATTAATTT
Found at i:10873210 original size:17 final size:17
Alignment explanation
Indices: 10873177--10873211 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
10873167 ATTTTAATCC
**
10873177 AATTAATTAATTTAATT
1 AATTAATTAATCGAATT
10873194 AATTAATTAATCGAATT
1 AATTAATTAATCGAATT
10873211 A
1 A
10873212 TTTTTCATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (17 bp):
AATTAATTAATCGAATT
Found at i:10873237 original size:23 final size:23
Alignment explanation
Indices: 10873195--10873239 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
10873185 AATTTAATTA
** *
10873195 ATTAATTAATCGAATTATTTTTC
1 ATTAATTAATAAAATAATTTTTC
10873218 ATTAATTAATAAAATAATTTTT
1 ATTAATTAATAAAATAATTTTT
10873240 AAATTTTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.51
Consensus pattern (23 bp):
ATTAATTAATAAAATAATTTTTC
Found at i:10873399 original size:13 final size:13
Alignment explanation
Indices: 10873383--10873448 Score: 55
Period size: 12 Copynumber: 5.1 Consensus size: 13
10873373 AATATTTTTA
10873383 TATTTAAATATTT
1 TATTTAAATATTT
10873396 TA-TTAAATAATTT
1 TATTTAAAT-ATTT
*
10873409 TATTTAATTTATTT
1 TATTTAA-ATATTT
* ** *
10873423 AAAATATA-ATTT
1 TATTTAAATATTT
10873435 TATTTAAATATTT
1 TATTTAAATATTT
10873448 T
1 T
10873449 TATTATTCGA
Statistics
Matches: 39, Mismatches: 10, Indels: 8
0.68 0.18 0.14
Matches are distributed among these distances:
12 14 0.36
13 13 0.33
14 11 0.28
15 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
TATTTAAATATTT
Found at i:10877541 original size:20 final size:21
Alignment explanation
Indices: 10877505--10877555 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 21
10877495 AATAATAAAA
* *
10877505 ATAAGATTAATTATTATAATT
1 ATAAAATTAATTATTATAATG
10877526 ATAAAATTAA-TATTATAATG
1 ATAAAATTAATTATTATAATG
10877546 ATAAAATTAA
1 ATAAAATTAA
10877556 ATAAATAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
20 19 0.68
21 9 0.32
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (21 bp):
ATAAAATTAATTATTATAATG
Found at i:10877563 original size:20 final size:20
Alignment explanation
Indices: 10877505--10877564 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
10877495 AATAATAAAA
* * *
10877505 ATAAGATTAATTATTATAATT
1 ATAAAATTAA-TATAATAATG
*
10877526 ATAAAATTAATATTATAATG
1 ATAAAATTAATATAATAATG
10877546 ATAAAATTAA-ATAAATAAT
1 ATAAAATTAATAT-AATAAT
10877565 AAAATATTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
19 2 0.06
20 24 0.69
21 9 0.26
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (20 bp):
ATAAAATTAATATAATAATG
Found at i:10878062 original size:30 final size:30
Alignment explanation
Indices: 10878026--10878137 Score: 143
Period size: 30 Copynumber: 4.0 Consensus size: 30
10878016 AATGGATACA
10878026 AAGTGCGATTTAATGTATATTTCGTACCGC
1 AAGTGCGATTTAATGTATATTTCGTACCGC
*
10878056 AAGTGCGATTTAATGGATA---C--A----
1 AAGTGCGATTTAATGTATATTTCGTACCGC
10878077 AAGTGCGATTTAATGTATATTTCGTACCGC
1 AAGTGCGATTTAATGTATATTTCGTACCGC
*
10878107 CAGTGCGATTTAATGTATATTTCGTACCGC
1 AAGTGCGATTTAATGTATATTTCGTACCGC
10878137 A
1 A
10878138 GCGACGCCTA
Statistics
Matches: 69, Mismatches: 4, Indels: 18
0.76 0.04 0.20
Matches are distributed among these distances:
21 18 0.26
24 1 0.01
25 1 0.01
26 1 0.01
27 1 0.01
30 47 0.68
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.35
Consensus pattern (30 bp):
AAGTGCGATTTAATGTATATTTCGTACCGC
Found at i:10878092 original size:51 final size:51
Alignment explanation
Indices: 10878016--10878121 Score: 203
Period size: 51 Copynumber: 2.1 Consensus size: 51
10878006 GTGTTTGCCA
10878016 AATGGATACAAAGTGCGATTTAATGTATATTTCGTACCGCAAGTGCGATTT
1 AATGGATACAAAGTGCGATTTAATGTATATTTCGTACCGCAAGTGCGATTT
*
10878067 AATGGATACAAAGTGCGATTTAATGTATATTTCGTACCGCCAGTGCGATTT
1 AATGGATACAAAGTGCGATTTAATGTATATTTCGTACCGCAAGTGCGATTT
10878118 AATG
1 AATG
10878122 TATATTTCGT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.33
Consensus pattern (51 bp):
AATGGATACAAAGTGCGATTTAATGTATATTTCGTACCGCAAGTGCGATTT
Found at i:10880829 original size:14 final size:14
Alignment explanation
Indices: 10880812--10880860 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
10880802 TTTAAACTCT
10880812 TAAATCTAAACCCC
1 TAAATCTAAACCCC
* *
10880826 TAAAATCCAAACCCT
1 T-AAATCTAAACCCC
*
10880841 TAAATCAAAACCCC
1 TAAATCTAAACCCC
10880855 -AAATCT
1 TAAATCT
10880861 CAAATTTTGA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
13 5 0.17
14 12 0.41
15 12 0.41
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.20
Consensus pattern (14 bp):
TAAATCTAAACCCC
Found at i:10882487 original size:19 final size:19
Alignment explanation
Indices: 10882465--10882529 Score: 67
Period size: 19 Copynumber: 3.3 Consensus size: 19
10882455 ATTTTCTTCA
10882465 TCTAAAATCATACTCTTTC
1 TCTAAAATCATACTCTTTC
* *
10882484 TCTAAAAATTCATTCTCTCTC
1 TCT-AAAA-TCATACTCTTTC
* **
10882505 TCTAAAATCAAACTAATTC
1 TCTAAAATCATACTCTTTC
10882524 TCTAAA
1 TCTAAA
10882530 GGGTATTTTA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 16 0.43
20 8 0.22
21 13 0.35
ACGTcount: A:0.37, C:0.25, G:0.00, T:0.38
Consensus pattern (19 bp):
TCTAAAATCATACTCTTTC
Found at i:10882501 original size:21 final size:20
Alignment explanation
Indices: 10882468--10882511 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
10882458 TTCTTCATCT
*
10882468 AAAATCATACTCTTTCTCTA
1 AAAATCATACTCTCTCTCTA
*
10882488 AAAATTCATTCTCTCTCTCTA
1 AAAA-TCATACTCTCTCTCTA
10882509 AAA
1 AAA
10882512 TCAAACTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (20 bp):
AAAATCATACTCTCTCTCTA
Found at i:10888834 original size:2 final size:2
Alignment explanation
Indices: 10888827--10888856 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
10888817 ATGGTTCCAA
*
10888827 AT AT AT AT AC 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
10888857 GTGTATATGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:10890761 original size:30 final size:31
Alignment explanation
Indices: 10890711--10890768 Score: 100
Period size: 30 Copynumber: 1.9 Consensus size: 31
10890701 TTTATTTTTC
*
10890711 ATTATATAATAAATTAATAAATAAATTTCTT
1 ATTATATAATAAACTAATAAATAAATTTCTT
10890742 ATTATATAA-AAACTAATAAATAAATTT
1 ATTATATAATAAACTAATAAATAAATTT
10890769 TATTTTAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 17 0.65
31 9 0.35
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.41
Consensus pattern (31 bp):
ATTATATAATAAACTAATAAATAAATTTCTT
Found at i:10891656 original size:17 final size:17
Alignment explanation
Indices: 10891620--10891733 Score: 117
Period size: 17 Copynumber: 6.7 Consensus size: 17
10891610 AAACCCCTCC
*
10891620 CATGGTTTGC-A-AGCA
1 CATGGTTTGCAACAGAA
10891635 CATGGTTTGCAACAGAA
1 CATGGTTTGCAACAGAA
*
10891652 CATGGTTT-CGAACAGCA
1 CATGGTTTGC-AACAGAA
10891669 CATGGTTTGCAACAGAA
1 CATGGTTTGCAACAGAA
* *
10891686 CATGGTTTCGAAAACAGCA
1 CATGGTTT-G-CAACAGAA
* * *
10891705 CATGATTTGTAACAAAA
1 CATGGTTTGCAACAGAA
10891722 CATGGTTTGCAA
1 CATGGTTTGCAA
10891734 GTTGCAACAG
Statistics
Matches: 82, Mismatches: 11, Indels: 10
0.80 0.11 0.10
Matches are distributed among these distances:
15 10 0.12
16 2 0.02
17 54 0.66
18 3 0.04
19 13 0.16
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.25
Consensus pattern (17 bp):
CATGGTTTGCAACAGAA
Found at i:10891672 original size:34 final size:35
Alignment explanation
Indices: 10891631--10891729 Score: 155
Period size: 34 Copynumber: 2.8 Consensus size: 35
10891621 ATGGTTTGCA
10891631 AGCACATGGTTTGCAACAGAACATGGTTTCG-AAC
1 AGCACATGGTTTGCAACAGAACATGGTTTCGAAAC
10891665 AGCACATGGTTTGCAACAGAACATGGTTTCGAAAAC
1 AGCACATGGTTTGCAACAGAACATGGTTTCG-AAAC
* * *
10891701 AGCACATGATTTGTAACAAAACATGGTTT
1 AGCACATGGTTTGCAACAGAACATGGTTT
10891730 GCAAGTTGCA
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
34 31 0.52
36 29 0.48
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.25
Consensus pattern (35 bp):
AGCACATGGTTTGCAACAGAACATGGTTTCGAAAC
Found at i:10895187 original size:28 final size:28
Alignment explanation
