Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167849.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_12, 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: 22966848
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 129000 characters in sequence are not A, C, G, or T
File 68 of 129
Found at i:10456378 original size:12 final size:12
Alignment explanation
Indices: 10456361--10456387 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
10456351 GTAAGTTTTC
10456361 TTTTTTTTAATT
1 TTTTTTTTAATT
10456373 TTTTTTTTAATT
1 TTTTTTTTAATT
10456385 TTT
1 TTT
10456388 GATTTGATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTTTTTAATT
Found at i:10463126 original size:30 final size:32
Alignment explanation
Indices: 10463087--10463145 Score: 95
Period size: 30 Copynumber: 1.9 Consensus size: 32
10463077 CTATGACGAA
*
10463087 ATCTCTTTACTTTCAATTC-TTTTTTTAATTC
1 ATCTCTTTACTTTCAATTCGTCTTTTTAATTC
10463118 ATCT-TTTACTTTCAATTCGTCTTTTTAA
1 ATCTCTTTACTTTCAATTCGTCTTTTTAA
10463146 CAAAGTTGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 14 0.54
31 12 0.46
ACGTcount: A:0.20, C:0.19, G:0.02, T:0.59
Consensus pattern (32 bp):
ATCTCTTTACTTTCAATTCGTCTTTTTAATTC
Found at i:10466489 original size:50 final size:51
Alignment explanation
Indices: 10466431--10466527 Score: 126
Period size: 50 Copynumber: 1.9 Consensus size: 51
10466421 ATAGTTACAT
* * *
10466431 TTGCATAATT-ATTTGGATCATGCATTTGCATCATTTA-GAGAATTTGTAAA
1 TTGCATAATTGA-TTAGACCATGCATCTGCATCATTTAGGAGAATTTGTAAA
*
10466481 TTGCATAATTGATTAGACCATGCATCTGTATCATTTAGTGAGAATTT
1 TTGCATAATTGATTAGACCATGCATCTGCATCATTTAG-GAGAATTT
10466528 AAATCATTGT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
50 31 0.77
51 1 0.03
52 8 0.20
ACGTcount: A:0.31, C:0.11, G:0.16, T:0.41
Consensus pattern (51 bp):
TTGCATAATTGATTAGACCATGCATCTGCATCATTTAGGAGAATTTGTAAA
Found at i:10470478 original size:25 final size:25
Alignment explanation
Indices: 10470436--10470498 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 25
10470426 AATTTTATAT
* * * *
10470436 ATTTATATAAGATATATTTTTAATTA
1 ATTTAAATAA-ATTTATTTATAATGA
*
10470462 ATTTAAATAAATTTATTTATACTGA
1 ATTTAAATAAATTTATTTATAATGA
10470487 ATTT-AATAAATT
1 ATTTAAATAAATT
10470499 GAGAAGAGCC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
24 8 0.25
25 15 0.47
26 9 0.28
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.51
Consensus pattern (25 bp):
ATTTAAATAAATTTATTTATAATGA
Found at i:10476483 original size:75 final size:75
Alignment explanation
Indices: 10476394--10476539 Score: 238
Period size: 75 Copynumber: 1.9 Consensus size: 75
10476384 ACTAACTACG
* * *
10476394 ATTTGATTGTGAAAGAGAACTCAAACAAAGCATAAGTGAAAGGCAATTGCTTTCAATGTGTTCTT
1 ATTTGATTGTGAAAGAGAACTCAAACAAAGCATAAATGAAAGGAAATTGCTTTCAACGTGTTCTT
10476459 ATGTAAGCAT
66 ATGTAAGCAT
* * *
10476469 ATTTGATTGTGAAAGAGTACTTAAACAATGCATAAATGAAAGGAAATTGCTTTCAACGTGTTCTT
1 ATTTGATTGTGAAAGAGAACTCAAACAAAGCATAAATGAAAGGAAATTGCTTTCAACGTGTTCTT
10476534 ATGTAA
66 ATGTAA
10476540 ACAGTATGAA
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
75 65 1.00
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (75 bp):
ATTTGATTGTGAAAGAGAACTCAAACAAAGCATAAATGAAAGGAAATTGCTTTCAACGTGTTCTT
ATGTAAGCAT
Found at i:10479328 original size:51 final size:49
Alignment explanation
Indices: 10479235--10479333 Score: 114
Period size: 50 Copynumber: 1.9 Consensus size: 49
10479225 TTGAACTTCA
10479235 AAAATATTAAAAGTGATAAATTAAAATATTTTAATACAA-TTTTAATTCCT
1 AAAATATTAAAA--GATAAATTAAAATATTTTAATACAATTTTTAATTCCT
10479285 AAAATATTAAAA-ATAAATTAGTAAATTATCTTTAATA-ATATTTTTAATT
1 AAAATATTAAAAGATAAATTA--AAA-TAT-TTTAATACA-ATTTTTAATT
10479334 TTTAATTTAA
Statistics
Matches: 43, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
47 8 0.19
49 3 0.07
50 16 0.37
51 8 0.19
52 8 0.19
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (49 bp):
AAAATATTAAAAGATAAATTAAAATATTTTAATACAATTTTTAATTCCT
Found at i:10483078 original size:23 final size:23
Alignment explanation
Indices: 10483048--10483096 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
10483038 AGGACTTATG
10483048 GGCCATCAAGTCACACATTAGTT
1 GGCCATCAAGTCACACATTAGTT
*
10483071 GGCCATCAAGTTACACATTAGTT
1 GGCCATCAAGTCACACATTAGTT
10483094 GGC
1 GGC
10483097 TTACCAATGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (23 bp):
GGCCATCAAGTCACACATTAGTT
Found at i:10488229 original size:22 final size:23
Alignment explanation
Indices: 10488164--10488230 Score: 68
Period size: 22 Copynumber: 3.0 Consensus size: 23
10488154 GAGATATCTC
**
10488164 AAAATTA-TATTTTCTTAATGTTT
1 AAAATTACTATTTTAATAAT-TTT
* *
10488187 AAAATTATTATTTTTAT-ATTTT
1 AAAATTACTATTTTAATAATTTT
10488209 AAAATTACT-TTTTAATAATTTT
1 AAAATTACTATTTTAATAATTTT
10488231 TTTTACTTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
21 6 0.16
22 16 0.42
23 9 0.24
24 7 0.18
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.58
Consensus pattern (23 bp):
AAAATTACTATTTTAATAATTTT
Found at i:10488265 original size:23 final size:23
Alignment explanation
Indices: 10488238--10488297 Score: 68
Period size: 24 Copynumber: 2.6 Consensus size: 23
10488228 TTTTTTTACT
*
10488238 TTTTAATATTAAAAATCA-TAAAA
1 TTTTAATATTAAAAA-AATTAAAA
* *
10488261 TTTTAATCTTATAAAAAATTTAAA
1 TTTTAATATTA-AAAAAATTAAAA
10488285 TTTTAATATTAAA
1 TTTTAATATTAAA
10488298 TATATCAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
23 13 0.42
24 18 0.58
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (23 bp):
TTTTAATATTAAAAAAATTAAAA
Found at i:10488880 original size:34 final size:35
Alignment explanation
Indices: 10488837--10488919 Score: 82
Period size: 34 Copynumber: 2.3 Consensus size: 35
10488827 GAAAAGTTAT
*
10488837 ATTTAATAAATTATAA-AATTTATTAG-ATATAA-AA
1 ATTT-ATAAATTA-AATAATTTATGAGAATATAATAA
* *
10488871 ATTTGATAAACTAAATAATTTATGAGAATCTAATAA
1 ATTT-ATAAATTAAATAATTTATGAGAATATAATAA
10488907 ATTATATAAATTA
1 ATT-TATAAATTA
10488920 CTCAATTTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
33 2 0.05
34 20 0.50
35 5 0.12
36 12 0.30
37 1 0.03
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.40
Consensus pattern (35 bp):
ATTTATAAATTAAATAATTTATGAGAATATAATAA
Found at i:10489471 original size:21 final size:21
Alignment explanation
Indices: 10489446--10489486 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
10489436 ATAAACTCAT
10489446 TTACAA-ATTAATAGACAAAAA
1 TTACAACATTAATAGA-AAAAA
*
10489467 TTACAACTTTAATAGAAAAA
1 TTACAACATTAATAGAAAAA
10489487 GTGCCAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.59, C:0.10, G:0.05, T:0.27
Consensus pattern (21 bp):
TTACAACATTAATAGAAAAAA
Found at i:10489931 original size:25 final size:25
Alignment explanation
Indices: 10489902--10489952 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
10489892 TCATCAAAAA
10489902 ATTTCACAAT-ATTGAAAAAAAATTT
1 ATTTCA-AATAATTGAAAAAAAATTT
* *
10489927 ATTTCAAATAATTGTAAACAAATTT
1 ATTTCAAATAATTGAAAAAAAATTT
10489952 A
1 A
10489953 CAAATTAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 3 0.13
25 20 0.87
ACGTcount: A:0.51, C:0.08, G:0.04, T:0.37
Consensus pattern (25 bp):
ATTTCAAATAATTGAAAAAAAATTT
Found at i:10490269 original size:34 final size:34
Alignment explanation
Indices: 10490226--10490306 Score: 92
Period size: 34 Copynumber: 2.4 Consensus size: 34
10490216 CAAAATCCAG
** *
10490226 TAAATTATTGGCTAT-AAAATTTTGATAAATTAAA
1 TAAATTATTGAATATGAAAA-TATGATAAATTAAA
* *
10490260 TAATTTATTGAATATGAAAATATGATAAATTATA
1 TAAATTATTGAATATGAAAATATGATAAATTAAA
*
10490294 TAAATTATCGAAT
1 TAAATTATTGAAT
10490307 TTTTATATCT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
34 35 0.90
35 4 0.10
ACGTcount: A:0.48, C:0.02, G:0.09, T:0.41
Consensus pattern (34 bp):
TAAATTATTGAATATGAAAATATGATAAATTAAA
Found at i:10491279 original size:34 final size:34
Alignment explanation
Indices: 10491241--10491307 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
10491231 ATTTGGTAAA
*
10491241 TAATCGGATAT-AAACATTCGATAAATTAAATAAT
1 TAATCGAATATGAAA-ATTCGATAAATTAAATAAT
* *
10491275 TAATCGAATATGAAAATTTGATAAATTATATAA
1 TAATCGAATATGAAAATTCGATAAATTAAATAA
10491308 ATTATCAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 26 0.90
35 3 0.10
ACGTcount: A:0.51, C:0.06, G:0.09, T:0.34
Consensus pattern (34 bp):
TAATCGAATATGAAAATTCGATAAATTAAATAAT
Found at i:10491287 original size:501 final size:505
Alignment explanation
Indices: 10489316--10493291 Score: 5620
Period size: 510 Copynumber: 7.9 Consensus size: 505
10489306 ACAAATATAA
* *
10489316 ATTTAATTAATCTCTTAAAAACCTTAAATCTTAAACCTC-GAAATTTAATAAAGGAAAAAAATCT
1 ATTTAATTAATCTCTTAAAAACCTTAAATCTTAAACC-CAAAAATTCAATAAAGGAAAAAAATCT
10489380 AATATCATAAAAAATTTTCACAATATTGAAAAAAAAACAATTTATTTCAAATAATTATAAACTCA
65 AATATCATAAAAAA-TTTCACAATATTG--AAAAAAACAATTTATTTCAAATAATTATAAACTCA
* * *
10489445 TTTACAAATTAATAGACAAAAATTACAACTTTAATAGAAAAAGTGCCAAATTAAAATATTGTGTT
127 TTTACAAATTAATAGACAAAAATTATAACTTTAATAGAAAAAGTGCCTAATTAACATATTGTGTT
* * * *
10489510 ATTAAATTTTTTTCTTAATTTCAAA-ATCTGAGAGATGGAAAACAATCAA-ATTACTAATGAGAT
192 TTTGAA-TTTTTTCTTAATTTCAAAGATCTGAGAGAAGGAAAACAATCAATATTTCTAATGAGAT
*
10489573 ACTTAAACTACTTAAATAATGTTTTGTTAGCTCAAAGGAATGAATGAACCAAGAAGGATTAATTG
256 TCTTAAACTACTTAAATAATGTTTTGTTAGCTCAAAGGAATGAATGAACCAAGAAGGATTAATTG
* *
10489638 ATTTATTATAAACTTTAACAAAATATTTAGTAAATATTAAAATTTTCATAAATATAAATTTATAA
321 ATTTATTATAAATTTTAACAAAATATTTAGTAAATATTAAAATTTTCACAAATATAAATTTATAA
* * * *
10489703 ACCAAAC-AGATCAAAATCTGGTAAATTATCGAAGATAAAAATTTGATAAATTAAATAATTTATT
386 ACCAAACTA-ATCAAAATCTGGTAAATTATTGGATATAAAAATTTGATAAATTAAATAATTTATC
* **
10489767 GAATATGAAAATATGTTAAATTATGGAAATTATCGAATTTTTATATCTAATAAATT
450 GAATATGAAAATATGATAAATTATATAAATTATCGAATTTTTATATCTAATAAATT
*
10489823 ATTTAATTAATCTCTTAAAAACTTTAAATCTTAAACCCAAAAATTCAATAAAGGAAAAAAAATCT
1 ATTTAATTAATCTCTTAAAAACCTTAAATCTTAAACCCAAAAATTCAATAAAGG-AAAAAAATCT
* **
10489888 AATATCATCAAAAAATTTCACAATATTG-AAAAAA-AATTTATTTCAAATAATTGTAAACAAATT
65 AATATCAT-AAAAAATTTCACAATATTGAAAAAAACAATTTATTTCAAATAATTATAAACTCATT
* * * * *
10489951 TACAAATTAATAGACAAAAACTATAACTGTAAAAGAAAAGGTACCTAATT-ACAGTATTGTGTTT
129 TACAAATTAATAGACAAAAATTATAACTTTAATAGAAAAAGTGCCTAATTAACA-TATTGTGTTT
* ** *
10490015 TT--ATTTTTT-TTTATTTCAAAGATCTGAGAGAAAAAAAACAATCAATATTTCTAATAAGATTC
193 TTGAATTTTTTCTTAATTTCAAAGATCTGAGAGAAGGAAAACAATCAATATTTCTAATGAGATTC
* * *
10490077 TTAAACGACTTAAATAATGTTTTGTTAGCTCAAAGGAATGAATGAACCAAGACGAATTAATTGAT
258 TTAAACTACTTAAATAATGTTTTGTTAGCTCAAAGGAATGAATGAACCAAGAAGGATTAATTGAT
* *
10490142 TTATTATAAATTTTAAAAAAATATTTAGTAAACATTAAAATTTTCACAAATATAAATTTATAAAC
323 TTATTATAAATTTTAACAAAATATTTAGTAAATATTAAAATTTTCACAAATATAAATTTATAAAC
** * * *
10490207 CAAACTAATCAAAATCCAGTAAATTATTGGCTATAAAATTTTGATAAATTAAATAATTTATTGAA
