Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167915.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_18, 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: 20765110
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 90000 characters in sequence are not A, C, G, or T
File 49 of 117
Found at i:11304647 original size:142 final size:144
Alignment explanation
Indices: 11304492--11304790 Score: 363
Period size: 142 Copynumber: 2.1 Consensus size: 144
11304482 ATTTTTGTTA
** * * * * * *
11304492 TTTATAATTTTAACAACTATTACATTTTTAAGATAAAGAAACATAGTGGTTGTTGAAATCATATT
1 TTTATAATTTTAACAAAAATCACATTTTTAAGATAAAAAAACAAAGTGGATATTGAAATCATAAT
* *
11304557 TTTGGAATTCTAAAATTTTAACAAAAATCAAAATTTTAAAAT-AAAAATA-A-TGGATGTTGAAA
66 TTTGAAATTCTAAAATTTTAACAAAAAT-AAAATTTTAAAATAAAAAATATAGTGAATGTTGAAA
11304619 CTT-GATTTTCAAAAT
130 -TTAGATTTTCAAAAT
* * *
11304634 TTTTTAATTTTAACAAAAATCACATTTTTAAGATAAAAAAATAAAGTGGATATTGAAATTATAAT
1 TTTATAATTTTAACAAAAATCACATTTTTAAGATAAAAAAACAAAGTGGATATTGAAATCATAAT
* * *** *
11304699 TTTGAAATTCTTAAATTTTAACAAAACTATGTTTTTAAGATAAAAAATATAGTGAATGTTGAAAT
66 TTTGAAATTCTAAAATTTTAACAAAAATAAAATTTTAAAATAAAAAATATAGTGAATGTTGAAAT
*
11304764 TATATTTTCAAAAT
131 TAGATTTTCAAAAT
*
11304778 TTTAAAATTTTAA
1 TTTATAATTTTAA
11304791 TAAAGATTGT
Statistics
Matches: 131, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
141 9 0.07
142 86 0.66
143 3 0.02
144 33 0.25
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.40
Consensus pattern (144 bp):
TTTATAATTTTAACAAAAATCACATTTTTAAGATAAAAAAACAAAGTGGATATTGAAATCATAAT
TTTGAAATTCTAAAATTTTAACAAAAATAAAATTTTAAAATAAAAAATATAGTGAATGTTGAAAT
TAGATTTTCAAAAT
Found at i:11304807 original size:71 final size:71
Alignment explanation
Indices: 11304623--11304790 Score: 196
Period size: 71 Copynumber: 2.3 Consensus size: 71
11304613 TTGAAACTTG
* * * ** *
11304623 ATTTTCAAAATTTTTTAATTTTAACAAAAATCACATTTTTAAGATAAAAAAATAAAGTGGATATT
1 ATTTT-AAAATTCTTAAATTTTAACAAAACT-ATGTTTTTAAGAT-AAAAAATAAAGTGAATATT
11304688 GAAATTATA
63 GAAATTATA
* * *
11304697 ATTTTGAAATTCTTAAATTTTAACAAAACTATGTTTTTAAGATAAAAAATATAGTGAATGTTGAA
1 ATTTTAAAATTCTTAAATTTTAACAAAACTATGTTTTTAAGATAAAAAATAAAGTGAATATTGAA
11304762 ATTAT-
66 ATTATA
11304767 ATTTTCAAAATT-TTAAAATTTTAA
1 ATTTT-AAAATTCTT-AAATTTTAA
11304791 TAAAGATTGT
Statistics
Matches: 82, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
70 7 0.09
71 38 0.46
72 11 0.13
73 21 0.26
74 5 0.06
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.42
Consensus pattern (71 bp):
ATTTTAAAATTCTTAAATTTTAACAAAACTATGTTTTTAAGATAAAAAATAAAGTGAATATTGAA
ATTATA
Found at i:11304834 original size:144 final size:142
Alignment explanation
Indices: 11304492--11304836 Score: 331
Period size: 142 Copynumber: 2.4 Consensus size: 142
11304482 ATTTTTGTTA
* * * * * * *
11304492 TTTATAATTTTAACAACTATTACATTTTT-AAGATAAAGAAACATAGTGGTTGTTGAAATCATAT
1 TTTAAAATTTTAACAA-AAATACATTTTTAAAAAAAAAGAAACATAGTGGATGTTGAAATCATAA
* *
11304556 TTTTGGAATTCTAAAATTTTAACAAAAATCAAAATTTTAAAATAAAAATAATGGATGTTGAAACT
65 TTTTGAAATTCTAAAATTTTAACAAAAATCAAAATTTTAAAATAAAAATAATGAATGTTGAAACT
11304621 TGATTTTCAAAAT
130 TGATTTTCAAAAT
** * * * * * *
11304634 TTTTTAATTTTAACAAAAATCACATTTTTAAGATAAAA-AAATAAAGTGGATATTGAAATTATAA
1 TTTAAAATTTTAACAAAAAT-ACATTTTTAAAAAAAAAGAAACATAGTGGATGTTGAAATCATAA
* * *** *
11304698 TTTTGAAATTCTTAAATTTTAACAAAACT-ATGTTTTTAAGATAAAAAATATAGTGAATGTTGAA
65 TTTTGAAATTCTAAAATTTTAACAAAAATCAAAATTTTAAAAT-AAAAATA-A-TGAATGTTGAA
*
11304762 A-TTATATTTTCAAAAT
127 ACTT-GATTTTCAAAAT
* * ** *
11304778 TTTAAAATTTTAATAAAGAT-TGTGTTTTAAAAAAAAAGAAACGTAGTGGATGTTGAAAT
1 TTTAAAATTTTAACAAAAATACAT-TTTTAAAAAAAAAGAAACATAGTGGATGTTGAAAT
11304837 AAGATCTCAT
Statistics
Matches: 161, Mismatches: 34, Indels: 14
0.77 0.16 0.07
Matches are distributed among these distances:
141 11 0.07
142 77 0.48
143 18 0.11
144 55 0.34
ACGTcount: A:0.46, C:0.05, G:0.10, T:0.39
Consensus pattern (142 bp):
TTTAAAATTTTAACAAAAATACATTTTTAAAAAAAAAGAAACATAGTGGATGTTGAAATCATAAT
TTTGAAATTCTAAAATTTTAACAAAAATCAAAATTTTAAAATAAAAATAATGAATGTTGAAACTT
GATTTTCAAAAT
Found at i:11305413 original size:25 final size:25
Alignment explanation
Indices: 11305385--11305436 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 25
11305375 ACCCCAAAGA
*
11305385 TTAAGTTTTAAATTTTATTTGTATT
1 TTAAGTTTTAAATTTAATTTGTATT
* * * *
11305410 TTAATTTTTTAGTTTAATTTTTATT
1 TTAAGTTTTAAATTTAATTTGTATT
11305435 TT
1 TT
11305437 TTTATTAAGA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (25 bp):
TTAAGTTTTAAATTTAATTTGTATT
Found at i:11306074 original size:20 final size:20
Alignment explanation
Indices: 11306049--11306088 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
11306039 TTTTGCATGA
*
11306049 ATTTGCATGACTAATATTAT
1 ATTTGCATGACTAACATTAT
*
11306069 ATTTGCATGATTAACATTAT
1 ATTTGCATGACTAACATTAT
11306089 TTTTCATAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.35, C:0.10, G:0.10, T:0.45
Consensus pattern (20 bp):
ATTTGCATGACTAACATTAT
Found at i:11306203 original size:20 final size:20
Alignment explanation
Indices: 11306178--11306220 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
11306168 CAATTAATAT
* *
11306178 TTTGCACAATTATTAATTTA
1 TTTGCACAATTATCAATTCA
*
11306198 TTTGCATAATTATCAATTCA
1 TTTGCACAATTATCAATTCA
11306218 TTT
1 TTT
11306221 ATTTGTGTGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.33, C:0.12, G:0.05, T:0.51
Consensus pattern (20 bp):
TTTGCACAATTATCAATTCA
Found at i:11306348 original size:41 final size:41
Alignment explanation
Indices: 11306303--11306930 Score: 774
Period size: 41 Copynumber: 15.7 Consensus size: 41
11306293 TATTACATAT
*
11306303 TTAATTGCATGATAATATATTTAATTGCATGTTTTATATTA
1 TTAATTGCATGATAATATATTTAATTGCATGTTTTATATTG
*
11306344 TTAATTGCATGATAATATATTTAATTGCAT-TTTT-T-TGG
1 TTAATTGCATGATAATATATTTAATTGCATGTTTTATATTG
* * * *
11306382 TTAATTACATTATTATATATTTAATTGCATGTTTTATATTA
1 TTAATTGCATGATAATATATTTAATTGCATGTTTTATATTG
*
11306423 TTAATTGCATGATAGTATATTTAATTGCATGTTTTATATTG
1 TTAATTGCATGATAATATATTTAATTGCATGTTTTATATTG
*
11306464 TTAATTGCATGATAATATATTTAATTGCA--TTTT-T-TGG
1 TTAATTGCATGATAATATATTTAATTGCATGTTTTATATTG
* *
11306501 TTAATTGCATGATTATATATCTAATTGCATGTTTTATATTG
1 TTAATTGCATGATAATATATTTAATTGCATGTTTTATATTG
*
11306542 TTAATTGCATGATAATATATTTAATTACATGTTTTATATTG
1 TTAATTGCATGATAATATATTTAATTGCATGTTTTATATTG
*
11306583 TTAATTGCATGATAATATATCTAATTGCATG-TTT-T-TTG
1 TTAATTGCATGATAATATATTTAATTGCATGTTTTATATTG
* *
11306621 TTAATTACATAACT-ATATATTTAATTGCATGTTTTATATTG
1 TTAATTGCATGA-TAATATATTTAATTGCATGTTTTATATTG
* * *
11306662 TTAATTACATGAT--TATATAT-ATTGGCATATTTTATATT-
1 TTAATTGCATGATAATATATTTAATT-GCATGTTTTATATTG
11306700 TTAATTGCATGATAATATATTT-A--GCATGTTTTATATTG
1 TTAATTGCATGATAATATATTTAATTGCATGTTTTATATTG
* * * * *
11306738 TTAATTGCATTATTATATATTTATTTGCTTGATTTATATTG
1 TTAATTGCATGATAATATATTTAATTGCATGTTTTATATTG
*** * * *
11306779 TTAATTTTGTGATTATATATTAAATTGCATGATTTATATTG
1 TTAATTGCATGATAATATATTTAATTGCATGTTTTATATTG
* *
11306820 TTAATTGCATGATTATATATTTAATTGCATGTTTTACATTG
1 TTAATTGCATGATAATATATTTAATTGCATGTTTTATATTG
* * *
11306861 TTAATTGCATGATTAGATATTTAA-TGCCATGTTTTA-CTTG
1 TTAATTGCATGATAATATATTTAATTG-CATGTTTTATATTG
* *
11306901 GTAATTGCATGATTATATATTTAATTGCAT
1 TTAATTGCATGATAATATATTTAATTGCAT
11306931 ATCTATTTGC
Statistics
Matches: 514, Mismatches: 53, Indels: 41
0.85 0.09 0.07
Matches are distributed among these distances:
37 42 0.08
38 93 0.18
39 37 0.07
40 48 0.09
41 294 0.57
ACGTcount: A:0.31, C:0.06, G:0.11, T:0.52
Consensus pattern (41 bp):
TTAATTGCATGATAATATATTTAATTGCATGTTTTATATTG
Found at i:11306442 original size:120 final size:119
Alignment explanation
Indices: 11306303--11306930 Score: 817
Period size: 120 Copynumber: 5.2 Consensus size: 119
11306293 TATTACATAT
*
11306303 TTAATTGCATGATAATATATTTAATTGCATGTTTTATATTATTAATTGCATGATAATATATTTAA
1 TTAATTGCATGAT-ATATATTTAATTGCATGTTTTATATTGTTAATTGCATGATAATATATTTAA
* * *
11306368 TTGCAT-TTTTTTGGTTAATTACATTATTATATATTTAATTGCATGTTTTATATTA
65 TTGCATGTTTTTT-GTTAATTGCATGATTATATATTTAATTGCATGTTTTATATTG
11306423 TTAATTGCATGATAGTATATTTAATTGCATGTTTTATATTGTTAATTGCATGATAATATATTTAA
1 TTAATTGCATGATA-TATATTTAATTGCATGTTTTATATTGTTAATTGCATGATAATATATTTAA
* *
11306488 TTGCAT-TTTTTGGTTAATTGCATGATTATATATCTAATTGCATGTTTTATATTG
65 TTGCATGTTTTTTGTTAATTGCATGATTATATATTTAATTGCATGTTTTATATTG
* *
11306542 TTAATTGCATGATAATATATTTAATTACATGTTTTATATTGTTAATTGCATGATAATATATCTAA
1 TTAATTGCATGAT-ATATATTTAATTGCATGTTTTATATTGTTAATTGCATGATAATATATTTAA
* * *
11306607 TTGCATGTTTTTTGTTAATTACATAACTATATATTTAATTGCATGTTTTATATTG
65 TTGCATGTTTTTTGTTAATTGCATGATTATATATTTAATTGCATGTTTTATATTG
* * *
11306662 TTAATTACATGAT-TATATAT-ATTGGCATATTTTATATT-TTAATTGCATGATAATATATTT-A
1 TTAATTGCATGATATATATTTAATT-GCATGTTTTATATTGTTAATTGCATGATAATATATTTAA
* * * *
11306723 --GCATGTTTTATATTGTTAATTGCATTATTATATATTTATTTGCTTGATTTATATTG
65 TTGCATG-TTT-T-TTGTTAATTGCATGATTATATATTTAATTGCATGTTTTATATTG
*** * * *
11306779 TTAATTTTGTGATTATATATTAAATTGCATGATTTATATTGTTAATTGCATGATTATATATTTAA
1 TTAATTGCATGA-TATATATTTAATTGCATGTTTTATATTGTTAATTGCATGATAATATATTTAA
* *
11306844 TTGCATGTTTTACATTGTTAATTGCATGATTAGATATTTAA-TGCCATGTTTTA-CTTG
65 TTGCATGTTTT---TTGTTAATTGCATGATTATATATTTAATTG-CATGTTTTATATTG
*
11306901 GTAATTGCATGATTATATATTTAATTGCAT
1 TTAATTGCATGA-TATATATTTAATTGCAT
11306931 ATCTATTTGC
Statistics
Matches: 448, Mismatches: 43, Indels: 32
0.86 0.08 0.06
Matches are distributed among these distances:
114 5 0.01
115 3 0.01
116 2 0.00
117 71 0.16
118 19 0.04
119 123 0.27
120 153 0.34
121 2 0.00
122 33 0.07
123 37 0.08
ACGTcount: A:0.31, C:0.06, G:0.11, T:0.52
Consensus pattern (119 bp):
TTAATTGCATGATATATATTTAATTGCATGTTTTATATTGTTAATTGCATGATAATATATTTAAT
TGCATGTTTTTTGTTAATTGCATGATTATATATTTAATTGCATGTTTTATATTG
Found at i:11306963 original size:26 final size:27
Alignment explanation
Indices: 11306929--11307008 Score: 72
Period size: 32 Copynumber: 2.8 Consensus size: 27
11306919 ATTTAATTGC
*
11306929 ATATCTATTTGCATGATTATTAATT-T
1 ATATTTATTTGCATGATTATTAATTAT
** *
11306955 ATATTTATTTGTGTGATTATAAGATTATTAAT
1 ATATTTATTTGCATGATTAT----TAATT-AT
11306987 ATATTTATTTGCATGATTATTA
1 ATATTTATTTGCATGATTATTA
11307009 CTATTGTTAT
Statistics
Matches: 41, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
26 17 0.41
28 1 0.02
30 4 0.10
32 19 0.46
ACGTcount: A:0.33, C:0.04, G:0.10, T:0.54
Consensus pattern (27 bp):
ATATTTATTTGCATGATTATTAATTAT
Found at i:11306995 original size:32 final size:33
Alignment explanation
Indices: 11306943--11307006 Score: 94
Period size: 32 Copynumber: 1.9 Consensus size: 33
11306933 CTATTTGCAT