Indices: 10895156--10895214 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
10895146 ATTTTAATTC
* *
10895156 AAAATATAAAAATTTATTTAAATAAATA
1 AAAATATAAAAACTTATTTAAAAAAATA
*
10895184 AAAATATAAAACCTTATTTAAAAAAATA
1 AAAATATAAAAACTTATTTAAAAAAATA
10895212 AAA
1 AAA
10895215 TAGTTCATAG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (28 bp):
AAAATATAAAAACTTATTTAAAAAAATA
Found at i:10901082 original size:37 final size:37
Alignment explanation
Indices: 10901041--10901114 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
10901031 CTCCCAAGTA
10901041 AATATTGGTAAGTGGTGAAATTTCAACCATTGAACTC
1 AATATTGGTAAGTGGTGAAATTTCAACCATTGAACTC
10901078 AATATTGGTAAGTGGTGAAATTTCAACCATTGAACTC
1 AATATTGGTAAGTGGTGAAATTTCAACCATTGAACTC
10901115 TTCCCTTCCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.32
Consensus pattern (37 bp):
AATATTGGTAAGTGGTGAAATTTCAACCATTGAACTC
Found at i:10902260 original size:17 final size:17
Alignment explanation
Indices: 10902238--10902295 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
10902228 TTATTTTTAA
**
10902238 AATTATTATTATAATTT
1 AATTATTAAGATAATTT
10902255 AATTATTAAGATAATTT
1 AATTATTAAGATAATTT
* * *
10902272 TATTATTAAGGTGATTT
1 AATTATTAAGATAATTT
*
10902289 TATTATT
1 AATTATT
10902296 TATGATATGA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 36 1.00
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (17 bp):
AATTATTAAGATAATTT
Found at i:10903232 original size:12 final size:12
Alignment explanation
Indices: 10903215--10903239 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10903205 TATTTGTTTT
10903215 TAATTTAAAATA
1 TAATTTAAAATA
10903227 TAATTTAAAATA
1 TAATTTAAAATA
10903239 T
1 T
10903240 CAATATAGAA
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
TAATTTAAAATA
Found at i:10904929 original size:18 final size:19
Alignment explanation
Indices: 10904903--10904942 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
10904893 AGATGGAAGG
* *
10904903 AAAGTGTAAGGCGA-AGAA
1 AAAGAGTAAGGAGAGAGAA
10904921 AAAGAGTAAGGAGAGAGAA
1 AAAGAGTAAGGAGAGAGAA
10904940 AAA
1 AAA
10904943 AAAAAGGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.57, C:0.03, G:0.33, T:0.07
Consensus pattern (19 bp):
AAAGAGTAAGGAGAGAGAA
Found at i:10918835 original size:24 final size:23
Alignment explanation
Indices: 10918808--10918852 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
10918798 AAATTTTTTC
*
10918808 TTTTCATTTAAGAAAAATTGATTG
1 TTTTCATATAA-AAAAATTGATTG
**
10918832 TTTTTGTATAAAAAAATTGAT
1 TTTTCATATAAAAAAATTGAT
10918853 ACTGTTAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 10 0.56
24 8 0.44
ACGTcount: A:0.40, C:0.02, G:0.11, T:0.47
Consensus pattern (23 bp):
TTTTCATATAAAAAAATTGATTG
Found at i:10918978 original size:61 final size:58
Alignment explanation
Indices: 10918885--10919234 Score: 330
Period size: 61 Copynumber: 5.9 Consensus size: 58
10918875 ATTTAAGAGT
* * * * *
10918885 TTTTATTTTAAGAAAAATTGATGCTTTAAATTTTTTTTTAAAAGGTTTTTTTTTTGAAA
1 TTTTATTTTAAAAAAAATTGATACTTTTAATTTTTTTTTAAAA-ATTTTTTTTTTAAAA
* *
10918944 TTTTGATTTGAAAAAAAAATTGATACTTTTAATTTTTTTTTTAAAAAATATTTTTTATTTTAAA
1 TTTT-ATTT-TAAAAAAAATTGATACTTTTAA-TTTTTTTTT-AAAAAT-TTTTTT-TTTAAAA
* * *
10919008 TTTTGTTGTAAAAAAAATTGATACTTTTAATTTTTTTTCAAAAATTATTATTTTTTTAAAA
1 TTTTATTTTAAAAAAAATTGATACTTTTAATTTTTTTTTAAAAA-T-TT-TTTTTTTAAAA
* * * ** * *
10919069 -TTTATCTTTAAAGAAAATTGATACTTTTTATTTTTCTTCGAAAA-TATTTTTTAAAAA
1 TTTTAT-TTTAAAAAAAATTGATACTTTTAATTTTTTTTTAAAAATTTTTTTTTTAAAA
* * * * *
10919126 TTTTATTTTAAAAAAAATTGATAATTTCAA-CTTTTTTTAAAAAATATTTTTTTAAAA
1 TTTTATTTTAAAAAAAATTGATACTTTTAATTTTTTTTTAAAAATTTTTTTTTTAAAA
* * * *
10919183 TTTTATTTTCAAAAAAAATTTATATTTTTAA-TTTTTTTAAAAAATATTTTTT
1 TTTTATTTT-AAAAAAAATTGATACTTTTAATTTTTTTTTAAAAATTTTTTTT
10919235 AAATTTTTTT
Statistics
Matches: 243, Mismatches: 36, Indels: 25
0.80 0.12 0.08
Matches are distributed among these distances:
56 9 0.04
57 51 0.21
58 40 0.16
59 4 0.02
60 13 0.05
61 69 0.28
62 35 0.14
63 12 0.05
64 10 0.04
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (58 bp):
TTTTATTTTAAAAAAAATTGATACTTTTAATTTTTTTTTAAAAATTTTTTTTTTAAAA
Found at i:10919005 original size:31 final size:30
Alignment explanation
Indices: 10918970--10919235 Score: 90
Period size: 29 Copynumber: 9.0 Consensus size: 30
10918960 AAATTGATAC
10918970 TTTTAATTTTTTTTTTAAAAAATATTTTTTA
1 TTTTAA-TTTTTTTTTAAAAAATATTTTTTA
* * * **
10919001 TTTTAAATTTTGTTGTAAAAAA-AATTGATA
1 TTTT-AATTTTTTTTTAAAAAATATTTTTTA
* *
10919031 CTTTTAATTTTTTTTCAAAAATTATTATTTT-
1 -TTTTAATTTTTTTTTAAAAAATATT-TTTTA
* * * **
10919062 TTTAAAATTTATCTTTAAAGAAA-A-TTGATA
1 TTT-TAATTTTTTTTTAAA-AAATATTTTTTA
* * **
10919092 CTTTTTA-TTTTTCTTCGAAAATATTTTTTA
1 -TTTTAATTTTTTTTTAAAAAATATTTTTTA
** * * ** *
10919122 --AAAATTTTATTTTAAAAAAAATTGATAA
1 TTTTAATTTTTTTTTAAAAAATATTTTTTA
* *
10919150 TTTCAA-CTTTTTTTAAAAAATA-TTTTT-
1 TTTTAATTTTTTTTTAAAAAATATTTTTTA
** * * *
10919177 TTAAAATTTTATTTTCAAAAAA-AATTTATA
1 TTTTAATTTT-TTTTTAAAAAATATTTTTTA
10919207 TTTTTAA--TTTTTTTAAAAAATATTTTTTA
1 -TTTTAATTTTTTTTTAAAAAATATTTTTTA
10919236 AATTTTTTTT
Statistics
Matches: 159, Mismatches: 57, Indels: 40
0.62 0.22 0.16
Matches are distributed among these distances:
27 5 0.03
28 33 0.21
29 44 0.28
30 29 0.18
31 42 0.26
32 6 0.04
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (30 bp):
TTTTAATTTTTTTTTAAAAAATATTTTTTA
Found at i:10919161 original size:58 final size:56
Alignment explanation
Indices: 10918841--10919237 Score: 325
Period size: 57 Copynumber: 6.8 Consensus size: 56
10918831 GTTTTTGTAT
* ** * **
10918841 AAAAAAATTGATACTGTTAATTTTTTTTTAAAGTA---TTTAAGAGTTTTTATTTTA
1 AAAAAAATTGATACTTTTAATTTTTTTAAAAAATATTTTTTAA-AAATTTTATTTTA
* * * ** * ** *
10918895 AGAAAAATTGATGCTTTAAATTTTTTTTTAAAAGGTTTTTTTTTTGAAATTTTGATTTGAA
1 AAAAAAATTGATACTTTTAA--TTTTTTTAAAA-AATATTTTTTAAAAATTTT-ATTT-TA
* * *
10918956 AAAAAAATTGATACTTTTAATTTTTTTTTTAAAAAATATTTTTTATTTTAAATTTTGTTGTA
1 AAAAAAATTGATACTTTTAA---TTTTTTTAAAAAATATTTTTTA---AAAATTTTATTTTA
*
10919018 AAAAAAATTGATACTTTTAATTTTTTTTCAAAAATTATTATTTTTTTAAAA-TTTATCTTTA
1 AAAAAAATTGATACTTTTAA-TTTTTTT-AAAAA--A-TATTTTTTAAAAATTTTAT-TTTA
* * **
10919079 AAGAAAATTGATACTTTTTATTTTTCTTCGAAAATATTTTTTAAAAATTTTATTTTA
1 AAAAAAATTGATACTTTTAATTTTT-TTAAAAAATATTTTTTAAAAATTTTATTTTA
* * *
10919136 AAAAAAATTGATAATTTCAACTTTTTTTAAAAAATATTTTTTTAAAATTTTATTTTCA
1 AAAAAAATTGATACTTTTAA-TTTTTTTAAAAAATATTTTTTAAAAATTTTATTTT-A
* *
10919194 AAAAAAATTTATATTTTTAATTTTTTTAAAAAATATTTTTTAAA
1 AAAAAAATTGATACTTTTAATTTTTTTAAAAAATATTTTTTAAA
10919238 TTTTTTTTAA
Statistics
Matches: 277, Mismatches: 45, Indels: 39
0.77 0.12 0.11
Matches are distributed among these distances:
54 16 0.06
56 9 0.03
57 83 0.30
58 29 0.10
59 5 0.02
60 27 0.10
61 56 0.20
62 34 0.12
63 3 0.01
64 15 0.05
ACGTcount: A:0.39, C:0.03, G:0.05, T:0.53
Consensus pattern (56 bp):
AAAAAAATTGATACTTTTAATTTTTTTAAAAAATATTTTTTAAAAATTTTATTTTA
Found at i:10919224 original size:24 final size:24
Alignment explanation
Indices: 10919197--10919253 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
10919187 ATTTTCAAAA
10919197 AAAATTTATATTTTT-AATTTTTTT
1 AAAATTTAT-TTTTTAAATTTTTTT
**
10919221 AAAAAATATTTTTTAAATTTTTTT
1 AAAATTTATTTTTTAAATTTTTTT
*
10919245 -TAATTTATT
1 AAAATTTATT
10919254 CATGCAAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
23 11 0.41
24 16 0.59
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (24 bp):
AAAATTTATTTTTTAAATTTTTTT
Found at i:10919311 original size:18 final size:18
Alignment explanation
Indices: 10919288--10919322 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
10919278 ATAAATACAT
10919288 AAATACAAAAAAAAAGGA
1 AAATACAAAAAAAAAGGA
10919306 AAATACAAAAAAAAAGG
1 AAATACAAAAAAAAAGG
10919323 CTTGGCTAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.77, C:0.06, G:0.11, T:0.06
Consensus pattern (18 bp):
AAATACAAAAAAAAAGGA
Found at i:10924597 original size:14 final size:15
Alignment explanation
Indices: 10924580--10924613 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
10924570 TTCTTTGTCA