388 CAAACTAATCAAAATCTGGTAAATTATTGGATATAAAAATTTGATAAATTAAATAATTTATCGAA
10490272 TATGAAAATATGATAAATTATATAAATTATCGAATTTTTATATCTAATAAATT
453 TATGAAAATATGATAAATTATATAAATTATCGAATTTTTATATCTAATAAATT
* * *
10490325 ATTTAATTAATCTCTTAAAAA-CTTAAATCTTAAATCCAAAAATTCAATAAAGGAAAAAAAACCA
1 ATTTAATTAATCTCTTAAAAACCTTAAATCTTAAACCCAAAAATTCAATAAAGGAAAAAAATCTA
* *
10490389 ATATCATCAAAAAAATTCACAATATTGCAAAATAAACAATTTGTTTCAAATAATTATAAACTCAT
66 ATATCAT-AAAAAATTTCACAATATTG-AAAA-AAACAATTTATTTCAAATAATTATAAACTCAT
* * * * *
10490454 TTATAAATTAATAGACAAAAATTAAAACATTAATAGAAAGAGTGTCTAATT-ACAATATTGTGTT
128 TTACAAATTAATAGACAAAAATTATAACTTTAATAGAAAAAGTGCCTAATTAAC-ATATTGTGTT
* * ** * *
10490518 TTTGAATTTTTTTTTTTTAATTTCAAAGATTTGAGAGAAGGAAAACAATTGATATTACCAATGAG
192 TTTGAA---TTTTTTCTTAATTTCAAAGATCTGAGAGAAGGAAAACAATCAATATTTCTAATGAG
* * * * *
10490583 ATTCTCAAACAAATTAAATAATGTTTTGCTAGCTCAAAGGAATGAATGAACCAAGAAAGATTAAT
254 ATTCTTAAACTACTTAAATAATGTTTTGTTAGCTCAAAGGAATGAATGAACCAAGAAGGATTAAT
* *
10490648 TGATTTATTATAAATTTTAACAAAATATTTAGTAAATATTAAAATTTTCACAAATATAAATTAAC
319 TGATTTATTATAAATTTTAACAAAATATTTAGTAAATATTAAAATTTTCACAAATATAAATTTAT
* *
10490713 AAACCAAACTAATCAAAATATGATAAATTATTGGATATAAAAATTTGATAAATTAAATAATTTAT
384 AAACCAAACTAATCAAAATCTGGTAAATTATTGGATATAAAAATTTGATAAATTAAATAATTTAT
* * * *
10490778 CGAATATGAAAATTTGATAAATTATCTAAATTATTGAATTTTTATATCTGATAAATT
449 CGAATATGAAAATATGATAAATTATATAAATTATCGAATTTTTATATCTAATAAATT
*
10490835 ATTTAATTAATCTTTTAAAAACCTTAAATCTTAAACCCAAAAATTCAATAAAGGAAAAAAAT-TA
1 ATTTAATTAATCTCTTAAAAACCTTAAATCTTAAACCCAAAAATTCAATAAAGGAAAAAAATCTA
*
10490899 ATATCATAAAAAATTTTACAATATTG-AAAAAA-AATTTATTTCAAATAATTATAAACTCATTTA
66 ATATCATAAAAAATTTCACAATATTGAAAAAAACAATTTATTTCAAATAATTATAAACTCATTTA
* *
10490962 CAAATTAATAGACAAAATTTATAACTTTAATAGAAAGAGTGCCTAA-TAACATATTGTAGTTTTT
131 CAAATTAATAGACAAAAATTATAACTTTAATAGAAAAAGTGCCTAATTAACATATTGT-GTTTTT
* *
10491026 GAATTTTTTCTTGATTTCAAAGATTTGAGAGAAGGAAAACAATCAATATTTCTAATGAGATTCTT
195 GAATTTTTTCTTAATTTCAAAGATCTGAGAGAAGGAAAACAATCAATATTTCTAATGAGATTCTT
10491091 AAACTACTTAAATAATGTTTT-TGTAGCT-AAAGGAATG-ATGAACCAATGAAGGATTAATTGA-
260 AAACTACTTAAATAATGTTTTGT-TAGCTCAAAGGAATGAATGAACCAA-GAAGGATTAATTGAT
* *
10491152 TTATTATAAA-TTTAGCAAAATA-TTAGTAAGTATTTAAAATTTTTCAACAAATATAAATTTATA
323 TTATTATAAATTTTAACAAAATATTTAGTAAATA-TTAAAA-TTTTC-ACAAATATAAATTTATA
* * * * * * *
10491215 AACTAAACTAATCAAAATTTGGTAAATAATCGGATATAAACATTCGATAAATTAAATAATTAATC
385 AACCAAACTAATCAAAATCTGGTAAATTATTGGATATAAAAATTTGATAAATTAAATAATTTATC
* *
10491280 GAATATGAAAATTTGATAAATTATATAAATTATCAAATTTTTATATCTAATAAATT
450 GAATATGAAAATATGATAAATTATATAAATTATCGAATTTTTATATCTAATAAATT
*
10491336 ATTTAATTAATCTCTTAAAAA-CTTAAATCTTAAACCCAAAAATTCAATAAAAGAAAAAAAATCT
1 ATTTAATTAATCTCTTAAAAACCTTAAATCTTAAACCCAAAAATTCAAT-AAAGGAAAAAAATCT
* *
10491400 AACATCATATAAAAATTTCGCAATATTGAAAAATAAACAATTTATTTCAAATAATTATAAACTCA
65 AATATCATA-AAAAATTTCACAATATTG-AAAA-AAACAATTTATTTCAAATAATTATAAACTCA
* * **
10491465 TTTACAAATTAATAGACAACAATTATAACTTTAAAAGAAAGTGTGCCTAATTATA-ATATTGTGT
127 TTTACAAATTAATAGACAAAAATTATAACTTTAATAGAAAAAGTGCCTAATTA-ACATATTGTGT
* ** *
10491529 TTTTGAGTTTTTTCTTAATTTCAAAGATCTGAGAGAAAAAAAACAATCGATATTTCTAATGAGAT
191 TTTTGAATTTTTTCTTAATTTCAAAGATCTGAGAGAAGGAAAACAATCAATATTTCTAATGAGAT
* * *
10491594 TCTTAAACTACTTAAATGATGTTTTGTTAACTCAAAGGAATGAATGAAACAAGAAGGATTAATTG
256 TCTTAAACTACTTAAATAATGTTTTGTTAGCTCAAAGGAATGAATGAACCAAGAAGGATTAATTG
* * * * *
10491659 ATTTATTATAAATTTTTACAAAATAATTAGTAATTATTAAAATATTCACAAATACAAATTTATAA
321 ATTTATTATAAATTTTAACAAAATATTTAGTAAATATTAAAATTTTCACAAATATAAATTTATAA
* *
10491724 ACCAAACTAATCAAAATCTGGTAAATTATTAGATATAAAAATTTGATAAATTGAATAATTTATCG
386 ACCAAACTAATCAAAATCTGGTAAATTATTGGATATAAAAATTTGATAAATTAAATAATTTATCG
* ** * * **
10491789 AATATGTAAATATGATAAATTATATTGATTACCAAATTTTTATATCCGATAAATT
451 AATATGAAAATATGATAAATTATATAAATTATCGAATTTTTATATCTAATAAATT
* * * *
10491844 ATTTAGTTAACCTCTTCAAAACCTTAAATCTTAAACCCATAAATTCAATAAAGGAAAAAAAT-TA
1 ATTTAATTAATCTCTTAAAAACCTTAAATCTTAAACCCAAAAATTCAATAAAGGAAAAAAATCTA
* *
10491908 ATATCATAAAAACTTCTCACAATATTAAAAAAAACAATTTATTTCAAATAATTATAAACTCATTT
66 ATATCATAAAAAATT-TCACAATATTGAAAAAAACAATTTATTTCAAATAATTATAAACTCATTT
* * * *
10491973 ATAAATTAATAGACAAAAATTACAACTTTAATAGAAAAAGTGTCTAATTAA-AGTATTGTGTTTC
130 ACAAATTAATAGACAAAAATTATAACTTTAATAGAAAAAGTGCCTAATTAACA-TATTGTGTTTT
* * * *
10492037 TGAATTTTTTCTTAATTTTAAAAATCTGA-AAAATGGAAAACAATCGATA-TTCTTAATGAGATT
194 TGAATTTTTTCTTAATTTCAAAGATCTGAGAGAA-GGAAAACAATCAATATTTC-TAATGAGATT
* * * *
10492100 CTTAACCTACTTAAATAATATTCTATTAGCTC--A--AA-GAATGAACCAAGAAGGATTAATTGA
257 CTTAAACTACTTAAATAATGTTTTGTTAGCTCAAAGGAATGAATGAACCAAGAAGGATTAATTGA
*
10492160 TTAATTATAAATTTTAACAAAATATTTAGTAAATATTAAAATTTTCACAAATATAAATTTATAAA
322 TTTATTATAAATTTTAACAAAATATTTAGTAAATATTAAAATTTTCACAAATATAAATTTATAAA
* * **
10492225 CTAAACTAATCAAAATCCGGTAAATTATCAGATATAAAAATTTGATAAATTAAATAATTTATCGA
387 CCAAACTAATCAAAATCTGGTAAATTATTGGATATAAAAATTTGATAAATTAAATAATTTATCGA
* * *
10492290 ATATGAAAATATGATAAATTATAGAAATTATC-AAATTTTATATCCAATAAATT
452 ATATGAAAATATGATAAATTATATAAATTATCGAATTTTTATATCTAATAAATT
*
10492343 ATTTAATTATTCTCTTAAAAACCTTAAATCTTAAACCCAAAAATTCAATAAAGGAAAAAAATCT-
1 ATTTAATTAATCTCTTAAAAACCTTAAATCTTAAACCCAAAAATTCAATAAAGGAAAAAAATCTA
*
10492407 ATATCATAAAAAATTTTCACTATATTGAAAAAAAAACAATTTATTTCAAATAATTATAAACTCAT
66 ATATCATAAAAAA-TTTCACAATATTG--AAAAAAACAATTTATTTCAAATAATTATAAACTCAT
*
10492472 TTACAAATTAATAGAAAAAAATTATAACTTTAATAGAAAAAGTGCCTAATT-ACAATATTGTGTT
128 TTACAAATTAATAGACAAAAATTATAACTTTAATAGAAAAAGTGCCTAATTAAC-ATATTGTGTT
* * ** * *
10492536 TTTGAATTTTTTTCTTAATTTCAAAGATTTGAGAGAAGAAAAACAATTTATATTCCTAATAAGAT
192 TTTGAA-TTTTTTCTTAATTTCAAAGATCTGAGAGAAGGAAAACAATCAATATTTCTAATGAGAT
* * * * *
10492601 TCTTAAACTACTTAAATAATATTCTGTTAGCTCAAAAGAATGAATGAACCTAGAAGAATTAATTG
256 TCTTAAACTACTTAAATAATGTTTTGTTAGCTCAAAGGAATGAATGAACCAAGAAGGATTAATTG
*
10492666 ATTTATTATAAATTTTAACAAAATATTTAGTGAATATTAAAATTTTCACAAATATAAAATTTATA
321 ATTTATTATAAATTTTAACAAAATATTTAGTAAATATTAAAATTTTCACAAATAT-AAATTTATA
* *
10492731 AACCAAACTAATCAAAATCTAGTAAATTATTGGACATAAAAATTTTGATAAATTAAATAATTTAT
385 AACCAAACTAATCAAAATCTGGTAAATTATTGGATATAAAAA-TTTGATAAATTAAATAATTTAT
* * *
10492796 CGAATATGAAAATATGATAAATTATATAAATTATTGAATTTTT-TATTTGATAAATT
449 CGAATATGAAAATATGATAAATTATATAAATTATCGAATTTTTATATCTAATAAATT
* * *
10492852 ATTTAATTAATTTCTTAAAACCCTTAAATCTTAAACCCAAAAATTCAATAAAGGAAAAGAATCTA
1 ATTTAATTAATCTCTTAAAAACCTTAAATCTTAAACCCAAAAATTCAATAAAGGAAAAAAATCTA
10492917 ATATCATAAAAAATTTTCACAATATTGAAAAAGAAACAATTTATTTCAAATAATTATAAACTCAT
66 ATATCATAAAAAA-TTTCACAATATTG-AAAA-AAACAATTTATTTCAAATAATTATAAACTCAT
* * * * * * * *
10492982 TTACAAATTAACATACGAAAATTATAACTTTAAAAGAAATAGTACCTAATTATAGA-ATTATGTT
128 TTACAAATTAATAGACAAAAATTATAACTTTAATAGAAAAAGTGCCTAATTA-ACATATTGTGTT
* * * * * *
10493046 TTTTATTTATTTTTTTAATTTCAAAGATTTGAGAGAAGGATAACAATCAATATTCCTAATGAGAT
192 TTTGAATT-TTTTCTTAATTTCAAAGATCTGAGAGAAGGAAAACAATCAATATTTCTAATGAGAT
* * *
10493111 TCTTAAACTACTTAAATAATGTTTTGTTAGCTTAAAGGAGTGAATGAACCAAGAAGTATTAATTG
256 TCTTAAACTACTTAAATAATGTTTTGTTAGCTCAAAGGAATGAATGAACCAAGAAGGATTAATTG
*
10493176 ATTTATTAT-AA-TTTAACAAAATATTTAGAAAATATTAAAATTTTCACAAATATAAATTTATAA
321 ATTTATTATAAATTTTAACAAAATATTTAGTAAATATTAAAATTTTCACAAATATAAATTTATAA
* *
10493239 TCCAAACTAATCAAAATCTGGTAAATTATTGGATAAAAAAATTTGATAAATTA
386 ACCAAACTAATCAAAATCTGGTAAATTATTGGATATAAAAATTTGATAAATTA
10493292 TTTAATATAT
Statistics
Matches: 3112, Mismatches: 289, Indels: 137
0.88 0.08 0.04
Matches are distributed among these distances:
498 9 0.00
499 114 0.04
500 271 0.09
501 334 0.11
502 429 0.14
503 28 0.01
504 176 0.06
505 254 0.08
506 32 0.01
507 354 0.11
508 300 0.10
509 212 0.07
510 550 0.18
511 48 0.02
512 1 0.00
ACGTcount: A:0.47, C:0.09, G:0.08, T:0.36
Consensus pattern (505 bp):
ATTTAATTAATCTCTTAAAAACCTTAAATCTTAAACCCAAAAATTCAATAAAGGAAAAAAATCTA
ATATCATAAAAAATTTCACAATATTGAAAAAAACAATTTATTTCAAATAATTATAAACTCATTTA
CAAATTAATAGACAAAAATTATAACTTTAATAGAAAAAGTGCCTAATTAACATATTGTGTTTTTG
AATTTTTTCTTAATTTCAAAGATCTGAGAGAAGGAAAACAATCAATATTTCTAATGAGATTCTTA
AACTACTTAAATAATGTTTTGTTAGCTCAAAGGAATGAATGAACCAAGAAGGATTAATTGATTTA
TTATAAATTTTAACAAAATATTTAGTAAATATTAAAATTTTCACAAATATAAATTTATAAACCAA
ACTAATCAAAATCTGGTAAATTATTGGATATAAAAATTTGATAAATTAAATAATTTATCGAATAT
GAAAATATGATAAATTATATAAATTATCGAATTTTTATATCTAATAAATT
Found at i:10492321 original size:34 final size:34
Alignment explanation
Indices: 10492246--10492322 Score: 93
Period size: 34 Copynumber: 2.3 Consensus size: 34
10492236 AAAATCCGGT
* *
10492246 AAATTATCAGATATAAAAATTTGATAAATTAAAT
1 AAATTATCAGATATAAAAATATGATAAATTAAAG
* * *
10492280 AATTTATC-GAATATGAAAATATGATAAATTATAG
1 AAATTATCAG-ATATAAAAATATGATAAATTAAAG
10492314 AAATTATCA
1 AAATTATCA
10492323 AATTTTATAT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
33 1 0.03
34 34 0.97
ACGTcount: A:0.53, C:0.04, G:0.08, T:0.35
Consensus pattern (34 bp):
AAATTATCAGATATAAAAATATGATAAATTAAAG
Found at i:10494859 original size:9 final size:9
Alignment explanation
Indices: 10494847--10494878 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
10494837 TAAATTATGT
10494847 AAAATTAAA
1 AAAATTAAA
10494856 AAAATTAAA
1 AAAATTAAA
10494865 AAAA-TAAA
1 AAAATTAAA
10494873 AAAATT
1 AAAATT
10494879 TTTGATGTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (9 bp):
AAAATTAAA
Found at i:10506028 original size:7 final size:7
Alignment explanation
Indices: 10506016--10506059 Score: 54
Period size: 7 Copynumber: 6.4 Consensus size: 7
10506006 AACAGATATG
10506016 AAAGATA
1 AAAGATA
*
10506023 AAAGATG
1 AAAGATA
10506030 AAAGATA
1 AAAGATA
*
10506037 AAAGATG
1 AAAGATA
*
10506044 AAAGATG
1 AAAGATA
10506051 AAAG-TA
1 AAAGATA
10506057 AAA
1 AAA
10506060 CAAAGTTAGG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
6 4 0.12
7 29 0.88
ACGTcount: A:0.66, C:0.00, G:0.20, T:0.14
Consensus pattern (7 bp):
AAAGATA
Found at i:10506032 original size:14 final size:14
Alignment explanation
Indices: 10506013--10506054 Score: 75
Period size: 14 Copynumber: 3.0 Consensus size: 14
10506003 ACCAACAGAT
10506013 ATGAAAGATAAAAG
1 ATGAAAGATAAAAG
10506027 ATGAAAGATAAAAG
1 ATGAAAGATAAAAG
*
10506041 ATGAAAGATGAAAG
1 ATGAAAGATAAAAG
10506055 TAAAACAAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.62, C:0.00, G:0.24, T:0.14
Consensus pattern (14 bp):
ATGAAAGATAAAAG
Found at i:10506040 original size:21 final size:20
Alignment explanation
Indices: 10506016--10506059 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 20
10506006 AACAGATATG
10506016 AAAGATAAAAGATGAAAGATA
1 AAAGATAAAAGATGAAAG-TA
*
10506037 AAAGATGAAAGATGAAAGTA
1 AAAGATAAAAGATGAAAGTA
10506057 AAA
1 AAA
