Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167893.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_16, 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: 22157061
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 74000 characters in sequence are not A, C, G, or T
File 37 of 113
Found at i:10777475 original size:14 final size:16
Alignment explanation
Indices: 10777456--10777487 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
10777446 GTGGGTCCAA
10777456 ATTAAA-AAA-AAAAT
1 ATTAAACAAATAAAAT
10777470 ATTAAACAAATAAAAT
1 ATTAAACAAATAAAAT
10777486 AT
1 AT
10777488 AGAAAACACG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 3 0.19
16 7 0.44
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (16 bp):
ATTAAACAAATAAAAT
Found at i:10777779 original size:26 final size:26
Alignment explanation
Indices: 10777750--10777810 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 26
10777740 TAAAAAGTAG
* *
10777750 TAAAACCTATTAAAAATTTTTT-ATAA
1 TAAAACATATT-AAAATTTTTTAAAAA
*
10777776 TAAAATATATTAAAATTTTTTAAAAA
1 TAAAACATATTAAAATTTTTTAAAAA
10777802 TAAAACATA
1 TAAAACATA
10777811 AAAAAATTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 10 0.33
26 20 0.67
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (26 bp):
TAAAACATATTAAAATTTTTTAAAAA
Found at i:10777815 original size:25 final size:25
Alignment explanation
Indices: 10777750--10777818 Score: 75
Period size: 26 Copynumber: 2.7 Consensus size: 25
10777740 TAAAAAGTAG
* *
10777750 TAAAACCTATTAAAAATTTTTTATAA
1 TAAAACATA-TAAAAATTTTTTAAAA
* *
10777776 TAAAATATATTAAAATTTTTTAAAAA
1 TAAAACATATAAAAATTTTTT-AAAA
*
10777802 TAAAACATAAAAAAATT
1 TAAAACATATAAAAATT
10777819 AAAAAAGCCT
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
25 11 0.31
26 24 0.69
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (25 bp):
TAAAACATATAAAAATTTTTTAAAA
Found at i:10778241 original size:1 final size:1
Alignment explanation
Indices: 10778230--10778261 Score: 55
Period size: 1 Copynumber: 32.0 Consensus size: 1
10778220 GATACATGTG
*
10778230 TTTTCTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
10778262 GGGTTTTCAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.00, C:0.03, G:0.00, T:0.97
Consensus pattern (1 bp):
T
Found at i:10788505 original size:12 final size:12
Alignment explanation
Indices: 10788488--10788518 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
10788478 TTTTCAAAAA
10788488 TTTTATTAATTG
1 TTTTATTAATTG
*
10788500 TTTTATTAATTT
1 TTTTATTAATTG
10788512 TTTTATT
1 TTTTATT
10788519 TTTAATTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (12 bp):
TTTTATTAATTG
Found at i:10794592 original size:15 final size:15
Alignment explanation
Indices: 10794536--10794667 Score: 79
Period size: 15 Copynumber: 8.7 Consensus size: 15
10794526 GAATTTTTTA
**
10794536 TTTAGGGTTTTGTCT
1 TTTAGGGTTTTGGAT
* *
10794551 TTAAAGGTTTTGAGAT
1 TTTAGGGTTTTG-GAT
* *
10794567 TTTTGGATTTTGGAT
1 TTTAGGGTTTTGGAT
* *
10794582 TTTAGGGTTTTGAAAC
1 TTTAGGGTTTTG-GAT
*
10794598 TTT-GGGTTTTGAAAAT
1 TTTAGGGTTTTG--GAT
*
10794614 TTT-GGGGTTTGGAT
1 TTTAGGGTTTTGGAT
* * *
10794628 TTAAGGGTTTTGAAA
1 TTTAGGGTTTTGGAT
*
10794643 TTTAGGATTTTGGAT
1 TTTAGGGTTTTGGAT
*
10794658 TTTAGAGTTT
1 TTTAGGGTTT
10794668 CAATTTAAGG
Statistics
Matches: 88, Mismatches: 25, Indels: 8
0.73 0.21 0.07
Matches are distributed among these distances:
14 4 0.05
15 58 0.66
16 26 0.30
ACGTcount: A:0.20, C:0.02, G:0.27, T:0.51
Consensus pattern (15 bp):
TTTAGGGTTTTGGAT
Found at i:10794606 original size:46 final size:46
Alignment explanation
Indices: 10794556--10794680 Score: 139
Period size: 46 Copynumber: 2.8 Consensus size: 46
10794546 TGTCTTTAAA
* *
10794556 GGTTTTGAGATTTTTGGATTTTGGATTTTAGGGTTTTGAAACTTT-G
1 GGTTTTGAGATTTTTGGAGTTTGGATTTAAGGGTTTTGAAA-TTTAG
* * *
10794602 GGTTTTGAAAATTTTGGGGTTTGGATTTAAGGGTTTTGAAATTTAG
1 GGTTTTGAGATTTTTGGAGTTTGGATTTAAGGGTTTTGAAATTTAG
* * **
10794648 GATTTTG-GA-TTTTAGAGTTTCAATTTAAGGGTT
1 GGTTTTGAGATTTTTGGAGTTTGGATTTAAGGGTT
10794681 AGGGTTTTAG
Statistics
Matches: 67, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 20 0.30
45 4 0.06
46 43 0.64
ACGTcount: A:0.22, C:0.02, G:0.28, T:0.49
Consensus pattern (46 bp):
GGTTTTGAGATTTTTGGAGTTTGGATTTAAGGGTTTTGAAATTTAG
Found at i:10794619 original size:16 final size:15
Alignment explanation
Indices: 10794556--10794645 Score: 67
Period size: 16 Copynumber: 5.9 Consensus size: 15
10794546 TGTCTTTAAA
*
10794556 GGTTTTGAGATTTTTG
1 GGTTTTGA-AATTTTG
* *
10794572 GATTTTG-GATTTTAG
1 GGTTTTGAAATTTT-G
*
10794587 GGTTTTGAAACTTTG
1 GGTTTTGAAATTTTG
10794602 GGTTTTGAAAATTTTG
1 GGTTTTG-AAATTTTG
* * *
10794618 GGGTTTG-GATTTAAG
1 GGTTTTGAAATTT-TG
10794633 GGTTTTGAAATTT
1 GGTTTTGAAATTT
10794646 AGGATTTTGG
Statistics
Matches: 57, Mismatches: 12, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
14 8 0.14
15 22 0.39
16 27 0.47
ACGTcount: A:0.20, C:0.01, G:0.29, T:0.50
Consensus pattern (15 bp):
GGTTTTGAAATTTTG
Found at i:10795166 original size:21 final size:21
Alignment explanation
Indices: 10795142--10795185 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
10795132 AAATATTAAT
**
10795142 AATAACATTTAAAATTACAAA
1 AATAACATAAAAAATTACAAA
* *
10795163 AATAATATAAAAAATTTCAAA
1 AATAACATAAAAAATTACAAA
10795184 AA
1 AA
10795186 AAATCCAAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.27
Consensus pattern (21 bp):
AATAACATAAAAAATTACAAA
Found at i:10795195 original size:21 final size:21
Alignment explanation
Indices: 10795152--10795197 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
10795142 AATAACATTT
* *
10795152 AAAATTACAAAAATAATATAA
1 AAAATTACAAAAAAAATACAA
* *
10795173 AAAATTTCAAAAAAAATCCAA
1 AAAATTACAAAAAAAATACAA
10795194 AAAA
1 AAAA
10795198 AAAATTACCT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.72, C:0.09, G:0.00, T:0.20
Consensus pattern (21 bp):
AAAATTACAAAAAAAATACAA
Found at i:10795733 original size:12 final size:12
Alignment explanation
Indices: 10795716--10795740 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10795706 AAGGTTTCAA
10795716 TCTTTTTTTTTT
1 TCTTTTTTTTTT
10795728 TCTTTTTTTTTT
1 TCTTTTTTTTTT
10795740 T
1 T
10795741 TTAGAAAAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (12 bp):
TCTTTTTTTTTT
Found at i:10795922 original size:2 final size:2
Alignment explanation
Indices: 10795915--10795941 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
10795905 GATGTTTGGA
10795915 GT GT GT GT GT GT GT GT GT GT GT GT GT G
1 GT GT GT GT GT GT GT GT GT GT GT GT GT G
10795942 GTGGTCGTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.52, T:0.48
Consensus pattern (2 bp):
GT
Found at i:10796468 original size:15 final size:14
Alignment explanation
Indices: 10796440--10796484 Score: 54
Period size: 15 Copynumber: 3.1 Consensus size: 14
10796430 AACTAATATA
*
10796440 AATATTTTATTATT
1 AATATTTTTTTATT
10796454 AATATTTTTTCTATT
1 AATATTTTTT-TATT
*
10796469 ATTATTATTTTTATT
1 AATATT-TTTTTATT
10796484 A
1 A
10796485 TAATTATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
14 9 0.33
15 14 0.52
16 4 0.15
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (14 bp):
AATATTTTTTTATT
Found at i:10796485 original size:15 final size:15
Alignment explanation
Indices: 10796449--10796492 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
10796439 AAATATTTTA
*
10796449 TTATTAATATT-TTT
1 TTATTATTATTATTT
10796463 TCTATTATTATTATTT
1 T-TATTATTATTATTT
*
10796479 TTATTATAATTATT
1 TTATTATTATTATT
10796493 AATATTAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
14 1 0.04
15 21 0.81
16 4 0.15
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (15 bp):
TTATTATTATTATTT
Found at i:10796490 original size:18 final size:17
Alignment explanation
Indices: 10796444--10796493 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 17
10796434 AATATAAATA
*
10796444 TTTTATTATTAATATTT
1 TTTTATTATTATTATTT
10796461 TTTCTATTATTATTATTT
1 TTT-TATTATTATTATTT
*
10796479 TTATTATAATTATTA
1 TT-TTATTATTATTA
10796494 ATATTAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 3 0.10
18 25 0.86
19 1 0.03
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTTATTATTATTATTT
Found at i:10804062 original size:23 final size:23
Alignment explanation
Indices: 10804036--10804089 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 23
10804026 ATTATACTGT
10804036 AAATAATTA-AATTA-ACAATATAA
1 AAATAATTATAATTATA-AATA-AA
* *
10804059 AAATATTTATTATTATAAATAAA
1 AAATAATTATAATTATAAATAAA
10804082 AAATAATT
1 AAATAATT
10804090 CTAAATACAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 17 0.65
24 8 0.31
25 1 0.04
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (23 bp):
AAATAATTATAATTATAAATAAA
Found at i:10804118 original size:220 final size:217
Alignment explanation
Indices: 10803227--10804142 Score: 633
Period size: 221 Copynumber: 4.2 Consensus size: 217
10803217 TTGAAAATTA
* * * * * * * * *
10803227 GTTAACGTAAAAGGGTGAGAATTATCATAAAATTGGTATTATTTGACATAAAATGTACTA-AAAG
1 GTTAACGTAAAAAGATAAAAATAATCATAAAATTAGTATTATTTGACGTAAAAT-AATTACAAA-
* * * * * * * * * **
10803291 TATTGTAACATCTTAAGAGAGA-GTTGTGATAATTTTAAACGTAATGAAGA-TAAGAACAAA-CA
64 TATTATAACACCTTAAGA-AAATATTATGATAATTATAAATGTAATGAAAAGTAACAA-AAAGTG
* * * *
10803353 TAAAAAGATATTATTATAATATAAATAATTAAGTTAACAACT-TAAAAGAATTATTATTTTAAAT
127 TAAAAAGATATTATTATAATGTAAATAATTAAATTAGCAA-TATAAAA-AATTATTATTATAAAT
* * * *
10803417 CCAAAGACTAATTATAAACTA-ATAAATAAGT
190 --AAAAAATAATTCTAAA-TACA-AAAAAAGT
* * * ** * * * * *
10803448 ATTAACGTAAAAATG-T-GAGATCAATTGTAAAGTTGGTGTTATTTAACGTAAAATAAGTTAGAA
1 GTTAACGTAAAAA-GATAAAAAT-AATCATAAAATTAGTATTATTTGACGTAAAATAA-TTACAA
* ** * * * * * *
10803511 GTATCGTAATACCCTTATA-AAGA-ATTGTGATAGTTATAAATATAATGAAAAGTAACAACAAGT
63 ATATTATAACA-CCTTA-AGAAAATATTATGATAATTATAAATGTAATGAAAAGTAACAAAAAGT
* ** * * * * *
10803574 ATAAAAAGATATTATTATAATAAAAATAATTAAGTTAGTAATGTAAAAGAAATATTATTACAAAT
126 GTAAAAAGATATTATTATAATGTAAATAATTAAATTAGCAATATAAAA-AATTATTATTATAAAT
* *
10803639 AAAAAAATAATTTTAAA-CCAAAAAATA-T
190 -AAAAAATAATTCTAAATACAAAAAA-AGT
* * * * *
10803667 AAATTAATGTAAAAAGGTAAAAATAATCATAAAATTAGTATTATTTGACGTAAAATGATTACAAG
1 --GTTAACGTAAAAAGATAAAAATAATCATAAAATTAGTATTATTTGACGTAAAATAATTACAAA
* * * * * * * * *
10803732 TATTGTTACATCTTAATAAAATATTAAGATAATTCTAAAAGTAATGAAAAGCAACAATAAGTGTA
64 TATTATAACACCTTAAGAAAATATTATGATAATTATAAATGTAATGAAAAGTAACAAAAAGTGTA
* * *
10803797 AAAA-ATATTATTAAAATGTAAATAATTAAATT-GCTAATATTAAAAAATAAGTATTATAAATAA
129 AAAAGATATTATTATAATGTAAATAATTAAATTAGC-AATA-TAAAAAATTATTATTATAAATAA
* **
10803860 AAAATAATTCTACACTA-AAAAATTGGT
192 AAAATAATTCTA-AATACAAAAA-AAGT
