Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167960.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_22, 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: 19587844
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 68000 characters in sequence are not A, C, G, or T
File 34 of 105
Found at i:6685108 original size:27 final size:27
Alignment explanation
Indices: 6685078--6685131 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
6685068 ATAAAACATT
6685078 AAGTAGTAAATGAATGATAACAAAATA
1 AAGTAGTAAATGAATGATAACAAAATA
6685105 AAGTAGTAAATGAATGATAACAAAATA
1 AAGTAGTAAATGAATGATAACAAAATA
6685132 GTAAATATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.59, C:0.04, G:0.15, T:0.22
Consensus pattern (27 bp):
AAGTAGTAAATGAATGATAACAAAATA
Found at i:6685134 original size:22 final size:22
Alignment explanation
Indices: 6685081--6685168 Score: 70
Period size: 22 Copynumber: 3.8 Consensus size: 22
6685071 AAACATTAAG
6685081 TAGTAAATGAATGATAACAAAATAAA
1 TAGTAAATGAATGATAAC---A-AAA
6685107 GTAGTAAATGAATGATAACAAAA
1 -TAGTAAATGAATGATAACAAAA
* * * *
6685130 TAGTAAAT-ATATAAAAATATAA
1 TAGTAAATGA-ATGATAACAAAA
*
6685152 TAGTAAATGATTGATAA
1 TAGTAAATGAATGATAA
6685169 TTTAGTAGTA
Statistics
Matches: 52, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
21 1 0.02
22 28 0.54
23 4 0.08
24 1 0.02
27 18 0.35
ACGTcount: A:0.58, C:0.02, G:0.12, T:0.27
Consensus pattern (22 bp):
TAGTAAATGAATGATAACAAAA
Found at i:6685177 original size:22 final size:21
Alignment explanation
Indices: 6685130--6685262 Score: 94
Period size: 22 Copynumber: 6.2 Consensus size: 21
6685120 GATAACAAAA
* * *
6685130 TAGTAAATATATAAAAATATAA
1 TAGTAAATAT-TAATAATTTAG
*
6685152 TAGTAAATGATTGATAATTTAG
1 TAGTAAAT-ATTAATAATTTAG
*
6685174 TAGT-AA-ATTAATAACTTAG
1 TAGTAAATATTAATAATTTAG
* * *
6685193 ATA-TAAATAACTAATAATGTAA
1 -TAGTAAAT-ATTAATAATTTAG
6685215 TAGTAAATTATTAATAATTTAG
1 TAGTAAA-TATTAATAATTTAG
*
6685237 TTA-TAAATCAGTAATAATTTAG
1 -TAGTAAAT-ATTAATAATTTAG
6685259 TAGT
1 TAGT
6685263 GAATTAATTA
Statistics
Matches: 87, Mismatches: 14, Indels: 20
0.72 0.12 0.17
Matches are distributed among these distances:
19 12 0.14
20 4 0.05
21 7 0.08
22 59 0.68
23 5 0.06
ACGTcount: A:0.50, C:0.02, G:0.10, T:0.38
Consensus pattern (21 bp):
TAGTAAATATTAATAATTTAG
Found at i:6685219 original size:44 final size:41
Alignment explanation
Indices: 6685165--6685270 Score: 122
Period size: 44 Copynumber: 2.5 Consensus size: 41
6685155 TAAATGATTG
6685165 ATAATTTAGTAGTAAATTAATAACTTAGATATAAATAACTA
1 ATAATTTAGTAGTAAATTAATAACTTAGATATAAATAACTA
* * * * * *
6685206 ATAATGTAATAGTAAATTATTAATAATTTAGTTATAAATCAGTA
1 ATAATTTAGTAGT-AA--ATTAATAACTTAGATATAAATAACTA
*
6685250 ATAATTTAGTAGTGAATTAAT
1 ATAATTTAGTAGTAAATTAAT
6685271 TAATCATTAA
Statistics
Matches: 53, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
41 17 0.32
42 2 0.04
43 1 0.02
44 33 0.62
ACGTcount: A:0.48, C:0.03, G:0.09, T:0.40
Consensus pattern (41 bp):
ATAATTTAGTAGTAAATTAATAACTTAGATATAAATAACTA
Found at i:6685355 original size:44 final size:43
Alignment explanation
Indices: 6685283--6685413 Score: 102
Period size: 44 Copynumber: 3.0 Consensus size: 43
6685273 ATCATTAATA
* * **
6685283 ACTTTTCAATGAATCATCGATAAATTAATAATAAATCAATTAT
1 ACTTTACAATAAATCATTAATAAATTAATAATAAATCAATTAT
* ** * *
6685326 GACTTTACAATAAATCATTAATAAGTTAATGGTAAATCACTAAT
1 -ACTTTACAATAAATCATTAATAAATTAATAATAAATCAATTAT
* * * * * *
6685370 AATTTA-ATAGAAATCATTCATAATTTAATAATGAATCATTTAT
1 ACTTTACA-ATAAATCATTAATAAATTAATAATAAATCAATTAT
6685413 A
1 A
6685414 ACTTAATAGC
Statistics
Matches: 68, Mismatches: 18, Indels: 3
0.76 0.20 0.03
Matches are distributed among these distances:
42 1 0.01
43 33 0.49
44 34 0.50
ACGTcount: A:0.47, C:0.10, G:0.06, T:0.37
Consensus pattern (43 bp):
ACTTTACAATAAATCATTAATAAATTAATAATAAATCAATTAT
Found at i:6685385 original size:21 final size:22
Alignment explanation
Indices: 6685336--6685478 Score: 112
Period size: 22 Copynumber: 6.6 Consensus size: 22
6685326 GACTTTACAA
* *
6685336 TAAATCATTAATAAGTTAATGG
1 TAAATCATTAATAATTTAATAG
*
6685358 TAAATCACTAATAATTTAATAG
1 TAAATCATTAATAATTTAATAG
* *
6685380 -AAATCATTCATAATTTAATAA
1 TAAATCATTAATAATTTAATAG
* * *
6685401 TGAATCATTTATAACTTAATAG
1 TAAATCATTAATAATTTAATAG
* * * *
6685423 CAAAT-AATCATAAATTAGA-AG
1 TAAATCATTAATAATTTA-ATAG
* * * *
6685444 TAAATAACTAATAATTTAGTAA
1 TAAATCATTAATAATTTAATAG
6685466 TAAATCATTAATA
1 TAAATCATTAATA
6685479 GTAAATAACT
Statistics
Matches: 94, Mismatches: 23, Indels: 8
0.75 0.18 0.06
Matches are distributed among these distances:
21 33 0.35
22 61 0.65
ACGTcount: A:0.50, C:0.08, G:0.06, T:0.36
Consensus pattern (22 bp):
TAAATCATTAATAATTTAATAG
Found at i:6685398 original size:43 final size:44
Alignment explanation
Indices: 6685337--6685461 Score: 121
Period size: 43 Copynumber: 2.9 Consensus size: 44
6685327 ACTTTACAAT
* * *
6685337 AAATCATTAATAAGTTAATGGTAAATCACTAATAATTTAATAG-
1 AAATCATTCATAAATTAATAGTAAATCACTAATAATTTAATAGC
* * * * * *
6685380 AAATCATTCATAATTTAATAATGAATCATTTATAACTTAATAGC
1 AAATCATTCATAAATTAATAGTAAATCACTAATAATTTAATAGC
* *
6685424 AAAT-AATCATAAATTAGA-AGTAAATAACTAATAATTTA
1 AAATCATTCATAAATTA-ATAGTAAATCACTAATAATTTA
6685462 GTAATAAATC
Statistics
Matches: 64, Mismatches: 16, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
43 59 0.92
44 5 0.08
ACGTcount: A:0.50, C:0.08, G:0.06, T:0.35
Consensus pattern (44 bp):
AAATCATTCATAAATTAATAGTAAATCACTAATAATTTAATAGC
Found at i:6685868 original size:21 final size:21
Alignment explanation
Indices: 6685842--6685881 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
6685832 AATTAATGAT
6685842 AACTTAATAGCAAATTAGTAA
1 AACTTAATAGCAAATTAGTAA
*
6685863 AACTTAATAGTAAATTAGT
1 AACTTAATAGCAAATTAGT
6685882 TTCAATTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.50, C:0.07, G:0.10, T:0.33
Consensus pattern (21 bp):
AACTTAATAGCAAATTAGTAA
Found at i:6686029 original size:22 final size:22
Alignment explanation
Indices: 6686002--6686071 Score: 88
Period size: 22 Copynumber: 3.2 Consensus size: 22
6685992 TATAACTAAG
* *
6686002 TAATAGTTAATTATTAATAACT
1 TAATAGTAAATTATTGATAACT
* *
6686024 TAATAGTAAATTATGGATAATT
1 TAATAGTAAATTATTGATAACT
*
6686046 TAATA-TAAATTAGTGATAACT
1 TAATAGTAAATTATTGATAACT
6686067 TAATA
1 TAATA
6686072 ATGAATCATG
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
21 18 0.44
22 23 0.56
ACGTcount: A:0.47, C:0.03, G:0.09, T:0.41
Consensus pattern (22 bp):
TAATAGTAAATTATTGATAACT
Found at i:6686056 original size:21 final size:22
Alignment explanation
Indices: 6686018--6686100 Score: 80
Period size: 22 Copynumber: 3.8 Consensus size: 22
6686008 TTAATTATTA
*
6686018 ATAACTTAATAGTAAATTATGG
1 ATAACTTAATAATAAATTATGG
*
6686040 ATAATTTAAT-ATAAATTA-GTG
1 ATAACTTAATAATAAATTATG-G
* *
6686061 ATAACTTAATAATGAATCATGG
1 ATAACTTAATAATAAATTATGG
* * *
6686083 TTAATTTAGTAATAAATT
1 ATAACTTAATAATAAATT
6686101 TGCAATGATT
Statistics
Matches: 48, Mismatches: 10, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
20 1 0.02
21 17 0.35
22 29 0.60
23 1 0.02
ACGTcount: A:0.46, C:0.04, G:0.11, T:0.40
Consensus pattern (22 bp):
ATAACTTAATAATAAATTATGG
Found at i:6686069 original size:43 final size:44
Alignment explanation
Indices: 6686018--6686100 Score: 114
Period size: 43 Copynumber: 1.9 Consensus size: 44
6686008 TTAATTATTA
* *
6686018 ATAACTTAATAGTAAATTATGGATAATTTAAT-ATAAATTAGTG
1 ATAACTTAATAATAAATCATGGATAATTTAATAATAAATTAGTG
* * *
6686061 ATAACTTAATAATGAATCATGGTTAATTTAGTAATAAATT
1 ATAACTTAATAATAAATCATGGATAATTTAATAATAAATT
6686101 TGCAATGATT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
43 27 0.79
44 7 0.21
ACGTcount: A:0.46, C:0.04, G:0.11, T:0.40
Consensus pattern (44 bp):
ATAACTTAATAATAAATCATGGATAATTTAATAATAAATTAGTG
Found at i:6686210 original size:22 final size:22
Alignment explanation
Indices: 6686159--6686233 Score: 64
Period size: 22 Copynumber: 3.4 Consensus size: 22
6686149 ATAATATAAA
* * *
6686159 AGTAAATCATTTAT-ACTTCAT
1 AGTAAATTATCTATAACTTAAT
6686180 ATGTAAATTATCTATAACTTAAT
1 A-GTAAATTATCTATAACTTAAT
* *
6686203 AGTAAATTA-CTAATAATTTGAT
1 AGTAAATTATCT-ATAACTTAAT
*
6686225 AATAAATTA
1 AGTAAATTA
6686234 GTTAATCTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
21 3 0.07
22 35 0.78
23 7 0.16
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.41
Consensus pattern (22 bp):
AGTAAATTATCTATAACTTAAT
Found at i:6686425 original size:22 final size:22
Alignment explanation
Indices: 6686316--6686434 Score: 71
Period size: 22 Copynumber: 5.4 Consensus size: 22
6686306 CATCGATAGC
* *
6686316 TTAGTAGTAAATTATTAATAAT
1 TTAGTAGTAAATAATTTATAAT
* * * * **
6686338 TTAATAATAAATTATTTTTAGC
1 TTAGTAGTAAATAATTTATAAT
* * *
6686360 GTAGTAGTAAATCATTCT-TAAA
1 TTAGTAGTAAATAATT-TATAAT
* **
6686382 TTAGTAGTATATCAA-TGCTAAT
1 TTAGTAGTAAAT-AATTTATAAT
6686404 TTAGTAGTAAATAATTTATAAT
1 TTAGTAGTAAATAATTTATAAT
*
6686426 TTAGAAGTA
1 TTAGTAGTA
6686435 TATTATTGAT
Statistics
Matches: 72, Mismatches: 21, Indels: 8
0.71 0.21 0.08
Matches are distributed among these distances:
21 2 0.03
22 68 0.94
23 2 0.03
ACGTcount: A:0.42, C:0.04, G:0.11, T:0.43
Consensus pattern (22 bp):
TTAGTAGTAAATAATTTATAAT
Found at i:6686454 original size:44 final size:44
Alignment explanation
Indices: 6686310--6686455 Score: 116
Period size: 44 Copynumber: 3.3 Consensus size: 44
6686300 ACAAATCATC
* * * *
6686310 GATAGCTTAGTAGTAAATTATTAATAATTTA-ATAATAAATTATT
1 GATAGCTTAGTAGTAAATAATTTATAATTTAGA-AGTATATTATT
** * * * * * *
6686354 TTTAGCGTAGTAGTAAATCATTCT-TAAATTAGTAGTATATCAAT
1 GATAGCTTAGTAGTAAATAATT-TATAATTTAGAAGTATATTATT
* **
6686398 GCTAATTTAGTAGTAAATAATTTATAATTTAGAAGTATATTATT
1 GATAGCTTAGTAGTAAATAATTTATAATTTAGAAGTATATTATT
*
6686442 GATAGCTCAGTAGT
1 GATAGCTTAGTAGT
6686456 CAGTTGCTGA
Statistics
Matches: 74, Mismatches: 25, Indels: 6
0.70 0.24 0.06
Matches are distributed among these distances:
43 1 0.01
44 73 0.99
ACGTcount: A:0.40, C:0.05, G:0.13, T:0.42
Consensus pattern (44 bp):
GATAGCTTAGTAGTAAATAATTTATAATTTAGAAGTATATTATT
Found at i:6686917 original size:21 final size:21
Alignment explanation
Indices: 6686866--6686925 Score: 68
Period size: 20 Copynumber: 2.9 Consensus size: 21
6686856 GTCAAACTAA
* *
6686866 TATTGAAAGTTACTAAAATTT
1 TATTAAAAGTTATTAAAATTT
* *
6686887 T-GTCAAAGTTATTAAAATTT
1 TATTAAAAGTTATTAAAATTT
*
6686907 TATTAAAAGTTATAAAAAT
1 TATTAAAAGTTATTAAAAT
6686926 CAAAATTATA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
20 17 0.53
21 15 0.47
ACGTcount: A:0.47, C:0.03, G:0.08, T:0.42
Consensus pattern (21 bp):
TATTAAAAGTTATTAAAATTT
Found at i:6688281 original size:21 final size:21
Alignment explanation
Indices: 6688255--6688303 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
6688245 ACAAGGTTAC
*
6688255 CAAAATTTTATCAAAAATTAT
1 CAAAATTGTATCAAAAATTAT
***
6688276 CAAAATTGTATCAATGGTTAT
1 CAAAATTGTATCAAAAATTAT
6688297 CAAAATT
1 CAAAATT
6688304 ATCTCCTAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.47, C:0.10, G:0.06, T:0.37
Consensus pattern (21 bp):
CAAAATTGTATCAAAAATTAT
Found at i:6688364 original size:42 final size:41
Alignment explanation
Indices: 6688234--6688365 Score: 106
Period size: 42 Copynumber: 3.1 Consensus size: 41
6688224 AAAAATTACT
*
6688234 AAAATTATATAACAA-GGTTACCAAAATTTTATCAAAAATTATC
1 AAAATTATA-AA-AATGGTTACCAAAATTTTATC-AAAGTTATC
* ** * * * * * *
6688277 AAAATTGTATCAATGGTTATCAAAATTATCTCCTAAGCTACC
1 AAAATTATAAAAATGGTTACCAAAATTTTAT-CAAAGTTATC
6688319 AAAATTATAAAAATGGTTA-CAAAACTTTTATCAAAGGTTATC
1 AAAATTATAAAAATGGTTACCAAAA-TTTTATCAAA-GTTATC
6688361 AAAAT
1 AAAAT
6688366 CAGAATGAAA
Statistics
Matches: 67, Mismatches: 18, Indels: 9
0.71 0.19 0.10
Matches are distributed among these distances:
41 10 0.15
42 48 0.72
43 9 0.13
ACGTcount: A:0.47, C:0.13, G:0.08, T:0.33
Consensus pattern (41 bp):
AAAATTATAAAAATGGTTACCAAAATTTTATCAAAGTTATC
Found at i:6688840 original size:21 final size:22
Alignment explanation
Indices: 6688757--6688843 Score: 83
Period size: 21 Copynumber: 4.1 Consensus size: 22
6688747 TATAAAAAAA
** *
6688757 TTACCAAAATCGTATCA-ATGG
1 TTACCAAAATTATATCAGAAGG
* *
6688778 TTACCACAATTATATCATAA-G
1 TTACCAAAATTATATCAGAAGG
6688799 TTACCAAAATTATAT-AGAAGG
1 TTACCAAAATTATATCAGAAGG
* *
6688820 TTACCAAAATTTTGTCA-AAGG
1 TTACCAAAATTATATCAGAAGG
6688841 TTA
1 TTA
6688844 TAAAAATCAA
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
20 3 0.05
21 50 0.91
22 2 0.04
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.32
Consensus pattern (22 bp):
TTACCAAAATTATATCAGAAGG
Found at i:6689255 original size:32 final size:33