10506060 CAAAGTTAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.66, C:0.00, G:0.20, T:0.14
Consensus pattern (20 bp):
AAAGATAAAAGATGAAAGTA
Found at i:10510847 original size:13 final size:14
Alignment explanation
Indices: 10510817--10510855 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
10510807 TGTCATCACC
*
10510817 TATCAATATAATAT
1 TATCAAAATAATAT
*
10510831 TATCAACATAA-AT
1 TATCAAAATAATAT
10510844 TATCAAAATAAT
1 TATCAAAATAAT
10510856 CATTTTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.54, C:0.10, G:0.00, T:0.36
Consensus pattern (14 bp):
TATCAAAATAATAT
Found at i:10512730 original size:17 final size:17
Alignment explanation
Indices: 10512701--10512733 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
10512691 ATAAAATTTT
10512701 CTTGATTTTTTATTGAA
1 CTTGATTTTTTATTGAA
10512718 CTTG-TTTTCTTATTGA
1 CTTGATTTT-TTATTGA
10512734 GTCATTGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.18, C:0.09, G:0.12, T:0.61
Consensus pattern (17 bp):
CTTGATTTTTTATTGAA
Found at i:10513504 original size:22 final size:22
Alignment explanation
Indices: 10513478--10513520 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
10513468 TTAAAGGAAT
*
10513478 AAATCCCTAATTTCTAGCTATC
1 AAATCCCTAATCTCTAGCTATC
10513500 AAATCCCTAATCTCTAGCTAT
1 AAATCCCTAATCTCTAGCTAT
10513521 TTGAAATAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.33, C:0.28, G:0.05, T:0.35
Consensus pattern (22 bp):
AAATCCCTAATCTCTAGCTATC
Found at i:10518441 original size:22 final size:22
Alignment explanation
Indices: 10518415--10518461 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
10518405 AAGTCAAAAG
* *
10518415 ATTAAATCCCTAATTTCTAGCT
1 ATTAAATACCTAAATTCTAGCT
*
10518437 ATTAAATACCTAAATTCTAGTT
1 ATTAAATACCTAAATTCTAGCT
10518459 ATT
1 ATT
10518462 TGAAATAGGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.17, G:0.04, T:0.43
Consensus pattern (22 bp):
ATTAAATACCTAAATTCTAGCT
Found at i:10521491 original size:39 final size:39
Alignment explanation
Indices: 10521448--10521541 Score: 127
Period size: 39 Copynumber: 2.4 Consensus size: 39
10521438 CCCTTACACA
* *
10521448 TCCAAAACATTCAACCAGATCCTCTAACTCCATTTT-AAG
1 TCCAAAACATCCAACCAGAGCCTCTAACTCC-TTTTCAAG
*
10521487 TCCAAAATATCCAACCAGAGCCTCTAACTCCTTTTCAAG
1 TCCAAAACATCCAACCAGAGCCTCTAACTCCTTTTCAAG
* *
10521526 TCCAAGATATCCAACC
1 TCCAAAACATCCAACC
10521542 TAATCCTTCA
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
38 4 0.08
39 46 0.92
ACGTcount: A:0.35, C:0.33, G:0.06, T:0.26
Consensus pattern (39 bp):
TCCAAAACATCCAACCAGAGCCTCTAACTCCTTTTCAAG
Found at i:10524978 original size:39 final size:39
Alignment explanation
Indices: 10524935--10525028 Score: 127
Period size: 39 Copynumber: 2.4 Consensus size: 39
10524925 CCCTTACACA
* *
10524935 TCCAAAACATTCAACCAGATCCTCTAACTCCATTTT-AAG
1 TCCAAAACATCCAACCAGAGCCTCTAACTCC-TTTTCAAG
*
10524974 TCCAAAATATCCAACCAGAGCCTCTAACTCCTTTTCAAG
1 TCCAAAACATCCAACCAGAGCCTCTAACTCCTTTTCAAG
* *
10525013 TCCAAGATATCCAACC
1 TCCAAAACATCCAACC
10525029 TAATCTTTCA
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
38 4 0.08
39 46 0.92
ACGTcount: A:0.35, C:0.33, G:0.06, T:0.26
Consensus pattern (39 bp):
TCCAAAACATCCAACCAGAGCCTCTAACTCCTTTTCAAG
Found at i:10528377 original size:35 final size:35
Alignment explanation
Indices: 10528328--10528399 Score: 119
Period size: 35 Copynumber: 2.1 Consensus size: 35
10528318 GACAAATTAT
10528328 ATATCAAATCAGGATCAA-TTTCTTACTTTGTTGGG
1 ATATCAAATCAGGATCAATTTTCTTA-TTTGTTGGG
*
10528363 ATATCAAATTAGGATCAATTTTCTTATTTGTTGGG
1 ATATCAAATCAGGATCAATTTTCTTATTTGTTGGG
10528398 AT
1 AT
10528400 TTATATTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
35 28 0.80
36 7 0.20
ACGTcount: A:0.29, C:0.11, G:0.17, T:0.43
Consensus pattern (35 bp):
ATATCAAATCAGGATCAATTTTCTTATTTGTTGGG
Found at i:10533129 original size:2 final size:2
Alignment explanation
Indices: 10533099--10533141 Score: 52
Period size: 2 Copynumber: 22.0 Consensus size: 2
10533089 GAATCTACAC
* * *
10533099 AT AT A- AT AT AC AT AT AC AT AT AC AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10533140 AT
1 AT
10533142 CAGGGAAATT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (2 bp):
AT
Found at i:10533139 original size:12 final size:12
Alignment explanation
Indices: 10533097--10533141 Score: 65
Period size: 12 Copynumber: 3.8 Consensus size: 12
10533087 TAGAATCTAC
10533097 ACATATA-ATAT
1 ACATATATATAT
*
10533108 ACATATACATAT
1 ACATATATATAT
10533120 ACATATATATAT
1 ACATATATATAT
*
10533132 ATATATATAT
1 ACATATATAT
10533142 CAGGGAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
11 7 0.23
12 24 0.77
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (12 bp):
ACATATATATAT
Found at i:10533141 original size:6 final size:6
Alignment explanation
Indices: 10533097--10533138 Score: 59
Period size: 6 Copynumber: 7.2 Consensus size: 6
10533087 TAGAATCTAC
* *
10533097 ACATAT A-ATAT ACATAT ACATAT ACATAT ATATAT ATATAT A
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT A
10533139 TATCAGGGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
5 5 0.15
6 29 0.85
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (6 bp):
ACATAT
Found at i:10545405 original size:2 final size:2
Alignment explanation
Indices: 10545398--10545427 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
10545388 TCATTATACA
10545398 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
10545428 TAGGGATATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:10554450 original size:17 final size:17
Alignment explanation
Indices: 10554403--10554453 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
10554393 ATTTATATAT
*
10554403 AATAAATAAAAAATTTCA
1 AATAAAT-AAAAATTTAA
*
10554421 AATCAAAT-CAAATTTAA
1 AAT-AAATAAAAATTTAA
10554438 AATAAATAAAAATTTA
1 AATAAATAAAAATTTA
10554454 TCTCAATCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
16 4 0.14
17 17 0.61
18 3 0.11
19 4 0.14
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (17 bp):
AATAAATAAAAATTTAA
Found at i:10555019 original size:123 final size:123
Alignment explanation
Indices: 10554800--10555045 Score: 465
Period size: 123 Copynumber: 2.0 Consensus size: 123
10554790 AATCTTCTAC
10554800 TTTGCAATAAATTTTTCAAAATAAATTTGTGGCTTCTAGAAACATAGCGTTCTGTTTATAGTAAT
1 TTTGCAATAAATTTTTCAAAATAAATTTGTGGCTTCTAGAAACATAGCGTTCTGTTTATAGTAAT
* *
10554865 GGCGTTTACGATTCCCATTCTGAATTTCGGGCGTTTAAACTGAAACGCGCTTTTTTAA
66 GGCGTTTAAGATTCCCATTCTGAATTTCGGGCGTTTAAACTGAAACGCGCTTTCTTAA
10554923 TTTGCAATAAATTTTTCAAAATAAATTTGTGGCTTCTAGAAACATAGCGTTCTGTTTATAGTAAT
1 TTTGCAATAAATTTTTCAAAATAAATTTGTGGCTTCTAGAAACATAGCGTTCTGTTTATAGTAAT
*
10554988 GGCGTTTAAGATTCCCATTCTGAATTTCGGGCGTTTAAAGTGAAACGCGCTTTCTTAA
66 GGCGTTTAAGATTCCCATTCTGAATTTCGGGCGTTTAAACTGAAACGCGCTTTCTTAA
10555046 CGTGAGGGAA
Statistics
Matches: 120, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
123 120 1.00
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39
Consensus pattern (123 bp):
TTTGCAATAAATTTTTCAAAATAAATTTGTGGCTTCTAGAAACATAGCGTTCTGTTTATAGTAAT
GGCGTTTAAGATTCCCATTCTGAATTTCGGGCGTTTAAACTGAAACGCGCTTTCTTAA
Found at i:10559488 original size:34 final size:34
Alignment explanation
Indices: 10559449--10559520 Score: 126
Period size: 34 Copynumber: 2.1 Consensus size: 34
10559439 ATCTATATGA
*
10559449 TGTGTAAGAAAATGATGCTTGATCTGGTAAGGTG
1 TGTGTAAAAAAATGATGCTTGATCTGGTAAGGTG
*
10559483 TGTGTAAAAAAATGATGTTTGATCTGGTAAGGTG
1 TGTGTAAAAAAATGATGCTTGATCTGGTAAGGTG
10559517 TGTG
1 TGTG
10559521 AGCCTATACT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.29, C:0.04, G:0.32, T:0.35
Consensus pattern (34 bp):
TGTGTAAAAAAATGATGCTTGATCTGGTAAGGTG
Found at i:10561423 original size:29 final size:31
Alignment explanation
Indices: 10561366--10561484 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 31
10561356 ATATTTTTAA
* * *
10561366 TATTTCAATAATAAATAGT-AT-TATTTTAT
1 TATTTTAATAATAAATAATAATATATTATAT
10561395 TATTTTAATAATAAATAATAATATATTATAT
1 TATTTTAATAATAAATAATAATATATTATAT
*
10561426 TGTTTTAATAATTAATATTAAATAATAAATATTACTAT
1 TATTTTAATAA-TAA-A-T-AATAAT--ATATTA-TAT
* *
10561464 TATTATATTAATAAAATAATA
1 TATTTTAATAAT-AAATAATA
10561485 TTTTAAGAAT
Statistics
Matches: 73, Mismatches: 7, Indels: 14
0.78 0.07 0.15
Matches are distributed among these distances:
29 17 0.23
30 2 0.03
31 17 0.23
32 3 0.04
33 1 0.01
34 1 0.01
35 10 0.14
36 1 0.01
37 8 0.11
38 13 0.18
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (31 bp):
TATTTTAATAATAAATAATAATATATTATAT
Found at i:10561435 original size:31 final size:29
Alignment explanation
Indices: 10561366--10561442 Score: 91
Period size: 31 Copynumber: 2.6 Consensus size: 29
10561356 ATATTTTTAA
* * *
10561366 TATTTCAATAATAAATAGTATTATTTTAT
1 TATTTTAATAATAAATAATATTATTATAT
10561395 TATTTTAATAATAAATAATAATATATTATAT
1 TATTTTAATAATAAATAAT-AT-TATTATAT
* *
10561426 TGTTTTAATAATTAATA
1 TATTTTAATAATAAATA
10561443 TTAAATAATA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
29 17 0.41
30 2 0.05
31 22 0.54
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (29 bp):
TATTTTAATAATAAATAATATTATTATAT
Found at i:10562585 original size:3 final size:3
Alignment explanation
Indices: 10562579--10562613 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
10562569 AATAATAATA
*
10562579 ATT ATT ATT ATT ATT ATT ATT ATT GTT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
10562614 ATAAGTAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:10563259 original size:3 final size:3
Alignment explanation
Indices: 10563251--10563281 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
10563241 CGCTACTAAC
10563251 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
10563282 GAATTGAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:10563643 original size:12 final size:12
Alignment explanation
Indices: 10563626--10563658 Score: 59
Period size: 11 Copynumber: 2.8 Consensus size: 12
10563616 AAGAAGAAAA
10563626 TTTTTAAAAATT
1 TTTTTAAAAATT
10563638 TTTTT-AAAATT
1 TTTTTAAAAATT
10563649 TTTTTAAAAA
1 TTTTTAAAAA
10563659 ATTATAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 11 0.55
12 9 0.45
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
TTTTTAAAAATT
Found at i:10563652 original size:10 final size:11
Alignment explanation
Indices: 10563622--10563657 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
10563612 TGCTAAGAAG
*
10563622 AAAA-TTTTTA
1 AAAATTTTTTT
10563632 AAAATTTTTTT
1 AAAATTTTTTT
10563643 AAAATTTTTTT
1 AAAATTTTTTT
10563654 AAAA
1 AAAA
10563658 AATTATAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 4 0.17
11 20 0.83
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
AAAATTTTTTT
Found at i:10564067 original size:8 final size:8
