Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 44 of 427
Found at i:10812392 original size:134 final size:134
Alignment explanation
Indices: 10812076--10812473 Score: 352
Period size: 134 Copynumber: 3.0 Consensus size: 134
10812066 ACTCCGCTGG
* * * * * *
10812076 AACTTCAAGGAGGTAAGAGTTGGTAATTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTT
1 AACTTCAGGGAGATAAGACTT-GTTACTTCAACCTGCTCCACTGCAACTTCAAGGAGATAAGGTT
* * * * * * *
10812141 TG-TGGTCTTTAGTCTGCTCCACTGCAACTTTAAAGAGATAAAACTTGCTA-CTTCAACCTGCTC
65 TGCT-ATCTTCAATCTGCTCCACTGCAACTTTAAGGAGATAAGACCTGCTATTTTCAACCTGCTC
* *
10812204 TACTGC
129 CACTAC
* ** * * ** * *
10812210 AACTTCAGAGAGATAAGGTTTGTTATCTTCGATCTATTCCGCTGCAACTTCAAGGAGATAAGATT
1 AACTTCAGGGAGATAAGACTTGTTA-CTTCAACCTGCTCCACTGCAACTTCAAGGAGATAAGGTT
* * ***
10812275 TGCTATCCTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGACCTGCTATTTTCAGTTTGCTCC
65 TGCTATCTTCAATCTGCTCCACTGCAACTTTAAGGAGATAAGACCTGCTATTTTCAACCTGCTCC
10812340 ACTAC
130 ACTAC
* * *
10812345 AACTTCAGGGAGATAAGACTTGTTACTTCAACCTGCTCTACTACAACTTC-AGAGAAATAAGGTT
1 AACTTCAGGGAGATAAGACTTGTTACTTCAACCTGCTCCACTGCAACTTCAAG-GAGATAAGGTT
* * * * ** * * * * *
10812409 TTCCATTTTCGATCTGCTCCGTTGCAACTTCAAGGAGATAAGATCTACTATTTTTAGCCTGCTCC
65 TGCTATCTTCAATCTGCTCCACTGCAACTTTAAGGAGATAAGACCTGCTATTTTCAACCTGCTCC
10812474 TTTGCTACCT
Statistics
Matches: 206, Mismatches: 54, Indels: 8
0.77 0.20 0.03
Matches are distributed among these distances:
133 5 0.02
134 165 0.80
135 36 0.17
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (134 bp):
AACTTCAGGGAGATAAGACTTGTTACTTCAACCTGCTCCACTGCAACTTCAAGGAGATAAGGTTT
GCTATCTTCAATCTGCTCCACTGCAACTTTAAGGAGATAAGACCTGCTATTTTCAACCTGCTCCA
CTAC
Found at i:10812462 original size:45 final size:45
Alignment explanation
Indices: 10812062--10812495 Score: 229
Period size: 45 Copynumber: 9.7 Consensus size: 45
10812052 TATATCTTCG
* * * * * *
10812062 ATCTACTCCGCTGGAACTTCAAGGAGGTAAGAGT-TGGTAATTTCA
1 ATCTGCTCCACTGCAACTTCAAGGAGATAAGA-TCTGCTATTTTCA
* * * * *
10812107 ACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTG-TGGTCTTT-A
1 ATCTGCTCCACTGCAACTTCAAGGAGATAAGATCTGCT-AT-TTTCA
* * * * *
10812152 GTCTGCTCCACTGCAACTTTAAAGAGATAA-AACTTGCTA-CTTCA
1 ATCTGCTCCACTGCAACTTCAAGGAGATAAGATC-TGCTATTTTCA
* * * * * * *
10812196 ACCTGCTCTACTGCAACTTC-AGAGAGATAAGGTTTGTTATCTTCG
1 ATCTGCTCCACTGCAACTTCAAG-GAGATAAGATCTGCTATTTTCA
** * * **
10812241 ATCTATTCCGCTGCAACTTCAAGGAGATAAGATTTGCTATCCTCA
1 ATCTGCTCCACTGCAACTTCAAGGAGATAAGATCTGCTATTTTCA
* * *
10812286 ATCTGCTCCACTGCAACTTTAGGGAGATAAGACCTGCTATTTTCA
1 ATCTGCTCCACTGCAACTTCAAGGAGATAAGATCTGCTATTTTCA
* * * * * *
10812331 GTTTGCTCCACTACAACTTCAGGGAGATAAGA-CTTGTTA-CTTCA
1 ATCTGCTCCACTGCAACTTCAAGGAGATAAGATC-TGCTATTTTCA
* * * * * * * * *
10812375 ACCTGCTCTACTACAACTTC-AGAGAAATAAGGTTTTCCATTTTCG
1 ATCTGCTCCACTGCAACTTCAAG-GAGATAAGATCTGCTATTTTCA
** * *
10812420 ATCTGCTCCGTTGCAACTTCAAGGAGATAAGATCTACTATTTTTA
1 ATCTGCTCCACTGCAACTTCAAGGAGATAAGATCTGCTATTTTCA
** ** * *
10812465 GCCTGCTCCTTTGCTACCTCAAGGAGATAAG
1 ATCTGCTCCACTGCAACTTCAAGGAGATAAG
10812496 GCTGGTGGCT
Statistics
Matches: 291, Mismatches: 83, Indels: 30
0.72 0.21 0.07
Matches are distributed among these distances:
43 4 0.01
44 60 0.21
45 219 0.75
46 8 0.03
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.31
Consensus pattern (45 bp):
ATCTGCTCCACTGCAACTTCAAGGAGATAAGATCTGCTATTTTCA
Found at i:10812580 original size:89 final size:88
Alignment explanation
Indices: 10812476--10812672 Score: 252
Period size: 89 Copynumber: 2.2 Consensus size: 88
10812466 CCTGCTCCTT
* * * *
10812476 TGCTACCTCAAGGAGATAAGGCTGGTGGCTTAAATCTGCTTTATTACCGCTACATGGAGATAAGA
1 TGCTA-CTCAGGGAGATAAGGCTGGTGGCCTAAATCTGCTCTATTACCGCTACATGGAGATAAAA
*
10812541 TTCACCGTCTTT-GATCTACCCCAC
65 TTCACCAT-TTTCGATCTACCCCAC
* * * * *
10812565 TGCTACTTTAGGGAGATGAGGCTGGTGGCCTAAATCTGCTCTATTGCTGCTTCATGGAGATAAAA
1 TGCTAC-TCAGGGAGATAAGGCTGGTGGCCTAAATCTGCTCTATTACCGCTACATGGAGATAAAA
* *
10812630 TTCACCATTTTCGATCTGCTCCAC
65 TTCACCATTTTCGATCTACCCCAC
10812654 TGCTACTCAGGGAGATAAG
1 TGCTACTCAGGGAGATAAG
10812673 ATCTACAATC
Statistics
Matches: 92, Mismatches: 14, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
88 15 0.16
89 77 0.84
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (88 bp):
TGCTACTCAGGGAGATAAGGCTGGTGGCCTAAATCTGCTCTATTACCGCTACATGGAGATAAAAT
TCACCATTTTCGATCTACCCCAC
Found at i:10812758 original size:132 final size:132
Alignment explanation
Indices: 10812622--10813364 Score: 803
Period size: 132 Copynumber: 5.6 Consensus size: 132
10812612 TGCTTCATGG
* * ** * * * *
10812622 AGATAAAATTCACCATTTTCGATCTGCTCCACTGCTACTCAGGGAGATAAGATCTACAATCTTTA
1 AGATAAGATTCACCGTCCTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGCAATCTTCA
* * * * * * *
10812687 GCTTG-TCCCACTGCCGCTTAGGGATATAAGGCTAGTGGCTTAAATCTAC-TCTCTTGCTACCTC
66 GCCTGCT-CCACTGCTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTC-CCTACTACCTC
10812750 AGAA
129 AGAA
* * *
10812754 AGATAAGATTCACCGTCCTCGATATGCTCCACTATTGCTTAGGGAGATACA-ATCTGCAATCTTC
1 AGATAAGATTCACCGTCCTCGATCTGCTCCACTACTACTTAGGGAGATA-AGATCTGCAATCTTC
** * * *
10812818 AGCCTGCTCCACTATTGCTCAGGGAGATAAGGCCAGTGGCTTAAATCTGCTTCCCTACTACTTCG
65 AGCCTGCTCCACTGCTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCA
*
10812883 GGA
130 GAA
* *** * * * *
10812886 GGATAAGATTTGTCATCCTCGATCTGCTCCACTATTACTTAGCGAGATAAGATCTGTAATCTTCA
1 AGATAAGATTCACCGTCCTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGCAATCTTCA
* *
10812951 GCCTGCTCCACTGCTGCTCAGGGAGATAAAGCTAGTGGCTTAAATCTGCTTCCCTACTACCT-TG
66 GCCTGCTCCACTGCTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCAG
10813015 AGA
131 A-A
** * * ** *
10813018 AGATAAGATTCGTCGTCCTTGATCTGCTCCGCTACTGGTTAGGAAGATAAGATCTGCAATCTTCA
1 AGATAAGATTCACCGTCCTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGCAATCTTCA
* * * * * * **
10813083 GCCTTCTCTACTTCTGCTTAGGGAGATAAGGCTAATGGTTTAAATCTGCTTCATTACTACCTCA-
66 GCCTGCTCCACTGCTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCAG
10813147 AGA
131 A-A
** * * * * *
10813150 AGATAAGATTCGTCGTCTTCGATCTGCTCTACTACTGCTTAGGGAGATATGATCTGTAATCTTCA
1 AGATAAGATTCACCGTCCTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGCAATCTTCA
* * * * * *
10813215 GCCTGCTCTACTGCTGCTCAGGGAGATAAGCCTAATGGCTTAAATATACTTCCCTACTACCTCGG
66 GCCTGCTCCACTGCTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCAG
10813280 AA
131 AA
* * *
10813282 AGATAAGATTCACCGTCCTCGGTCTCCTCCACTACTACTTAGGGAGATAAGATCTGTAATCTTCA
1 AGATAAGATTCACCGTCCTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGCAATCTTCA
* *
10813347 ACCTGCTCCACTACTGCT
66 GCCTGCTCCACTGCTGCT
10813365 TAAGGAGACA
Statistics
Matches: 514, Mismatches: 90, Indels: 14
0.83 0.15 0.02
Matches are distributed among these distances:
131 2 0.00
132 507 0.99
133 5 0.01
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (132 bp):
AGATAAGATTCACCGTCCTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGCAATCTTCA
GCCTGCTCCACTGCTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCAG
AA
Found at i:10812957 original size:44 final size:44
Alignment explanation
Indices: 10812778--10812962 Score: 135
Period size: 44 Copynumber: 4.2 Consensus size: 44
10812768 GTCCTCGATA
* *
10812778 TGCTCCACTATTGCTTAGGGAGATACA-ATCTGCAATCTTCAGCC
1 TGCTCCACTATTACTTAGGGAGATA-AGATCTGTAATCTTCAGCC
* * ** * ** * **
10812822 TGCTCCACTATTGCTCAGGGAGATAAGGCCAGT-GGCTTAAATC
1 TGCTCCACTATTACTTAGGGAGATAAGATCTGTAATCTTCAGCC
* * * * * *
10812865 TGCTTCC-CTACTACTTCGGGAGGATAAGATTTGTCATCCTC-GATC
1 TGC-TCCACTATTACTTAGGGA-GATAAGATCTGTAATCTTCAG-CC
*
10812910 TGCTCCACTATTACTTAGCGAGATAAGATCTGTAATCTTCAGCC
1 TGCTCCACTATTACTTAGGGAGATAAGATCTGTAATCTTCAGCC
10812954 TGCTCCACT
1 TGCTCCACT
10812963 GCTGCTCAGG
Statistics
Matches: 104, Mismatches: 30, Indels: 14
0.70 0.20 0.09
Matches are distributed among these distances:
43 19 0.18
44 66 0.63
45 19 0.18
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.30
Consensus pattern (44 bp):
TGCTCCACTATTACTTAGGGAGATAAGATCTGTAATCTTCAGCC
Found at i:10813356 original size:44 final size:44
Alignment explanation
Indices: 10813308--10813552 Score: 151
Period size: 44 Copynumber: 5.6 Consensus size: 44
10813298 CCTCGGTCTC
*
10813308 CTCCACTACTACTTAGGGAGATAAGATCTGTAATCTTCAACCTG
1 CTCCACTACTACTTAGGGAGATAAGATCTGCAATCTTCAACCTG
* * * * *
10813352 CTCCACTACTGCTTAAGGAGACAAAATCTGCAATCTTCAACATG
1 CTCCACTACTACTTAGGGAGATAAGATCTGCAATCTTCAACCTG
* * * * * * * * *
10813396 CTCTACTGCTGCTCAGGGAGATAAG-GCTAG-TAGCTTAAATCTG
1 CTCCACTACTACTTAGGGAGATAAGATCT-GCAATCTTCAACCTG
* * * * * *
10813439 CTTCC-CTACTA-TCTCGAGAAGATAAGAT-T-CACCGTCCTCGATCTG
1 C-TCCACTACTACT-TAG-GGAGATAAGATCTGCA--ATCTTCAACCTG
** * *
10813484 CTCCACTACTGTTTAGGGAGATAAGATCTACAATCTTCAGCCTG
1 CTCCACTACTACTTAGGGAGATAAGATCTGCAATCTTCAACCTG
**
10813528 CTCCACTGTTACTTAGGGAGATAAG
1 CTCCACTACTACTTAGGGAGATAAG
10813553 GCTAATGGCT
Statistics
Matches: 146, Mismatches: 43, Indels: 24
0.69 0.20 0.11
Matches are distributed among these distances:
42 1 0.01
43 16 0.11
44 110 0.75
45 16 0.11
46 3 0.02
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.28
Consensus pattern (44 bp):
CTCCACTACTACTTAGGGAGATAAGATCTGCAATCTTCAACCTG
Found at i:10813366 original size:264 final size:263
Alignment explanation
Indices: 10812639--10813372 Score: 900
Period size: 264 Copynumber: 2.8 Consensus size: 263
10812629 ATTCACCATT
* * ** * * *
10812639 TTCGATCTGCTCCACTGCTACTCAGGGAGATAAGATCTACAATCTTTAGCTTG-TCCCACTGCCG
1 TTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATCTTCAGCCTGCT-CCACTGCTG
* * * *
10812703 CTTAGGGATATAAGGCTAGTGGCTTAAATCTAC-TCTCTTGCTACCTCAGAAAGATAAGATTCAC
65 CTCAGGGAGATAA-GCTAGTGGCTTAAATCTACTTC-CCTACTACCTCAGAAAGATAAGATTCAC
* *
10812767 CGTCCTCGATATGCTCCACTATTGCTTAGGGAGATACA-ATCTGCAATCTTCAGCCTGCTCCACT
128 CGTCCTCGATCTGCTCCACTACTGCTTAGGGAGATA-AGATCTGCAATCTTCAGCCTGCTCCACT
* * * * * ** *
10812831 ATTGCTCAGGGAGATAAGGCCAGTGGCTTAAATCTGCTTCCCTACTACTTCGGGAGGATAAGATT
192 ACTGCTTAGGGAGATAAGGCCAATGGCTTAAATCTGCTTCACTACTACCTCAAGAAGATAAGATT
*
10812896 TGTCATC
257 CGTCATC
* * *
10812903 CTCGATCTGCTCCACTATTACTTAGCGAGATAAGATCTGTAATCTTCAGCCTGCTCCACTGCTGC
1 TTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATCTTCAGCCTGCTCCACTGCTGC
* * **
10812968 TCAGGGAGATAAAGCTAGTGGCTTAAATCTGCTTCCCTACTACCT-TGAGAAGATAAGATTCGTC
66 TCAGGGAGAT-AAGCTAGTGGCTTAAATCTACTTCCCTACTACCTCAGA-AAGATAAGATTCACC
* * * * * * *
10813032 GTCCTTGATCTGCTCCGCTACTGGTTAGGAAGATAAGATCTGCAATCTTCAGCCTTCTCTACTTC
129 GTCCTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAGCCTGCTCCACTAC
* * *
10813097 TGCTTAGGGAGATAAGGCTAATGGTTTAAATCTGCTTCATTACTACCTCAAGAAGATAAGATTCG
194 TGCTTAGGGAGATAAGGCCAATGGCTTAAATCTGCTTCACTACTACCTCAAGAAGATAAGATTCG
*
10813162 TCGTC
259 TCATC
* * * *
10813167 TTCGATCTGCTCTACTACTGCTTAGGGAGATATGATCTGTAATCTTCAGCCTGCTCTACTGCTGC
1 TTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATCTTCAGCCTGCTCCACTGCTGC
* * *
10813232 TCAGGGAGATAAGCCTAATGGCTTAAATATACTTCCCTACTACCTCGGAAAGATAAGATTCACCG
66 TCAGGGAGATAAG-CTAGTGGCTTAAATCTACTTCCCTACTACCTCAGAAAGATAAGATTCACCG
* * * * *
10813297 TCCTCGGTCTCCTCCACTACTACTTAGGGAGATAAGATCTGTAATCTTCAACCTGCTCCACTACT
130 TCCTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAGCCTGCTCCACTACT
*
10813362 GCTTAAGGAGA
195 GCTTAGGGAGA
10813373 CAAAATCTGC
Statistics
Matches: 397, Mismatches: 66, Indels: 14
0.83 0.14 0.03
Matches are distributed among these distances:
263 6 0.02
264 384 0.97
265 7 0.02
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.30
Consensus pattern (263 bp):
TTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATCTTCAGCCTGCTCCACTGCTGC
TCAGGGAGATAAGCTAGTGGCTTAAATCTACTTCCCTACTACCTCAGAAAGATAAGATTCACCGT
CCTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAGCCTGCTCCACTACTG
CTTAGGGAGATAAGGCCAATGGCTTAAATCTGCTTCACTACTACCTCAAGAAGATAAGATTCGTC
ATC
Found at i:10813400 original size:176 final size:176
Alignment explanation
Indices: 10813173--10813534 Score: 519
Period size: 176 Copynumber: 2.1 Consensus size: 176