* ** *
10803887 GTTAACGTAAAAAGATAAAAATAATCATAAAATT-GATATTTTTTGGTGTAAAATAATTAGAAAT
1 GTTAACGTAAAAAGATAAAAATAATCATAAAATTAG-TATTATTTGACGTAAAATAATTACAAAT
* * *
10803951 GTTATAACACCTTTAAGAAAA-AGTTATGATAATTTTAAATGTAATGAAAGGTAACAAAAAGTGT
65 ATTATAACACC-TTAAGAAAATA-TTATGATAATTATAAATGTAATGAAAAGTAACAAAAAGTGT
* *
10804015 AAAAAGATATTATTATACTGTAAATAATTAAATTAACAATATAAAAATATTTATTATTATAAATA
128 AAAAAGATATTATTATAATGTAAATAATTAAATTAGCAATATAAAAA-A-TTATTATTATAAATA
10804080 AAAAATAATTCTAAATACAAAAAAAGT
191 AAAAATAATTCTAAATACAAAAAAAGT
* * * **
10804107 GTTAACGTAAAAAAATAAGAGTAATTGTAAAATTAG
1 GTTAACGTAAAAAGATAAAAATAATCATAAAATTAG
10804143 AATATGTCAT
Statistics
Matches: 551, Mismatches: 112, Indels: 64
0.76 0.15 0.09
Matches are distributed among these distances:
217 1 0.00
218 76 0.14
219 111 0.20
220 128 0.23
221 161 0.29
222 73 0.13
223 1 0.00
ACGTcount: A:0.51, C:0.05, G:0.11, T:0.32
Consensus pattern (217 bp):
GTTAACGTAAAAAGATAAAAATAATCATAAAATTAGTATTATTTGACGTAAAATAATTACAAATA
TTATAACACCTTAAGAAAATATTATGATAATTATAAATGTAATGAAAAGTAACAAAAAGTGTAAA
AAGATATTATTATAATGTAAATAATTAAATTAGCAATATAAAAAATTATTATTATAAATAAAAAA
TAATTCTAAATACAAAAAAAGT
Found at i:10805057 original size:216 final size:215
Alignment explanation
Indices: 10804366--10805058 Score: 684
Period size: 214 Copynumber: 3.2 Consensus size: 215
10804356 ACAAATAACT
* ** * * *
10804366 AATAACTCTAAATCAAAAAATAAGTGTTAATATAAAAAAATGATGAGAGTAACCGTAAATTTGGT
1 AATAATTCTAAA-CAAAAAATAAGTGTTAACGT--AAAAAT-ATGAGAATAATCGTAAAATTGGT
* * * * *
10804431 ATTATTTGGCGTAAAATAGTTAAAAGTATCATAATACCTTTAAAAAAAATTTTATAGTACTTCTA
62 ATTATTTGACGTAAAATAGTTAAAAGTATTATAATACC-TTAAAAAAAA-ATTGTAGTAATTCTA
* * * *
10804496 AATGTAATGAAAGATAACAATAAACATAAAAAGATATTATTAGAACATAAATAATTAAGTTGGCA
125 AACGTAATAAAAG-TAACAACAAACGTAAAAAGATATTATTAGAACATAAAT-A-TAAGTTGGCA
* * *
10804561 TTATAAAAGAACTATTATTATTAATAAAAA
187 ATATAAAAAAATTATTATTA-TAATAAAAA
* * * ** * * *
10804591 AATACTTTTAAATAAAAAATTAAGAATTAACGTAAAACA-GTGAAAATAATCGTAAAATTGATAT
1 AATAATTCTAAACAAAAAA-TAAGTGTTAACGTAAAA-ATATGAGAATAATCGTAAAATTGGTAT
* * * * *
10804655 TATTTAACGTAAAATAGTTAAAAGTATTATTACACCTTAAGAAAAAAATTGAAATAATTCTAAAC
64 TATTTGACGTAAAATAGTTAAAAGTATTATAATACCTTAA-AAAAAAATTGTAGTAATTCTAAAC
* * *
10804720 GTAATGAAAAGTAACAACAAACGTAAAAAGATATTATT-GAA-ATGTAATA-AA-TTGGTAATGT
128 GTAAT-AAAAGTAACAACAAACGTAAAAAGATATTATTAGAACAT-AAATATAAGTTGGCAATAT
*
10804781 AAAAAAATTAATATTATAAATAAAAA
191 AAAAAAATTATTATTAT-AATAAAAA
* * *
10804807 AATAATTC-AATCAAAAAATAAGTGTTAACGTAAAAATATGAGAATAATAGTAAAATTGGTATCA
1 AATAATTCTAAACAAAAAATAAGTGTTAACGTAAAAATATGAGAATAATCGTAAAATTGGTATTA
* * * * * *
10804871 TTTGACATAAAATATATTAAAAGTATTGTAATACCTTAAAAAAAACTTGTGGTAATTCTAAACAT
66 TTTGACGTAAAATA-GTTAAAAGTATTATAATACCTTAAAAAAAAATTGTAGTAATTCTAAACGT
* * * * *
10804936 AATAAAAGTTAAGAACAAGCGT-AAAAGATTTTATTATAACATAAATATAAGTTGACAATATAAA
130 AATAAAAG-TAACAACAAACGTAAAAAGATATTATTAGAACATAAATATAAGTTGGCAATATAAA
*
10805000 AAAATTATTATTATAACT-TAAA
194 AAAATTATTATTATAA-TAAAAA
*
10805022 AATAATTCTAAACAAAAAA-AATGTGTTGACGTAAAAA
1 AATAATTCTAAACAAAAAATAA-GTGTTAACGTAAAAA
10805059 AGTAAGAATA
Statistics
Matches: 383, Mismatches: 69, Indels: 41
0.78 0.14 0.08
Matches are distributed among these distances:
213 18 0.05
214 90 0.23
215 48 0.13
216 81 0.21
217 2 0.01
219 3 0.01
220 6 0.02
221 46 0.12
222 60 0.16
223 4 0.01
224 7 0.02
225 18 0.05
ACGTcount: A:0.53, C:0.07, G:0.10, T:0.31
Consensus pattern (215 bp):
AATAATTCTAAACAAAAAATAAGTGTTAACGTAAAAATATGAGAATAATCGTAAAATTGGTATTA
TTTGACGTAAAATAGTTAAAAGTATTATAATACCTTAAAAAAAAATTGTAGTAATTCTAAACGTA
ATAAAAGTAACAACAAACGTAAAAAGATATTATTAGAACATAAATATAAGTTGGCAATATAAAAA
AATTATTATTATAATAAAAA
Found at i:10805100 original size:215 final size:214
Alignment explanation
Indices: 10804434--10805088 Score: 485
Period size: 216 Copynumber: 3.0 Consensus size: 214
10804424 ATTTGGTATT
* * * * * * * *
10804434 ATTTGGCGTAAAATA-GTTAAAAGTATCATAATACCTTTAA-AAAAAATTTTATAGTACTTCTAA
1 ATTTGACGTAAAATATATTAAAAGTATTATAACACC-TTAAGAAAAAAATTGA-AATAATTCTAA
** * * *
10804497 ATGTAATG-AAAGATAACAATAAACATAAAAAGATATTATTAGAACAT-AAATAATTAAGTTGGC
64 ACATAATGAAAAG-TAACAACAAACGTAAAAAGATATTATT-GAA-ATGAAAT-A--AA-TTGAC
* * * * * * * * **
10804560 ATTATAAAAGAACTATTATTATTAATAAAAAAATACTTTTAAATAAAAAATTAAGAATTAACGTA
122 AATATAAAAAAATTAATATTATAAATAAAAAAATA-ATTCAAACAAAAAA-TAAGTGTTAACGTA
* * * * *
10804625 AAACAGT-GAA-AATAATCGTAAAATTGATATT
185 AAA-A-TATAAGAATAATAG-AAAACTGAAATC
* * *
10804656 ATTTAACGTAAAATA-GTTAAAAGTATTATTACACCTTAAGAAAAAAATTGAAATAATTCTAAAC
1 ATTTGACGTAAAATATATTAAAAGTATTATAACACCTTAAGAAAAAAATTGAAATAATTCTAAAC
* * ** *
10804720 GTAATGAAAAGTAACAACAAACGTAAAAAGATATTATTGAAATGTAATAAATTGGTAATGTAAAA
66 ATAATGAAAAGTAACAACAAACGTAAAAAGATATTATTGAAATGAAATAAATTGACAATATAAAA
* *
10804785 AAATTAATATTATAAATAAAAAAATAATTCAATCAAAAAATAAGTGTTAACGTAAAAATATGAGA
131 AAATTAATATTATAAATAAAAAAATAATTCAAACAAAAAATAAGTGTTAACGTAAAAATATAAGA
* **
10804850 ATAATAGTAAAATTGGTATC
196 ATAATAG-AAAACTGAAATC
* * * * ***
10804870 ATTTGACATAAAATATATTAAAAGTATTGTAATACCTTAA-AAAAAACTTGTGGTAATTCTAAAC
1 ATTTGACGTAAAATATATTAAAAGTATTATAACACCTTAAGAAAAAAATTGAAATAATTCTAAAC
* * * *
10804934 ATAAT-AAAAGTTAAGAACAAGCGT-AAAAGATTTTATTATAACAT-AAATATAAGTTGACAATA
66 ATAATGAAAAG-TAACAACAAACGTAAAAAGATATTATT-GAA-ATGAAATA-AA-TTGACAATA
* * * *
10804996 TAAAAAAATTATTATTATAACT-TAAAAATAATTCTAAACAAAAAA-AATGTGTTGACGTAAAAA
126 TAAAAAAATTAATATTATAAATAAAAAAATAATTC-AAACAAAAAATAA-GTGTTAACGTAAAAA
10805059 -AGTAAGAATAATTA-AAAACTGAAATC
189 TA-TAAGAATAA-TAGAAAACTGAAATC
10805085 ATTT
1 ATTT
10805089 AGTGTAAAAT
Statistics
Matches: 359, Mismatches: 59, Indels: 37
0.79 0.13 0.08
Matches are distributed among these distances:
212 1 0.00
213 19 0.05
214 87 0.24
215 61 0.17
216 90 0.25
217 4 0.01
219 3 0.01
220 6 0.02
221 45 0.13
222 43 0.12
ACGTcount: A:0.53, C:0.07, G:0.10, T:0.31
Consensus pattern (214 bp):
ATTTGACGTAAAATATATTAAAAGTATTATAACACCTTAAGAAAAAAATTGAAATAATTCTAAAC
ATAATGAAAAGTAACAACAAACGTAAAAAGATATTATTGAAATGAAATAAATTGACAATATAAAA
AAATTAATATTATAAATAAAAAAATAATTCAAACAAAAAATAAGTGTTAACGTAAAAATATAAGA
ATAATAGAAAACTGAAATC
Found at i:10805310 original size:23 final size:22
Alignment explanation
Indices: 10805259--10805312 Score: 60
Period size: 20 Copynumber: 2.6 Consensus size: 22
10805249 ATTCTGACAT
*
10805259 AAATAA-TATTTTTACAATATA
1 AAATAATTATTATTACAATATA
*
10805280 AAAGAATTATTATTACAA-AT-
1 AAATAATTATTATTACAATATA
*
10805300 AAATAATAATTAT
1 AAATAATTATTAT
10805313 AAACCAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
20 11 0.39
21 7 0.25
22 10 0.36
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.39
Consensus pattern (22 bp):
AAATAATTATTATTACAATATA
Found at i:10805935 original size:21 final size:20
Alignment explanation
Indices: 10805906--10805953 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
10805896 TATTGTAATG
*
10805906 TAAATAATTA-AATTGATAACA
1 TAAAAAATTATAATT-ATAA-A
*
10805927 TAAAAAATTATTATTATAAA
1 TAAAAAATTATAATTATAAA
10805947 TAAAAAA
1 TAAAAAA
10805954 ATAATTCTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 8 0.33
21 13 0.54
22 3 0.12
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (20 bp):
TAAAAAATTATAATTATAAA
Found at i:10806004 original size:218 final size:214
Alignment explanation
Indices: 10805139--10806051 Score: 701
Period size: 217 Copynumber: 4.2 Consensus size: 214
10805129 TAATGGTTGT
* * * * * * * * * *
10805139 AAATTGGTATCATTTGACGTAAATTGAATTAAAAGTATCGTAACACCTTAATAAAAAATTATGAT
1 AAATTAGTATAATTTGACATAAAATG-GTTAGAAGTGTCGTAACACTTTAAGAAAAAATTGTGAT
** * * * *
10805204 AATTCTAAACGTAATAAAAAGTAGA-AACAAGTATTAAAAAAAACTATTCTGACA--TAAATAAT
65 AATTCTAAATATAATGAAAATTA-ACAACAAGTA-TAAAAAATATTA-T-TGA-ATGTAAATAAT
** * * * * * * *
10805266 ATTTTTACAATATAAAAGAATTATTATTACAAATAAATAATAATTATAAACCAAAAAATAAGTGT
125 AAATTGATAACATAAAAAAATTATTATTACAAATAAAAAATAATTTTAAA-CTAAAAATAAGTGT
*
10805331 TAATATAAAAAAGGTGA-AGATAATCGTA
189 TAATAT-AAAAA-GTGAGA-ATAATCATA
* * ** * * *
10805359 AAATT-GATATCATTAGATGTAAAATGGTTAGAAGTGTCATAACACCTTTAAGAAAAATTTATGA
1 AAATTAG-TATAATTTGACATAAAATGGTTAGAAGTGTCGTAACA-CTTTAAGAAAAAATTGTGA
* ** * * *
10805423 TAATCCTAAACGTAATGAAAGTTAACAACAAGTATAAAAAGATATTATTACAACGTAAATAATAA
64 TAATTCTAAATATAATGAAAATTAACAACAAGTATAAAAA-ATATTATT-GAATGTAAATAATAA
** * * * *
10805488 AGTTGATAATGTGAAAAAATTATTATTACAAATAAAAAATAATTTTACAC--AAAATAAGAGTTC
127 A-TTGATAACATAAAAAAATTATTATTACAAATAAAAAATAATTTTAAACTAAAAATAAGTGTTA
10805551 ATATAAAACAGTGAGAATAATCATA
191 ATATAAAA-AGTGAGAATAATCATA
* * * * * * * * *
10805576 AAATTAATATTATTTTATATAAAATGGTTAGAAATATCGTTACACTTTAACAAAAAAATTGTAAT
1 AAATTAGTATAATTTGACATAAAATGGTTAGAAGTGTCGTAACACTTTAA-GAAAAAATTGTGAT
* ** * *
10805641 AATTTTAAATATAATGAAAAGCAACAACAAATATAAAAAAATATTATTGAAGTGT-AAT-A-AAT
65 AATTCTAAATATAATGAAAATTAACAACAAGTAT-AAAAAATATTATTGAA-TGTAAATAATAAA
* *
10805703 TTG-TAACATAAAAAAAATTAGTATTATAAAT-AAAAATAATTTTAAA-TAGAAAA-AAGTGTTA
128 TTGATAACAT-AAAAAAATTATTATTACAAATAAAAAATAATTTTAAACTA-AAAATAAGTGTTA
*
10805764 A-AGTAAAAAGATGAAAATAATCATA
191 ATA-TAAAAAG-TGAGAATAATCATA
* * * * *
10805789 AAATTAGTATAATTTGACATAAAATATGTTTGAAGTGTTGTAATA-TTTAAGAAAAAGTTGTGAT
1 AAATTAGTATAATTTGACATAAAAT-GGTTAGAAGTGTCGTAACACTTTAAGAAAAAATTGTGAT
* * * *
10805853 AATTCTAAATATAAT-AAAATATAAGAACAAGTGTAACAAATTTTATTGTAATGTAAATAATTAA
65 AATTCTAAATATAATGAAAAT-TAACAACAAGTATAAAAAATATTATTG-AATGTAAATAA-TAA
* *
10805917 ATTGATAACAT-AAAAAATTATTATTATAAATAAAAAAATAATTCTAAACCTAAAAATAAGTGTT
127 ATTGATAACATAAAAAAATTATTATTACAAAT-AAAAAATAATTTTAAA-CTAAAAATAAGTGTT
*
10805981 AATGTAAAAATGTGAGAATAATCATA
190 AATATAAAAA-GTGAGAATAATCATA
* * * * * *
10806007 AAATTTGTATAATTTAACGTAAAATGTGTTAAAAGTTTCATAACA
1 AAATTAGTATAATTTGACATAAAATG-GTTAGAAGTGTCGTAACA
10806052 TAAAAAGATA
Statistics
Matches: 557, Mismatches: 100, Indels: 74
0.76 0.14 0.10
Matches are distributed among these distances:
211 19 0.03
212 60 0.11
213 73 0.13
214 37 0.07
215 6 0.01
216 31 0.06
217 100 0.18
218 88 0.16
219 25 0.04
220 79 0.14
221 39 0.07
ACGTcount: A:0.52, C:0.06, G:0.10, T:0.32
Consensus pattern (214 bp):
AAATTAGTATAATTTGACATAAAATGGTTAGAAGTGTCGTAACACTTTAAGAAAAAATTGTGATA
ATTCTAAATATAATGAAAATTAACAACAAGTATAAAAAATATTATTGAATGTAAATAATAAATTG
ATAACATAAAAAAATTATTATTACAAATAAAAAATAATTTTAAACTAAAAATAAGTGTTAATATA
AAAAGTGAGAATAATCATA
Found at i:10807016 original size:10 final size:10
Alignment explanation
Indices: 10807001--10807039 Score: 60
Period size: 10 Copynumber: 3.9 Consensus size: 10
10806991 TCTTATAATT
10807001 TATCATGATA
1 TATCATGATA
*
10807011 TATCATGAAA
1 TATCATGATA
10807021 TATCATGATA
1 TATCATGATA
*
10807031 TCTCATGAT
1 TATCATGAT