Alignment explanation
Indices: 6689219--6689283 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 33
6689209 TTTATTAATG
* * *
6689219 ATTACCAAAAGTATATCATAA-GTTATCAAAAT
1 ATTACCAAAAGTACATCAAAAGGTTACCAAAAT
*
6689251 ATTACCAAAATTACATCAAAAGGTTACCAAAAT
1 ATTACCAAAAGTACATCAAAAGGTTACCAAAAT
6689284 TTTATTAGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 18 0.64
33 10 0.36
ACGTcount: A:0.51, C:0.15, G:0.06, T:0.28
Consensus pattern (33 bp):
ATTACCAAAAGTACATCAAAAGGTTACCAAAAT
Found at i:6689300 original size:21 final size:20
Alignment explanation
Indices: 6689251--6689376 Score: 119
Period size: 21 Copynumber: 6.0 Consensus size: 20
6689241 TTATCAAAAT
*
6689251 ATTACCAAAATTACATCAAA
1 ATTACCAAAATTATATCAAA
* *
6689271 AGGTTACCAAAATTTTATTAGAA
1 A--TTACCAAAATTATATCA-AA
* *
6689294 ATTACCAAAATTGTATCAATC
1 ATTACCAAAATTATATCAA-A
*
6689315 ATTACCAAAATTATATCATA
1 ATTACCAAAATTATATCAAA
6689335 ATTCACCAAAATTATAT-AAA
1 ATT-ACCAAAATTATATCAAA
*
6689355 AGGTTACCAAAATTTTATCAAA
1 A--TTACCAAAATTATATCAAA
6689377 GGTTATAAAA
Statistics
Matches: 87, Mismatches: 11, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
20 8 0.09
21 57 0.66
22 19 0.22
23 3 0.03
ACGTcount: A:0.48, C:0.15, G:0.05, T:0.32
Consensus pattern (20 bp):
ATTACCAAAATTATATCAAA
Found at i:6689362 original size:63 final size:63
Alignment explanation
Indices: 6689251--6689375 Score: 157
Period size: 63 Copynumber: 2.0 Consensus size: 63
6689241 TTATCAAAAT
*
6689251 ATTACCAAAATTACATCAAAAGGTTACCAAAATTTTATTAGAAATTACCAAAATTGTATCAATC
1 ATTACCAAAATTACATCAAAA-GTTACCAAAATTATATTAGAAATTACCAAAATTGTATCAATC
* * *
6689315 ATTACCAAAATTATATCATAA-TTCACCAAAATTATA-TA-AAAGGTTACCAAAATTTTATCAA
1 ATTACCAAAATTACATCAAAAGTT-ACCAAAATTATATTAGAAA--TTACCAAAATTGTATCAA
6689376 AGGTTATAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
61 3 0.06
62 4 0.07
63 28 0.52
64 19 0.35
ACGTcount: A:0.48, C:0.15, G:0.05, T:0.32
Consensus pattern (63 bp):
ATTACCAAAATTACATCAAAAGTTACCAAAATTATATTAGAAATTACCAAAATTGTATCAATC
Found at i:6689387 original size:21 final size:21
Alignment explanation
Indices: 6689342--6689388 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
6689332 ATAATTCACC
*
6689342 AAAATTATATAAAAGGTTACC
1 AAAATTATATAAAAGGTTACA
* * *
6689363 AAAATTTTATCAAAGGTTATA
1 AAAATTATATAAAAGGTTACA
6689384 AAAAT
1 AAAAT
6689389 CCAAATTCTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.53, C:0.06, G:0.09, T:0.32
Consensus pattern (21 bp):
AAAATTATATAAAAGGTTACA
Found at i:6689913 original size:42 final size:41
Alignment explanation
Indices: 6689787--6689918 Score: 149
Period size: 42 Copynumber: 3.1 Consensus size: 41
6689777 AAAGATTACT
*
6689787 AAAATTATATCAAAAGGTTACCAAAATTTTATTAGAAATTACC
1 AAAATTATATC-AAAGGTTACCAAAATTTTATTA-AAATTATC
* * * * *
6689830 AAAATTGTATCAATGGTTATCAAAATTATATTATAAGTTATC
1 AAAATTATATCAAAGGTTACCAAAATTTTATTA-AAATTATC
*
6689872 AAAATTATAT-AGAAGGTTACCAAAATTTTATCAAAATTTATC
1 AAAATTATATCA-AAGGTTACCAAAATTTTATTAAAA-TTATC
6689914 AAAAT
1 AAAAT
6689919 CAAAATTATA
Statistics
Matches: 74, Mismatches: 13, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
41 3 0.04
42 61 0.82
43 10 0.14
ACGTcount: A:0.48, C:0.09, G:0.08, T:0.36
Consensus pattern (41 bp):
AAAATTATATCAAAGGTTACCAAAATTTTATTAAAATTATC
Found at i:6689913 original size:63 final size:64
Alignment explanation
Indices: 6689772--6689918 Score: 165
Period size: 63 Copynumber: 2.3 Consensus size: 64
6689762 TATAATAAAA
*
6689772 TATCAAAAGATTA-CTAAAATTATATCAAAAGGTTACCAAAATTTTATTAGAAATTACCAAAATT
1 TATCAAAAG-TTATC-AAAATTATATCAAAAGGTTACCAAAATTATATTAGAAATTACCAAAATT
6689836 G
64 G
** * * * * *
6689837 TATCAATGGTTATCAAAATTATATTATAA-GTTATCAAAATTATA-TAGAAGGTTACCAAAATTT
1 TATCAAAAGTTATCAAAATTATATCAAAAGGTTACCAAAATTATATTAGAA-ATTACCAAAATTG
*
6689900 TATCAAAATTTATCAAAAT
1 TATCAAAAGTTATCAAAAT
6689919 CAAAATTATA
Statistics
Matches: 69, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
62 5 0.07
63 40 0.58
64 16 0.23
65 8 0.12
ACGTcount: A:0.48, C:0.10, G:0.07, T:0.35
Consensus pattern (64 bp):
TATCAAAAGTTATCAAAATTATATCAAAAGGTTACCAAAATTATATTAGAAATTACCAAAATTG
Found at i:6689916 original size:21 final size:21
Alignment explanation
Indices: 6689771--6689918 Score: 120
Period size: 21 Copynumber: 7.0 Consensus size: 21
6689761 ATATAATAAA
*
6689771 ATATCAAAAGATTACTAAAATT
1 ATATCAAAAG-TTACCAAAATT
6689793 ATATCAAAAGGTTACCAAAATT
1 ATATCAAAA-GTTACCAAAATT
* *
6689815 TTATTAGAAA-TTACCAAAATT
1 ATATCA-AAAGTTACCAAAATT
* ** *
6689836 GTATCAATGGTTATCAAAATT
1 ATATCAAAAGTTACCAAAATT
* * *
6689857 ATATTATAAGTTATCAAAATT
1 ATATCAAAAGTTACCAAAATT
*
6689878 ATAT-AGAAGGTTACCAAAATT
1 ATATCA-AAAGTTACCAAAATT
* * *
6689899 TTATCAAAATTTATCAAAAT
1 ATATCAAAAGTTACCAAAAT
6689919 CAAAATTATA
Statistics
Matches: 101, Mismatches: 20, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
20 2 0.02
21 71 0.70
22 24 0.24
23 4 0.04
ACGTcount: A:0.48, C:0.09, G:0.07, T:0.35
Consensus pattern (21 bp):
ATATCAAAAGTTACCAAAATT
Found at i:6689922 original size:16 final size:17
Alignment explanation
Indices: 6689901--6689935 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
6689891 CCAAAATTTT
*
6689901 ATCAAAATT-TATCAAA
1 ATCAAAATTATATAAAA
6689917 ATCAAAATTATATAAAA
1 ATCAAAATTATATAAAA
6689934 AT
1 AT
6689936 TTTCAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.60, C:0.09, G:0.00, T:0.31
Consensus pattern (17 bp):
ATCAAAATTATATAAAA
Found at i:6689934 original size:27 final size:26
Alignment explanation
Indices: 6689892--6689944 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 26
6689882 AGAAGGTTAC
* *
6689892 CAAAATTTTATCAAAATTTATCAAAAT
1 CAAAATTATATAAAAATTT-TCAAAAT
6689919 CAAAATTATATAAAAATTTTCAAAAT
1 CAAAATTATATAAAAATTTTCAAAAT
6689945 TTACTTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 7 0.29
27 17 0.71
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (26 bp):
CAAAATTATATAAAAATTTTCAAAAT
Found at i:6690294 original size:534 final size:528
Alignment explanation
Indices: 6688357--6690956 Score: 2981
Period size: 538 Copynumber: 5.0 Consensus size: 528
6688347 TATCAAAGGT
* * * * *
6688357 TATCAAAATCAGAATGAAATTACTAGTATTTATCATTATTATCATATTATAAAAAATTATTTATT
1 TATCAAAAT-AAAATTAAATTATTATTATTTATCATTATTATCATAGTAT-AAAAATTATTTATT
* * * * *
6688422 GGAATGAATTTTTAAAGATAAGAAGTCCATAATTGAATCTTGATTACCAGCAAAAATAGAGTTAG
64 GGAATGAATTTTTAAAGATAAGAATTACACAATTGAATCTTGGTTACTAGCAAAAATAGAGTTAG
* * * * * *
6688487 AAATTTTATCATGGGAGATTAGGATAAACTTACCATTAACCTATTTAATAAAAAAATCTAGTAAA
129 AAATTTTATCTTGGGAGACTAGAATAAACTTACCATAAACCTATTTAATAAAAAAATTTAGTGAA
* * *
6688552 CAAAAATTTTAAATTTAAATGAAACAATAATGTTATTGTATAAAAAAATTATTTTATATTAGAAC
194 CAAAAATTTTAAATTTAAATGAAACAATAATGTTATTATATAAAAAAATTATCTTATACTAGAAC
* * * * *
6688617 TGAACCCGTGCTTTTTTATAAGAATCTATTGTTAAATATATTATAACACAAATTTTATCAATAAT
259 TGAA-CTGTGATTTCTTATAAGAATCTATTGTTAAATATATGATGACACAAATTTTATCAATAAT
** * * * *
6688682 TACCAAAAGTATATTGTAAGTTAACAAAATATTACTAAAATTAC-TCTTAAAGGTTACTAAAATA
323 TACCAAAAGTATATCATAAGTTATCAAAATATTACTAAAATTACATC-AAAAGGTTACCAAAATT
* * * * *
6688746 TTATAAAAAAATTACCAAAATCGTATCAATGGTTACCACAATTATATCATAAGTTACCAAAATTA
387 TTAT-CAGAAATTACCAAAATTGTATCAATGGTTACCAAAATTATATTATAAGTTACCAAAATTA
* * *
6688811 TATAGAAGGTTACCAAAATTTTGTCAAAGGTTATAAAAATCAAAATTATATAAAAATAATCAAAT
451 TATAGAAGGTTACCAAAATTTTATCAAAGGTTATCAAAATCAAAATTATATAAAAATTATCAAA-
*
6688876 TTTATTTATATTATATTA
515 ---ATTTA-CTTATATTA
* * *
6688894 TATCAAAATCAAAATTATATTA-TATGTATTTATCATTATTATTATAGCATAAAAAATTTATTTA
1 TATCAAAAT-AAAATTAAATTATTAT-TATTTATCATTATTATCATAGTAT-AAAAA-TTATTTA
* * *
6688958 TTGGAATGGATTTTTAAAGATAACAATTACACAATTGAATCTTGGTTACTAGAAAAAATAGAGTT
62 TTGGAATGAATTTTTAAAGATAAGAATTACACAATTGAATCTTGGTTACTAGCAAAAATAGAGTT
* ** *
6689023 AAAAATTTTATCTTGAAAGACTA-AGATAAACTTACCATAAACCTATTTAATAAAAAAATTCAGT
127 AGAAATTTTATCTTGGGAGACTAGA-ATAAACTTACCATAAACCTATTTAATAAAAAAATTTAGT
* * * * * *
6689087 GAATAAAAATTTTAAATTTAAATGAAGCAATAATTTTACTATATAAAAAAAATTATTTTATACTG
191 GAACAAAAATTTTAAATTTAAATGAAACAATAATGTTATTATAT-AAAAAAATTATCTTATACTA
* * * ** * * * *
6689152 GAACTAGAGCTATGCTTTCCAATAAGAATCTATAGTTAAATATATGATGACATAACTTTTATTAA
255 GAACT-GAACTGTGATTTCTTATAAGAATCTATTGTTAAATATATGATGACACAAATTTTATCAA
* *
6689217 TGATTACCAAAAGTATATCATAAGTTATCAAAATATTACCAAAATTACATCAAAAGGTTACCAAA
319 TAATTACCAAAAGTATATCATAAGTTATCAAAATATTACTAAAATTACATCAAAAGGTTACCAAA
* ** *
6689282 ATTTTATTAGAAATTACCAAAATTGTATCAATCATTACCAAAATTATATCATAA-TTCACCAAAA
384 ATTTTATCAGAAATTACCAAAATTGTATCAATGGTTACCAAAATTATATTATAAGTT-ACCAAAA
* * * *
6689346 TTATATAAAAGGTTACCAAAATTTTATCAAAGGTTATAAAAATCCAAATTCTAT-AAAATTATCA
448 TTATATAGAAGGTTACCAAAATTTTATCAAAGGTTATCAAAATCAAAATTATATAAAAATTATCA
* *
6689410 AAAATTGCTTATATTA
513 AAATTTACTTATATTA
* * *
6689426 TATCAAAATGAAAATTAAA-T-TGAGTATTTATTATTATTATCATAGTATGAAAAATTATTTATT
1 TATCAAAAT-AAAATTAAATTATTATTATTTATCATTATTATCATAGTAT-AAAAATTATTTATT
* * * * * *
6689489 GGAATGAATTTTTAAAAATAAGAATTACATAATTGAAACTTTGTTACTGGCAAAAATAGAGCTAG
64 GGAATGAATTTTTAAAGATAAGAATTACACAATTGAATCTTGGTTACTAGCAAAAATAGAGTTAG
* **
6689554 AAATTTTATCTTGGGAGACTA-AGATAAACTAAATATAAACCTATTTAATAAAAAAATTTAGTGA
129 AAATTTTATCTTGGGAGACTAGA-ATAAACTTACCATAAACCTATTTAATAAAAAAATTTAGTGA
* * * * * *
6689618 ACAAAAATTCTAAATTTAAAAGAAATAATAATGTTATTGTATAAAAAATGTTATCTTATACAAGA
193 ACAAAAATTTTAAATTTAAATGAAACAATAATGTTATTATATAAAAAA-ATTATCTTATACTAGA
* * * * *
6689683 ACTGGACCTGTGTTTTCTTATAAAAAATCTATTGTTAAATATATGATCACACAAATTTTATCAAA
257 ACT-GAACTGTGATTTCTTAT-AAGAATCTATTGTTAAATATATGATGACACAAATTTTATCAAT
* ** * *
6689748 AATTACCAAAAGTATATAATAAAATATCAAAAGATTACTAAAATTATATCAAAAGGTTACCAAAA
320 AATTACCAAAAGTATATCATAAGTTATCAAAATATTACTAAAATTACATCAAAAGGTTACCAAAA
* * *
6689813 TTTTATTAGAAATTACCAAAATTGTATCAATGGTTATCAAAATTATATTATAAGTTATCAAAATT
385 TTTTATCAGAAATTACCAAAATTGTATCAATGGTTACCAAAATTATATTATAAGTTACCAAAATT
** *
6689878 ATATAGAAGGTTACCAAAATTTTATCAAAATTTATCAAAATCAAAATTATATAAAAATTTTCAAA
450 ATATAGAAGGTTACCAAAATTTTATCAAAGGTTATCAAAATCAAAATTATATAAAAATTATCAAA
6689943 ATTTACTTATATTA
515 ATTTACTTATATTA
* *
6689957 TATCAAAATCCAAATTAAATTATTATTATTTATCATTATTGTCATAGTATAAAAATTTTATTTAT
1 TATCAAAAT-AAAATTAAATTATTATTATTTATCATTATTATCATAGTATAAAAA--TTATTTAT
* * *
6690022 TGGAATGAATTTTTAAATATAAGAATTACACAATTTAATCTTGGTTACTAACAAAAATAGAGTTA
63 TGGAATGAATTTTTAAAGATAAGAATTACACAATTGAATCTTGGTTACTAGCAAAAATAGAGTTA
* *
6690087 GAAATTTTATCTTGAGAAACTAGAATAAACTTACCATAAACCTATTTAATAAAAAAAATTTAGTG
128 GAAATTTTATCTTGGGAGACTAGAATAAACTTACCATAAACCTATTTAAT-AAAAAAATTTAGTG
*
6690152 AA-AAAAATTATTAAATTTAAATGAAACAATAATGTTATTATATAAAAAATATATATCTTATATT
192 AACAAAAATT-TTAAATTTAAATGAAACAATAATGTTATTATATAAAAAA-AT-TATCTTATACT
* * * **
6690216 AGAAC-GAACTGGTGATTTCTTATAAGAATCTATTGCTAGATATATAATGACATTAATTTTATCA
254 AGAACTGAACT-GTGATTTCTTATAAGAATCTATTGTTAAATATATGATGACACAAATTTTATCA
* * * * *
6690280 ATAATTACCAAAAGTATATCATAAGTTATCAAAAGATTACTAAAATTATATAAAAAAGTTATCAA
318 ATAATTACCAAAAGTATATCATAAGTTATCAAAATATTACTAAAATTACATCAAAAGGTTACCAA
* *
6690345 AATTTTATCAGAAGTTACCAAAATTGTATCAATGATTACC--AA--A-ATTAT--G-T--C----
383 AATTTTATCAGAAATTACCAAAATTGTATCAATGGTTACCAAAATTATATTATAAGTTACCAAAA
*
6690396 ----AT--AA-GTTACCAAAATTTTATCAAATGTTATCAAAATCAAAATTATATAAAAATTATCA
448 TTATATAGAAGGTTACCAAAATTTTATCAAAGGTTATCAAAATCAAAATTATATAAAAATTATCA
*
6690454 AAATTTAGTTATATTA
513 AAATTTACTTATATTA
*
6690470 TATC-----AAAATT-AA--ATTATTA---GT-A-T-TTA--A-AG------AATTATTTATTGG
1 TATCAAAATAAAATTAAATTATTATTATTTATCATTATTATCATAGTATAAAAATTATTTATTGG
* * * * * *
6690512 AATGAAATTTTAAAGATAAGAAATACACAATTGAATGTTAGTTACTAGCAAAAATTGAGTTAAAA
66 AATGAATTTTTAAAGATAAGAATTACACAATTGAATCTTGGTTACTAGCAAAAATAGAGTTAGAA
* * ** *
6690577 ATTTTATCTTGGGAGATTAGGATAAACTTACCATAAAGTTATTTAATAAAAAATTTTAGTGAACA
131 ATTTTATCTTGGGAGACTAGAATAAACTTACCATAAACCTATTTAATAAAAAAATTTAGTGAACA
* * **
6690642 AAAACTCTAAACCTAAATGAAACAATAATGTTATTATATAAAAAGAAAATTATCTTATACTAGAA
196 AAAATTTTAAATTTAAATGAAACAATAATGTTATTATAT--AAA-AAAATTATCTTATACTAGAA
* * * *
6690707 CTGAA-T-TCGCACTTTCCTATAAAAATCTATTGTTAAATATATGATGATAAAAATTTTATCAAT
258 CTGAACTGT-G-A-TTTCTTATAAGAATCTATTGTTAAATATATGATGACACAAATTTTATCAAT
* * * * *
6690770 AACTACCAAAAATATATTATAAGTTATCAAAATATTACTAAAATTACATCAAAAAGTTACCAAAC
320 AATTACCAAAAGTATATCATAAGTTATCAAAATATTACTAAAATTACATCAAAAGGTTACCAAAA
* * ** * *
6690835 TTTTACCAAAAATTACCAAAATTGTATCTGTTGTTATCAAAATTATATTATAAGTTACCAAAATT
385 TTTTATCAGAAATTACCAAAATTGTATCAATGGTTACCAAAATTATATTATAAGTTACCAAAATT
* *
6690900 ATATAGAAGGTTACCAAAATTTTATCGAAGGTTATCAAAATCAAAATTAGATAAAAA
450 ATATAGAAGGTTACCAAAATTTTATCAAAGGTTATCAAAATCAAAATTATATAAAAA
6690957 AAAATTAAAT