**
11306943 GATTATTAATTTATATTTATTTGTGTGATTATAA
1 GATTATTAA-TTATATTTATTTGCATGATTATAA
11306977 GATTATTAA-TATATTTATTTGCATGATTAT
1 GATTATTAATTATATTTATTTGCATGATTAT
11307007 TACTATTGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 19 0.68
34 9 0.32
ACGTcount: A:0.33, C:0.02, G:0.11, T:0.55
Consensus pattern (33 bp):
GATTATTAATTATATTTATTTGCATGATTATAA
Found at i:11307039 original size:19 final size:20
Alignment explanation
Indices: 11306981--11307058 Score: 79
Period size: 19 Copynumber: 3.8 Consensus size: 20
11306971 TTATAAGATT
*
11306981 ATTAATATATTTATTTGCATG
1 ATTATTATATTTA-TTGCATG
11307002 ATTATTACTATTGTTATTGCATG
1 ATTATTA-TA-T-TTATTGCATG
11307025 ATT-TTATATTTATTGCATG
1 ATTATTATATTTATTGCATG
*
11307044 A-TATGATATTATATT
1 ATTATTATATT-TATT
11307059 AATTTTGAAT
Statistics
Matches: 50, Mismatches: 2, Indels: 11
0.79 0.03 0.17
Matches are distributed among these distances:
18 1 0.02
19 17 0.34
20 5 0.10
21 8 0.16
22 5 0.10
23 11 0.22
24 3 0.06
ACGTcount: A:0.31, C:0.05, G:0.10, T:0.54
Consensus pattern (20 bp):
ATTATTATATTTATTGCATG
Found at i:11307063 original size:278 final size:278
Alignment explanation
Indices: 11306295--11307087 Score: 665
Period size: 278 Copynumber: 2.9 Consensus size: 278
11306285 ATTTGTATTA
* * ** * *
11306295 TTACATAT-TTAATTGCATGATAATATATTTAATTGCATGTTTTATATTATTAATTGCATGA-TA
1 TTACAT-TGTTAATTGCATGATAAGATATCTAATTGCATG-TTT-T-TTGGTAATTACATAACT-
* * * * *
11306358 ATATATTTAATTGCAT--T-T-TTTTGGTTAATTACATTATTATATATTTAATT-GCATGTTTTA
61 ATATATTTAATTGCATGATCTATATT-GATAATTACATAATTATATA--T-ATTGGCATATTATA
* * * *
11306418 TATTATTAATTGCATGATAGTATATTTAATTGCATGTTTTATATTGTTAATTGCATGATAATATA
122 TA-GATTAATTGAATGATAATATATTT-A--GCATGTTTTATATTGTTAATTGCATGATTATATA
* * *** *
11306483 TTTAATTGCAT--TT--T-TTGGTTAATTGCATGATTATATATCTAATTGCATGTTTTATATTGT
183 TTTATTTGCATGATTGATATT-ATTAATTTTGTGATTATATATCTAATTGCATGATTTATATTGT
11306543 TAATTGCATGATAATATATTTAATTACATGTT
247 TAATTGCATGATAATATATTTAATTACATGTT
* * *
11306575 TTATATTGTTAATTGCATGATAATATATCTAATTGCATGTTTTTTGTTAATTACATAACTATATA
1 TTACATTGTTAATTGCATGATAAGATATCTAATTGCATGTTTTTTGGTAATTACATAACTATATA
* * * * * **
11306640 TTTAATTGCATGTTTTATATTGTTAATTACATGATTATATATATTGGCATATTTTATATTTTAAT
66 TTTAATTGCATGATCTATATTGATAATTACATAATTATATATATTGGCATATTATATAGATTAAT
* * *
11306705 TGCATGATAATATATTTAGCATGTTTTATATTGTTAATTGCATTATTATATATTTATTTGCTTGA
131 TGAATGATAATATATTTAGCATGTTTTATATTGTTAATTGCATGATTATATATTTATTTGCATGA
* * *
11306770 TTTATATTGTTAATTTTGTGATTATATAT-TAAATTGCATGATTTATATTGTTAATTGCATGATT
196 TTGATATTATTAATTTTGTGATTATATATCT-AATTGCATGATTTATATTGTTAATTGCATGATA
*
11306834 ATATATTTAATTGCATGTT
260 ATATATTTAATTACATGTT
* * * * *
11306853 TTACATTGTTAATTGCATGATTAGATATTTAA-TGCCATGTTTTACTTGGTAATTGCATGATTAT
1 TTACATTGTTAATTGCATGATAAGATATCTAATTG-CATGTTTT--TTGGTAATTACATAACTAT
* * * * **
11306917 ATATTTAATTGCAT-ATCTAT-TTGCATGATTA-TTAATTTATATTTATTTGTGTGATTATA-AG
63 ATATTTAATTGCATGATCTATATTG-ATAATTACATAA-TTATATATATTGGCAT-ATTATATAG
* *
11306978 ATT-ATT-AAT-AT-ATTTATTT-GCATGATTATTACTATTGTT-ATTGCATGATTTTATATTTA
125 ATTAATTGAATGATAATATATTTAGCATG-TT-TTA-TATTGTTAATTGCATGATTATATATTTA
11307037 -TTGCATGATATGATATTATATTAA-TTT-TGA--ATGATATCTAATTGCAT-ATTT
187 TTTGCATGAT-TGATA-T-TATTAATTTTGTGATTAT-ATATCTAATTGCATGATTT
11307088 TTATATTTAT
Statistics
Matches: 438, Mismatches: 48, Indels: 60
0.80 0.09 0.11
Matches are distributed among these distances:
274 52 0.12
275 29 0.07
276 34 0.08
277 69 0.16
278 131 0.30
279 31 0.07
280 89 0.20
281 3 0.01
ACGTcount: A:0.31, C:0.06, G:0.11, T:0.52
Consensus pattern (278 bp):
TTACATTGTTAATTGCATGATAAGATATCTAATTGCATGTTTTTTGGTAATTACATAACTATATA
TTTAATTGCATGATCTATATTGATAATTACATAATTATATATATTGGCATATTATATAGATTAAT
TGAATGATAATATATTTAGCATGTTTTATATTGTTAATTGCATGATTATATATTTATTTGCATGA
TTGATATTATTAATTTTGTGATTATATATCTAATTGCATGATTTATATTGTTAATTGCATGATAA
TATATTTAATTACATGTT
Found at i:11308315 original size:19 final size:19
Alignment explanation
Indices: 11308239--11308316 Score: 52
Period size: 19 Copynumber: 3.8 Consensus size: 19
11308229 GGGACAATTA
*
11308239 TTATT-CTTGTAAATTTATG
1 TTATTCCTTGTATATTT-TG
11308258 TTATTCCTTGTATATATTT-
1 TTATTCCTTGTATAT-TTTG
*
11308277 TTGGATACTAACCTTTTATATTTTG
1 TT--AT--T--CCTTGTATATTTTG
11308302 TTATTCCTTGTATAT
1 TTATTCCTTGTATAT
11308317 ATTATAACAT
Statistics
Matches: 47, Mismatches: 3, Indels: 18
0.69 0.04 0.26
Matches are distributed among these distances:
19 16 0.34
20 9 0.19
21 5 0.11
23 3 0.06
24 3 0.06
25 11 0.23
ACGTcount: A:0.23, C:0.10, G:0.09, T:0.58
Consensus pattern (19 bp):
TTATTCCTTGTATATTTTG
Found at i:11315012 original size:13 final size:13
Alignment explanation
Indices: 11314994--11315018 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11314984 AGAATCTTTT
11314994 CATTCATTGCATG
1 CATTCATTGCATG
11315007 CATTCATTGCAT
1 CATTCATTGCAT
11315019 ATGTTTGAAA
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:0.24, C:0.24, G:0.12, T:0.40
Consensus pattern (13 bp):
CATTCATTGCATG
Found at i:11315256 original size:43 final size:43
Alignment explanation
Indices: 11315195--11315412 Score: 237
Period size: 43 Copynumber: 5.1 Consensus size: 43
11315185 ACAATGATCT
* *
11315195 CATTTTATTTTTCAAAAGTTTCAAAGCCTCAATTATGAGGGAG
1 CATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTGTGAGGGAG
* * * * **
11315238 CATTTTACTTTTCCAAAGTTCCAAAGACTCAGTCATGAGGGAG
1 CATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTGTGAGGGAG
* * * * * *
11315281 CATTTTATTTTTCCAAAGTTCCAAAGCCTTAATTGTGGGGGGG
1 CATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTGTGAGGGAG
* *
11315324 CATTTTA--TTTCAAAACTTTCAAAGCCTCAGTTGTG-GAAGAG
1 CATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTGTGAG-GGAG
*
11315365 TATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTGT-AGGGGAG
1 CATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTGTGA-GGGAG
11315408 CATTT
1 CATTT
11315413 AAAAAAAGAG
Statistics
Matches: 145, Mismatches: 25, Indels: 10
0.81 0.14 0.06
Matches are distributed among these distances:
40 1 0.01
41 31 0.21
43 112 0.77
44 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (43 bp):
CATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTGTGAGGGAG
Found at i:11315383 original size:84 final size:84
Alignment explanation
Indices: 11315195--11315412 Score: 260
Period size: 84 Copynumber: 2.6 Consensus size: 84
11315185 ACAATGATCT
* * * *
11315195 CATTTTATTTTTCAAAAGTTTCAAAGCCTCAATTATGAGGGAGCATTTTACTTTTCCAAAGTTCC
1 CATTTTATTTTTCAAAAGTTTCAAAGCCTCAATTGTGGGGGAGCATTTTAC-TTTCAAAACTTCC
11315260 AAAGACTCAGTCATGAGGGAG
65 AAAGACTCAGT-ATGAGGGAG
* * * * *
11315281 CATTTTATTTTTCCAAAGTTCCAAAGCCTTAATTGTGGGGGGGCATTTTA-TTTCAAAACTTTCA
1 CATTTTATTTTTCAAAAGTTTCAAAGCCTCAATTGTGGGGGAGCATTTTACTTTCAAAACTTCCA
* *
11315345 AAGCCTCAGT-TGTGGAAGAG
66 AAGACTCAGTATGAGG--GAG
* * *
11315365 TATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTGTAGGGGAGCATTT
1 CATTTTATTTTTCAAAAGTTTCAAAGCCTCAATTGTGGGGGAGCATTT
11315413 AAAAAAAGAG
Statistics
Matches: 112, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
82 4 0.04
84 64 0.57
86 44 0.39
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (84 bp):
CATTTTATTTTTCAAAAGTTTCAAAGCCTCAATTGTGGGGGAGCATTTTACTTTCAAAACTTCCA
AAGACTCAGTATGAGGGAG
Found at i:11316347 original size:20 final size:20
Alignment explanation
Indices: 11316322--11316367 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
11316312 TTGCATGAAA
11316322 TTGCATAACTAACATTATAT
1 TTGCATAACTAACATTATAT
* * *
11316342 TTGCATGATTAATATTATAT
1 TTGCATAACTAACATTATAT
11316362 TTGCAT
1 TTGCAT
11316368 GATAATTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.35, C:0.11, G:0.09, T:0.46
Consensus pattern (20 bp):
TTGCATAACTAACATTATAT
Found at i:11316388 original size:32 final size:33
Alignment explanation
Indices: 11316351--11316414 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
11316341 TTTGCATGAT
* *
11316351 TAATATTATATTTGCATGA-TAATTTATTTGTC
1 TAATATTATATTTACATGATTAATATATTTGTC
*
11316383 TAATATTTTATTTACATGATTAATATATTTGT
1 TAATATTATATTTACATGATTAATATATTTGT
11316415 GTGATTTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.33, C:0.05, G:0.08, T:0.55
Consensus pattern (33 bp):
TAATATTATATTTACATGATTAATATATTTGTC
Found at i:11316445 original size:20 final size:20
Alignment explanation
Indices: 11316401--11316463 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
11316391 TATTTACATG
***
11316401 ATTAATATATTTGTGTGATTT
1 ATTAATATATTTACATGA-TT
*
11316422 ATTAATATGTTTACATGATT
1 ATTAATATATTTACATGATT
* *
11316442 ATTAATTTATTTGCATGATT
1 ATTAATATATTTACATGATT
11316462 AT
1 AT
11316464 CACTTTATTT
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
20 21 0.60
21 14 0.40
ACGTcount: A:0.32, C:0.03, G:0.11, T:0.54
Consensus pattern (20 bp):
ATTAATATATTTACATGATT
Found at i:11316470 original size:20 final size:20
Alignment explanation
Indices: 11316435--11316473 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
11316425 AATATGTTTA
*
11316435 CATGATTATTAATTTATTTG
1 CATGATTATCAATTTATTTG
*
11316455 CATGATTATCACTTTATTT
1 CATGATTATCAATTTATTT
11316474 ATTTGTGCGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.10, G:0.08, T:0.54
Consensus pattern (20 bp):
CATGATTATCAATTTATTTG
Found at i:11316578 original size:20 final size:20
Alignment explanation
Indices: 11316550--11317091 Score: 372
Period size: 20 Copynumber: 26.8 Consensus size: 20
11316540 TGTTTATATT
11316550 ATTATATATTTAATTGCATG
1 ATTATATATTTAATTGCATG
*
11316570 ATAATATATTTAATTGCAT-
1 ATTATATATTTAATTGCATG
*
11316589 -TT-T-TTTGTTAATTGCATG
1 ATTATATAT-TTAATTGCATG
*
11316607 AGTATATATTTAATTGCAT-
1 ATTATATATTTAATTGCATG
* * *
11316626 ATTTTATATTGTTAACTACATG
1 ATTATATA-T-TTAATTGCATG
*
11316648 A-TAGTATATTTGATTGCATG
1 ATTA-TATATTTAATTGCATG
*
11316668 -TTTTATATTGTTAATTGCATG
1 ATTATATA-T-TTAATTGCATG
* *
11316689 ATAATATATCTAATTGCAT-
1 ATTATATATTTAATTGCATG
* * *
11316708 -TT-TTTTTGTTAATTGCATA
1 ATTATATAT-TTAATTGCATG
11316727 ATTATATATTTAATTGCATG
1 ATTATATATTTAATTGCATG
*
11316747 TTTGATAT-TGTTAATTGCATG
1 ATT-ATATAT-TTAATTGCATG
* *
11316768 ATTATATGTAT-ATTGGCATG
1 ATTATATATTTAATT-GCATG
*
11316788 -TTTTATACTGTTAATTGCATG
1 ATTATATA-T-TTAATTGCATG
* * *
11316809 GTAATACATTT-A--GCATG
1 ATTATATATTTAATTGCATG
* *
11316826 -TTTTATATTGTTAATCGCATG
1 ATTATATA-T-TTAATTGCATG
11316847 ATTCATAT-TGTTAATTGCATG
1 ATT-ATATAT-TTAATTGCATG
* **
11316868 ATTATATATTTATTTGTGTG
1 ATTATATATTTAATTGCATG
11316888 ATT-TATATTGTTAATTGCATG
1 ATTATATA-T-TTAATTGCATG
*
11316909 ATTATATATTTAATTGCACG
1 ATTATATATTTAATTGCATG
*
11316929 ATT-TATATTGTTAATTGCTTG
1 ATTATATA-T-TTAATTGCATG
*