10807040 TTCCTAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.38
Consensus pattern (10 bp):
TATCATGATA
Found at i:10807026 original size:20 final size:20
Alignment explanation
Indices: 10807001--10807038 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
10806991 TCTTATAATT
10807001 TATCATGATATATCATGAAA
1 TATCATGATATATCATGAAA
*
10807021 TATCATGATATCTCATGA
1 TATCATGATATATCATGA
10807039 TTTCCTAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.13, G:0.11, T:0.37
Consensus pattern (20 bp):
TATCATGATATATCATGAAA
Found at i:10811058 original size:20 final size:21
Alignment explanation
Indices: 10811020--10811058 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
10811010 TAGTTATCAT
*
10811020 AATTTAAATTTTAATCATTGA
1 AATTAAAATTTTAATCATTGA
10811041 AATTAAAATTTTAA-CATT
1 AATTAAAATTTTAATCATT
10811059 TTATCAATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (21 bp):
AATTAAAATTTTAATCATTGA
Found at i:10811743 original size:26 final size:25
Alignment explanation
Indices: 10811714--10811771 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
10811704 TGTATTTTTC
10811714 ATTAAAAT-TTTA-ATTGTTTTTATGAA
1 ATTAAAATATTTAGA-T-TTTTTAT-AA
*
10811740 ATTAATATATTTAGATTTTTTATAA
1 ATTAAAATATTTAGATTTTTTATAA
10811765 ATTAAAA
1 ATTAAAA
10811772 AATAAAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
25 8 0.29
26 14 0.50
27 5 0.18
28 1 0.04
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (25 bp):
ATTAAAATATTTAGATTTTTTATAA
Found at i:10816826 original size:27 final size:29
Alignment explanation
Indices: 10816778--10816831 Score: 67
Period size: 27 Copynumber: 1.9 Consensus size: 29
10816768 CATAATAAAG
* *
10816778 TTATAACTACTAAATAATCAATTAAAAAA
1 TTATAACTACTAAATAAACAATCAAAAAA
*
10816807 TTATAAC-A-TAATTAAACAATCAAAA
1 TTATAACTACTAAATAAACAATCAAAA
10816832 TTACACGTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 14 0.64
28 1 0.05
29 7 0.32
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (29 bp):
TTATAACTACTAAATAAACAATCAAAAAA
Found at i:10817968 original size:17 final size:15
Alignment explanation
Indices: 10817921--10817961 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
10817911 TTTAAAAGTG
*
10817921 TAATATTTAATTAA-
1 TAATATTTAAATAAT
*
10817935 AAATATTT-AATAAT
1 TAATATTTAAATAAT
10817949 TAATATTTAAATA
1 TAATATTTAAATA
10817962 TATTTAAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
13 4 0.18
14 14 0.64
15 4 0.18
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
TAATATTTAAATAAT
Found at i:10817975 original size:24 final size:22
Alignment explanation
Indices: 10817921--10817983 Score: 58
Period size: 24 Copynumber: 2.8 Consensus size: 22
10817911 TTTAAAAGTG
* *
10817921 TAAT-ATTTAATTAAAAATATT
1 TAATAATTAAATTAAATATATT
10817942 TAATAATTAATATTTAAATATATT
1 TAATAATTAA-A-TTAAATATATT
*
10817966 TAA-ATTTTAAATTAAATA
1 TAATA-ATTAAATTAAATA
10817984 AAAATAAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
21 4 0.11
22 11 0.31
23 3 0.09
24 17 0.49
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
TAATAATTAAATTAAATATATT
Found at i:10821539 original size:20 final size:20
Alignment explanation
Indices: 10821507--10821560 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
10821497 GTAAAAAAAA
*
10821507 ATTTTT-TTAATTTTAATATT
1 ATTTTTATT-ATTTAAATATT
*
10821527 ATTTTTATTATTTAAATTTT
1 ATTTTTATTATTTAAATATT
* *
10821547 ATTATTAATATTTA
1 ATTTTTATTATTTA
10821561 TGTATATTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 27 0.93
21 2 0.07
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
ATTTTTATTATTTAAATATT
Found at i:10823515 original size:11 final size:12
Alignment explanation
Indices: 10823490--10823519 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
10823480 TTTTGATTTA
*
10823490 TTTTATGTTATT
1 TTTTATGCTATT
10823502 TTTTATGCTATT
1 TTTTATGCTATT
10823514 TTTTAT
1 TTTTAT
10823520 ATAATATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.17, C:0.03, G:0.07, T:0.73
Consensus pattern (12 bp):
TTTTATGCTATT
Found at i:10823957 original size:10 final size:11
Alignment explanation
Indices: 10823942--10824012 Score: 54
Period size: 12 Copynumber: 6.1 Consensus size: 11
10823932 AGATTGATTT
10823942 AAACAAT-ATA
1 AAACAATAATA
10823952 AAACAATAATA
1 AAACAATAATA
*
10823963 AATTATAATAATA
1 AA--ACAATAATA
*
10823976 ATAATAATAATA
1 A-AACAATAATA
*
10823988 ATAATAATAATA
1 A-AACAATAATA
*
10824000 ATAATAATAATA
1 A-AACAATAATA
10824012 A
1 A
10824013 TTGATATTTT
Statistics
Matches: 56, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
10 7 0.12
11 5 0.09
12 34 0.61
13 9 0.16
14 1 0.02
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (11 bp):
AAACAATAATA
Found at i:10823973 original size:3 final size:3
Alignment explanation
Indices: 10823956--10824013 Score: 98
Period size: 3 Copynumber: 19.0 Consensus size: 3
10823946 AATATAAAAC
*
10823956 AAT AAT AAAT TAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10824002 AAT AAT AAT AAT
1 AAT AAT AAT AAT
10824014 TGATATTTTG
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
3 49 0.94
4 3 0.06
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:10836054 original size:41 final size:41
Alignment explanation
Indices: 10835999--10836127 Score: 172
Period size: 41 Copynumber: 3.2 Consensus size: 41
10835989 ACCTCTCAGA
* *
10835999 TTTTTAATATTTAAAGTTTGTTGCCTCTGATTAGAGGAGTT
1 TTTTTAACATTTAAAGTTTGTTGCCTCTGATCAGAGGAGTT
* * * * *
10836040 TTTTTAACATTTAAAGTTTGTTACCTCTGGTGAGATGAG-C
1 TTTTTAACATTTAAAGTTTGTTGCCTCTGATCAGAGGAGTT
10836080 TTTTTAACATTTAAAGTTTGTTGCCTCT-AGTCAGAGGAGTT
1 TTTTTAACATTTAAAGTTTGTTGCCTCTGA-TCAGAGGAGTT
10836121 TTTTTAA
1 TTTTTAA
10836128 TTTCAAAAGC
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
40 34 0.45
41 41 0.55
ACGTcount: A:0.25, C:0.10, G:0.19, T:0.47
Consensus pattern (41 bp):
TTTTTAACATTTAAAGTTTGTTGCCTCTGATCAGAGGAGTT
Found at i:10836263 original size:39 final size:39
Alignment explanation
Indices: 10836221--10836778 Score: 474
Period size: 39 Copynumber: 14.3 Consensus size: 39
10836211 GATCTTTAAC
* * * * *
10836221 ATTTAAAGTTTGTTGTCTTTGGTTAAATGAGCTTTTATC
1 ATTTAAAGTTTGTTGCCTCTGGTGAAAGGAGCTTTTATA
* * *
10836260 ATTTAAAGTTTGTTGCCTCTGGTAAAAGGAATCTTTT-GA
1 ATTTAAAGTTTGTTGCCTCTGGTGAAAGG-AGCTTTTATA
* * * * *
10836299 ATTTAAAGTTTGTTACCTTTGGTCAGATGAGCCTTTTA-A
1 ATTTAAAGTTTGTTGCCTCTGGTGAAAGGAG-CTTTTATA
* * * **
10836338 TATTTAAAGTTTGTTGCTTTTGGTTAAAAAAGCTTTT-TGA
1 -ATTTAAAGTTTGTTGCCTCTGGTGAAAGGAGCTTTTAT-A
* * *
10836378 ATTTAAAGTTTGTTGCCTCTGGTGAGAGAAGCCTTTGA-A
1 ATTTAAAGTTTGTTGCCTCTGGTGAAAGGAG-CTTTTATA
* * * **
10836417 ATTTAAAGTTTGTTGCCTCTGGTGAAAGAAACCTTTGGA
1 ATTTAAAGTTTGTTGCCTCTGGTGAAAGGAGCTTTTATA
* * *
10836456 ATTTAAAGTTTGTTGCCTCTAGTGAGAGGAACTTTTGA-A
1 ATTTAAAGTTTGTTGCCTCTGGTGAAAGGAGCTTTT-ATA
**
10836495 ATTTAAAGTTTGTTGCCTCTAAT-AAGAGGAGCCTTTTA-A
1 ATTTAAAGTTTGTTGCCTCTGGTGAA-AGGAG-CTTTTATA
* *
10836534 CATTTAAAGTTTGTTGCCTTTGGTTAAAGGAGCTTTT-TGA
1 -ATTTAAAGTTTGTTGCCTCTGGTGAAAGGAGCTTTTAT-A
* * *
10836574 ATTTAAAGTTTGTTGCCTCTGGTGAGATGAG-TCTTTAGA
1 ATTTAAAGTTTGTTGCCTCTGGTGAAAGGAGCT-TTTATA
* * * * *
10836613 ATTTAAAGTTTGTTACATTTGGTTAAAGGAGCTTTTATC
1 ATTTAAAGTTTGTTGCCTCTGGTGAAAGGAGCTTTTATA
*
10836652 ATTTAAAGTTTGTTGCCTCTGATGAAAGGAGCTTTT-TGA
1 ATTTAAAGTTTGTTGCCTCTGGTGAAAGGAGCTTTTAT-A
* * * **
10836691 ATTTAAAG-TTGTTACCTCTGGTGAGAGAAGCCTTTT-GG
1 ATTTAAAGTTTGTTGCCTCTGGTGAAAGGAG-CTTTTATA
* *
10836729 ATTTAAAGTTTGTTGCCTCTGGTGAAATGAGCTTTTTTA
1 ATTTAAAGTTTGTTGCCTCTGGTGAAAGGAGCTTTTATA
10836768 ATTTAAAGTTT
1 ATTTAAAGTTT
10836779 CATAGCCTCT
Statistics
Matches: 424, Mismatches: 72, Indels: 46
0.78 0.13 0.08
Matches are distributed among these distances:
38 38 0.09
39 316 0.75
40 68 0.16
41 2 0.00
ACGTcount: A:0.26, C:0.10, G:0.21, T:0.42
Consensus pattern (39 bp):
ATTTAAAGTTTGTTGCCTCTGGTGAAAGGAGCTTTTATA
Found at i:10836558 original size:196 final size:192
Alignment explanation
Indices: 10836260--10836811 Score: 649
Period size: 196 Copynumber: 2.8 Consensus size: 192
10836250 AGCTTTTATC
* * *
10836260 ATTTAAAGTTTGTTGCCTCTGGTAAAAGGAATCTTTTGAATTTAAAGTTTGTTACCTTTGGTCAG
1 ATTTAAAGTTTGTTGCCTCT-GTGAAAGGAA-CTTTTGAATTTAAAGTTTGTTACCTCTGGTAAG
* * * *
10836325 ATGAGCCTTTTAATATTTAAAGTTTGTTGCTTTTGGTTAAAAAAGCTTTTTGAATTTAAAGTTTG
64 AGGAGCCTTTTAACATTTAAAGTTTGTTGCCTTTGGTTAAAAGAGCTTTTTGAATTTAAAGTTTG
* * *
10836390 TTGCCTCTGGTGAGAGAAGCCTTTGAAATTTAAAGTTTGTTGCCTCTGGTGAAAGAAACCTTTGG
129 TTGCCTCTGGTGAGAG-AGCCTTT-AAATTTAAAGTTTGTTACATCTGGTGAAAGAAACCTTTAG
10836455 A
192 A
* * **
10836456 ATTTAAAGTTTGTTGCCTCTAGTGAGAGGAACTTTTGAAATTTAAAGTTTGTTGCCTCTAATAAG
1 ATTTAAAGTTTGTTGCCTCT-GTGAAAGGAACTTTTG-AATTTAAAGTTTGTTACCTCTGGTAAG
*
10836521 AGGAGCCTTTTAACATTTAAAGTTTGTTGCCTTTGGTTAAAGGAGCTTTTTGAATTTAAAGTTTG
64 AGGAGCCTTTTAACATTTAAAGTTTGTTGCCTTTGGTTAAAAGAGCTTTTTGAATTTAAAGTTTG
* * * * * * *
10836586 TTGCCTCTGGTGAGATGAGTCTTTAGAATTTAAAGTTTGTTACATTTGGTTAAAGGAGCTTTTAT
129 TTGCCTCTGGTGAGA-GAGCCTTTA-AATTTAAAGTTTGTTACATCTGGTGAAAGAAACCTTTAG
*
10836651 C
192 A
* *
10836652 ATTTAAAGTTTGTTGCCTCTGATGAAAGGAGCTTTTTGAATTTAAAG-TTGTTACCTCTGGTGAG
1 ATTTAAAGTTTGTTGCCTCTG-TGAAAGGAAC-TTTTGAATTTAAAGTTTGTTACCTCTGGTAAG
* ** * * * *
10836716 AGAAGCCTTTT-GGATTTAAAGTTTGTTGCCTCTGGTGAAATGAGCTTTTTTAATTTAAAGTTTC
64 AGGAGCCTTTTAACATTTAAAGTTTGTTGCCTTTGGTTAAAAGAGCTTTTTGAATTTAAAGTTT-
* * * *
10836780 ATAGCCTCTGTTAAGAGGAGCCTTTCAAATTT
128 GTTGCCTCTGGTGAGA-GAGCCTTT-AAATTT
10836812 TCTTTCAAAA
Statistics
Matches: 306, Mismatches: 43, Indels: 15
0.84 0.12 0.04
Matches are distributed among these distances:
194 46 0.15
195 55 0.18
196 199 0.65
197 6 0.02
ACGTcount: A:0.26, C:0.11, G:0.21, T:0.41
Consensus pattern (192 bp):
ATTTAAAGTTTGTTGCCTCTGTGAAAGGAACTTTTGAATTTAAAGTTTGTTACCTCTGGTAAGAG
GAGCCTTTTAACATTTAAAGTTTGTTGCCTTTGGTTAAAAGAGCTTTTTGAATTTAAAGTTTGTT
GCCTCTGGTGAGAGAGCCTTTAAATTTAAAGTTTGTTACATCTGGTGAAAGAAACCTTTAGA
Found at i:10836969 original size:3 final size:3
Alignment explanation
Indices: 10836957--10836987 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
10836947 TTGACTATTG
10836957 TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
10836988 AATAATTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:10837272 original size:24 final size:24
Alignment explanation
Indices: 10837245--10837298 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
10837235 CAGAGAGCAT
** * *
10837245 AAAAATAGGGAACACACAATAAAA
1 AAAAATAGCAAACACAAAAAAAAA
10837269 AAAAATAGCAAACACAAAAAAAAA
1 AAAAATAGCAAACACAAAAAAAAA
10837293 AAAAAT
1 AAAAAT
10837299 TTGAGAATGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.74, C:0.11, G:0.07, T:0.07
Consensus pattern (24 bp):
AAAAATAGCAAACACAAAAAAAAA