10813163 CGTCTTCGAT
* * * ** * * *
10813173 CTGCTCTACTACTGCTTAGGGAGATATGATCTGTAATCTTCAGCCTGCTCTACTGCTGCTCAGGG
1 CTGCTCCACTACTGCTTAAGGAGACAAAATCTGCAATCTTCAACATGCTCTACTGCTGCTCAGGG
*
10813238 AGATAAGCCTAATGGCTTAAATATACTTCCCTACTACCTCG-GAAAGATAAGATTCACCGTCCTC
66 AGATAAGCCTAATAGCTTAAATATACTTCCCTACTACCTCGAG-AAGATAAGATTCACCGTCCTC
* **
10813302 GGTCTCCTCCACTACTACTTAGGGAGATAAGATCTGTAATCTTCAAC
130 GATCTCCTCCACTACTACTTAGGGAGATAAGATCTACAATCTTCAAC
10813349 CTGCTCCACTACTGCTTAAGGAGACAAAATCTGCAATCTTCAACATGCTCTACTGCTGCTCAGGG
1 CTGCTCCACTACTGCTTAAGGAGACAAAATCTGCAATCTTCAACATGCTCTACTGCTGCTCAGGG
* * * * *
10813414 AGATAAGGCTAGTAGCTTAAATCTGCTTCCCTACTATCTCGAGAAGATAAGATTCACCGTCCTCG
66 AGATAAGCCTAATAGCTTAAATATACTTCCCTACTACCTCGAGAAGATAAGATTCACCGTCCTCG
* ** *
10813479 ATCTGCTCCACTACTGTTTAGGGAGATAAGATCTACAATCTTCAGC
131 ATCTCCTCCACTACTACTTAGGGAGATAAGATCTACAATCTTCAAC
10813525 CTGCTCCACT
1 CTGCTCCACT
10813535 GTTACTTAGG
Statistics
Matches: 164, Mismatches: 21, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
176 163 0.99
177 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.29
Consensus pattern (176 bp):
CTGCTCCACTACTGCTTAAGGAGACAAAATCTGCAATCTTCAACATGCTCTACTGCTGCTCAGGG
AGATAAGCCTAATAGCTTAAATATACTTCCCTACTACCTCGAGAAGATAAGATTCACCGTCCTCG
ATCTCCTCCACTACTACTTAGGGAGATAAGATCTACAATCTTCAAC
Found at i:10813440 original size:308 final size:308
Alignment explanation
Indices: 10813041--10813646 Score: 838
Period size: 308 Copynumber: 2.0 Consensus size: 308
10813031 CGTCCTTGAT
* * * * * * * * *
10813041 CTGCTCCGCTACTGGTTAGGAAGATAAGATCTGCAATCTTCAGCCTTCTCTACTTCTGCTTAGGG
1 CTGCTCCACTACTGCTTAGGAAGACAAAATCTGCAATCTTCAACATGCTCTACTGCTGCTCAGGG
* * * ** *
10813106 AGATAAGGCTAATGGTTTAAATCTGCTTCATTACTACCTCAAGAAGATAAGATTCGTCGTCTTCG
66 AGATAAGGCTAATAGCTTAAATCTGCTTCACTACTACCTCAAGAAGATAAGATTCACCGTCCTCG
* * ** * *
10813171 ATCTGCTCTACTACTGCTTAGGGAGATATGATCTGTAATCTTCAGCCTGCTCTACTGCTGCTCAG
131 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTGCTCCACTGCTACTCAG
*
10813236 GGAGATAAGCCTAATGGCTTAAATATACTTCCCTACTACCTCG-GAAAGATAAGATTCACCGTCC
196 GGAGATAAGCCTAATGGCTTAAATATACTTCCCTACTACCTCGAG-AAGATAAGATTCACCATCC
* *
10813300 TCGGTCTCCTCCACTACTACTTAGGGAGATAAGATCTGTAATCTTCAAC
260 TCGATCTCCTCCACTACTACTTAGGAAGATAAGATCTGTAATCTTCAAC
10813349 CTGCTCCACTACTGCTTAAGG-AGACAAAATCTGCAATCTTCAACATGCTCTACTGCTGCTCAGG
1 CTGCTCCACTACTGCTT-AGGAAGACAAAATCTGCAATCTTCAACATGCTCTACTGCTGCTCAGG
* * * *
10813413 GAGATAAGGCTAGTAGCTTAAATCTGCTTCCCTACTATCTCGAGAAGATAAGATTCACCGTCCTC
65 GAGATAAGGCTAATAGCTTAAATCTGCTTCACTACTACCTCAAGAAGATAAGATTCACCGTCCTC
* * *
10813478 GATCTGCTCCACTACTGTTTAGGGAGATAAGATCTACAATCTTCAGCCTGCTCCACTGTTACTTA
130 GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTGCTCCACTGCTACTCA
* * * *
10813543 GGGAGATAAGGCTAATGGCTTAAATCTGCTTCCCTACTACCTCGAGAAGATAAGATTCATCATCC
195 GGGAGATAAGCCTAATGGCTTAAATATACTTCCCTACTACCTCGAGAAGATAAGATTCACCATCC
* * *
10813608 TTGATCTGCTCCACTACTGCTTAGGAAGATAAGATCTGT
260 TCGATCTCCTCCACTACTACTTAGGAAGATAAGATCTGT
10813647 GAATTCAAAG
Statistics
Matches: 258, Mismatches: 38, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
308 254 0.98
309 4 0.02
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.30
Consensus pattern (308 bp):
CTGCTCCACTACTGCTTAGGAAGACAAAATCTGCAATCTTCAACATGCTCTACTGCTGCTCAGGG
AGATAAGGCTAATAGCTTAAATCTGCTTCACTACTACCTCAAGAAGATAAGATTCACCGTCCTCG
ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTGCTCCACTGCTACTCAG
GGAGATAAGCCTAATGGCTTAAATATACTTCCCTACTACCTCGAGAAGATAAGATTCACCATCCT
CGATCTCCTCCACTACTACTTAGGAAGATAAGATCTGTAATCTTCAAC
Found at i:10813632 original size:132 final size:132
Alignment explanation
Indices: 10813349--10813644 Score: 430
Period size: 132 Copynumber: 2.2 Consensus size: 132
10813339 AATCTTCAAC
* * * * * *
10813349 CTGCTCCACTACTGCTTAAGGAGACAAAATCTGCAATCTTCAACATGCTCTACTGCTGCTCAGGG
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACATGCTCCACTGCTACTCAGGG
* * *
10813414 AGATAAGGCTAGTAGCTTAAATCTGCTTCCCTACTATCTCGAGAAGATAAGATTCACCGTCCTCG
66 AGATAAGGCTAATAGCTTAAATCTGCTTCCCTACTACCTCGAGAAGATAAGATTCACCATCCTCG
10813479 AT
131 AT
* * * * *
10813481 CTGCTCCACTACTGTTTAGGGAGATAAGATCTACAATCTTCAGCCTGCTCCACTGTTACTTAGGG
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACATGCTCCACTGCTACTCAGGG
* * *
10813546 AGATAAGGCTAATGGCTTAAATCTGCTTCCCTACTACCTCGAGAAGATAAGATTCATCATCCTTG
66 AGATAAGGCTAATAGCTTAAATCTGCTTCCCTACTACCTCGAGAAGATAAGATTCACCATCCTCG
10813611 AT
131 AT
*
10813613 CTGCTCCACTACTGCTTAGGAAGATAAGATCT
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCT
10813645 GTGAATTCAA
Statistics
Matches: 145, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
132 145 1.00
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (132 bp):
CTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACATGCTCCACTGCTACTCAGGG
AGATAAGGCTAATAGCTTAAATCTGCTTCCCTACTACCTCGAGAAGATAAGATTCACCATCCTCG
AT
Found at i:10814448 original size:30 final size:30
Alignment explanation
Indices: 10814414--10814472 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
10814404 TCTTTTATGA
10814414 AAGTATTATTAGTCCACTAATCATTATTTC
1 AAGTATTATTAGTCCACTAATCATTATTTC
*
10814444 AAGTATTATTAGTCCACTAATCGTTATTT
1 AAGTATTATTAGTCCACTAATCATTATTT
10814473 TAATGCAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.32, C:0.15, G:0.08, T:0.44
Consensus pattern (30 bp):
AAGTATTATTAGTCCACTAATCATTATTTC
Found at i:10820744 original size:89 final size:88
Alignment explanation
Indices: 10820651--10820923 Score: 240
Period size: 89 Copynumber: 3.1 Consensus size: 88
10820641 CGATACATGG
10820651 AGATAAGATTCGCCTCTTTCGATCTGCTCCACTACAGCTTAGGGAGATAAGATCTTCAATCTTCA
1 AGATAAGATTCGCCTCTTTCGATCTGCTCCACTAC-GCTTAGGGAGATAAGATCTTCAATCTTCA
*
10820716 GTCTGCTTCCTTGCTACATCAAGA
65 GTCTGCTTCCTTGCTACATCAGGA
** * * ** ****
10820740 AGATAAGACTT--AATC-TTCAACCTGCTCTCTTACTAC-CTTAGATAGATAA-AGT-TTGGGGC
1 AGATAAGA-TTCGCCTCTTTCGATCTGCTC-C--ACTACGCTTAGGGAGATAAGA-TCTTCAATC
* * *
10820799 TTAAATCTGC-TCCATTGCT-GATACATGGA
61 TTCAGTCTGCTTCC-TTGCTACAT-CA-GGA
* *
10820828 A-ATAAGATTCGCCTCTTTCGATTTGCTCCGCTACTGCTTAGGGAGATAAGATCTTCAATCTTCA
1 AGATAAGATTCGCCTCTTTCGATCTGCTCCACTAC-GCTTAGGGAGATAAGATCTTCAATCTTCA
*
10820892 GTCTGCTTCCTTGCTACCTCAGGA
65 GTCTGCTTCCTTGCTACATCAGGA
10820916 AGATAAGA
1 AGATAAGA
10820924 CTCAATCTTC
Statistics
Matches: 136, Mismatches: 30, Indels: 36
0.67 0.15 0.18
Matches are distributed among these distances:
86 11 0.08
87 35 0.26
88 37 0.27
89 42 0.31
90 11 0.08
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (88 bp):
AGATAAGATTCGCCTCTTTCGATCTGCTCCACTACGCTTAGGGAGATAAGATCTTCAATCTTCAG
TCTGCTTCCTTGCTACATCAGGA
Found at i:10820770 original size:176 final size:176
Alignment explanation
Indices: 10820445--10821057 Score: 825
Period size: 176 Copynumber: 3.5 Consensus size: 176
10820435 AGGCTGGTGA
* * * * * * * *
10820445 CTTAAATCTGCTCCATTGCCGGTACATGGAGATAAAATTTG-CTGTCTTCGATCTACTCCGCTGC
1 CTTAAATCTGCTCCATTGCCGATACATGGAAATAAGATTCGCCTCT-TTCGATCTGCTCCACTAC
* * * * * * **
10820509 AACTTCAGGGACATAATATCTTCAATATTCAGTCTACTTCCCTATTACCTC-AGAAAGATAAGAC
65 AGCTT-AGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAAG-AAGATAAGAC
* *
10820573 TCAATCTTCAACCTTCTCTCTTGCTACCTCAGAGAGATAAAGCTTGGGG
128 TCAATCTTCAACCTGCTCTCTTGCTACCTTAGAGAGATAAAGCTTGGGG
*
10820622 CTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCTCTTTCGATCTGCTCCACTACA
1 CTTAAATCTGCTCCATTGCCGATACATGGAAATAAGATTCGCCTCTTTCGATCTGCTCCACTACA
* *
10820687 GCTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACATCAAGAAGATAAGACTTA
66 GCTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAAGAAGATAAGACTCA
* * *
10820752 ATCTTCAACCTGCTCTCTTACTACCTTAGATAGATAAAGTTTGGGG
131 ATCTTCAACCTGCTCTCTTGCTACCTTAGAGAGATAAAGCTTGGGG
* * * *
10820798 CTTAAATCTGCTCCATTGCTGATACATGGAAATAAGATTCGCCTCTTTCGATTTGCTCCGCTACT
1 CTTAAATCTGCTCCATTGCCGATACATGGAAATAAGATTCGCCTCTTTCGATCTGCTCCACTACA
*
10820863 GCTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCA
66 GCTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAAGAAGATAAGACTCA
* * ** *
10820928 ATCTTCAACCTGCTCTCTTGCTACGTTAGAGAGATAAGGCCAGTGG
131 ATCTTCAACCTGCTCTCTTGCTACCTTAGAGAGATAAAGCTTGGGG
* * * * * *
10820974 CTAAAATCTTCTCCATTGCCGATACATGGAAATAAGATTCGCCGCATTCGATCTGCTCCACCACT
1 CTTAAATCTGCTCCATTGCCGATACATGGAAATAAGATTCGCCTCTTTCGATCTGCTCCACTACA
10821039 GCTTAGGGAGATAAGATCT
66 GCTTAGGGAGATAAGATCT
10821058 GACTTCACCA
Statistics
Matches: 388, Mismatches: 46, Indels: 5
0.88 0.10 0.01
Matches are distributed among these distances:
176 326 0.84
177 59 0.15
178 3 0.01
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (176 bp):
CTTAAATCTGCTCCATTGCCGATACATGGAAATAAGATTCGCCTCTTTCGATCTGCTCCACTACA
GCTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAAGAAGATAAGACTCA
ATCTTCAACCTGCTCTCTTGCTACCTTAGAGAGATAAAGCTTGGGG
Found at i:10820833 original size:87 final size:87
Alignment explanation
Indices: 10820566--10820834 Score: 203
Period size: 87 Copynumber: 3.1 Consensus size: 87
10820556 CCTCAGAAAG
* * * * *
10820566 ATAAGACTCAATCTTCAACCTTCTCTCTTGCTACCTCAGAGAGATAAAGCTTGGGGCTTAAATCT
1 ATAAGACTTAATCTTCAACCTGCTCTCTTACTACCTTAGAGAGATAAAGTTTGGGGCTTAAATCT
* *
10820631 GCTCCATTGCCGATACATGGAG
66 GCTCCATTGCTGATACATGGAA
** * * * ****
10820653 ATAAGA-TTCGCCTCTTTCGATCTGCTC-C--ACTACAGCTTAGGGAGAT-AAGATCTTCAATCT
1 ATAAGACTT--AATC-TTCAACCTGCTCTCTTACTAC--CTTAGAGAGATAAAG-T-TTGGGGCT
* * * *
10820713 TCAGTCTGCTTCC-TTGCT-ACATCA-AGAA
59 TAAATCTGC-TCCATTGCTGATA-CATGGAA
*
10820741 GATAAGACTTAATCTTCAACCTGCTCTCTTACTACCTTAGATAGATAAAGTTTGGGGCTTAAATC
1 -ATAAGACTTAATCTTCAACCTGCTCTCTTACTACCTTAGAGAGATAAAGTTTGGGGCTTAAATC
10820806 TGCTCCATTGCTGATACATGGAA
65 TGCTCCATTGCTGATACATGGAA
10820829 ATAAGA
1 ATAAGA
10820835 TTCGCCTCTT
Statistics
Matches: 130, Mismatches: 34, Indels: 36
0.65 0.17 0.18
Matches are distributed among these distances:
86 8 0.06
87 43 0.33
88 34 0.26
89 35 0.27
90 10 0.08
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (87 bp):
ATAAGACTTAATCTTCAACCTGCTCTCTTACTACCTTAGAGAGATAAAGTTTGGGGCTTAAATCT
GCTCCATTGCTGATACATGGAA
Found at i:10820963 original size:43 final size:44
Alignment explanation
Indices: 10820864--10820965 Score: 111
Period size: 43 Copynumber: 2.3 Consensus size: 44
10820854 TCCGCTACTG
**
10820864 CTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTAC
1 CTTA-GGAGATAAGATCTTCAATCTTCAACCTGCTTCCTTGCTAC
*
10820909 CTCAGGAAGATAAGA-C-TCAATCTTCAACCTGC-TCTCTTGCTAC
1 CTTAGG-AGATAAGATCTTCAATCTTCAACCTGCTTC-CTTGCTAC
*
10820952 GTTAGAGAGATAAG
1 CTTAG-GAGATAAG
10820966 GCCAGTGGCT
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.04
43 32 0.65
44 4 0.08
45 11 0.22
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (44 bp):
CTTAGGAGATAAGATCTTCAATCTTCAACCTGCTTCCTTGCTAC
Found at i:10831704 original size:21 final size:20
Alignment explanation
Indices: 10831660--10831708 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
10831650 TCAACTCCAA
* *
10831660 TCAGCTCACTTGAGCTTGAT
1 TCAGCTCGCTTGAGCTAGAT
*
10831680 TCAGCTCGTTTGAGCTAGAAT
1 TCAGCTCGCTTGAGCTAG-AT
10831701 TCAGCTCG
1 TCAGCTCG
10831709 ATTCAGCTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 15 0.60
21 10 0.40
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.33
Consensus pattern (20 bp):
TCAGCTCGCTTGAGCTAGAT
Found at i:10834567 original size:19 final size:19
Alignment explanation
Indices: 10834529--10834567 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
10834519 CAGCTCCTTT
*
10834529 TCAGCTCCCCATGAGCCAC
1 TCAGCTCCCCATCAGCCAC
10834548 TCAGCT-CCCATCAGCTCAC
1 TCAGCTCCCCATCAGC-CAC
10834567 T
1 T
10834568 TGAGCTCGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.21, C:0.46, G:0.13, T:0.21
Consensus pattern (19 bp):
TCAGCTCCCCATCAGCCAC
Found at i:10834583 original size:10 final size:10
Alignment explanation
Indices: 10834570--10834614 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
10834560 AGCTCACTTG
10834570 AGCTCGATTC
1 AGCTCGATTC
* *
10834580 AGCTCGTTTG
1 AGCTCGATTC