11316950 CATAATTTATATTGTTAATTGCATG
1 -AT--TATATA-T-TTAATTGCATG
*
11316975 ATTATATATTTAATTGCATA
1 ATTATATATTTAATTGCATG
11316995 ATTATATATTTAATTGCATG
1 ATTATATATTTAATTGCATG
*
11317015 ATCATATATTTTAATTGCATG
1 ATTATATA-TTTAATTGCATG
*
11317036 ATTAGATATTTAA-TGCCATG
1 ATTATATATTTAATTG-CATG
* *
11317056 -TTTTACATTGTTAATTGCATG
1 ATTATATA-T-TTAATTGCATG
11317077 ATTATATATTTAATT
1 ATTATATATTTAATT
11317092 ACATATCTAT
Statistics
Matches: 414, Mismatches: 60, Indels: 96
0.73 0.11 0.17
Matches are distributed among these distances:
16 6 0.01
17 20 0.05
18 13 0.03
19 35 0.08
20 159 0.38
21 121 0.29
22 37 0.09
23 3 0.01
24 3 0.01
25 17 0.04
ACGTcount: A:0.31, C:0.07, G:0.12, T:0.50
Consensus pattern (20 bp):
ATTATATATTTAATTGCATG
Found at i:11316656 original size:41 final size:40
Alignment explanation
Indices: 11316551--11317035 Score: 396
Period size: 41 Copynumber: 11.9 Consensus size: 40
11316541 GTTTATATTA
11316551 TTATATAT-TTAATTGCATGATAATATATTTAATTGCA--TT
1 TTATAT-TGTTAATTGCATGAT-ATATATTTAATTGCATGTT
*
11316590 TT-T-TTGTTAATTGCATGAGTATATATTTAATTGCATATT
1 TTATATTGTTAATTGCATGA-TATATATTTAATTGCATGTT
* * *
11316629 TTATATTGTTAACTACATGATAGTATATTTGATTGCATGTT
1 TTATATTGTTAATTGCATGATA-TATATTTAATTGCATGTT
*
11316670 TTATATTGTTAATTGCATGATAATATATCTAATTGCAT-TT
1 TTATATTGTTAATTGCATGAT-ATATATTTAATTGCATGTT
*
11316710 TT-T-TTGTTAATTGCATAATTATATATTTAATTGCATGTT
1 TTATATTGTTAATTGCATGA-TATATATTTAATTGCATGTT
* *
11316749 TGATATTGTTAATTGCATGAT-TATATGTATATTGGCATGTT
1 TTATATTGTTAATTGCATGATATATATTTA-ATT-GCATGTT
* * *
11316790 TTATACTGTTAATTGCATGGTAATACATTT-A--GCATGTT
1 TTATATTGTTAATTGCATGAT-ATATATTTAATTGCATGTT
* *
11316828 TTATATTGTTAATCGCATGAT-TCATATTGTTAATTGCATG-A
1 TTATATTGTTAATTGCATGATAT-ATA-T-TTAATTGCATGTT
* ** * *
11316869 TTATATAT-TTATTTGTGTGATTTATATTGTTAATTGCATG-A
1 TTATAT-TGTTAATTGCATGATATATA-T-TTAATTGCATGTT
* * *
11316910 TTATATAT-TTAATTGCACGATTTATATTGTTAATTGCTTGCATAAT
1 TTATAT-TGTTAATTGCATGATATATA-T-TTAATTGCATG--T--T
**
11316956 TTATATTGTTAATTGCATGATTATATATTTAATTGCAT-AA
1 TTATATTGTTAATTGCATGA-TATATATTTAATTGCATGTT
11316996 TTATATAT-TTAATTGCATGATCATATATTTTAATTGCATG
1 TTATAT-TGTTAATTGCATGAT-ATATA-TTTAATTGCATG
11317036 ATTAGATATT
Statistics
Matches: 373, Mismatches: 38, Indels: 67
0.78 0.08 0.14
Matches are distributed among these distances:
36 2 0.01
37 30 0.08
38 57 0.15
39 21 0.06
40 36 0.10
41 181 0.49
42 8 0.02
43 5 0.01
45 10 0.03
46 18 0.05
47 5 0.01
ACGTcount: A:0.30, C:0.07, G:0.13, T:0.51
Consensus pattern (40 bp):
TTATATTGTTAATTGCATGATATATATTTAATTGCATGTT
Found at i:11316950 original size:25 final size:25
Alignment explanation
Indices: 11316922--11316971 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
11316912 ATATATTTAA
*
11316922 TTGCACGATTTATATTGTTAATTGC
1 TTGCACAATTTATATTGTTAATTGC
*
11316947 TTGCATAATTTATATTGTTAATTGC
1 TTGCACAATTTATATTGTTAATTGC
11316972 ATGATTATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.26, C:0.10, G:0.14, T:0.50
Consensus pattern (25 bp):
TTGCACAATTTATATTGTTAATTGC
Found at i:11317006 original size:127 final size:128
Alignment explanation
Indices: 11316827--11317073 Score: 349
Period size: 127 Copynumber: 1.9 Consensus size: 128
11316817 TTTAGCATGT
* * ** *
11316827 TTTATATTGTTAATCGCATGATTCATATTGTTAATTGCATGATTATATATTTATTTGTGTGAT-T
1 TTTATATTGTTAATCGCATGATTCATATTGTTAATTGCATAATTATATATTTAATTGCATGATCA
* *
11316891 TATATTGTTAATTGCATGATTATATATTTAATTG-CACGATTTATATTGTTAATTGCTTGCATAA
66 TATATT-TTAATTGCATGATTAGATATTTAA-TGCCACGATTTACATTGTTAATTGCTTGCATAA
*
11316955 TTTATATTGTTAATTGCATGATT-ATATAT-TTAATTGCATAATTATATATTTAATTGCATGATC
1 TTTATATTGTTAATCGCATGATTCATAT-TGTTAATTGCATAATTATATATTTAATTGCATGATC
* *
11317018 ATATATTTTAATTGCATGATTAGATATTTAATGCCATGTTTTACATTGTTAATTGC
65 ATATATTTTAATTGCATGATTAGATATTTAATGCCACGATTTACATTGTTAATTGC
11317074 ATGATTATAT
Statistics
Matches: 106, Mismatches: 10, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
126 2 0.02
127 75 0.71
128 29 0.27
ACGTcount: A:0.30, C:0.07, G:0.12, T:0.50
Consensus pattern (128 bp):
TTTATATTGTTAATCGCATGATTCATATTGTTAATTGCATAATTATATATTTAATTGCATGATCA
TATATTTTAATTGCATGATTAGATATTTAATGCCACGATTTACATTGTTAATTGCTTGCATAA
Found at i:11317045 original size:41 final size:40
Alignment explanation
Indices: 11316550--11317091 Score: 376
Period size: 41 Copynumber: 13.4 Consensus size: 40
11316540 TGTTTATATT
11316550 ATTATATAT-TTAATTGCATGATAATATATTTAATTGCAT-
1 ATTATATATGTTAATTGCATGAT-ATATATTTAATTGCATG
*
11316589 -TT-T-TTTGTTAATTGCATGAGTATATATTTAATTGCAT-
1 ATTATATATGTTAATTGCATGA-TATATATTTAATTGCATG
* * * *
11316626 ATTTTATATTGTTAACTACATGATAGTATATTTGATTGCATG
1 ATTATATA-TGTTAATTGCATGATA-TATATTTAATTGCATG
* *
11316668 -TTTTATATTGTTAATTGCATGATAATATATCTAATTGCAT-
1 ATTATATA-TGTTAATTGCATGAT-ATATATTTAATTGCATG
* * *
11316708 -TT-TTTTTGTTAATTGCATAATTATATATTTAATTGCATG
1 ATTATATATGTTAATTGCATGA-TATATATTTAATTGCATG
* *
11316747 TTTGATAT-TGTTAATTGCATGAT-TATATGTATATTGGCATG
1 ATT-ATATATGTTAATTGCATGATATATATTTA-ATT-GCATG
* * *
11316788 -TTTTATACTGTTAATTGCATGGTAATACATTT-A--GCATG
1 ATTATATA-TGTTAATTGCATGAT-ATATATTTAATTGCATG
* *
11316826 -TTTTATATTGTTAATCGCATGAT-TCATATTGTTAATTGCATG
1 ATTATATA-TGTTAATTGCATGATAT-ATA-T-TTAATTGCATG
* ** *
11316868 ATTATATAT-TTATTTGTGTGATTTATATTGTTAATTGCATG
1 ATTATATATGTTAATTGCATGATATATA-T-TTAATTGCATG
* * *
11316909 ATTATATAT-TTAATTGCACGATTTATATTGTTAATTGCTTG
1 ATTATATATGTTAATTGCATGATATATA-T-TTAATTGCATG
* *
11316950 CATAATTTATATTGTTAATTGCATGATTATATATTTAATTGCATA
1 -AT--TATATA-TGTTAATTGCATGA-TATATATTTAATTGCATG
11316995 ATTATATAT-TTAATTGCATGATCATATATTTTAATTGCATG
1 ATTATATATGTTAATTGCATGAT-ATATA-TTTAATTGCATG
* * * *
11317036 ATTAGATAT-TTAA-TGCCATGTTTTACATTGTTAATTGCATG
1 ATTATATATGTTAATTG-CATGATATATA-T-TTAATTGCATG
11317077 ATTATATAT-TTAATT
1 ATTATATATGTTAATT
11317092 ACATATCTAT
Statistics
Matches: 418, Mismatches: 46, Indels: 75
0.78 0.09 0.14
Matches are distributed among these distances:
36 3 0.01
37 31 0.07
38 59 0.14
39 17 0.04
40 38 0.09
41 207 0.50
42 18 0.04
43 11 0.03
44 7 0.02
45 10 0.02
46 12 0.03
47 5 0.01
ACGTcount: A:0.31, C:0.07, G:0.12, T:0.50
Consensus pattern (40 bp):
ATTATATATGTTAATTGCATGATATATATTTAATTGCATG
Found at i:11317167 original size:32 final size:32
Alignment explanation
Indices: 11317106--11317167 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
11317096 ATCTATTTGC
* **
11317106 ATGATTATTAATTTATTTATTTGTGTGATTGT
1 ATGATTATTAATATATTTATTTGCATGATTGT
11317138 ATGATTATTAATATATTTATTTGCATGATT
1 ATGATTATTAATATATTTATTTGCATGATT
11317168 ATCATTATTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.29, C:0.02, G:0.13, T:0.56
Consensus pattern (32 bp):
ATGATTATTAATATATTTATTTGCATGATTGT
Found at i:11317194 original size:19 final size:18
Alignment explanation
Indices: 11317149--11317202 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 18
11317139 TGATTATTAA
11317149 TATATTTATTTGCATGA-T
1 TATATTTA-TTGCATGATT
11317167 TATCA-TTATTGCATGATTT
1 TAT-ATTTATTGCATGA-TT
11317186 TATATTTATTGCATGAT
1 TATATTTATTGCATGAT
11317203 ATGATATTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
17 8 0.25
18 8 0.25
19 16 0.50
ACGTcount: A:0.28, C:0.07, G:0.11, T:0.54
Consensus pattern (18 bp):
TATATTTATTGCATGATT
Found at i:11317439 original size:21 final size:25
Alignment explanation
Indices: 11317395--11317441 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
11317385 GCATGATCTA
11317395 GGTATGATATTACTACATGATATTT
1 GGTATGATATTACTACATGATATTT
11317420 GGTATGAT-TTA-TA-AT-ATATTT
1 GGTATGATATTACTACATGATATTT
11317441 G
1 G
11317442 CATGATAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 7 0.32
22 2 0.09
23 2 0.09
24 3 0.14
25 8 0.36
ACGTcount: A:0.32, C:0.04, G:0.17, T:0.47
Consensus pattern (25 bp):
GGTATGATATTACTACATGATATTT
Found at i:11321348 original size:17 final size:17
Alignment explanation
Indices: 11321317--11321350 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
11321307 TTAAAATTTT
* *
11321317 AAAATAAATACTAATAA
1 AAAATAAAAAATAATAA
11321334 AAAATAAAAAATAATAA
1 AAAATAAAAAATAATAA
11321351 TCATATATAA
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:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (17 bp):
AAAATAAAAAATAATAA
Found at i:11321390 original size:16 final size:16
Alignment explanation
Indices: 11321369--11321405 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
11321359 AATGAATATG
11321369 TAAAAAAATAATAAAA
1 TAAAAAAATAATAAAA
*
11321385 TAAAAATATAATAAAA
1 TAAAAAAATAATAAAA
11321401 TAAAA
1 TAAAA
11321406 TTTTGAAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (16 bp):
TAAAAAAATAATAAAA
Found at i:11321559 original size:14 final size:14
Alignment explanation
Indices: 11321542--11321579 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 14
11321532 GAATATTAGG
11321542 AATATAAAATTAA-A
1 AATA-AAAATTAATA
11321556 AATAAAGAATTAATA
1 AATAAA-AATTAATA
11321571 AATAAAAAT
1 AATAAAAAT
11321580 ATAGGTATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 2 0.09
14 13 0.59
15 7 0.32
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (14 bp):
AATAAAAATTAATA
Found at i:11321828 original size:13 final size:13
Alignment explanation
Indices: 11321823--11321881 Score: 50
Period size: 12 Copynumber: 4.6 Consensus size: 13
11321813 CTAAAGTAAT
11321823 ACCCTAAAATGAA
1 ACCCTAAAATGAA
*
11321836 ACCCT-AAATTAA
1 ACCCTAAAATGAA
* *
11321848 AACCTAAAAATAAA
1 ACCCT-AAAATGAA
* *
11321862 ACTCT-AAACGAA
1 ACCCTAAAATGAA
11321874 ACCCTAAA
1 ACCCTAAA
11321882 CCCTTAGTGC
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
12 19 0.54
13 7 0.20
14 9 0.26
ACGTcount: A:0.56, C:0.24, G:0.03, T:0.17
Consensus pattern (13 bp):
ACCCTAAAATGAA
Found at i:11321879 original size:26 final size:26
Alignment explanation
Indices: 11321823--11321881 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
11321813 CTAAAGTAAT
* **
11321823 ACCCT-AAAATGAAACCCTAAATTAA
1 ACCCTAAAAATAAAACCCTAAACGAA
* *
11321848 AACCTAAAAATAAAACTCTAAACGAA
1 ACCCTAAAAATAAAACCCTAAACGAA
11321874 ACCCTAAA
1 ACCCTAAA
11321882 CCCTTAGTGC
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
25 4 0.15
26 23 0.85
ACGTcount: A:0.56, C:0.24, G:0.03, T:0.17
Consensus pattern (26 bp):
ACCCTAAAAATAAAACCCTAAACGAA
Found at i:11327665 original size:10 final size:10
Alignment explanation
Indices: 11327645--11327698 Score: 56
Period size: 10 Copynumber: 5.3 Consensus size: 10
11327635 AGGCATTTTT
11327645 AAAAAAT-AA
1 AAAAAATGAA
11327654 AAAAAATGAA
1 AAAAAATGAA
**
11327664 AATGAATGAAA
1 AAAAAATG-AA
11327675 GAAAAAATGAA
1 -AAAAAATGAA
*
11327686 AAAAAAGGAA
1 AAAAAATGAA
11327696 AAA
1 AAA