Found at i:10837502 original size:51 final size:52
Alignment explanation
Indices: 10837416--10837527 Score: 156
Period size: 51 Copynumber: 2.2 Consensus size: 52
10837406 TTTTTGAAAA
* * * *
10837416 AATTTTTAGGTCACCGAAAACTAGAAATGTTTGAATTTTTCGATGACCATTG
1 AATTTTTTGGTCACCGAAAACTAAAAAAGTTTGAATTTTTCAATGACCATTG
*
10837468 AATTTTTTGG-CACC-AAAATCTAAAAAAGTTTGAATTTTTCAATGACCGTTG
1 AATTTTTTGGTCACCGAAAA-CTAAAAAAGTTTGAATTTTTCAATGACCATTG
10837519 AATTTTTTG
1 AATTTTTTG
10837528 ACCATCGAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
50 4 0.07
51 41 0.76
52 9 0.17
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.39
Consensus pattern (52 bp):
AATTTTTTGGTCACCGAAAACTAAAAAAGTTTGAATTTTTCAATGACCATTG
Found at i:10837870 original size:11 final size:12
Alignment explanation
Indices: 10837845--10837874 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
10837835 TTTTTATTTA
*
10837845 TTTTATGTTATT
1 TTTTATGCTATT
10837857 TTTTATGCTATT
1 TTTTATGCTATT
10837869 TTTTAT
1 TTTTAT
10837875 ATAATATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.17, C:0.03, G:0.07, T:0.73
Consensus pattern (12 bp):
TTTTATGCTATT
Found at i:10838334 original size:11 final size:11
Alignment explanation
Indices: 10838320--10838354 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
10838310 ATAAAACAAT
10838320 AATAAATAATA
1 AATAAATAATA
10838331 AATAAATAATA
1 AATAAATAATA
*
10838342 AAAATAATAATA
1 AATA-AATAATA
10838354 A
1 A
10838355 TTGATATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 14 0.64
12 8 0.36
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (11 bp):
AATAAATAATA
Found at i:10838761 original size:3 final size:3
Alignment explanation
Indices: 10838753--10838803 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
10838743 TAGAATACGG
10838753 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10838801 AAT
1 AAT
10838804 GTTAATTTCG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:10840244 original size:2 final size:2
Alignment explanation
Indices: 10840237--10840263 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
10840227 CAAGACTAAC
10840237 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
10840264 GATTATCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10841319 original size:2 final size:2
Alignment explanation
Indices: 10841312--10841357 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
10841302 TAATTGACTA
*
10841312 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AG 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
10841354 AT AT
1 AT AT
10841358 CAATCGTACA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10842575 original size:3 final size:3
Alignment explanation
Indices: 10842567--10842604 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
10842557 TATCAGAATT
10842567 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
10842605 GTATGATTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:10842621 original size:16 final size:16
Alignment explanation
Indices: 10842591--10842635 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
10842581 AATAATAATA
10842591 ATAA-TAATAATAATGT
1 ATAATTAAT-ATAATGT
*
10842607 ATGATTAATATAATGT
1 ATAATTAATATAATGT
10842623 ATAATTAAT-TAAT
1 ATAATTAATATAAT
10842636 ATTAAAGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 4 0.15
16 18 0.69
17 4 0.15
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (16 bp):
ATAATTAATATAATGT
Found at i:10844186 original size:21 final size:19
Alignment explanation
Indices: 10844161--10844289 Score: 74
Period size: 21 Copynumber: 6.6 Consensus size: 19
10844151 ATGTATTTTA
10844161 TTATTTATTATTATTATAT
1 TTATTTATTATTATTATAT
10844180 GTATATTT-TTACTTATT-TAT
1 -T-TATTTATTA-TTATTATAT
*
10844200 TTATTTATTTTTATT-T-T
1 TTATTTATTATTATTATAT
* *
10844217 TT-TTTGTTAATATTTATAT
1 TTATTTATTATTA-TTATAT
* *
10844236 GTATTTTATTTATATAGTTCTA-
1 TTA-TTTA-TTAT-TA-TTATAT
10844258 -TATTTATTATATATTATAAT
1 TTATTTATTAT-TATTAT-AT
10844278 TTATTTATTATT
1 TTATTTATTATT
10844290 TTTTTTTCTT
Statistics
Matches: 86, Mismatches: 10, Indels: 26
0.70 0.08 0.21
Matches are distributed among these distances:
16 7 0.08
17 5 0.06
18 15 0.17
19 13 0.15
20 12 0.14
21 25 0.29
22 3 0.03
23 6 0.07
ACGTcount: A:0.28, C:0.02, G:0.03, T:0.67
Consensus pattern (19 bp):
TTATTTATTATTATTATAT
Found at i:10844279 original size:17 final size:19
Alignment explanation
Indices: 10844240--10844282 Score: 54
Period size: 17 Copynumber: 2.3 Consensus size: 19
10844230 TTATATGTAT
*
10844240 TTTATTTATATAGTTCTATA
1 TTTA-TTATATAGTTATATA
10844260 TTTATTATATA-TTATA-A
1 TTTATTATATAGTTATATA
10844277 TTTATT
1 TTTATT
10844283 TATTATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 7 0.32
18 4 0.18
19 7 0.32
20 4 0.18
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (19 bp):
TTTATTATATAGTTATATA
Found at i:10845347 original size:6 final size:6
Alignment explanation
Indices: 10845326--10845394 Score: 54
Period size: 6 Copynumber: 11.3 Consensus size: 6
10845316 TTTAATATTC
* * *
10845326 TTTTTA TCTTTA -TTTTA TTTTTA TTTTTG TTTTACTT TTCTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT--TA TT-TTTA TTTTTA
10845376 -TTTTA TTTTT- TTTATTA TT
1 TTTTTA TTTTTA TTT-TTA TT
10845395 CTATTTTCTT
Statistics
Matches: 51, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
5 12 0.24
6 29 0.57
7 5 0.10
8 3 0.06
9 2 0.04
ACGTcount: A:0.14, C:0.04, G:0.01, T:0.80
Consensus pattern (6 bp):
TTTTTA
Found at i:10845363 original size:27 final size:28
Alignment explanation
Indices: 10845327--10845379 Score: 83
Period size: 27 Copynumber: 1.9 Consensus size: 28
10845317 TTAATATTCT
10845327 TTTTATCTTTAT-TTTATTTTTATTTTTG
1 TTTTATCTTT-TCTTTATTTTTATTTTTG
10845355 TTTTA-CTTTTCTTTATTTTTATTTT
1 TTTTATCTTTTCTTTATTTTTATTTT
10845380 ATTTTTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 1 0.04
27 18 0.75
28 5 0.21
ACGTcount: A:0.13, C:0.06, G:0.02, T:0.79
Consensus pattern (28 bp):
TTTTATCTTTTCTTTATTTTTATTTTTG
Found at i:10845371 original size:21 final size:20
Alignment explanation
Indices: 10845328--10845401 Score: 73
Period size: 21 Copynumber: 3.7 Consensus size: 20
10845318 TAATATTCTT
*
10845328 TTTATCTTTATTTTA--TT-
1 TTTATTTTTATTTTATTTTC
*
10845345 TTTATTTTTGTTTTACTTTTC
1 TTTATTTTTATTTTA-TTTTC
*
10845366 TTTATTTTTATTTTATTTTT
1 TTTATTTTTATTTTATTTTC
10845386 TTTATTATTCTATTTT
1 TTTATT-TT-TATTTT
10845402 CTTTAAATGA
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
17 13 0.28
20 12 0.26
21 16 0.34
22 6 0.13
ACGTcount: A:0.15, C:0.05, G:0.01, T:0.78
Consensus pattern (20 bp):
TTTATTTTTATTTTATTTTC
Found at i:10845385 original size:11 final size:11
Alignment explanation
Indices: 10845326--10845385 Score: 61
Period size: 11 Copynumber: 5.5 Consensus size: 11
10845316 TTTAATATTC
10845326 TTTTTATCTTTA
1 TTTTTAT-TTTA
10845338 -TTTTATTTTTA
1 TTTTTA-TTTTA
*
10845349 TTTTTGTTTTA
1 TTTTTATTTTA
* *
10845360 CTTTT-CTTTA
1 TTTTTATTTTA
10845370 TTTTTATTTTA
1 TTTTTATTTTA
10845381 TTTTT
1 TTTTT
10845386 TTTATTATTC
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
10 8 0.20
11 27 0.68
12 5 0.12
ACGTcount: A:0.13, C:0.05, G:0.02, T:0.80
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:10845399 original size:17 final size:17
Alignment explanation
Indices: 10845373--10845406 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10845363 TTCTTTATTT
* *
10845373 TTATTTTATTTTTTTTA
1 TTATTCTATTTTCTTTA
10845390 TTATTCTATTTTCTTTA
1 TTATTCTATTTTCTTTA
10845407 AATGAAAATC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (17 bp):
TTATTCTATTTTCTTTA
Found at i:10845500 original size:58 final size:58
Alignment explanation
Indices: 10845411--10846246 Score: 963
Period size: 58 Copynumber: 13.9 Consensus size: 58
10845401 TCTTTAAATG
*
10845411 AAAATCAAAATTTTCAAAAAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTCCTCA
1 AAAATC-AAATTTTC---AAAAAAATATTTTTAGG-AAAAGTTGAAAGTATCAATTTTCCTTA
** * *
10845474 AAAAT-AAA-TTTCAAAAAAAGGGTTTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTTG
1 AAAATCAAATTTTCAAAAAAA-TATTTTT-AGGAAAAGTTGAAAGTATCAATTTTCCTTA
10845532 AAAATCAAGA-TTTCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTA
1 AAAATCAA-ATTTTC-AAAAAAATATTTTT-AGGAAAAGTTGAAAGTATCAATTTTCCTTA
* *
10845592 AAAAT-AAATTTTCAAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTTG
1 AAAATCAAATTTTCAAAAAAATATTTTTAG-GAAAAGTTGAAAGTATCAATTTTCCTTA
*
10845650 AAAATCAAAATTTTCAAAAAAAAAACATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTA
1 AAAATC-AAATTTTC---AAAAAAATATTTTT-AGGAAAAGTTGAAAGTATCAATTTTCCTTA
* * *
10845713 GAAAT-AAATTTTCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTG
1 AAAATCAAATTTTCAAAAAAATATTTTTA-GGAAAAGTTGAAAGTATCAATTTTCCTTA
* ** *
10845771 AAAATCAAAGTTTCCAAAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
1 AAAATCAAA-TTTTCAAAAAAA-TATTTTT-AGGAAAAGTTGAAAGTATCAATTTTCCTTA
* *
10845832 AAAATCAAAGTTTCCAAAAAAAAATTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTA
1 AAAATCAAA-TTTTC--AAAAAAA-TATTTTT-AGGAAAAGTTGAAAGTATCAATTTTCCTTA
* *
10845895 GAAAT-AAATTTCCAAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTCCTTA
1 AAAATCAAATTTTCAAAAAAATATTTTTAGG-AAAAGTTGAAAGTATCAATTTTCCTTA
*
10845953 AAAAT-AAATTTTCAAAAAAA-AGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
1 AAAATCAAATTTTCAAAAAAATA--TTTTT-AGGAAAAGTTGAAAGTATCAATTTTCCTTA
* *
10846012 AAAATCAAAGTTTCCAAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTA
1 AAAATCAAA-TTTTC--AAAAAAATATTTTT-AGGAAAAGTTGAAAGTATCAATTTTCCTTA
* * *
10846074 GAAAT-AAATTTCCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTA
1 AAAATCAAATTTTCAAAAAAATATTTTTA-GGAAAAGTTGAAAGTATCAATTTTCCTTA
* * * *
10846132 AAAAT-AAAATTTCAAAAAAAAAGATTTTTGAGGAAATGTTGAAAGTATCAATTTTCCTTG
1 AAAATCAAATTTTC--AAAAAAATATTTTT-AGGAAAAGTTGAAAGTATCAATTTTCCTTA
* * *
10846192 AAAATCAAAATTTCTAAAAGAATATTTTTTGAGAAAAGTTGAAAGTATCAATTTT
1 AAAATCAAATTTTC-AAAAAAATATTTTTAG-GAAAAGTTGAAAGTATCAATTTT
10846247 TTCTACACGA
Statistics
Matches: 687, Mismatches: 51, Indels: 73
0.85 0.06 0.09
Matches are distributed among these distances:
57 12 0.02
58 229 0.33
59 58 0.08
60 156 0.23
61 87 0.13
62 42 0.06
63 101 0.15
64 2 0.00
ACGTcount: A:0.46, C:0.08, G:0.13, T:0.34
Consensus pattern (58 bp):
AAAATCAAATTTTCAAAAAAATATTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTTA
Found at i:10845711 original size:121 final size:119
Alignment explanation
Indices: 10845409--10846246 Score: 1119
Period size: 121 Copynumber: 7.0 Consensus size: 119
10845399 TTTCTTTAAA
*
10845409 TGAAAATCAAAATTTTCAAAAAAAAAATATTTTT-AGGAAAAAGTTGAAAGTATCAATTTTCCTC