10924580 TTTTATTGTTT-TTT
1 TTTTATTGTTTGTTT
*
10924594 TTTTATTTTTTGTTT
1 TTTTATTGTTTGTTT
10924609 TTTTA
1 TTTTA
10924614 AATCAATGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.09, C:0.00, G:0.06, T:0.85
Consensus pattern (15 bp):
TTTTATTGTTTGTTT
Found at i:10925088 original size:19 final size:16
Alignment explanation
Indices: 10925038--10925120 Score: 68
Period size: 17 Copynumber: 5.2 Consensus size: 16
10925028 CAATACATAT
*
10925038 TTTATTATTTATTTAAA
1 TTTATTATTTA-ATAAA
*
10925055 TTTA-AATTT-ATAAA
1 TTTATTATTTAATAAA
10925069 TATGTATTATATTAATAAA
1 T-T-TATTAT-TTAATAAA
10925088 TTTATTATTTAAT--A
1 TTTATTATTTAATAAA
*
10925102 TTT-TAATTTAATAAA
1 TTTATTATTTAATAAA
10925117 TTTA
1 TTTA
10925121 CATGATATCT
Statistics
Matches: 54, Mismatches: 4, Indels: 17
0.72 0.05 0.23
Matches are distributed among these distances:
13 8 0.15
14 9 0.17
15 5 0.09
16 11 0.20
17 12 0.22
18 3 0.06
19 6 0.11
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (16 bp):
TTTATTATTTAATAAA
Found at i:10925908 original size:15 final size:15
Alignment explanation
Indices: 10925884--10925925 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
10925874 TAACACCCAA
* *
10925884 TTTGTTTTTTTTTTT
1 TTTGTATTTTTTGTT
10925899 TTTGTATTTTTTGTT
1 TTTGTATTTTTTGTT
*
10925914 TTTCTATTTTTT
1 TTTGTATTTTTT
10925926 AATTGAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.05, C:0.02, G:0.07, T:0.86
Consensus pattern (15 bp):
TTTGTATTTTTTGTT
Found at i:10926665 original size:23 final size:21
Alignment explanation
Indices: 10926625--10926677 Score: 72
Period size: 23 Copynumber: 2.5 Consensus size: 21
10926615 GTCAAATTGA
10926625 TAAAAA-TTTTATAATTTTATT
1 TAAAAATTTTTATAATTTTA-T
*
10926646 TAAAAACTTTTTATACTTTTAT
1 TAAAAA-TTTTTATAATTTTAT
10926668 TAAAAATTTT
1 TAAAAATTTT
10926678 CTATTCTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 10 0.34
22 7 0.24
23 12 0.41
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.55
Consensus pattern (21 bp):
TAAAAATTTTTATAATTTTAT
Found at i:10928071 original size:30 final size:31
Alignment explanation
Indices: 10927998--10928073 Score: 77
Period size: 30 Copynumber: 2.5 Consensus size: 31
10927988 CGACATTATA
* *
10927998 TAAAAAAT-TATTTTTAATTAATTATGTATT
1 TAAAAAATATATTTTTAAATAATTATATATT
* *
10928028 TATATAATGATATTTTTAAAT-ATT-TATATT
1 TAAAAAAT-ATATTTTTAAATAATTATATATT
10928058 TAAAAAATAATATTTT
1 TAAAAAAT-ATATTTT
10928074 ATTAATTTTG
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
30 24 0.65
31 3 0.08
32 10 0.27
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (31 bp):
TAAAAAATATATTTTTAAATAATTATATATT
Found at i:10928817 original size:20 final size:19
Alignment explanation
Indices: 10928781--10928823 Score: 52
Period size: 18 Copynumber: 2.2 Consensus size: 19
10928771 TTTGTAGGGT
*
10928781 TTTTTTTTTATTTTTT-GG
1 TTTTTTTTAATTTTTTGGG
10928799 TTTTTTTTAATTCTCTTTGGG
1 TTTTTTTTAATT-T-TTTGGG
10928820 TTTT
1 TTTT
10928824 CTCTGAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 11 0.52
19 1 0.05
20 3 0.14
21 6 0.29
ACGTcount: A:0.07, C:0.05, G:0.12, T:0.77
Consensus pattern (19 bp):
TTTTTTTTAATTTTTTGGG
Found at i:10935967 original size:29 final size:28
Alignment explanation
Indices: 10935916--10935974 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 28
10935906 TTTTTAATAA
*
10935916 AAATATTAATAACAATTTTATTATTAAAT
1 AAATATTAATAACAATTTAATTA-TAAAT
*
10935945 AAATATTAATTA-AATTTAAATTATAAAT
1 AAATATTAATAACAATTT-AATTATAAAT
10935973 AA
1 AA
10935975 TTTTTATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 12 0.44
29 15 0.56
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (28 bp):
AAATATTAATAACAATTTAATTATAAAT
Found at i:10936618 original size:14 final size:13
Alignment explanation
Indices: 10936569--10936626 Score: 55
Period size: 14 Copynumber: 4.2 Consensus size: 13
10936559 AAATTTAAAT
10936569 TTTATAGATAATTA
1 TTTATA-ATAATTA
*
10936583 TTTATTAA-AATCA
1 TTTA-TAATAATTA
*
10936596 TTTAAAATATATTA
1 TTTATAATA-ATTA
10936610 TTTATAATAATTTA
1 TTTATAATAA-TTA
10936624 TTT
1 TTT
10936627 TAAATTATCA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
12 2 0.06
13 10 0.28
14 22 0.61
15 2 0.06
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (13 bp):
TTTATAATAATTA
Found at i:10945455 original size:12 final size:12
Alignment explanation
Indices: 10945426--10945456 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
10945416 ATGTTGATAA
*
10945426 TGATGCTATTGG
1 TGATGTTATTGG
10945438 TGATGTTATTGG
1 TGATGTTATTGG
10945450 TGATGTT
1 TGATGTT
10945457 GTTATAGGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.16, C:0.03, G:0.32, T:0.48
Consensus pattern (12 bp):
TGATGTTATTGG
Found at i:10947364 original size:2 final size:2
Alignment explanation
Indices: 10947357--10947423 Score: 134
Period size: 2 Copynumber: 33.5 Consensus size: 2
10947347 AAGGGGCTGC
10947357 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
10947399 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
10947424 TAAGATATTA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 65 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:10950532 original size:10 final size:9
Alignment explanation
Indices: 10950504--10950542 Score: 51
Period size: 9 Copynumber: 4.1 Consensus size: 9
10950494 TTTATTTTAT
*
10950504 AAAAATTTA
1 AAAAATATA
10950513 AAAAATATA
1 AAAAATATA
10950522 AAAAATAATA
1 AAAAAT-ATA
10950532 AAAATATATA
1 AAAA-ATATA
10950542 A
1 A
10950543 CTCGATTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
9 14 0.52
10 11 0.41
11 2 0.07
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (9 bp):
AAAAATATA
Found at i:10950986 original size:2 final size:2
Alignment explanation
Indices: 10950981--10951010 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
10950971 TTTTAGTGTG
10950981 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
10951011 CACACACACA
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):
TA
Found at i:10952690 original size:37 final size:37
Alignment explanation
Indices: 10952613--10952696 Score: 96
Period size: 37 Copynumber: 2.3 Consensus size: 37
10952603 ATATGAATAG
** *
10952613 GAATGATGTATTGGCTTTACCATGTCTAAATAAGGGT
1 GAATGATGTATTGGCTTTACCATAACTAAATAAGGAT
* * * * *
10952650 GAATGATGTATTGTCTTTGCCATAACTAATTATGTAT
1 GAATGATGTATTGGCTTTACCATAACTAAATAAGGAT
10952687 GAATGATGTA
1 GAATGATGTA
10952697 ATGTTTAGTG
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (37 bp):
GAATGATGTATTGGCTTTACCATAACTAAATAAGGAT
Found at i:10953641 original size:21 final size:21
Alignment explanation
Indices: 10953615--10953655 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
10953605 TTAACTTACA
10953615 TTGAATATTGATATCCCACTG
1 TTGAATATTGATATCCCACTG
10953636 TTGAATATTGATATCCCACT
1 TTGAATATTGATATCCCACT
10953656 ACTTAGGTCT
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:0.29, C:0.20, G:0.12, T:0.39
Consensus pattern (21 bp):
TTGAATATTGATATCCCACTG
Found at i:10962611 original size:6 final size:6
Alignment explanation
Indices: 10962600--10962627 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
10962590 GTATCTCTTA
10962600 AAAAAG AAAAAG AAAAAG AAAAAG AAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAA
10962628 CAGATCTAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:10970727 original size:20 final size:20
Alignment explanation
Indices: 10970697--10970740 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
10970687 TAATAGTTTC
10970697 ATAATTTTTGATAAAATTTTA
1 ATAATTTTTGAT-AAATTTTA
*
10970718 ATAA-TTTTGATAAATTTTG
1 ATAATTTTTGATAAATTTTA
10970737 ATAA
1 ATAA
10970741 CATTTGATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 11 0.50
20 7 0.32
21 4 0.18
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (20 bp):
ATAATTTTTGATAAATTTTA
Found at i:10970735 original size:10 final size:10
Alignment explanation
Indices: 10970697--10970749 Score: 56
Period size: 10 Copynumber: 5.3 Consensus size: 10
10970687 TAATAGTTTC
*
10970697 ATAATTTTTG
1 ATAAATTTTG
*