11327699 GAAAAAAATG
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
9 7 0.19
10 20 0.54
11 4 0.11
12 6 0.16
ACGTcount: A:0.78, C:0.00, G:0.13, T:0.09
Consensus pattern (10 bp):
AAAAAATGAA
Found at i:11327696 original size:22 final size:23
Alignment explanation
Indices: 11327654--11327705 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
11327644 TAAAAAATAA
** *
11327654 AAAAAATGAAAATGAATG-AAAG
1 AAAAAATGAAAAAAAAGGAAAAG
11327676 AAAAAATGAAAAAAAAGGAAAAAG
1 AAAAAATGAAAAAAAAGG-AAAAG
11327700 AAAAAA
1 AAAAAA
11327706 ATGGTTATGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 15 0.60
24 10 0.40
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.08
Consensus pattern (23 bp):
AAAAAATGAAAAAAAAGGAAAAG
Found at i:11327697 original size:16 final size:15
Alignment explanation
Indices: 11327647--11327706 Score: 52
Period size: 16 Copynumber: 3.9 Consensus size: 15
11327637 GCATTTTTAA
11327647 AAAAT-AAAAAAAATG
1 AAAATGAAAAAAAA-G
*
11327662 AAAATGAATGAAAGAA-
1 AAAATGAA--AAAAAAG
11327678 AAAATGAAAAAAAAGG
1 AAAATGAAAAAAAA-G
*
11327694 AAAAAGAAAAAAA
1 AAAATGAAAAAAA
11327707 TGGTTATGAC
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
14 5 0.14
15 5 0.14
16 22 0.59
18 5 0.14
ACGTcount: A:0.78, C:0.00, G:0.13, T:0.08
Consensus pattern (15 bp):
AAAATGAAAAAAAAG
Found at i:11331905 original size:14 final size:12
Alignment explanation
Indices: 11331884--11331919 Score: 54
Period size: 14 Copynumber: 2.8 Consensus size: 12
11331874 TTTAAAAAAT
11331884 AAAAAAAATGAA
1 AAAAAAAATGAA
11331896 AATGAAAAAATGAA
1 AA--AAAAAATGAA
11331910 AAAAAAAATG
1 AAAAAAAATG
11331920 GTTATGACGT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 10 0.45
14 12 0.55
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (12 bp):
AAAAAAAATGAA
Found at i:11332013 original size:13 final size:13
Alignment explanation
Indices: 11331995--11332045 Score: 59
Period size: 13 Copynumber: 4.0 Consensus size: 13
11331985 TTTAGAGAGG
11331995 AAATAAAAGAAAA
1 AAATAAAAGAAAA
***
11332008 AAATAAAAGCCTA
1 AAATAAAAGAAAA
*
11332021 AAATGAAAGAAAA
1 AAATAAAAGAAAA
11332034 AAA-AAAAGAAAA
1 AAATAAAAGAAAA
11332046 GTCAAGAGAG
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
12 8 0.27
13 22 0.73
ACGTcount: A:0.78, C:0.04, G:0.10, T:0.08
Consensus pattern (13 bp):
AAATAAAAGAAAA
Found at i:11333847 original size:32 final size:33
Alignment explanation
Indices: 11333777--11333848 Score: 92
Period size: 32 Copynumber: 2.2 Consensus size: 33
11333767 CCTAGATTAG
* ** *
11333777 CTAGCACCTAATGAAAATTTAAGCTTAATTTAG
1 CTAGCATCTAATGAAAATTTAAGCCCAATTTAA
*
11333810 TTAGCATC-AATGAAAATTTAAGCCCAATTTAA
1 CTAGCATCTAATGAAAATTTAAGCCCAATTTAA
11333842 CTAGCAT
1 CTAGCAT
11333849 GTAAACCCAG
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
32 27 0.82
33 6 0.18
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.32
Consensus pattern (33 bp):
CTAGCATCTAATGAAAATTTAAGCCCAATTTAA
Found at i:11334454 original size:6 final size:6
Alignment explanation
Indices: 11334425--11334489 Score: 50
Period size: 6 Copynumber: 11.0 Consensus size: 6
11334415 CAAAAAAAAT
*
11334425 ATATAA A-ATAT ATA-AA ATGA-AA ATATAA ATATAAAA ATATAA ATATAA
1 ATATAA ATATAA ATATAA AT-ATAA ATATAA ATAT--AA ATATAA ATATAA
11334473 ATA-ATA ATATAA A-ATAA
1 ATATA-A ATATAA ATATAA
11334490 TACAAATAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 15
0.75 0.03 0.22
Matches are distributed among these distances:
5 13 0.26
6 30 0.60
7 1 0.02
8 6 0.12
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (6 bp):
ATATAA
Found at i:11334463 original size:14 final size:14
Alignment explanation
Indices: 11334425--11334486 Score: 76
Period size: 14 Copynumber: 4.6 Consensus size: 14
11334415 CAAAAAAAAT
11334425 ATATAAAATATATAA
1 ATATAAAA-ATATAA
*
11334440 A-ATGAAAATATAA
1 ATATAAAAATATAA
11334453 ATATAAAAATATAA
1 ATATAAAAATATAA
*
11334467 ATATAAATA-AT-A
1 ATATAAAAATATAA
11334479 ATATAAAA
1 ATATAAAA
11334487 TAATACAAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
12 8 0.19
13 9 0.21
14 24 0.57
15 1 0.02
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (14 bp):
ATATAAAAATATAA
Found at i:11334498 original size:26 final size:25
Alignment explanation
Indices: 11334419--11334508 Score: 87
Period size: 27 Copynumber: 3.4 Consensus size: 25
11334409 ATCAAACAAA
11334419 AAAAAT-ATATAAAATATATAAAAT
1 AAAAATAATATAAAATATATAAAAT
11334443 GAAAATATAAATATAAAA-ATATAAATAT
1 -AAAA-AT-AATATAAAATATATAAA-AT
11334471 AAATAATAATATAAAATA-ATACAAAT
1 AAA-AATAATATAAAATATATA-AAAT
11334497 AAATAAATAATA
1 -AA-AAATAATA
11334509 GAACAAAACA
Statistics
Matches: 56, Mismatches: 0, Indels: 16
0.78 0.00 0.22
Matches are distributed among these distances:
25 4 0.07
26 16 0.29
27 24 0.43
28 12 0.21
ACGTcount: A:0.70, C:0.01, G:0.01, T:0.28
Consensus pattern (25 bp):
AAAAATAATATAAAATATATAAAAT
Found at i:11336335 original size:130 final size:129
Alignment explanation
Indices: 11335753--11336494 Score: 578
Period size: 130 Copynumber: 5.8 Consensus size: 129
11335743 ACCCCATTTG
* ** * * * * *
11335753 TTATAATTATTTATTAAATAATTTTTTATGAAATTATCAAAATATCTTTTTTATTATATTATAAG
1 TTATAATTATTTACTAAATAA-TCCTTATGAAATTACCAAAATACCATTTTCATTATATGATAAG
* *** * * *
11335818 AAATTGACGTACAG-TCAAATTGACTATTATGCCCTAATATC--AATTATGAAAATACCCATTCT
65 AAATTGACATGTGGCT-AAATTGACTATTATGCCCTCATATCATAAGTATGAAAATATCCATTCT
*
11335880 C
129 T
* * ** * * ** * *
11335881 TAATAATTATTAACTAAATAATCTCTTACAAAATTATCAAAATACCATTTCCATTACGTGGTAAA
1 TTATAATTATTTACTAAATAATC-CTTATGAAATTACCAAAATACCATTTTCATTATATGATAAG
* * * * * * * * *
11335946 AAAATGACTTATGACCAAATTGACTATTATGTCATCATA-CTATAATTACGAAAATATCTC-TT-
65 AAATTGACATGTGGCTAAATTGACTATTATGCCCTCATATC-ATAAGTATGAAAATATC-CATTC
11336008 TT
128 TT
* * * * *
11336010 CTTATAA-TATTTACTAAATAATCCCCTATGAAATTACCAAAATATCTTTTTCAATATTTGATAA
1 -TTATAATTATTTACTAAATAAT-CCTTATGAAATTACCAAAATACCATTTTCATTATATGATAA
* * * * *
11336074 GAAATT-ATCATATGGCTAAATGGACTATTATACTCTCATATCAT-AGTTAT-AAAA-ATACA-T
64 GAAATTGA-CATGTGGCTAAATTGACTATTATGCCCTCATATCATAAG-TATGAAAATATCCATT
11336134 -TT
127 CTT
* ** *
11336136 TTATAATTATTTACTAAATAATCCCTTATTAAATTATTAAAATA-CATTTTCCATTATATAATAA
1 TTATAATTATTTACTAAATAAT-CCTTATGAAATTACCAAAATACCATTTT-CATTATATGATAA
* *
11336200 GAAATTAACATGTGGCTAAATTGACTATTATGCCCTTATATCATAAGTATGAAAATATCCATTCT
64 GAAATTGACATGTGGCTAAATTGACTATTATGCCCTCATATCATAAGTATGAAAATATCCATTCT
11336265 T
129 T
* * * ** * *
11336266 TTATAATTACTTACCAAATAATCATATATGAAATTACCAAAATGTCATTTTCGTTATATGATAAA
1 TTATAATTATTTACTAAATAATCCT-TATGAAATTACCAAAATACCATTTTCATTATATGATAAG
* * * * * **
11336331 AAATTGACATGTGGCTAAAATGATTATTATGCCATTATATCGTACCTATGAAAATA-CTCATTCT
65 AAATTGACATGTGGCTAAATTGACTATTATGCCCTCATATCATAAGTATGAAAATATC-CATTCT
11336395 T
129 T
* * * * *
11336396 TTATAATTATTTTCTAAATAATCCCTTATCAAATTACCAAAATGCCCTTTTAATTATATGATAAG
1 TTATAATTATTTACTAAATAAT-CCTTATGAAATTACCAAAATACCATTTTCATTATATGATAAG
* * * * *
11336461 AAATTGATATGAGGTTGAATTAACTATTATGCCC
65 AAATTGACATGTGGCTAAATTGACTATTATGCCC
11336495 CTGTATGATA
Statistics
Matches: 487, Mismatches: 103, Indels: 46
0.77 0.16 0.07
Matches are distributed among these distances:
125 11 0.02
126 87 0.18
127 11 0.02
128 86 0.18
129 80 0.16
130 203 0.42
131 9 0.02
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.39
Consensus pattern (129 bp):
TTATAATTATTTACTAAATAATCCTTATGAAATTACCAAAATACCATTTTCATTATATGATAAGA
AATTGACATGTGGCTAAATTGACTATTATGCCCTCATATCATAAGTATGAAAATATCCATTCTT
Found at i:11339183 original size:16 final size:16
Alignment explanation
Indices: 11339158--11339189 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
11339148 AGTAGGTTAA
11339158 TTGCTATTGTAGTTGG
1 TTGCTATTGTAGTTGG
*
11339174 TTGCTGTTGTAGTTGG
1 TTGCTATTGTAGTTGG
11339190 CTGCACCTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.09, C:0.06, G:0.34, T:0.50
Consensus pattern (16 bp):
TTGCTATTGTAGTTGG
Found at i:11344215 original size:22 final size:22
Alignment explanation
Indices: 11344199--11344315 Score: 80
Period size: 22 Copynumber: 5.4 Consensus size: 22
11344189 CTAAATTCGT
*
11344199 ATTGATTTATTATTAAATTATG
1 ATTGATTTAATATTAAATTATG
*
11344221 ATTGATTTAATATTAAGTTATTG
1 ATTGATTTAATATTAAATTA-TG
*
11344244 ATT-A-TTACTATTAAATTATTG
1 ATTGATTTAATATTAAATTA-TG
* * * *
11344265 A-TAATTTATTATAAAATTATA
1 ATTGATTTAATATTAAATTATG
* * * *
11344286 ATT-AATTATTATTAATTTATC
1 ATTGATTTAATATTAAATTATG
*
11344307 AATGATTTA
1 ATTGATTTA
11344316 TCATAAAATT
Statistics
Matches: 77, Mismatches: 13, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
20 1 0.01
21 35 0.45
22 36 0.47
23 5 0.06
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.52
Consensus pattern (22 bp):
ATTGATTTAATATTAAATTATG
Found at i:11344257 original size:21 final size:23
Alignment explanation
Indices: 11344199--11344284 Score: 90
Period size: 22 Copynumber: 3.9 Consensus size: 23
11344189 CTAAATTCGT
*
11344199 ATTGATTTATTATTAAATTA-TG
1 ATTGATTTAATATTAAATTATTG
*
11344221 ATTGATTTAATATTAAGTTATTG
1 ATTGATTTAATATTAAATTATTG
*
11344244 ATT-A-TTACTATTAAATTATTG
1 ATTGATTTAATATTAAATTATTG
* * *
11344265 A-TAATTTATTATAAAATTAT
1 ATTGATTTAATATTAAATTAT
11344285 AATTAATTAT
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
20 1 0.02
21 17 0.31
22 32 0.58
23 5 0.09
ACGTcount: A:0.40, C:0.01, G:0.07, T:0.52
Consensus pattern (23 bp):
ATTGATTTAATATTAAATTATTG
Found at i:11344278 original size:10 final size:11
Alignment explanation
Indices: 11344198--11344305 Score: 71
Period size: 11 Copynumber: 10.0 Consensus size: 11
11344188 ACTAAATTCG
*
11344198 TATTGATTTAT
1 TATTAATTTAT
*
11344209 TATTAAATTAT
1 TATTAATTTAT
* * *
11344220 GATTGATTTAA
1 TATTAATTTAT
*
11344231 TATTAAGTTAT
1 TATTAATTTAT
*
11344242 TGATT-A-TTAC
1 T-ATTAATTTAT
*
11344252 TATTAAATTAT
1 TATTAATTTAT
11344263 TGA-TAATTTAT
1 T-ATTAATTTAT
* *
11344274 TATAAAATTAT
1 TATTAATTTAT
*
11344285 AATTAA-TTAT
1 TATTAATTTAT
11344295 TATTAATTTAT
1 TATTAATTTAT
11344306 CAATGATTTA
Statistics
Matches: 73, Mismatches: 18, Indels: 12
0.71 0.17 0.12
Matches are distributed among these distances:
9 3 0.04
10 15 0.21
11 51 0.70
12 4 0.05
ACGTcount: A:0.40, C:0.01, G:0.06, T:0.54
Consensus pattern (11 bp):
TATTAATTTAT
Found at i:11344299 original size:43 final size:43
Alignment explanation
Indices: 11344205--11344333 Score: 127
Period size: 43 Copynumber: 3.0 Consensus size: 43
11344195 TCGTATTGAT
* * * *
11344205 TTATTATTAAATTA-TGATTGATTTAATATTAAGTTATTGATT-A
1 TTATTATTAAATTATTGA-TGATTTATTATAAAATTA-TAATTAA
* *
11344248 TTACTATTAAATTATTGATAATTTATTATAAAATTATAATTAA
1 TTATTATTAAATTATTGATGATTTATTATAAAATTATAATTAA