Alignment explanation
Indices: 10564019--10564079 Score: 50
Period size: 8 Copynumber: 7.0 Consensus size: 8
10564009 AAGAAATTTT
10564019 TTTTTATAA
1 TTTTT-TAA
10564028 TTTTTTAGAA
1 TTTTTT--AA
* *
10564038 TATTTCAA
1 TTTTTTAA
10564046 TTTTTTGAAA
1 TTTTTT--AA
*
10564056 TTTTTTAT
1 TTTTTTAA
10564064 TTTTTTAA
1 TTTTTTAA
10564072 TTTTTTAA
1 TTTTTTAA
10564080 AATTTTTAAG
Statistics
Matches: 42, Mismatches: 6, Indels: 9
0.74 0.11 0.16
Matches are distributed among these distances:
8 23 0.55
9 5 0.12
10 14 0.33
ACGTcount: A:0.28, C:0.02, G:0.03, T:0.67
Consensus pattern (8 bp):
TTTTTTAA
Found at i:10564358 original size:19 final size:18
Alignment explanation
Indices: 10564331--10564366 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
10564321 TATTTCATTT
*
10564331 TTTTAATTTTTTAAAATA
1 TTTTAATTTTTAAAAATA
10564349 TTTTAGATTTTTAAAAAT
1 TTTTA-ATTTTTAAAAAT
10564367 CTTTAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (18 bp):
TTTTAATTTTTAAAAATA
Found at i:10570357 original size:15 final size:14
Alignment explanation
Indices: 10570306--10570348 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 14
10570296 TTTCAATGAA
10570306 AATTATTTTACGAAC
1 AATTA-TTTACGAAC
*
10570321 AATTATTTATGGAAC
1 AATTATTTA-CGAAC
10570336 AATTATTTACGAA
1 AATTATTTACGAA
10570349 ACAACTATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 7 0.28
15 18 0.72
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (14 bp):
AATTATTTACGAAC
Found at i:10576844 original size:14 final size:14
Alignment explanation
Indices: 10576825--10576866 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
10576815 ATATATATAC
10576825 TTTATTTTTATT-T
1 TTTATTTTTATTGT
10576838 ATTTATTTTTTATTGT
1 -TTTA-TTTTTATTGT
10576854 TTTCATTTTTATT
1 TTT-ATTTTTATT
10576867 ATTATTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 4 0.16
15 19 0.76
16 2 0.08
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (14 bp):
TTTATTTTTATTGT
Found at i:10578110 original size:8 final size:8
Alignment explanation
Indices: 10578097--10578161 Score: 55
Period size: 8 Copynumber: 8.4 Consensus size: 8
10578087 ACCCCTTTTG
10578097 TTTTTTAT
1 TTTTTTAT
10578105 TTTTTTA-
1 TTTTTTAT
10578112 TTTTTTA-
1 TTTTTTAT
** *
10578119 GCTTTCAT
1 TTTTTTAT
*
10578127 TTTTTTGT
1 TTTTTTAT
*
10578135 ATTTTGTAT
1 -TTTTTTAT
10578144 TTTTTTAT
1 TTTTTTAT
10578152 TTTTTT-T
1 TTTTTTAT
10578159 TTT
1 TTT
10578162 GCATTTTTTG
Statistics
Matches: 45, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
7 15 0.33
8 24 0.53
9 6 0.13
ACGTcount: A:0.11, C:0.03, G:0.05, T:0.82
Consensus pattern (8 bp):
TTTTTTAT
Found at i:10578154 original size:22 final size:22
Alignment explanation
Indices: 10578129--10578170 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
10578119 GCTTTCATTT
*
10578129 TTTTGTATTTTGTATTTTTTTA
1 TTTTGTATTTTGCATTTTTTTA
* *
10578151 TTTTTTTTTTTGCATTTTTT
1 TTTTGTATTTTGCATTTTTT
10578171 GTTTAATTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.10, C:0.02, G:0.07, T:0.81
Consensus pattern (22 bp):
TTTTGTATTTTGCATTTTTTTA
Found at i:10578798 original size:100 final size:99
Alignment explanation
Indices: 10578673--10578853 Score: 274
Period size: 100 Copynumber: 1.8 Consensus size: 99
10578663 TTTCATTTTG
* * * * *
10578673 AAAAAAATTCCTCTAAGTAGAGGTTCAATAATTTTGAAAATTCTTATCTT-AAAAAGGCTCATCT
1 AAAAAAATTCCTATAAGCAAAGGTTCAATAACTTTAAAAATTCTTATCTTGAAAAA-GCTCATCT
10578737 AAGTAGAAGCTCAACAATTTAAAAAACCTCATATT
65 AAGTAGAAGCTCAACAATTTAAAAAACCTCATATT
*
10578772 AAAAAAAGTTCCTATAAGCAAAGGTTCAATAACTTTAAAAATTCTTATCTTGAAAAAGCTCCTCT
1 AAAAAAA-TTCCTATAAGCAAAGGTTCAATAACTTTAAAAATTCTTATCTTGAAAAAGCTCATCT
*
10578837 AAGTAGAGGCTCAACAA
65 AAGTAGAAGCTCAACAA
10578854 ATTTTTTTTT
Statistics
Matches: 73, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
99 7 0.10
100 61 0.84
101 5 0.07
ACGTcount: A:0.44, C:0.16, G:0.11, T:0.29
Consensus pattern (99 bp):
AAAAAAATTCCTATAAGCAAAGGTTCAATAACTTTAAAAATTCTTATCTTGAAAAAGCTCATCTA
AGTAGAAGCTCAACAATTTAAAAAACCTCATATT
Found at i:10578828 original size:51 final size:50
Alignment explanation
Indices: 10578557--10579128 Score: 206
Period size: 50 Copynumber: 11.4 Consensus size: 50
10578547 TTCATCTTGG
* *
10578557 AAATTCTCATCTTG-AAAAAGCTT-CTCTAAGCAGATGTTCAACAACTTTAA
1 AAATTCTTATCTTGAAAAAAG-TTCCTCTAAGCAGAGGTTCAACAA-TTTAA
* * * * * * *
10578607 AAATT-TTGATCTTGGAAAATGGTCTTCCAAACAGAGGTTTAACAATTTAAAA
1 AAATTCTT-ATCTTGAAAAAAGTTCCTCTAAGCAGAGGTTCAACAATTT--AA
* * * * *
10578659 AAATT-TTCATTTTGAAAAAAATTCCTCTAAGTAGAGGTTCAATAATTTTGA
1 AAATTCTT-ATCTTGAAAAAAGTTCCTCTAAGCAGAGGTTCAACAA-TTTAA
* * * * * *
10578710 AAATTCTTATCTT-AAAAAGGCTCATCTAAGTAGAAGCTCAACAATTTAA
1 AAATTCTTATCTTGAAAAAAGTTCCTCTAAGCAGAGGTTCAACAATTTAA
** * * * * * *
10578759 AAAACCTCATATTAAAAAAAGTTCCTATAAGCAAAGGTTCAATAACTTTAA
1 AAATTCTTATCTTGAAAAAAGTTCCTCTAAGCAGAGGTTCAACAA-TTTAA
* * *
10578810 AAATTCTTATCTTG-AAAAAGCTCCTCTAAGTAGAGGCTCAACAAATTT--
1 AAATTCTTATCTTGAAAAAAGTTCCTCTAAGCAGAGGTTCAAC-AATTTAA
* * * *
10578858 ---TT-TT-T-TT---ACAATTCTCCTCTAAGTAAAGGCTT-AACAACTTTAAAAAAAA
1 AAATTCTTATCTTGAAAAAAGT-TCCTCTAAGCAGAGG-TTCAACAA-TTT------AA
* * * *
10578907 AAATTCTTATATTG-AAAATGCTCCTCTAAGTAGAGGCTT-AACAACTTTAAAA
1 AAATTCTTATCTTGAAAAAAGTTCCTCTAAGCAGAGG-TTCAACAA-TTT--AA
* ** *
10578959 AAATTTTTATC-TCCAAAAAGTTCCTCTAAGCAGAGGTTTAACAACTTTAAAAAA
1 AAATTCTTATCTTGAAAAAAGTTCCTCTAAGCAGAGGTTCAACAA-TTT----AA
* * *
10579013 AAATT-TTTTCTTGGAAAAAGCTT-TTCTAAGCAGAGGTTCAACAATTTTAA
1 AAATTCTTATCTTGAAAAAAG-TTCCTCTAAGCAGAGGTTCAACAA-TTTAA
* * * * ** **
10579063 AAATT-TCATCTTG-AAAAGGTTCTTTTAATTAGAGAATCAACAACTTTAA
1 AAATTCTTATCTTGAAAAAAGTTCCTCTAAGCAGAGGTTCAACAA-TTTAA
10579112 AAATT-TTATCTTGAAAA
1 AAATTCTTATCTTGAAAA
10579129 GGCTCATCTA
Statistics
Matches: 399, Mismatches: 86, Indels: 74
0.71 0.15 0.13
Matches are distributed among these distances:
40 5 0.01
41 20 0.05
42 3 0.01
43 1 0.00
44 2 0.01
45 2 0.01
48 2 0.01
49 52 0.13
50 102 0.26
51 50 0.13
52 80 0.20
53 9 0.02
54 39 0.10
55 4 0.01
56 26 0.07
57 2 0.01
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.34
Consensus pattern (50 bp):
AAATTCTTATCTTGAAAAAAGTTCCTCTAAGCAGAGGTTCAACAATTTAA
Found at i:10578986 original size:52 final size:52
Alignment explanation
Indices: 10578871--10579013 Score: 169
Period size: 52 Copynumber: 2.7 Consensus size: 52
10578861 TTTTACAATT
* ** *
10578871 CTCCTCTAAGTAAAGGCTTAACAACTTTAAAAAAAAAAATTCTTATATTGAAAATG
1 CTCCTCTAAGTAGAGGCTTAACAACTTT----AAAAAAATTCTTATATCCAAAAAG
* *
10578927 CTCCTCTAAGTAGAGGCTTAACAACTTTAAAAAAATTTTTATCTCCAAAAAG
1 CTCCTCTAAGTAGAGGCTTAACAACTTTAAAAAAATTCTTATATCCAAAAAG
* * *
10578979 TTCCTCTAAGCAGAGGTTTAACAACTTTAAAAAAA
1 CTCCTCTAAGTAGAGGCTTAACAACTTTAAAAAAA
10579014 AATTTTTTCT
Statistics
Matches: 78, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
52 51 0.65
56 27 0.35
ACGTcount: A:0.43, C:0.17, G:0.10, T:0.30
Consensus pattern (52 bp):
CTCCTCTAAGTAGAGGCTTAACAACTTTAAAAAAATTCTTATATCCAAAAAG
Found at i:10579041 original size:54 final size:53
Alignment explanation
Indices: 10578874--10579065 Score: 183
Period size: 54 Copynumber: 3.6 Consensus size: 53
10578864 TACAATTCTC
* * * * * * *
10578874 CTCTAAGTAAAGGCTTAACAACTTTAAAAAAAAAAATTCTTATATTGAAAATGCTC
1 CTCTAAGCAGAGGTTTAACAACTTT--AAAAAAAAATT-TTTTCTTGAAAAAGCTT
* * **
10578930 CTCTAAGTAGAGGCTTAACAACTTT--AAAAAAATTTTTATCTCCAAAAAG-TT
1 CTCTAAGCAGAGGTTTAACAACTTTAAAAAAAAATTTTT-TCTTGAAAAAGCTT
10578981 CCTCTAAGCAGAGGTTTAACAACTTTAAAAAAAAATTTTTTCTTGGAAAAAGCTT
1 -CTCTAAGCAGAGGTTTAACAACTTTAAAAAAAAATTTTTTCTT-GAAAAAGCTT
* * *
10579036 TTCTAAGCAGAGGTTCAACAATTTTAAAAA
1 CTCTAAGCAGAGGTTTAACAACTTTAAAAA
10579066 TTTCATCTTG
Statistics
Matches: 116, Mismatches: 14, Indels: 14
0.81 0.10 0.10
Matches are distributed among these distances:
51 3 0.03
52 39 0.34
53 3 0.03
54 45 0.39
55 2 0.02
56 24 0.21
ACGTcount: A:0.43, C:0.15, G:0.11, T:0.32
Consensus pattern (53 bp):
CTCTAAGCAGAGGTTTAACAACTTTAAAAAAAAATTTTTTCTTGAAAAAGCTT
Found at i:10579048 original size:106 final size:107
Alignment explanation
Indices: 10578872--10579065 Score: 250
Period size: 106 Copynumber: 1.8 Consensus size: 107
10578862 TTTACAATTC
* *
10578872 TCCTCTAAGTAAAGGCTTAACAACTTTAAAAAAAAAAATTCTTATATTGAAAATGCTCCTCTAAG
1 TCCTCTAAGCAAAGGCTTAACAACTTT-AAAAAAAAAATTCTTATATTGAAAAAGCTCCTCTAAG
*
10578937 TAGAGGCTT-AACAACTTTAAAAAAATTTTTATCTCCAAAAAGT
65 CAGAGG-TTCAACAACTTTAAAAAAATTTTTATCTCCAAAAAGT
* * * * **
10578980 TCCTCTAAGCAGAGGTTTAACAACTTT-AAAAAAAAATT-TTTTCTTGGAAAAAGCTTTTCTAAG
1 TCCTCTAAGCAAAGGCTTAACAACTTTAAAAAAAAAATTCTTATATT-GAAAAAGCTCCTCTAAG
*
10579043 CAGAGGTTCAACAATTTTAAAAA
65 CAGAGGTTCAACAACTTTAAAAA
10579066 TTTCATCTTG
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
105 7 0.09
106 43 0.58
108 24 0.32
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.32
Consensus pattern (107 bp):
TCCTCTAAGCAAAGGCTTAACAACTTTAAAAAAAAAATTCTTATATTGAAAAAGCTCCTCTAAGC
AGAGGTTCAACAACTTTAAAAAAATTTTTATCTCCAAAAAGT
Found at i:10579157 original size:49 final size:49
Alignment explanation
Indices: 10578905--10579162 Score: 183
Period size: 49 Copynumber: 5.1 Consensus size: 49
10578895 CTTTAAAAAA
* * * * *
10578905 AAAAATTCTTATATTGAAAATGCTCCTCTAAGTAGAGGCTTAACAACTTT
1 AAAAATT-TTATCTTGAAAAGGCTCTTCTAAGTAGAGGATCAACAACTTT
** * * * * * *
10578955 AAAAAAATTTTTATCTCCAAAAAGTTCCTCTAAGCAGAGGTTTAACAACTTT
1 --AAAAA-TTTTATCTTGAAAAGGCTCTTCTAAGTAGAGGATCAACAACTTT
* * * * * *
10579007 AAAAAAAAATTTTTTCTTGGAAAAAGCTTTTCTAAGCAGAGGTTCAACAATTTT
1 ----AAAAATTTTATCTT-GAAAAGGCTCTTCTAAGTAGAGGATCAACAACTTT
* * * * *
10579061 AAAAATTTCATCTTGAAAAGGTTCTTTTAATTAGAGAATCAACAACTTT
1 AAAAATTTTATCTTGAAAAGGCTCTTCTAAGTAGAGGATCAACAACTTT
* * * *
10579110 AAAAATTTTATCTTGAAAAGGCTCATCTAAGTAAAGGCTCAATAACTTT
1 AAAAATTTTATCTTGAAAAGGCTCTTCTAAGTAGAGGATCAACAACTTT
10579159 AAAA
1 AAAA
10579163 GGTATAGGCT
Statistics
Matches: 167, Mismatches: 35, Indels: 11
0.78 0.16 0.05
Matches are distributed among these distances:
49 70 0.42
50 12 0.07
52 40 0.24
53 9 0.05
54 36 0.22
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.34
Consensus pattern (49 bp):
AAAAATTTTATCTTGAAAAGGCTCTTCTAAGTAGAGGATCAACAACTTT
Found at i:10579405 original size:41 final size:41
Alignment explanation
Indices: 10579273--10579407 Score: 148
Period size: 42 Copynumber: 3.2 Consensus size: 41
10579263 AATGACTTCG
**
10579273 GATATCACCACTGAAGAAAATATAAATGATTTTTTTAACACTC
1 GATATCACCAC-GAAGAAAATGCAAATGA-TTTTTTAACACTC
* * *
10579316 GGATATCACCATCGAA-AAAATGCAAATAACTTTTTAACGCTC
1 -GATATCACCA-CGAAGAAAATGCAAATGATTTTTTAACACTC
*
10579358 GAATATCACCACCAAGAAAATGCAAATGA-TTTTTAACACTC
1 G-ATATCACCACGAAGAAAATGCAAATGATTTTTTAACACTC
10579399 AGATATCAC
1 -GATATCAC
10579408 ACCGAAAAAA