Statistics
Matches: 1776, Mismatches: 237, Indels: 128
0.83 0.11 0.06
Matches are distributed among these distances:
485 1 0.00
486 46 0.03
487 131 0.07
488 138 0.08
489 5 0.00
490 2 0.00
492 1 0.00
493 5 0.00
495 3 0.00
496 2 0.00
498 3 0.00
499 1 0.00
500 1 0.00
501 1 0.00
504 7 0.00
506 4 0.00
507 5 0.00
508 2 0.00
509 45 0.03
513 70 0.04
514 2 0.00
516 2 0.00
524 1 0.00
526 1 0.00
527 1 0.00
528 6 0.00
529 188 0.11
530 224 0.13
531 44 0.02
532 33 0.02
533 27 0.02
534 247 0.14
535 65 0.04
536 16 0.01
537 59 0.03
538 254 0.14
539 129 0.07
540 4 0.00
ACGTcount: A:0.47, C:0.09, G:0.08, T:0.36
Consensus pattern (528 bp):
TATCAAAATAAAATTAAATTATTATTATTTATCATTATTATCATAGTATAAAAATTATTTATTGG
AATGAATTTTTAAAGATAAGAATTACACAATTGAATCTTGGTTACTAGCAAAAATAGAGTTAGAA
ATTTTATCTTGGGAGACTAGAATAAACTTACCATAAACCTATTTAATAAAAAAATTTAGTGAACA
AAAATTTTAAATTTAAATGAAACAATAATGTTATTATATAAAAAAATTATCTTATACTAGAACTG
AACTGTGATTTCTTATAAGAATCTATTGTTAAATATATGATGACACAAATTTTATCAATAATTAC
CAAAAGTATATCATAAGTTATCAAAATATTACTAAAATTACATCAAAAGGTTACCAAAATTTTAT
CAGAAATTACCAAAATTGTATCAATGGTTACCAAAATTATATTATAAGTTACCAAAATTATATAG
AAGGTTACCAAAATTTTATCAAAGGTTATCAAAATCAAAATTATATAAAAATTATCAAAATTTAC
TTATATTA
Found at i:6690299 original size:21 final size:21
Alignment explanation
Indices: 6690275--6690314 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
6690265 ACATTAATTT
6690275 TATCAATAA-TTACCAAAAGTA
1 TATC-ATAAGTTACCAAAAGTA
*
6690296 TATCATAAGTTATCAAAAG
1 TATCATAAGTTACCAAAAG
6690315 ATTACTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.50, C:0.12, G:0.07, T:0.30
Consensus pattern (21 bp):
TATCATAAGTTACCAAAAGTA
Found at i:6690334 original size:21 final size:21
Alignment explanation
Indices: 6690310--6690411 Score: 73
Period size: 21 Copynumber: 4.8 Consensus size: 21
6690300 ATAAGTTATC
*
6690310 AAAAGATTACTAAAATTATAT
1 AAAAGATTACCAAAATTATAT
* * *
6690331 AAAAAAGTTATCAAAATTTTAT
1 AAAAGA-TTACCAAAATTATAT
* *
6690353 CAGAAG-TTACCAAAATTGTAT
1 -AAAAGATTACCAAAATTATAT
* * *
6690374 CAATGATTACCAAAATTATGT
1 AAAAGATTACCAAAATTATAT
*
6690395 CATAAG-TTACCAAAATT
1 -AAAAGATTACCAAAATT
6690412 TTATCAAATG
Statistics
Matches: 61, Mismatches: 16, Indels: 8
0.72 0.19 0.09
Matches are distributed among these distances:
20 2 0.03
21 42 0.69
22 14 0.23
23 3 0.05
ACGTcount: A:0.49, C:0.11, G:0.08, T:0.32
Consensus pattern (21 bp):
AAAAGATTACCAAAATTATAT
Found at i:6690346 original size:11 final size:10
Alignment explanation
Indices: 6690274--6690430 Score: 52
Period size: 10 Copynumber: 14.9 Consensus size: 10
6690264 GACATTAATT
6690274 TTATCAATAA-
1 TTATCAA-AAG
*
6690284 TTACCAAAAG
1 TTATCAAAAG
*
6690294 TATATCATAAG
1 T-TATCAAAAG
6690305 TTATCAAAAG
1 TTATCAAAAG
*
6690315 ATTA-CTAAAAT
1 -TTATC-AAAAG
*
6690326 TATATAAAAAAG
1 T-TAT-CAAAAG
*
6690338 TTATCAAAATT
1 TTATCAAAA-G
*
6690349 TTATCAGAAG
1 TTATCAAAAG
* *
6690359 TTACCAAAAT
1 TTATCAAAAG
*
6690369 TGTATC-AATG
1 T-TATCAAAAG
*
6690379 ATTACCAAAA-
1 -TTATCAAAAG
*
6690389 TTATGTCATAAG
1 TTA--TCAAAAG
* *
6690401 TTACCAAAATT
1 TTATCAAAA-G
*
6690412 TTATCAAATG
1 TTATCAAAAG
6690422 TTATCAAAA
1 TTATCAAAA
6690431 TCAAAATTAT
Statistics
Matches: 104, Mismatches: 28, Indels: 30
0.64 0.17 0.19
Matches are distributed among these distances:
9 5 0.05
10 46 0.44
11 45 0.43
12 8 0.08
ACGTcount: A:0.48, C:0.11, G:0.07, T:0.34
Consensus pattern (10 bp):
TTATCAAAAG
Found at i:6690389 original size:42 final size:42
Alignment explanation
Indices: 6690337--6690431 Score: 120
Period size: 42 Copynumber: 2.3 Consensus size: 42
6690327 ATATAAAAAA
* *
6690337 GTTATCAAAATTTTATCAGAAGTTACCAAAATTGTATC-AAT
1 GTTACCAAAATTATATCAGAAGTTACCAAAATTGTATCAAAT
* * *
6690378 GATTACCAAAATTATGTCATAAGTTACCAAAATTTTATCAAAT
1 G-TTACCAAAATTATATCAGAAGTTACCAAAATTGTATCAAAT
*
6690421 GTTATCAAAAT
1 GTTACCAAAAT
6690432 CAAAATTATA
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
41 1 0.02
42 41 0.89
43 4 0.09
ACGTcount: A:0.43, C:0.13, G:0.08, T:0.36
Consensus pattern (42 bp):
GTTACCAAAATTATATCAGAAGTTACCAAAATTGTATCAAAT
Found at i:6690424 original size:21 final size:20
Alignment explanation
Indices: 6690334--6690431 Score: 106
Period size: 21 Copynumber: 4.7 Consensus size: 20
6690324 ATTATATAAA
*
6690334 AAAGTTATCAAAATTTTATC
1 AAAGTTACCAAAATTTTATC
*
6690354 AGAAGTTACCAAAATTGTATC
1 A-AAGTTACCAAAATTTTATC
* * *
6690375 AATGATTACCAAAATTATGTC
1 AAAG-TTACCAAAATTTTATC
6690396 ATAAGTTACCAAAATTTTATC
1 A-AAGTTACCAAAATTTTATC
*
6690417 AAATGTTATCAAAAT
1 AAA-GTTACCAAAAT
6690432 CAAAATTATA
Statistics
Matches: 65, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
20 5 0.08
21 58 0.89
22 2 0.03
ACGTcount: A:0.45, C:0.12, G:0.08, T:0.35
Consensus pattern (20 bp):
AAAGTTACCAAAATTTTATC
Found at i:6690891 original size:21 final size:21
Alignment explanation
Indices: 6690867--6690940 Score: 87
Period size: 21 Copynumber: 3.5 Consensus size: 21
6690857 TGTATCTGTT
* *
6690867 GTTATCAAAATTATATTATAA-
1 GTTACCAAAATTATA-TAGAAG
6690888 GTTACCAAAATTATATAGAAG
1 GTTACCAAAATTATATAGAAG
* *
6690909 GTTACCAAAATTTTATCGAAG
1 GTTACCAAAATTATATAGAAG
*
6690930 GTTATCAAAAT
1 GTTACCAAAAT
6690941 CAAAATTAGA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
20 4 0.09
21 43 0.91
ACGTcount: A:0.45, C:0.09, G:0.11, T:0.35
Consensus pattern (21 bp):
GTTACCAAAATTATATAGAAG
Found at i:6691186 original size:502 final size:496
Alignment explanation
Indices: 6690310--6691947 Score: 1693
Period size: 502 Copynumber: 3.3 Consensus size: 496
6690300 ATAAGTTATC
* * * * * *
6690310 AAAAGATTACTAAAATTATATAAAAAAGTTATCAAAATTTTATCAGAAGTTACCAAAATTGTATC
1 AAAAG-TTACCAAAATT-T-TAAAAAAATTACCAAAATTGTATCAGTAGTTA-CAAAATTATATC
* * *
6690375 A-ATGATTACCAAAATTATGTCATAAGTTACCAAAATTTTATCAAATGTTATCAAAATCAAAATT
62 ATAAG-TTACCAAAATTATAT-A-AAGTTACCAAAATTTTATCAAAGGTTATCAAAATCAAAATT
** * *
6690439 ATAT-AAAAATTATCAAAATTTAGTTA-TATTATATCAAAATTAAATTATTAGTATTTAAAGAAT
124 ATATAAAAAAAAAT-AAAATTT--TTAGTATT-TATCATAATT--ATCA-TAGTA--TAAA-AAT
* * * *
6690502 TATTTATTGGAATGAAATTTTAAAGATAAGAAATACACAATTGAATGTTAGTTACTAGCAAAAAT
179 TATTTATTGGAATGAATTTTTAAAGATAAGAATTACACAATTGAATCTTGGTTACTAGCAAAAAT
* ** * * *
6690567 TGAGTTAAAAATTTTATCTTGGGAGATTAGGATAAACTTACCATAAAG-TTATTTAATAAAAAAT
244 AGAGTTAAAAATTTTATCTTAAGAGATTAAGATAAACTTACCATAATGCTTATTTAATAAAAAAA
**
6690631 TTTAGTGAACAAAAACTCTAAACCTAAATGAAACAATAATGTTATTATATAAAAAGAAAATTATC
309 TTTAGTGAACAAAAACTCTAAATTTAAATGAAACAATAATGTTATTATATAAAAAGAAAATTATC
*
6690696 TTATACTAGAACTGAATTCGCACTTTCCTATAAAAATCTATTGTTAAATATATGATGATAAAAAT
374 TTATACTAAAACTGAA-TCGCACTTTCCTATAAAAATCTATTGTTAAATATATGATGATAAAAAT
* * *
6690761 TTTATCAATAACTACCAAAAATATATTATAAGTTATCAAAATATTACTAAAATTACATCA
438 TTTATCAATAATTACCAAAAGTATATCATAAGTTATCAAAATATTACTAAAATTACAT-A
* * * * *
6690821 AAAAGTTACCAAACTTTTACCAAAAATTACCAAAATTGTATCTGTTGTTATCAAAATTATATTAT
1 AAAAGTTACCAAAATTTTA-AAAAAATTACCAAAATTGTATCAGTAGTTA-CAAAATTATATCAT
* *
6690886 AAGTTACCAAAATTATATAGAAGGTTACCAAAATTTTATCGAAGGTTATCAAAATCAAAATTAGA
64 AAGTTACCAAAATTATATA-AA-GTTACCAAAATTTTATCAAAGGTTATCAAAATCAAAATTATA
* *
6690951 TAAAAAAAAATTAAATTTTTAGTATTTATCATCATTATCATAGTATAAAATATTATTTATTGGAA
127 TAAAAAAAAATAAAATTTTTAGTATTTATCATAATTATCATAGTATAAAA-ATTATTTATTGGAA
* *
6691016 TGAATTTTTAAAGATAAGAATTACACAAATGAATCTTGGTTACTAGCAAAAATAGACTTAAAAAT
191 TGAATTTTTAAAGATAAGAATTACACAATTGAATCTTGGTTACTAGCAAAAATAGAGTTAAAAAT
* * * * * *
6691081 TTTATCGTAAAAGACTAAGATAAACTAACCAT-ATGCTTATTTAATAAAAAAATTTAATGAAAAA
256 TTTATCTTAAGAGATTAAGATAAACTTACCATAATGCTTATTTAATAAAAAAATTTAGTGAACAA
* * * * *
6691145 AAAGTCTAAATTTAAATGCAACAATAATGTTATTGTATAAAAAGAAAATTAACTTATACTAAAAT
321 AAACTCTAAATTTAAATGAAACAATAATGTTATTATATAAAAAGAAAATTATCTTATACTAAAAC
* * * * * *
6691210 TGAACTCGCTCTTTCCTATAAAACTCTATTGTTAAACATATGATGACAAAACTTTTATTAATAAT
386 TGAA-TCGCACTTTCCTATAAAAATCTATTGTTAAATATATGATGATAAAAATTTTATCAATAAT
* *
6691275 TACCAAAAGTATATCATAAGTTATCAAAAGATTACTAAAATTAGA-A
450 TACCAAAAGTATATCATAAGTTATCAAAATATTACTAAAATTACATA
* * * * * *
6691321 GAAAATGTTACCAAAATTATATTATAAATTACCAAAATTATAT-AGAAGGTTACCAAAATTTTAT
1 -AAAA-GTTACCAAAATTTTA-AAAAAATTACCAAAATTGTATCAGTA-GTTA-CAAAATTATAT
* * * ** * * *
6691385 CA-AAGGTTATCAAAA-T-CA-AAA-TTA-TATAAAAATTATCAAA--TT-T--TAAT-TATATT
61 CATAA-GTTACCAAAATTATATAAAGTTACCA-AAATTTTATCAAAGGTTATCAAAATCAAAATT
* * * *
6691438 ATATCAAAATCAAAATCAAATTATTAGTATTTATCATTATTATCATAGTATAAAAAATTATTTAT
124 ATAT-AAAA-AAAAATAAAATTTTTAGTATTTATCATAATTATCATAGTAT-AAAAATTATTTAT
6691503 T-GATATGAATTTTTAAA-ATTAAGAATTACACAATTGAATCTTGGTTACTAGCAAAAATA-AGT
186 TGGA-ATGAATTTTTAAAGA-TAAGAATTACACAATTGAATCTTGGTTACTAGCAAAAATAGAGT
** * * * *
6691565 TAGCAACTTTATCTTGAGATCGAGATTATGATAAAATTATCATAAAT-C-TATTTAATAAAAAAA
249 TAAAAATTTTATCTT-A-A--GAGATTAAGATAAACTTACCAT-AATGCTTATTTAATAAAAAAA
* * * *
6691628 -TTAGTGAACAAAAATTCTAAATTTAAATAAAACAATAAAGCTATTATAT-AAAA-AAAATTATC
309 TTTAGTGAACAAAAACTCTAAATTTAAATGAAACAATAATGTTATTATATAAAAAGAAAATTATC
* * * * *
6691690 TTATACTATAACTGAACCTGCACTTT-CTATAAGAATCTATTGTTAAATATATTATGATAGAAAT
374 TTATACTAAAACTGAATC-GCACTTTCCTATAAAAATCTATTGTTAAATATATGATGATAAAAAT
* * *
6691754 TTTATC-ATAATTACTAAAAGTACATCATAAGTTATCAATAAT-TT-CTAAAGTTACATA
438 TTTATCAATAATTACCAAAAGTATATCATAAGTTATCAA-AATATTACTAAAATTACATA
* ** * *
6691811 AAAAGGTTATCAAAATTTGATAAAAAAATT-TTAAAATTGTACCAATAGTTACTAAAATTATATC
1 AAAA-GTTACCAAAATTT--TAAAAAAATTACCAAAATTGTATCAGTAGTTAC-AAAATTATATC
6691875 ATAAGTTACCAAAATTATATAAAAAGTTACCAAAATTTTATCAAAGGTTATCAAAATCAAAATTA
62 ATAAGTTACCAAAATTATAT--AAAGTTACCAAAATTTTATCAAAGGTTATCAAAATCAAAATTA
*
6691940 TAGAAAAA
125 TATAAAAA
6691948 TTATCAAAAT
Statistics
Matches: 935, Mismatches: 148, Indels: 100
0.79 0.13 0.08
Matches are distributed among these distances:
488 1 0.00
489 56 0.06
490 51 0.05
491 65 0.07
492 128 0.14
493 10 0.01
494 46 0.05
495 46 0.05
496 15 0.02
497 4 0.00
498 3 0.00
499 1 0.00
500 9 0.01
501 18 0.02
502 336 0.36
504 5 0.01
505 3 0.00
507 11 0.01
508 9 0.01
509 95 0.10
510 18 0.02
511 5 0.01
ACGTcount: A:0.48, C:0.10, G:0.08, T:0.35
Consensus pattern (496 bp):
AAAAGTTACCAAAATTTTAAAAAAATTACCAAAATTGTATCAGTAGTTACAAAATTATATCATAA
GTTACCAAAATTATATAAAGTTACCAAAATTTTATCAAAGGTTATCAAAATCAAAATTATATAAA
AAAAAATAAAATTTTTAGTATTTATCATAATTATCATAGTATAAAAATTATTTATTGGAATGAAT
TTTTAAAGATAAGAATTACACAATTGAATCTTGGTTACTAGCAAAAATAGAGTTAAAAATTTTAT
CTTAAGAGATTAAGATAAACTTACCATAATGCTTATTTAATAAAAAAATTTAGTGAACAAAAACT
CTAAATTTAAATGAAACAATAATGTTATTATATAAAAAGAAAATTATCTTATACTAAAACTGAAT
CGCACTTTCCTATAAAAATCTATTGTTAAATATATGATGATAAAAATTTTATCAATAATTACCAA
AAGTATATCATAAGTTATCAAAATATTACTAAAATTACATA
Found at i:6691354 original size:21 final size:21
Alignment explanation
Indices: 6691302--6691380 Score: 72
Period size: 21 Copynumber: 3.7 Consensus size: 21
6691292 AAGTTATCAA
* *
6691302 AAGATTACTAAAATTAGA-AG
1 AAGATTACCAAAATTATATAG
* *
6691322 AAAATGTTACCAAAATTATATTAT
1 AAGA--TTACCAAAATTATA-TAG
6691346 AA-ATTACCAAAATTATATAG
1 AAGATTACCAAAATTATATAG
*
6691366 AAGGTTACCAAAATT
1 AAGATTACCAAAATT
6691381 TTATCAAAGG
Statistics
Matches: 48, Mismatches: 6, Indels: 9
0.76 0.10 0.14
Matches are distributed among these distances:
20 7 0.15
21 25 0.52
22 12 0.25
23 1 0.02
24 3 0.06
ACGTcount: A:0.52, C:0.09, G:0.09, T:0.30
Consensus pattern (21 bp):
AAGATTACCAAAATTATATAG
Found at i:6691390 original size:21 final size:21
Alignment explanation
Indices: 6691327--6691400 Score: 80
Period size: 21 Copynumber: 3.5 Consensus size: 21
6691317 AGAAGAAAAT
*
6691327 GTTACCAAAATTATATTATAA-
1 GTTACCAAAATTATA-TAGAAG
*
6691348 ATTACCAAAATTATATAGAAG
1 GTTACCAAAATTATATAGAAG
*
6691369 GTTACCAAAATTTTATCA-AAG
1 GTTACCAAAATTATAT-AGAAG
*
6691390 GTTATCAAAAT
1 GTTACCAAAAT
6691401 CAAAATTATA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
20 4 0.09
21 41 0.89
22 1 0.02
ACGTcount: A:0.47, C:0.11, G:0.08, T:0.34
Consensus pattern (21 bp):
GTTACCAAAATTATATAGAAG
Found at i:6691804 original size:30 final size:33
Alignment explanation
Indices: 6691755--6691828 Score: 86
Period size: 31 Copynumber: 2.4 Consensus size: 33
6691745 GATAGAAATT
* * *
6691755 TTATC-ATAATTACTAAAAG-TACATCATAA-G
1 TTATCAATAATTTCTAAAAGTTACATAAAAAGG
6691785 TTATCAATAATTTCT-AAAGTTACATAAAAAGG
1 TTATCAATAATTTCTAAAAGTTACATAAAAAGG
6691817 TTATCAA-AATTT
1 TTATCAATAATTT
6691829 GATAAAAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
30 9 0.24
31 21 0.55
32 8 0.21
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.36
Consensus pattern (33 bp):
TTATCAATAATTTCTAAAAGTTACATAAAAAGG
Found at i:6691881 original size:21 final size:21
Alignment explanation
Indices: 6691843--6691931 Score: 97
Period size: 21 Copynumber: 4.2 Consensus size: 21