10970707 ATAAAATTTTA
1 AT-AAATTTTG
10970718 AT-AATTTTG
1 ATAAATTTTG
10970727 ATAAATTTTG
1 ATAAATTTTG
10970737 ATAACA-TTTG
1 ATAA-ATTTTG
10970747 ATA
1 ATA
10970750 TTAGTTTGGT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
9 8 0.22
10 20 0.54
11 9 0.24
ACGTcount: A:0.42, C:0.02, G:0.08, T:0.49
Consensus pattern (10 bp):
ATAAATTTTG
Found at i:10971161 original size:22 final size:22
Alignment explanation
Indices: 10971117--10971347 Score: 102
Period size: 22 Copynumber: 10.4 Consensus size: 22
10971107 ATATATAAAA
* *
10971117 AAATTATTAATA-ATTGACAATT
1 AAATTATT-ATAGATTTACTATT
10971139 AAATTATTATAGATTTACTATT
1 AAATTATTATAGATTTACTATT
** *
10971161 ACGTTATCAGT-GATTTACTATT
1 AAATTATTA-TAGATTTACTATT
* * *
10971183 AAATTAATATTGATTTACTACT
1 AAATTATTATAGATTTACTATT
* *
10971205 AAATTTATAAATA-ATTTACTACT
1 AAA-TTAT-TATAGATTTACTATT
* *
10971228 AAATTATTGAT-TATTTACTACT
1 AAATTATT-ATAGATTTACTATT
* *
10971250 AAATTACTA-ATGATTTATTA-T
1 AAATTATTATA-GATTTACTATT
* ** *
10971271 AAAGTTATAATTTATTTACTAGT
1 AAA-TTATTATAGATTTACTATT
* *
10971294 AATTTATTA-ATGATTTACT-TC
1 AAATTATTATA-GATTTACTATT
* *
10971315 AAAGTTATTA-ATGATTAACTAAT
1 AAA-TTATTATA-GATTTACTATT
10971338 ATAATTATTA
1 A-AATTATTA
10971348 CTAAATTATC
Statistics
Matches: 161, Mismatches: 32, Indels: 31
0.72 0.14 0.14
Matches are distributed among these distances:
21 11 0.07
22 119 0.74
23 27 0.17
24 4 0.02
ACGTcount: A:0.41, C:0.07, G:0.06, T:0.46
Consensus pattern (22 bp):
AAATTATTATAGATTTACTATT
Found at i:10971288 original size:44 final size:43
Alignment explanation
Indices: 10971171--10971708 Score: 159
Period size: 44 Copynumber: 12.5 Consensus size: 43
10971161 ACGTTATCAG
* *
10971171 TGATTTACTATTAAATTAAT-ATTGATTTACTACTAAATTTATAAA
1 TGATTTACTACTAAATTATTAATT-ATTTACTACTAAA-TTAT-AA
* *
10971216 TAATTTACTACTAAATTATTGATTATTTACTACTAAATTACTAA
1 TGATTTACTACTAAATTATTAATTATTTACTACTAAATTA-TAA
* * *
10971260 TGATTTATTA-TAAAGTTA-TAATTTATTTACTAGTAATTTATTAA
1 TGATTTACTACTAAA-TTATTAA-TTATTTACTACTAAATTA-TAA
* *
10971304 TGATTTACTTC-AAAGTTATTAATGA-TTA--ACT-AA-TAT-A
1 TGATTTACTACTAAA-TTATTAATTATTTACTACTAAATTATAA
* * * * * *
10971341 --A-TTATTACTAAATTA-TCATTAATTTACAATTAAGTTATTAG
1 TGATTTACTACTAAATTATTAATT-ATTTACTACTAAATTA-TAA
* * * *
10971382 TGATACTACTACTAAGTTATCAATAATTTACTACTAAATTATCAA
1 TGAT-TTACTACTAAATTATTAATTATTTACTACTAAATTAT-AA
* ** * * ** *
10971427 TAATTTACTTA-TATGTTATT-ATACATTTACTATTATGTTATTAT
1 TGATTTAC-TACTAAATTATTAAT-TATTTACTACTAAATTA-TAA
* * * * * *
10971471 TTATTTACTACTTAGTTTTTGATTATTTAC-AATAAAATTATCAA
1 TGATTTACTACTAAATTATTAATTATTTACTACT-AAATTAT-AA
* * * * * * * *
10971515 AGATTTA-TATTAAATTATTTATAATTCACTATTAATTTATCAG
1 TGATTTACTACTAAATTATTAATTATTTACTACTAAATTAT-AA
* * * * * *
10971558 TTATTGA-TATTAAATTATTTATAATTTACTACTAAAATATCAA
1 TGATTTACTACTAAATTATTAATTATTTACTACTAAATTAT-AA
* * * * *
10971601 T-ACTTTATTAATAAATTATCT-ATAATTTACTATTAATTTATGAA
1 TGA-TTTACTACTAAATTAT-TAATTATTTACTACTAAATTAT-AA
* * * * * *
10971645 TGATTTA-TCATTAAGTTATAAATGATTTA-TAATTAAATTATCGA
1 TGATTTACT-ACTAAATTATTAATTATTTACT-ACTAAATTAT-AA
*
10971689 TGATTTACTATTAAATTATT
1 TGATTTACTACTAAATTATT
10971709 TATGATTTTA
Statistics
Matches: 372, Mismatches: 84, Indels: 75
0.70 0.16 0.14
Matches are distributed among these distances:
33 3 0.01
34 9 0.02
35 7 0.02
37 3 0.01
38 2 0.01
39 4 0.01
40 2 0.01
41 2 0.01
42 1 0.00
43 81 0.22
44 183 0.49
45 70 0.19
46 5 0.01
ACGTcount: A:0.40, C:0.08, G:0.05, T:0.48
Consensus pattern (43 bp):
TGATTTACTACTAAATTATTAATTATTTACTACTAAATTATAA
Found at i:10971310 original size:66 final size:67
Alignment explanation
Indices: 10971171--10971335 Score: 181
Period size: 66 Copynumber: 2.5 Consensus size: 67
10971161 ACGTTATCAG
* * *
10971171 TGATTTACTATTAAATTAATATTGATTTACTACTAAATTTATAAATAATTTACTACTAAATTATT
1 TGATTTACTACTAAATTAATAATGATTTACTACTAAAGTTATAAATAATTTACTACTAAATTATT
*
10971236 GA
66 AA
* * * * * * *
10971238 TTATTTACTACTAAATTACTAATGATTTATTA-TAAAGTTATAATTTATTTACTAGTAATTTATT
1 TGATTTACTACTAAATTAATAATGATTTACTACTAAAGTTATAAATAATTTACTACTAAATTATT
10971302 AA
66 AA
* * *
10971304 TGATTTACTTC-AAAGTTATTAATGATTAACTA
1 TGATTTACTACTAAA-TTAATAATGATTTACTA
10971336 ATATAATTAT
Statistics
Matches: 81, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
65 3 0.04
66 51 0.63
67 27 0.33
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.47
Consensus pattern (67 bp):
TGATTTACTACTAAATTAATAATGATTTACTACTAAAGTTATAAATAATTTACTACTAAATTATT
AA
Found at i:10971416 original size:22 final size:22
Alignment explanation
Indices: 10971349--10971707 Score: 167
Period size: 22 Copynumber: 16.4 Consensus size: 22
10971339 TAATTATTAC
* *
10971349 TAAATTATCATTAATTTACAAT
1 TAAATTATCAATAATTTACTAT
* * * * * *
10971371 TAAGTTATTAGTGATACTACTAC
1 TAAATTATCAATAAT-TTACTAT
* *
10971394 TAAGTTATCAATAATTTACTAC
1 TAAATTATCAATAATTTACTAT
10971416 TAAATTATCAATAATTTACT-T
1 TAAATTATCAATAATTTACTAT
** *
10971437 ATATGTTAT-TATACATTTACTAT
1 -TAAATTATCAATA-ATTTACTAT
** * * *
10971460 TATGTTATTATTTATTTACTACT
1 TAAATTATCAATAATTTACTA-T
* * ** * *
10971483 T-AGTTTTTGATTATTTACAAT
1 TAAATTATCAATAATTTACTAT
*
10971504 AAAATTATCAA-AGATTTA-TAT
1 TAAATTATCAATA-ATTTACTAT
** *
10971525 TAAATTATTTATAATTCACTAT
1 TAAATTATCAATAATTTACTAT
* * * *
10971547 TAATTTATCAGTTATTGA-TAT
1 TAAATTATCAATAATTTACTAT
** *
10971568 TAAATTATTTATAATTTACTAC
1 TAAATTATCAATAATTTACTAT
* * * *
10971590 TAAAATATCAATACTTTATTAA
1 TAAATTATCAATAATTTACTAT
*
10971612 TAAATTATCTATAATTTACTAT
1 TAAATTATCAATAATTTACTAT
* * *
10971634 TAATTTATGAATGATTTA-TCAT
1 TAAATTATCAATAATTTACT-AT
* * *
10971656 TAAGTTATAAATGATTTA-TAAT
1 TAAATTATCAATAATTTACT-AT
* *
10971678 TAAATTATCGATGATTTACTAT
1 TAAATTATCAATAATTTACTAT
10971700 TAAATTAT
1 TAAATTAT
10971708 TTATGATTTT
Statistics
Matches: 255, Mismatches: 69, Indels: 26
0.73 0.20 0.07
Matches are distributed among these distances:
21 34 0.13
22 200 0.78
23 21 0.08
ACGTcount: A:0.40, C:0.08, G:0.05, T:0.48
Consensus pattern (22 bp):
TAAATTATCAATAATTTACTAT
Found at i:10971569 original size:43 final size:43
Alignment explanation
Indices: 10971521--10971641 Score: 145
Period size: 43 Copynumber: 2.8 Consensus size: 43
10971511 TCAAAGATTT
* *
10971521 ATATTAAATTATTTATAATTCACTATTAATTTATCAGTTA-TTG
1 ATATTAAATTATTTATAATTTACTATTAATTTATCA-ATACTTG
* ** *
10971564 ATATTAAATTATTTATAATTTACTACTAAAATATCAATACTTT
1 ATATTAAATTATTTATAATTTACTATTAATTTATCAATACTTG
* *
10971607 ATTAATAAATTATCTATAATTTACTATTAATTTAT
1 A-TATTAAATTATTTATAATTTACTATTAATTTAT
10971642 GAATGATTTA
Statistics
Matches: 65, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
42 2 0.03
43 35 0.54
44 28 0.43
ACGTcount: A:0.41, C:0.07, G:0.02, T:0.50
Consensus pattern (43 bp):
ATATTAAATTATTTATAATTTACTATTAATTTATCAATACTTG
Found at i:10971714 original size:44 final size:43
Alignment explanation
Indices: 10971404--10971716 Score: 206
Period size: 44 Copynumber: 7.2 Consensus size: 43
10971394 TAAGTTATCA
* * * *
10971404 ATAATTTACTACTAAATTATCAATAATTTA-CTTATATGT-TATT
1 ATAATTTACTATTAAATTATCAATGATTTATATTAAAT-TAT-TT
** * * * *
10971447 ATACATTTACTATTATGTTATTATTTATTTACTACTT-AGTT-TTT
1 ATA-ATTTACTATTAAATTATCAATGATTTA-TA-TTAAATTATTT
* * * *
10971491 GATTATTTACAATAAAATTATCAAAGATTTATATTAAATTATTT
1 -ATAATTTACTATTAAATTATCAATGATTTATATTAAATTATTT
* * * * *
10971535 ATAATTCACTATTAATTTATCAGTTATTGATATTAAATTATTT
1 ATAATTTACTATTAAATTATCAATGATTTATATTAAATTATTT
* * * *
10971578 ATAATTTACTACTAAAATATCAAT-ACTTTATTAATAAATTATCT
1 ATAATTTACTATTAAATTATCAATGA-TTTA-TATTAAATTATTT
* * * **
10971622 ATAATTTACTATTAATTTATGAATGATTTATCATTAAGTTATAA
1 ATAATTTACTATTAAATTATCAATGATTTAT-ATTAAATTATTT
* *
10971666 ATGATTTA-TAATTAAATTATCGATGATTTACTATTAAATTATTT
1 ATAATTTACT-ATTAAATTATCAATGATTTA-TATTAAATTATTT
*
10971710 ATGATTT
1 ATAATTT
10971717 TATAAAGTTA
Statistics
Matches: 206, Mismatches: 51, Indels: 25
0.73 0.18 0.09
Matches are distributed among these distances:
42 3 0.01
43 66 0.32
44 128 0.62
45 6 0.03
46 1 0.00
47 2 0.01
ACGTcount: A:0.39, C:0.07, G:0.04, T:0.50
Consensus pattern (43 bp):