1 TGAAAATCAAAA-TTTC-AAAAAAAAATATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTT
** *
10845473 AAAAATAAA-TTTCAAAAAAAGGGTTTTT-GAGGAAAAGTTAAAAGTATCAATTTTCCT
63 AAAAATAAATTTTCAAAAAAA-TATTTTTGGA-GAAAAGTTGAAAGTATCAATTTTCCT
*
10845530 TGAAAATCAAGATTTC-AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAA
1 TGAAAATCAAAATTTCAAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAA
10845594 AATAAATTTTCAAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCT
66 AATAAATTTTCAAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCT
*
10845648 TGAAAATCAAAATTTTCAAAAAAAAAACATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTA
1 TGAAAATCAAAA-TTTC-AAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTA
* *
10845713 GAAATAAATTTTCAAAAAAATATTTTTAGG-GAAAAGTTGAAAGTATCAATTTTTCT
64 AAAATAAATTTTCAAAAAAATATTTTT-GGAGAAAAGTTGAAAGTATCAATTTTCCT
* * *** *
10845769 TGAAAATCAAAGTTTCCAAAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAA
1 TGAAAATCAAAATTTCAAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAA
* *
10845834 AATCAAAGTTTCCAAAAAAAAATTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT
66 AAT-AAA-TTTTC--AAAAAAA-TATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCT
*
10845893 T-AGAAAT--AAATTTC-CAAAAAAATATTTTT-AGGAAAAAGTTGAAAGTATCAATTTTCCTTA
1 TGA-AAATCAAAATTTCAAAAAAAAATATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTTA
10845953 AAAATAAATTTTCAAAAAAA-AGGTTTTT-GAGGAAAAGTTGAAAGTATCAATTTTCCT
64 AAAATAAATTTTCAAAAAAATA--TTTTTGGA-GAAAAGTTGAAAGTATCAATTTTCCT
* * *
10846010 TGAAAATCAAAGTTTCCAAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAG
1 TGAAAATCAAAATTT-CAAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAA
* *
10846075 AAATAAATTTCCAAAAAAATATTTTTAGG-GAAAAGTTGAAAGTATCAATTTTTCT
65 AAATAAATTTTCAAAAAAATATTTTT-GGAGAAAAGTTGAAAGTATCAATTTTCCT
* * * *
10846130 TAAAAAT-AAAATTTCAAAAAAAAAGATTTTTGAGGAAATGTTGAAAGTATCAATTTTCCTTGAA
1 TGAAAATCAAAATTTCAAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAA
* * *
10846194 AATCAAAATTTCTAAAAGAATATTTTTTGAGAAAAGTTGAAAGTATCAATTTT
66 AAT-AAATTTTC-AAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTT
10846247 TTCTACACGA
Statistics
Matches: 644, Mismatches: 43, Indels: 61
0.86 0.06 0.08
Matches are distributed among these distances:
115 1 0.00
116 1 0.00
117 43 0.07
118 139 0.22
119 88 0.14
120 90 0.14
121 223 0.35
122 12 0.02
123 10 0.02
124 37 0.06
ACGTcount: A:0.46, C:0.08, G:0.13, T:0.34
Consensus pattern (119 bp):
TGAAAATCAAAATTTCAAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAA
AATAAATTTTCAAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCT
Found at i:10846007 original size:180 final size:178
Alignment explanation
Indices: 10845418--10846246 Score: 1197
Period size: 179 Copynumber: 4.6 Consensus size: 178
10845408 ATGAAAATCA
* * **
10845418 AAATTTTCAAAAAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTCCTCAAAAAT--AA
1 AAATTTTCAAAAAAAAGAT-TTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAA
*** * *
10845481 ATTTC-AAAAAAAGGGTTTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTT-GAAAATCAAGATT
64 ATTTCAAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT-AA-ATT
*
10845544 TCAAAAAAAATATTTTT-GAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
126 TCCAAAAAAATATTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
*
10845597 AAATTTTC-AAAAAAATATTTTTG-GAGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAA
1 AAATTTTCAAAAAAAAGATTTTTGAG-GAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAA
* * *
10845660 TTTTCAAAAAAAAAACATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTT
65 -TTTC-AAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTC
* *
10845725 CAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAAT
128 CAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
* * *
10845776 CAAAGTTTCCAAAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAA
1 -AAA-TTTTCAAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAA
*
10845841 GTTTCCAAAAAAAAATTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTT
64 ATTT-CAAAAAAAAA-TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTT
*
10845906 CCAAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
127 CCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
* *
10845958 AAATTTTCAAAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGT
1 AAATTTTCAAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAAT
10846023 TTCCAAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCA
66 TT-CAAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCA
*
10846088 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT
130 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
* *
10846137 AAAATTTCAAAAAAAAAGATTTTTGAGGAAATGTTGAAAGTATCAATTTTCCTTGAAAATCAAAA
1 AAATTTTC-AAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAA
* * * *
10846202 TTTC-TAAAAGAATATTTTTTGAGAAAAGTTGAAAGTATCAATTTT
65 TTTCAAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTT
10846247 TTCTACACGA
Statistics
Matches: 600, Mismatches: 35, Indels: 31
0.90 0.05 0.05
Matches are distributed among these distances:
176 31 0.05
177 5 0.01
178 49 0.08
179 169 0.28
180 135 0.22
181 64 0.11
182 146 0.24
183 1 0.00
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.34
Consensus pattern (178 bp):
AAATTTTCAAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAAT
TTCAAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAA
AAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
Found at i:10847466 original size:14 final size:14
Alignment explanation
Indices: 10847447--10847476 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
10847437 TTTATTTGAT
*
10847447 AAGAAGAAAATAAA
1 AAGAAGAAAAGAAA
10847461 AAGAAGAAAAGAAA
1 AAGAAGAAAAGAAA
10847475 AA
1 AA
10847477 AAATAAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (14 bp):
AAGAAGAAAAGAAA
Found at i:10847664 original size:9 final size:8
Alignment explanation
Indices: 10847650--10847684 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
10847640 GCCGAAGCCA
10847650 AAAAAAATC
1 AAAAAAA-C
10847659 AAAAAAAC
1 AAAAAAAC
*
10847667 AAAAAAAA
1 AAAAAAAC
10847675 AAAAAAAC
1 AAAAAAAC
10847683 AA
1 AA
10847685 GAAATCGTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
8 17 0.71
9 7 0.29
ACGTcount: A:0.89, C:0.09, G:0.00, T:0.03
Consensus pattern (8 bp):
AAAAAAAC
Found at i:10847672 original size:16 final size:16
Alignment explanation
Indices: 10847651--10847690 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
10847641 CCGAAGCCAA
10847651 AAAAAATCAAAAAAAC
1 AAAAAATCAAAAAAAC
**
10847667 AAAAAAAAAAAAAAAC
1 AAAAAATCAAAAAAAC
*
10847683 AAGAAATC
1 AAAAAATC
10847691 GTTATTAAAG
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.82, C:0.10, G:0.03, T:0.05
Consensus pattern (16 bp):
AAAAAATCAAAAAAAC
Found at i:10850144 original size:20 final size:21
Alignment explanation
Indices: 10850113--10850154 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
10850103 TTAATAAAAT
*
10850113 ATTAAAATTTTAATTTTAATA
1 ATTAAAATTTTAATCTTAATA
10850134 ATTAAAA-TTTAATCTTAATA
1 ATTAAAATTTTAATCTTAATA
10850154 A
1 A
10850155 CTTTAAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (21 bp):
ATTAAAATTTTAATCTTAATA
Found at i:10853021 original size:21 final size:21
Alignment explanation
Indices: 10852995--10853036 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
10852985 TGGTTGAGAT
*
10852995 AGTTTATCAAAGAAGAAGGCC
1 AGTTTACCAAAGAAGAAGGCC
10853016 AGTTTACCAAAGAAGAAGGCC
1 AGTTTACCAAAGAAGAAGGCC
10853037 TATATTCAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.43, C:0.17, G:0.24, T:0.17
Consensus pattern (21 bp):
AGTTTACCAAAGAAGAAGGCC
Found at i:10853950 original size:2 final size:2
Alignment explanation
Indices: 10853938--10853967 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
10853928 AAGCCATCAC
*
10853938 TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10853968 CACACATACC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:10855202 original size:3 final size:3
Alignment explanation
Indices: 10855187--10855322 Score: 55
Period size: 3 Copynumber: 48.7 Consensus size: 3
10855177 TAAATTGATT
* * * * * *
10855187 TTA TTA ATA TTA TTA TTA TTTA CTA TCA TTG TTA CTA GTA TTA -TA
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
10855232 TTA -TA TTA -TA TTA -TA TTA TGA TTA -TA TCA -TA TTA -TA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
10855274 -TA TTA -TA GTT- TGTA -TG TTA TTA -TA TTA TTA TT- TTT TTA TTT
1 TTA TTA TTA -TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10855315 TTA TTA TT
1 TTA TTA TT
10855323 TTTTTCTTTT
Statistics
Matches: 97, Mismatches: 20, Indels: 32
0.65 0.13 0.21
Matches are distributed among these distances:
2 23 0.24
3 70 0.72
4 4 0.04
ACGTcount: A:0.32, C:0.03, G:0.04, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:10855299 original size:5 final size:5
Alignment explanation
Indices: 10855225--10855280 Score: 80
Period size: 5 Copynumber: 11.4 Consensus size: 5
10855215 TTGTTACTAG
*
10855225 TATTA TATTA TATTA TATTA TATTA TGATTA TATCA TATTA TA-T- TATTA
1 TATTA TATTA TATTA TATTA TATTA T-ATTA TATTA TATTA TATTA TATTA
10855274 TATTA TA
1 TATTA TA
10855281 GTTTGTATGT
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
3 2 0.04
4 2 0.04
5 37 0.80
6 5 0.11
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (5 bp):
TATTA
Found at i:10855320 original size:17 final size:17
Alignment explanation
Indices: 10855298--10855332 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
10855288 TGTTATTATA
10855298 TTATTATTTTTTTATTT
1 TTATTATTTTTTTATTT
*
10855315 TTATTATTTTTTTCTTT
1 TTATTATTTTTTTATTT
10855332 T
1 T
10855333 CTTCTCGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.14, C:0.03, G:0.00, T:0.83
Consensus pattern (17 bp):
TTATTATTTTTTTATTT
Found at i:10855825 original size:20 final size:21
Alignment explanation
Indices: 10855792--10855830 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
10855782 AAAAATCTAG
10855792 ATTTTTGGGATGAA-TTTTGA
1 ATTTTTGGGATGAACTTTTGA
* *
10855812 ATTTTTTGGTTGAACTTTT
1 ATTTTTGGGATGAACTTTT
10855831 CAGTGAGATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.21, C:0.03, G:0.21, T:0.56
Consensus pattern (21 bp):
ATTTTTGGGATGAACTTTTGA
Found at i:10856133 original size:19 final size:19
Alignment explanation
Indices: 10856105--10856177 Score: 69
Period size: 19 Copynumber: 3.9 Consensus size: 19
10856095 TCTTAGTTTT
10856105 TTTTTCTATTTTAATTTTAA
1 TTTTT-TATTTTAATTTTAA
* *
10856125 TTTTTTATTTTATTTTTGA
1 TTTTTTATTTTAATTTTAA
* * *
10856144 TTTATT-TTATAATTTTAG