6691833 AAAAAATTTT
* * * *
6691843 AAAATTGTACCAATAGTTACT
1 AAAATTATATCAAAAGTTACC
*
6691864 AAAATTATATCATAAGTTACC
1 AAAATTATATCAAAAGTTACC
*
6691885 AAAATTATATAAAAAGTTACC
1 AAAATTATATCAAAAGTTACC
* * *
6691906 AAAATTTTATCAAAGGTTATC
1 AAAATTATATCAAAAGTTACC
6691927 AAAAT
1 AAAAT
6691932 CAAAATTATA
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 57 1.00
ACGTcount: A:0.49, C:0.11, G:0.07, T:0.33
Consensus pattern (21 bp):
AAAATTATATCAAAAGTTACC
Found at i:6692361 original size:21 final size:21
Alignment explanation
Indices: 6692337--6692454 Score: 87
Period size: 21 Copynumber: 5.6 Consensus size: 21
6692327 AGTATTACTT
*
6692337 AAATTACATCAAAAGTTACCA
1 AAATTATATCAAAAGTTACCA
* * * *
6692358 AAATTTTATTAGGAA-TTACAA
1 AAATTATATCA-AAAGTTACCA
* **
6692379 AAATTGTATCAATGGTTACCA
1 AAATTATATCAAAAGTTACCA
* * *
6692400 AAATTATATTATAAGTTATCA
1 AAATTATATCAAAAGTTACCA
*
6692421 AAATTATAT-AGAAGGTTACCA
1 AAATTATATCA-AAAGTTACCA
*
6692442 AAATTTTATCAAA
1 AAATTATATCAAA
6692455 GGCTATGAAA
Statistics
Matches: 72, Mismatches: 21, Indels: 8
0.71 0.21 0.08
Matches are distributed among these distances:
20 1 0.01
21 68 0.94
22 3 0.04
ACGTcount: A:0.47, C:0.10, G:0.08, T:0.34
Consensus pattern (21 bp):
AAATTATATCAAAAGTTACCA
Found at i:6692383 original size:42 final size:42
Alignment explanation
Indices: 6692337--6692450 Score: 126
Period size: 42 Copynumber: 2.7 Consensus size: 42
6692327 AGTATTACTT
* *
6692337 AAATTACATCAAAAGTTACCAAAATTTTATTAGGAA-TTA-CAA
1 AAATTATATCAAAGGTTACCAAAATTTTATTA-GAAGTTATC-A
* * * *
6692379 AAATTGTATCAATGGTTACCAAAATTATATTATAAGTTATCA
1 AAATTATATCAAAGGTTACCAAAATTTTATTAGAAGTTATCA
6692421 AAATTATAT-AGAAGGTTACCAAAATTTTAT
1 AAATTATATCA-AAGGTTACCAAAATTTTAT
6692451 CAAAGGCTAT
Statistics
Matches: 60, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
41 3 0.05
42 56 0.93
43 1 0.02
ACGTcount: A:0.46, C:0.10, G:0.09, T:0.35
Consensus pattern (42 bp):
AAATTATATCAAAGGTTACCAAAATTTTATTAGAAGTTATCA
Found at i:6692897 original size:22 final size:22
Alignment explanation
Indices: 6692814--6692917 Score: 67
Period size: 22 Copynumber: 4.8 Consensus size: 22
6692804 GACATAAATT
*
6692814 TTATCAATAATTAT-TAAAAATA
1 TTATCAA-AATTATATAAAAAAA
* *
6692836 -TATCATAAA-T-TATCAAAAGA
1 TTATCA-AAATTATATAAAAAAA
* *
6692856 TTA-CTAAAATTACT-TCAAAAAG
1 TTATC-AAAATTA-TATAAAAAAA
* *
6692878 TTATTAAAATTTTATAAAAAAA
1 TTATCAAAATTATATAAAAAAA
6692900 TTATCAAAATTATATAAA
1 TTATCAAAATTATATAAA
6692918 TGATTACCAA
Statistics
Matches: 63, Mismatches: 10, Indels: 18
0.69 0.11 0.20
Matches are distributed among these distances:
19 1 0.02
20 11 0.17
21 12 0.19
22 38 0.60
23 1 0.02
ACGTcount: A:0.55, C:0.07, G:0.02, T:0.37
Consensus pattern (22 bp):
TTATCAAAATTATATAAAAAAA
Found at i:6692908 original size:10 final size:10
Alignment explanation
Indices: 6692814--6692912 Score: 58
Period size: 11 Copynumber: 9.4 Consensus size: 10
6692804 GACATAAATT
*
6692814 TTATCAATAA
1 TTATCAAAAA
*
6692824 TTATTAAAAA
1 TTATCAAAAA
*
6692834 TATATCATAAA
1 T-TATCAAAAA
6692845 TTATCAAAAGA
1 TTATCAAAA-A
*
6692856 TTA-CTAAAA
1 TTATCAAAAA
6692865 TTACTTCAAAAA
1 TTA--TCAAAAA
* *
6692877 GTTATTAAAATT
1 -TTATCAAAA-A
*
6692889 TTATAAAAAAA
1 TTAT-CAAAAA
6692900 TTATC-AAAA
1 TTATCAAAAA
6692909 TTAT
1 TTAT
6692913 ATAAATGATT
Statistics
Matches: 69, Mismatches: 12, Indels: 17
0.70 0.12 0.17
Matches are distributed among these distances:
9 12 0.17
10 20 0.29
11 25 0.36
12 9 0.13
13 3 0.04
ACGTcount: A:0.54, C:0.07, G:0.02, T:0.37
Consensus pattern (10 bp):
TTATCAAAAA
Found at i:6694004 original size:19 final size:19
Alignment explanation
Indices: 6693980--6694016 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
6693970 AACAATAAAT
* *
6693980 AAGTTTTAGTGATAATAAC
1 AAGTTTTAATAATAATAAC
6693999 AAGTTTTAATAATAATAA
1 AAGTTTTAATAATAATAA
6694017 TTAAATTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.03, G:0.11, T:0.38
Consensus pattern (19 bp):
AAGTTTTAATAATAATAAC
Found at i:6694535 original size:62 final size:62
Alignment explanation
Indices: 6694354--6694535 Score: 165
Period size: 62 Copynumber: 2.9 Consensus size: 62
6694344 AATTAATTTT
* * * * *
6694354 TTAGGATTATTT-AAG-GTATTTTTGGCTAGAAAATACCTTAAATAGTTTATTACAAAAAATTGA
1 TTAGGATTATTTAAAGCGT-TTTTTGACCAGAAAATACCTTAAATAATCTA--AAAAAAAATTGA
* * * * ****
6694417 ATAGGATTATTTAATGCCTTTTTT-AGCCA-AAAATATCTTAAAATAATCCCTTAAAAAATTGA
1 TTAGGATTATTTAAAGCGTTTTTTGA-CCAGAAAATACCTT-AAATAATCTAAAAAAAAATTGA
*
6694479 TTAGCATTATTTAAAGCGTTTTTTGACCAGAAAATACCTTAAATAATCTAAAAAAAA
1 TTAGGATTATTTAAAGCGTTTTTTGACCAGAAAATACCTTAAATAATCTAAAAAAAA
6694536 TCTTATAAGT
Statistics
Matches: 92, Mismatches: 21, Indels: 13
0.73 0.17 0.10
Matches are distributed among these distances:
62 46 0.50
63 30 0.33
64 15 0.16
65 1 0.01
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.37
Consensus pattern (62 bp):
TTAGGATTATTTAAAGCGTTTTTTGACCAGAAAATACCTTAAATAATCTAAAAAAAAATTGA
Found at i:6696558 original size:115 final size:114
Alignment explanation
Indices: 6696352--6696561 Score: 343
Period size: 115 Copynumber: 1.8 Consensus size: 114
6696342 GTCTGTTTGG
*
6696352 GTGGAAAGAAAGTGCAATAAACATAAAGGAATGTGGGGTTTAGTAGGTGATATTGAATCTTTGTT
1 GTGGAAAGAAAGTGCAATAAACATAAAGGAATGTGGGGTTTAATAGGTGATATTGAATCTTTGTT
*
6696417 GTTTTGAGGCAAATAATTAGTGGGCTAATTAGTCACAATATCTTCTGTA
66 GTTTTGAGGCAAATAATTAGTAGGCTAATTAGTCACAATATCTTCTGTA
* *
6696466 GTGGAGAGAAAGTGCAATAAACATAACGGAAAATGT-GGGTTTAATAGGTGATATTGAAT-TTTC
1 GTGGAAAGAAAGTGCAATAAACATAAAGG--AATGTGGGGTTTAATAGGTGATATTGAATCTTT-
6696529 GTTGTTTTGAGGCAAATAATTAGTAGGCTAATT
63 GTTGTTTTGAGGCAAATAATTAGTAGGCTAATT
6696562 GCAACACGAA
Statistics
Matches: 89, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
114 30 0.34
115 54 0.61
116 5 0.06
ACGTcount: A:0.34, C:0.07, G:0.26, T:0.33
Consensus pattern (114 bp):
GTGGAAAGAAAGTGCAATAAACATAAAGGAATGTGGGGTTTAATAGGTGATATTGAATCTTTGTT
GTTTTGAGGCAAATAATTAGTAGGCTAATTAGTCACAATATCTTCTGTA
Found at i:6699512 original size:1 final size:1
Alignment explanation
Indices: 6699470--6699495 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
6699460 AGGCTACAGG
6699470 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
6699496 CTGTTCTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:6701709 original size:31 final size:31
Alignment explanation
Indices: 6701653--6701712 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
6701643 TTCCAGATTC
* **
6701653 CGGCGAAAATTCCGGCGAAGTTTGAATTTTT
1 CGGCGAAAATTCCGGCCAACATTGAATTTTT
6701684 CGGCGAAAATTCCGGCCAACATTGAATTT
1 CGGCGAAAATTCCGGCCAACATTGAATTT
6701713 CCGACGACCT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.28
Consensus pattern (31 bp):
CGGCGAAAATTCCGGCCAACATTGAATTTTT
Found at i:6702139 original size:1 final size:1
Alignment explanation
Indices: 6702133--6702157 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
6702123 CCGCTCCAGG
6702133 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
6702158 CTTGTTATTT
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:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:6702342 original size:57 final size:57
Alignment explanation
Indices: 6702267--6702720 Score: 558
Period size: 57 Copynumber: 7.7 Consensus size: 57
6702257 AAAATTCCAA
* *
6702267 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCC
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
* **
6702324 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTAA
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
* *
6702381 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAATTCC
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
* *
6702438 AAAAACTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
*
6702495 AAAAAA-AGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTT-CTT-GAAAATCGAAATTTCC
1 AAAAAATA---TTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT--AAATTTCC
*
6702555 AAAAAAAATATTTTT-GGGAAAAGTTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTCA
1 --AAAAAATATTTTTGGGGAAAAG-TTGAAAGTATCAATTTTCCTTAGAAATAAA-TTTCC
* * *
6702615 AAAAAAAAGGGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCGAAAATTTT
1 AAAAAATA-----TTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT---AAATTTC
6702679 C
57 C
* *
6702680 AAAAAACATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
6702721 CTACAAAAAA
Statistics
Matches: 348, Mismatches: 26, Indels: 43
0.83 0.06 0.10
Matches are distributed among these distances:
56 1 0.00
57 163 0.47
58 14 0.04
59 40 0.11
60 64 0.18
61 7 0.02
62 8 0.02
63 31 0.09
64 7 0.02
65 10 0.03
66 3 0.01
ACGTcount: A:0.44, C:0.08, G:0.15, T:0.34
Consensus pattern (57 bp):
AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
Found at i:6702438 original size:114 final size:117
Alignment explanation
Indices: 6702264--6702720 Score: 619
Period size: 114 Copynumber: 3.9 Consensus size: 117
6702254 AAAAAAATTC
* *
6702264 CAAAAAAAATATTTTT-AGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAATTTCCAAA
1 CAAAAAAAATATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTCCAAA
*
6702327 AAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAA-TTT
65 AAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTT
6702379 -AAAAAAAATATTTTT-AGGGAAAAGTTGAAAGTATCAATTTTCCTT-AGAAAT-AAAATTCCAA
1 CAAAAAAAATATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTTGA-AAATCAAAATTCCAA
*
6702440 AAACTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTT
64 AAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTT
*** *
6702494 CAAAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTT-CTTGAAAATCGAAATTTCCAAA
1 CAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATC-AAAATTCC--A
6702558 AAAAATATTTTT-GGGAAAAGTTTGAAAGTATCAATTTTCCTTAGAAATAAATTTT
63 AAAAATATTTTTGGGGAAAAG-TTGAAAGTATCAATTTTCCTTAGAAATAAATTTT
6702613 CAAAAAAAA-AGGGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCGAAAATT
1 CAAAAAAAATA-----TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATC-AAAA-T
* * *
6702677 TTCAAAAAACATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
59 TCCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
6702721 CTACAAAAAA
Statistics
Matches: 311, Mismatches: 13, Indels: 28
0.88 0.04 0.08
Matches are distributed among these distances:
113 1 0.00
114 106 0.34
115 10 0.03
116 37 0.12
117 8 0.03
118 8 0.03
119 54 0.17
123 62 0.20
124 22 0.07
125 3 0.01
ACGTcount: A:0.44, C:0.08, G:0.14, T:0.33
Consensus pattern (117 bp):
CAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTCCAAAA
AATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTT
Found at i:6706562 original size:20 final size:18
Alignment explanation
Indices: 6706537--6706600 Score: 56
Period size: 20 Copynumber: 3.3 Consensus size: 18
6706527 ACAATGGATG
*
6706537 AAAAAAAAAGATGATGAAAA
1 AAAAAAAAAAATGA-G-AAA
**
6706557 AAAAAAGAAAAAAAAGAAAA
1 AAAAAA-AAAAATGAG-AAA
6706577 AAAAAGAAAAAATGAGAAA
1 AAAAA-AAAAAATGAGAAA
6706596 AAAAA
1 AAAAA
6706601 GAAGGAAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
19 8 0.22
20 23 0.62
21 6 0.16
ACGTcount: A:0.83, C:0.00, G:0.12, T:0.05
Consensus pattern (18 bp):
AAAAAAAAAAATGAGAAA
Found at i:6706569 original size:9 final size:9
Alignment explanation
Indices: 6706555--6706603 Score: 71
Period size: 9 Copynumber: 5.2 Consensus size: 9
6706545 AGATGATGAA
6706555 AAAAAAAAG
1 AAAAAAAAG
6706564 AAAAAAAAG
1 AAAAAAAAG
6706573 AAAAAAAAAG
1 -AAAAAAAAG
*
6706583 AAAAAATGAG
1 AAAAAA-AAG
6706593 AAAAAAAAG
1 AAAAAAAAG
6706602 AA
1 AA
6706604 GGAAAAAATG
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
9 19 0.53
10 17 0.47
ACGTcount: A:0.86, C:0.00, G:0.12, T:0.02
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:6706569 original size:10 final size:10
Alignment explanation
Indices: 6706554--6706600 Score: 69
Period size: 10 Copynumber: 4.8 Consensus size: 10
6706544 AAGATGATGA
6706554 AAAAAAAAAG
1 AAAAAAAAAG
6706564 -AAAAAAAAG
1 AAAAAAAAAG
6706573 AAAAAAAAAG
1 AAAAAAAAAG
**
6706583 AAAAAATGAG
1 AAAAAAAAAG
6706593 AAAAAAAA
1 AAAAAAAA
6706601 GAAGGAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
9 9 0.28
10 23 0.72
ACGTcount: A:0.87, C:0.00, G:0.11, T:0.02
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:6706576 original size:19 final size:20
Alignment explanation
Indices: 6706554--6706619 Score: 80
Period size: 19 Copynumber: 3.2 Consensus size: 20
6706544 AAGATGATGA
6706554 AAAAAAAAAGAAAAAA-AAG
1 AAAAAAAAAGAAAAAATAAG
*
6706573 AAAAAAAAAGAAAAAATGAG
1 AAAAAAAAAGAAAAAATAAG
*