* ** *
11344291 TTATTATTAATTTATCAATGATTTATCATAAAATTATCAATTA
1 TTATTATTAAATTATTGATGATTTATTATAAAATTAT-AATTA
11344334 TTAATTAATT
Statistics
Matches: 71, Mismatches: 12, Indels: 5
0.81 0.14 0.06
Matches are distributed among these distances:
42 4 0.06
43 59 0.83
44 8 0.11
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (43 bp):
TTATTATTAAATTATTGATGATTTATTATAAAATTATAATTAA
Found at i:11344327 original size:22 final size:22
Alignment explanation
Indices: 11344201--11344340 Score: 77
Period size: 22 Copynumber: 6.5 Consensus size: 22
11344191 AAATTCGTAT
* * *
11344201 TGATTTATTATTAAATTATGAT
1 TGATTTATTATAAAATTATCAA
* * * **
11344223 TGATTTAATATTAAGTTATTGA
1 TGATTTATTATAAAATTATCAA
* * * **
11344245 TTA-TTACTATTAAATTATTGA
1 TGATTTATTATAAAATTATCAA
*
11344266 TAATTTATTATAAAATTAT-AA
1 TGATTTATTATAAAATTATCAA
* * * *
11344287 TTAATTATTATTAATTTATCAA
1 TGATTTATTATAAAATTATCAA
*
11344309 TGATTTATCATAAAATTATCAA
1 TGATTTATTATAAAATTATCAA
* *
11344331 TTATTAATTA
1 TGATTTATTA
11344341 ATTTGCTACT
Statistics
Matches: 92, Mismatches: 24, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
21 34 0.37
22 58 0.63
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (22 bp):
TGATTTATTATAAAATTATCAA
Found at i:11344388 original size:22 final size:22
Alignment explanation
Indices: 11344362--11344433 Score: 65
Period size: 22 Copynumber: 3.3 Consensus size: 22
11344352 AATATCACTT
*
11344362 ATTTACAATTAAATTATTAATA
1 ATTTACAATTAAATTATCAATA
** * *
11344384 ATTTATTATTAAGTTGTCAATA
1 ATTTACAATTAAATTATCAATA
* *
11344406 ATTTAC-ATATAACTTATCAATG
1 ATTTACAAT-TAAATTATCAATA
11344428 ATTTAC
1 ATTTAC
11344434 TATTGTGTTA
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
21 2 0.05
22 38 0.95
ACGTcount: A:0.42, C:0.08, G:0.04, T:0.46
Consensus pattern (22 bp):
ATTTACAATTAAATTATCAATA
Found at i:11344707 original size:22 final size:22
Alignment explanation
Indices: 11344563--11344869 Score: 111
Period size: 22 Copynumber: 14.1 Consensus size: 22
11344553 CATTTATTCG
* *
11344563 TATTAAATAATCCATAG-TTTAC
1 TATTAAATTAT-CATTGATTTAC
* * *
11344585 TATTAAATTATCATTAATTAAT
1 TATTAAATTATCATTGATTTAC
* *
11344607 TATTAAGTTATTGA-TGATTAACTAC
1 TATTAAATTA-TCATTGATT---TAC
*
11344632 TATTAAATTAT-ATTGATTTAT
1 TATTAAATTATCATTGATTTAC
* ** * *
11344653 TTTTATGTT-TCCAATGATTCA-
1 TATTAAATTAT-CATTGATTTAC
*
11344674 TAACTAAATTATCATTGATTTAC
1 T-ATTAAATTATCATTGATTTAC
* * *
11344697 TATTAAGTTATTA-TCATTTA-
1 TATTAAATTATCATTGATTTAC
* *
11344717 TACTAAATTTATCAATT-AATTAC
1 TATTAAA-TTATC-ATTGATTTAC
** *
11344740 TATTAAATTAAAATTGATTTAA
1 TATTAAATTATCATTGATTTAC
* * * *
11344762 TATTAATTTCTCACTAATTTAC
1 TATTAAATTATCATTGATTTAC
*
11344784 TATTAAGTTATCATTGATTT--
1 TATTAAATTATCATTGATTTAC
* *
11344804 TATTAAATTATTAATT-ATTAAC
1 TATTAAATTA-TCATTGATTTAC
* * *
11344826 TACTAAGTTATCAATT--TTT-T
1 TATTAAATTATC-ATTGATTTAC
**
11344846 TATTAACCTATCATTGATTTAC
1 TATTAAATTATCATTGATTTAC
11344868 TA
1 TA
11344870 ATATATTGTT
Statistics
Matches: 203, Mismatches: 59, Indels: 46
0.66 0.19 0.15
Matches are distributed among these distances:
19 3 0.01
20 27 0.13
21 35 0.17
22 110 0.54
23 12 0.06
24 6 0.03
25 10 0.05
ACGTcount: A:0.37, C:0.09, G:0.05, T:0.49
Consensus pattern (22 bp):
TATTAAATTATCATTGATTTAC
Found at i:11345164 original size:22 final size:21
Alignment explanation
Indices: 11345134--11345302 Score: 81
Period size: 22 Copynumber: 7.8 Consensus size: 21
11345124 TGATTTATTG
*
11345134 TTTAATATTAAATTATGCATGA
1 TTTATTATTAAATTAT-CATGA
* *
11345156 TTTATTATTAAGTTATTATTGA
1 TTTATTATTAAATTATCA-TGA
* **
11345178 TTAATTATTATGTTATCAATGA
1 TTTATTATTAAATTATC-ATGA
*
11345200 TTTACTATTAAATTAT-ATTGA
1 TTTATTATTAAATTATCA-TGA
*
11345221 TTTACTT-TTAAATTTTCAATGA
1 TTTA-TTATTAAATTATC-ATGA
* * * ** *
11345243 ATGACTACCAAATTATCAATTA
1 TTTATTATTAAATTATC-ATGA
** * *
11345265 TTTGCTATTAATTTATAATTGA
1 TTTATTATTAAATTATCA-TGA
*
11345287 TTTATTATTAAGTTAT
1 TTTATTATTAAATTAT
11345303 TTATCATTTA
Statistics
Matches: 109, Mismatches: 30, Indels: 16
0.70 0.19 0.10
Matches are distributed among these distances:
20 1 0.01
21 18 0.17
22 88 0.81
23 2 0.02
ACGTcount: A:0.36, C:0.06, G:0.07, T:0.51
Consensus pattern (21 bp):
TTTATTATTAAATTATCATGA
Found at i:11345240 original size:43 final size:44
Alignment explanation
Indices: 11345128--11345431 Score: 121
Period size: 44 Copynumber: 7.1 Consensus size: 44
11345118 TTTCAATGAT
* * *
11345128 TTATTGTTTAA-TATTAAATTATGC-ATGATTTATTATTAAGTTA
1 TTATTGATTAATTATTAAATTAT-CAATGATTTACTATTAAATTA
**
11345171 TTATTGATTAATTATTATGTTATCAATGATTTACTATTAAATTA
1 TTATTGATTAATTATTAAATTATCAATGATTTACTATTAAATTA
* * * * **
11345215 -TATTGATTTACTT-TTAAATTTTCAATGAATGACTACCAAATTA
1 TTATTGA-TTAATTATTAAATTATCAATGATTTACTATTAAATTA
* *** * * *
11345258 TCAATT-ATTTGCTATTAATTTAT-AATTGATTTATTATTAAGTTA
1 T-TATTGATTAATTATTAAATTATCAA-TGATTTACTATTAAATTA
* * * * *
11345302 -T-TT-ATCATTTACT--ATTATCAATTAATTACTATTAAATTGA
1 TTATTGATTAATTATTAAATTATCAATGATTTACTATTAAATT-A
* * * * *
11345342 -AATTAATTTATTATTAAATTATCACT-ATTTTACTATTAAGTTA
1 TTATTGATTAATTATTAAATTATCAATGA-TTTACTATTAAATTA
* * * * ** * * * *
11345385 TCATTAATTTATTACTAAGCTATCAATAATTAACTACTAAGTTA
1 TTATTGATTAATTATTAAATTATCAATGATTTACTATTAAATTA
11345429 TTA
1 TTA
11345432 CTTATTTTTT
Statistics
Matches: 193, Mismatches: 52, Indels: 31
0.70 0.19 0.11
Matches are distributed among these distances:
39 17 0.09
40 3 0.02
41 9 0.05
42 6 0.03
43 47 0.24
44 107 0.55
45 4 0.02
ACGTcount: A:0.37, C:0.08, G:0.06, T:0.50
Consensus pattern (44 bp):
TTATTGATTAATTATTAAATTATCAATGATTTACTATTAAATTA
Found at i:11345359 original size:22 final size:21
Alignment explanation
Indices: 11345321--11345361 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
11345311 TACTATTATC
11345321 AATTAATTACTATTAAATTGA
1 AATTAATTACTATTAAATTGA
*
11345342 AATTAATTTATTATTAAATT
1 AATTAA-TTACTATTAAATT
11345362 ATCACTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.49
Consensus pattern (21 bp):
AATTAATTACTATTAAATTGA
Found at i:11345374 original size:61 final size:60
Alignment explanation
Indices: 11345254--11345379 Score: 148
Period size: 61 Copynumber: 2.1 Consensus size: 60
11345244 TGACTACCAA
* * * * * *
11345254 ATTATCAATTATTTGCTATTAATTTATAATTGATTTATTATTAAGTTATTTATCATTTACT
1 ATTATCAATTAATTACTATTAATTGATAATTAATTTATTATTAAATTATCTAT-ATTTACT
11345315 ATTATCAATTAATTACTATTAAATTGA-AATTAATTTATTATTAAATTATC-ACTATTTTACT
1 ATTATCAATTAATTACTATT-AATTGATAATTAATTTATTATTAAATTATCTA-TA-TTTACT
11345376 ATTA
1 ATTA
11345380 AGTTATCATT
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
60 2 0.04
61 49 0.88
62 5 0.09
ACGTcount: A:0.37, C:0.07, G:0.03, T:0.52
Consensus pattern (60 bp):
ATTATCAATTAATTACTATTAATTGATAATTAATTTATTATTAAATTATCTATATTTACT
Found at i:11345403 original size:22 final size:22
Alignment explanation
Indices: 11345343--11345467 Score: 90
Period size: 22 Copynumber: 5.7 Consensus size: 22
11345333 TTAAATTGAA
* *
11345343 ATTAATTTATTATTAAATTATC
1 ATTAATTTATTACTAAGTTATC
* * * *
11345365 ACTATTTTACTATTAAGTTATC
1 ATTAATTTATTACTAAGTTATC
*
11345387 ATTAATTTATTACTAAGCTATC
1 ATTAATTTATTACTAAGTTATC
* * * *
11345409 AATAATTAACTACTAAGTTATT
1 ATTAATTTATTACTAAGTTATC
* **
11345431 ACTT-ATTTTTTGTTAAGTTATC
1 A-TTAATTTATTACTAAGTTATC
* *
11345453 ATTGATTTAATACTA
1 ATTAATTTATTACTA
11345468 TGCTATTATG
Statistics
Matches: 76, Mismatches: 25, Indels: 4
0.72 0.24 0.04
Matches are distributed among these distances:
21 2 0.03
22 73 0.96
23 1 0.01
ACGTcount: A:0.36, C:0.10, G:0.05, T:0.50
Consensus pattern (22 bp):
ATTAATTTATTACTAAGTTATC
Found at i:11345683 original size:22 final size:22
Alignment explanation
Indices: 11345558--11345692 Score: 84
Period size: 22 Copynumber: 6.3 Consensus size: 22
11345548 TACTAAAAAA
* *
11345558 TTATCAATTATTGACTACT-AG
1 TTATCAATTATTTACTATTAAG
**
11345579 ATTATCTTTTATTTACTATTAAG
1 -TTATCAATTATTTACTATTAAG
* *
11345602 TTATCGA-TAATTACTATTAAG
1 TTATCAATTATTTACTATTAAG
* *
11345623 TTAT-ACTGA-TTA-TATTTAAG
1 TTATCAATTATTTACTA-TTAAG
* * * *
11345643 TTTTCAATGATTAATTATTAAG
1 TTATCAATTATTTACTATTAAG
*
11345665 TTAGT-AATTATTTACTATTATG
1 TTA-TCAATTATTTACTATTAAG
11345687 TTATCA
1 TTATCA
11345693 TTCAGTTATG
Statistics
Matches: 87, Mismatches: 18, Indels: 16
0.72 0.15 0.13
Matches are distributed among these distances:
19 2 0.02
20 11 0.13
21 23 0.26
22 46 0.53
23 5 0.06
ACGTcount: A:0.34, C:0.08, G:0.08, T:0.50
Consensus pattern (22 bp):
TTATCAATTATTTACTATTAAG
Found at i:11358933 original size:13 final size:13
Alignment explanation
Indices: 11358915--11358945 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
11358905 CAATTCGAAC
11358915 TTAATATATAAAT
1 TTAATATATAAAT
*
11358928 TTAATATTTAAAT
1 TTAATATATAAAT
11358941 TTAAT
1 TTAAT
11358946 CAAATAAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TTAATATATAAAT
Found at i:11359420 original size:60 final size:60
Alignment explanation
Indices: 11359348--11359468 Score: 224
Period size: 60 Copynumber: 2.0 Consensus size: 60
11359338 ATCTATTATT
*
11359348 ATTAAAATTAATATGTAATAGATAAATAAAAGTAAAATGACATAATTTACGTGGTTCAAC
1 ATTAAAAATAATATGTAATAGATAAATAAAAGTAAAATGACATAATTTACGTGGTTCAAC
*
11359408 ATTAAAAATAATATGTAATAGATAAATAAAAGTAAAATGGCATAATTTACGTGGTTCAAC
1 ATTAAAAATAATATGTAATAGATAAATAAAAGTAAAATGACATAATTTACGTGGTTCAAC
11359468 A
1 A
11359469 AAATGCATAC
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.50, C:0.07, G:0.12, T:0.31
Consensus pattern (60 bp):
ATTAAAAATAATATGTAATAGATAAATAAAAGTAAAATGACATAATTTACGTGGTTCAAC
Found at i:11360344 original size:11 final size:11
Alignment explanation
Indices: 11360328--11360360 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
11360318 TATCGAGGAC
11360328 TTATTTTAATA
1 TTATTTTAATA
*
11360339 TTATTTTAAGA
1 TTATTTTAATA
11360350 -TATTTTAATA
1 TTATTTTAATA
11360360 T
1 T
11360361 GAATAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (11 bp):
TTATTTTAATA
Found at i:11361567 original size:21 final size:21
Alignment explanation
Indices: 11361542--11361583 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
11361532 TTCTTTTGTG
11361542 ATTAAATA-AAAAATATAAAAA
1 ATTAAA-ACAAAAATATAAAAA
*
11361563 ATTAAAACTAAAATATAAAAA
1 ATTAAAACAAAAATATAAAAA
11361584 TAAAAATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (21 bp):
ATTAAAACAAAAATATAAAAA
Found at i:11361610 original size:40 final size:42
Alignment explanation
Indices: 11361558--11361635 Score: 106
Period size: 40 Copynumber: 1.9 Consensus size: 42
11361548 TAAAAAATAT
* * * *
11361558 AAAAAATTAAAACTA-AAATATAAAA-ATAAAAATTTATTCC
1 AAAAAATCAAAACTACAAAAAAAAAAGAAAAAAATTTATTCC