ATAATTTACTATTAAATTATCAATGATTTATATTAAATTATTT
Found at i:10971866 original size:22 final size:22
Alignment explanation
Indices: 10971831--10971888 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
10971821 TAGTGATTTC
* *
10971831 TTAC-ATTAAGTTATCAATAAT
1 TTACTATTAAATTATCAACAAT
*
10971852 TTACTATTAAATTATCAACAGT
1 TTACTATTAAATTATCAACAAT
* *
10971874 TTACTAATATATTAT
1 TTACTATTAAATTAT
10971889 TATGCATTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
21 4 0.13
22 27 0.87
ACGTcount: A:0.41, C:0.10, G:0.03, T:0.45
Consensus pattern (22 bp):
TTACTATTAAATTATCAACAAT
Found at i:10972102 original size:21 final size:22
Alignment explanation
Indices: 10972051--10972102 Score: 54
Period size: 21 Copynumber: 2.4 Consensus size: 22
10972041 TAATTAACTG
*
10972051 CTAAATTATCACTTATTTACTA
1 CTAAATTATCACTTATTTACCA
* *
10972073 ATAATTTATCA-TTCA-TTACCA
1 CTAAATTATCACTT-ATTTACCA
10972094 CTAAATTAT
1 CTAAATTAT
10972103 TTATGATTTA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
21 14 0.58
22 10 0.42
ACGTcount: A:0.38, C:0.17, G:0.00, T:0.44
Consensus pattern (22 bp):
CTAAATTATCACTTATTTACCA
Found at i:10975213 original size:18 final size:19
Alignment explanation
Indices: 10975183--10975220 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
10975173 TTTATTTTAT
10975183 ATAAAAGAATTTAATAATA
1 ATAAAAGAATTTAATAATA
10975202 ATAAAA-AATTTAATAATA
1 ATAAAAGAATTTAATAATA
10975220 A
1 A
10975221 AAATTATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (19 bp):
ATAAAAGAATTTAATAATA
Found at i:10975217 original size:15 final size:15
Alignment explanation
Indices: 10975197--10975293 Score: 66
Period size: 15 Copynumber: 6.8 Consensus size: 15
10975187 AAGAATTTAA
10975197 TAATAATAAAAAATT
1 TAATAATAAAAAATT
10975212 TAATAATAAAAATTATT
1 TAATAATAAAAA--ATT
*
10975229 T-A-AAT-TAAAATT
1 TAATAATAAAAAATT
*
10975241 T-AT--T-AAACATT
1 TAATAATAAAAAATT
*
10975252 TAATAA-ATAAGAATT
1 TAATAATA-AAAAATT
**
10975267 TAATAATAAAAAAGC
1 TAATAATAAAAAATT
10975282 TAATAATAAAAA
1 TAATAATAAAAA
10975294 TTATTTAAAT
Statistics
Matches: 65, Mismatches: 8, Indels: 18
0.71 0.09 0.20
Matches are distributed among these distances:
11 7 0.11
12 7 0.11
14 3 0.05
15 42 0.65
16 2 0.03
17 4 0.06
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (15 bp):
TAATAATAAAAAATT
Found at i:10975286 original size:70 final size:71
Alignment explanation
Indices: 10975197--10975328 Score: 212
Period size: 70 Copynumber: 1.9 Consensus size: 71
10975187 AAGAATTTAA
** *
10975197 TAATAATAAAAAATTTAATAATAAAAATTATTTAAATTAAAATTTATTAAACA-TTTAATAAATA
1 TAATAATAAAAAAGCTAATAATAAAAATTATTTAAATTAAAATTTATTAAAAATTTTAATAAATA
10975261 AGAATT
66 AGAATT
* *
10975267 TAATAATAAAAAAGCTAATAATAAAAATTATTTAAATTAGACTTTATTAAAAATTTTAATAA
1 TAATAATAAAAAAGCTAATAATAAAAATTATTTAAATTAAAATTTATTAAAAATTTTAATAA
10975329 GGATATTTCA
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
70 48 0.86
71 8 0.14
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (71 bp):
TAATAATAAAAAAGCTAATAATAAAAATTATTTAAATTAAAATTTATTAAAAATTTTAATAAATA
AGAATT
Found at i:10975417 original size:51 final size:51
Alignment explanation
Indices: 10975316--10975417 Score: 150
Period size: 51 Copynumber: 2.0 Consensus size: 51
10975306 GACTTTATTA
* * *
10975316 AAAATTTTAATAAGGATATTTCAATCACTCATTTTTAATATTTTGGGAATT
1 AAAATTTTAATAAAGATATTTCAATCAATCATTTTTAATATTTTGAGAATT
* * *
10975367 AAAATTTTATTAAAGATATTTTAATCAATCATTTTTAATATTTTTAGAATT
1 AAAATTTTAATAAAGATATTTCAATCAATCATTTTTAATATTTTGAGAATT
10975418 CACACTTTTA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.39, C:0.06, G:0.07, T:0.48
Consensus pattern (51 bp):
AAAATTTTAATAAAGATATTTCAATCAATCATTTTTAATATTTTGAGAATT
Found at i:10980006 original size:10 final size:10
Alignment explanation
Indices: 10979991--10980016 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
10979981 TAATAAAATC
10979991 TTAAAATTTA
1 TTAAAATTTA
10980001 TTAAAATTTA
1 TTAAAATTTA
10980011 TTAAAA
1 TTAAAA
10980017 AAATTTTAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (10 bp):
TTAAAATTTA
Found at i:10981415 original size:20 final size:20
Alignment explanation
Indices: 10981374--10981415 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
10981364 ATTCTTCGCT
*
10981374 TTTTTTTATTGATTTTTCTA
1 TTTTTTTATTGATTTATCTA
*
10981394 TTTTTTTGTTAGATTTAT-TA
1 TTTTTTTATT-GATTTATCTA
10981414 TT
1 TT
10981416 AGTTTTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.17, C:0.02, G:0.07, T:0.74
Consensus pattern (20 bp):
TTTTTTTATTGATTTATCTA
Found at i:10982265 original size:24 final size:23
Alignment explanation
Indices: 10982206--10982268 Score: 74
Period size: 23 Copynumber: 2.6 Consensus size: 23
10982196 AAGTTGAACC
10982206 TTTTTTGGTATTTTCTATAGGTTTA
1 TTTTTT-GTATTTT-TATAGGTTTA
*
10982231 TTTTTTTTATTTTTAT-GTGTTTA
1 TTTTTTGTATTTTTATAG-GTTTA
10982254 TTTTTTAGTATTTTT
1 TTTTTT-GTATTTTT
10982269 GCAAGATTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
22 1 0.03
23 14 0.41
24 13 0.38
25 6 0.18
ACGTcount: A:0.14, C:0.02, G:0.11, T:0.73
Consensus pattern (23 bp):
TTTTTTGTATTTTTATAGGTTTA
Found at i:10982771 original size:53 final size:51
Alignment explanation
Indices: 10982696--10982863 Score: 173
Period size: 53 Copynumber: 3.3 Consensus size: 51
10982686 AAAAAAATAA
* *
10982696 AAAAAATTTCTAAATAGGCCTAAATGGTGAAAAATTTAGAAATTTTGAAAAAG
1 AAAAAATTTCTAAATTGACCTAAATGGTGAAAAATTTAGAAA-TTT-AAAAAG
* *
10982749 AAAATATTTCTAAATTGACCTAAATGGTGAAAAATTTAGAAA--TAAAAGAA
1 AAAAAATTTCTAAATTGACCTAAATGGTGAAAAATTTAGAAATTTAAAA-AG
* * * *
10982799 AAAAAATTT-TAAA-TAAGCCCAAATGGTGGAGAATTTAGAAATTTAAAACAAG
1 AAAAAATTTCTAAATTGA-CCTAAATGGTGAAAAATTTAGAAATTT-AAA-AAG
*
10982851 AAAATATTTCTAA
1 AAAAAATTTCTAA
10982864 TTTATCCCAA
Statistics
Matches: 97, Mismatches: 11, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
48 2 0.02
49 29 0.30
50 10 0.10
51 1 0.01
52 12 0.12
53 43 0.44
ACGTcount: A:0.52, C:0.07, G:0.13, T:0.28
Consensus pattern (51 bp):
AAAAAATTTCTAAATTGACCTAAATGGTGAAAAATTTAGAAATTTAAAAAG
Found at i:10982890 original size:102 final size:103
Alignment explanation
Indices: 10982689--10982879 Score: 271
Period size: 102 Copynumber: 1.9 Consensus size: 103
10982679 ATTTCAAAAA
* * * *
10982689 AAAATAAAAAAAATTTCTAAATAGGCCTAAATGGTGAAAAATTTAGAAATTTTGAAAAAGAAAAT
1 AAAAGAAAAAAAATTTCTAAATAAGCCCAAATGGTGAAAAATTTAGAAATTTTAAAAAAGAAAAT
*
10982754 ATTTCTAAATTGACCTAAATGGTGAAAAATTTAGAAAT
66 ATTTCTAAATTGACCCAAATGGTGAAAAATTTAGAAAT
* *
10982792 AAAAGAAAAAAAATTT-TAAATAAGCCCAAATGGTGGAGAATTTAGAAA-TTTAAAACAAGAAAA
1 AAAAGAAAAAAAATTTCTAAATAAGCCCAAATGGTGAAAAATTTAGAAATTTTAAAA-AAGAAAA
*
10982855 TATTTCT-AATTTATCCCAAATGGTG
65 TATTTCTAAATTGA-CCCAAATGGTG
10982880 GAATAATTAG
Statistics
Matches: 78, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
101 11 0.14
102 52 0.67
103 15 0.19
ACGTcount: A:0.51, C:0.07, G:0.13, T:0.28
Consensus pattern (103 bp):
AAAAGAAAAAAAATTTCTAAATAAGCCCAAATGGTGAAAAATTTAGAAATTTTAAAAAAGAAAAT
ATTTCTAAATTGACCCAAATGGTGAAAAATTTAGAAAT
Found at i:10986347 original size:21 final size:21
Alignment explanation
Indices: 10986323--10986368 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
10986313 CTCAAAGATG
**
10986323 GAAAAAAAAAGAAAAGCAAAA
1 GAAAAAAAAAGAAAAAAAAAA
* *
10986344 GAAAAAAGAGGAAAAAAAAAA
1 GAAAAAAAAAGAAAAAAAAAA
10986365 GAAA
1 GAAA
10986369 TGAATGCCAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.80, C:0.02, G:0.17, T:0.00
Consensus pattern (21 bp):
GAAAAAAAAAGAAAAAAAAAA
Found at i:10986702 original size:17 final size:17
Alignment explanation
Indices: 10986680--10986713 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10986670 CGACAATGGA
* *
10986680 TGAAAGATGAGAAAAAG
1 TGAAAGAGGAAAAAAAG
10986697 TGAAAGAGGAAAAAAAG
1 TGAAAGAGGAAAAAAAG
10986714 AGATAAAGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.29, T:0.09
Consensus pattern (17 bp):
TGAAAGAGGAAAAAAAG
Found at i:10986743 original size:7 final size:7
Alignment explanation
Indices: 10986731--10986757 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