6706593 AAAAAAAAGAAGGAAAAAATGAG
1 -AAAAAAA-AA-GAAAAAATAAG
6706616 AAAA
1 AAAA
6706620 TGAAAAAAAG
Statistics
Matches: 42, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
19 16 0.38
20 2 0.05
21 7 0.17
22 6 0.14
23 11 0.26
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (20 bp):
AAAAAAAAAGAAAAAATAAG
Found at i:6706609 original size:29 final size:31
Alignment explanation
Indices: 6706562--6706628 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 31
6706552 GAAAAAAAAA
6706562 AGAAAAAAAAG-AAAAAAAAA-GAAAAAATG
1 AGAAAAAAAAGAAAAAAAAAATGAAAAAATG
** *
6706591 AGAAAAAAAAGAAGGAAAAAATGAGAAAATG
1 AGAAAAAAAAGAAAAAAAAAATGAAAAAATG
6706622 A-AAAAAA
1 AGAAAAAA
6706629 GAGATTCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 11 0.33
30 13 0.39
31 9 0.27
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.04
Consensus pattern (31 bp):
AGAAAAAAAAGAAAAAAAAAATGAAAAAATG
Found at i:6706618 original size:10 final size:10
Alignment explanation
Indices: 6706554--6706619 Score: 62
Period size: 10 Copynumber: 6.4 Consensus size: 10
6706544 AAGATGATGA
*
6706554 AAAAAAAAAG
1 AAAAAAAGAG
6706564 AAAAAAA-AG
1 AAAAAAAGAG
*
6706573 AAAAAAAAAG
1 AAAAAAAGAG
*
6706583 AAAAAATGAG
1 AAAAAAAGAG
6706593 AAAAAAAAGAAGG
1 -AAAAAAAG-A-G
*
6706606 AAAAAATGAG
1 AAAAAAAGAG
6706616 AAAA
1 AAAA
6706620 TGAAAAAAAG
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
9 9 0.19
10 22 0.46
11 8 0.17
12 8 0.17
13 1 0.02
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (10 bp):
AAAAAAAGAG
Found at i:6707898 original size:41 final size:41
Alignment explanation
Indices: 6707848--6708466 Score: 807
Period size: 41 Copynumber: 15.0 Consensus size: 41
6707838 GTCTAGGAGT
6707848 ATTTA-TTTTCCAAAGTTCGT-TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCCAAAG-TCGTGTGCCTCTGTTTAGAGGAGCA
*
6707888 ATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCCAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
*
6707930 ATTTACTTTTTCAAAGTTCGT-TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCCAAAG-TCGTGTGCCTCTGTTTAGAGGAGCA
* *
6707971 ATTTA-TTTTTCAAAGTTCCGT-TGCCTCTATTTAGAGGAGCA
1 ATTTACTTTTCCAAAG-T-CGTGTGCCTCTGTTTAGAGGAGCA
* * *
6708012 ATTTATTTTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCA
1 ATTTACTTTTCCAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
*
6708054 ATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTGAGAGGAGCA
1 ATTTACTTTTCCAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
*
6708095 ATTTATTTTTCCCAAAGTCGTGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTT-CCAAAGTCGTG-TGCCTCTGTTTAGAGGAGCA
*
6708138 ATTTACTTTT-CAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCCAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
*
6708179 ATTTA-TTTTTCAAAGTTCCGT-TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCCAAAG-T-CGTGTGCCTCTGTTTAGAGGAGCA
* * *
6708220 ATTTATTTTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCA
1 ATTTACTTTTCCAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
6708262 ATTTAC-TTTCC-AAGTTCGT-TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCCAAAG-TCGTGTGCCTCTGTTTAGAGGAGCA
*
6708301 ATTTAC-TTTCTAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCCAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
*
6708342 ATTTATTTTTCCCAAAGTCGTGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTT-CCAAAGTCGTG-TGCCTCTGTTTAGAGGAGCA
*
6708385 ATTTAC-TTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCCAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
*
6708426 ATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
1 ATTTACTTTTCCAAAGTCGT-GTGCCTCTGTTTAGAGGAGC
6708467 TTTGGTAAAA
Statistics
Matches: 524, Mismatches: 28, Indels: 52
0.87 0.05 0.09
Matches are distributed among these distances:
39 32 0.06
40 37 0.07
41 233 0.44
42 144 0.27
43 78 0.15
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.38
Consensus pattern (41 bp):
ATTTACTTTTCCAAAGTCGTGTGCCTCTGTTTAGAGGAGCA
Found at i:6707948 original size:83 final size:80
Alignment explanation
Indices: 6707848--6708466 Score: 850
Period size: 83 Copynumber: 7.5 Consensus size: 80
6707838 GTCTAGGAGT
*
6707848 ATTTATTTTCCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAAGTCGTGGTGC
1 ATTTATTTTTCAAAG-TCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTC-AAAGTCGTGGTGC
6707913 CTCTGTTTAGAGGAGCA
64 CTCTGTTTAGAGGAGCA
*
6707930 ATTTACTTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTTCCGT--T
1 ATTTA-TTTTTCAAAG-TCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAG-T-CGTGGT
*
6707993 GCCTCTATTTAGAGGAGCA
62 GCCTCTGTTTAGAGGAGCA
* *
6708012 ATTTATTTTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGGTG
1 ATTTATTTTT-CAAAGTCGT--TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTG
*
6708077 CCTCTGTTGAGAGGAGCA
63 CCTCTGTTTAGAGGAGCA
6708095 ATTTATTTTTCCCAAAGTCGTGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGT
1 ATTTATTTTT--CAAAGTC--GTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGT
*
6708160 ACCTCTGTTTAGAGGAGCA
62 GCCTCTGTTTAGAGGAGCA
* *
6708179 ATTTATTTTTCAAAGTTCCGTTGCCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAGTCGTGGTA
1 ATTTATTTTTCAAAG-T-CGTTGCCTCTGTTTAGAGGAGCAATTTACTTTT-CAAAGTCGTGGTG
*
6708244 CCTCTGTTGAGAGGAGCA
63 CCTCTGTTTAGAGGAGCA
* *
6708262 ATTTA-CTTTCCAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTAC-TTTCTAAAGTCGTGGTGC
1 ATTTATTTTTCAAAG-TCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTC-AAAGTCGTGGTGC
6708325 CTCTGTTTAGAGGAGCA
64 CTCTGTTTAGAGGAGCA
*
6708342 ATTTATTTTTCCCAAAGTCGTGTTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGT
1 ATTTATTTTT--CAAAGTC--GTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGT
*
6708407 ACCTCTGTTTAGAGGAGCA
62 GCCTCTGTTTAGAGGAGCA
*
6708426 ATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
1 ATTTATTTTTC-AAAGTCGT--TGCCTCTGTTTAGAGGAGC
6708467 TTTGGTAAAA
Statistics
Matches: 489, Mismatches: 24, Indels: 47
0.87 0.04 0.08
Matches are distributed among these distances:
79 1 0.00
80 36 0.07
81 45 0.09
82 87 0.18
83 170 0.35
84 145 0.30
85 3 0.01
86 2 0.00
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.38
Consensus pattern (80 bp):
ATTTATTTTTCAAAGTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCT
CTGTTTAGAGGAGCA
Found at i:6708507 original size:23 final size:23
Alignment explanation
Indices: 6708473--6708534 Score: 108
Period size: 23 Copynumber: 2.7 Consensus size: 23
6708463 GAGCTTTGGT
6708473 AAAAAAA-AAAAAAAAAAAAACAA
1 AAAAAAACAAAAAAAAAAAAAC-A
6708496 AAAAAAACAAAAAAAAAAAAACA
1 AAAAAAACAAAAAAAAAAAAACA
6708519 AAAAAAACAAAAAAAA
1 AAAAAAACAAAAAAAA
6708535 CCAAAAAATG
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
23 24 0.63
24 14 0.37
ACGTcount: A:0.94, C:0.06, G:0.00, T:0.00
Consensus pattern (23 bp):
AAAAAAACAAAAAAAAAAAAACA
Found at i:6708515 original size:33 final size:33
Alignment explanation
Indices: 6708473--6708542 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 33
6708463 GAGCTTTGGT
6708473 AAAAAAAAAAAAAAAAAAAACAAAAAAAAACAA
1 AAAAAAAAAAAAAAAAAAAACAAAAAAAAACAA
* *
6708506 AAAAAAAAAAACAAAAAAAACAAAAAAAACCAA
1 AAAAAAAAAAAAAAAAAAAACAAAAAAAAACAA
6708539 AAAA
1 AAAA
6708543 TGTTGAGTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (33 bp):
AAAAAAAAAAAAAAAAAAAACAAAAAAAAACAA
Found at i:6708539 original size:10 final size:10
Alignment explanation
Indices: 6708474--6708542 Score: 84
Period size: 10 Copynumber: 6.6 Consensus size: 10
6708464 AGCTTTGGTA
*
6708474 AAAAAAAAAA
1 AAAAAAAAAC
6708484 AAAAAAAAAC
1 AAAAAAAAAC
6708494 AAAAAAAAAC
1 AAAAAAAAAC
*
6708504 AAAAAAAAAAAA
1 --AAAAAAAAAC
6708516 ACAAAAAAAAC
1 A-AAAAAAAAC
*
6708527 AAAAAAAACC
1 AAAAAAAAAC
6708537 AAAAAA
1 AAAAAA
6708543 TGTTGAGTTG
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
10 34 0.65
11 9 0.17
12 9 0.17
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:6708540 original size:9 final size:9
Alignment explanation
Indices: 6708473--6708542 Score: 87
Period size: 8 Copynumber: 8.2 Consensus size: 9
6708463 GAGCTTTGGT
6708473 AAAA-AAAA
1 AAAACAAAA
6708481 AAAA-AAAA
1 AAAACAAAA
6708489 AAAAC-AAA
1 AAAACAAAA
*
6708497 AAAA-AACA
1 AAAACAAAA
6708505 AAAA-AAAA
1 AAAACAAAA
6708513 AAAACAAAA
1 AAAACAAAA
6708522 AAAACAAAA
1 AAAACAAAA
6708531 AAAACCAAAA
1 AAAA-CAAAA
6708541 AA
1 AA
6708543 TGTTGAGTTG
Statistics
Matches: 56, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
8 32 0.57
9 17 0.30
10 7 0.12
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAACAAAA
Found at i:6708542 original size:1 final size:1
Alignment explanation
Indices: 6708473--6708534 Score: 88
Period size: 1 Copynumber: 62.0 Consensus size: 1
6708463 GAGCTTTGGT
* * * *
6708473 AAAAAAAAAAAAAAAAAAAACAAAAAAAAACAAAAAAAAAAAAACAAAAAAAACAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
6708535 CCAAAAAATG
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
1 53 1.00
ACGTcount: A:0.94, C:0.06, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:6708761 original size:16 final size:19
Alignment explanation
Indices: 6708740--6708788 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 19
6708730 TTTTATGTAT
6708740 TGTATTATTTATT-AT-TA
1 TGTATTATTTATTAATATA
*
6708757 T-TATTATGTATTAATATA
1 TGTATTATTTATTAATATA
6708775 TGTATATATTTATT
1 TGTAT-TATTTATT
6708789 TATTTATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 10 0.38
17 3 0.12
18 3 0.12
19 3 0.12
20 7 0.27
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (19 bp):
TGTATTATTTATTAATATA
Found at i:6708900 original size:63 final size:62
Alignment explanation
Indices: 6708770--6708915 Score: 158
Period size: 63 Copynumber: 2.3 Consensus size: 62
6708760 TTATGTATTA
* *
6708770 ATATATGTATATATTTATTTATTTATTTTTTGTTAATATTTATGTGTATTTTATTATTTATGT
1 ATATATATATATATTT-TTTATTTATTTTTTGTTAATATTTATGTGTATTTTATTATTAATGT
*
6708833 ATATATATATATATTTTTTATCTT-TTTTATT-TTATTCATTT-T-TGTATTTTTACTTATCTAA
1 ATATATATATATATTTTTTAT-TTATTTT-TTGTTAAT-ATTTATGTGTA-TTTTA-TTAT-TAA
6708894 T-T
60 TGT
6708896 ATATATATGATATATTTTTT
1 ATATATAT-ATATATTTTTT
6708916 TATTATTATT
Statistics
Matches: 73, Mismatches: 3, Indels: 13
0.82 0.03 0.15
Matches are distributed among these distances:
61 4 0.05
62 19 0.26
63 36 0.49
64 14 0.19
ACGTcount: A:0.27, C:0.03, G:0.05, T:0.65
Consensus pattern (62 bp):
ATATATATATATATTTTTTATTTATTTTTTGTTAATATTTATGTGTATTTTATTATTAATGT
Found at i:6710067 original size:116 final size:117
Alignment explanation
Indices: 6709928--6710326 Score: 554
Period size: 116 Copynumber: 3.4 Consensus size: 117
6709918 AAAAAATTCC
* *
6709928 AAAAAAAATATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAA
1 AAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAA
*
6709993 AATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC-TCAGAAAT-AAATTT
66 AATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGA-AAATCAAATTT
* * *
6710044 AAAAAAAAAACATTTTTAGGGAAAAGTTGAAAGTATTAATTTTCCTTAGAAATAAAATTCCAAAA
1 AAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAA
*
6710109 ACTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCGAAATTT
66 AATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATC-AAATTT
** * *
6710162 CCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTCAAAA
1 AAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAA-TTTCCAAA
* *
6710227 AAAAAGGGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCGAAATTT
65 AAATA-----TTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATC-AAATTT
**
6710286 --TCAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTT
1 AAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTT
6710327 TCGTACAAAA
Statistics
Matches: 254, Mismatches: 20, Indels: 12
0.89 0.07 0.04
Matches are distributed among these distances:
116 100 0.39
117 2 0.01
118 57 0.22
119 9 0.04
122 38 0.15
124 48 0.19
ACGTcount: A:0.44, C:0.08, G:0.14, T:0.34
Consensus pattern (117 bp):
AAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAA
AATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAATTT
Found at i:6710085 original size:59 final size:57
Alignment explanation
Indices: 6709929--6710326 Score: 462
Period size: 59 Copynumber: 6.7 Consensus size: 57
6709919 AAAAATTCCA
*
6709929 AAAAAAATATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTT
1 AAAAAAA-ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTT
** * *
6709987 CCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTT
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTT
* * *
6710044 AAAAAAAAAACATTTTTAGGGAAAAGTTGAAAGTATTAATTTTCCTTAGAAATAAAATT