*
10834590 AGCTAGAATTC
1 AGCTCG-ATTC
10834601 AGCTCGATTC
1 AGCTCGATTC
10834611 AGCT
1 AGCT
10834615 TATTTCTTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
10 21 0.75
11 7 0.25
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.31
Consensus pattern (10 bp):
AGCTCGATTC
Found at i:10834602 original size:21 final size:20
Alignment explanation
Indices: 10834558--10834606 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
10834548 TCAGCTCCCA
* *
10834558 TCAGCTCACTTGAGCTCGAT
1 TCAGCTCGCTTGAGCTAGAT
*
10834578 TCAGCTCGTTTGAGCTAGAAT
1 TCAGCTCGCTTGAGCTAG-AT
10834599 TCAGCTCG
1 TCAGCTCG
10834607 ATTCAGCTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 15 0.60
21 10 0.40
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.31
Consensus pattern (20 bp):
TCAGCTCGCTTGAGCTAGAT
Found at i:10834655 original size:11 final size:12
Alignment explanation
Indices: 10834636--10834668 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
10834626 CATTCTAATA
10834636 AATTAAGTTT-T
1 AATTAAGTTTAT
*
10834647 AATTCAGTTTAT
1 AATTAAGTTTAT
10834659 AATTAAGTTT
1 AATTAAGTTT
10834669 GCTACAGCTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 9 0.47
12 10 0.53
ACGTcount: A:0.36, C:0.03, G:0.09, T:0.52
Consensus pattern (12 bp):
AATTAAGTTTAT
Found at i:10836818 original size:23 final size:23
Alignment explanation
Indices: 10836792--10836839 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
10836782 TATATACAAA
*
10836792 AATAT-TTAAACAAAATATTATAT
1 AATATGTTAAA-AAAATATGATAT
*
10836815 AATATGTTAAAATAATATGATAT
1 AATATGTTAAAAAAATATGATAT
10836838 AA
1 AA
10836840 AGAAAATTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 17 0.77
24 5 0.23
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (23 bp):
AATATGTTAAAAAAATATGATAT
Found at i:10840152 original size:15 final size:14
Alignment explanation
Indices: 10840132--10840170 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
10840122 GAATAGGTAC
10840132 ATAATAGGATAATA
1 ATAATAGGATAATA
*
10840146 TATAATAAGATAATA
1 -ATAATAGGATAATA
10840161 ATAATGAGGA
1 ATAAT-AGGA
10840171 CAAGAATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 5 0.24
15 16 0.76
ACGTcount: A:0.56, C:0.00, G:0.15, T:0.28
Consensus pattern (14 bp):
ATAATAGGATAATA
Found at i:10840211 original size:20 final size:19
Alignment explanation
Indices: 10840175--10840215 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
10840165 TGAGGACAAG
10840175 AATAAAATAAAAATGAAAT
1 AATAAAATAAAAATGAAAT
*
10840194 AATAAAATAATTAATGAAAT
1 AATAAAATAA-AAATGAAAT
10840214 AA
1 AA
10840216 CAAAGGAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (19 bp):
AATAAAATAAAAATGAAAT
Found at i:10840319 original size:3 final size:3
Alignment explanation
Indices: 10840313--10840470 Score: 83
Period size: 3 Copynumber: 53.3 Consensus size: 3
10840303 AAAAAAAATG
* * * *
10840313 ATA ATA AAA ATA ATA GTA ATA ATA ATA CTA ATA ATA CT- ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
10840360 ATGA A-A GTA GTG ATA A-A ATA ATA ATA ATA ATA ATA ATA GTA GTA
1 AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * * * * *
10840404 GTA GTA GTA GTA GTA ACA GTA ATA ACA AAA ATA ATA ATA CTGA A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA
10840449 ATA ATA ATA A-A TATA ATA ATA A
1 ATA ATA ATA ATA -ATA ATA ATA A
10840471 ATATAAAACT
Statistics
Matches: 124, Mismatches: 23, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
2 7 0.06
3 113 0.91
4 4 0.03
ACGTcount: A:0.59, C:0.03, G:0.09, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:10840464 original size:12 final size:12
Alignment explanation
Indices: 10840449--10840476 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
10840439 AATACTGAAA
10840449 ATAATAATAAAT
1 ATAATAATAAAT
10840461 ATAATAATAAAT
1 ATAATAATAAAT
10840473 ATAA
1 ATAA
10840477 AACTCAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
ATAATAATAAAT
Found at i:10840888 original size:36 final size:34
Alignment explanation
Indices: 10840835--10840902 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 34
10840825 AAAAAAATCG
*
10840835 ATTCCAATGAAAGTAGGAAAAGAGAGAATAATTCA
1 ATTCCAATGAAAGTAGGAAAACA-AGAATAATTCA
*
10840870 ATTCTCAATTGAAA-TAGGAATACAAGAATAATT
1 ATTC-CAA-TGAAAGTAGGAAAACAAGAATAATT
10840903 GATCCTTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
35 13 0.45
36 11 0.38
37 5 0.17
ACGTcount: A:0.50, C:0.09, G:0.16, T:0.25
Consensus pattern (34 bp):
ATTCCAATGAAAGTAGGAAAACAAGAATAATTCA
Found at i:10848232 original size:2 final size:2
Alignment explanation
Indices: 10848225--10848257 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
10848215 TTATGCACTA
*
10848225 AT AT AT AT AT AT GT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10848258 ACACTCTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10860047 original size:11 final size:11
Alignment explanation
Indices: 10860031--10860055 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
10860021 TGTTTAGGAG
10860031 TTTTTTTTAAT
1 TTTTTTTTAAT
10860042 TTTTTTTTAAT
1 TTTTTTTTAAT
10860053 TTT
1 TTT
10860056 AAATTTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTTTTTAAT
Found at i:10865332 original size:24 final size:23
Alignment explanation
Indices: 10865250--10865336 Score: 79
Period size: 24 Copynumber: 3.8 Consensus size: 23
10865240 TATATATCCT
* *
10865250 TTTCATAAATATCATTTTCTTTTC
1 TTTCAAAAAAATCATTTTC-TTTC
* *
10865274 TTTTAAAAAACTC-TTTT-TTTC
1 TTTCAAAAAAATCATTTTCTTTC
** *
10865295 TTTCTTAAATATCATTTTCTCTTC
1 TTTCAAAAAAATCATTTTCT-TTC
10865319 TTTCAAAAAAATCATTTT
1 TTTCAAAAAAATCATTTT
10865337 ATTTTAAGGG
Statistics
Matches: 48, Mismatches: 12, Indels: 6
0.73 0.18 0.09
Matches are distributed among these distances:
21 12 0.25
22 4 0.08
23 5 0.10
24 27 0.56
ACGTcount: A:0.29, C:0.16, G:0.00, T:0.55
Consensus pattern (23 bp):
TTTCAAAAAAATCATTTTCTTTC
Found at i:10865491 original size:19 final size:19
Alignment explanation
Indices: 10865469--10865507 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
10865459 ATTAATTTTG
* *
10865469 ATCAAGTAAATTTAAATTA
1 ATCAAATAAATTAAAATTA
*
10865488 ATCAAATTAATTAAAATTA
1 ATCAAATAAATTAAAATTA
10865507 A
1 A
10865508 AATGATATTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.56, C:0.05, G:0.03, T:0.36
Consensus pattern (19 bp):
ATCAAATAAATTAAAATTA
Found at i:10867068 original size:19 final size:19
Alignment explanation
Indices: 10867044--10867082 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
10867034 CGATTCTTGC
10867044 TCTGTGAAATTATGAGAAT
1 TCTGTGAAATTATGAGAAT
*
10867063 TCTGTGAGATTATGAGAAT
1 TCTGTGAAATTATGAGAAT
10867082 T
1 T
10867083 GGTTTCACCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.33, C:0.05, G:0.23, T:0.38
Consensus pattern (19 bp):
TCTGTGAAATTATGAGAAT
Found at i:10868947 original size:33 final size:33
Alignment explanation
Indices: 10868905--10868970 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
10868895 AGAGTCAAGC
10868905 ATGATAAGCTGTGTTTAGAAATTTATTTTAGGT
1 ATGATAAGCTGTGTTTAGAAATTTATTTTAGGT
10868938 ATGATAAGCTGTGTTTAGAAATTTATTTTAGGT
1 ATGATAAGCTGTGTTTAGAAATTTATTTTAGGT
10868971 TTTCTCCCTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.30, C:0.03, G:0.21, T:0.45
Consensus pattern (33 bp):
ATGATAAGCTGTGTTTAGAAATTTATTTTAGGT
Found at i:10871837 original size:26 final size:26
Alignment explanation
Indices: 10871800--10871883 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
10871790 TGATACAAAT
* *
10871800 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
10871826 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
10871852 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
10871878 TGATAA
1 TGATAA
10871884 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:10874505 original size:24 final size:24
Alignment explanation
Indices: 10874454--10874595 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
10874444 GCTTTATCAT
*
10874454 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
10874479 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
10874503 ATAACTAGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
10874526 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
10874550 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
10874573 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
10874596 GCACTTCCTC
Statistics
Matches: 107, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
23 44 0.41
24 51 0.48
25 12 0.11
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:10874529 original size:23 final size:23
Alignment explanation
Indices: 10874475--10874594 Score: 195
Period size: 23 Copynumber: 5.1 Consensus size: 23
10874465 CCTAGCCTCT
*
10874475 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
10874498 TTTTAATAACTAGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
10874522 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
10874545 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
10874569 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
10874592 TTT
1 TTT
10874595 TGCACTTCCT
Statistics
Matches: 90, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
23 47 0.52
24 43 0.48
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:10874596 original size:47 final size:47
Alignment explanation
Indices: 10874475--10874596 Score: 217
Period size: 47 Copynumber: 2.6 Consensus size: 47
10874465 CCTAGCCTCT
* *
10874475 TTTAATAACTGGGGCAAAAGCCCTTTTAATAACTAGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTAGGGCATAAGCCC
*
10874522 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTAGGGCATAAGCCC
10874569 TTTAATAACTGGGGCATAAGCCCTTTTG
1 TTTAATAACTGGGGCATAAGCCCTTTTG
10874597 CACTTCCTCC
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 72 1.00
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (47 bp):
TTTAATAACTGGGGCATAAGCCCTTTTGATAACTAGGGCATAAGCCC
Found at i:10874667 original size:9 final size:9
Alignment explanation
Indices: 10874653--10874709 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
10874643 ATCTCATGTG
10874653 CATATCATA
1 CATATCATA
*
10874662 CATATCATGTG
1 CATATCA--TA
10874673 CATATCATA
1 CATATCATA
* *
10874682 CATGTCATGTG
1 CATATCA--TA
10874693 CATATCATA
1 CATATCATA
10874702 CATATCAT
1 CATATCAT
10874710 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:10874669 original size:20 final size:20
Alignment explanation
Indices: 10874641--10874711 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
10874631 GCATTTATGA
*
10874641 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
10874661 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
10874681 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
10874701 ACATATCATGT
1 ACATATCATGT
10874712 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:10874676 original size:11 final size:11
Alignment explanation
Indices: 10874646--10874700 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
10874636 TATGAACATC
10874646 TCATGTGCATA
1 TCATGTGCATA
*
10874657 TCA--TACATA
1 TCATGTGCATA
10874666 TCATGTGCATA
1 TCATGTGCATA
* *
10874677 TCA--TACATG
1 TCATGTGCATA
10874686 TCATGTGCATA
1 TCATGTGCATA
10874697 TCAT
1 TCAT
10874701 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:10874776 original size:25 final size:25
Alignment explanation
Indices: 10874748--10874795 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
10874738 ATATATAAAC
* *
10874748 CCTAAGGGTATAATGGTCATTTTGA
1 CCTAAGGGCAAAATGGTCATTTTGA
*
10874773 CCTAGGGGCAAAATGGTCATTTT
1 CCTAAGGGCAAAATGGTCATTTT
10874796 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAAGGGCAAAATGGTCATTTTGA
Found at i:10876040 original size:27 final size:27
Alignment explanation
Indices: 10876010--10876393 Score: 356
Period size: 27 Copynumber: 13.8 Consensus size: 27
10876000 GGATATTTCT
* *
10876010 GTAATTTTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * * **
10876037 GTAATTCTATAAATCAATGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
10876064 GTAATTCTATAAATCGACGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
10876091 ATAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
10876118 GTAATTCTGTAAGTCGAGGGTAAAACGGGGG
1 GTAATTCTGTAAATCGAGGGTAAAAC----G
* * *
10876149 TAAAATGATAATTATGTAAATCGGGGGTAAAATG
1 ------G-TAATTCTGTAAATCGAGGGTAAAACG
* *
10876183 GTAATTCTGTAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
10876210 GTAATTCTATAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
10876237 GTAATTCTATAAATCGAGGGTAAAACT
1 GTAATTCTGTAAATCGAGGGTAAAACG
10876264 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
10876291 GTAATTCTGTAAGTCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
10876318 ATAATTATGTAAAT-TAGGGGTAAAACG
1 GTAATTCTGTAAATCGA-GGGTAAAACG
* * *
10876345 GTAATTATGTAAATCGGGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
10876372 ATAATTCTGTAAATCGGGGGTA
1 GTAATTCTGTAAATCGAGGGTA
10876394 CTTTGGTAAT
Statistics
Matches: 303, Mismatches: 41, Indels: 26
0.82 0.11 0.07
Matches are distributed among these distances:
26 1 0.00
27 278 0.92
28 1 0.00
34 1 0.00
37 1 0.00
38 21 0.07
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.28
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:10876150 original size:38 final size:38
Alignment explanation
Indices: 10876099--10876180 Score: 94
Period size: 38 Copynumber: 2.2 Consensus size: 38
10876089 CAATAATTTT
* * *
10876099 GTAAATCGAGGGTAAAACAG-TAATTCTGTAAGTCGAGG
1 GTAAAACGAGGGTAAAA-AGATAATTATGTAAATCGAGG
* * *
10876137 GTAAAACGGGGGTAAAATGATAATTATGTAAATCGGGG
1 GTAAAACGAGGGTAAAAAGATAATTATGTAAATCGAGG
10876175 GTAAAA
1 GTAAAA
10876181 TGGTAATTCT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
37 1 0.03
38 36 0.97
ACGTcount: A:0.40, C:0.07, G:0.29, T:0.23
Consensus pattern (38 bp):
GTAAAACGAGGGTAAAAAGATAATTATGTAAATCGAGG
Found at i:10876187 original size:65 final size:65
Alignment explanation
Indices: 10876082--10876208 Score: 182
Period size: 65 Copynumber: 2.0 Consensus size: 65
10876072 ATAAATCGAC
* * *
10876082 GGTAAAACAATAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAGTCGAGGGTAAAACGGG
1 GGTAAAACAATAATTATGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACGGG
** * **
10876147 GGTAAAATGATAATTATGTAAATCGGGGGTAAAATGGTAATTCTGTAAATCAAGGGTAAAAC
1 GGTAAAACAATAATTATGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAAC
10876209 AGTAATTCTA
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
65 54 1.00
ACGTcount: A:0.41, C:0.08, G:0.25, T:0.26
Consensus pattern (65 bp):
GGTAAAACAATAATTATGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACGGG
Found at i:10876275 original size:146 final size:146
Alignment explanation
Indices: 10876011--10876291 Score: 454
Period size: 146 Copynumber: 1.9 Consensus size: 146
10876001 GATATTTCTG
* * *
10876011 TAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCAATGGTAAAATAGTAATTCTATAA
1 TAATTATGTAAATCGAGGGTAAAATGGTAATTCTATAAATCAAGGGTAAAACAGTAATTCTATAA
* * * *
10876076 ATCGACGGTAAAACAATAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAGTCGAGGGTAA
66 ATCAACGGTAAAACAATAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAA
10876141 AACGGGGGTAAAATGA
131 AACGGGGGTAAAATGA
* *
10876157 TAATTATGTAAATCGGGGGTAAAATGGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATAA
1 TAATTATGTAAATCGAGGGTAAAATGGTAATTCTATAAATCAAGGGTAAAACAGTAATTCTATAA
* * *
10876222 ATCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACTGTAATTCTGTAAATCGAGGGTAA
66 ATCAACGGTAAAACAATAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAA
10876287 AACGG
131 AACGG
10876292 TAATTCTGTA
Statistics
Matches: 123, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
146 123 1.00
ACGTcount: A:0.42, C:0.09, G:0.21, T:0.28
Consensus pattern (146 bp):
TAATTATGTAAATCGAGGGTAAAATGGTAATTCTATAAATCAAGGGTAAAACAGTAATTCTATAA
ATCAACGGTAAAACAATAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAA
AACGGGGGTAAAATGA
Found at i:10876420 original size:27 final size:26
Alignment explanation
Indices: 10876390--10876488 Score: 99
Period size: 27 Copynumber: 3.7 Consensus size: 26
10876380 GTAAATCGGG
* *
10876390 GGTACTTTGGTAATTTTACAAGTCGAA
1 GGTATTTTAGTAATTTTACAA-TCGAA
* *
10876417 GGTATTTCAGTAATTTTACAAATCGAG
1 GGTATTTTAGTAATTTTAC-AATCGAA
* * *
10876444 GGTATTTTAGTATTTTTACAAACTAA
1 GGTATTTTAGTAATTTTACAATCGAA
*
10876470 GGGTATTTTGGTAATTTTA
1 -GGTATTTTAGTAATTTTA
10876489 GTAAACTAAA
Statistics
Matches: 59, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
26 4 0.07
27 53 0.90
28 2 0.03
ACGTcount: A:0.30, C:0.08, G:0.19, T:0.42
Consensus pattern (26 bp):
GGTATTTTAGTAATTTTACAATCGAA
Found at i:10876475 original size:54 final size:54
Alignment explanation
Indices: 10876382--10876488 Score: 126
Period size: 54 Copynumber: 2.0 Consensus size: 54
10876372 ATAATTCTGT
* * *
10876382 AAATCGGGGGTACTTTGGTAATTTTACAAGTCGAAGGTATTTCAGTAATTTTAC
1 AAATCGAGGGTACTTTAGTAATTTTACAAGACGAAGGTATTTCAGTAATTTTAC
* * * **
10876436 AAATCGAGGGTATTTTAGTATTTTTACAA-ACTAAGGGTATTTTGGTAATTTTA
1 AAATCGAGGGTACTTTAGTAATTTTACAAGACGAA-GGTATTTCAGTAATTTTA
10876489 GTAAACTAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
53 3 0.07
54 41 0.93
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (54 bp):
AAATCGAGGGTACTTTAGTAATTTTACAAGACGAAGGTATTTCAGTAATTTTAC
Found at i:10876502 original size:27 final size:27
Alignment explanation
Indices: 10876399--10876503 Score: 81
Period size: 27 Copynumber: 3.9 Consensus size: 27
10876389 GGGTACTTTG
* * *
10876399 GTAATTTTACAAGTCGAAG-GTATTTCA
1 GTAATTTTACAA-ACTAAGAGTATTTTA
* *
10876426 GTAATTTTACAAA-TCGAGGGTATTTTA
1 GTAATTTTACAAACT-AAGAGTATTTTA
* * *
10876453 GTATTTTTACAAACTAAGGGTATTTTG
1 GTAATTTTACAAACTAAGAGTATTTTA
*
10876480 GTAATTTTAGTAAACTAA-AGTATT
1 GTAATTTTA-CAAACTAAGAGTATT
10876504 CTAAACATGG
Statistics
Matches: 64, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
26 2 0.03
27 54 0.84
28 8 0.12
ACGTcount: A:0.34, C:0.08, G:0.17, T:0.41
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGAGTATTTTA
Found at i:10877548 original size:27 final size:27
Alignment explanation
Indices: 10877507--10877646 Score: 174
Period size: 27 Copynumber: 5.2 Consensus size: 27
10877497 GAGGAAGCGT
* *
10877507 TCTGGTGGCTATGCCACAAATATTTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
10877534 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
10877561 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
10877588 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
10877616 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
10877642 TCTGG
1 TCTGG
10877647 CAGCCATGCT
Statistics
Matches: 101, Mismatches: 11, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
26 5 0.05
27 81 0.80
28 15 0.15
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:10879115 original size:28 final size:28
Alignment explanation
Indices: 10879061--10879115 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
10879051 TAATGGATAC
* *
10879061 CAATATAAAGTTTTAAATCAATGATATA
1 CAATAGAAAGTTTTAAATAAATGATATA
10879089 CAATAGAAAGTTTTAAGATAAAT-ATAT
1 CAATAGAAAGTTTTAA-ATAAATGATAT
10879116 CTATATAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 19 0.79
29 5 0.21
ACGTcount: A:0.51, C:0.05, G:0.09, T:0.35
Consensus pattern (28 bp):
CAATAGAAAGTTTTAAATAAATGATATA
Found at i:10879608 original size:82 final size:83
Alignment explanation
Indices: 10879522--10879689 Score: 313
Period size: 83 Copynumber: 2.0 Consensus size: 83
10879512 TTATATAGTA
10879522 AAACAATTCAATCAATATATAAAAGT-AAATT-AAAAAAAACTAAAACTAAATGGAATTAAAAAA
1 AAACAATTCAATCAATATATAAAA-TCAAATTAAAAAAAAACTAAAACTAAATGGAATTAAAAAA
10879585 TAGTTCAAAATAATATGTT
65 TAGTTCAAAATAATATGTT
10879604 AAACAATTCAATCAATATATAAAATCAAATTAAAAAAAAACTAAAACTAAATGGAATTAAAAAAT
1 AAACAATTCAATCAATATATAAAATCAAATTAAAAAAAAACTAAAACTAAATGGAATTAAAAAAT
10879669 AGTTCAAAATAATATGTT
66 AGTTCAAAATAATATGTT
10879687 AAA
1 AAA
10879690 ATAATAGGTT
Statistics
Matches: 84, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
81 1 0.01
82 29 0.35
83 54 0.64
ACGTcount: A:0.61, C:0.08, G:0.05, T:0.26
Consensus pattern (83 bp):
AAACAATTCAATCAATATATAAAATCAAATTAAAAAAAAACTAAAACTAAATGGAATTAAAAAAT
AGTTCAAAATAATATGTT
Found at i:10881035 original size:14 final size:15
Alignment explanation
Indices: 10880995--10881035 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
10880985 CTAGTTTTTA
* *
10880995 TTTTTATTTTTTTGT
1 TTTTTAATTTTTGGT
10881010 TTTTTAATTTTTGGT
1 TTTTTAATTTTTGGT
*
10881025 TTTTTTATTTT
1 TTTTTAATTTT
10881036 AACGGGCCTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.10, C:0.00, G:0.07, T:0.83
Consensus pattern (15 bp):
TTTTTAATTTTTGGT
Found at i:10887227 original size:17 final size:18
Alignment explanation
Indices: 10887192--10887229 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
10887182 AAAAATATAT
* *
10887192 AAATATTTTAATAATATA
1 AAATATATTAATAACATA
10887210 AAATATATTAA-AACATA
1 AAATATATTAATAACATA
10887227 AAA
1 AAA
10887230 ATAATATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (18 bp):
AAATATATTAATAACATA
Found at i:10891414 original size:25 final size:24
Alignment explanation
Indices: 10891369--10891415 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
10891359 TATTTATTTT
**
10891369 TTATTAATTTTTTTAACAATAATC
1 TTATTAATTTTAATAACAATAATC
10891393 TTATTAATATTTAATAACAATAA
1 TTATTAAT-TTTAATAACAATAA
10891416 CAATAATCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.49
Consensus pattern (24 bp):
TTATTAATTTTAATAACAATAATC
Found at i:10891576 original size:16 final size:16
Alignment explanation
Indices: 10891551--10891604 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
10891541 AATTACTGAC
*
10891551 TACAGTTCTATTCCAT
1 TACAGCTCTATTCCAT
*
10891567 TACAGCTCTATTCAAT
1 TACAGCTCTATTCCAT
10891583 TACAGC-CATATTCCAT
1 TACAGCTC-TATTCCAT
10891599 TACAGC
1 TACAGC
10891605 CAACCAAACA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
15 1 0.03
16 33 0.97
ACGTcount: A:0.30, C:0.28, G:0.07, T:0.35
Consensus pattern (16 bp):
TACAGCTCTATTCCAT
Found at i:10894133 original size:14 final size:14
Alignment explanation
Indices: 10894110--10894139 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
10894100 TACCATTTCG
10894110 CTATTATATTGTTA
1 CTATTATATTGTTA
*
10894124 CTATTTTATTGTTA
1 CTATTATATTGTTA
10894138 CT
1 CT
10894140 GTTTAGATAT
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:0.23, C:0.10, G:0.07, T:0.60
Consensus pattern (14 bp):
CTATTATATTGTTA
Found at i:10897440 original size:136 final size:136
Alignment explanation
Indices: 10897196--10897480 Score: 534
Period size: 136 Copynumber: 2.1 Consensus size: 136
10897186 CATTGGGCCT
** * *
10897196 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGTCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
10897261 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
10897326 ATATGC
131 ATATGC
10897332 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
10897397 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
10897462 ATATGC
131 ATATGC
10897468 AAGCCCATTTGGG
1 AAGCCCATTTGGG
10897481 GAGACTACTC
Statistics
Matches: 145, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
136 145 1.00
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
ATATGC
Found at i:10897756 original size:26 final size:26
Alignment explanation
Indices: 10897727--10897779 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
10897717 TCAAACATGC
10897727 ATTTAAGTCAATTTAAC-CCTAGGGGT
1 ATTTAAGT-AATTTAACTCCTAGGGGT
** *
10897753 ATTTCGGTAATTTATCTCCTAGGGGT
1 ATTTAAGTAATTTAACTCCTAGGGGT
10897779 A
1 A
10897780 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAAGTAATTTAACTCCTAGGGGT
Found at i:10899299 original size:26 final size:26
Alignment explanation
Indices: 10899263--10899346 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
10899253 CATGAAATTC
10899263 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