10986721 GAATGAAAAA
10986731 AATGAAG
1 AATGAAG
10986738 AATGAAG
1 AATGAAG
10986745 AATGAAG
1 AATGAAG
10986752 AATGAA
1 AATGAA
10986758 AGAAAGAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.26, T:0.15
Consensus pattern (7 bp):
AATGAAG
Found at i:10988123 original size:46 final size:46
Alignment explanation
Indices: 10988055--10988190 Score: 191
Period size: 46 Copynumber: 3.0 Consensus size: 46
10988045 ATTTTCAATC
* * * **
10988055 TTTGAGTTTTAAATGAAAATCTTTAAGACATTTTCAAATAAGAATT
1 TTTGAGTCTTAAATGAGAATCTTTAAGAAATCCTCAAATAAGAATT
*
10988101 TTTGAGTCTTATATGAGAATCTTTAAGAAATCCTCAAATAAGAATT
1 TTTGAGTCTTAAATGAGAATCTTTAAGAAATCCTCAAATAAGAATT
* * *
10988147 TTTGAGTCTTAAATGAGAATTTTTAAGAAATCCTTAAATGAGAA
1 TTTGAGTCTTAAATGAGAATCTTTAAGAAATCCTCAAATAAGAA
10988191 CCTTTAGGTT
Statistics
Matches: 80, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 80 1.00
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.38
Consensus pattern (46 bp):
TTTGAGTCTTAAATGAGAATCTTTAAGAAATCCTCAAATAAGAATT
Found at i:10988165 original size:21 final size:21
Alignment explanation
Indices: 10988090--10988170 Score: 72
Period size: 21 Copynumber: 3.7 Consensus size: 21
10988080 AGACATTTTC
10988090 AAATAAGAATTTTTGAGTCTT
1 AAATAAGAATTTTTGAGTCTT
* * * * *
10988111 ATATGAGAATCTTTAAGAAATCCTC
1 AAATAAGAAT-TTT-TG-AGT-CTT
10988136 AAATAAGAATTTTTGAGTCTT
1 AAATAAGAATTTTTGAGTCTT
*
10988157 AAATGAGAATTTTT
1 AAATAAGAATTTTT
10988171 AAGAAATCCT
Statistics
Matches: 45, Mismatches: 11, Indels: 8
0.70 0.17 0.12
Matches are distributed among these distances:
21 23 0.51
22 5 0.11
23 2 0.04
24 5 0.11
25 10 0.22
ACGTcount: A:0.40, C:0.07, G:0.14, T:0.40
Consensus pattern (21 bp):
AAATAAGAATTTTTGAGTCTT
Found at i:10988182 original size:25 final size:25
Alignment explanation
Indices: 10988108--10988190 Score: 93
Period size: 25 Copynumber: 3.5 Consensus size: 25
10988098 ATTTTTGAGT
* *
10988108 CTTATATGAGAATCTTTAAGAAATC
1 CTTAAATGAGAATTTTTAAGAAATC
* * *
10988133 CTCAAATAAGAATTTTT--G-AGT-
1 CTTAAATGAGAATTTTTAAGAAATC
10988154 CTTAAATGAGAATTTTTAAGAAATC
1 CTTAAATGAGAATTTTTAAGAAATC
10988179 CTTAAATGAGAA
1 CTTAAATGAGAA
10988191 CCTTTAGGTT
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
21 15 0.33
22 2 0.04
23 2 0.04
24 2 0.04
25 25 0.54
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.35
Consensus pattern (25 bp):
CTTAAATGAGAATTTTTAAGAAATC
Found at i:10988247 original size:61 final size:61
Alignment explanation
Indices: 10988147--10988318 Score: 221
Period size: 61 Copynumber: 2.9 Consensus size: 61
10988137 AATAAGAATT
*
10988147 TTTGAGTCTTAAATGAGAATTTTTAAGAAATCCTTAAATGAGAACCTTT-AGGTTTTCAATA
1 TTTGAGTCTTAAATGAGAATCTTTAAGAAATCCTTAAATGAGAACCTTTGA-GTTTTCAATA
* * * *
10988208 TTTGAGTCTTAAATGATAATCTTTAAGAAAT-CTTCAAATGAGAATCTTTGAGTTTTTAATT
1 TTTGAGTCTTAAATGAGAATCTTTAAGAAATCCTT-AAATGAGAACCTTTGAGTTTTCAATA
*
10988269 TTTGAGTCTTCAAATGAGAATCTTTAAG---T-CTTAAATGAGAATCTTTGAGT
1 TTTGAGTCTT-AAATGAGAATCTTTAAGAAATCCTTAAATGAGAACCTTTGAGT
10988319 CTTAAATGAG
Statistics
Matches: 102, Mismatches: 6, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
58 18 0.18
59 4 0.04
60 3 0.03
61 60 0.59
62 17 0.17
ACGTcount: A:0.34, C:0.09, G:0.15, T:0.41
Consensus pattern (61 bp):
TTTGAGTCTTAAATGAGAATCTTTAAGAAATCCTTAAATGAGAACCTTTGAGTTTTCAATA
Found at i:10988361 original size:46 final size:43
Alignment explanation
Indices: 10988269--10988381 Score: 167
Period size: 46 Copynumber: 2.6 Consensus size: 43
10988259 GTTTTTAATT
10988269 TTTGAGTCTTCAAATGAGAATCTTTAAGTCTTAAATGAGAATC
1 TTTGAGTCTTCAAATGAGAATCTTTAAGTCTTAAATGAGAATC
*
10988312 TTTGAGTCTT-AAATGAGAATCTTTAAGAAATTTTTAAATGAGAATC
1 TTTGAGTCTTCAAATGAGAATCTTTAAG----TCTTAAATGAGAATC
10988358 TTTGAGT-TTCAAATGAGAATCTTT
1 TTTGAGTCTTCAAATGAGAATCTTT
10988382 GAGATGTGAA
Statistics
Matches: 64, Mismatches: 1, Indels: 7
0.89 0.01 0.10
Matches are distributed among these distances:
42 17 0.27
43 10 0.16
45 2 0.03
46 35 0.55
ACGTcount: A:0.35, C:0.09, G:0.16, T:0.40
Consensus pattern (43 bp):
TTTGAGTCTTCAAATGAGAATCTTTAAGTCTTAAATGAGAATC
Found at i:10988382 original size:21 final size:21
Alignment explanation
Indices: 10988269--10988384 Score: 144
Period size: 21 Copynumber: 5.3 Consensus size: 21
10988259 GTTTTTAATT
10988269 TTTGAGTCTTCAAATGAGAATC
1 TTTGAGTCTT-AAATGAGAATC
*
10988291 TTTAAGTCTTAAATGAGAATC
1 TTTGAGTCTTAAATGAGAATC
10988312 TTTGAGTCTTAAATGAGAATC
1 TTTGAGTCTTAAATGAGAATC
* *
10988333 TTTAAGAAATTTTTAAATGAGAATC
1 TTT--G--AGTCTTAAATGAGAATC
10988358 TTTGAGT-TTCAAATGAGAATC
1 TTTGAGTCTT-AAATGAGAATC
10988379 TTTGAG
1 TTTGAG
10988385 ATGTGAAACC
Statistics
Matches: 84, Mismatches: 5, Indels: 11
0.84 0.05 0.11
Matches are distributed among these distances:
20 2 0.02
21 53 0.63
22 9 0.11
23 2 0.02
25 18 0.21
ACGTcount: A:0.35, C:0.09, G:0.17, T:0.39
Consensus pattern (21 bp):
TTTGAGTCTTAAATGAGAATC
Found at i:10988458 original size:43 final size:46
Alignment explanation
Indices: 10988409--10988511 Score: 115
Period size: 49 Copynumber: 2.2 Consensus size: 46
10988399 AGTTCATCAA
10988409 ATGTGAATCTTC-AAACT-AGAATGAAAAG-TTT-TAAACTTTTTGG
1 ATGTGAATCTTCAAAACTCA-AATGAAAAGCTTTATAAACTTTTTGG
* * *
10988452 ATGTGAATCTCCAAAATTCAAATGAAAAGCTTTGAACTCAACTTTTTGG
1 ATGTGAATCTTCAAAACTCAAATGAAAAGCTTT--A-TAAACTTTTTGG
10988501 ATGTGAATCTT
1 ATGTGAATCTT
10988512 TAAATTTTTG
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
43 11 0.22
44 13 0.27
45 4 0.08
49 21 0.43
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.36
Consensus pattern (46 bp):
ATGTGAATCTTCAAAACTCAAATGAAAAGCTTTATAAACTTTTTGG
Found at i:10988552 original size:20 final size:20
Alignment explanation
Indices: 10988527--10988604 Score: 57
Period size: 20 Copynumber: 3.7 Consensus size: 20
10988517 TTTTGAGTGA
*
10988527 GAACCTTTGAACTTAGATGT
1 GAACCTTTGAACTTAAATGT
* *
10988547 GAACCTCTAATATTTCTTAAATGT
1 GAACCTTTGA-A---CTTAAATGT
* *
10988571 GAACCTTTGAACTTGAATGA
1 GAACCTTTGAACTTAAATGT
* *
10988591 AAAGCTTTGAACTT
1 GAACCTTTGAACTT
10988605 TTGGATGTGA
Statistics
Matches: 45, Mismatches: 9, Indels: 8
0.73 0.15 0.13
Matches are distributed among these distances:
20 27 0.60
21 1 0.02
23 1 0.02
24 16 0.36
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.36
Consensus pattern (20 bp):
GAACCTTTGAACTTAAATGT
Found at i:10988980 original size:43 final size:42
Alignment explanation
Indices: 10988860--10988986 Score: 172
Period size: 40 Copynumber: 3.1 Consensus size: 42
10988850 GATTGTTGAT
*
10988860 GAGC-ATTTATTTTT-CAAAGTTGTGGTGCCTTTGTTTAGAG
1 GAGCAATTTATTTTTCCAAAGTTGTGGTGCCTCTGTTTAGAG
*
10988900 GAG-AATTTA-TTTTCCAAAGTTGTGGTGCCTCTATTTAGAG
1 GAGCAATTTATTTTTCCAAAGTTGTGGTGCCTCTGTTTAGAG
* * *
10988940 GAGCAATTTATTTTTTCCAAAGTTATGATGTCTCTGTTTAGAG
1 GAGCAATTTA-TTTTTCCAAAGTTGTGGTGCCTCTGTTTAGAG
10988983 GAGC
1 GAGC
10988987 TTTATTATTT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
39 4 0.05
40 35 0.46
41 6 0.08
43 31 0.41
ACGTcount: A:0.24, C:0.12, G:0.23, T:0.42
Consensus pattern (42 bp):
GAGCAATTTATTTTTCCAAAGTTGTGGTGCCTCTGTTTAGAG
Found at i:10988998 original size:43 final size:43
Alignment explanation
Indices: 10988866--10988998 Score: 143
Period size: 43 Copynumber: 3.2 Consensus size: 43
10988856 TGATGAGCAT
* **
10988866 TTATTTTT-CAAAGTTGTGGTGCCTTTGTTTAGAGGAG-AAT-
1 TTATTTTTCCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCTTTA
*
10988906 TTA-TTTTCCAAAGTTGTGGTGCCTCTATTTAGAGGAGCAATTTA
1 TTATTTTTCCAAAGTTGTGGTGCCTCTGTTTAGAGGAGC--TTTA
* * *
10988950 -T-TTTTTCCAAAGTTATGATGTCTCTGTTTAGAGGAGCTTTA
1 TTATTTTTCCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCTTTA
10988991 TTATTTTT
1 TTATTTTT
10988999 TTTTTAAAAA
Statistics
Matches: 77, Mismatches: 8, Indels: 13
0.79 0.08 0.13
Matches are distributed among these distances:
39 4 0.05
40 30 0.39
41 4 0.05
42 1 0.01
43 38 0.49
ACGTcount: A:0.23, C:0.11, G:0.20, T:0.47
Consensus pattern (43 bp):
TTATTTTTCCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCTTTA
Found at i:10989263 original size:22 final size:20