1 --AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTT
** * *
6710103 CCAAAAACTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCGAAATTT
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT--AAATTT
*
6710162 CCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTT
1 --AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAA-TTT
6710222 CAAAAAAAA-AGGGGGTTTTT-GAGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCGAAAT
1 -AAAAAAAATA-----TTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT--AAAT
6710284 TT
56 TT
**
6710286 TCAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTT
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTT
6710327 TCGTACAAAA
Statistics
Matches: 296, Mismatches: 24, Indels: 39
0.82 0.07 0.11
Matches are distributed among these distances:
56 1 0.00
57 90 0.30
58 6 0.02
59 96 0.32
60 4 0.01
61 46 0.16
62 3 0.01
63 43 0.15
64 4 0.01
65 3 0.01
ACGTcount: A:0.44, C:0.08, G:0.14, T:0.34
Consensus pattern (57 bp):
AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTT
Found at i:6715083 original size:11 final size:11
Alignment explanation
Indices: 6715067--6715091 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
6715057 ATGCTTATCA
6715067 AATCAGTGAAT
1 AATCAGTGAAT
6715078 AATCAGTGAAT
1 AATCAGTGAAT
6715089 AAT
1 AAT
6715092 TCTATTCAAT
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:0.16, T:0.28
Consensus pattern (11 bp):
AATCAGTGAAT
Found at i:6725171 original size:3 final size:3
Alignment explanation
Indices: 6725165--6725199 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
6725155 CAACGGAATG
6725165 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
6725200 TAATAAGCTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:6725381 original size:30 final size:30
Alignment explanation
Indices: 6725340--6725429 Score: 117
Period size: 30 Copynumber: 3.0 Consensus size: 30
6725330 TTGTTGCACC
* * *
6725340 TAAATTCTTAATCTTTAATTTATATTTAAA
1 TAAATTATTAATTTTTAATTTATATCTAAA
* * *
6725370 TAAATTTTTAATTTTTAATTTGTATCCAAA
1 TAAATTATTAATTTTTAATTTATATCTAAA
*
6725400 TAAATCATTAATTTTTAATTTATATCTAAA
1 TAAATTATTAATTTTTAATTTATATCTAAA
6725430 AAAGCTTTTA
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 51 1.00
ACGTcount: A:0.40, C:0.07, G:0.01, T:0.52
Consensus pattern (30 bp):
TAAATTATTAATTTTTAATTTATATCTAAA
Found at i:6725441 original size:30 final size:30
Alignment explanation
Indices: 6725347--6725441 Score: 104
Period size: 30 Copynumber: 3.2 Consensus size: 30
6725337 ACCTAAATTC
* * *
6725347 TTAATCTTTAATTTATATTTAAATAAATTT
1 TTAATTTTTAATTTATATCTAAATAAACTT
* * *
6725377 TTAATTTTTAATTTGTATCCAAATAAA-TCA
1 TTAATTTTTAATTTATATCTAAATAAACT-T
6725407 TTAATTTTTAATTTATATCTAAA-AAAGCTT
1 TTAATTTTTAATTTATATCTAAATAAA-CTT
6725437 TTAAT
1 TTAAT
6725442 ATAAATCAAT
Statistics
Matches: 54, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
29 4 0.07
30 49 0.91
31 1 0.02
ACGTcount: A:0.40, C:0.06, G:0.02, T:0.52
Consensus pattern (30 bp):
TTAATTTTTAATTTATATCTAAATAAACTT
Found at i:6725943 original size:1 final size:1
Alignment explanation
Indices: 6725939--6725965 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
6725929 ACTATCCCCC
6725939 TTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
6725966 CTCTAGGTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:6729996 original size:19 final size:19
Alignment explanation
Indices: 6729974--6730012 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
6729964 CGTATCTGAA
*
6729974 TTTTAATATTTTTTTGTTG
1 TTTTAATATTTTATTGTTG
*
6729993 TTTTGATATTTTATTGTTG
1 TTTTAATATTTTATTGTTG
6730012 T
1 T
6730013 CAATTTTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.15, C:0.00, G:0.13, T:0.72
Consensus pattern (19 bp):
TTTTAATATTTTATTGTTG
Found at i:6731144 original size:3 final size:3
Alignment explanation
Indices: 6731136--6731175 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
6731126 TTTAAATAAG
6731136 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
6731176 AATTGGGCTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:6733886 original size:2 final size:2
Alignment explanation
Indices: 6733879--6733909 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
6733869 NNNNNNNNNN
*
6733879 AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6733910 AAACTTGATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 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):
AT
Found at i:6741811 original size:3 final size:3
Alignment explanation
Indices: 6741805--6741836 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
6741795 CAACGGAATG
6741805 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
6741837 TAATAAGCTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:6742017 original size:30 final size:30
Alignment explanation
Indices: 6741976--6742065 Score: 117
Period size: 30 Copynumber: 3.0 Consensus size: 30
6741966 TTGTTGCACC
* * *
6741976 TAAATTCTTAATCTTTAATTTATATTTAAA
1 TAAATTATTAATTTTTAATTTATATCTAAA
* * *
6742006 TAAATTTTTAATTTTTAATTTGTATCCAAA
1 TAAATTATTAATTTTTAATTTATATCTAAA
*
6742036 TAAATCATTAATTTTTAATTTATATCTAAA
1 TAAATTATTAATTTTTAATTTATATCTAAA
6742066 AAAGCTTTTA
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 51 1.00
ACGTcount: A:0.40, C:0.07, G:0.01, T:0.52
Consensus pattern (30 bp):
TAAATTATTAATTTTTAATTTATATCTAAA
Found at i:6742077 original size:30 final size:30
Alignment explanation
Indices: 6741983--6742077 Score: 104
Period size: 30 Copynumber: 3.2 Consensus size: 30
6741973 ACCTAAATTC
* * *
6741983 TTAATCTTTAATTTATATTTAAATAAATTT
1 TTAATTTTTAATTTATATCTAAATAAACTT
* * *
6742013 TTAATTTTTAATTTGTATCCAAATAAA-TCA
1 TTAATTTTTAATTTATATCTAAATAAACT-T
6742043 TTAATTTTTAATTTATATCTAAA-AAAGCTT
1 TTAATTTTTAATTTATATCTAAATAAA-CTT
6742073 TTAAT
1 TTAAT
6742078 ATAAATCAAT
Statistics
Matches: 54, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
29 4 0.07
30 49 0.91
31 1 0.02
ACGTcount: A:0.40, C:0.06, G:0.02, T:0.52
Consensus pattern (30 bp):
TTAATTTTTAATTTATATCTAAATAAACTT
Found at i:6742579 original size:1 final size:1
Alignment explanation
Indices: 6742575--6742599 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
6742565 ACTATCCCCC
6742575 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
6742600 CTCTAGGTCA
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:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:6746653 original size:19 final size:19
Alignment explanation
Indices: 6746631--6746669 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
6746621 CGTATCTGAA
*
6746631 TTTTAATATTTTTTTGTTG
1 TTTTAATATTTTATTGTTG
*
6746650 TTTTGATATTTTATTGTTG
1 TTTTAATATTTTATTGTTG
6746669 T
1 T
6746670 CAATTTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.15, C:0.00, G:0.13, T:0.72
Consensus pattern (19 bp):
TTTTAATATTTTATTGTTG
Found at i:6747802 original size:3 final size:3
Alignment explanation
Indices: 6747794--6747818 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
6747784 TTTAAATAAG
6747794 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
6747819 AATTGGGCTT
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:6754216 original size:17 final size:17
Alignment explanation
Indices: 6754194--6754227 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
6754184 TTTACTAAGA
6754194 AATTAAAATAAA-AAATT
1 AATTAAAA-AAAGAAATT
6754211 AATTAAAAAAAGAAATT
1 AATTAAAAAAAGAAATT
6754228 TGAGAAAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.19
17 13 0.81
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (17 bp):
AATTAAAAAAAGAAATT
Found at i:6755454 original size:17 final size:17
Alignment explanation
Indices: 6755412--6755454 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
6755402 ATTTTTTACC
**
6755412 TTGTATTTTTTTTTCTT
1 TTGTATTTTTCCTTCTT
* *
6755429 TTTTCTTTTTCCTTCTT
1 TTGTATTTTTCCTTCTT
6755446 TTGTATTTT
1 TTGTATTTT
6755455 ATGTATTTTA
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.05, C:0.12, G:0.05, T:0.79
Consensus pattern (17 bp):
TTGTATTTTTCCTTCTT
Found at i:6755470 original size:3 final size:3
Alignment explanation
Indices: 6755449--6755507 Score: 95
Period size: 3 Copynumber: 20.0 Consensus size: 3
6755439 CCTTCTTTTG
6755449 TAT T-T TAT GTAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
6755493 TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT
6755508 GTATATCTTT
Statistics
Matches: 53, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
2 4 0.08
3 46 0.87
4 3 0.06
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:6756624 original size:11 final size:10
Alignment explanation
Indices: 6756607--6756660 Score: 51
Period size: 10 Copynumber: 5.6 Consensus size: 10
6756597 TTTATCTTTA
6756607 TTTTTTTATT
1 TTTTTTTATT
*
6756617 TTTGTTTTACT
1 TTT-TTTTATT
*
6756628 TTTCTTTA--
1 TTTTTTTATT
6756636 -TTTTTTATT
1 TTTTTTTATT
*
6756645 TTTATTTATT
1 TTTTTTTATT
6756655 TTTTTT
1 TTTTTT
6756661 ATTATTCTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
7 6 0.17
10 20 0.57
11 9 0.26
ACGTcount: A:0.11, C:0.04, G:0.02, T:0.83
Consensus pattern (10 bp):
TTTTTTTATT
Found at i:6756637 original size:29 final size:27
Alignment explanation
Indices: 6756601--6756674 Score: 87
Period size: 27 Copynumber: 2.7 Consensus size: 27
6756591 ATTCTTTTTA
*
6756601 TCTTTATTTTTTTATTTTTGTTTTACTTT
1 TCTTTATTTTTTTATTTTT-ATTTA-TTT
6756630 TCTTTA-TTTTTTATTTTTATTTATTT
1 TCTTTATTTTTTTATTTTTATTTATTT
* * *
6756656 TTTTTATTATTCTATTTTT
1 TCTTTATTTTTTTATTTTT
6756675 TTAAAATGAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
26 8 0.20
27 14 0.35
28 12 0.30
29 6 0.15
ACGTcount: A:0.14, C:0.05, G:0.01, T:0.80
Consensus pattern (27 bp):
TCTTTATTTTTTTATTTTTATTTATTT
Found at i:6756641 original size:17 final size:17
Alignment explanation
Indices: 6756610--6756675 Score: 66
Period size: 17 Copynumber: 3.9 Consensus size: 17
6756600 ATCTTTATTT
6756610 TTTTATTT-TTGTTTTAC
1 TTTTATTTATT-TTTTAC
* *
6756627 TTTTCTTTATTTTTTAT
1 TTTTATTTATTTTTTAC
6756644 TTTTATTTATTTTTT--
1 TTTTATTTATTTTTTAC
6756659 TTATTATTCTATTTTTT
1 TT-TTATT-TATTTTTT
6756676 TAAAATGAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
15 2 0.05
16 5 0.12
17 34 0.79
18 2 0.05
ACGTcount: A:0.14, C:0.05, G:0.02, T:0.80
Consensus pattern (17 bp):
TTTTATTTATTTTTTAC
Found at i:6756661 original size:36 final size:35
Alignment explanation
Indices: 6756585--6756677 Score: 84
Period size: 36 Copynumber: 2.6 Consensus size: 35
6756575 ATTAGGTTTA
* *
6756585 TTTAATATTCTTTTTATCTTTATTTTTTTATTTTTGT
1 TTTATTATTCTATTT-T-TTTATTTTTTTATTTTTGT
*
6756622 TTTACTT-TTCTTTATTTTTTATTTTTATT-TATTTT-T
1 TTTA-TTATTCTAT-TTTTTTATTTTT-TTAT-TTTTGT
6756658 TTTATTATTCTATTTTTTTA
1 TTTATTATTCTATTTTTTTA
6756678 AAATGAAAAT
Statistics
Matches: 49, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
35 9 0.18
36 20 0.41
37 17 0.35
38 3 0.06
ACGTcount: A:0.16, C:0.05, G:0.01, T:0.77
Consensus pattern (35 bp):
TTTATTATTCTATTTTTTTATTTTTTTATTTTTGT
Found at i:6756676 original size:17 final size:16
Alignment explanation
Indices: 6756590--6756676 Score: 65
Period size: 17 Copynumber: 5.6 Consensus size: 16
6756580 GTTTATTTAA
* *
6756590 TATTCTTTTTA-TCTT
1 TATTTTTTTTATTATT
6756605 TA-TTTTTTTATT-TT
1 TATTTTTTTTATTATT
* ** *
6756619 TGTTTTACTT-TTCTT
1 TATTTTTTTTATTATT
*
6756634 TATTTTTTATTTTTATT
1 TATTTTTT-TTATTATT
6756651 TATTTTTTTTATTATT
1 TATTTTTTTTATTATT
6756667 CTATTTTTTT
1 -TATTTTTTT
6756677 AAAATGAAAA
Statistics
Matches: 57, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
14 12 0.21
15 15 0.26
16 9 0.16
17 21 0.37
ACGTcount: A:0.14, C:0.06, G:0.01, T:0.79
Consensus pattern (16 bp):
TATTTTTTTTATTATT
Found at i:6756786 original size:58 final size:58
Alignment explanation
Indices: 6756700--6757034 Score: 442
Period size: 58 Copynumber: 5.7 Consensus size: 58
6756690 AAACTTTCAA
6756700 AAAAAAATATTTTT-AGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC
1 AAAAAAATATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC
*** * *
6756758 AAAAAGGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTGGAAATCAAATTTTC
1 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT-AAATTTTC
*
6756817 AAAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC
1 -AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC
*** * *
6756876 AAAAAGGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGGAAATTAAAGTTTC
1 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAA-TAAATTTTC
* * * * *
6756935 AAAATAAATATTTTTGAGAAAAAGTTAAAAATATCAATTTTTCTTAAAAATAAA-TTTC