11361598 AAAAAATCAAAACTACAAAAAAAAAAGAAAAAAATTTA
1 AAAAAATCAAAACTACAAAAAAAAAAGAAAAAAATTTA
11361636 AATCAATAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 14 0.44
41 8 0.25
42 10 0.31
ACGTcount: A:0.71, C:0.08, G:0.01, T:0.21
Consensus pattern (42 bp):
AAAAAATCAAAACTACAAAAAAAAAAGAAAAAAATTTATTCC
Found at i:11364141 original size:6 final size:6
Alignment explanation
Indices: 11364130--11364155 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
11364120 CTTAAGCAAA
11364130 AAAAAT AAAAAT AAAAAT AAAAAT AA
1 AAAAAT AAAAAT AAAAAT AAAAAT AA
11364156 CTAGATATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:11372409 original size:17 final size:16
Alignment explanation
Indices: 11372378--11372419 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 16
11372368 ACTTGAGAAG
11372378 AAAAAAAAACTAAAAC
1 AAAAAAAAACTAAAAC
11372394 TAATAAAAAAAC-AAAAC
1 -AA-AAAAAAACTAAAAC
11372411 AAAAAAAAA
1 AAAAAAAAA
11372420 TAGAGGACTC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.29
16 2 0.08
17 7 0.29
18 8 0.33
ACGTcount: A:0.83, C:0.10, G:0.00, T:0.07
Consensus pattern (16 bp):
AAAAAAAAACTAAAAC
Found at i:11372899 original size:5 final size:5
Alignment explanation
Indices: 11372889--11372942 Score: 65
Period size: 5 Copynumber: 10.6 Consensus size: 5
11372879 GTAAAACAAT
* *
11372889 AAAAC AAAAC AAAAC AAAA- AACAAC AAAAA AAAAGA AAAAC AAAAC AAAAC
1 AAAAC AAAAC AAAAC AAAAC AA-AAC AAAAC AAAA-C AAAAC AAAAC AAAAC
11372940 AAA
1 AAA
11372943 GGAGATTTGG
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
4 2 0.05
5 35 0.80
6 7 0.16
ACGTcount: A:0.83, C:0.15, G:0.02, T:0.00
Consensus pattern (5 bp):
AAAAC
Found at i:11372909 original size:25 final size:26
Alignment explanation
Indices: 11372881--11372942 Score: 74
Period size: 25 Copynumber: 2.4 Consensus size: 26
11372871 ATAATGAAGT
* * *
11372881 AAAACAATAAAACAAAA-CAAAACAA
1 AAAACAACAAAAAAAAAGAAAAACAA
11372906 AAAACAACAAAAAAAAAGAAAAACAA
1 AAAACAACAAAAAAAAAGAAAAACAA
11372932 AACAA-AACAAA
1 AA-AACAACAAA
11372943 GGAGATTTGG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 15 0.47
26 15 0.47
27 2 0.06
ACGTcount: A:0.82, C:0.15, G:0.02, T:0.02
Consensus pattern (26 bp):
AAAACAACAAAAAAAAAGAAAAACAA
Found at i:11373485 original size:41 final size:40
Alignment explanation
Indices: 11373440--11373545 Score: 108
Period size: 41 Copynumber: 2.5 Consensus size: 40
11373430 CAAAGCTTCC
* *
11373440 GTTTAAAGGAAACCATTTTCAAACAAGATTT-AGAAGCCTCT
1 GTTT-AAGGAAGCCATTTTCAAACAAGATTTCA-AAACCTCT
*
11373481 GTTT-AGGATGAGCCTTTTTCAAACAAGATTTCAAAACCTCT
1 GTTTAAGGA--AGCCATTTTCAAACAAGATTTCAAAACCTCT
*
11373522 GTTTATTGGGAAGCCATTTTCAAA
1 GTTTA--AGGAAGCCATTTTCAAA
11373546 TAAAAAATTA
Statistics
Matches: 54, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
39 4 0.07
41 34 0.63
42 13 0.24
44 3 0.06
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Consensus pattern (40 bp):
GTTTAAGGAAGCCATTTTCAAACAAGATTTCAAAACCTCT
Found at i:11373865 original size:127 final size:126
Alignment explanation
Indices: 11373556--11373868 Score: 371
Period size: 126 Copynumber: 2.5 Consensus size: 126
11373546 TAAAAAATTA
** * * * *
11373556 TAAAGTTTCAATGCCTCTATTACAAGAAGCATTCAAAGATTTTTTAGAATTGTAAGA-TTTCCAA
1 TAAAGTTTCAATGCCTCTATTATGAGGAGCATTCAAATATTTTTTAG-ATTTTAAGACCTTCCAA
* **
11373620 ACATAATCTCTAAGACCTCCAGATATAATTTTCAAGACCTCTTGCAAAAAATTTAAAACTTT
65 ACATAATCTCTAAGACCTCCAGACATAATTTTCAAGACCTCAAGCAAAAAATTTAAAACTTT
* * *
11373682 TAAAGTTTCAATGCCTCTATTATGATGAGCGTTCAAATATTTTTTAGATTTGTAAGACCTT-CAG
1 TAAAGTTTCAATGCCTCTATTATGAGGAGCATTCAAATATTTTTTAGATTT-TAAGACCTTCCAA
* * * * *
11373746 ACATAATCTCTAAGA-CTACCAGGCATAATTTTCAAGACCTCCAAGTAAAAGATTTTAAGCTTT
65 ACATAATCTCTAAGACCT-CCAGACATAATTTTCAAGACCT-CAAGCAAAAAATTTAAAACTTT
* * * *
11373809 TAAAGTTTCAACGCCTCTATTATGAGGAGCATTTAAATATTATTGAGAGTTTTAAGACCT
1 TAAAGTTTCAATGCCTCTATTATGAGGAGCATTCAAATATTTTTTAGA-TTTTAAGACCT
11373869 CCAGGTATAA
Statistics
Matches: 159, Mismatches: 23, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
125 5 0.03
126 83 0.52
127 68 0.43
128 3 0.02
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (126 bp):
TAAAGTTTCAATGCCTCTATTATGAGGAGCATTCAAATATTTTTTAGATTTTAAGACCTTCCAAA
CATAATCTCTAAGACCTCCAGACATAATTTTCAAGACCTCAAGCAAAAAATTTAAAACTTT
Found at i:11373955 original size:57 final size:57
Alignment explanation
Indices: 11373848--11373964 Score: 164
Period size: 57 Copynumber: 2.1 Consensus size: 57
11373838 CATTTAAATA
* ** *
11373848 TTATTGAGAGTTTTAAGACCTCCAGGTATAATTTCTAAAACCTTTGAGCAAAGTATT
1 TTATTGAGAGTTTTAAGACCTCCAGGCATAATTTCTAAAACCTTCAAGCAAAATATT
**
11373905 TTATTGAGAGTTTTAAGACCTCC-GAGCATAATTTCTAAGCCCTTCAAGCAAAATATT
1 TTATTGAGAGTTTTAAGACCTCCAG-GCATAATTTCTAAAACCTTCAAGCAAAATATT
11373962 TTA
1 TTA
11373965 AATTTTTAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
56 1 0.02
57 52 0.98
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Consensus pattern (57 bp):
TTATTGAGAGTTTTAAGACCTCCAGGCATAATTTCTAAAACCTTCAAGCAAAATATT
Found at i:11374048 original size:22 final size:22
Alignment explanation
Indices: 11374018--11374074 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 22
11374008 GATTTTTTAG
* *
11374018 ATTTATAAGACCTTCAGGTATA
1 ATTTTTAAGACCTTCAGGCATA
* **
11374040 ATTTTTAAGATCTTTGGGCATA
1 ATTTTTAAGACCTTCAGGCATA
*
11374062 ATTTTCAAGACCT
1 ATTTTTAAGACCT
11374075 CTAAGTAAAA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.40
Consensus pattern (22 bp):
ATTTTTAAGACCTTCAGGCATA
Found at i:11375157 original size:144 final size:144
Alignment explanation
Indices: 11374792--11375168 Score: 466
Period size: 145 Copynumber: 2.6 Consensus size: 144
11374782 AAAAAATCTC
* * ** * * * *
11374792 TATAGGGTATCTTCGTAATTTGATCTTTTTAAGTTCAGATTTTCATGAAACTCTTTAGATCTTAA
1 TATAAGGTATTTTCGTAATTTGATCTTTTCGAGCTCGGATTTTCATGAAACTTTTTAGATCTCAA
* * * * *
11374857 TTTCATAATATCTCATGATTTTTTATGCTTTTGAAATCGTAGCCGTACCTCAAAAAGTGTGAAAT
66 TTTCATAATATTTCATGATTTTTTATGCATTTGAAATCATAGCAGTACCTCAAAAAGTGAGAAAT
11374922 TACCAAAATACCCT
131 TACCAAAATACCCT
* ** * * * ** * *
11374936 TAAAACGGTATTTTCGTAATTTGGCCTTTCCGAGCTTGAATTTTTTTGAAACATTTCAGATCTCA
1 TATAA-GGTATTTTCGTAATTTGATCTTTTCGAGCTCGGATTTTCATGAAACTTTTTAGATCTCA
* * * ** *
11375001 ATTTCATAATATTTAATGATTTTTTGTGCATTTGAAATCATAGTAGTACCTTGAAAAGTGAGAAC
65 ATTTCATAATATTTCATGATTTTTTATGCATTTGAAATCATAGCAGTACCTCAAAAAGTGAGAAA
11375066 TTACCAAAATACCCT
130 TTACCAAAATACCCT
*
11375081 TATAAGGTATTTTCGTAATTTGATCTTTTCGAGCTCGGACTTTCATGAAACTTTTTAGATCTCAA
1 TATAAGGTATTTTCGTAATTTGATCTTTTCGAGCTCGGATTTTCATGAAACTTTTTAGATCTCAA
*
11375146 TTTTATAATATTTCATGATTTTT
66 TTTCATAATATTTCATGATTTTT
11375169 AATGTTTTAA
Statistics
Matches: 190, Mismatches: 42, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
144 74 0.39
145 116 0.61
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.42
Consensus pattern (144 bp):
TATAAGGTATTTTCGTAATTTGATCTTTTCGAGCTCGGATTTTCATGAAACTTTTTAGATCTCAA
TTTCATAATATTTCATGATTTTTTATGCATTTGAAATCATAGCAGTACCTCAAAAAGTGAGAAAT
TACCAAAATACCCT
Found at i:11378105 original size:17 final size:19
Alignment explanation
Indices: 11378071--11378106 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
11378061 AAATTATTTT
11378071 TTTTATAAATTTTAATTAA
1 TTTTATAAATTTTAATTAA
11378090 TTTTA-AAATTTT-ATTAA
1 TTTTATAAATTTTAATTAA
11378107 AAAGATAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 7 0.41
19 5 0.29
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TTTTATAAATTTTAATTAA
Found at i:11386349 original size:22 final size:22
Alignment explanation
Indices: 11386324--11386371 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
11386314 CATATTGTTT
*
11386324 TTTTTTTGTTCGT-ATTTGTATA
1 TTTTTATGTTC-TCATTTGTATA
*
11386346 TTTTTATGTTCTCATTTGTTTA
1 TTTTTATGTTCTCATTTGTATA
11386368 TTTT
1 TTTT
11386372 GTTTTATAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 1 0.04
22 22 0.96
ACGTcount: A:0.12, C:0.06, G:0.10, T:0.71
Consensus pattern (22 bp):
TTTTTATGTTCTCATTTGTATA
Found at i:11387352 original size:25 final size:24
Alignment explanation
Indices: 11387295--11387361 Score: 73
Period size: 25 Copynumber: 2.8 Consensus size: 24
11387285 AAGAGCTTGT
11387295 AAAAG-AAAGAAAAAAAGTTGTAA
1 AAAAGAAAAGAAAAAAAGTTGTAA
* *
11387318 AAAAGAAAAGAAAATAAAGTTTTGA
1 AAAAGAAAAGAAAA-AAAGTTGTAA
* *
11387343 AATAGTAAAGAAAGAAAAG
1 AAAAGAAAAGAAA-AAAAG
11387362 AAAGAAAGAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
23 5 0.14
24 8 0.22
25 23 0.62
26 1 0.03
ACGTcount: A:0.67, C:0.00, G:0.18, T:0.15
Consensus pattern (24 bp):
AAAAGAAAAGAAAAAAAGTTGTAA
Found at i:11387365 original size:13 final size:13
Alignment explanation
Indices: 11387349--11387373 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11387339 TTGAAATAGT
11387349 AAAGAAAGAAAAG
1 AAAGAAAGAAAAG
11387362 AAAGAAAGAAAA
1 AAAGAAAGAAAA
11387374 AATGTGAGAA
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:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (13 bp):
AAAGAAAGAAAAG
Found at i:11392123 original size:2 final size:2
Alignment explanation
Indices: 11392116--11392142 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
11392106 CAAAATGTTG
11392116 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 A
11392143 GAGAGAGAGA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11392147 original size:2 final size:2
Alignment explanation
Indices: 11392142--11392195 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
11392132 ATATATATAT
11392142 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
11392184 AG AG AG AG AG AG
1 AG AG AG AG AG AG
11392196 CATTAACGAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:11392531 original size:22 final size:22
Alignment explanation
Indices: 11392513--11392563 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
11392503 TAATAAAATT
*
11392513 TATTATAATTATGATTAAAAAA
1 TATTATAATTATAATTAAAAAA
11392535 TATTATAATTATAATTAAAAAA
1 TATTATAATTATAATTAAAAAA
11392557 -ATT-TAAT
1 TATTATAAT
11392564 AAAAAATTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
20 4 0.14
21 3 0.11
22 21 0.75
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
TATTATAATTATAATTAAAAAA
Found at i:11392817 original size:23 final size:24
Alignment explanation
Indices: 11392791--11392861 Score: 72
Period size: 25 Copynumber: 3.0 Consensus size: 24
11392781 TCCAAATAAT
* *
11392791 AATCATTTAATTTTTA-TAAAAAA
1 AATCATCTAATTTATACTAAAAAA
*
11392814 AATCATCTACTTTATACCTAAAAAA
1 AATCATCTAATTTATA-CTAAAAAA
* * *
11392839 AATCATCCAATATATAATAAAAA
1 AATCATCTAATTTATACTAAAAA
11392862 GTTAATAGCA
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