1 TTTTTTATTTTAATTTTAA
*
10856162 TTTTTTGTTTT-ATTTT
1 TTTTTTATTTTAATTTT
10856178 CAGTTTTTTT
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
18 18 0.42
19 20 0.47
20 5 0.12
ACGTcount: A:0.19, C:0.01, G:0.04, T:0.75
Consensus pattern (19 bp):
TTTTTTATTTTAATTTTAA
Found at i:10856189 original size:37 final size:37
Alignment explanation
Indices: 10856116--10856190 Score: 98
Period size: 37 Copynumber: 2.0 Consensus size: 37
10856106 TTTTCTATTT
*
10856116 TAATTTTAATTTTTTATTTTATTTTTGATTTATTTTA
1 TAATTTTAATTTTTTATTTTATTTTAGATTTATTTTA
* * *
10856153 TAATTTTAGTTTTTTGTTTTATTTTCAG-TTTTTTTTA
1 TAATTTTAATTTTTTATTTTATTTT-AGATTTATTTTA
10856190 T
1 T
10856191 TTTACTAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 32 0.97
38 1 0.03
ACGTcount: A:0.20, C:0.01, G:0.05, T:0.73
Consensus pattern (37 bp):
TAATTTTAATTTTTTATTTTATTTTAGATTTATTTTA
Found at i:10856202 original size:15 final size:15
Alignment explanation
Indices: 10856184--10856220 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
10856174 TTTTCAGTTT
10856184 TTTTTATTTTACTAA
1 TTTTTATTTTACTAA
*
10856199 TTTTTA-TTTACTTA
1 TTTTTATTTTACTAA
10856213 TTTTTATT
1 TTTTTATT
10856221 AAGTAACTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTTTATTTTACTAA
Found at i:10860968 original size:10 final size:9
Alignment explanation
Indices: 10860940--10860982 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 9
10860930 AATACAAAAC
10860940 AAAAAAAGCA
1 AAAAAAAG-A
10860950 AAAATAAAGA
1 AAAA-AAAGA
10860960 GAAAAAAAGA
1 -AAAAAAAGA
10860970 AAAAAAATGA
1 AAAAAAA-GA
10860980 AAA
1 AAA
10860983 CTTATATAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
9 7 0.23
10 15 0.50
11 8 0.27
ACGTcount: A:0.81, C:0.02, G:0.12, T:0.05
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:10860975 original size:22 final size:22
Alignment explanation
Indices: 10860926--10860974 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
10860916 AAAGGTGTGC
10860926 AAAAAATACAAAACAAAAAAAG
1 AAAAAATACAAAACAAAAAAAG
* * *
10860948 CAAAAATA-AAGAGAAAAAAAG
1 AAAAAATACAAAACAAAAAAAG
10860969 AAAAAA
1 AAAAAA
10860975 AATGAAAACT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 16 0.70
22 7 0.30
ACGTcount: A:0.82, C:0.06, G:0.08, T:0.04
Consensus pattern (22 bp):
AAAAAATACAAAACAAAAAAAG
Found at i:10861832 original size:55 final size:55
Alignment explanation
Indices: 10861725--10861837 Score: 136
Period size: 55 Copynumber: 2.1 Consensus size: 55
10861715 TCGCTTTGTC
* * *
10861725 TTTTTGACTTATGGTTCAATATCAATCATCCAATCTTGGCTCAATCTAGATCATT
1 TTTTTGACTTATGATTCAATACCAATCATCCAATCTTGGCTCAATCCAGATCATT
* * * * * * *
10861780 TTTTTGACTTATGATTCAATCCCGATCATTCGATCTTGGCTTAGTCCGGATCATT
1 TTTTTGACTTATGATTCAATACCAATCATCCAATCTTGGCTCAATCCAGATCATT
10861835 TTT
1 TTT
10861838 CTAACTTACG
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
55 48 1.00
ACGTcount: A:0.23, C:0.20, G:0.13, T:0.43
Consensus pattern (55 bp):
TTTTTGACTTATGATTCAATACCAATCATCCAATCTTGGCTCAATCCAGATCATT
Found at i:10862044 original size:8 final size:8
Alignment explanation
Indices: 10862003--10862101 Score: 60
Period size: 8 Copynumber: 12.1 Consensus size: 8
10861993 TAATTAGTAT
10862003 TATTATTA
1 TATTATTA
*
10862011 T-TTACTA
1 TATTATTA
*
10862018 TCATTGTTA
1 T-ATTATTA
*
10862027 CTAGTATTA
1 -TATTATTA
10862036 TATTATTA
1 TATTATTA
10862044 TATTA-TA
1 TATTATTA
**
10862051 GTCCGTATGT-
1 -T-ATTAT-TA
10862061 TATTATTA
1 TATTATTA
10862069 TATTATTA
1 TATTATTA
**
10862077 TATTGCTA
1 TATTATTA
10862085 TATTATTA
1 TATTATTA
*
10862093 TGTTATTA
1 TATTATTA
10862101 T
1 T
10862102 TATAAATATT
Statistics
Matches: 68, Mismatches: 15, Indels: 16
0.69 0.15 0.16
Matches are distributed among these distances:
7 9 0.13
8 45 0.66
9 12 0.18
10 1 0.01
11 1 0.01
ACGTcount: A:0.30, C:0.06, G:0.07, T:0.57
Consensus pattern (8 bp):
TATTATTA
Found at i:10862920 original size:14 final size:14
Alignment explanation
Indices: 10862901--10862931 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
10862891 CGTAGCTTTT
10862901 TTTTTTAATTTTAA
1 TTTTTTAATTTTAA
*
10862915 TTTTTTAATTTTTA
1 TTTTTTAATTTTAA
10862929 TTT
1 TTT
10862932 ATTTTATAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTTTAATTTTAA
Found at i:10862998 original size:14 final size:15
Alignment explanation
Indices: 10862969--10863003 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
10862959 TGTATTTTTC
10862969 TTTATTCTACTGATT
1 TTTATTCTACTGATT
*
10862984 TTTATT-TACTTATT
1 TTTATTCTACTGATT
10862998 TTTATT
1 TTTATT
10863004 GAGTAACTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 13 0.68
15 6 0.32
ACGTcount: A:0.20, C:0.09, G:0.03, T:0.69
Consensus pattern (15 bp):
TTTATTCTACTGATT
Found at i:10864192 original size:56 final size:56
Alignment explanation
Indices: 10864132--10864261 Score: 152
Period size: 56 Copynumber: 2.3 Consensus size: 56
10864122 CTTTATGTAA
** *
10864132 GCAATTTACCAAGATGAGCTATTTGACCAAGATGGCTGAGCTAAGCCATTGTGAAG
1 GCAATTTACCAAGATGAGCTATTTGACCAAGATGGCCAAGCTAAGCCATTGTAAAG
* * *** * *
10864188 GCAATTTACCAAGATGAACTCTTTGATTGAGGTGGCCAAGCTAAGCCTTTGTAAAG
1 GCAATTTACCAAGATGAGCTATTTGACCAAGATGGCCAAGCTAAGCCATTGTAAAG
* *
10864244 GTAATTTACCAAAATGAG
1 GCAATTTACCAAGATGAG
10864262 TTTTTTGGCT
Statistics
Matches: 61, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
56 61 1.00
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (56 bp):
GCAATTTACCAAGATGAGCTATTTGACCAAGATGGCCAAGCTAAGCCATTGTAAAG
Found at i:10864371 original size:83 final size:83
Alignment explanation
Indices: 10864199--10864377 Score: 193
Period size: 83 Copynumber: 2.2 Consensus size: 83
10864189 CAATTTACCA
* * * * *
10864199 AGATGAACTCTTTGATTGAGGTGGCCAAGCTAAGCCTTTGTAAAGGTAATTTACCAAAATGAGTT
1 AGATGAGCTCTTTGACTGAGATGGCCAAGCTAAGCCTTTGTAAAGGTAATTTACCAAAATAAGCT
* *
10864264 TTTTGGCTGAAATGGTCG
66 CTTTGGCTGAAACGGTCG
* * * * *
10864282 AAATGAGCTCTTTGGCTGAGATGGCCCAA-CTAAGCCTTTTTTAAGGTAATTTACCAAGATAAGC
1 AGATGAGCTCTTTGACTGAGATGG-CCAAGCTAAGCCTTTGTAAAGGTAATTTACCAAAATAAGC
*
10864346 TCTTTGG-TTAAGACGG-CTG
65 TCTTTGGCTGAA-ACGGTC-G
10864365 AGATGAGCTCTTT
1 AGATGAGCTCTTT
10864378 TGGTCAAGCT
Statistics
Matches: 79, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
82 4 0.05
83 71 0.90
84 4 0.05
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (83 bp):
AGATGAGCTCTTTGACTGAGATGGCCAAGCTAAGCCTTTGTAAAGGTAATTTACCAAAATAAGCT
CTTTGGCTGAAACGGTCG
Found at i:10864497 original size:56 final size:55
Alignment explanation
Indices: 10864431--10864547 Score: 148
Period size: 56 Copynumber: 2.1 Consensus size: 55
10864421 AGGTGATCTT
* * *
10864431 TTTTTACCGAGGTAGCTCA-ACTAAGCCTTTAT-AAGGTCAATTTACCAAGATGAGC
1 TTTTTACCGAGGTAGCTCAGA-TAAGCCATTATGAAGG-CAATTTACCAAGATAAAC
* *
10864486 TTTTTAGCCGAGTTAGCTGAGATAAGCCATTATGAAGGCAATTTACCAAGATAAAC
1 TTTTTA-CCGAGGTAGCTCAGATAAGCCATTATGAAGGCAATTTACCAAGATAAAC
10864542 TTTTTA
1 TTTTTA
10864548 ATGGAAATGG
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
55 6 0.11
56 43 0.80
57 5 0.09
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
Consensus pattern (55 bp):
TTTTTACCGAGGTAGCTCAGATAAGCCATTATGAAGGCAATTTACCAAGATAAAC
Found at i:10865308 original size:72 final size:71
Alignment explanation
Indices: 10865164--10865297 Score: 169
Period size: 72 Copynumber: 1.9 Consensus size: 71
10865154 TTTGGTCAAA
* * * * * **
10865164 CTATTTTGTTAAATTGGGTTTTATGAAGGCATTTTGTAAATTCAAACTCTTTTAACTGAGCTAAG
1 CTATTTTATCAAATTGGGCTTTATGAAAGCATTTTGTAAATCCAAACTCTTTTAACCAAGCTAAG
10865229 TCTGAG
66 TCTGAG
* **
10865235 CTATTTTATCAAATTGGGCCTTTATGAAAGCATTTTGTAAATCCGAACTCTTTTGTCCAAGCT
1 CTATTTTATCAAATTGGG-CTTTATGAAAGCATTTTGTAAATCCAAACTCTTTTAACCAAGCT
10865298 GAGTTCGAGC
Statistics
Matches: 52, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
71 16 0.31
72 36 0.69
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.41
Consensus pattern (71 bp):
CTATTTTATCAAATTGGGCTTTATGAAAGCATTTTGTAAATCCAAACTCTTTTAACCAAGCTAAG
TCTGAG
Found at i:10885691 original size:34 final size:34
Alignment explanation
Indices: 10885632--10885735 Score: 111
Period size: 34 Copynumber: 3.0 Consensus size: 34
10885622 TATACACCTT
* *
10885632 AAAATTACATTGTATTTATTGAAAATAAATTTTTA
1 AAAATTATATTATATTT-TTGAAAATAAATTTTTA
* **
10885667 AAAATTATATTATATTTTTAAAAATTTATTTTTA
1 AAAATTATATTATATTTTTGAAAATAAATTTTTA
* * *
10885701 AAAAATATA-TATAATTCTCGAAAATAAATTTTTA
1 AAAATTATATTAT-ATTTTTGAAAATAAATTTTTA
10885735 A
1 A
10885736 GAATAAAATA
Statistics
Matches: 57, Mismatches: 11, Indels: 3
0.80 0.15 0.04
Matches are distributed among these distances:
33 3 0.05
34 39 0.68
35 15 0.26
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (34 bp):
AAAATTATATTATATTTTTGAAAATAAATTTTTA
Found at i:10895548 original size:19 final size:20
Alignment explanation
Indices: 10895526--10895563 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
10895516 AATTTCAATA
*
10895526 TTTATAATAT-ATTTTTTAT
1 TTTAGAATATAATTTTTTAT
*
10895545 TTTAGATTATAATTTTTTA
1 TTTAGAATATAATTTTTTA
10895564 ATAAAAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (20 bp):
TTTAGAATATAATTTTTTAT
Found at i:10896219 original size:19 final size:19
Alignment explanation
Indices: 10896175--10896211 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
10896165 TTTGAATTAG
10896175 GTATCGAATTTCAAATTGA
1 GTATCGAATTTCAAATTGA
10896194 GTATCGAATTTCAAATTG
1 GTATCGAATTTCAAATTG
10896212 TGAGTCGAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.38
Consensus pattern (19 bp):
GTATCGAATTTCAAATTGA
Found at i:10896811 original size:30 final size:28
Alignment explanation
Indices: 10896768--10896860 Score: 96
Period size: 28 Copynumber: 3.2 Consensus size: 28
10896758 TTTTGTTCAA
**
10896768 TAAAAATTTTAATTTGATAAAAATAAATATT
1 TAAAAA-TTTAATTAAAT-AAAATAAA-ATT
10896799 TAAAAATTTAATTAAATAAAATAAAATT
1 TAAAAATTTAATTAAATAAAATAAAATT
* * * *
10896827 AAAAAATTAAATTAATTATAATAAAATAT
1 TAAAAATTTAATTAAATAAAATAAAAT-T
10896856 TAAAA
1 TAAAA
10896861 GTTCGAGTAA
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
28 26 0.48
29 13 0.24
30 9 0.17
31 6 0.11
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (28 bp):
TAAAAATTTAATTAAATAAAATAAAATT
Found at i:10901791 original size:32 final size:30
Alignment explanation
Indices: 10901730--10901793 Score: 76
Period size: 32 Copynumber: 2.1 Consensus size: 30
10901720 TTTATTCATA
*
10901730 AATTTTAATATATTTAATGATATATATAAT
1 AATTTTAATATATTTAATGATATAGATAAT
*
10901760 AATTTTAGATCATATTTATTG-TATAAGATAAT
1 AATTTTA-AT-ATATTTAATGATAT-AGATAAT
10901792 AA
1 AA
10901794 AAATGATAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 7 0.24
31 5 0.17
32 17 0.59