1 AAAA-AAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC
*
6756993 CAAAAAATATTTTTG-GGAAAAAGTTGAAAGTATCAATTTTCC
1 AAAAAAATATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCC
6757035 CTACACAAGA
Statistics
Matches: 240, Mismatches: 31, Indels: 13
0.85 0.11 0.05
Matches are distributed among these distances:
56 1 0.00
57 32 0.13
58 94 0.39
59 33 0.14
60 80 0.33
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.36
Consensus pattern (58 bp):
AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC
Found at i:6756832 original size:118 final size:118
Alignment explanation
Indices: 6756684--6757034 Score: 519
Period size: 118 Copynumber: 3.0 Consensus size: 118
6756674 TTTAAAATGA
6756684 AAATCAAAACTTTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAA
1 AAATC-AAACTTTC-AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAA
*
6756749 TAAATTTTCAAAAAGGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTGG
64 TAAATTTTCAAAAAGGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGG
* *
6756804 AAATCAAATTTTCAAAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATA
1 AAATCAAACTTTCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATA
6756869 AATTTTCAAAAAGGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGG
66 AATTTTCAAAAAGGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGG
* * * * * * * *
6756922 AAATTAAAGTTTCAAAATAAATATTTTT-GAGAAAAAGTTAAAAATATCAATTTTTCTTAAAAAT
1 AAATCAAACTTTCAAAAAAAATATTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
* **
6756986 AAATTTCCAAAAA-ATATTTTTG-GGAAAAAGTTGAAAGTATCAATTTTCC
65 AAATTTTCAAAAAGGGATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCC
6757035 CTACACAAGA
Statistics
Matches: 214, Mismatches: 15, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
116 2 0.01
117 31 0.14
118 169 0.79
119 7 0.03
120 5 0.02
ACGTcount: A:0.45, C:0.07, G:0.13, T:0.35
Consensus pattern (118 bp):
AAATCAAACTTTCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATA
AATTTTCAAAAAGGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGG
Found at i:6762311 original size:41 final size:41
Alignment explanation
Indices: 6762190--6762599 Score: 701
Period size: 41 Copynumber: 10.1 Consensus size: 41
6762180 GATTGTCAAT
6762190 GAGCAATTTACTTTTTCAAAGTTTCGT--TGCCTCTGTTTAGAG
1 GAGCAATTTAC-TTTTCAAAG--TCGTGGTGCCTCTGTTTAGAG
6762232 GAGCAATTTA-TTTT-AAAGTCGT--TGCCTCTGTTTAGAG
1 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
6762269 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
1 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
6762310 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
1 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
6762351 GAGCAATTTAC-TTTCAAAGTCGTGGTGCCTCTGTTTAGAG
1 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
6762391 GAGCAATTTAC-TTTCAAAGTCGTGGTGCCTCTGTTTAGAG
1 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
6762431 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
1 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
6762472 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
1 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
6762513 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
1 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
* * *
6762554 GAGCAATTTATTTTTTCAAAGTCGTTGAGCCTCTGTTTAGAG
1 GAGCAATTTA-CTTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
6762596 GAGC
1 GAGC
6762600 TTTGGTCAAA
Statistics
Matches: 359, Mismatches: 3, Indels: 12
0.96 0.01 0.03
Matches are distributed among these distances:
37 29 0.08
38 4 0.01
39 12 0.03
40 84 0.23
41 188 0.52
42 42 0.12
ACGTcount: A:0.22, C:0.17, G:0.24, T:0.37
Consensus pattern (41 bp):
GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
Found at i:6762456 original size:162 final size:161
Alignment explanation
Indices: 6762190--6762599 Score: 693
Period size: 162 Copynumber: 2.5 Consensus size: 161
6762180 GATTGTCAAT
*
6762190 GAGCAATTTACTTTTTCAAAGTTTCGT--TGCCTCTGTTTAGAGGAGCAATTTATTTTAAAGTCG
1 GAGCAATTTAC-TTTTCAAAG--TCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTCAAAGTCG
6762253 T-TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAAT
63 TGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAAT
6762317 TTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
128 TTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
6762351 GAGCAATTTAC-TTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCAAAGTCGTG
1 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTA-TTTCAAAGTCGT-
6762415 GTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATT
64 GTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATT
6762480 TACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
129 TACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
6762513 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTTCAAAGTCG
1 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTA---TTTCAAAGTCG
*
6762578 TTGAGCCTCTGTTTAGAGGAGC
63 -TGTGCCTCTGTTTAGAGGAGC
6762600 TTTGGTCAAA
Statistics
Matches: 237, Mismatches: 3, Indels: 14
0.93 0.01 0.06
Matches are distributed among these distances:
157 4 0.02
159 33 0.14
160 11 0.05
161 11 0.05
162 108 0.46
163 39 0.16
165 30 0.13
166 1 0.00
ACGTcount: A:0.22, C:0.17, G:0.24, T:0.37
Consensus pattern (161 bp):
GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTCAAAGTCGTGT
GCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTA
CTTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
Found at i:6762635 original size:15 final size:16
Alignment explanation
Indices: 6762615--6762644 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
6762605 TCAAAACACA
6762615 AAAAAAACAA-AAAAC
1 AAAAAAACAACAAAAC
6762630 AAAAAAACAACAAAA
1 AAAAAAACAACAAAA
6762645 AAACACAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (16 bp):
AAAAAAACAACAAAAC
Found at i:6762891 original size:16 final size:16
Alignment explanation
Indices: 6762872--6762904 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
6762862 TCTTTTGTAT
6762872 TTTATGTATT-TTATTA
1 TTTAT-TATTATTATTA
6762888 TTTATTATTATTATTA
1 TTTATTATTATTATTA
6762904 T
1 T
6762905 GTATATCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (16 bp):
TTTATTATTATTATTA
Found at i:6762904 original size:28 final size:27
Alignment explanation
Indices: 6762869--6762921 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 27
6762859 CCTTCTTTTG
*
6762869 TATTTTATGTAT-TTTATTATTTATTAT
1 TATTTTATGTATATCT-TTATTTATTAT
6762896 TATTATTATGTATATCTTTATTTATT
1 TATT-TTATGTATATCTTTATTTATT
6762922 TTTTTCTGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 4 0.17
28 17 0.74
29 2 0.09
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.68
Consensus pattern (27 bp):
TATTTTATGTATATCTTTATTTATTAT
Found at i:6762972 original size:70 final size:66
Alignment explanation
Indices: 6762874--6763004 Score: 158
Period size: 70 Copynumber: 1.9 Consensus size: 66
6762864 TTTTGTATTT
* * * *
6762874 TATGTATTTTATTATTTATTATTATTATTATGTATATCT-TTATTTA-TTTTTTTCTGTTAATGT
1 TATGTAATTTATTATATATTATTATTATTAT-TATAT-TATAATTTATTTTTTTTCTGGTAATGT
6762937 TTA
64 TTA
6762940 TATGTAATTTATTTATATAGTTATATATTTATTATTATATTATAATTTATTTTTTTTCTGGTAAT
1 TATGTAATTTA-TTATATA-TTAT-TA-TTATTATTATATTATAATTTATTTTTTTTCTGGTAAT
6763005 ATTTTTGGAT
Statistics
Matches: 55, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
66 10 0.18
67 6 0.11
68 5 0.09
69 13 0.24
70 21 0.38
ACGTcount: A:0.27, C:0.02, G:0.06, T:0.64
Consensus pattern (66 bp):
TATGTAATTTATTATATATTATTATTATTATTATATTATAATTTATTTTTTTTCTGGTAATGTTT
A
Found at i:6763603 original size:20 final size:20
Alignment explanation
Indices: 6763574--6763611 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
6763564 TTTCGGTGAA
*
6763574 ATTTTCCAGATTCCGACCAC
1 ATTTTCCAGAGTCCGACCAC
*
6763594 ATTTTTCAGAGTCCGACC
1 ATTTTCCAGAGTCCGACC
6763612 GATATTCAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.32, G:0.13, T:0.32
Consensus pattern (20 bp):
ATTTTCCAGAGTCCGACCAC
Found at i:6763854 original size:5 final size:5
Alignment explanation
Indices: 6763844--6763868 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
6763834 CCCCCCTCCA
6763844 AGCCG AGCCG AGCCG AGCCG AGCCG
1 AGCCG AGCCG AGCCG AGCCG AGCCG
6763869 CTAGGTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.40, G:0.40, T:0.00
Consensus pattern (5 bp):
AGCCG
Found at i:6763908 original size:19 final size:18
Alignment explanation
Indices: 6763875--6764013 Score: 77
Period size: 21 Copynumber: 7.1 Consensus size: 18
6763865 GCCGCTAGGT
6763875 TTTTTTTTTGAATTTTTTTAA
1 TTTTTTTTT--ATTTTTTT-A
6763896 TTTTTTTTTATTTGTTTTA
1 TTTTTTTTTATTT-TTTTA
*
6763915 TTTTATTTTATTTTTTATTTAGA
1 TTTT-TTTT-TATTTT-TTT--A
* *
6763938 TTAGTTTATTTAATATTTTTA
1 TT--TTT-TTTTATTTTTTTA
6763959 TCTTATTTTTTA-TTTTTTA
1 T-TT-TTTTTTATTTTTTTA
* *
6763978 CTTTTCTTTA--TTTTTA
1 TTTTTTTTTATTTTTTTA
*
6763994 TTTTTATTTATTTTTTTA
1 TTTTTTTTTATTTTTTTA
6764012 TT
1 TT
6764014 ATTCTATTTT
Statistics
Matches: 95, Mismatches: 10, Indels: 29
0.71 0.07 0.22
Matches are distributed among these distances:
16 14 0.15
17 6 0.06
18 10 0.11
19 15 0.16
20 14 0.15
21 20 0.21
22 1 0.01
23 6 0.06
24 4 0.04
25 5 0.05
ACGTcount: A:0.18, C:0.02, G:0.03, T:0.77
Consensus pattern (18 bp):
TTTTTTTTTATTTTTTTA
Found at i:6763918 original size:5 final size:5
Alignment explanation
Indices: 6763886--6764023 Score: 54
Period size: 5 Copynumber: 27.0 Consensus size: 5
6763876 TTTTTTTTGA
* * * *
6763886 ATTTT -TTTA ATTTT TTTTT A-TTT GTTTT ATTTT ATTTT ATTTT TTATTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT AT-TTT
** * *
6763935 AGATT AGTTT ATTTAAT ATTTTT ATCTT ATTTT -TTATT -TTTT ACTTTT
1 ATTTT ATTTT ATTT--T A-TTTT ATTTT ATTTT ATT-TT ATTTT A-TTTT
* * *
6763983 -CTTT ATTTTT ATTTT -TATTT ATTTT TTTATT ATTCT ATTTT
1 ATTTT A-TTTT ATTTT AT-TTT ATTTT ATT-TT ATTTT ATTTT
6764024 CTTTAAATAA
Statistics
Matches: 99, Mismatches: 20, Indels: 28
0.67 0.14 0.19
Matches are distributed among these distances:
4 14 0.14
5 62 0.63
6 18 0.18
7 2 0.02
8 3 0.03
ACGTcount: A:0.19, C:0.03, G:0.02, T:0.76
Consensus pattern (5 bp):
ATTTT
Found at i:6764009 original size:41 final size:42
Alignment explanation
Indices: 6763942--6764028 Score: 117
Period size: 41 Copynumber: 2.1 Consensus size: 42
6763932 TTTAGATTAG
*
6763942 TTTATTTAATATTTTTATCTTATTTTTTATT-TTTTACTTTTC
1 TTTATTTAATATTTTTATCTTATTTTTTATTATTCTA-TTTTC
*
6763984 TTTATTT-TTATTTTTAT-TTATTTTTTTATTATTCTATTTTC
1 TTTATTTAATATTTTTATCTTA-TTTTTTATTATTCTATTTTC
6764025 TTTA
1 TTTA
6764029 AATAAAATCA
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
40 3 0.07
41 27 0.66
42 11 0.27
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (42 bp):
TTTATTTAATATTTTTATCTTATTTTTTATTATTCTATTTTC
Found at i:6764211 original size:58 final size:56
Alignment explanation
Indices: 6764039--6764430 Score: 510
Period size: 58 Copynumber: 6.9 Consensus size: 56
6764029 AATAAAATCA
6764039 AAATTTCAAAAAAATATTTTTAGGGAAAAAGTTGAAAGTATCAATTTTCCTTA-AAAT
1 AAATTTCAAAAAAATATTTTT-GGG-AAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
*
6764096 AAATTTC-AAAAAA-ATTTTTGAGAAAAGTT-AAAGTATCAA-TTTCCTT-GAAAT
1 AAATTTCAAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
6764147 CAAATTTCAAAAAAATTATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
1 -AAATTTCAAAAAAA-TATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
*** *
6764206 AAATTTTCAAAAAGGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGGAAAT
1 AAA-TTTCAAAAAAATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
* * *
6764264 CAAAGTTTCAAAATAAATATTTTTGAGAAAAAGTTGAAAATATCAATTTTCCTTAAAAAT
1 -AAA-TTTCAAAA-AAATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
*
6764324 AAATTTCCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAAT
1 AAATTTCAAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT
*
6764381 GAATTTCCAAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCC
1 AAATTT-CAAAAAAATATTTTTGGG-AAAAGTTGAAAGTATCAATTTTCC
6764431 CTACACAAGA
Statistics
Matches: 298, Mismatches: 20, Indels: 33
0.85 0.06 0.09
Matches are distributed among these distances:
51 11 0.04
52 17 0.06
53 13 0.04
54 2 0.01
55 12 0.04
56 15 0.05
57 66 0.22
58 95 0.32
59 28 0.09
60 39 0.13
ACGTcount: A:0.44, C:0.08, G:0.12, T:0.35
Consensus pattern (56 bp):
AAATTTCAAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
Found at i:6764355 original size:175 final size:167
Alignment explanation
Indices: 6764039--6764430 Score: 533
Period size: 175 Copynumber: 2.3 Consensus size: 167