Statistics
Matches: 79, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
41 22 0.28
42 33 0.42
43 10 0.13
44 13 0.16
45 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.10, T:0.27
Consensus pattern (41 bp):
GATATCACCACGAAGAAAATGCAAATGATTTTTTAACACTC
Found at i:10579549 original size:100 final size:99
Alignment explanation
Indices: 10579388--10579671 Score: 295
Period size: 99 Copynumber: 2.9 Consensus size: 99
10579378 TGCAAATGAT
* * * *
10579388 TTTTAACACTCAGATATCA-CACCGAAAAAATACATATGACTTCAGATATCACTATGGAAGAAAA
1 TTTTAACACTCGGATATCACCACCGAAAAAATACAAATGACTTCAGATATCACCATCGAAGAAAA
*
10579452 CTTGAATATCACCATCAAGAAAATATTAATTCAAG
66 CTTGAATATCACCATCAAGAAAA-AGTAATTCAAG
* * * ** *
10579487 TTTTAACACTCGGATATCACCATCGAAAACATGCAAATGACTTCCTATATTACCATCGAAGAAAA
1 TTTTAACACTCGGATATCACCACCGAAAAAATACAAATGACTTCAGATATCACCATCGAAGAAAA
** * *
10579552 CTTGAATATCACCATTGAGAAAACGTAATTTAAG
66 CTTGAATATCACCATCAAGAAAAAGTAATTCAAG
* * * * ** * * *
10579586 TTTTAACACTCGAATATCACCACC-AAGAATATGCAAATAACTTTGGATATCGCCA-CCAAAAGA
1 TTTTAACACTCGGATATCACCACCGAA-AAAATACAAATGACTTCAGATATCACCATCGAAGA-A
*
10579649 AACTTGAATATCACCATCGAGAA
64 AACTTGAATATCACCATCAAGAA
10579672 GATACAATTG
Statistics
Matches: 155, Mismatches: 27, Indels: 6
0.82 0.14 0.03
Matches are distributed among these distances:
98 6 0.04
99 92 0.59
100 57 0.37
ACGTcount: A:0.43, C:0.20, G:0.11, T:0.26
Consensus pattern (99 bp):
TTTTAACACTCGGATATCACCACCGAAAAAATACAAATGACTTCAGATATCACCATCGAAGAAAA
CTTGAATATCACCATCAAGAAAAAGTAATTCAAG
Found at i:10579664 original size:57 final size:57
Alignment explanation
Indices: 10579595--10579719 Score: 144
Period size: 57 Copynumber: 2.2 Consensus size: 57
10579585 GTTTTAACAC
* * ***
10579595 TCGAATATCACCACCAAGAATATGCAAATAACTTTGGATATCGCCACCAAAAGAAACT
1 TCGAATATCACCACCAAGAAGATACAAATAACTTCAAATATCGCCACCAAAAGAAA-T
* * * * *
10579653 T-GAATATCACCATCGAGAAGATACAATTGACTTCAAATATCGCCACCGAAAGAAAT
1 TCGAATATCACCACCAAGAAGATACAAATAACTTCAAATATCGCCACCAAAAGAAAT
10579709 TCGAATATCAC
1 TCGAATATCAC
10579720 TATCGAGAAA
Statistics
Matches: 56, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
56 2 0.04
57 53 0.95
58 1 0.02
ACGTcount: A:0.42, C:0.23, G:0.13, T:0.22
Consensus pattern (57 bp):
TCGAATATCACCACCAAGAAGATACAAATAACTTCAAATATCGCCACCAAAAGAAAT
Found at i:10579797 original size:66 final size:67
Alignment explanation
Indices: 10579689--10579839 Score: 198
Period size: 66 Copynumber: 2.3 Consensus size: 67
10579679 TTGACTTCAA
* * * *
10579689 ATATCGCCACCGAAAGAAATTCGAATATCACTATCGAGAAAATACAATTCAAG-CTTCAAC-ACT
1 ATATCACCACCGAAAGAAACTCGAATATCACCATCGAAAAAATACAATTCAAGCCTT-AACAACT
*
10579752 TAG
65 CAG
* * *
10579755 ATATCACCATCGAAAGACACTCGAATATCACCATCGAAAAAATATAATTCAAGCCTTAACAACTC
1 ATATCACCACCGAAAGAAACTCGAATATCACCATCGAAAAAATACAATTCAAGCCTTAACAACTC
10579820 AG
66 AG
10579822 ATATCACCACCGAGAAGA
1 ATATCACCACCGA-AAGA
10579840 TGCAAATGAC
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
66 49 0.67
67 20 0.27
68 4 0.05
ACGTcount: A:0.44, C:0.25, G:0.11, T:0.21
Consensus pattern (67 bp):
ATATCACCACCGAAAGAAACTCGAATATCACCATCGAAAAAATACAATTCAAGCCTTAACAACTC
AG
Found at i:10580002 original size:19 final size:19
Alignment explanation
Indices: 10579978--10580024 Score: 94
Period size: 19 Copynumber: 2.5 Consensus size: 19
10579968 CCACCGAGAT
10579978 AATGCAAATGTAGAGAAAG
1 AATGCAAATGTAGAGAAAG
10579997 AATGCAAATGTAGAGAAAG
1 AATGCAAATGTAGAGAAAG
10580016 AATGCAAAT
1 AATGCAAAT
10580025 TCAAACTTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.53, C:0.06, G:0.23, T:0.17
Consensus pattern (19 bp):
AATGCAAATGTAGAGAAAG
Found at i:10580174 original size:103 final size:99
Alignment explanation
Indices: 10580063--10580273 Score: 239
Period size: 99 Copynumber: 2.1 Consensus size: 99
10580053 AAAAAAATGT
*
10580063 AAATGACTTCAAATATTG-CTACTG-AAGAAAACTCAAATATCACCATTAAGAAAAAAAATGCAA
1 AAATGACTTCAAATATCGTC-ACTGAAAG-AAACTCAAATATCACCATT--G--AAAAAATGCAA
*
10580126 TTCAAGTTTTAACA-CTCAGATATTACCACCAAGAAGATAC
60 TTCAAGTTTTAACATCT-AGATATCACCACCAAGAAGATAC
* * * * * *
10580166 AATTGACTTCAGATATCGTCATTGAAAGAAACTCGAATATCATCATTGAGAAAATGCAATTCAAG
1 AAATGACTTCAAATATCGTCACTGAAAGAAACTCAAATATCACCATTGAAAAAATGCAATTCAAG
* **
10580231 TTTTAACATCTGGATATCACCACTGAGAAGATAC
66 TTTTAACATCTAGATATCACCACCAAGAAGATAC
10580265 AAATGACTT
1 AAATGACTT
10580274 TGGATATCAC
Statistics
Matches: 93, Mismatches: 12, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
99 51 0.55
100 2 0.02
101 1 0.01
103 35 0.38
104 4 0.04
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.27
Consensus pattern (99 bp):
AAATGACTTCAAATATCGTCACTGAAAGAAACTCAAATATCACCATTGAAAAAATGCAATTCAAG
TTTTAACATCTAGATATCACCACCAAGAAGATAC
Found at i:10580811 original size:18 final size:18
Alignment explanation
Indices: 10580788--10580824 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
10580778 TGTGATAAGG
10580788 CACATGAAATGCAAATGT
1 CACATGAAATGCAAATGT
10580806 CACATGAAATGCAAATGT
1 CACATGAAATGCAAATGT
10580824 C
1 C
10580825 TTTTTTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.43, C:0.19, G:0.16, T:0.22
Consensus pattern (18 bp):
CACATGAAATGCAAATGT
Found at i:10582571 original size:17 final size:16
Alignment explanation
Indices: 10582549--10582593 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
10582539 ACCATCGATA
10582549 TTTTTTCTTTTTGTTTT
1 TTTTTTCTTTTT-TTTT
*
10582566 TTTTTTCTTCTCTTTTT
1 TTTTTTCTT-TTTTTTT
*
10582583 TTTTTTGTTTT
1 TTTTTTCTTTT
10582594 CACAACTCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
16 1 0.04
17 21 0.88
18 2 0.08
ACGTcount: A:0.00, C:0.09, G:0.04, T:0.87
Consensus pattern (16 bp):
TTTTTTCTTTTTTTTT
Found at i:10586551 original size:28 final size:28
Alignment explanation
Indices: 10586520--10586577 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
10586510 TTGTTCAAAT
10586520 TTTATTCAAGAAAAATAAATTAAAATAA
1 TTTATTCAAGAAAAATAAATTAAAATAA
*
10586548 TTTATTCAAGAAAAATAAATTGAAATAA
1 TTTATTCAAGAAAAATAAATTAAAATAA
10586576 TT
1 TT
10586578 CTTAAAATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.34
Consensus pattern (28 bp):
TTTATTCAAGAAAAATAAATTAAAATAA
Found at i:10588498 original size:30 final size:31
Alignment explanation
Indices: 10588459--10588520 Score: 92
Period size: 30 Copynumber: 2.0 Consensus size: 31
10588449 GGCCAATTAG
*
10588459 GGCAGGTGGTGAATAGTG-GTGAACAAAGGGT
1 GGCAGGTGGTGAACAG-GAGTGAACAAAGGGT
10588490 GGCA-GTGGTGAACAGGAGTGAACAAAGGGT
1 GGCAGGTGGTGAACAGGAGTGAACAAAGGGT
10588520 G
1 G
10588521 AACAGAGGGT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 1 0.03
30 24 0.83
31 4 0.14
ACGTcount: A:0.31, C:0.08, G:0.45, T:0.16
Consensus pattern (31 bp):
GGCAGGTGGTGAACAGGAGTGAACAAAGGGT
Found at i:10590253 original size:28 final size:28
Alignment explanation
Indices: 10590213--10590289 Score: 124
Period size: 25 Copynumber: 2.9 Consensus size: 28
10590203 TATTAGCCAG
10590213 TATTGGGTGATTCAATTAAATCAGCAGA
1 TATTGGGTGATTCAATTAAATCAGCAGA
10590241 TATTGGGTGATTCAATTAAAT---CAGA
1 TATTGGGTGATTCAATTAAATCAGCAGA
*
10590266 TATTGGGTGATTTAATTAAATCAG
1 TATTGGGTGATTCAATTAAATCAG
10590290 ATGCTCACAT
Statistics
Matches: 45, Mismatches: 1, Indels: 6
0.87 0.02 0.12
Matches are distributed among these distances:
25 24 0.53
28 21 0.47
ACGTcount: A:0.35, C:0.08, G:0.21, T:0.36
Consensus pattern (28 bp):
TATTGGGTGATTCAATTAAATCAGCAGA
Found at i:10596649 original size:3 final size:3
Alignment explanation
Indices: 10596641--10596674 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
10596631 AACAGAGTCA
10596641 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
10596675 GAACATTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:10599344 original size:16 final size:17
Alignment explanation
Indices: 10599319--10599352 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
10599309 TTATCTTTTC
*
10599319 AATATCTTTTCTTTATT
1 AATATCTTTTCTTAATT
10599336 AATAT-TTTTCTTAATT
1 AATATCTTTTCTTAATT
10599352 A
1 A
10599353 TGTTTAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.62
Consensus pattern (17 bp):
AATATCTTTTCTTAATT
Found at i:10599441 original size:20 final size:21
Alignment explanation
Indices: 10599395--10599441 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
10599385 TTACTACAAT
* *
10599395 AATATAATAAATAAAATAATT
1 AATATAATAAATAAAAGAATA
*
10599416 AA-ATAATAACTAAAAGAA-A
1 AATATAATAAATAAAAGAATA
10599435 AATATAA
1 AATATAA
10599442 AATTTAACCC
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 2 0.09
20 18 0.82
21 2 0.09
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (21 bp):
AATATAATAAATAAAAGAATA
Found at i:10603552 original size:16 final size:15
Alignment explanation
Indices: 10603531--10603560 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
10603521 ACAAAAGTAT
10603531 ATTTATATATTAATAA
1 ATTTATATA-TAATAA
10603547 ATTTATATATAATA
1 ATTTATATATAATA
10603561 TAAGTTTTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATTTATATATAATAA
Found at i:10604599 original size:18 final size:17
Alignment explanation
Indices: 10604563--10604601 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
10604553 AATTAAAGTT
*
10604563 AAATTAAATTAAATTAA
1 AAATTAAATTAAATGAA
*
10604580 AAATTAAAATTAACTGAA
1 AAATT-AAATTAAATGAA
10604598 AAAT
1 AAAT
10604602 ATTTAATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (17 bp):
AAATTAAATTAAATGAA
Found at i:10611123 original size:24 final size:23
Alignment explanation
Indices: 10611096--10611163 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 23
10611086 TCATTTTTCC
*
10611096 AATATTTTAATTTTATTAACAACA
1 AATATTTTAATTTT-TTAAAAACA
* *
10611120 AATATATTTTATTTTTTAAAAATA
1 AATAT-TTTAATTTTTTAAAAACA
* *
10611144 AACATTTCAATTTTTATAAA
1 AATATTTTAATTTTT-TAAA
10611164 TAATTTTCAG
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
23 8 0.22
24 20 0.56
25 8 0.22
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.49
Consensus pattern (23 bp):
AATATTTTAATTTTTTAAAAACA
Found at i:10611336 original size:31 final size:30
Alignment explanation
Indices: 10611279--10611347 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 30
10611269 TTAAATTATT
* *
10611279 ATTTTTCAAAACAATTTCAATATTTTGAAA
1 ATTTTTTAAAAAAATTTCAATATTTTGAAA
*
10611309 TATGTTTTTAAAAAAATTT-AATTTTTTGAAA
1 -AT-TTTTTAAAAAAATTTCAATATTTTGAAA
10611340 ATTTTTTA
1 ATTTTTTA
10611348 TTTTTTATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
29 6 0.18
30 2 0.06
31 13 0.38
32 13 0.38
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (30 bp):
ATTTTTTAAAAAAATTTCAATATTTTGAAA
Found at i:10611371 original size:22 final size:22
Alignment explanation
Indices: 10611343--10611404 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 22