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (30 bp):
AATTTTAATATATTTAATGATATAGATAAT
Found at i:10901946 original size:20 final size:19
Alignment explanation
Indices: 10901923--10901977 Score: 60
Period size: 18 Copynumber: 2.9 Consensus size: 19
10901913 TTATATGTAT
10901923 TATTATATTTTTAAAAATTA
1 TATTA-ATTTTTAAAAATTA
10901943 TATTAATTATTT--AAATTA
1 TATTAATT-TTTAAAAATTA
* *
10901961 TATAAATTTTAAAAAAT
1 TATTAATTTTTAAAAAT
10901978 AATTTTGAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
17 2 0.07
18 13 0.43
19 7 0.23
20 8 0.27
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TATTAATTTTTAAAAATTA
Found at i:10930620 original size:20 final size:18
Alignment explanation
Indices: 10930592--10930630 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
10930582 TTATTTATGA
*
10930592 AATTGATTTGATATAAATAT
1 AATTAATTT-ATAT-AATAT
10930612 AATTAATTTATATAATAT
1 AATTAATTTATATAATAT
10930630 A
1 A
10930631 CCTTATGTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 4 0.22
20 8 0.44
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (18 bp):
AATTAATTTATATAATAT
Found at i:10930859 original size:19 final size:19
Alignment explanation
Indices: 10930835--10930873 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
10930825 TTTTTATAAT
*
10930835 TTATTACTT-TTAATTATTA
1 TTATTA-TTATTAAATATTA
10930854 TTATTATTATTAAATATTA
1 TTATTATTATTAAATATTA
10930873 T
1 T
10930874 AATCAACAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 2 0.11
19 16 0.89
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (19 bp):
TTATTATTATTAAATATTA
Found at i:10934767 original size:18 final size:20
Alignment explanation
Indices: 10934722--10934767 Score: 51
Period size: 18 Copynumber: 2.4 Consensus size: 20
10934712 CCAAATTGAA
*
10934722 ATAATATATCTTAAGTTTAT
1 ATAATAAATCTTAAGTTTAT
* *
10934742 TTATTAAAT-TTAA-TTTAT
1 ATAATAAATCTTAAGTTTAT
10934760 ATAATAAA
1 ATAATAAA
10934768 AAATTTAAAA
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
18 11 0.52
19 4 0.19
20 6 0.29
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (20 bp):
ATAATAAATCTTAAGTTTAT
Found at i:10936885 original size:18 final size:18
Alignment explanation
Indices: 10936862--10936928 Score: 73
Period size: 18 Copynumber: 3.7 Consensus size: 18
10936852 AAAGAAGATT
*
10936862 TTGAAACTTATTATGTGC
1 TTGAAATTTATTATGTGC
*
10936880 TTGAAATTT-TTATGTGAT
1 TTGAAATTTATTATGTG-C
* *
10936898 TTCAAGTTTTATTATGTGC
1 TTGAA-ATTTATTATGTGC
10936917 TTGAAATTTATT
1 TTGAAATTTATT
10936929 TAATTTTATA
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
17 7 0.18
18 18 0.46
19 7 0.18
20 7 0.18
ACGTcount: A:0.27, C:0.06, G:0.15, T:0.52
Consensus pattern (18 bp):
TTGAAATTTATTATGTGC
Found at i:10940119 original size:29 final size:27
Alignment explanation
Indices: 10940079--10940134 Score: 85
Period size: 29 Copynumber: 2.0 Consensus size: 27
10940069 TTAAATCAAA
10940079 ATAATACAAAAATTAAAATTATATAAATT
1 ATAATACAAAAATTAAAATT-TA-AAATT
*
10940108 ATAATATAAAAATTAAAATTTAAAATT
1 ATAATACAAAAATTAAAATTTAAAATT
10940135 TTACGAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 5 0.19
28 2 0.08
29 19 0.73
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (27 bp):
ATAATACAAAAATTAAAATTTAAAATT
Found at i:10944265 original size:41 final size:42
Alignment explanation
Indices: 10944219--10944301 Score: 132
Period size: 42 Copynumber: 2.0 Consensus size: 42
10944209 GCTACCGAAG
* *
10944219 AAAATGCAAAT-GATTTTTAACACTCAGATATCACCACTGAA
1 AAAATGCAAATCAAATTTTAACACTCAGATATCACCACTGAA
*
10944260 AAAATGTAAATCAAATTTTAACACTCAGATATCACCACTGAA
1 AAAATGCAAATCAAATTTTAACACTCAGATATCACCACTGAA
10944302 GGAAACTCGA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
41 10 0.26
42 28 0.74
ACGTcount: A:0.46, C:0.19, G:0.08, T:0.27
Consensus pattern (42 bp):
AAAATGCAAATCAAATTTTAACACTCAGATATCACCACTGAA
Found at i:10944498 original size:99 final size:99
Alignment explanation
Indices: 10944366--10944888 Score: 511
Period size: 99 Copynumber: 5.3 Consensus size: 99
10944356 CATTACTACA
* * * *
10944366 GAGAAGATGCAAATGACTTTGGATATTATCACCGAAGGAAACTTAAATATCACCATCGAGAAAAT
1 GAGAATATGCAAATGACTTTGGATATCACCACCGAAGGAAACTTGAATATCACCATCGAGAAAAT
* * *
10944431 GAAAATCAAACGTTATCACTC-AGATATCACCATT
66 GAAAATCAAACTTTAACACTCGA-ATATCACCATC
* ** * *
10944465 GAGGATATGCAAATGACTTCAGATATCGCCACCGAAGGAAACTCGAATATCACCATCGAGAAAAT
1 GAGAATATGCAAATGACTTTGGATATCACCACCGAAGGAAACTTGAATATCACCATCGAGAAAAT
* *
10944530 -ACAAATCAAACTTTATCATTCGAATATCACCATC
66 GA-AAATCAAACTTTAACACTCGAATATCACCATC
* * * * ** *
10944564 AAGAATATACAAAATGACTTTGGATATTACCATCGAAGGAAACTCAAATATCACCATCTAGAAAA
1 GAGAATATGC-AAATGACTTTGGATATCACCACCGAAGGAAACTTGAATATCACCATCGAGAAAA
* *
10944629 TGAAAATCAAACATTAACACTC-AGATATCACTA-C
65 TGAAAATCAAACTTTAACACTCGA-ATATCACCATC
** ** *
10944663 TGA-AGATATGCAAATGACTTTGGATATCACCATTGAAAAAAACTTGAATATCACCATTGAGAAA
1 -GAGA-ATATGCAAATGACTTTGGATATCACCACCGAAGGAAACTTGAATATCACCATCGAGAAA
* * * * * *
10944727 GT-AGAATTAAAGCTTTAGCATTCGAATATCACCACC
64 ATGAAAATCAAA-CTTTAACACTCGAATATCACCATC
* * ** * * * *
10944763 GAGAATATGCAAATAAC-TTGAATATCGTCACTGAAGAAAACTTGAATATCATCATTGAGAAAAT
1 GAGAATATGCAAATGACTTTGGATATCACCACCGAAGGAAACTTGAATATCACCATCGAGAAAAT
* *
10944827 GCAAATCAAGCTTTAACACTCGAATATCACCATC
66 GAAAATCAAACTTTAACACTCGAATATCACCATC
* *
10944861 GAGAACTTTGCAAATAACTTTGGATATC
1 GAGAA-TATGCAAATGACTTTGGATATC
10944889 GTCACAAAAA
Statistics
Matches: 350, Mismatches: 60, Indels: 27
0.80 0.14 0.06
Matches are distributed among these distances:
98 74 0.21
99 185 0.53
100 90 0.26
101 1 0.00
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.25
Consensus pattern (99 bp):
GAGAATATGCAAATGACTTTGGATATCACCACCGAAGGAAACTTGAATATCACCATCGAGAAAAT
GAAAATCAAACTTTAACACTCGAATATCACCATC
Found at i:10944513 original size:199 final size:199
Alignment explanation
Indices: 10944284--10944858 Score: 523
Period size: 199 Copynumber: 2.9 Consensus size: 199
10944274 ATTTTAACAC
* * * * * * ***
10944284 TCAGATATCACCACTGAAGGAAACTCGAATATTATCATTAAAAAAATATAAATGATTTTTTTAGC
1 TCAGATATCACCACCGAAGGAAACTCGAATATCACCATCAAAAAAATACAAATCA-AACTTTAGC
* * * * * * *
10944349 ATTTGGACATTACTA-CAGAGAAGATGC-AAATGACTTTGGATATTATCACCGAAGGAAACTTAA
65 ATTCGAACATCACCATCA-AGAAGATACAAAATGACTTTGGATATTACCACCGAAGGAAACTCAA
* * * *
10944412 ATATCACCATCGAGAAAATGAAAATCAAACGTTATCACTCAGATATCACCATTGAGGATATGCAA
129 ATATCACCATCGAGAAAATGAAAATCAAACATTAACACTCAGATATCACCACTGAAGATATGCAA
10944477 ATGACT
194 ATGACT
* * * *
10944483 TCAGATATCGCCACCGAAGGAAACTCGAATATCACCATCGAGAAAATACAAATCAAACTTTATCA
1 TCAGATATCACCACCGAAGGAAACTCGAATATCACCATCAAAAAAATACAAATCAAACTTTAGCA
* * *
10944548 TTCGAATATCACCATCAAGAATATACAAAATGACTTTGGATATTACCATCGAAGGAAACTCAAAT
66 TTCGAACATCACCATCAAGAAGATACAAAATGACTTTGGATATTACCACCGAAGGAAACTCAAAT
* *
10944613 ATCACCATCTAGAAAATGAAAATCAAACATTAACACTCAGATATCACTACTGAAGATATGCAAAT
131 ATCACCATCGAGAAAATGAAAATCAAACATTAACACTCAGATATCACCACTGAAGATATGCAAAT
10944678 GACT
196 GACT
** ** ** * ** * * * *
10944682 TTGGATATCACCATTGAAAAAAACTTGAATATCACCATTGAGAAAGTA-GAATTAAAGCTTTAGC
1 TCAGATATCACCACCGAAGGAAACTCGAATATCACCATCAAAAAAATACAAATCAAA-CTTTAGC
* * * * * * * *** * * **
10944746 ATTCGAATATCACCACCGAGAATATGC-AAATAAC-TTGAATATCGTCACTGAAGAAAACTTGAA
65 ATTCGAACATCACCATCAAGAAGATACAAAATGACTTTGGATATTACCACCGAAGGAAACTCAAA
* * * * *
10944809 TATCATCATTGAGAAAATGCAAATCAAGCTTTAACACTC-GAATATCACCA
130 TATCACCATCGAGAAAATGAAAATCAAACATTAACACTCAG-ATATCACCA
10944859 TCGAGAACTT
Statistics
Matches: 310, Mismatches: 62, Indels: 10
0.81 0.16 0.03
Matches are distributed among these distances:
196 1 0.00
197 61 0.20
198 34 0.11
199 214 0.69
ACGTcount: A:0.43, C:0.18, G:0.13, T:0.26
Consensus pattern (199 bp):
TCAGATATCACCACCGAAGGAAACTCGAATATCACCATCAAAAAAATACAAATCAAACTTTAGCA
TTCGAACATCACCATCAAGAAGATACAAAATGACTTTGGATATTACCACCGAAGGAAACTCAAAT
ATCACCATCGAGAAAATGAAAATCAAACATTAACACTCAGATATCACCACTGAAGATATGCAAAT
GACT
Found at i:10944809 original size:24 final size:23
Alignment explanation
Indices: 10944777--10944825 Score: 71
Period size: 24 Copynumber: 2.1 Consensus size: 23
10944767 ATATGCAAAT
*
10944777 AACTTGAATATCGTCACTGAAGAA
1 AACTTGAATATCATCACTG-AGAA
*
10944801 AACTTGAATATCATCATTGAGAA
1 AACTTGAATATCATCACTGAGAA
10944824 AA
1 AA
10944826 TGCAAATCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 6 0.26
24 17 0.74
ACGTcount: A:0.45, C:0.14, G:0.14, T:0.27
Consensus pattern (23 bp):
AACTTGAATATCATCACTGAGAA
Found at i:10944958 original size:134 final size:132
Alignment explanation
Indices: 10944769--10945008 Score: 313
Period size: 134 Copynumber: 1.8 Consensus size: 132
10944759 CACCGAGAAT
* * * * *
10944769 ATGCAAATAACTTGAATATCGTCACTGAAGAAAACTTGAATATCATCATTGAGAAAATGCAAATC
1 ATGCAAATAACTTGAATATCCTCACCGAAGAAAACTCGAATATCACCATTAAGAAAATGCAAATC
* * * *
10944834 AAGCTTTAACACTC-GAATATCACCATCGAGAACTTTGCAAATAACTTTGGATATCGTCACAAAA
66 AAACCTTAACACTCAG-ATATCACCACCGAGAA-TATGCAAATAACTTTGGATATCGTCACAAAA
10944898 ATAA
129 ATAA
* * *
10944902 ATGCAAATAACTTCGGATATCACT-ACCGAAGGAAACTCGAATATCACCATTAAGAAAATGTAAA
1 ATGCAAATAACTT-GAATATC-CTCACCGAAGAAAACTCGAATATCACCATTAAGAAAATGCAAA
*
10944966 TCAAACCTTAACATTCAGATATCACCACCGAGAATATGCAAAT
64 TCAAACCTTAACACTCAGATATCACCACCGAGAATATGCAAAT
10945009 GATTTTTTTT
Statistics
Matches: 91, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
133 21 0.23
134 68 0.75
135 2 0.02
ACGTcount: A:0.43, C:0.20, G:0.12, T:0.25
Consensus pattern (132 bp):
ATGCAAATAACTTGAATATCCTCACCGAAGAAAACTCGAATATCACCATTAAGAAAATGCAAATC
AAACCTTAACACTCAGATATCACCACCGAGAATATGCAAATAACTTTGGATATCGTCACAAAAAT
AA
Found at i:10950083 original size:27 final size:27
Alignment explanation
Indices: 10950053--10950105 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
10950043 TTAAAAACAT
*
10950053 TTTTTAGATTTGTTT-TGTTTTGTTTTA
1 TTTTCAGATTTGTTTCTGTTTT-TTTTA
**
10950080 TTTTCATTTTTGTTTCTGTTTTTTTT
1 TTTTCAGATTTGTTTCTGTTTTTTTT
10950106 CTTGCAAACA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 16 0.73
28 6 0.27
ACGTcount: A:0.08, C:0.04, G:0.11, T:0.77
Consensus pattern (27 bp):
TTTTCAGATTTGTTTCTGTTTTTTTTA
Found at i:10950090 original size:22 final size:22
Alignment explanation
Indices: 10950065--10950106 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
10950055 TTTAGATTTG
10950065 TTTTGTTT-TGTTTTATTTTCAT
1 TTTTGTTTCTGTTTT-TTTTCAT
10950087 TTTTGTTTCTGTTTTTTTTC
1 TTTTGTTTCTGTTTTTTTTC
10950107 TTGCAAACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.05, C:0.07, G:0.10, T:0.79
Consensus pattern (22 bp):
TTTTGTTTCTGTTTTTTTTCAT
Found at i:10950567 original size:20 final size:19
Alignment explanation
Indices: 10950529--10950582 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 19