6764029 AATAAAATCA
*
6764039 AAATTT-CAAAAAAATATTTTTAGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAATAAATTTC
1 AAATTTCCAAAAAAAGATTTTT-GGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAATAAATTTC
* *
6764103 AAAAAAATTTTTGAGAAAAGTTAAAGTATCAATTTCCTTGAAATCAAATTTCAAAAAAATTATTT
65 AAAAAAATTTTTGAGAAAAGTTAAAATATCAATTTCCTTAAAATCAAATTTCAAAAAAATTATTT
6764168 TTAGGGAAAAGTTGAAAGTATCAATTTTCCTT-AGAAAT
130 TTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGA-AAAT
* ** *
6764206 AAATTTTCAAAAAGGGATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTTGGAAATCAAAGT
1 AAATTTCCAAAAAAAGATTTTTG-GGAAAAAGTTGAAAGTATCAATTTTCCTT-AAAAT-AAA-T
*
6764270 TTCAAAATAAATATTTTTGAGAAAAAGTTGAAAATATCAATTTTCCTTAAAAAT-AAATTTCCAA
62 TTC-AAA-AAA-ATTTTTGAG-AAAAGTT-AAAATATCAA-TTTCCTT-AAAATCAAATTTCAAA
*
6764334 AAAA-TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT
120 AAAATTATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT
* *
6764381 GAATTTCCAAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCC
1 AAATTTCCAAAAAAAGATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCC
6764431 CTACACAAGA
Statistics
Matches: 198, Mismatches: 13, Indels: 20
0.86 0.06 0.09
Matches are distributed among these distances:
167 33 0.17
168 18 0.09
169 3 0.02
170 4 0.02
171 3 0.02
172 3 0.02
173 9 0.05
174 9 0.05
175 91 0.46
176 21 0.11
177 4 0.02
ACGTcount: A:0.44, C:0.08, G:0.12, T:0.35
Consensus pattern (167 bp):
AAATTTCCAAAAAAAGATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAATAAATTTCA
AAAAAATTTTTGAGAAAAGTTAAAATATCAATTTCCTTAAAATCAAATTTCAAAAAAATTATTTT
TAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT
Found at i:6766405 original size:35 final size:35
Alignment explanation
Indices: 6766340--6766467 Score: 143
Period size: 35 Copynumber: 3.6 Consensus size: 35
6766330 TAAGGTTTGG
* * * *
6766340 GGTTTCGATCTTAGGGTTTGAGATTTTGGGGTTAA
1 GGTTTGGATTTTAGGGTTTAAAATTTTGGGGTTAA
6766375 GGGCTTT-GATTTTAGGGTTT-AAATTTTGGGGTTTAA
1 -GG-TTTGGATTTTAGGGTTTAAAATTTTGGGG-TTAA
* * *
6766411 GGTTTGGATTTTAAGGTTTAAAATTTAGGGTTTAA
1 GGTTTGGATTTTAGGGTTTAAAATTTTGGGGTTAA
*
6766446 GGTTTGGATTTTAGGGTATAAA
1 GGTTTGGATTTTAGGGTTTAAA
6766468 GGATTTACAG
Statistics
Matches: 81, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
34 3 0.04
35 48 0.59
36 27 0.33
37 3 0.04
ACGTcount: A:0.23, C:0.02, G:0.30, T:0.45
Consensus pattern (35 bp):
GGTTTGGATTTTAGGGTTTAAAATTTTGGGGTTAA
Found at i:6766493 original size:21 final size:21
Alignment explanation
Indices: 6766467--6766508 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
6766457 TAGGGTATAA
6766467 AGGATTT-ACAGTTTCAATTTT
1 AGGATTTGA-AGTTTCAATTTT
*
6766488 AGGATTTGAAGTTTGAATTTT
1 AGGATTTGAAGTTTCAATTTT
6766509 GACTTTAGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.29, C:0.05, G:0.19, T:0.48
Consensus pattern (21 bp):
AGGATTTGAAGTTTCAATTTT
Found at i:6766543 original size:28 final size:27
Alignment explanation
Indices: 6766483--6766550 Score: 84
Period size: 28 Copynumber: 2.5 Consensus size: 27
6766473 TACAGTTTCA
6766483 ATTTTAGGATTTGAAGTTTGAATTTTG
1 ATTTTAGGATTTGAAGTTTGAATTTTG
* * *
6766510 ACTTTAGGGTTT-AAGGTTTGGGATTTTG
1 ATTTTAGGATTTGAA-GTTT-GAATTTTG
6766538 ATTTTAGGATTTG
1 ATTTTAGGATTTG
6766551 GAGGATTTAC
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
26 2 0.06
27 14 0.42
28 17 0.52
ACGTcount: A:0.22, C:0.01, G:0.26, T:0.50
Consensus pattern (27 bp):
ATTTTAGGATTTGAAGTTTGAATTTTG
Found at i:6766601 original size:36 final size:36
Alignment explanation
Indices: 6766561--6766637 Score: 109
Period size: 36 Copynumber: 2.1 Consensus size: 36
6766551 GAGGATTTAC
** * *
6766561 GATTTAGTTTTTTAGGGTTTATGGTTTTGATTTTTG
1 GATTTAGGATTTTAGGGTTTATGATTTTAATTTTTG
*
6766597 GATTTTGGATTTTAGGGTTTATGATTTTAATTTTTG
1 GATTTAGGATTTTAGGGTTTATGATTTTAATTTTTG
6766633 GATTT
1 GATTT
6766638 TAAAGACGCA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.17, C:0.00, G:0.23, T:0.60
Consensus pattern (36 bp):
GATTTAGGATTTTAGGGTTTATGATTTTAATTTTTG
Found at i:6766622 original size:15 final size:14
Alignment explanation
Indices: 6766578--6766625 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
6766568 TTTTTTAGGG
*
6766578 TTTATGGTTTTGAT
1 TTTAGGGTTTTGAT
* *
6766592 TTTTGGATTTTGGAT
1 TTTAGGGTTTT-GAT
6766607 TTTAGGGTTTATGAT
1 TTTAGGGTTT-TGAT
6766622 TTTA
1 TTTA
6766626 ATTTTTGGAT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
14 8 0.30
15 18 0.67
16 1 0.04
ACGTcount: A:0.17, C:0.00, G:0.23, T:0.60
Consensus pattern (14 bp):
TTTAGGGTTTTGAT
Found at i:6766631 original size:59 final size:59
Alignment explanation
Indices: 6766512--6766631 Score: 138
Period size: 59 Copynumber: 2.0 Consensus size: 59
6766502 GAATTTTGAC
*
6766512 TTTAGGGTTTAAGGTTTGGGATTTTGATTTTAGGATTTGGAGGATTTACGATTTAGTTT
1 TTTAGGGTTTAAGGTTTGGGATTTTGATTTTAGGATTTGGAGGATTTACGATTTAATTT
* * * * *
6766571 TTTAGGGTTTATGGTTT-TGATTTTTGGATTTT-GGATTT-TAGGGTTTATGATTTTAATTT
1 TTTAGGGTTTAAGGTTTGGGA-TTTT-GATTTTAGGATTTGGAGGATTTACGA-TTTAATTT
6766630 TT
1 TT
6766632 GGATTTTAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
58 11 0.21
59 35 0.67
60 6 0.12
ACGTcount: A:0.18, C:0.01, G:0.26, T:0.55
Consensus pattern (59 bp):
TTTAGGGTTTAAGGTTTGGGATTTTGATTTTAGGATTTGGAGGATTTACGATTTAATTT
Found at i:6766638 original size:36 final size:36
Alignment explanation
Indices: 6766570--6766638 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 36
6766560 CGATTTAGTT
* *
6766570 TTTTAGGGTTTATGGTTTTGATTTTTGGATTTTGGA
1 TTTTAGGGTTTATGATTTTAATTTTTGGATTTTGGA
6766606 TTTTAGGGTTTATGATTTTAATTTTTGGATTTT
1 TTTTAGGGTTTATGATTTTAATTTTTGGATTTT
6766639 AAAGACGCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.16, C:0.00, G:0.23, T:0.61
Consensus pattern (36 bp):
TTTTAGGGTTTATGATTTTAATTTTTGGATTTTGGA
Found at i:6766913 original size:21 final size:21
Alignment explanation
Indices: 6766879--6766949 Score: 58
Period size: 21 Copynumber: 3.3 Consensus size: 21
6766869 TATTTTATTC
* *
6766879 TTATTATCAATATTTTTTAGA
1 TTATTATTATTATTTTTTAGA
6766900 TTATTATTATTATTATTTTAAGCA
1 TTATTATTATTATT-TTTT-AG-A
*
6766924 TT-TTAGTT-TTTTTTTTTAG-
1 TTATTA-TTATTATTTTTTAGA
6766943 TTATTAT
1 TTATTAT
6766950 CTTACTTTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
19 3 0.07
20 3 0.07
21 14 0.33
22 8 0.19
23 9 0.21
24 5 0.12
ACGTcount: A:0.27, C:0.03, G:0.06, T:0.65
Consensus pattern (21 bp):
TTATTATTATTATTTTTTAGA
Found at i:6768501 original size:36 final size:37
Alignment explanation
Indices: 6768441--6768564 Score: 117
Period size: 37 Copynumber: 3.4 Consensus size: 37
6768431 GACAGAGACG
* *
6768441 ACACTGCAAGTC-AAAAAGTAAAGAATCGACTGGGACA
1 ACACCGCAAGTCGAGAAA-TAAAGAATCGACTGGGACA
** *
6768478 ACACCGTGAGTCGA-AATTAAAGAATCGACTGGGACA
1 ACACCGCAAGTCGAGAAATAAAGAATCGACTGGGACA
* ** * *
6768514 ATATTGCAAGTCGAGAAATAAAGAATCAATTGGGACA
1 ACACCGCAAGTCGAGAAATAAAGAATCGACTGGGACA
* *
6768551 ACACCACAAATCGA
1 ACACCGCAAGTCGA
6768565 AATTATGTTT
Statistics
Matches: 68, Mismatches: 17, Indels: 4
0.76 0.19 0.04
Matches are distributed among these distances:
36 28 0.41
37 39 0.57
38 1 0.01
ACGTcount: A:0.44, C:0.19, G:0.21, T:0.16
Consensus pattern (37 bp):
ACACCGCAAGTCGAGAAATAAAGAATCGACTGGGACA
Found at i:6768787 original size:87 final size:88
Alignment explanation
Indices: 6768608--6768808 Score: 199
Period size: 87 Copynumber: 2.3 Consensus size: 88
6768598 GAGGTCTTAG
* * * * * * *
6768608 AAATCATGCTCGGAGGTCTTACAGAATCGATCGGGACAACACCGTAACTCAAAAAATAAAGAATC
1 AAATTATGCCCGGAGGTCTTAAAAAATCGATCGAGACAACACCGCAACTCAAAAAATAAAAAATC
* * * *
6768673 AATCAAAATAATACTACGAATCG
66 AATCAAAATAACACCACAAATCA
* * * * *
6768696 AAATTATGTCCGGAGGTCTTAAAAAAT-GATCGAGATAACATCGCAAGTCAAAAAATAAAAAATT
1 AAATTATGCCCGGAGGTCTTAAAAAATCGATCGAGACAACACCGCAACTCAAAAAATAAAAAATC
* **
6768760 AATTAGGATAACACCACAAATCA
66 AATCAAAATAACACCACAAATCA
* *
6768783 AAATTATGCCCAGAGGT-TTAAGAAAT
1 AAATTATGCCCGGAGGTCTTAAAAAAT
6768809 TATGTTTGGA
Statistics
Matches: 91, Mismatches: 22, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
86 8 0.09
87 61 0.67
88 22 0.24
ACGTcount: A:0.46, C:0.17, G:0.15, T:0.21
Consensus pattern (88 bp):
AAATTATGCCCGGAGGTCTTAAAAAATCGATCGAGACAACACCGCAACTCAAAAAATAAAAAATC
AATCAAAATAACACCACAAATCA
Found at i:6768824 original size:109 final size:110
Alignment explanation
Indices: 6768695--6768895 Score: 264
Period size: 110 Copynumber: 1.8 Consensus size: 110
6768685 ACTACGAATC
*
6768695 GAAATTATGTCCGGAGGTCTTAAAAAAT-GATCGA-GATAACATCGCAAGTCAAAAAATAA-AAA
1 GAAATTATGTCCGGAGGTCTTAAAAAATCGA-CGAGGACAACATCGCAAGTCAAAAAATAAGAAA
* *
6768757 ATTAATTAGGATAACACCACAAATCAAAATTATGCCCAGAGGTTTAA
65 A-CAATCAGGATAACACCACAAATCAAAATTATGCCCAGAGGTTTAA
** * * *
6768804 GAAATTATGTTTGGAGGTCTTAAAGAATCGACTAGGACAACATCGTAAGTCAAAAAATAAGAAAA
1 GAAATTATGTCCGGAGGTCTTAAAAAATCGACGAGGACAACATCGCAAGTCAAAAAATAAGAAAA
* * *
6768869 CGATCAGGATAACACCGCAAGTCAAAA
66 CAATCAGGATAACACCACAAATCAAAA
6768896 AAAGTAAAGA
Statistics
Matches: 78, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
109 27 0.35
110 47 0.60
111 4 0.05
ACGTcount: A:0.46, C:0.15, G:0.17, T:0.21
Consensus pattern (110 bp):
GAAATTATGTCCGGAGGTCTTAAAAAATCGACGAGGACAACATCGCAAGTCAAAAAATAAGAAAA
CAATCAGGATAACACCACAAATCAAAATTATGCCCAGAGGTTTAA
Found at i:6769178 original size:33 final size:33
Alignment explanation
Indices: 6769141--6769205 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
6769131 AACCTCATTT
6769141 GGGGCCAGA-TAAATCGGGCTTAAAATTTCTTTA
1 GGGGCCA-ACTAAATCGGGCTTAAAATTTCTTTA
* *
6769174 GGGGCTAACTAAATTGGGCTTAAAATTTCTTT
1 GGGGCCAACTAAATCGGGCTTAAAATTTCTTT
6769206 GAGAGCTAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 1 0.03
33 28 0.97
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.34
Consensus pattern (33 bp):
GGGGCCAACTAAATCGGGCTTAAAATTTCTTTA
Found at i:6769400 original size:33 final size:33
Alignment explanation
Indices: 6769337--6769608 Score: 174
Period size: 32 Copynumber: 8.4 Consensus size: 33
6769327 TAAAGGTCAA
*
6769337 ATAAACT-GAGCTT-AAA-TTTCATTGAGGGCTAG
1 ATAAACTAG-GCTTAAAACTTT-ATTGATGGCTAG
* * *
6769369 CTAAATTGGGCTTAAAACTTTATTGATGGCTAG
1 ATAAACTAGGCTTAAAACTTTATTGATGGCTAG
* *
6769402 ATAAACTAGGCTT-AAA-TTTCATTGAGGGCCAG
1 ATAAACTAGGCTTAAAACTTT-ATTGATGGCTAG
* * * *
6769434 CTAAACT-GAGCTTAAAACTTCATTGATAG-TCGG
1 ATAAACTAG-GCTTAAAACTTTATTGATGGCT-AG
* *
6769467 ATAAACTAGGCTTAAATCTTCT-TTGAAGGCTAG
1 ATAAACTAGGCTTAAAACTT-TATTGATGGCTAG
* * *** *
6769500 ATAAATTAGGCTT-AAA-TTTTTTGAAACCCA-
1 ATAAACTAGGCTTAAAACTTTATTGATGGCTAG
* * * *
6769530 ACTAAACTGGGCTTAAAACTTCATTGGT-GCCAG
1 A-TAAACTAGGCTTAAAACTTTATTGATGGCTAG
*
6769563 ATAATCTAGGCTTAAAACTTTATTGAT-GCTAG
1 ATAAACTAGGCTTAAAACTTTATTGATGGCTAG
*
6769595 ATAATCTAGGCTTA
1 ATAAACTAGGCTTA
6769609 CGACTTCATT
Statistics
Matches: 187, Mismatches: 37, Indels: 32
0.73 0.14 0.12
Matches are distributed among these distances:
30 2 0.01
31 23 0.12
32 80 0.43
33 75 0.40
34 7 0.04
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33
Consensus pattern (33 bp):
ATAAACTAGGCTTAAAACTTTATTGATGGCTAG
Found at i:6769406 original size:65 final size:65
Alignment explanation
Indices: 6769332--6769515 Score: 228
Period size: 65 Copynumber: 2.8 Consensus size: 65
6769322 TTCTTTAAAG
* *
6769332 GTCAAATAAACT-GAGCTTAAATTTCATTGAGGGCTAGCTAAATTGGGCTTAAAACTTTATTGAT
1 GTCAGATAAACTAG-GCTTAAATTTCATTGAGGGCTAGCTAAATTGGGCTTAAAACTTCATTGAT
6769396 -
65 A
* * * *
6769396 GGCTAGATAAACTAGGCTTAAATTTCATTGAGGGCCAGCTAAACTGAGCTTAAAACTTCATTGAT
1 GTC-AGATAAACTAGGCTTAAATTTCATTGAGGGCTAGCTAAATTGGGCTTAAAACTTCATTGAT
6769461 A
65 A
* * * * *
6769462 GTCGGATAAACTAGGCTTAAATCTTCTTTGAAGGCTAGATAAATTAGGCTTAAA
1 GTCAGATAAACTAGGCTTAAAT-TTCATTGAGGGCTAGCTAAATTGGGCTTAAA
6769516 TTTTTTGAAA
Statistics
Matches: 101, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
64 2 0.02
65 72 0.71
66 27 0.27
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.32
Consensus pattern (65 bp):
GTCAGATAAACTAGGCTTAAATTTCATTGAGGGCTAGCTAAATTGGGCTTAAAACTTCATTGATA
Found at i:6769580 original size:32 final size:32
Alignment explanation
Indices: 6769539--6769620 Score: 119
Period size: 32 Copynumber: 2.6 Consensus size: 32
6769529 AACTAAACTG
6769539 GGCTTAAAACTTCATTGGTGCCAGATAATCTA
1 GGCTTAAAACTTCATTGGTGCCAGATAATCTA
* * *
6769571 GGCTTAAAACTTTATTGATGCTAGATAATCTA
1 GGCTTAAAACTTCATTGGTGCCAGATAATCTA
**
6769603 GGCTTACGACTTCATTGG
1 GGCTTAAAACTTCATTGG
6769621 GGGCCAAATA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 43 1.00
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (32 bp):
GGCTTAAAACTTCATTGGTGCCAGATAATCTA
Done.