10899289 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
10899315 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
10899341 TTATCA
1 TTATCA
10899347 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:10900435 original size:46 final size:44
Alignment explanation
Indices: 10900334--10900439 Score: 131
Period size: 44 Copynumber: 2.4 Consensus size: 44
10900324 TATCTTTGAC
** * * * *
10900334 ATGGACTTACATGAATTATTCCTGTCTCTAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
10900378 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
10900424 ATGGACTTACATGGCT
1 ATGGACTTACATGGCT
10900440 TATTTCTGTT
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
44 32 0.60
46 21 0.40
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:10907803 original size:46 final size:44
Alignment explanation
Indices: 10907699--10907806 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
10907689 TGTCTTTGAC
** * * *
10907699 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
10907743 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
10907789 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
10907807 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:10911912 original size:10 final size:12
Alignment explanation
Indices: 10911889--10911920 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
10911879 AATGAACTTA
10911889 CTGTTTCATTAC
1 CTGTTTCATTAC
10911901 CT-TTTC-TTAC
1 CTGTTTCATTAC
10911911 CTGTTTCATT
1 CTGTTTCATT
10911921 TGTATAATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
10 6 0.33
11 8 0.44
12 4 0.22
ACGTcount: A:0.12, C:0.25, G:0.06, T:0.56
Consensus pattern (12 bp):
CTGTTTCATTAC
Found at i:10912434 original size:21 final size:21
Alignment explanation
Indices: 10912410--10912450 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
10912400 AAAACACACC
10912410 AACAGAAGCTCATAAGAGCTA
1 AACAGAAGCTCATAAGAGCTA
10912431 AACAGAAGCTCATAAGAGCT
1 AACAGAAGCTCATAAGAGCT
10912451 GATCCACTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.46, C:0.20, G:0.20, T:0.15
Consensus pattern (21 bp):
AACAGAAGCTCATAAGAGCTA
Found at i:10916266 original size:2 final size:2
Alignment explanation
Indices: 10916259--10916307 Score: 75
Period size: 2 Copynumber: 25.5 Consensus size: 2
10916249 TAGTGCTTTT
*
10916259 TA TA TA TA TA TA T- TA TA GA -A 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 TA TA TA TA TA TA
10916299 TA TA TA TA T
1 TA TA TA TA T
10916308 GTGTGTGTGG
Statistics
Matches: 44, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
1 2 0.05
2 42 0.95
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:10929347 original size:43 final size:43
Alignment explanation
Indices: 10929204--10929324 Score: 224
Period size: 43 Copynumber: 2.8 Consensus size: 43
10929194 TTTATTGGAA
10929204 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
* *
10929247 AAAATCGCCGCTAAAGGTCAAGGCTTTTAGCGGCATTTGTGGG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
10929290 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCG
10929325 CTTTTTTTAC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 74 1.00
ACGTcount: A:0.26, C:0.20, G:0.32, T:0.22
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
Found at i:10929432 original size:31 final size:31
Alignment explanation
Indices: 10929397--10929477 Score: 81
Period size: 31 Copynumber: 2.5 Consensus size: 31
10929387 CTTCCTGCAT
* *
10929397 TAAAATCCAACCAAATACAACAAATATAATA
1 TAAAATCCAACCAAAAACAACAAATATAACA
* * * *
10929428 TAAAATGCAGCCAAAAACAGCAAATTTAACA
1 TAAAATCCAACCAAAAACAACAAATATAACA
*
10929459 TAAAAAATACAACCAAAAA
1 T--AAAATCCAACCAAAAA
10929478 TATTAATTCT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
31 26 0.65
33 14 0.35
ACGTcount: A:0.62, C:0.19, G:0.04, T:0.16
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAACAAATATAACA
Found at i:10929746 original size:21 final size:21
Alignment explanation
Indices: 10929722--10929767 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
10929712 GCTCGTGCCT
*
10929722 CTGCCTCTCTCGCTGCAGCCG
1 CTGCCTCCCTCGCTGCAGCCG
* * *
10929743 CTGCCTCCCTCTCTGCTGCCT
1 CTGCCTCCCTCGCTGCAGCCG
10929764 CTGC
1 CTGC
10929768 TCTAAGTTGT
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:0.02, C:0.50, G:0.20, T:0.28
Consensus pattern (21 bp):
CTGCCTCCCTCGCTGCAGCCG
Found at i:10935442 original size:17 final size:17
Alignment explanation
Indices: 10935417--10935450 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
10935407 ATTATGTAAG
*
10935417 TTATGTAAGTTATATAT
1 TTATCTAAGTTATATAT
10935434 TTATCTAAGTTATATAT
1 TTATCTAAGTTATATAT
10935451 GTAGCACCCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.35, C:0.03, G:0.09, T:0.53
Consensus pattern (17 bp):
TTATCTAAGTTATATAT
Found at i:10938132 original size:26 final size:26
Alignment explanation
Indices: 10938096--10938227 Score: 209
Period size: 25 Copynumber: 5.2 Consensus size: 26
10938086 CATGAAATTC
10938096 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
**
10938122 TTATCATGAAACATTTACCTAATACA
1 TTATCATGAAACATTTACCTAACCCA
10938148 TTATCAT-AAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
10938173 TTATCATG-AACATTTACCTAA-CCA
1 TTATCATGAAACATTTACCTAACCCA
*
10938197 TTATCATG-AACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
10938222 TTATCA
1 TTATCA
10938228 ATTTGTATCA
Statistics
Matches: 99, Mismatches: 5, Indels: 5
0.91 0.05 0.05
Matches are distributed among these distances:
24 24 0.24
25 44 0.44
26 31 0.31
ACGTcount: A:0.39, C:0.24, G:0.03, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:10938218 original size:49 final size:51
Alignment explanation
Indices: 10938096--10938227 Score: 214
Period size: 49 Copynumber: 2.6 Consensus size: 51
10938086 CATGAAATTC
10938096 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAATACA
1 TTATCATG-AACATTTACCTAACCCATTATCATGAAACATTTACCTAATACA
* *
10938148 TTATCATAAACATTTACCTAACCCATTATCATG-AACATTTACCTAA-CCA
1 TTATCATGAACATTTACCTAACCCATTATCATGAAACATTTACCTAATACA
*
10938197 TTATCATGAACATTTACCTAACCTATTATCA
1 TTATCATGAACATTTACCTAACCCATTATCA
10938228 ATTTGTATCA
Statistics
Matches: 76, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
49 31 0.41
50 13 0.17
51 25 0.33
52 7 0.09
ACGTcount: A:0.39, C:0.24, G:0.03, T:0.34
Consensus pattern (51 bp):
TTATCATGAACATTTACCTAACCCATTATCATGAAACATTTACCTAATACA
Found at i:10943053 original size:12 final size:12
Alignment explanation
Indices: 10943036--10943078 Score: 86
Period size: 12 Copynumber: 3.6 Consensus size: 12
10943026 AGTACTACCT
10943036 CGGCCTCGACCA
1 CGGCCTCGACCA
10943048 CGGCCTCGACCA
1 CGGCCTCGACCA
10943060 CGGCCTCGACCA
1 CGGCCTCGACCA
10943072 CGGCCTC
1 CGGCCTC
10943079 TTCCCCGAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.14, C:0.51, G:0.26, T:0.09
Consensus pattern (12 bp):
CGGCCTCGACCA
Found at i:10946275 original size:26 final size:26
Alignment explanation
Indices: 10946239--10946374 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
10946229 CATGAAATTC
10946239 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
**
10946265 TTATCATGAAACATTTACCTAATACA
1 TTATCATGAAACATTTACCTAACCCA
*
10946291 TTATCATAAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
10946317 TTATCATGAAACATTTACCTAACACA
1 TTATCATGAAACATTTACCTAACCCA
*
10946343 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
10946369 TTATCA
1 TTATCA
10946375 ATTTGTATCA
Statistics
Matches: 101, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 101 1.00
ACGTcount: A:0.40, C:0.24, G:0.03, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:10946671 original size:18 final size:18
Alignment explanation
Indices: 10946648--10946731 Score: 105
Period size: 18 Copynumber: 4.7 Consensus size: 18
10946638 GGGCGTTACA
*
10946648 ATATAAGTTATGTATGCT
1 ATATAAGTTATGTATGTT
10946666 ATATAAGTTATGTATGTT
1 ATATAAGTTATGTATGTT
*
10946684 ATATAAGTTATGTAAGTT
1 ATATAAGTTATGTATGTT
* * *
10946702 ATATATGTTATATAAGTT
1 ATATAAGTTATGTATGTT
* *
10946720 ATGTAAATTATG
1 ATATAAGTTATG
10946732 ATATCAAATA
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 58 1.00
ACGTcount: A:0.37, C:0.01, G:0.15, T:0.46
Consensus pattern (18 bp):
ATATAAGTTATGTATGTT
Found at i:10946693 original size:9 final size:9
Alignment explanation
Indices: 10946648--10946721 Score: 85
Period size: 9 Copynumber: 8.2 Consensus size: 9
10946638 GGGCGTTACA
10946648 ATATAAGTT
1 ATATAAGTT
* * *
10946657 ATGTATGCT
1 ATATAAGTT
10946666 ATATAAGTT
1 ATATAAGTT
* *
10946675 ATGTATGTT
1 ATATAAGTT
10946684 ATATAAGTT
1 ATATAAGTT
*
10946693 ATGTAAGTT
1 ATATAAGTT
*
10946702 ATATATGTT
1 ATATAAGTT
10946711 ATATAAGTT
1 ATATAAGTT
10946720 AT
1 AT
10946722 GTAAATTATG
Statistics
Matches: 51, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
9 51 1.00
ACGTcount: A:0.36, C:0.01, G:0.15, T:0.47
Consensus pattern (9 bp):
ATATAAGTT
Found at i:10946699 original size:27 final size:27
Alignment explanation
Indices: 10946669--10946731 Score: 108
Period size: 27 Copynumber: 2.3 Consensus size: 27
10946659 GTATGCTATA
10946669 TAAGTTATGTATGTTATATAAGTTATG
1 TAAGTTATGTATGTTATATAAGTTATG
*
10946696 TAAGTTATATATGTTATATAAGTTATG
1 TAAGTTATGTATGTTATATAAGTTATG
*
10946723 TAAATTATG
1 TAAGTTATG
10946732 ATATCAAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.48
Consensus pattern (27 bp):
TAAGTTATGTATGTTATATAAGTTATG
Found at i:10947081 original size:24 final size:24
Alignment explanation
Indices: 10947053--10947120 Score: 102
Period size: 24 Copynumber: 2.8 Consensus size: 24
10947043 AATTAAACGG
10947053 TAAAACGGACGATAATATTTGTAA
1 TAAAACGGACGATAATATTTGTAA
*
10947077 TAAAACGGA-GAATAATATTTGTGA
1 TAAAACGGACG-ATAATATTTGTAA
*
10947101 TAAAACGGACGAGAATATTT
1 TAAAACGGACGATAATATTT
10947121 CAATAATAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
23 1 0.03
24 38 0.95
25 1 0.03
ACGTcount: A:0.46, C:0.07, G:0.19, T:0.28
Consensus pattern (24 bp):
TAAAACGGACGATAATATTTGTAA
Found at i:10947789 original size:274 final size:274
Alignment explanation
Indices: 10947212--10948433 Score: 2383
Period size: 274 Copynumber: 4.5 Consensus size: 274
10947202 GAAACATACA
10947212 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGC
1 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGC
* *
10947277 TCGATATAAGGCAACCCGTCAAGTTTTCAGCCTATATACTTTGAATCTTTAAAATATTTAAATAT
66 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAATAT
10947342 TAAAATCAAACATTATTAATAT-AAAAAATAGTAATTTGAATATAATAATATAAAAAAGAATTGT
131 TAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATAAAAAAGAATTGT
10947406 ATTTTAATTTTTATAACTAAATTGGAAATAAATATTCAATAGTAAATGAGCTCGATAGAACTTGT
196 ATTTTAATTTTTATAACTAAATTGGAAATAAATATTCAATAGTAAATGAGCTCGATAGAACTTGT
10947471 TTCAAGTCTTTTTG
261 TTCAAGTCTTTTTG
10947485 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGC
1 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGC
10947550 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAATAT
66 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAATAT
10947615 TAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATAAAAAAGAATTGT
131 TAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATAAAAAAGAATTGT
10947680 ATTTTAATTTTTATAACTAAATTGGAAATAAATATTCAATAGTAAATGAGCTCGATAGAACTTGT
196 ATTTTAATTTTTATAACTAAATTGGAAATAAATATTCAATAGTAAATGAGCTCGATAGAACTTGT
10947745 TTCAAGTCTTTTTG
261 TTCAAGTCTTTTTG
10947759 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGC
1 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGC
10947824 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAATAT
66 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAATAT
10947889 TAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATAAAAAAGAATTGT
131 TAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATAAAAAAGAATTGT
10947954 ATTTTAATTTTTATAACTAAATTGGAAATAAATATTCAATAGTAAATGAGCTCGATAGAACTTGT
196 ATTTTAATTTTTATAACTAAATTGGAAATAAATATTCAATAGTAAATGAGCTCGATAGAACTTGT
10948019 TTCAAGTCTTTTTG
261 TTCAAGTCTTTTTG