10611333 TTTGAAAATT
*
10611343 TTTTATTTTTTATAAATTTAAA
1 TTTTATTTTTTATAAAATTAAA
* *
10611365 TTTTATTATTTAAAAAATTAAA
1 TTTTATTTTTTATAAAATTAAA
*
10611387 TTTTAACTTTTTATAAAA
1 TTTT-ATTTTTTATAAAA
10611405 AATTTTAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 23 0.70
23 10 0.30
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (22 bp):
TTTTATTTTTTATAAAATTAAA
Found at i:10611460 original size:19 final size:19
Alignment explanation
Indices: 10611436--10611475 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
10611426 AAATAAATTT
* * *
10611436 AATTTTTTATAAAATTTAA
1 AATTTTTCAAAAAAATTAA
10611455 AATTTTTCAAAAAAATTAA
1 AATTTTTCAAAAAAATTAA
10611474 AA
1 AA
10611476 AATATTGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (19 bp):
AATTTTTCAAAAAAATTAA
Found at i:10611630 original size:22 final size:23
Alignment explanation
Indices: 10611603--10611658 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
10611593 AAAATGTTCT
*
10611603 AAAAATT-GAAGATTATTTTTAA
1 AAAAATTAAAAGATTATTTTTAA
*
10611625 AAAAATTCAAAATATTATTTTT-A
1 AAAAATT-AAAAGATTATTTTTAA
*
10611648 AAATATTAAAA
1 AAAAATTAAAA
10611659 TATGGGAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 11 0.38
23 7 0.24
24 11 0.38
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.39
Consensus pattern (23 bp):
AAAAATTAAAAGATTATTTTTAA
Found at i:10619820 original size:13 final size:13
Alignment explanation
Indices: 10619793--10619912 Score: 75
Period size: 13 Copynumber: 9.2 Consensus size: 13
10619783 TAAAACCCCA
10619793 AACCCTAAA-CCT
1 AACCCTAAACCCT
*
10619805 AACCATAAACCCT
1 AACCCTAAACCCT
*
10619818 AACCCTAAAAACCT
1 AACCCT-AAACCCT
* *
10619832 AAACCGTAAACCTT
1 -AACCCTAAACCCT
10619846 AAGCCCT-AACCCT
1 AA-CCCTAAACCCT
** *
10619859 AAACAATAAGCCCT
1 -AACCCTAAACCCT
** *
10619873 TGCCCTAAACCAT
1 AACCCTAAACCCT
*
10619886 AACCCTAAACTCT
1 AACCCTAAACCCT
*
10619899 AA-CCTAGACCCT
1 AACCCTAAACCCT
10619911 AA
1 AA
10619913 ACCAACCCTC
Statistics
Matches: 79, Mismatches: 23, Indels: 12
0.69 0.20 0.11
Matches are distributed among these distances:
12 18 0.23
13 35 0.44
14 21 0.27
15 5 0.06
ACGTcount: A:0.42, C:0.37, G:0.04, T:0.17
Consensus pattern (13 bp):
AACCCTAAACCCT
Found at i:10619856 original size:35 final size:33
Alignment explanation
Indices: 10619796--10619861 Score: 96
Period size: 35 Copynumber: 1.9 Consensus size: 33
10619786 AACCCCAAAC
10619796 CCTAAACCTAACCATAAACCCTAACCCTAAAAA
1 CCTAAACCTAACCATAAACCCTAACCCTAAAAA
* *
10619829 CCTAAACCGTAAACCTTAAGCCCTAACCCTAAA
1 CCTAAACC-T-AACCATAAACCCTAACCCTAAA
10619862 CAATAAGCCC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 8 0.28
34 1 0.03
35 20 0.69
ACGTcount: A:0.44, C:0.36, G:0.03, T:0.17
Consensus pattern (33 bp):
CCTAAACCTAACCATAAACCCTAACCCTAAAAA
Found at i:10619900 original size:20 final size:20
Alignment explanation
Indices: 10619746--10619915 Score: 102
Period size: 20 Copynumber: 8.6 Consensus size: 20
10619736 ATAAACCTTA
* *
10619746 AACCTTAAACCCAAAACCA-
1 AACCCTAAACCCTAAACCAT
* *
10619765 AAGCCCTAAACTCC-AAACTAA
1 AA-CCCTAAAC-CCTAAACCAT
*
10619786 AACCCCAAACCCTAAACC-T
1 AACCCTAAACCCTAAACCAT
* * *
10619805 AACCATAAACCCTAACCCTAA
1 AACCCTAAACCCTAAACC-AT
* * *
10619826 AAACCTAAACCGTAAACCTT
1 AACCCTAAACCCTAAACCAT
*
10619846 AAGCCCT-AACCCTAAACAAT
1 AA-CCCTAAACCCTAAACCAT
**
10619866 AAGCCCT-TGCCCTAAACCAT
1 AA-CCCTAAACCCTAAACCAT
*
10619886 AACCCTAAACTCT-AACC-T
1 AACCCTAAACCCTAAACCAT
10619904 AGACCCTAAACC
1 A-ACCCTAAACC
10619916 AACCCTCAAA
Statistics
Matches: 116, Mismatches: 26, Indels: 18
0.73 0.16 0.11
Matches are distributed among these distances:
18 2 0.02
19 36 0.31
20 57 0.49
21 21 0.18
ACGTcount: A:0.44, C:0.38, G:0.04, T:0.15
Consensus pattern (20 bp):
AACCCTAAACCCTAAACCAT
Found at i:10620009 original size:18 final size:18
Alignment explanation
Indices: 10619987--10620036 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
10619977 TTGTTGTATG
10619987 ATCATGCAT-TCATACTTT
1 ATCATGCATATCATA-TTT
* * *
10620005 GTCATTCATATTATATTT
1 ATCATGCATATCATATTT
10620023 ATCATGCATATCAT
1 ATCATGCATATCAT
10620037 GCATTTGTTT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
18 21 0.84
19 4 0.16
ACGTcount: A:0.30, C:0.18, G:0.06, T:0.46
Consensus pattern (18 bp):
ATCATGCATATCATATTT
Found at i:10630274 original size:19 final size:19
Alignment explanation
Indices: 10630242--10630297 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 19
10630232 AAAGTTTTTG
10630242 AAAATTCTAGAAAAAATCTAA
1 AAAATT-TA-AAAAAATCTAA
**
10630263 AAAATTTAAAAAAAAT-TCC
1 AAAATTT-AAAAAAATCTAA
10630282 AAAA-TTAAAAAAATCT
1 AAAATTTAAAAAAATCT
10630298 GATTTTTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
17 8 0.26
18 3 0.10
19 5 0.16
20 8 0.26
21 7 0.23
ACGTcount: A:0.64, C:0.09, G:0.02, T:0.25
Consensus pattern (19 bp):
AAAATTTAAAAAAATCTAA
Found at i:10630482 original size:24 final size:24
Alignment explanation
Indices: 10630455--10630517 Score: 63
Period size: 25 Copynumber: 2.6 Consensus size: 24
10630445 TCATTTTTCC
*
10630455 AATATTTTAATTTTATTAACAACA
1 AATATTTTAATTTTATTAAAAACA
* * *
10630479 AATATATTTTATTTTTTTAAAAATA
1 AATAT-TTTAATTTTATTAAAAACA
* *
10630504 AACATTTCAATTTT
1 AATATTTTAATTTT
10630518 TATAAATAAT
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
24 12 0.39
25 19 0.61
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (24 bp):
AATATTTTAATTTTATTAAAAACA
Found at i:10630695 original size:31 final size:30
Alignment explanation
Indices: 10630638--10630706 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 30
10630628 TTAAATTATT
* *
10630638 ATTTTTCAAAACAATTTCAATATTTTGAAA
1 ATTTTTTAAAAAAATTTCAATATTTTGAAA
*
10630668 TATGTTTTTAAAAAAATTT-AATTTTTTGAAA
1 -AT-TTTTTAAAAAAATTTCAATATTTTGAAA
10630699 ATTTTTTA
1 ATTTTTTA
10630707 TTTTTTTAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
29 6 0.18
30 2 0.06
31 13 0.38
32 13 0.38
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (30 bp):
ATTTTTTAAAAAAATTTCAATATTTTGAAA
Found at i:10630817 original size:19 final size:19
Alignment explanation
Indices: 10630793--10630832 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
10630783 AAATAAATTT
* * *
10630793 AATTTTTTATAAAATTTAA
1 AATTTTTCAAAAAAATTAA
10630812 AATTTTTCAAAAAAATTAA
1 AATTTTTCAAAAAAATTAA
10630831 AA
1 AA
10630833 ATATTGAAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (19 bp):
AATTTTTCAAAAAAATTAA
Found at i:10638076 original size:24 final size:25
Alignment explanation
Indices: 10638043--10638089 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
10638033 GTGTAACAGA
*
10638043 GAAAGAAAATTGAGAAAAAAATCTT
1 GAAAGAAAATAGAGAAAAAAATCTT
*
10638068 GAAA-AAAATAGAGAGAAAAATC
1 GAAAGAAAATAGAGAAAAAAATC
10638090 CTTGTGAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.64, C:0.04, G:0.17, T:0.15
Consensus pattern (25 bp):
GAAAGAAAATAGAGAAAAAAATCTT
Found at i:10639101 original size:7 final size:7
Alignment explanation
Indices: 10639089--10639296 Score: 56
Period size: 7 Copynumber: 31.6 Consensus size: 7
10639079 AAATCTCCCA
10639089 TAAACCC
1 TAAACCC
10639096 TAAACCC
1 TAAACCC
*
10639103 -AAAACC
1 TAAACCC
10639109 -AAAGCCC
1 TAAA-CCC
10639116 TAAACTCC
1 TAAAC-CC
10639124 -AAA--C
1 TAAACCC
10639128 TAAAACCC
1 T-AAACCC
*
10639136 CAAACCC
1 TAAACCC
10639143 TAAA--C
1 TAAACCC
*
10639148 TTAACCC
1 TAAACCC
10639155 TAAA-CC
1 TAAACCC
* *
10639161 TTAACCA
1 TAAACCC
**
10639168 TAAAAATC
1 T-AAACCC
*
10639176 TAAACCT
1 TAAACCC
*
10639183 TAAACCT
1 TAAACCC
*
10639190 TAAGCCC
1 TAAACCC
10639197 T-AACCC
1 TAAACCC
**
10639203 TAAACAA
1 TAAACCC
* *
10639210 TAAGCCA
1 TAAACCC
**
10639217 T-TGCCC
1 TAAACCC
*
10639223 TAAACCA
1 TAAACCC
10639230 T-AACCC
1 TAAACCC
*
10639236 TAAACTC
1 TAAACCC
10639243 T-AA-CC
1 TAAACCC
*
10639248 TAGACCC
1 TAAACCC
*
10639255 TAAACTC
1 TAAACCC
10639262 T-AA-CC
1 TAAACCC
*
10639267 TAGACCC
1 TAAACCC
10639274 TAAA-CC
1 TAAACCC
10639280 --AACCC
1 TAAACCC
10639285 TTAAACCC
1 -TAAACCC
10639293 TAAA
1 TAAA
10639297 TTAATCATGC
Statistics
Matches: 143, Mismatches: 36, Indels: 44
0.64 0.16 0.20
Matches are distributed among these distances:
4 3 0.02
5 10 0.07
6 38 0.27
7 78 0.55
8 14 0.10
ACGTcount: A:0.44, C:0.36, G:0.03, T:0.18
Consensus pattern (7 bp):
TAAACCC
Found at i:10639127 original size:27 final size:27
Alignment explanation
Indices: 10639089--10639148 Score: 63
Period size: 27 Copynumber: 2.2 Consensus size: 27
10639079 AAATCTCCCA
10639089 TAAAC-CCTAAACCCAAAA-CCAAAGCCC
1 TAAACTCCTAAA-CCAAAACCCAAA-CCC
*
10639116 TAAACTCC-AAACTAAAACCCCAAACCC
1 TAAACTCCTAAACCAAAA-CCCAAACCC
10639143 TAAACT
1 TAAACT
10639149 TAACCCTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
26 5 0.17
27 17 0.59
28 7 0.24
ACGTcount: A:0.48, C:0.38, G:0.02, T:0.12
Consensus pattern (27 bp):
TAAACTCCTAAACCAAAACCCAAACCC
Found at i:10639165 original size:13 final size:13
Alignment explanation
Indices: 10639138--10639240 Score: 57
Period size: 13 Copynumber: 7.8 Consensus size: 13
10639128 TAAAACCCCA
10639138 AACCCTAAA-CTT
1 AACCCTAAACCTT
10639150 AACCCTAAACCTT
1 AACCCTAAACCTT
* * *
10639163 AACCATAAAAATCTA
1 AACCCT--AAACCTT
*
10639178 AACCTTAAACCTT
1 AACCCTAAACCTT
* *
10639191 AAGCCCTAACCCTA
1 AA-CCCTAAACCTT
** *
10639205 AACAATAAGCCATT
1 AACCCTAAACC-TT
* *
10639219 -GCCCTAAACCAT
1 AACCCTAAACCTT
10639231 AACCCTAAAC
1 AACCCTAAAC
10639241 TCTAACCTAG
Statistics
Matches: 66, Mismatches: 19, Indels: 11
0.69 0.20 0.11
Matches are distributed among these distances:
12 10 0.15
13 35 0.53
14 11 0.17
15 10 0.15
ACGTcount: A:0.44, C:0.33, G:0.03, T:0.20
Consensus pattern (13 bp):
AACCCTAAACCTT
Found at i:10639245 original size:20 final size:20
Alignment explanation
Indices: 10639086--10639279 Score: 93
Period size: 20 Copynumber: 9.8 Consensus size: 20
10639076 CCCAAATCTC
*
10639086 CCATAAACCCTAAACCCAAAA
1 CCAT-AACCCTAAACCCTAAA
10639107 CCA-AAGCCCTAAACTCC-AAA
1 CCATAA-CCCTAAAC-CCTAAA
* * *
10639127 CTAAAACCCCAAACCCTAAA
1 CCATAACCCTAAACCCTAAA
* *
10639147 -CTTAACCCTAAA-CCTTAA
1 CCATAACCCTAAACCCTAAA
** *
10639165 CCATAAAAATCTAAACCTTAAA
1 CCAT--AACCCTAAACCCTAAA
*
10639187 CCTTAAGCCCT-AACCCTAAA
1 CCATAA-CCCTAAACCCTAAA
* * **
10639207 CAATAAGCC-ATTGCCCTAAA
1 CCATAACCCTA-AACCCTAAA
*
10639227 CCATAACCCTAAACTCT-AA
1 CCATAACCCTAAACCCTAAA
*
10639246 CC-TAGACCCTAAACTCT-AA
1 CCATA-ACCCTAAACCCTAAA
10639265 CC-TAGACCCTAAACC
1 CCATA-ACCCTAAACC
10639280 AACCCTTAAA
Statistics
Matches: 133, Mismatches: 27, Indels: 28
0.71 0.14 0.15
Matches are distributed among these distances:
18 7 0.05
19 48 0.36
20 54 0.41
21 17 0.13
22 7 0.05
ACGTcount: A:0.43, C:0.36, G:0.03, T:0.18
Consensus pattern (20 bp):
CCATAACCCTAAACCCTAAA
Found at i:10639254 original size:19 final size:19