10950519 CGTATGAAAA
10950529 TTTTTCTTTTCATTTTTTGG-
1 TTTTT-TTTT-ATTTTTTGGC
10950549 TTTGTTTTTTATTTGTTTGGC
1 TTT-TTTTTTATTT-TTTGGC
10950570 TTTTTTTGTTATT
1 TTTTTTT-TTATT
10950583 GAAAGTGGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
19 4 0.13
20 16 0.53
21 10 0.33
ACGTcount: A:0.06, C:0.06, G:0.13, T:0.76
Consensus pattern (19 bp):
TTTTTTTTTATTTTTTGGC
Found at i:10951350 original size:21 final size:21
Alignment explanation
Indices: 10951303--10951356 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
10951293 ATTGATACAC
* *
10951303 ATATTTTATTCTTTTTTTTAG
1 ATATTTTATTATTTTTATTAG
*
10951324 AAATTTTATTGATTTTTATTA-
1 ATATTTTATT-ATTTTTATTAG
10951345 ATATTTTCATTA
1 ATATTTT-ATTA
10951357 AAAAAATGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
21 16 0.59
22 11 0.41
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.65
Consensus pattern (21 bp):
ATATTTTATTATTTTTATTAG
Found at i:10953070 original size:11 final size:11
Alignment explanation
Indices: 10953054--10953084 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
10953044 TTAACAAAAC
10953054 AAAATAAAATA
1 AAAATAAAATA
*
10953065 AAAATAAACTA
1 AAAATAAAATA
10953076 AAAATAAAA
1 AAAATAAAA
10953085 AGTGGATCAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.16
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:10953678 original size:2 final size:2
Alignment explanation
Indices: 10953666--10953697 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
10953656 CACCAGTGCT
10953666 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10953698 GAATAAGCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:10959611 original size:27 final size:27
Alignment explanation
Indices: 10959573--10959693 Score: 109
Period size: 27 Copynumber: 4.3 Consensus size: 27
10959563 CCTGCCACCG
*
10959573 CCACCACGTCCTCCTCCATGTCCTCCA
1 CCACCACATCCTCCTCCATGTCCTCCA
10959600 CCACCACATCCTCCTCCATGT-CTGCCA
1 CCACCACATCCTCCTCCATGTCCT-CCA
* * ***
10959627 CCACCACCACCACGTTCTCCGCCTCCGTATCCA
1 CCACCA-CATC-C-TCCTCCATGTCC---TCCA
*
10959660 CTACCACATCCTCCTCCATGTCCTCCA
1 CCACCACATCCTCCTCCATGTCCTCCA
10959687 CCACCAC
1 CCACCAC
10959694 CACCACCACC
Statistics
Matches: 73, Mismatches: 13, Indels: 16
0.72 0.13 0.16
Matches are distributed among these distances:
26 2 0.03
27 39 0.53
28 3 0.04
29 1 0.01
30 14 0.19
31 2 0.03
32 3 0.04
33 8 0.11
34 1 0.01
ACGTcount: A:0.18, C:0.55, G:0.07, T:0.21
Consensus pattern (27 bp):
CCACCACATCCTCCTCCATGTCCTCCA
Found at i:10959701 original size:66 final size:66
Alignment explanation
Indices: 10959624--10959751 Score: 220
Period size: 66 Copynumber: 1.9 Consensus size: 66
10959614 TCCATGTCTG
* * *
10959624 CCACCACCACCACCACGTTCTCCGCCTCCGTATCCACTACCACATCCTCCTCCATGTCCTCCACC
1 CCACCACCACCACCACGTCCTCCGCCTCCGTATCCACCACCACATCCTCCACCATGTCCTCCACC
10959689 A
66 A
*
10959690 CCACCACCACCACCACGTCCTCCGCCTCCGTATCCACCACCACATCCTCCACCGTGTCCTCC
1 CCACCACCACCACCACGTCCTCCGCCTCCGTATCCACCACCACATCCTCCACCATGTCCTCC
10959752 TCCATAACAA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 58 1.00
ACGTcount: A:0.19, C:0.56, G:0.07, T:0.18
Consensus pattern (66 bp):
CCACCACCACCACCACGTCCTCCGCCTCCGTATCCACCACCACATCCTCCACCATGTCCTCCACC
A
Found at i:10964344 original size:9 final size:9
Alignment explanation
Indices: 10964332--10964384 Score: 52
Period size: 9 Copynumber: 5.8 Consensus size: 9
10964322 AACTAATTTT
10964332 TAAAATTAA
1 TAAAATTAA
*
10964341 TAAATTTAA
1 TAAAATTAA
**
10964350 TTCAATTAA
1 TAAAATTAA
*
10964359 TAAAATAAAA
1 TAAAAT-TAA
10964369 TAAAATTAA
1 TAAAATTAA
*
10964378 TTAAATT
1 TAAAATT
10964385 TTAAATAATT
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
9 26 0.76
10 8 0.24
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (9 bp):
TAAAATTAA
Found at i:10968449 original size:16 final size:17
Alignment explanation
Indices: 10968408--10968449 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
10968398 TTGAACCGTC
* *
10968408 ATTCCAAATTGAGATTA
1 ATTCTAAATTGAAATTA
10968425 ATTCT-AATTGAAATT-
1 ATTCTAAATTGAAATTA
10968440 ATTCTAAATT
1 ATTCTAAATT
10968450 CAAGTTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 5 0.23
16 13 0.59
17 4 0.18
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.43
Consensus pattern (17 bp):
ATTCTAAATTGAAATTA
Found at i:10973328 original size:3 final size:3
Alignment explanation
Indices: 10973322--10973349 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
10973312 CATTTTTTTT
10973322 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
10973350 CATTGAATGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:10973669 original size:20 final size:19
Alignment explanation
Indices: 10973644--10973685 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 19
10973634 TCAAGTTAAA
*
10973644 TTATATATTATTATTAATTT
1 TTATATATTATT-TAAATTT
10973664 TTATATATTATTTAAATTT
1 TTATATATTATTTAAATTT
10973683 TTA
1 TTA
10973686 AAAAATAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
TTATATATTATTTAAATTT
Found at i:10973672 original size:17 final size:20
Alignment explanation
Indices: 10973647--10973685 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
10973637 AGTTAAATTA
10973647 TATATTATTA-TT-AATTTT
1 TATATTATTATTTAAATTTT
10973665 TATA-TATTATTTAAATTTT
1 TATATTATTATTTAAATTTT
10973684 TA
1 TA
10973686 AAAAATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 5 0.26
18 6 0.32
19 8 0.42
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (20 bp):
TATATTATTATTTAAATTTT
Found at i:10973683 original size:18 final size:18
Alignment explanation
Indices: 10973639--10973683 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
10973629 TCAAATCAAG
*
10973639 TTAAATTATATATTATTA
1 TTAAATTTTATATTATTA
*
10973657 TTAATTTTTATA-TATTA
1 TTAAATTTTATATTATTA
10973674 TTTAAATTTT
1 -TTAAATTTT
10973684 TAAAAAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TTAAATTTTATATTATTA
Found at i:10974084 original size:32 final size:32
Alignment explanation
Indices: 10974048--10974113 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
10974038 TTTCACACCC
*
10974048 ATATGTTCTTACTTTAAAATAGAATTATTTCT
1 ATATGTTCTTACTTTAAAATAAAATTATTTCT
10974080 ATATGTTCTTACTTTAAAATAAAATTATTTCT
1 ATATGTTCTTACTTTAAAATAAAATTATTTCT
10974112 AT
1 AT
10974114 CATTTAAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.36, C:0.09, G:0.05, T:0.50
Consensus pattern (32 bp):
ATATGTTCTTACTTTAAAATAAAATTATTTCT
Found at i:10976241 original size:2 final size:2
Alignment explanation
Indices: 10976234--10976270 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
10976224 CATATGTATG
* *
10976234 GA GA GA GA GA AA GC GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
10976271 GAACTATAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.03, G:0.49, T:0.00
Consensus pattern (2 bp):
GA
Found at i:10988489 original size:13 final size:13
Alignment explanation
Indices: 10988467--10988503 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
10988457 TTTTTTATTT
10988467 AAAT-TTAAATTA
1 AAATATTAAATTA
10988479 AAATATTAAA-TA
1 AAATATTAAATTA
10988491 AATATATTAAATT
1 AA-ATATTAAATT
10988504 TGAATCGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 8 0.36
13 13 0.59
14 1 0.05
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
AAATATTAAATTA
Found at i:10988581 original size:18 final size:20
Alignment explanation
Indices: 10988550--10988587 Score: 53
Period size: 18 Copynumber: 2.0 Consensus size: 20
10988540 TCAAATTGAA
*
10988550 TTATATATTATTTTTAATTT
1 TTATATATTATTTTAAATTT
10988570 TTATATA-T-TTTTAAATTT
1 TTATATATTATTTTAAATTT
10988588 AAAAAAATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 9 0.53
19 1 0.06
20 7 0.41
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (20 bp):
TTATATATTATTTTAAATTT
Found at i:10988878 original size:21 final size:20
Alignment explanation
Indices: 10988853--10988902 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
10988843 ATTGAGTAAA
10988853 TAAAATTAAATATTTTG-TTTT
1 TAAAATTAAA-A-TTTGATTTT
*
10988874 TAAAATTTAAATTTGATTTT
1 TAAAATTAAAATTTGATTTT
*
10988894 TATAATTAA
1 TAAAATTAA
10988903 TTTTTAATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 4 0.16
20 12 0.48
21 9 0.36
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (20 bp):
TAAAATTAAAATTTGATTTT
Found at i:10988916 original size:18 final size:18
Alignment explanation
Indices: 10988895--10988929 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10988885 TTTGATTTTT
* *
10988895 ATAATTAATTTTTAATTA
1 ATAAATAATTTATAATTA
10988913 ATAAATAATTTATAATT
1 ATAAATAATTTATAATT
10988930 TTAATATAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
ATAAATAATTTATAATTA
Found at i:10991119 original size:2 final size:2
Alignment explanation
Indices: 10991114--10991155 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
10991104 TATATATGAA
10991114 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
10991156 CGATAGAGGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:10992011 original size:3 final size:3
Alignment explanation
Indices: 10992003--10992049 Score: 67
Period size: 3 Copynumber: 15.7 Consensus size: 3
10991993 ACTGTTTTGC
* * *
10992003 ATT ATT ATT ATT ATT ATT GTT TTT ATT ATT ATT ATT ATT GTT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
10992050 ATGCACACTC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:10995218 original size:18 final size:19
Alignment explanation
Indices: 10995197--10995236 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
10995187 ATAAGAGCTG
10995197 CAATACAAAG-ATACAGAC
1 CAATACAAAGAATACAGAC
* *
10995215 CAATACAACGAATATAGAC
1 CAATACAAAGAATACAGAC
10995234 CAA
1 CAA
10995237 GTAAATAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.55, C:0.23, G:0.10, T:0.12
Consensus pattern (19 bp):
CAATACAAAGAATACAGAC
Found at i:10999038 original size:17 final size:17
Alignment explanation
Indices: 10999016--10999050 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
10999006 ATGACAGTTG
10999016 CGGATCTAATGAAGTAT
1 CGGATCTAATGAAGTAT
10999033 CGGATCTAATGAAGTAT
1 CGGATCTAATGAAGTAT
10999050 C
1 C
10999051 CGTCCAGCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (17 bp):
CGGATCTAATGAAGTAT
Found at i:11001261 original size:17 final size:17
Alignment explanation
Indices: 11001239--11001283 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
11001229 AATTTTCAGA
11001239 TTTAAAATTTTAAAAAT
1 TTTAAAATTTTAAAAAT
* * *
11001256 TTTAAAATCTGAAAATT
1 TTTAAAATTTTAAAAAT
11001273 TTTAAAATTTT
1 TTTAAAATTTT
11001284 TTAATTTGCA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (17 bp):
TTTAAAATTTTAAAAAT
Done.