10948033 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGC
1 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGC
10948098 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAATAT
66 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAATAT
10948163 TAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATAAAAAAGAATTGT
131 TAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATAAAAAAGAATTGT
*
10948228 ATTTTAATTTTTATAACTAAATTGGAAATAAATATTCAATAGTAAATGAGCTCGATAGAACTTGC
196 ATTTTAATTTTTATAACTAAATTGGAAATAAATATTCAATAGTAAATGAGCTCGATAGAACTTGT
10948293 TTCAAGTCTTTTTG
261 TTCAAGTCTTTTTG
*
10948307 AATTTTTTAAGATTCATCATACGTGACGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGC
1 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGC
* *
10948372 TCGATATAAGGCAACCCGTTAGGTTTCTAGCCTATATACTTTGAATCTTTAAAATATTTAAA
66 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAA
10948434 ATAAGGTTGG
Statistics
Matches: 942, Mismatches: 6, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
273 150 0.16
274 792 0.84
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (274 bp):
AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGC
TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAATAT
TAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATAAAAAAGAATTGT
ATTTTAATTTTTATAACTAAATTGGAAATAAATATTCAATAGTAAATGAGCTCGATAGAACTTGT
TTCAAGTCTTTTTG
Found at i:10948715 original size:15 final size:15
Alignment explanation
Indices: 10948695--10948723 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
10948685 AGAATTTTGA
10948695 AATAAAACGTACCTT
1 AATAAAACGTACCTT
10948710 AATAAAACGTACCT
1 AATAAAACGTACCT
10948724 GGTCTACTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.21, G:0.07, T:0.24
Consensus pattern (15 bp):
AATAAAACGTACCTT
Found at i:10949234 original size:183 final size:183
Alignment explanation
Indices: 10948924--10949292 Score: 666
Period size: 183 Copynumber: 2.0 Consensus size: 183
10948914 CCTAGAACAG
10948924 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
1 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
10948989 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGCTGCAGGAGG
66 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGCTGCAGGAGG
*
10949054 AGCAGGAAGCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACAC
131 AGCAGGAAGCAGTAACTGAAACACATACAACATTAATTCACTAATACAGACAC
*
10949107 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATGAAAACTTTATCTAT
1 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
* * *
10949172 ATCAGTACCAAATATTAATTCGACGATTAAATGGCAGCTTCAGTTGAATCAATAGTTGCAGGAGG
66 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGCTGCAGGAGG
* * *
10949237 AGCAGGAAGCATTAACTGAAACATATACAACATTAATTCACTAATATAGACAC
131 AGCAGGAAGCAGTAACTGAAACACATACAACATTAATTCACTAATACAGACAC
10949290 ATG
1 ATG
10949293 GAACTATATC
Statistics
Matches: 178, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
183 178 1.00
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.27
Consensus pattern (183 bp):
ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGCTGCAGGAGG
AGCAGGAAGCAGTAACTGAAACACATACAACATTAATTCACTAATACAGACAC
Found at i:10949382 original size:14 final size:14
Alignment explanation
Indices: 10949363--10949394 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
10949353 CAATATAATT
10949363 TTACTTCATATATA
1 TTACTTCATATATA
*
10949377 TTACTTCATATATT
1 TTACTTCATATATA
10949391 TTAC
1 TTAC
10949395 AAGAATATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.31, C:0.16, G:0.00, T:0.53
Consensus pattern (14 bp):
TTACTTCATATATA
Found at i:10951485 original size:63 final size:62
Alignment explanation
Indices: 10951373--10951502 Score: 181
Period size: 63 Copynumber: 2.1 Consensus size: 62
10951363 CAGGAAACTA
10951373 GAAAACTAATATAATAGAAATAAGAAACCCAAACAAAAAAAATCAAAAATTTCTAAGACGATT
1 GAAAACTAATATAATAGAAATAAGAAACCCAAACAAAAAAAATCAAAAATTT-TAAGACGATT
** ** * *
10951436 GAAAACTAATATAATAGAAAATAAGAAACCCAAA-TTAAAATTTCTAAAATTTTAAGATGATT
1 GAAAACTAATATAATAG-AAATAAGAAACCCAAACAAAAAAAATCAAAAATTTTAAGACGATT
10951498 GAAAA
1 GAAAA
10951503 TTAAAGGAAG
Statistics
Matches: 60, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
62 14 0.23
63 30 0.50
64 16 0.27
ACGTcount: A:0.58, C:0.10, G:0.08, T:0.23
Consensus pattern (62 bp):
GAAAACTAATATAATAGAAATAAGAAACCCAAACAAAAAAAATCAAAAATTTTAAGACGATT
Found at i:10951996 original size:41 final size:40
Alignment explanation
Indices: 10951913--10951998 Score: 100
Period size: 40 Copynumber: 2.1 Consensus size: 40
10951903 TAAATTGATT
* * * * *
10951913 TTTTTGTGGCGTTTTTATAATAAACGCCGCTATTGCTTAC
1 TTTTTGCGGCGTTTTTACAATAAACGCCACTAATACTTAC
* *
10951953 TTTTTGCGGCGTTTTTACCATAAACGCCACTAATATTTGAC
1 TTTTTGCGGCGTTTTTACAATAAACGCCACTAATACTT-AC
10951994 TTTTT
1 TTTTT
10951999 TATAATTTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
40 31 0.82
41 7 0.18
ACGTcount: A:0.21, C:0.19, G:0.15, T:0.45
Consensus pattern (40 bp):
TTTTTGCGGCGTTTTTACAATAAACGCCACTAATACTTAC
Found at i:10952560 original size:15 final size:15
Alignment explanation
Indices: 10952522--10952573 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
10952512 CCTTAAACCC
* *
10952522 AACCCTTAAACCATA
1 AACCCATAATCCATA
* *
10952537 AA-TCATAATCCCTA
1 AACCCATAATCCATA
10952551 AACCCATAATCCATA
1 AACCCATAATCCATA
10952566 AACCCATA
1 AACCCATA
10952574 TTTTATTTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
14 10 0.33
15 20 0.67
ACGTcount: A:0.46, C:0.33, G:0.00, T:0.21
Consensus pattern (15 bp):
AACCCATAATCCATA
Found at i:10952645 original size:23 final size:19
Alignment explanation
Indices: 10952598--10952660 Score: 108
Period size: 19 Copynumber: 3.3 Consensus size: 19
10952588 TTGTATTTCA
*
10952598 TTTTTATTTGTTATCAATG
1 TTTTTATTTATTATCAATG
10952617 TTTTTATTTATTATCAATG
1 TTTTTATTTATTATCAATG
10952636 TTTTTATTTATTTATCAATG
1 TTTTTATTTA-TTATCAATG
10952656 TTTTT
1 TTTTT
10952661 TTAAATCTAA
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
19 28 0.67
20 14 0.33
ACGTcount: A:0.22, C:0.05, G:0.06, T:0.67
Consensus pattern (19 bp):
TTTTTATTTATTATCAATG
Found at i:10953106 original size:21 final size:21
Alignment explanation
Indices: 10953064--10953112 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
10953054 AATAGTAGTT
*
10953064 CATAAACCTTAAACCCTTAAC
1 CATAAACCTTAAACCCTAAAC
* * *
10953085 CATATACCTTAAATCGTAAAC
1 CATAAACCTTAAACCCTAAAC
*
10953106 CCTAAAC
1 CATAAAC
10953113 TATAATGATT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.43, C:0.31, G:0.02, T:0.24
Consensus pattern (21 bp):
CATAAACCTTAAACCCTAAAC
Found at i:10953231 original size:14 final size:13
Alignment explanation
Indices: 10953212--10953255 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
10953202 TAATTAACTA
10953212 AACCCTAAACTCCT
1 AACCCTAAAC-CCT
*
10953226 AACCCTTAACCCCT
1 AACCC-TAAACCCT
10953240 AACCCATAAACCCT
1 AACCC-TAAACCCT
10953254 AA
1 AA
10953256 ATCTTAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
14 22 0.85
15 4 0.15
ACGTcount: A:0.39, C:0.43, G:0.00, T:0.18
Consensus pattern (13 bp):
AACCCTAAACCCT
Found at i:10953668 original size:41 final size:41
Alignment explanation
Indices: 10953618--10953960 Score: 553
Period size: 41 Copynumber: 8.4 Consensus size: 41
10953608 GTTATATGAC
* *
10953618 TTTTAGCGGCGTTTTATCGAAAGCGCCGCTAATGCTCCGGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTATTGCTCCGGT
* * * *
10953659 TTTTCGCGGCGTTTTACCGAAAGCGCCGCTATTTCTCCAGC
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTATTGCTCCGGT
*
10953700 TTTTAGCGGCGTTTTATCGAAAGCGCCGCTATTGCTCCGGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTATTGCTCCGGT
*
10953741 TTTTAACGGCGTTTTACCGAAAGCGCCGCTATTGCTCCGGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTATTGCTCCGGT
*
10953782 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTATTTCTCCGGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTATTGCTCCGGT
*
10953823 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTATTTCTCCGGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTATTGCTCCGGT
10953864 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTATTGCTCCGGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTATTGCTCCGGT
* *
10953905 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCT-CTGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTATTGCTCCGGT
* *
10953945 TTTTAGCAGCATTTTA
1 TTTTAGCGGCGTTTTA
10953961 ACAAAAAACG
Statistics
Matches: 282, Mismatches: 20, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
40 17 0.06
41 265 0.94
ACGTcount: A:0.16, C:0.26, G:0.24, T:0.34
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCGAAAGCGCCGCTATTGCTCCGGT
Found at i:10953976 original size:41 final size:40
Alignment explanation
Indices: 10953723--10953991 Score: 178
Period size: 41 Copynumber: 6.5 Consensus size: 40
10953713 TTATCGAAAG
* * * * ** *
10953723 CGCCGCTATTGCTCCGGTTTTTAACGGCGTTTTACCGAAAG
1 CGCCGCTATTGCT-CTGTTTTTAGCAGCATTTTACAAAAAA
* * * ** *
10953764 CGCCGCTATTGCTCCGGTTTTTAGCGGCGTTTTACCGAAAG
1 CGCCGCTATTGCT-CTGTTTTTAGCAGCATTTTACAAAAAA
* * * * ** *
10953805 CGCCGCTATTTCTCCGGTTTTTAGCGGCGTTTTACCGAAAG
1 CGCCGCTATTGCT-CTGTTTTTAGCAGCATTTTACAAAAAA
* * * * ** *
10953846 CGCCGCTATTTCTCCGGTTTTTAGCGGCGTTTTACCGAAAG
1 CGCCGCTATTGCT-CTGTTTTTAGCAGCATTTTACAAAAAA
* * * * *
10953887 CGCCGCTATTGCTCCGGTTTTTAGCGGCGTTTTACCAAAAG
1 CGCCGCTATTGCT-CTGTTTTTAGCAGCATTTTACAAAAAA
10953928 CGCCGCTATTGCTCTGTTTTTAGCAGCATTTTAACAAAAAA
1 CGCCGCTATTGCTCTGTTTTTAGCAGCATTTT-ACAAAAAA
*
10953969 CGTCGCTATTGCTCTGTGTTTTA
1 CGCCGCTATTGCTCTGT-TTTTA
10953992 CAATTTTTGC
Statistics
Matches: 216, Mismatches: 10, Indels: 3
0.94 0.04 0.01
Matches are distributed among these distances:
40 16 0.07
41 195 0.90
42 5 0.02
ACGTcount: A:0.17, C:0.26, G:0.23, T:0.34
Consensus pattern (40 bp):
CGCCGCTATTGCTCTGTTTTTAGCAGCATTTTACAAAAAA
Found at i:10967025 original size:2 final size:2
Alignment explanation
Indices: 10967018--10967082 Score: 130
Period size: 2 Copynumber: 32.5 Consensus size: 2
10967008 CACATGTAAG
10967018 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10967060 TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA T
10967083 TATGAAAGCT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:10967320 original size:9 final size:9
Alignment explanation
Indices: 10967302--10967338 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
10967292 TGAGTTTTCG
*
10967302 AATTCAAAT
1 AATTCGAAT
*
10967311 AATTTGAAT
1 AATTCGAAT
10967320 AATTCGAAT
1 AATTCGAAT
10967329 AATTCGAAT
1 AATTCGAAT
10967338 A
1 A
10967339 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.49, C:0.08, G:0.08, T:0.35
Consensus pattern (9 bp):
AATTCGAAT
Found at i:10967376 original size:8 final size:8
Alignment explanation
Indices: 10967365--10967389 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
10967355 TATATTTTTA
10967365 CCCCAAAC
1 CCCCAAAC
10967373 CCCCAAAC
1 CCCCAAAC
10967381 CCCCAAAC
1 CCCCAAAC
10967389 C
1 C
10967390 TTTTTACTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.64, G:0.00, T:0.00
Consensus pattern (8 bp):
CCCCAAAC
Found at i:10978306 original size:2 final size:2
Alignment explanation
Indices: 10978299--10978323 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10978289 CATGTCTAAG
10978299 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 T
10978324 TGGATAAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10981606 original size:262 final size:261
Alignment explanation
Indices: 10981137--10981664 Score: 765
Period size: 262 Copynumber: 2.0 Consensus size: 261
10981127 AGAATAAAAT
10981137 AAAATAAAATAAATTTATTTCATTCTGAAAAACATAAGAATGAAGGATATAAATATTATCTACAA
1 AAAATAAAATAAATTTATTTCATTC-GAAAAACATAAGAATGAAGGATATAAATATTATCTACAA
* *
10981202 TGAAATTTAATTTTTTTTAATACAACATTAGAAGTGAGGATGCGCTAATATAACTTTTAGTTCCT
65 TAAAATTTAATATTTTTTAATACAACATTAGAAGTGAGGATGCGCTAATATAACTTTTAGTTCCT
* * * * * * * * * *
10981267 TAACTTGATAATTAAGTTGATTTTAATTTTTTTTTTTGTTTCTTTTAGTGTCTGAACTTCGTAAC