Alignment explanation
Indices: 10639232--10639278 Score: 94
Period size: 19 Copynumber: 2.5 Consensus size: 19
10639222 CTAAACCATA
10639232 ACCCTAAACTCTAACCTAG
1 ACCCTAAACTCTAACCTAG
10639251 ACCCTAAACTCTAACCTAG
1 ACCCTAAACTCTAACCTAG
10639270 ACCCTAAAC
1 ACCCTAAAC
10639279 CAACCCTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.38, C:0.38, G:0.04, T:0.19
Consensus pattern (19 bp):
ACCCTAAACTCTAACCTAG
Found at i:10640266 original size:9 final size:9
Alignment explanation
Indices: 10640239--10640286 Score: 62
Period size: 9 Copynumber: 5.4 Consensus size: 9
10640229 TTGTTTTCTT
10640239 AAAAAATGA
1 AAAAAATGA
***
10640248 AAACTTTGA
1 AAAAAATGA
10640257 AAAAAATGA
1 AAAAAATGA
10640266 AAAAAAT-A
1 AAAAAATGA
10640274 AAAAAATGA
1 AAAAAATGA
10640283 AAAA
1 AAAA
10640287 TGTTTTGATT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
8 8 0.25
9 24 0.75
ACGTcount: A:0.75, C:0.02, G:0.08, T:0.15
Consensus pattern (9 bp):
AAAAAATGA
Found at i:10641194 original size:18 final size:20
Alignment explanation
Indices: 10641171--10641213 Score: 63
Period size: 18 Copynumber: 2.2 Consensus size: 20
10641161 TTTCCTTCTT
10641171 AAAAAAAAA-CAAAACAAA-
1 AAAAAAAAACCAAAACAAAC
*
10641189 AAAAAAAAACCAAAAGAAAC
1 AAAAAAAAACCAAAACAAAC
10641209 AAAAA
1 AAAAA
10641214 TTGTAGAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 9 0.41
19 8 0.36
20 5 0.23
ACGTcount: A:0.86, C:0.12, G:0.02, T:0.00
Consensus pattern (20 bp):
AAAAAAAAACCAAAACAAAC
Found at i:10641195 original size:19 final size:20
Alignment explanation
Indices: 10641171--10641213 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
10641161 TTTCCTTCTT
10641171 AAAAAAAAACAAAACAAA-A
1 AAAAAAAAACAAAACAAACA
* *
10641190 AAAAAAAACCAAAAGAAACA
1 AAAAAAAAACAAAACAAACA
10641210 AAAA
1 AAAA
10641214 TTGTAGAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.86, C:0.12, G:0.02, T:0.00
Consensus pattern (20 bp):
AAAAAAAAACAAAACAAACA
Found at i:10641260 original size:21 final size:21
Alignment explanation
Indices: 10641236--10641278 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
10641226 AAAAAAGGAG
10641236 AAAAATCTTTGAATCCTAGAC
1 AAAAATCTTTGAATCCTAGAC
10641257 AAAAATCTTTGAATCCTAGAC
1 AAAAATCTTTGAATCCTAGAC
10641278 A
1 A
10641279 TCTTATGTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.44, C:0.19, G:0.09, T:0.28
Consensus pattern (21 bp):
AAAAATCTTTGAATCCTAGAC
Found at i:10641556 original size:37 final size:36
Alignment explanation
Indices: 10641454--10641606 Score: 148
Period size: 37 Copynumber: 4.2 Consensus size: 36
10641444 CATGTACGTT
* * * *
10641454 ATCTCATGCACATCATACTAGGATAATACATGCATTCC
1 ATCTCATGCACAT-TTAATA-GATAGTACATACATTCC
*
10641492 ATCTCACT-CACA-TCAATAGATAGTACATACATTCC
1 ATCTCA-TGCACATTTAATAGATAGTACATACATTCC
*
10641527 ATCTCATGCACATGTTAATAGATAGTACATACATTCT
1 ATCTCATGCACAT-TTAATAGATAGTACATACATTCC
* * * * *
10641564 ATCACATGCACATTTAATAGGTAGCACATGCACTCC
1 ATCTCATGCACATTTAATAGATAGTACATACATTCC
*
10641600 ACCTCAT
1 ATCTCAT
10641607 TATATATCTT
Statistics
Matches: 96, Mismatches: 15, Indels: 10
0.79 0.12 0.08
Matches are distributed among these distances:
34 1 0.01
35 25 0.26
36 26 0.27
37 33 0.34
38 10 0.10
39 1 0.01
ACGTcount: A:0.35, C:0.26, G:0.10, T:0.29
Consensus pattern (36 bp):
ATCTCATGCACATTTAATAGATAGTACATACATTCC
Found at i:10641583 original size:73 final size:73
Alignment explanation
Indices: 10641454--10641606 Score: 157
Period size: 73 Copynumber: 2.1 Consensus size: 73
10641444 CATGTACGTT
* * * *
10641454 ATCTCATGCACATCATACTAGGATAATACATGCATTCCATCTCACTCACATCAATAGATAGTACA
1 ATCTCATGCACATCATAATAGGATAATACATACATTCCATCACACTCACATCAATAGATAGCACA
*
10641519 TACATTCC
66 TACACTCC
** * * * *
10641527 ATCTCATGCACATGTTAATA-GATAGTACATACATTCTATCACA-TGCACATTTAATAGGTAGCA
1 ATCTCATGCACATCATAATAGGATAATACATACATTCCATCACACT-CACA-TCAATAGATAGCA
*
10641590 CATGCACTCC
64 CATACACTCC
*
10641600 ACCTCAT
1 ATCTCAT
10641607 TATATATCTT
Statistics
Matches: 65, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
71 1 0.02
72 23 0.35
73 41 0.63
ACGTcount: A:0.35, C:0.26, G:0.10, T:0.29
Consensus pattern (73 bp):
ATCTCATGCACATCATAATAGGATAATACATACATTCCATCACACTCACATCAATAGATAGCACA
TACACTCC
Found at i:10643558 original size:31 final size:31
Alignment explanation
Indices: 10643499--10643559 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
10643489 TTCACTCGAG
* ***
10643499 AAAAAAGAAAAAAAAAGTGAAAGAAAAAACT
1 AAAAAAAAAAAAAAAAAACAAAGAAAAAACT
10643530 AAAAAAAAAAAAAAAAAACAAAGGAAAAAA
1 AAAAAAAAAAAAAAAAAACAAA-GAAAAAA
10643560 AAGAAAAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
31 18 0.72
32 7 0.28
ACGTcount: A:0.84, C:0.03, G:0.10, T:0.03
Consensus pattern (31 bp):
AAAAAAAAAAAAAAAAAACAAAGAAAAAACT
Found at i:10643573 original size:20 final size:21
Alignment explanation
Indices: 10643518--10643573 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 21
10643508 AAAAAAAGTG
*
10643518 AAAGAAAAAACTAA-AAAAAA
1 AAAGAAAAAACTAAGGAAAAA
* *
10643538 AAAAAAAAAACAAAGGAAAAA
1 AAAGAAAAAACTAAGGAAAAA
10643559 AAAGAAAAAA-TAAGG
1 AAAGAAAAAACTAAGG
10643574 GGAGAAACAG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
20 16 0.53
21 14 0.47
ACGTcount: A:0.82, C:0.04, G:0.11, T:0.04
Consensus pattern (21 bp):
AAAGAAAAAACTAAGGAAAAA
Found at i:10643979 original size:21 final size:20
Alignment explanation
Indices: 10643955--10644003 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
10643945 AAAAAAAGAG
*
10643955 AAAGAACAAAAATAGGGAAAA
1 AAAGAA-AAAAATAGAGAAAA
*
10643976 AAAGGAAAAAAATTGAGAAAA
1 AAA-GAAAAAAATAGAGAAAA
10643997 ACAAGAA
1 A-AAGAA
10644004 TGGATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 19 0.79
22 5 0.21
ACGTcount: A:0.71, C:0.04, G:0.18, T:0.06
Consensus pattern (20 bp):
AAAGAAAAAAATAGAGAAAA
Found at i:10644647 original size:25 final size:25
Alignment explanation
Indices: 10644614--10644661 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
10644604 GAGCTTTTAC
10644614 AAAATTTCTC-AAGGTGATATTCTT
1 AAAATTTCTCGAAGGTGATATTCTT
*
10644638 AAAACTTTCTCGATGGTGATATTC
1 AAAA-TTTCTCGAAGGTGATATTC
10644662 GAGCTTTTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.19
25 6 0.29
26 11 0.52
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.40
Consensus pattern (25 bp):
AAAATTTCTCGAAGGTGATATTCTT
Found at i:10644806 original size:24 final size:24
Alignment explanation
Indices: 10644775--10644835 Score: 88
Period size: 24 Copynumber: 2.5 Consensus size: 24
10644765 GTTTTCACTC
*
10644775 AGTGGTGATATTCGAGT-CTTATTT
1 AGTGGTGATATCCGAGTCCTTA-TT
*
10644799 GGTGGTGATATCCGAGTCCTTATT
1 AGTGGTGATATCCGAGTCCTTATT
10644823 AGTGGTGATATCC
1 AGTGGTGATATCC
10644836 AAAACCTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 29 0.88
25 4 0.12
ACGTcount: A:0.20, C:0.13, G:0.28, T:0.39
Consensus pattern (24 bp):
AGTGGTGATATCCGAGTCCTTATT
Found at i:10644921 original size:58 final size:57
Alignment explanation
Indices: 10644801--10644986 Score: 180
Period size: 58 Copynumber: 3.2 Consensus size: 57
10644791 TCTTATTTGG
* * * ** * * *
10644801 TGGTGATATCCGAGTCCTTATTAGTGGTGATATCCAAAACCTTTTTATTTTCACTC-A
1 TGGTGATATCCAAGTCCTTTTTAGTGGTGATATCTAAAGTC-ATTTGTTTTCATTCGA
*
10644858 GTGGTGATATCCAAGTCCTTTTTGGTGGTGATATCTAAAGTCATTTGTTTTCCATTCGA
1 -TGGTGATATCCAAGTCCTTTTTAGTGGTGATATCTAAAGTCATTTGTTTT-CATTCGA
* ** *
10644917 TGGTGATATCCAAGT-GTTCTTTAGTGGTGATAT-TCAAAGTTGTTTGTTTTCATTCGG
1 TGGTGATATCCAAGTCCTT-TTTAGTGGTGATATCT-AAAGTCATTTGTTTTCATTCGA
*
10644974 TGATGATATCCAA
1 TGGTGATATCCAA
10644987 AGTCATTTAT
Statistics
Matches: 109, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
57 28 0.26
58 80 0.73
59 1 0.01
ACGTcount: A:0.23, C:0.15, G:0.20, T:0.42
Consensus pattern (57 bp):
TGGTGATATCCAAGTCCTTTTTAGTGGTGATATCTAAAGTCATTTGTTTTCATTCGA
Found at i:10644982 original size:33 final size:33
Alignment explanation
Indices: 10644943--10645017 Score: 89
Period size: 33 Copynumber: 2.3 Consensus size: 33
10644933 TTCTTTAGTG
** * *
10644943 GTGATATTCAAAGTTGTTTGTTTTCATTCGGT-
1 GTGATATTCAAAGTCATTTATTTTCACTCGGTA
*
10644975 GATGATATCCAAAGTCATTTATTTTCACTCGGTA
1 G-TGATATTCAAAGTCATTTATTTTCACTCGGTA
10645009 GTGATATTC
1 GTGATATTC
10645018 GAGTCTTTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
32 1 0.03
33 33 0.94
34 1 0.03
ACGTcount: A:0.24, C:0.13, G:0.19, T:0.44
Consensus pattern (33 bp):
GTGATATTCAAAGTCATTTATTTTCACTCGGTA
Found at i:10645663 original size:20 final size:21
Alignment explanation
Indices: 10645640--10645684 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
10645630 AAATTTGATC
*
10645640 AAATTTTGTC-AACAAAGTCA
1 AAATTTAGTCAAACAAAGTCA
*
10645660 AAA-TTAGTCAAACAAAGTTA
1 AAATTTAGTCAAACAAAGTCA
10645680 AAATT
1 AAATT
10645685 AGGTAAAACT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
19 5 0.24
20 15 0.71
21 1 0.05
ACGTcount: A:0.51, C:0.11, G:0.09, T:0.29
Consensus pattern (21 bp):
AAATTTAGTCAAACAAAGTCA
Found at i:10645891 original size:12 final size:13
Alignment explanation
Indices: 10645864--10645896 Score: 50
Period size: 12 Copynumber: 2.5 Consensus size: 13
10645854 TAATTTAACT
10645864 TTTTCGAAGTAAAA
1 TTTTC-AAGTAAAA
10645878 TTTTCAAG-AAAA
1 TTTTCAAGTAAAA
10645890 TTTTCAA
1 TTTTCAA
10645897 ATCATAATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 11 0.58
13 3 0.16
14 5 0.26
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.39
Consensus pattern (13 bp):
TTTTCAAGTAAAA
Found at i:10646704 original size:12 final size:12
Alignment explanation
Indices: 10646689--10646729 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
10646679 ACAGAGGAAG
10646689 AAAATTGAGAAA
1 AAAATTGAGAAA
*
10646701 AAAATCT-AAAAA
1 AAAAT-TGAGAAA
10646713 AAAATTGAGAAA
1 AAAATTGAGAAA
10646725 AAAAT
1 AAAAT
10646730 CCTTGTGGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
11 1 0.04
12 23 0.92
13 1 0.04
ACGTcount: A:0.71, C:0.02, G:0.10, T:0.17
Consensus pattern (12 bp):
AAAATTGAGAAA
Found at i:10647702 original size:26 final size:27
Alignment explanation
Indices: 10647673--10647754 Score: 75
Period size: 25 Copynumber: 3.2 Consensus size: 27
10647663 AAAAAACTTG
*
10647673 AAACCCCAAATCTCTAATC-AAA-CCCT
1 AAACCCCAAA-CTCTAAACTAAAGCCCT
*
10647699 AAA-CCCTAACTCTAAACTAAAGCCCT
1 AAACCCCAAACTCTAAACTAAAGCCCT
* * *
10647725 AAA--CCTAACCCCAAACTAAAGCCCT
1 AAACCCCAAACTCTAAACTAAAGCCCT
10647750 AAACC
1 AAACC
10647755 TAACCCCTAA
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
24 7 0.15
25 31 0.65
26 10 0.21
ACGTcount: A:0.44, C:0.38, G:0.02, T:0.16
Consensus pattern (27 bp):
AAACCCCAAACTCTAAACTAAAGCCCT
Found at i:10647726 original size:13 final size:14
Alignment explanation
Indices: 10647710--10647782 Score: 66