23 13 0.33
24 6 0.15
25 20 0.51
ACGTcount: A:0.54, C:0.13, G:0.00, T:0.34
Consensus pattern (24 bp):
AATCATCTAATTTATACTAAAAAA
Found at i:11392934 original size:16 final size:17
Alignment explanation
Indices: 11392907--11392954 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 17
11392897 AATTCTATTT
11392907 TAATTCTTAATTTTAAAA
1 TAATT-TTAATTTTAAAA
11392925 -AATTTTAATTATTTAAAA
1 TAATTTTAA-T-TTTAAAA
*
11392943 TTATTTTAATTT
1 TAATTTTAATTT
11392955 GAGCCTTTCG
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
16 4 0.15
17 7 0.27
18 8 0.31
19 7 0.27
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (17 bp):
TAATTTTAATTTTAAAA
Found at i:11393329 original size:18 final size:18
Alignment explanation
Indices: 11393298--11393386 Score: 75
Period size: 18 Copynumber: 5.2 Consensus size: 18
11393288 CAAAAACATT
11393298 TTATTTTCTATTAAAAATA
1 TTATTTT-TATTAAAAATA
11393317 TTATTTTTATTAAAAA-A
1 TTATTTTTATTAAAAATA
* * *
11393334 TGA---TGATAAAAAATA
1 TTATTTTTATTAAAAATA
11393349 TTATTTTCTA-TAAAAATA
1 TTATTTT-TATTAAAAATA
11393367 -TATTTTTTATT-AAAATA
1 TTA-TTTTTATTAAAAATA
11393384 TTA
1 TTA
11393387 AATATCTTTT
Statistics
Matches: 56, Mismatches: 6, Indels: 17
0.71 0.08 0.22
Matches are distributed among these distances:
14 8 0.14
15 3 0.05
17 13 0.23
18 24 0.43
19 8 0.14
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.49
Consensus pattern (18 bp):
TTATTTTTATTAAAAATA
Found at i:11393370 original size:17 final size:17
Alignment explanation
Indices: 11393342--11393384 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
11393332 AATGATGATA
11393342 AAAAATATTATTTTCTAT
1 AAAAATA-TATTTTCTAT
*
11393360 AAAAATATATTTTTTAT
1 AAAAATATATTTTCTAT
*
11393377 TAAAATAT
1 AAAAATAT
11393385 TAAATATCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 16 0.70
18 7 0.30
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (17 bp):
AAAAATATATTTTCTAT
Found at i:11395838 original size:19 final size:18
Alignment explanation
Indices: 11395783--11395838 Score: 60
Period size: 17 Copynumber: 3.1 Consensus size: 18
11395773 ATCTAAAAAG
*
11395783 AATTCTAAAAAATTCAAA
1 AATTCTAAAAAATCCAAA
* **
11395801 CATTC-AAAAAATCTTAA
1 AATTCTAAAAAATCCAAA
11395818 AATTCTTAAAAAATCCAAA
1 AATTC-TAAAAAATCCAAA
11395837 AA
1 AA
11395839 AAAAAAATTC
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
17 13 0.45
18 4 0.14
19 12 0.41
ACGTcount: A:0.59, C:0.14, G:0.00, T:0.27
Consensus pattern (18 bp):
AATTCTAAAAAATCCAAA
Found at i:11395902 original size:9 final size:9
Alignment explanation
Indices: 11395882--11395939 Score: 50
Period size: 9 Copynumber: 6.7 Consensus size: 9
11395872 AAATTTCAAT
11395882 AAATTT-GA
1 AAATTTAGA
11395890 AAATTTAGA
1 AAATTTAGA
11395899 AAATCTTA-A
1 AAAT-TTAGA
* *
11395908 AAATCTACA
1 AAATTTAGA
*
11395917 AAAATTAGA
1 AAATTTAGA
*
11395926 AAAATTA-A
1 AAATTTAGA
11395934 AAATTT
1 AAATTT
11395940 TGACAAAATT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
8 14 0.33
9 25 0.60
10 3 0.07
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.31
Consensus pattern (9 bp):
AAATTTAGA
Found at i:11395947 original size:27 final size:25
Alignment explanation
Indices: 11395861--11395949 Score: 72
Period size: 27 Copynumber: 3.4 Consensus size: 25
11395851 AACAAATTTC
*
11395861 TGAAAAATT-GAAAATTTCAATAAATT
1 TGAAAAATTAGAAAAATT-AA-AAATT
* *
11395887 TGAAAATTTAGAAAATCTTAAAAATCT
1 TGAAAAATTAGAAAA-ATTAAAAAT-T
**
11395914 ACAAAAATTAGAAAAATTAAAAATTT
1 TGAAAAATTAGAAAAATTAAAAA-TT
11395940 TGACAAAATT
1 TGA-AAAATT
11395950 TTCAAAAAAT
Statistics
Matches: 50, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
26 21 0.42
27 27 0.54
28 2 0.04
ACGTcount: A:0.56, C:0.06, G:0.07, T:0.31
Consensus pattern (25 bp):
TGAAAAATTAGAAAAATTAAAAATT
Found at i:11395971 original size:20 final size:20
Alignment explanation
Indices: 11395948--11395988 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
11395938 TTTGACAAAA
11395948 TTTTCAAAAAATCTAAAATT
1 TTTTCAAAAAATCTAAAATT
* *
11395968 TTTTTAAAAATTCTAAAATT
1 TTTTCAAAAAATCTAAAATT
11395988 T
1 T
11395989 GAAAAAAGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.46
Consensus pattern (20 bp):
TTTTCAAAAAATCTAAAATT
Found at i:11396061 original size:15 final size:16
Alignment explanation
Indices: 11396043--11396085 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
11396033 ATAAATTCTT
* *
11396043 AAATTGAAAATTTCA-
1 AAATAGAAAAATTCAG
11396058 AAATAGAAAAATTCAG
1 AAATAGAAAAATTCAG
11396074 AAATAGTAAAAA
1 AAATAG-AAAAA
11396086 ATTAAAACTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 13 0.54
16 6 0.25
17 5 0.21
ACGTcount: A:0.63, C:0.05, G:0.09, T:0.23
Consensus pattern (16 bp):
AAATAGAAAAATTCAG
Found at i:11396390 original size:17 final size:16
Alignment explanation
Indices: 11396369--11396435 Score: 50
Period size: 16 Copynumber: 4.0 Consensus size: 16
11396359 ATTTTTTTCC
11396369 ATTTTTTCCAATTTTT
1 ATTTTTTCCAATTTTT
11396385 ATTTTTT--AAGTTTTCAT
1 ATTTTTTCCAA-TTTT--T
*
11396402 ATTCTTTTTCCATTTTTT
1 A-T-TTTTTCCAATTTTT
11396420 AATTTTTTCC-ATTTTT
1 -ATTTTTTCCAATTTTT
11396436 GGTAATTTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 16
0.69 0.03 0.27
Matches are distributed among these distances:
14 2 0.05
15 4 0.10
16 12 0.29
17 9 0.22
18 3 0.07
19 6 0.15
20 4 0.10
21 1 0.02
ACGTcount: A:0.18, C:0.12, G:0.01, T:0.69
Consensus pattern (16 bp):
ATTTTTTCCAATTTTT
Found at i:11396444 original size:17 final size:16
Alignment explanation
Indices: 11396362--11396445 Score: 54
Period size: 17 Copynumber: 5.3 Consensus size: 16
11396352 TTTCTTCATT
11396362 TTTTTCCATTTTTTCCAA
1 TTTTTCCATTTTTT--AA
11396380 TTTTT--ATTTTTTAA
1 TTTTTCCATTTTTTAA
* * *
11396394 GTTTT-CA--TATT-C
1 TTTTTCCATTTTTTAA
11396406 TTTTTCCATTTTTTAA
1 TTTTTCCATTTTTTAA
11396422 TTTTTTCCATTTTTGGTAA
1 -TTTTTCCATTTTT--TAA
11396441 TTTTT
1 TTTTT
11396446 TTTCAAATTG
Statistics
Matches: 52, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
12 4 0.08
13 5 0.10
14 6 0.12
15 4 0.08
16 7 0.13
17 13 0.25
18 10 0.19
19 3 0.06
ACGTcount: A:0.17, C:0.12, G:0.04, T:0.68
Consensus pattern (16 bp):
TTTTTCCATTTTTTAA
Found at i:11396560 original size:20 final size:19
Alignment explanation
Indices: 11396526--11396562 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
11396516 ATGTTTTTGT
*
11396526 AAAATTTGTTATTTTTTTC
1 AAAATTTGTGATTTTTTTC
11396545 AAAATTTGTGATTTTTTT
1 AAAATTTGTGATTTTTTT
11396563 AATTTTTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.27, C:0.03, G:0.08, T:0.62
Consensus pattern (19 bp):
AAAATTTGTGATTTTTTTC
Found at i:11396688 original size:52 final size:54
Alignment explanation
Indices: 11396605--11396706 Score: 120
Period size: 52 Copynumber: 1.9 Consensus size: 54
11396595 TGTTTTTAAA
* **
11396605 TTTTTAAAAACTTTACACTATTTTTTTAATTTTGAATTTTT-TCAGATTTTTCTT
1 TTTTTAAAAACTTTACACAATTTTTAAAATTTTGAATTTTTGT-AGATTTTTCTT
* **
11396659 TTTTTAAAAA-TTTATA-AATTTTTAAAATTTTTCATTTTTGTAGATTTT
1 TTTTTAAAAACTTTACACAATTTTTAAAATTTTGAATTTTTGTAGATTTT
11396707 CTTAATTTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
52 25 0.61
53 6 0.15
54 10 0.24
ACGTcount: A:0.29, C:0.06, G:0.04, T:0.61
Consensus pattern (54 bp):
TTTTTAAAAACTTTACACAATTTTTAAAATTTTGAATTTTTGTAGATTTTTCTT
Found at i:11396861 original size:29 final size:28
Alignment explanation
Indices: 11396805--11396866 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 28
11396795 TATTGAATAT
*
11396805 TTTTAACAATTTTTTGATTTTTTAAAAAA
1 TTTTAACAATTTTTTGATTTGTT-AAAAA
* *
11396834 TTTTAAGAATTTTTTGGA-TTGTTGAAAA
1 TTTTAACAATTTTTT-GATTTGTTAAAAA
11396862 TTTTA
1 TTTTA
11396867 TATATTTTCT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 9 0.31
29 18 0.62
30 2 0.07
ACGTcount: A:0.34, C:0.02, G:0.10, T:0.55
Consensus pattern (28 bp):
TTTTAACAATTTTTTGATTTGTTAAAAA
Found at i:11396941 original size:21 final size:21
Alignment explanation
Indices: 11396900--11396941 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
11396890 TTTTTATGAA
*
11396900 TTTTTTAAAATTTTCATTTTT
1 TTTTTTAAAATTTTCAATTTT
* *
11396921 TTTTTTGAAATTTTGAATTTT
1 TTTTTTAAAATTTTCAATTTT
11396942 CTTCTAGTGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.69
Consensus pattern (21 bp):
TTTTTTAAAATTTTCAATTTT
Found at i:11401081 original size:2 final size:2
Alignment explanation
Indices: 11401074--11401099 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
11401064 AGGATTTCTT
11401074 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
11401100 AAACAAAGGA
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:11402754 original size:3 final size:3
Alignment explanation
Indices: 11402748--11402788 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
11402738 GCATAATAAT
11402748 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
11402789 TAATAATGAT
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:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:11404538 original size:15 final size:16
Alignment explanation
Indices: 11404507--11404540 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
11404497 AATTTACGGA
*
11404507 TAAAATTTTCAATTAG
1 TAAAAATTTCAATTAG
11404523 TAAAAATTTC-ATTAG
1 TAAAAATTTCAATTAG
11404538 TAA
1 TAA
11404541 TCTATCAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (16 bp):
TAAAAATTTCAATTAG
Found at i:11404657 original size:22 final size:21
Alignment explanation
Indices: 11404605--11404662 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
11404595 CAAAAATTCT
* *
11404605 ATTGATAATAATTAAAATTTC
1 ATTGGTAATAATTATAATTTC
* *
11404626 ATCGGTAATAATTATGATTTCC
1 ATTGGTAATAATTATAATTT-C
*
11404648 ATTGGTAATATTTAT
1 ATTGGTAATAATTAT
11404663 TTTTCAATCA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 16 0.53
22 14 0.47
ACGTcount: A:0.38, C:0.07, G:0.10, T:0.45
Consensus pattern (21 bp):
ATTGGTAATAATTATAATTTC
Found at i:11411128 original size:3 final size:3
Alignment explanation
Indices: 11411120--11411144 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
11411110 CTTAAAAGAC
11411120 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
11411145 GATGGGTTAC
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:11411890 original size:2 final size:2
Alignment explanation
Indices: 11411883--11411911 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
11411873 TTGTAAATTA
11411883 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
11411912 CACTCAATTA
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:11412905 original size:12 final size:12
Alignment explanation