130 TAACTTGACAATCAAGTTCACTTTAATATTTTTTTTTGTTCCTTTGAGTATCTAAACTTCGCAAC
10981332 TAAGTCTATTTTTATCTATAAACTCAAATTCCATTAAAATTTGATGACTTGGCACTCTATTTATC
195 TAAGTCTATTTTTATCTATAAACTCAAATTCCATTAAAATTTGATGACTTGGCACTCTATTTATC
10981397 TA
260 TA
* *
10981399 AAAATAAAATAAATTTATTTCATTC-AAAACCATAAGAATGAAGGATATAAATATTATCTAGAAT
1 AAAATAAAATAAATTTATTTCATTCGAAAAACATAAGAATGAAGGATATAAATATTATCTACAAT
* * * *
10981463 AAAATTTAA-ATTTTTTAATACAATATTAGAAGTGAGTATGTGGTAATATAACTTTTAGTTCCTT
66 AAAATTTAATATTTTTTAATACAACATTAGAAGTGAGGATGCGCTAATATAACTTTTAGTTCCTT
* *
10981527 AATTTGGCAATCAAGTTCACTTTAGTATCATTTTTTTTTGTTCCCTTTGA-TATCTAAACTTCGC
131 AACTTGACAATCAAGTTCACTTTA--AT-ATTTTTTTTTGTT-CCTTTGAGTATCTAAACTTCGC
* * **
10981591 AACTAAGTTTATTTTTTTCTATAAACTTGAATTCCATTAAAATTTGATGACTTGGCACTCTATTT
192 AACTAAGTCTATTTTTATCTATAAACTCAAATTCCATTAAAATTTGATGACTTGGCACTCTATTT
*
10981656 GTCTA
257 ATCTA
10981661 AAAA
1 AAAA
10981665 ATTTTAAGTG
Statistics
Matches: 237, Mismatches: 25, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
259 68 0.29
260 45 0.19
261 2 0.01
262 117 0.49
263 5 0.02
ACGTcount: A:0.36, C:0.11, G:0.10, T:0.42
Consensus pattern (261 bp):
AAAATAAAATAAATTTATTTCATTCGAAAAACATAAGAATGAAGGATATAAATATTATCTACAAT
AAAATTTAATATTTTTTAATACAACATTAGAAGTGAGGATGCGCTAATATAACTTTTAGTTCCTT
AACTTGACAATCAAGTTCACTTTAATATTTTTTTTTGTTCCTTTGAGTATCTAAACTTCGCAACT
AAGTCTATTTTTATCTATAAACTCAAATTCCATTAAAATTTGATGACTTGGCACTCTATTTATCT
A
Found at i:10983581 original size:35 final size:35
Alignment explanation
Indices: 10983535--10983619 Score: 161
Period size: 35 Copynumber: 2.4 Consensus size: 35
10983525 TATAAAAAGC
10983535 ATGAGATTAGATCTTCCATGTCTTGCTTACATTTA
1 ATGAGATTAGATCTTCCATGTCTTGCTTACATTTA
*
10983570 ATGAGATTAGATCTTCCATGTCTTGCTTACCTTTA
1 ATGAGATTAGATCTTCCATGTCTTGCTTACATTTA
10983605 ATGAGATTAGATCTT
1 ATGAGATTAGATCTT
10983620 TTCTTCATTT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 49 1.00
ACGTcount: A:0.26, C:0.16, G:0.15, T:0.42
Consensus pattern (35 bp):
ATGAGATTAGATCTTCCATGTCTTGCTTACATTTA
Found at i:10984685 original size:24 final size:24
Alignment explanation
Indices: 10984653--10984714 Score: 106
Period size: 24 Copynumber: 2.6 Consensus size: 24
10984643 AGGTTATAAA
*
10984653 CCTCCATCAAAAAGAGGCGGTGGT
1 CCTCCATCAAAAAGAGGCGGCGGT
10984677 CCTCCATCAAAAAGAGGCGGCGGT
1 CCTCCATCAAAAAGAGGCGGCGGT
*
10984701 CCTCCATTAAAAAG
1 CCTCCATCAAAAAG
10984715 CAGTGGTCGT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.32, C:0.27, G:0.24, T:0.16
Consensus pattern (24 bp):
CCTCCATCAAAAAGAGGCGGCGGT
Found at i:10987706 original size:3 final size:3
Alignment explanation
Indices: 10987700--10987803 Score: 74
Period size: 3 Copynumber: 35.7 Consensus size: 3
10987690 AAATGATTAA
* * *
10987700 AAT AAT AGT AAT ACA- AAT AAT AAT AGT AA- AAT -AT AAT AAT ACT
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
10987743 AAT -TT AAT AGT AGT AAT AAT AAT AAT AA- AGT AAT GAAT AAT GAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT
*
10987787 AAT AGT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AA
10987804 AGTAAAAAAA
Statistics
Matches: 78, Mismatches: 16, Indels: 14
0.72 0.15 0.13
Matches are distributed among these distances:
2 7 0.09
3 67 0.86
4 4 0.05
ACGTcount: A:0.59, C:0.02, G:0.08, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:10988205 original size:3 final size:3
Alignment explanation
Indices: 10988178--10988267 Score: 92
Period size: 3 Copynumber: 29.0 Consensus size: 3
10988168 AAGTATAAAT
* * * *
10988178 ATA ATG ATA ATA GTA ATA ATG ATA ATA ATA AAA GATGA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -AT-A ATA ATA ATA
*
10988225 ATA ATA ATA ATA ATAA ATA CA-A ATA CTA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA AT-A ATA -ATA ATA ATA ATA ATA ATA ATA ATA
10988268 CGTGCAGTAG
Statistics
Matches: 72, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
2 1 0.01
3 63 0.88
4 7 0.10
5 1 0.01
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:10988458 original size:4 final size:4
Alignment explanation
Indices: 10988449--10988501 Score: 53
Period size: 4 Copynumber: 14.0 Consensus size: 4
10988439 AGAGAAGAAA
10988449 AAAT AAAT AAAT AAAT AAAT -AA- AAAT AGTAAT AAA- AAAT AAA- AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A--AAT AAAT AAAT AAAT AAAT
10988495 AAA- AAAT
1 AAAT AAAT
10988502 TGAATGAATC
Statistics
Matches: 42, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
3 13 0.31
4 25 0.60
6 4 0.10
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (4 bp):
AAAT
Found at i:10988490 original size:7 final size:7
Alignment explanation
Indices: 10988446--10988501 Score: 62
Period size: 7 Copynumber: 8.0 Consensus size: 7
10988436 AAAAGAGAAG
10988446 AAAAAAT
1 AAAAAAT
10988453 AAATAAAT
1 AAA-AAAT
10988461 AAATAAAT
1 AAA-AAAT
10988469 -AAAAAT
1 AAAAAAT
**
10988475 -AGTAAT
1 AAAAAAT
10988481 AAAAAAT
1 AAAAAAT
10988488 AAAAAAT
1 AAAAAAT
10988495 AAAAAAT
1 AAAAAAT
10988502 TGAATGAATC
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
6 8 0.19
7 23 0.53
8 12 0.28
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.20
Consensus pattern (7 bp):
AAAAAAT
Found at i:10990179 original size:118 final size:118
Alignment explanation
Indices: 10989966--10990179 Score: 270
Period size: 118 Copynumber: 1.8 Consensus size: 118
10989956 TGTCAAAATG
* * * *
10989966 GAGATGCCAGACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTT
1 GAGATGCCAGACTTCAATTTGTTCTCTAACAATACAGAGACGACAAATCATCTTAGACTTGCTTT
* * * * **** *
10990031 AGCGTAATCATCTGAAGGTTGGATCTGCTATGTATCTGCTCTCCATTGAAGTA
66 AACATAAACATCTGAAAGCCAAATCAGCTATGTATCTGCTCTCCATTGAAGTA
*
10990084 GAGATGCCAGACTTCAATTTGTTCTCTAACAATACAGAGACGACAAATCATCTTAGATTTG-TTT
1 GAGATGCCAGACTTCAATTTGTTCTCTAACAATACAGAGACGACAAATCATCTTAGACTTGCTTT
10990148 CAACATAAACA-CGTGAAAGCCAAATCAGCTAT
66 -AACATAAACATC-TGAAAGCCAAATCAGCTAT
10990180 ATCTTCGATT
Statistics
Matches: 80, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
117 4 0.05
118 76 0.95
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (118 bp):
GAGATGCCAGACTTCAATTTGTTCTCTAACAATACAGAGACGACAAATCATCTTAGACTTGCTTT
AACATAAACATCTGAAAGCCAAATCAGCTATGTATCTGCTCTCCATTGAAGTA
Found at i:10990374 original size:44 final size:44
Alignment explanation
Indices: 10990274--10990959 Score: 318
Period size: 44 Copynumber: 15.7 Consensus size: 44
10990264 TGTAAATTTG
* *
10990274 GCTTGTTACCCTACTGCTTAGGGGGTTAA-AGCTCATTATCTTC-
1 GCTTGTTACCCTACTGCTTAGGGGGTTAAGAGCT-ATCAACTTCA
* * * * * *
10990317 GATCTGTTTCCCTACTGCTTAGGGTGATAAGATCTATGAACTTCA
1 GCT-TGTTACCCTACTGCTTAGGGGGTTAAGAGCTATCAACTTCA
* * * *
10990362 GCTTGTTACCCTACTGCTTAGGGGGTCAA-AACTCGTCACCTTCA
1 GCTTGTTACCCTACTGCTTAGGGGGTTAAGAGCT-ATCAACTTCA
* * * * * * *
10990406 -ATCTGTTTCCCTACTGCTTAGGGTGCTAAG-GCTGGT-AAATTCG
1 GCT-TGTTACCCTACTGCTTAGGGGGTTAAGAGCT-ATCAACTTCA
* * *
10990449 GCTTTTTACCCTACTGCTTAGGGGGTTAA-AGCCCATCATCTTC-
1 GCTTGTTACCCTACTGCTTAGGGGGTTAAGAG-CTATCAACTTCA
* * * * *
10990492 GATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCA
1 GCT-TGTTACCCTACTGCTTAGGGGGTTAAGAGCTATCAA-CTTCA
* * *
10990538 GCCTGTTACCCTACTGCTTAGGGGGTTAAG-GCTTAT-AAATTCG
1 GCTTGTTACCCTACTGCTTAGGGGGTTAAGAGC-TATCAACTTCA
* * * * * *
10990581 GCTTGTTACCCTATTGCTTAGAGTGTTAA-AGGCCATCATCTT-T
1 GCTTGTTACCCTACTGCTTAGGGGGTTAAGA-GCTATCAACTTCA
* * * * * * * *
10990624 GATCTGTTTCCTTACTACTTAGGGGGTCAAGATCTGTAAATCTTCA
1 GCT-TGTTACCCTACTGCTTAGGGGGTTAAGAGCTATCAA-CTTCA
* * * * *
10990670 GCCTGCTACCCTACTGATTAGGGGGTTAA-AGCCAATCATCTTC-
1 GCTTGTTACCCTACTGCTTAGGGGGTTAAGAG-CTATCAACTTCA
* * * * ** * *
10990713 GATCTGTTTCCCTACTACTCAGGGGGTTAAGATTTGTAAATCTTCA
1 GCT-TGTTACCCTACTGCTTAGGGGGTTAAGAGCTATCAA-CTTCA
* * * **
10990759 GCCTGTTACCCTACTGCTTAGGGGTTTAAG-GTCCATCGCCTTC-
1 GCTTGTTACCCTACTGCTTAGGGGGTTAAGAG-CTATCAACTTCA
* * * * * *
10990802 GATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGT-AAATTTA
1 GCT-TGTTACCCTACTGCTTAGGGGGTTAAGAGCTATCAACTTCA
* * * * *
10990846 GCCTGTTACCCTACTGCTTAGGGAGATAAG-GCTTGTGAA-TTCA
1 GCTTGTTACCCTACTGCTTAGGGGGTTAAGAGC-TATCAACTTCA
* * * * * **
10990889 ACCTGTTACCCTACTGCTTAGGGGTTTAAG-GTCTGT-AAATTTG
1 GCTTGTTACCCTACTGCTTAGGGGGTTAAGAG-CTATCAACTTCA
*
10990932 GCTTGTTATCCTACTGCTTA-GGGGTTAA
1 GCTTGTTACCCTACTGCTTAGGGGGTTAA
10990960 AGCCCTTCGT
Statistics
Matches: 469, Mismatches: 139, Indels: 71
0.69 0.20 0.10
Matches are distributed among these distances:
42 10 0.02
43 151 0.32
44 211 0.45
45 94 0.20
46 3 0.01
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.35
Consensus pattern (44 bp):
GCTTGTTACCCTACTGCTTAGGGGGTTAAGAGCTATCAACTTCA
Found at i:10990497 original size:87 final size:87
Alignment explanation
Indices: 10990239--10990566 Score: 401
Period size: 87 Copynumber: 3.7 Consensus size: 87
10990229 CAGACTATTA
* **
10990239 CCCTACTGCTTAGGGAT-TTATG-GTCTGTAAATTTGGCTTGTTACCCTACTGCTTAGGGGGTTA
1 CCCTACTGCTTAGGG-TGTTAAGAG-CTGTAAATTCAGCTTGTTACCCTACTGCTTAGGGGGTTA
*
10990302 AAGCTCATTATCTTCGATCTGTTT
64 AAGCTCATCATCTTCGATCTGTTT
* * * * *
10990326 CCCTACTGCTTAGGGTGATAAGATCTATGAACTTCAGCTTGTTACCCTACTGCTTAGGGGGTCAA
1 CCCTACTGCTTAGGGTGTTAAGAGCTGT-AAATTCAGCTTGTTACCCTACTGCTTAGGGGGTTAA
* * * *
10990391 AACTCGTCACCTTCAATCTGTTT
65 AGCTCATCATCTTCGATCTGTTT
* * *
10990414 CCCTACTGCTTAGGGTGCTAAG-GCTGGTAAATTCGGCTTTTTACCCTACTGCTTAGGGGGTTAA
1 CCCTACTGCTTAGGGTGTTAAGAGCT-GTAAATTCAGCTTGTTACCCTACTGCTTAGGGGGTTAA
*
10990478 AGCCCATCATCTTCGATCTGTTT
65 AGCTCATCATCTTCGATCTGTTT
* * *
10990501 CCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGGTTA
1 CCCTACTGCTTAGGGTGTTAAGAGCTGTAAA--TTCAGCTTGTTACCCTACTGCTTAGGGGGTTA
10990566 A
64 A
10990567 GGCTTATAAA
Statistics
Matches: 203, Mismatches: 31, Indels: 12
0.83 0.13 0.05
Matches are distributed among these distances:
86 1 0.00
87 98 0.48
88 74 0.36
89 30 0.15
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (87 bp):
CCCTACTGCTTAGGGTGTTAAGAGCTGTAAATTCAGCTTGTTACCCTACTGCTTAGGGGGTTAAA
GCTCATCATCTTCGATCTGTTT
Found at i:10990553 original size:132 final size:132
Alignment explanation
Indices: 10990365--10990694 Score: 439
Period size: 132 Copynumber: 2.5 Consensus size: 132
10990355 AACTTCAGCT
* * * * ** *
10990365 TGTTACCCTACTGCTTAGGGGGTCAA-AACTCGT-CACCTTCAATCTGTTTCCCTACTGCTTAGG
1 TGTTTCCCTACTGCTTAGGGGGTCAAGATCT-GTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
* * * *
10990428 GTGCTAAGGCTGGTAAATTCGGCTTTTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCG
65 GGGCTAAGGCTGATAAATTCGGCTTGTTACCCTACTGCTTAGAGGGTTAAAGCCCATCATCTTCG
10990493 ATC
130 ATC
*
10990496 TGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGG
1 TGTTTCCCTACTGCTTAGGGGGTCAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGG
* * * * * *
10990561 GGTTAAGGCTTATAAATTCGGCTTGTTACCCTATTGCTTAGAGTGTTAAAGGCCATCATCTTTGA
66 GGCTAAGGCTGATAAATTCGGCTTGTTACCCTACTGCTTAGAGGGTTAAAGCCCATCATCTTCGA
10990626 TC
131 TC
* * * *
10990628 TGTTTCCTTACTACTTAGGGGGTCAAGATCTGTAAATCTTCAGCCTGCTACCCTACTGATTAGGG
1 TGTTTCCCTACTGCTTAGGGGGTCAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGG
10990693 GG
66 GG
10990695 TTAAAGCCAA
Statistics
Matches: 174, Mismatches: 23, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
131 26 0.15
132 148 0.85
ACGTcount: A:0.21, C:0.23, G:0.22, T:0.34
Consensus pattern (132 bp):
TGTTTCCCTACTGCTTAGGGGGTCAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGG
GGCTAAGGCTGATAAATTCGGCTTGTTACCCTACTGCTTAGAGGGTTAAAGCCCATCATCTTCGA
TC
Found at i:10990601 original size:175 final size:175
Alignment explanation
Indices: 10990236--10990563 Score: 480
Period size: 175 Copynumber: 1.9 Consensus size: 175
10990226 TTTCAGACTA
* * *
10990236 TTACCCTACTGCTTAGGGAT-TTATGGTCT-GTAAATTTGGCTTGTTACCCTACTGCTTAGGGGG
1 TTACCCTACTGCTTAGGG-TGCTAAGG-CTGGTAAATTCGGCTTGTTACCCTACTGCTTAGGGGG
* * * *
10990299 TTAAAGCTCATTATCTTCGATCTGTTTCCCTACTGCTTAGGGTGATAAGATCTATGAACTTCAGC
64 TTAAAGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGGGGATAAGATCTATAAACTTCAGC
* * **