Alignment explanation
Indices: 10989234--10989285 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
10989224 TTAATCTTTT
10989234 GTTTTTTTTATTGATTTATCTA
1 GTTTTTTTTATTGA-TTAT-TA
*
10989256 -TTTTTTTTAATTTATTATTA
1 GTTTTTTTT-ATTGATTATTA
10989276 GTTTTTTTTA
1 GTTTTTTTTA
10989286 GGTGAAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 3 0.11
21 20 0.74
22 4 0.15
ACGTcount: A:0.19, C:0.02, G:0.06, T:0.73
Consensus pattern (20 bp):
GTTTTTTTTATTGATTATTA
Found at i:10989268 original size:18 final size:18
Alignment explanation
Indices: 10989237--10989274 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
10989227 ATCTTTTGTT
*
10989237 TTTTTTATTGATTTATCTA
1 TTTTTTATTAATTTAT-TA
10989256 TTTTTT-TTAATTTATTA
1 TTTTTTATTAATTTATTA
10989273 TT
1 TT
10989275 AGTTTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 8 0.44
19 6 0.33
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (18 bp):
TTTTTTATTAATTTATTA
Found at i:10990800 original size:24 final size:22
Alignment explanation
Indices: 10990743--10990803 Score: 61
Period size: 23 Copynumber: 2.6 Consensus size: 22
10990733 AGTCGAGCCA
*
10990743 TTTTTGGTATTTTCTATGGGTTT
1 TTTTTTGTATTTT-TATGGGTTT
*
10990766 TTTTATT-TATTTTTATGTGTTT
1 TTTT-TTGTATTTTTATGGGTTT
10990788 ATTTTTTAGTATTTTT
1 -TTTTTT-GTATTTTT
10990804 GCATGATTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
22 10 0.31
23 14 0.44
24 8 0.25
ACGTcount: A:0.13, C:0.02, G:0.13, T:0.72
Consensus pattern (22 bp):
TTTTTTGTATTTTTATGGGTTT
Found at i:10991604 original size:66 final size:66
Alignment explanation
Indices: 10991532--10991662 Score: 262
Period size: 66 Copynumber: 2.0 Consensus size: 66
10991522 TCTTGAATAC
10991532 TTTTGAGGTGAGGAATTATTTTTTTAAGAGTTCTACCAGATTGATGGAGAATCTTAAAAATTATT
1 TTTTGAGGTGAGGAATTATTTTTTTAAGAGTTCTACCAGATTGATGGAGAATCTTAAAAATTATT
10991597 A
66 A
10991598 TTTTGAGGTGAGGAATTATTTTTTTAAGAGTTCTACCAGATTGATGGAGAATCTTAAAAATTATT
1 TTTTGAGGTGAGGAATTATTTTTTTAAGAGTTCTACCAGATTGATGGAGAATCTTAAAAATTATT
10991663 TTCAATATTT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.33, C:0.06, G:0.20, T:0.41
Consensus pattern (66 bp):
TTTTGAGGTGAGGAATTATTTTTTTAAGAGTTCTACCAGATTGATGGAGAATCTTAAAAATTATT
A
Found at i:10993605 original size:14 final size:14
Alignment explanation
Indices: 10993586--10993630 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
10993576 ATTGTTTGGC
10993586 GTTTTTATTTTTTT
1 GTTTTTATTTTTTT
10993600 GTTTTT-TTTTGTTT
1 GTTTTTATTTT-TTT
*
10993614 GTTGTTTAATTTTTT
1 GTT-TTTATTTTTTT
10993629 GT
1 GT
10993631 CATTTTTCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 4 0.15
14 12 0.44
15 8 0.30
16 3 0.11
ACGTcount: A:0.07, C:0.00, G:0.13, T:0.80
Consensus pattern (14 bp):
GTTTTTATTTTTTT
Found at i:10994226 original size:18 final size:20
Alignment explanation
Indices: 10994205--10994246 Score: 52
Period size: 18 Copynumber: 2.2 Consensus size: 20
10994195 TTTTTTGGTC
*
10994205 ATTTAAATTT-TTAA-TTAG
1 ATTTAAATTTGATAACTTAG
*
10994223 ATTTTAATTTGATAACTTAG
1 ATTTAAATTTGATAACTTAG
10994243 ATTT
1 ATTT
10994247 TAATCTCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 9 0.45
19 3 0.15
20 8 0.40
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.55
Consensus pattern (20 bp):
ATTTAAATTTGATAACTTAG
Found at i:10994262 original size:18 final size:19
Alignment explanation
Indices: 10994216--10994267 Score: 70
Period size: 20 Copynumber: 2.7 Consensus size: 19
10994206 TTTAAATTTT
* *
10994216 TAATTAGATTTTAATTTGA
1 TAATTAGATTTTAATCTCA
10994235 TAACTTAGATTTTAATCTCA
1 TAA-TTAGATTTTAATCTCA
10994255 -AATTAGATTTTAA
1 TAATTAGATTTTAA
10994268 GTCCAACATT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
18 11 0.37
19 5 0.17
20 14 0.47
ACGTcount: A:0.38, C:0.06, G:0.08, T:0.48
Consensus pattern (19 bp):
TAATTAGATTTTAATCTCA
Found at i:10994341 original size:16 final size:14
Alignment explanation
Indices: 10994309--10994355 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 14
10994299 TTTTTTATCC
10994309 TTCTTTTA-TTTAT
1 TTCTTTTATTTTAT
10994322 TTCTTTTGATTTTCAT
1 TTCTTTT-ATTTT-AT
10994338 TTCTTTTAATTTTTAT
1 TTCTTTT-A-TTTTAT
10994354 TT
1 TT
10994356 TCAATATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
13 7 0.24
14 1 0.03
15 3 0.10
16 14 0.48
17 4 0.14
ACGTcount: A:0.15, C:0.09, G:0.02, T:0.74
Consensus pattern (14 bp):
TTCTTTTATTTTAT
Found at i:10999068 original size:19 final size:20
Alignment explanation
Indices: 10999031--10999121 Score: 56
Period size: 20 Copynumber: 4.8 Consensus size: 20
10999021 TTTATAATTG
10999031 ATGAAATAATATCTTTTGAT
1 ATGAAATAATATCTTTTGAT
10999051 ATGAAATTAAT-T-TTTTGATTT
1 ATGAAA-TAATATCTTTTGA--T
* **
10999072 ATG--AT-TTAT-AATTGA-
1 ATGAAATAATATCTTTTGAT
10999087 -TGAAATAATATCTTTTGAT
1 ATGAAATAATATCTTTTGAT
10999106 ATGAAATTAAT-TCTTT
1 ATGAAA-TAATATCTTT
10999122 GAATGCTTAC
Statistics
Matches: 54, Mismatches: 6, Indels: 22
0.66 0.07 0.27
Matches are distributed among these distances:
14 2 0.04
16 2 0.04
17 4 0.07
18 10 0.19
19 7 0.13
20 17 0.31
21 12 0.22
ACGTcount: A:0.37, C:0.03, G:0.10, T:0.49
Consensus pattern (20 bp):
ATGAAATAATATCTTTTGAT
Found at i:10999070 original size:55 final size:55
Alignment explanation
Indices: 10999011--10999123 Score: 217
Period size: 55 Copynumber: 2.1 Consensus size: 55
10999001 TATTTGACCA
*
10999011 TGATTTATGATTTATAATTGATGAAATAATATCTTTTGATATGAAATTAATTTTT
1 TGATTTATGATTTATAATTGATGAAATAATATCTTTTGATATGAAATTAATTCTT
10999066 TGATTTATGATTTATAATTGATGAAATAATATCTTTTGATATGAAATTAATTCTT
1 TGATTTATGATTTATAATTGATGAAATAATATCTTTTGATATGAAATTAATTCTT
10999121 TGA
1 TGA
10999124 ATGCTTACAT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 57 1.00
ACGTcount: A:0.36, C:0.03, G:0.12, T:0.50
Consensus pattern (55 bp):
TGATTTATGATTTATAATTGATGAAATAATATCTTTTGATATGAAATTAATTCTT
Found at i:11003739 original size:14 final size:14
Alignment explanation
Indices: 11003731--11003770 Score: 53
Period size: 16 Copynumber: 2.7 Consensus size: 14
11003721 AATATTATTT
11003731 TTTAAATATAAATA
1 TTTAAATATAAATA
11003745 TTTAAATATATAATTA
1 TTTAAATATA-AA-TA
*
11003761 TATAAATATA
1 TTTAAATATA
11003771 TATAAATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 10 0.43
15 2 0.09
16 11 0.48
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TTTAAATATAAATA
Found at i:11003752 original size:8 final size:8
Alignment explanation
Indices: 11003736--11003772 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
11003726 TATTTTTTAA
11003736 ATATAAAT
1 ATATAAAT
*
11003744 ATTTAAAT
1 ATATAAAT
*
11003752 ATATAATT
1 ATATAAAT
11003760 ATATAAAT
1 ATATAAAT
11003768 ATATA
1 ATATA
11003773 TAAATAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (8 bp):
ATATAAAT
Found at i:11003779 original size:14 final size:14
Alignment explanation
Indices: 11003733--11003780 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
11003723 TATTATTTTT
* *
11003733 TAAATATAAATATT
1 TAAATATATATATA
11003747 TAAATATATAATTATA
1 TAAATATAT-A-TATA
*
11003763 TAAATATATATAAA
1 TAAATATATATATA
11003777 TAAA
1 TAAA
11003781 AAAATTAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
14 15 0.52
15 2 0.07
16 12 0.41
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
TAAATATATATATA
Found at i:11003803 original size:21 final size:23
Alignment explanation
Indices: 11003763--11003804 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
11003753 TATAATTATA
11003763 TAAATATATATAAATAAAAAAAT
1 TAAATATATATAAATAAAAAAAT
*
11003786 TAAATA-AT-TAATTAAAAAA
1 TAAATATATATAAATAAAAAA
11003805 TAATTTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 10 0.56
22 2 0.11
23 6 0.33
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (23 bp):
TAAATATATATAAATAAAAAAAT
Found at i:11005212 original size:2 final size:2
Alignment explanation
Indices: 11005205--11005233 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
11005195 AAATTTTGTG
11005205 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 T
11005234 TATCACGTGA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11017230 original size:187 final size:187