Period size: 13 Copynumber: 5.6 Consensus size: 14
10647700 AACCCTAACT
10647710 CTAAA-CTAAAGCC
1 CTAAACCTAAAGCC
10647723 CTAAACCT-AA-CC
1 CTAAACCTAAAGCC
*
10647735 CCAAA-CTAAAGCC
1 CTAAACCTAAAGCC
*
10647748 CTAAACCT-AACCC
1 CTAAACCTAAAGCC
* **
10647761 CTAAATCTAAAAAC
1 CTAAACCTAAAGCC
10647775 CTAAACCT
1 CTAAACCT
10647783 TAGCTATAAT
Statistics
Matches: 48, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
11 2 0.04
12 8 0.17
13 24 0.50
14 14 0.29
ACGTcount: A:0.45, C:0.36, G:0.03, T:0.16
Consensus pattern (14 bp):
CTAAACCTAAAGCC
Found at i:10647740 original size:25 final size:25
Alignment explanation
Indices: 10647695--10647782 Score: 113
Period size: 25 Copynumber: 3.4 Consensus size: 25
10647685 TCTAATCAAA
* *
10647695 CCCTAAACCCTAACTCTAAACTAAAG
1 CCCTAAA-CCTAACCCCAAACTAAAG
10647721 CCCTAAACCTAACCCCAAACTAAAG
1 CCCTAAACCTAACCCCAAACTAAAG
*
10647746 CCCTAAACCTAACCCCTAAATCTAAAA
1 CCCTAAACCTAACCCC-AAA-CTAAAG
*
10647773 ACCTAAACCT
1 CCCTAAACCT
10647783 TAGCTATAAT
Statistics
Matches: 56, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
25 32 0.57
26 10 0.18
27 14 0.25
ACGTcount: A:0.43, C:0.38, G:0.02, T:0.17
Consensus pattern (25 bp):
CCCTAAACCTAACCCCAAACTAAAG
Found at i:10648291 original size:16 final size:15
Alignment explanation
Indices: 10648270--10648317 Score: 60
Period size: 16 Copynumber: 3.0 Consensus size: 15
10648260 TTTGTTTCTT
10648270 AAAAGAAACGAAAAAA
1 AAAAGAAA-GAAAAAA
10648286 AAAAGAGAAGAAAAAA
1 AAAAGA-AAGAAAAAA
*
10648302 AAGAGAAAAGAAAAAA
1 AAAAG-AAAGAAAAAA
10648318 TGAATTAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
16 26 0.90
17 3 0.10
ACGTcount: A:0.81, C:0.02, G:0.17, T:0.00
Consensus pattern (15 bp):
AAAAGAAAGAAAAAA
Found at i:10648299 original size:14 final size:13
Alignment explanation
Indices: 10648279--10648317 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 13
10648269 TAAAAGAAAC
10648279 GAAAAAAAAAAGA
1 GAAAAAAAAAAGA
10648292 GAAGAAAAAAAAGA
1 GAA-AAAAAAAAGA
10648306 GAAAAGAAAAAA
1 GAAAA-AAAAAA
10648318 TGAATTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 5 0.21
14 19 0.79
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (13 bp):
GAAAAAAAAAAGA
Found at i:10650346 original size:84 final size:81
Alignment explanation
Indices: 10650100--10650346 Score: 236
Period size: 84 Copynumber: 3.0 Consensus size: 81
10650090 TTAATTGTGA
*
10650100 TAATT-GGTTTTTTTCGAGCTTTCTTTACATTTTTGTTTTCTTCAATTTTAAAAATAATATTTAT
1 TAATTGGGTTTTTTT-G-GCTTTCTTTAC-TTTTT-TTTTCTTCGATTTTAAAAATAATATTTAT
*
10650164 CAATTAATTGTG--A-TAAT
62 CTATTAATTGTGTAATTAAT
* * * * * * *
10650181 TAATTGTGTCTTTTTGGTTTTCTTTACCCTTTTGTTTTCTTTG-TTTCTAAAAAATAAGAATTAT
1 TAATTGGGTTTTTTTGGCTTTCTTTA--CTTTTTTTTTCTTCGATTT-T-AAAAATAATATTTAT
*
10650245 CTATTAATTATGGTAATTAAAT
62 CTATTAATTGT-GTAATT-AAT
*
10650267 TAATTGGGTTTTTTTGG-TTTCTTTATCTTTTTTCTTTCTTCGATTTTAAAAATAATATTTTTCT
1 TAATTGGGTTTTTTTGGCTTTCTTTA-CTTTTTT-TTTCTTCGATTTTAAAAATAATATTTATCT
10650331 ATTAATTGTGATAATT
64 ATTAATTGTG-TAATT
10650347 GGTTGTGCCT
Statistics
Matches: 134, Mismatches: 19, Indels: 23
0.76 0.11 0.13
Matches are distributed among these distances:
79 3 0.02
80 17 0.13
81 32 0.24
82 9 0.07
83 1 0.01
84 34 0.25
85 17 0.13
86 21 0.16
ACGTcount: A:0.26, C:0.09, G:0.10, T:0.56
Consensus pattern (81 bp):
TAATTGGGTTTTTTTGGCTTTCTTTACTTTTTTTTTCTTCGATTTTAAAAATAATATTTATCTAT
TAATTGTGTAATTAAT
Found at i:10650763 original size:17 final size:17
Alignment explanation
Indices: 10650741--10650775 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
10650731 ATTGATTATG
10650741 TCTTTTAGGCTTTTTTA
1 TCTTTTAGGCTTTTTTA
**
10650758 TCTTTTAGTTTTTTTTA
1 TCTTTTAGGCTTTTTTA
10650775 T
1 T
10650776 AATTTTAAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.11, C:0.09, G:0.09, T:0.71
Consensus pattern (17 bp):
TCTTTTAGGCTTTTTTA
Found at i:10654389 original size:103 final size:101
Alignment explanation
Indices: 10654201--10654395 Score: 268
Period size: 103 Copynumber: 1.9 Consensus size: 101
10654191 TAAATCCCAA
* *
10654201 ATTTAAATGATCATTTAATTTTTTTTATAAAAAGATTATTTAAGGCATTTTTTGTACAAAAATGC
1 ATTTAAATGATCATTTAATTTTTTTTATAAAAAGATTATTTAAGGCATTTTATGTACAAAAACGC
* * * *
10654266 CCTTAATGATCTTTTCATTTTTTTATATTATGGATC
66 CCTTAATAATCCTTTAATTTTGTTATATTATGGATC
* *
10654302 ATTTAAATGATCATTTAATTTTTTTTTTATAAAATGATTATTTAAGGCA-TTTATGTATAGAAAA
1 ATTTAAATGATCATTTAA--TTTTTTTTATAAAAAGATTATTTAAGGCATTTTATGTACA-AAAA
10654366 CG-CCTTATATAATCCTTTAATTTTGTTATA
63 CGCCCTTA-ATAATCCTTTAATTTTGTTATA
10654396 AAAGGATTAT
Statistics
Matches: 82, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
101 18 0.22
102 13 0.16
103 51 0.62
ACGTcount: A:0.34, C:0.08, G:0.09, T:0.49
Consensus pattern (101 bp):
ATTTAAATGATCATTTAATTTTTTTTATAAAAAGATTATTTAAGGCATTTTATGTACAAAAACGC
CCTTAATAATCCTTTAATTTTGTTATATTATGGATC
Found at i:10654682 original size:161 final size:160
Alignment explanation
Indices: 10654391--10654825 Score: 480
Period size: 161 Copynumber: 2.7 Consensus size: 160
10654381 TTTAATTTTG
* * * * *
10654391 TTATAAAAGGATTATTTAAGGCGTTTATGTAAAGAAAATGCCTTAAATATTCTTTTTA-GAAAAA
1 TTATAAAAAGATTATTTAAGGCGTTTTTGTACAGAAAATGCCTTAAATAATCTTTTTATAAAAAA
* ** *
10654455 ATTAAAAGGATCATTTAAGGCGTTTGCTGTATAGAAATGCCTTAAACGATCCTTTTATTTTTTTA
66 ATTAAAA-GATCATTTAAGGCGTTT-CTGTATAAAAACACCTTAAACGATCATTTTATTTTTTTA
* *
10654520 TATTTTGGATTATTTAAAAACT-ATCCTTTAAT
129 TATTATGGATCATTTAAAAA-TAATCCTTTAAT
* * * *
10654552 TTATAAAAAGATTATTTAATGTGTTTTTGTACAGATAAACGTCTTAAATAATCTTTTTATAAAAA
1 TTATAAAAAGATTATTTAAGGCGTTTTTGTACAGA-AAATGCCTTAAATAATCTTTTTATAAAAA
* * * * * * *
10654617 AAATAAAAGTATCATTTAAGGCATTTTTGTACAAAAACATCTTAAATGGTCATTTTA-TTTTTTA
65 AATTAAAAG-ATCATTTAAGGCGTTTCTGTATAAAAACACCTTAAACGATCATTTTATTTTTTTA
*
10654681 TATTATGGATCATTTAAAAATAATCCTTTAGT
129 TATTATGGATCATTTAAAAATAATCCTTTAAT
* * * * * * *
10654713 TTATTTAGAAACGAATCATTTAAGGCATTTTCTATACAGAAAATGCCTTAAATGATCCTTGTATA
1 TTA--TA-AAAAG-ATTATTTAAGGCGTTTT-TGTACAGAAAATGCCTTAAATAATCTTTTTATA
*
10654778 AATAAATTAAAAGATCATTTAAGGCGTTTCTGTATAAAAACACCTTAA
61 AAAAAATTAAAAGATCATTTAAGGCGTTTCTGTATAAAAACACCTTAA
10654826 GTAATCCTTT
Statistics
Matches: 225, Mismatches: 40, Indels: 15
0.80 0.14 0.05
Matches are distributed among these distances:
160 1 0.00
161 67 0.30
162 43 0.19
163 28 0.12
164 35 0.16
165 44 0.20
166 7 0.03
ACGTcount: A:0.39, C:0.10, G:0.11, T:0.40
Consensus pattern (160 bp):
TTATAAAAAGATTATTTAAGGCGTTTTTGTACAGAAAATGCCTTAAATAATCTTTTTATAAAAAA
ATTAAAAGATCATTTAAGGCGTTTCTGTATAAAAACACCTTAAACGATCATTTTATTTTTTTATA
TTATGGATCATTTAAAAATAATCCTTTAAT
Found at i:10654856 original size:61 final size:63
Alignment explanation
Indices: 10654727--10654889 Score: 179
Period size: 61 Copynumber: 2.6 Consensus size: 63
10654717 TTAGAAACGA
* * ** *
10654727 ATCATTTAAGGCATTTTCTATACAGAAAATGCCTTAAATGATCCTTGTATAAATAAATTAAAAG
1 ATCATTTAAGGCA-TTTCTGTACACAAAACACCTTAAATAATCCTTGTATAAATAAATTAAAAG
* * * * *
10654791 ATCATTTAAGGCGTTTCTGTATA-AAAACACCTTAAGTAATCCTT-TATAAA-AAATTGCAATG
1 ATCATTTAAGGCATTTCTGTACACAAAACACCTTAAATAATCCTTGTATAAATAAATT-AAAAG
* *
10654852 ATCATTTAAGGTATTTCTGTACACAAAACATCTTAAAT
1 ATCATTTAAGGCATTTCTGTACACAAAACACCTTAAAT
10654890 GGTCATTTTA
Statistics
Matches: 83, Mismatches: 14, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
60 5 0.06
61 29 0.35
62 29 0.35
63 8 0.10
64 12 0.14
ACGTcount: A:0.40, C:0.14, G:0.10, T:0.35
Consensus pattern (63 bp):
ATCATTTAAGGCATTTCTGTACACAAAACACCTTAAATAATCCTTGTATAAATAAATTAAAAG
Found at i:10655928 original size:15 final size:16
Alignment explanation
Indices: 10655903--10655933 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
10655893 ATATGGAAGC
10655903 TTTCAGAAAAAATCGA
1 TTTCAGAAAAAATCGA
10655919 TTTC-GAAAAAATCGA
1 TTTCAGAAAAAATCGA
10655934 ATTACAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.48, C:0.13, G:0.13, T:0.26
Consensus pattern (16 bp):
TTTCAGAAAAAATCGA
Found at i:10660161 original size:17 final size:17
Alignment explanation
Indices: 10660129--10660161 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
10660119 TTAAAAATTA
10660129 TAATAAATTATATTTAG
1 TAATAAATTATATTTAG
10660146 TAATCAAATTAT-TTTA
1 TAAT-AAATTATATTTA
10660162 TTAAATAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.48
Consensus pattern (17 bp):
TAATAAATTATATTTAG
Found at i:10660286 original size:20 final size:20
Alignment explanation
Indices: 10660261--10660298 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
10660251 TCTAAAAAAT
10660261 AAAAAA-AATTTATTAATATG
1 AAAAAATAATTT-TTAATATG
10660281 AAAAAATAATTTTTAATA
1 AAAAAATAATTTTTAATA
10660299 ATATTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (20 bp):
AAAAAATAATTTTTAATATG
Found at i:10663567 original size:11 final size:12
Alignment explanation
Indices: 10663528--10663567 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 12
10663518 TTATATGTAT
10663528 TTTAATTTTGTTAG
1 TTTAA-TTT-TTAG
10663542 TTTAATTTTTAG
1 TTTAATTTTTAG
10663554 TTTAATTTTT-G
1 TTTAATTTTTAG
10663565 TTT
1 TTT
10663568 TTAGTCAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
11 4 0.15
12 14 0.54
13 3 0.12
14 5 0.19
ACGTcount: A:0.20, C:0.00, G:0.10, T:0.70
Consensus pattern (12 bp):
TTTAATTTTTAG
Found at i:10667761 original size:22 final size:24
Alignment explanation
Indices: 10667703--10667762 Score: 67
Period size: 22 Copynumber: 2.7 Consensus size: 24
10667693 AATAATATCA
*
10667703 ATATATTTTAAAT-TTTAAAATTT
1 ATATTTTTTAAATATTTAAAATTT
10667726 ATCATTTTTT--ATATTT-AAA-TT
1 AT-ATTTTTTAAATATTTAAAATTT
10667747 ATATTTTTTAAATATT
1 ATATTTTTTAAATATT
10667763 ATATTAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
20 7 0.22
21 4 0.12
22 10 0.31
23 5 0.16
24 6 0.19
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (24 bp):
ATATTTTTTAAATATTTAAAATTT
Found at i:10667768 original size:21 final size:21
Alignment explanation
Indices: 10667708--10667768 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 21
10667698 TATCAATATA
10667708 TTTTAAATTTTAAAATTTATCATT
1 TTTTAAA-TTT-AAA-TTATCATT
*
10667732 TTTTATATTTAAATTAT-ATT
1 TTTTAAATTTAAATTATCATT
*
10667752 TTTTAAATATTATATTA
1 TTTTAAAT-TTAAATTA
10667769 AAAATTATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
20 10 0.30
21 11 0.33
22 3 0.09
23 3 0.09
24 6 0.18
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTTAAATTTAAATTATCATT
Found at i:10668881 original size:3 final size:3
Alignment explanation
Indices: 10668873--10668908 Score: 63
Period size: 3 Copynumber: 11.7 Consensus size: 3
10668863 ATATGATAGG
10668873 TAA TAA TAA TAA TAA TAA TAA TAA TAAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TA
10668909 CCATTTTCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Done.