10990364 TTGTTACCCTACTGCTTAGGGGGTCAAAACTCGTCACCTTCAATCTG
129 CTGTTACCCTACTGCTTAGGGGGTCAAAACTCATCAAATTCAATCTG
* *
10990411 TTTCCCTACTGCTTAGGGTGCTAAGGCTGGTAAATTCGGCTTTTTACCCTACTGCTTAGGGGGTT
1 TTACCCTACTGCTTAGGGTGCTAAGGCTGGTAAATTCGGCTTGTTACCCTACTGCTTAGGGGGTT
* *
10990476 AAAGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCC
66 AAAGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGGGGATAAGATCTATAAA-CTTCAGCC
10990541 TGTTACCCTACTGCTTAGGGGGT
130 TGTTACCCTACTGCTTAGGGGGT
10990564 TAAGGCTTAT
Statistics
Matches: 138, Mismatches: 12, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
174 3 0.02
175 105 0.76
176 30 0.22
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (175 bp):
TTACCCTACTGCTTAGGGTGCTAAGGCTGGTAAATTCGGCTTGTTACCCTACTGCTTAGGGGGTT
AAAGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGGGGATAAGATCTATAAACTTCAGCCT
GTTACCCTACTGCTTAGGGGGTCAAAACTCATCAAATTCAATCTG
Found at i:10990709 original size:89 final size:88
Alignment explanation
Indices: 10990495--10991039 Score: 434
Period size: 89 Copynumber: 6.2 Consensus size: 88
10990485 CATCTTCGAT
* * ** * * * *
10990495 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTC-AGCCTGTTACCCTACTGCTTAG
1 CTGTTACCCTACTGCTTAGGGGGTTAA-AGCCAT-CATCTTCGA-TCTGTTTCCCTACTACTTAG
* * *
10990559 GGGGTTAAG-GCT-TATAA-ATTCGGC
63 GGGGTTAAGATCTGTA-AATCTTCAGC
* * * * * *
10990583 TTGTTACCCTATTGCTTAGAGTGTTAAAGGCCATCATCTTTGATCTGTTTCCTTACTACTTAGGG
1 CTGTTACCCTACTGCTTAGGGGGTTAAA-GCCATCATCTTCGATCTGTTTCCCTACTACTTAGGG
*
10990648 GGTCAAGATCTGTAAATCTTCAGC
65 GGTTAAGATCTGTAAATCTTCAGC
* * *
10990672 CTGCTACCCTACTGATTAGGGGGTTAAAGCCAATCATCTTCGATCTGTTTCCCTACTACTCAGGG
1 CTGTTACCCTACTGCTTAGGGGGTTAAAGCC-ATCATCTTCGATCTGTTTCCCTACTACTTAGGG
*
10990737 GGTTAAGATTTGTAAATCTTCAGC
65 GGTTAAGATCTGTAAATCTTCAGC
* * ** *
10990761 CTGTTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGG
1 CTGTTACCCTACTGCTTAGGGGGTTAAAG-CCATCATCTTCGATCTGTTTCCCTACTACTTAGGG
10990826 GGTTAAGATCTGTAAAT-TT-AGC
65 GGTTAAGATCTGTAAATCTTCAGC
* * * ** * * * * * *
10990848 CTGTTACCCTACTGCTTAGGGAGATAAGGCTTGTGA-ATTCAACCTGTTACCCTACTGCTTAGGG
1 CTGTTACCCTACTGCTTAGGGGGTTAAAGC-CATCATCTTCGATCTGTTTCCCTACTACTTAGGG
* * *
10990912 GTTTAAGGTCTGTAAAT-TT-GGC
65 GGTTAAGATCTGTAAATCTTCAGC
* * * * * * * *
10990934 TTGTTATCCTACTGCTTA-GGGGTTAAAGCCCTTCGTCTTTGATTTG-CTCCACTACTGCTTAGG
1 CTGTTACCCTACTGCTTAGGGGGTTAAAG-CCATCATCTTCGATCTGTTTCC-CTACTACTTAGG
* **
10990997 GAGACAAGATCTGT-AA--TTCAGC
64 GGGTTAAGATCTGTAAATCTTCAGC
10991019 CTGTTACCCTACTGCTTAGGG
1 CTGTTACCCTACTGCTTAGGG
10991040 AGATAAGGCT
Statistics
Matches: 368, Mismatches: 76, Indels: 28
0.78 0.16 0.06
Matches are distributed among these distances:
84 2 0.01
85 30 0.08
86 89 0.24
87 60 0.16
88 34 0.09
89 151 0.41
90 2 0.01
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.35
Consensus pattern (88 bp):
CTGTTACCCTACTGCTTAGGGGGTTAAAGCCATCATCTTCGATCTGTTTCCCTACTACTTAGGGG
GTTAAGATCTGTAAATCTTCAGC
Found at i:10991223 original size:64 final size:67
Alignment explanation
Indices: 10991116--10991309 Score: 243
Period size: 67 Copynumber: 2.9 Consensus size: 67
10991106 TTTCATGCAT
* * * *
10991116 CTATGTTTATGCCAAATAATTAGGACGCTATGATTGAAATGAATCAAATGTTCCTAACTA-A-A-
1 CTATGATTATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGTTCCTAACTAGATAT
10991178 TG
66 TG
* * * *
10991180 -TAATGCTTATGTCAAATAATTAGGATGCCATGATCAAAATGAATCAAATGCTCCTAACTAGATA
1 CT-ATGATTATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGTTCCTAACTAGATA
10991244 TTG
65 TTG
* * * *
10991247 CTATGAATGTGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATTTTCCTAATTAGAT
1 CTATGATTATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGTTCCTAACTAGAT
10991310 GTGTTATGAA
Statistics
Matches: 110, Mismatches: 15, Indels: 7
0.83 0.11 0.05
Matches are distributed among these distances:
63 1 0.01
64 51 0.46
65 1 0.01
66 1 0.01
67 55 0.50
68 1 0.01
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.33
Consensus pattern (67 bp):
CTATGATTATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGTTCCTAACTAGATAT
TG
Found at i:10993957 original size:5 final size:5
Alignment explanation
Indices: 10993940--10993984 Score: 51
Period size: 5 Copynumber: 9.4 Consensus size: 5
10993930 GGGAAAGTCT
*
10993940 AATGC AA-GC AATGC AATGC AATGC AGATGC -ATGA AATG- AATGC AA
1 AATGC AATGC AATGC AATGC AATGC A-ATGC AATGC AATGC AATGC AA
10993985 AAGAAAGAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
4 11 0.31
5 20 0.57
6 4 0.11
ACGTcount: A:0.44, C:0.16, G:0.22, T:0.18
Consensus pattern (5 bp):
AATGC
Found at i:10996127 original size:3 final size:3
Alignment explanation
Indices: 10996121--10996224 Score: 74
Period size: 3 Copynumber: 35.7 Consensus size: 3
10996111 AAATGATTAA
* * *
10996121 AAT AAT AGT AAT ACA- AAT AAT AAT AGT AA- AAT -AT AAT AAT ACT
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
10996164 AAT -TT AAT AGT AGT AAT AAT AAT AAT AA- AGT AAT GAAT AAT GAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT
*
10996208 AAT AGT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AA
10996225 AGTAAAAAAA
Statistics
Matches: 78, Mismatches: 16, Indels: 14
0.72 0.15 0.13
Matches are distributed among these distances:
2 7 0.09
3 67 0.86
4 4 0.05
ACGTcount: A:0.59, C:0.02, G:0.08, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:10996626 original size:3 final size:3
Alignment explanation
Indices: 10996599--10996684 Score: 93
Period size: 3 Copynumber: 28.0 Consensus size: 3
10996589 AAGTATAAAT
* * * *
10996599 ATA ATG ATA ATA GTA ATA ATG ATA ATA ATA AAA GATGA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -AT-A ATA ATA ATA
*
10996646 ATA ATA ATA ATA ATA CA-A ATA CTA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
10996685 TGTGCAGTAG
Statistics
Matches: 69, Mismatches: 10, Indels: 8
0.79 0.11 0.09
Matches are distributed among these distances:
2 1 0.01
3 63 0.91
4 4 0.06
5 1 0.01
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:10996875 original size:4 final size:4
Alignment explanation
Indices: 10996866--10996918 Score: 53
Period size: 4 Copynumber: 14.0 Consensus size: 4
10996856 AGAGAAGAAA
10996866 AAAT AAAT AAAT AAAT AAAT -AA- AAAT AGTAAT AAA- AAAT AAA- AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A--AAT AAAT AAAT AAAT AAAT
10996912 AAA- AAAT
1 AAAT AAAT
10996919 TGAATGAATC
Statistics
Matches: 42, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
3 13 0.31
4 25 0.60
6 4 0.10
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (4 bp):
AAAT
Found at i:10996907 original size:7 final size:7
Alignment explanation
Indices: 10996863--10996918 Score: 62
Period size: 7 Copynumber: 8.0 Consensus size: 7
10996853 AAAAGAGAAG
10996863 AAAAAAT
1 AAAAAAT
10996870 AAATAAAT
1 AAA-AAAT
10996878 AAATAAAT
1 AAA-AAAT
10996886 -AAAAAT
1 AAAAAAT
**
10996892 -AGTAAT
1 AAAAAAT
10996898 AAAAAAT
1 AAAAAAT
10996905 AAAAAAT
1 AAAAAAT
10996912 AAAAAAT
1 AAAAAAT
10996919 TGAATGAATC
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
6 8 0.19
7 23 0.53
8 12 0.28
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.20
Consensus pattern (7 bp):
AAAAAAT
Found at i:10998872 original size:3 final size:3
Alignment explanation
Indices: 10998864--10998927 Score: 119
Period size: 3 Copynumber: 21.3 Consensus size: 3
10998854 CAATAATCAC
*
10998864 ATA ATA ATA ATA ATA ATA ATA ACA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
10998912 ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA A
10998928 GAGTAAAACA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:10998998 original size:4 final size:4
Alignment explanation
Indices: 10998979--10999013 Score: 54
Period size: 4 Copynumber: 8.8 Consensus size: 4
10998969 TTCAAATACA
10998979 AAAT AAA- AATAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AA-AT AAAT AAAT AAAT AAAT AAAT AAA
10999014 ACATAACAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 2 0.07
4 25 0.86
5 2 0.07
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:10999793 original size:7 final size:7
Alignment explanation
Indices: 10999781--10999821 Score: 55
Period size: 7 Copynumber: 5.6 Consensus size: 7
10999771 AAGGTTCGAC
10999781 TTTTCTT
1 TTTTCTT
10999788 TTTTCTT
1 TTTTCTT
10999795 TTTTCTTT
1 TTTTC-TT
10999803 TCTTTCTT
1 T-TTTCTT
*
10999811 TTTCCTT
1 TTTTCTT
10999818 TTTT
1 TTTT
10999822 TAAAACAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
7 20 0.67
8 6 0.20
9 4 0.13
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (7 bp):
TTTTCTT
Found at i:10999810 original size:16 final size:15
Alignment explanation
Indices: 10999781--10999822 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
10999771 AAGGTTCGAC
10999781 TTTTC-TTTTTTCTT
1 TTTTCTTTTTTTCTT
10999795 TTTTCTTTTCTTTCTT
1 TTTTCTTTT-TTTCTT
*
10999811 TTTCCTTTTTTT
1 TTTTCTTTTTTT
10999823 AAAACAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 5 0.20
15 6 0.24
16 14 0.56
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTCTTTTTTTCTT
Found at i:11000524 original size:17 final size:18
Alignment explanation
Indices: 11000504--11000537 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
11000494 AAGTGAATTG
11000504 AAATTGC-GAAATTAAAT
1 AAATTGCAGAAATTAAAT
11000521 AAATTGCAGAAATTAAA
1 AAATTGCAGAAATTAAA
11000538 ATGAGAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.56, C:0.06, G:0.12, T:0.26
Consensus pattern (18 bp):
AAATTGCAGAAATTAAAT
Found at i:11001278 original size:10 final size:10
Alignment explanation
Indices: 11001259--11001308 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
11001249 TTAAATTCTA
11001259 AAAGATAAAT
1 AAAGATAAAT
11001269 ACAA-ATAAAT
1 A-AAGATAAAT
* *
11001279 AAATATAATT
1 AAAGATAAAT
11001289 AAAGATAAAT
1 AAAGATAAAT
11001299 GAAA-ATAAAT
1 -AAAGATAAAT
11001309 CCTAAAATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
9 2 0.06
10 27 0.79
11 5 0.15
ACGTcount: A:0.68, C:0.02, G:0.06, T:0.24
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:11001352 original size:12 final size:13
Alignment explanation
Indices: 11001325--11001353 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
11001315 ATTAAATCTA
11001325 AATAATTATCCCT
1 AATAATTATCCCT
11001338 AATAATTAT-CCT
1 AATAATTATCCCT
11001350 AATA
1 AATA
11001354 TAATCAAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.45, C:0.17, G:0.00, T:0.38
Consensus pattern (13 bp):
AATAATTATCCCT
Found at i:11002660 original size:17 final size:17
Alignment explanation
Indices: 11002638--11002676 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
11002628 ACCAATTAAA
11002638 GCAATAAAAT-TTTGATT
1 GCAATAAAATGTTTGA-T
11002655 GCAATAAAATGTTTGAT
1 GCAATAAAATGTTTGAT
11002672 GCAAT
1 GCAAT
11002677 GATAAAACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 16 0.76
18 5 0.24
ACGTcount: A:0.41, C:0.08, G:0.15, T:0.36
Consensus pattern (17 bp):
GCAATAAAATGTTTGAT
Found at i:11003591 original size:38 final size:40
Alignment explanation
Indices: 11003506--11003595 Score: 96
Period size: 41 Copynumber: 2.3 Consensus size: 40
11003496 TTGATATTAA
*
11003506 AAATAAATAATATAATAATATAAAATTAGATTTGTAAAAAT
1 AAATAAATAATATAATAATATAAAATTAGATTAG-AAAAAT
* * * * *
11003547 ATATAAATATTTTATTAATATAAAA-TATATTAG-AAAAT
1 AAATAAATAATATAATAATATAAAATTAGATTAGAAAAAT
11003585 AAATAAA-AATA
1 AAATAAATAATA
11003596 AGATTTTATA
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
37 2 0.05
38 11 0.28
40 6 0.15
41 21 0.52
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (40 bp):
AAATAAATAATATAATAATATAAAATTAGATTAGAAAAAT
Found at i:11006188 original size:22 final size:21
Alignment explanation
Indices: 11006144--11006188 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
11006134 CTTTATACAT
*
11006144 TTAATTTTTTAATTATTATAA
1 TTAATTTTTTAATTATTAGAA
*
11006165 TTAATTTTTTAATTTATTCGAA
1 TTAATTTTTTAA-TTATTAGAA
11006187 TT
1 TT
11006189 GTTGAATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (21 bp):
TTAATTTTTTAATTATTAGAA
Done.