Indices: 11412888--11412912 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11412878 TATAAATTTA
11412888 TTATATTTTAAT
1 TTATATTTTAAT
11412900 TTATATTTTAAT
1 TTATATTTTAAT
11412912 T
1 T
11412913 AATTAGTGTT
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTATATTTTAAT
Found at i:11413002 original size:11 final size:11
Alignment explanation
Indices: 11412968--11413010 Score: 52
Period size: 12 Copynumber: 3.8 Consensus size: 11
11412958 AATTATTTTT
11412968 AATAATTAATC
1 AATAATTAATC
11412979 AA-AATTAATTC
1 AATAATTAA-TC
*
11412990 AATAACTAATC
1 AATAATTAATC
11413001 AATTAATTAA
1 AA-TAATTAA
11413011 ATTAATCAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
10 6 0.22
11 10 0.37
12 11 0.41
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.35
Consensus pattern (11 bp):
AATAATTAATC
Found at i:11413018 original size:17 final size:17
Alignment explanation
Indices: 11412996--11413042 Score: 76
Period size: 17 Copynumber: 2.7 Consensus size: 17
11412986 ATTCAATAAC
*
11412996 TAATCAATTAATTAAAT
1 TAATCAATTAAATAAAT
11413013 TAATCAATTAAATAAAT
1 TAATCAATTAAATAAAT
11413030 TAATTCAATTAAA
1 TAA-TCAATTAAA
11413043 ATCAAATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
17 19 0.68
18 9 0.32
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.38
Consensus pattern (17 bp):
TAATCAATTAAATAAAT
Found at i:11418916 original size:3 final size:3
Alignment explanation
Indices: 11418908--11418962 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
11418898 ATATTGAAAT
11418908 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
11418956 TAA TAA T
1 TAA TAA T
11418963 CTGTCTCACA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:11419035 original size:21 final size:21
Alignment explanation
Indices: 11419009--11419049 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
11418999 ATACAAATAA
*
11419009 ATTTTTATG-TATTTACTTTTT
1 ATTTTT-TGTTATTTAATTTTT
11419030 ATTTTTTGTTATTTAATTTT
1 ATTTTTTGTTATTTAATTTT
11419050 CATCATATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.20, C:0.02, G:0.05, T:0.73
Consensus pattern (21 bp):
ATTTTTTGTTATTTAATTTTT
Found at i:11419678 original size:2 final size:2
Alignment explanation
Indices: 11419671--11419705 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
11419661 ATTTCCATTG
11419671 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 T
11419706 TCCAATTATC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:11419931 original size:2 final size:2
Alignment explanation
Indices: 11419924--11419958 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
11419914 TACTTTCACC
11419924 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 T
11419959 GAGGTTGGCC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:11420924 original size:25 final size:26
Alignment explanation
Indices: 11420895--11420944 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
11420885 GATTTTTTTA
11420895 AATT-AATGTTAGGCC-ATTTTGGTTG
1 AATTAAAT-TTAGGCCTATTTTGGTTG
*
11420920 AATTAAATTTAGGCCTGTTTTGGTT
1 AATTAAATTTAGGCCTATTTTGGTT
11420945 TTTTAAGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.24, C:0.08, G:0.22, T:0.46
Consensus pattern (26 bp):
AATTAAATTTAGGCCTATTTTGGTTG
Found at i:11433978 original size:10 final size:11
Alignment explanation
Indices: 11433953--11433977 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
11433943 TCATTATTAC
11433953 TTTTAAAAACA
1 TTTTAAAAACA
11433964 TTTTAAAAACA
1 TTTTAAAAACA
11433975 TTT
1 TTT
11433978 ATTTATTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (11 bp):
TTTTAAAAACA
Found at i:11435480 original size:16 final size:17
Alignment explanation
Indices: 11435459--11435502 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
11435449 TAAAATCTTG
*
11435459 TTTTATTATTTA-TTAT
1 TTTTATTATTTATTTAA
*
11435475 TTTTATTCTTTATTTAA
1 TTTTATTATTTATTTAA
*
11435492 TTTAATTATTT
1 TTTTATTATTT
11435503 TAAAATACAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
16 11 0.48
17 12 0.52
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTTATTATTTATTTAA
Found at i:11435678 original size:14 final size:13
Alignment explanation
Indices: 11435646--11435683 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
11435636 TTTTGAGTGG
*
11435646 ATTTAGGG-TTTC
1 ATTTAGGGTTTTA
11435658 ATTTAGGGTTTTA
1 ATTTAGGGTTTTA
11435671 ATTTTAGGGTTTT
1 A-TTTAGGGTTTT
11435684 GGATATCACT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 8 0.35
13 4 0.17
14 11 0.48
ACGTcount: A:0.18, C:0.03, G:0.24, T:0.55
Consensus pattern (13 bp):
ATTTAGGGTTTTA
Found at i:11436140 original size:3 final size:3
Alignment explanation
Indices: 11436127--11436216 Score: 53
Period size: 3 Copynumber: 29.3 Consensus size: 3
11436117 ACTTTCTTTA
* * * *
11436127 TAT TTT TAT TAT TAT T-T ACAT TAT TAC TAT TAT CAT TATT TAT TAT
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TA-T TAT TAT
*
11436173 TAT CCA- TAT TAT TCCA- TAT ATAT T-T TAT TAT TAT TAT TAT TAT T
1 TAT -TAT TAT TAT T--AT TAT -TAT TAT TAT TAT TAT TAT TAT TAT T
11436217 GTTGTTGTTA
Statistics
Matches: 67, Mismatches: 10, Indels: 20
0.69 0.10 0.21
Matches are distributed among these distances:
2 5 0.07
3 52 0.78
4 9 0.13
5 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:11436221 original size:3 final size:3
Alignment explanation
Indices: 11436215--11436249 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
11436205 ATTATTATTA
*
11436215 TTG TTG TTG TTA TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
11436250 ATTATTAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.03, C:0.00, G:0.29, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:11436227 original size:12 final size:12
Alignment explanation
Indices: 11436212--11436252 Score: 73
Period size: 12 Copynumber: 3.4 Consensus size: 12
11436202 ATTATTATTA
11436212 TTATTGTTGTTG
1 TTATTGTTGTTG
11436224 TTATTGTTGTTG
1 TTATTGTTGTTG
*
11436236 TTGTTGTTGTTG
1 TTATTGTTGTTG
11436248 TTATT
1 TTATT
11436253 ATTAATATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.07, C:0.00, G:0.24, T:0.68
Consensus pattern (12 bp):
TTATTGTTGTTG
Found at i:11437484 original size:18 final size:17
Alignment explanation
Indices: 11437461--11437499 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
11437451 TTTTAGGCCT
*
11437461 TTTTCTCCTTATATTTTG
1 TTTTCTCCTTAT-TTTTA
*
11437479 TTTTCTTCTTATTTTTA
1 TTTTCTCCTTATTTTTA
11437496 TTTT
1 TTTT
11437500 GTTTTCATGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.10, C:0.13, G:0.03, T:0.74
Consensus pattern (17 bp):
TTTTCTCCTTATTTTTA
Found at i:11443035 original size:23 final size:23
Alignment explanation
Indices: 11443006--11443063 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
11442996 TAAGAAGAAA
* *
11443006 TTTTTTTGTTTTATGTTTTGTGT
1 TTTTTTTGTTTTAGGTTTTGTGG
* * *
11443029 TTTTTTTTTTTTGGGTTTTTTGG
1 TTTTTTTGTTTTAGGTTTTGTGG
*
11443052 TTTTTTGGTTTT
1 TTTTTTTGTTTT
11443064 TATTTTTTTT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.02, C:0.00, G:0.19, T:0.79
Consensus pattern (23 bp):
TTTTTTTGTTTTAGGTTTTGTGG
Found at i:11443040 original size:16 final size:16
Alignment explanation
Indices: 11443021--11443088 Score: 66
Period size: 17 Copynumber: 4.1 Consensus size: 16
11443011 TTGTTTTATG
11443021 TTTTGTGTTTTTTTTT
1 TTTTGTGTTTTTTTTT
* *
11443037 TTTTGGGTTTTTTGGTT
1 TTTTGTGTTTTTT-TTT
11443054 TTTTG-GTTTTTATTTTT
1 TTTTGTG-TTTT-TTTTT
*
11443071 TTTTTTAGTTTTTTTTT
1 TTTTGT-GTTTTTTTTT
11443088 T
1 T
11443089 AAGATGACCA
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
16 13 0.30
17 23 0.53
18 6 0.14
19 1 0.02
ACGTcount: A:0.03, C:0.00, G:0.15, T:0.82
Consensus pattern (16 bp):
TTTTGTGTTTTTTTTT
Found at i:11443053 original size:8 final size:8
Alignment explanation
Indices: 11443021--11443064 Score: 54
Period size: 8 Copynumber: 5.4 Consensus size: 8
11443011 TTGTTTTATG
11443021 TTTTGTGTT
1 TTTTG-GTT
*
11443030 TTTT-TTT
1 TTTTGGTT
11443037 TTTTGGGTT
1 TTTT-GGTT
11443046 TTTTGGTT
1 TTTTGGTT
11443054 TTTTGGTT
1 TTTTGGTT
11443062 TTT
1 TTT
11443065 ATTTTTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
7 6 0.19
8 15 0.48
9 10 0.32
ACGTcount: A:0.00, C:0.00, G:0.20, T:0.80
Consensus pattern (8 bp):
TTTTGGTT
Found at i:11443075 original size:12 final size:12
Alignment explanation
Indices: 11443060--11443089 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
11443050 GGTTTTTTGG
*
11443060 TTTTTATTTTTT
1 TTTTTAGTTTTT
11443072 TTTTTAGTTTTT
1 TTTTTAGTTTTT
11443084 TTTTTA
1 TTTTTA
11443090 AGATGACCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.10, C:0.00, G:0.03, T:0.87
Consensus pattern (12 bp):
TTTTTAGTTTTT
Found at i:11443181 original size:31 final size:32
Alignment explanation
Indices: 11443121--11443187 Score: 82
Period size: 31 Copynumber: 2.1 Consensus size: 32
11443111 GAATCGAAAG
*
11443121 ATAAGGATGATTGAGATTGAACTGCAGGTCAA
1 ATAAGGATGATCGAGATTGAACTGCAGGTCAA
* * * *
11443153 ATAAGG-TGATCGAGCTTGAATTGTAGGTCGA
1 ATAAGGATGATCGAGATTGAACTGCAGGTCAA
11443184 ATAA
1 ATAA
11443188 AATGATTGCT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 24 0.80
32 6 0.20
ACGTcount: A:0.36, C:0.09, G:0.28, T:0.27
Consensus pattern (32 bp):
ATAAGGATGATCGAGATTGAACTGCAGGTCAA
Found at i:11443512 original size:33 final size:33
Alignment explanation
Indices: 11443387--11443710 Score: 243
Period size: 33 Copynumber: 10.0 Consensus size: 33
11443377 GCTTTAAACA
* * *
11443387 TCATT-GGTGGCAAATAATCTGGGCTTAAATTT
1 TCATTGGGTGCCAGATAATCTAGGCTTAAATTT
* * *
11443419 TCATTCGGTGCCAGCTAA-CTGGGCTTAAACTTT
1 TCATTGGGTGCCAGATAATCTAGGCTTAAA-TTT
* * * * **
11443452 T-GTTGGTTGCCAGTTAAACTACACTTAAATTT
1 TCATTGGGTGCCAGATAATCTAGGCTTAAATTT
* *
11443484 TCATAGGGTACCAGATAATCTAGGCTTAAATTT
1 TCATTGGGTGCCAGATAATCTAGGCTTAAATTT
* * * * **
11443517 TAATTGGGTACCAGCTAATCCAGGCTTAAAACT
1 TCATTGGGTGCCAGATAATCTAGGCTTAAATTT
** *
11443550 TCATT-GGTGTAAGATAATTTAGGCTTAAATTT
1 TCATTGGGTGCCAGATAATCTAGGCTTAAATTT
* *
11443582 TCATTGGGTGCCAGTTAAAT-TGGGCTTAAATTT
1 TCATTGGGTGCCAGAT-AATCTAGGCTTAAATTT
* *
11443615 T-ATT-GGTGCCAGATAAACT-GAACTTAAA-TT
1 TCATTGGGTGCCAGATAATCTAG-GCTTAAATTT
* *
11443645 TCATTGGGTGCCATATAAACTAGGCTTAAATTT
1 TCATTGGGTGCCAGATAATCTAGGCTTAAATTT
* ** * * *
11443678 TCATAGAATGCCAGCTAAACTAGACTTAAATTT
1 TCATTGGGTGCCAGATAATCTAGGCTTAAATTT
11443711 GTCTCAAGAA
Statistics
Matches: 232, Mismatches: 48, Indels: 23
0.77 0.16 0.08
Matches are distributed among these distances:
30 6 0.03
31 19 0.08
32 79 0.34
33 125 0.54
34 3 0.01
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (33 bp):
TCATTGGGTGCCAGATAATCTAGGCTTAAATTT
Done.