Alignment explanation
Indices: 11016959--11017322 Score: 597
Period size: 187 Copynumber: 1.9 Consensus size: 187
11016949 TTGTATACCG
* **
11016959 CTACACATATTGTAACACTGCTATTGAAGGTGTATATTTAAGATAGACACCTTTAATAATTCCTA
1 CTACACATATTGTAACACTACTATTGAAGACGTATATTTAAGATAGACACCTTTAATAATTCCTA
*
11017024 TTACAGTTTGTATATAATTACTGAAGGCAGTTTTAAAAAACAACACCTTCAATAA-TTTCCTTAA
66 TTACAGTTTGTATATAATTACTGAAGGCAGTTTCAAAAAACAACACCTTCAATAATTTTCC-TAA
* *
11017088 TAAAAGTTTTCAGGATTATTAAAGGCGTCTTTTATTATAAAATGCCTTCTATATATCA
130 TAAAAGTTTTCAGGATTATTAAAGGCGTATTTTATTATAAAACGCCTTCTATATATCA
*
11017146 CTACACATATTGTAACACTATTATTGAAGACGTATATTTAAGATAGACACCTTTAATAATTCCTA
1 CTACACATATTGTAACACTACTATTGAAGACGTATATTTAAGATAGACACCTTTAATAATTCCTA
** * *
11017211 TCT-CAGTTTGTATATAATTACTGAAGGTGGTTTCAAAAAATAACGCCTTCAATAATTTTCCTAA
66 T-TACAGTTTGTATATAATTACTGAAGGCAGTTTCAAAAAACAACACCTTCAATAATTTTCCTAA
11017275 TAAAAGTTTTCAGGATTATTAAAGGCGTATTTTATTATAAAACGCCTT
130 TAAAAGTTTTCAGGATTATTAAAGGCGTATTTTATTATAAAACGCCTT
11017323 TGATATACCA
Statistics
Matches: 164, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
187 158 0.96
188 6 0.04
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (187 bp):
CTACACATATTGTAACACTACTATTGAAGACGTATATTTAAGATAGACACCTTTAATAATTCCTA
TTACAGTTTGTATATAATTACTGAAGGCAGTTTCAAAAAACAACACCTTCAATAATTTTCCTAAT
AAAAGTTTTCAGGATTATTAAAGGCGTATTTTATTATAAAACGCCTTCTATATATCA
Found at i:11017645 original size:333 final size:333
Alignment explanation
Indices: 11017102--11017980 Score: 1287
Period size: 333 Copynumber: 2.6 Consensus size: 333
11017092 AGTTTTCAGG
* * * *
11017102 ATTATTAAAGGCGTCTTTTATTATAAAATGCCTTCTATATATCACTACACATATTGTAACACTAT
1 ATTATTAAAGGCGTCTTTTACTGTAAAATGCCTTCTATATACCGCTACACATATTGTAACACTAT
** *
11017167 TATTG-AAGACGTATATTTAAGATAGACACCTTTAATAATTCCTATCTCAGTTTGTATATAATTA
66 TATTGAAAG-CGTATATTTAAGATAGATGCCTTTAATAATTCCTATCACAGTTTGTATATAATTA
* *
11017231 CTGAAGGTGGTTTCAAAAAATAACGCCTTCAATAATTTTCCTAATAAAAGTTTTCAGGATTATTA
130 CTGAAGGCGGTTTCAGAAAATAACGCCTTCAATAATTTTCCTAATAAAAGTTTTCAGGATTATTA
* *
11017296 AAGGCGTATTTTATTATAAAACGCCTTTGATATACCACGATGGTAATAAAAGGCGTTTATTAAAA
195 AAGGCGTTTTTTATTATAAAACGCCTTCGATATACCACGATGGTAATAAAAGGCGTTTATTAAAA
* * *
11017361 AATACGCCTTCAATTACTAAAGGCGTTTGTTAATAACAGACGGCTTTAAAATTTTCTCACTAAAT
260 AAGACGCCTTCAATTACTAAAGGCGTTTGTTAATAACAGACGCCTTCAAAATTTTCTCACTAAAT
11017426 ATTTTAAGA
325 ATTTTAAGA
* * * *
11017435 ATTAGTAAAGGCATCTTTTACTGTAAAATACCTTCTATATACCGTTACACATATTGTAACACTAT
1 ATTATTAAAGGCGTCTTTTACTGTAAAATGCCTTCTATATACCGCTACACATATTGTAACACTAT
11017500 TATTGAAAGCGTATATTTAAGATAGATGCCTTTAATAATTCCTATCACAGTTTGTATATAATTAC
66 TATTGAAAGCGTATATTTAAGATAGATGCCTTTAATAATTCCTATCACAGTTTGTATATAATTAC
*
11017565 TGAAGGCGGTTTCAGAAAATAACGCCTTCAATAATTTCCCTAATAAAAGTTTTCAGGATTATTAA
131 TGAAGGCGGTTTCAGAAAATAACGCCTTCAATAATTTTCCTAATAAAAGTTTTCAGGATTATTAA
** ** *
11017630 AGGTATTTTTTATTATAAAACGCCTTCGATATACCACGATGGTAATCGAAGGCGTTTATTAGAAA
196 AGGCGTTTTTTATTATAAAACGCCTTCGATATACCACGATGGTAATAAAAGGCGTTTATTAAAAA
** * *
11017695 AGGTGCCTTCAATTACTGAAGGCGTTTGTTACTAACAGACGCCTTCAAAATTTTCTCACTAAATA
261 AGACGCCTTCAATTACTAAAGGCGTTTGTTAATAACAGACGCCTTCAAAATTTTCTCACTAAATA
11017760 TTTTAAGA
326 TTTTAAGA
* * * *
11017768 ATTATTAAAAGTGTCTTCTACTGTAAAATGCCTTCTATATACCGCTACACATATTGTAACATTAT
1 ATTATTAAAGGCGTCTTTTACTGTAAAATGCCTTCTATATACCGCTACACATATTGTAACACTAT
* ** * * *
11017833 TATTGAAGGTATATATTTAAGATAGATGCCTTTAATAATTCCTATCAATAATTCGTATATAATTA
66 TATTGAAAGCGTATATTTAAGATAGATGCCTTTAATAATTCCTATC-ACAGTTTGTATATAATTA
* * * * * ** *
11017898 CTGAAGGCGATTTCAGATAACAACGCCTTTAATATTTTTTTTAA-AAAA-TTTTCTCGGATTATT
130 CTGAAGGCGGTTTCAGAAAATAACGCCTTCAATAATTTTCCTAATAAAAGTTTTC-AGGATTATT
*
11017961 AAAGACGTTTTTTATTATAA
194 AAAGGCGTTTTTTATTATAA
11017981 GCTACCTTTA
Statistics
Matches: 489, Mismatches: 54, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
332 5 0.01
333 430 0.88
334 54 0.11
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (333 bp):
ATTATTAAAGGCGTCTTTTACTGTAAAATGCCTTCTATATACCGCTACACATATTGTAACACTAT
TATTGAAAGCGTATATTTAAGATAGATGCCTTTAATAATTCCTATCACAGTTTGTATATAATTAC
TGAAGGCGGTTTCAGAAAATAACGCCTTCAATAATTTTCCTAATAAAAGTTTTCAGGATTATTAA
AGGCGTTTTTTATTATAAAACGCCTTCGATATACCACGATGGTAATAAAAGGCGTTTATTAAAAA
AGACGCCTTCAATTACTAAAGGCGTTTGTTAATAACAGACGCCTTCAAAATTTTCTCACTAAATA
TTTTAAGA
Found at i:11022038 original size:36 final size:36
Alignment explanation
Indices: 11021984--11022061 Score: 104
Period size: 36 Copynumber: 2.2 Consensus size: 36
11021974 ATATATAAAC
* * *
11021984 CAAATA-TTTTCTGGGCATAAATATACATCTGACAA
1 CAAATATTTTTCTGAGCATAAACATACAACTGACAA
**
11022019 CAAATATTTTTCTGAGCATAAACATACAACTGACTT
1 CAAATATTTTTCTGAGCATAAACATACAACTGACAA
11022055 CAAATAT
1 CAAATAT
11022062 CAATTATGTT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
35 6 0.16
36 31 0.84
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (36 bp):
CAAATATTTTTCTGAGCATAAACATACAACTGACAA
Found at i:11038607 original size:16 final size:15
Alignment explanation
Indices: 11038578--11038621 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
11038568 TCTATCCTTC
11038578 TTTTA-TTTATTTCT
1 TTTTATTTTATTTCT
11038592 TTTTATTTTCATTTCT
1 TTTTATTTT-ATTTCT
*
11038608 TTTAATTTTTATTT
1 TTTTA-TTTTATTT
11038622 TCAATATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
14 5 0.19
15 3 0.12
16 14 0.54
17 4 0.15
ACGTcount: A:0.16, C:0.07, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTTATTTTATTTCT
Found at i:11038632 original size:22 final size:22
Alignment explanation
Indices: 11038591--11038634 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
11038581 TATTTATTTC
*
11038591 TTTTTATTTTCATTTCTTTTAA
1 TTTTTATTTTCATATCTTTTAA
11038613 TTTTTATTTTCAATAT-TTTTAA
1 TTTTTATTTTC-ATATCTTTTAA
11038635 AATCTGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 17 0.85
23 3 0.15
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (22 bp):
TTTTTATTTTCATATCTTTTAA
Found at i:11038737 original size:21 final size:21
Alignment explanation
Indices: 11038690--11038730 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
11038680 ACAAAAAGAA
*
11038690 AAAGAAACACTTAGAAAAAAG
1 AAAGAAAAACTTAGAAAAAAG
11038711 AAAGAAAAACTTAGAAAAAA
1 AAAGAAAAACTTAGAAAAAA
11038731 TTTAGAAGCA
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:0.71, C:0.07, G:0.12, T:0.10
Consensus pattern (21 bp):
AAAGAAAAACTTAGAAAAAAG
Found at i:11040071 original size:1 final size:1
Alignment explanation
Indices: 11040065--11040118 Score: 54
Period size: 1 Copynumber: 54.0 Consensus size: 1
11040055 TAGGAATGTG
* * * * **
11040065 TTTTTTTTTTATTATTATTATTTTTTTTTTTTTTTTTTCCTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
11040119 CGTTGTTTCC
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 43 1.00
ACGTcount: A:0.07, C:0.04, G:0.00, T:0.89
Consensus pattern (1 bp):
T
Found at i:11040108 original size:16 final size:16
Alignment explanation
Indices: 11040089--11040119 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
11040079 TTATTATTTT
11040089 TTTTTTTTTTTTTTCC
1 TTTTTTTTTTTTTTCC
11040105 TTTTTTTTTTTTTTC
1 TTTTTTTTTTTTTTC
11040120 GTTGTTTCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (16 bp):
TTTTTTTTTTTTTTCC
Found at i:11040599 original size:13 final size:13
Alignment explanation
Indices: 11040581--11040606 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11040571 CTGAAGAAAT
11040581 TTGAATTTTTCGA
1 TTGAATTTTTCGA
11040594 TTGAATTTTTCGA
1 TTGAATTTTTCGA
11040607 CGAAGATTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.15, T:0.54
Consensus pattern (13 bp):
TTGAATTTTTCGA
Found at i:11040980 original size:18 final size:18
Alignment explanation
Indices: 11040946--11040979 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11040936 CATTCGTAGG
*
11040946 TTTTTTTTTTCCATTTTC
1 TTTTTTTTTTCAATTTTC
11040964 TTTTTTTTTT-AATTTT
1 TTTTTTTTTTCAATTTT
11040980 TATTTCATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.82
Consensus pattern (18 bp):
TTTTTTTTTTCAATTTTC
Done.