Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 ID=Chr02-JGI_221_v2.0
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: 62769430
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1067035 characters in sequence are not A, C, G, or T
File 129 of 206
Found at i:38970581 original size:263 final size:264
Alignment explanation
Indices: 38970090--38970655 Score: 841
Period size: 263 Copynumber: 2.2 Consensus size: 264
38970080 NNNNNNNNNN
* * *
38970090 CTTAGGGAGATAAGATCTACAA-TTTCAACCCACTCCGCTGCTGCTCAGGGAGATAATGTTTGGT
1 CTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGT
* * *
38970154 GACTTAAATCTGCTTCCCACTATGTTGGAAAGATAAAATTTGTCATCTTCGATCTGCTCCACTAC
66 GACTTAAATCTGCTTCCCACTATCTTGGAAAGATAAAATTTGCCATCTTCGATCAGCTCCACTAC
*
38970219 TACTTAGGGAGATAAAATATACAATTTTCAACCTACTCCGCTCCTGCTCAGGGAGACAAGGGTTG
131 TACTTAGGGAGATAAAATATACAATTTTCAACCCACTCCGCTCCTGCTCAGGGAGACAAGGGTTG
* * * *
38970284 GTGGCTTAAATCTGCTTCCCACTTTCTTGGAAAGATAAGATTTACCGTCTTCGATCTGCTCCACT
196 GTGACTTAAATCTGCTTCCCACTATCTTGGAAAGATAAAATTTACCATCTTCGATCTGCTCCACT
*
38970349 ACTG
261 ACTA
* *
38970353 CTTAGGGAGATAAGATCTACAATTTTCAGCCCACTCCGCTGCTGCTCAGGGAGACAAGGCTTGTT
1 CTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGT
* *
38970418 GACTTAAAT-TATCTTCCCACTATCTTGGAAAGATAAGATTTGCCATCTTCGATCAGCTCCACTA
66 GACTTAAATCT-GCTTCCCACTATCTTGGAAAGATAAAATTTGCCATCTTCGATCAGCTCCACTA
* * * * * * *
38970482 CTGCTTAGGGAGATAAGATCTACAA-TTTCAACCCACTCCGCTGCTGCTCAGGGAGATAATGTTT
130 CTACTTAGGGAGATAAAATATACAATTTTCAACCCACTCCGCTCCTGCTCAGGGAGACAAGGGTT
* **
38970546 GGTGACTTAAATCTGCTTCCCACTATGTTGGAAAGATAAAATTTGTCATCTTCGATCTGCTCCAC
195 GGTGACTTAAATCTGCTTCCCACTATCTTGGAAAGATAAAATTTACCATCTTCGATCTGCTCCAC
38970611 TACTA
260 TACTA
* * *
38970616 CTTAGGGAGATAAAATATACAATTTTCAACCTACTCCGCT
1 CTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCT
38970656 CCTACTNNNN
Statistics
Matches: 271, Mismatches: 30, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
263 155 0.57
264 116 0.43
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (264 bp):
CTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGT
GACTTAAATCTGCTTCCCACTATCTTGGAAAGATAAAATTTGCCATCTTCGATCAGCTCCACTAC
TACTTAGGGAGATAAAATATACAATTTTCAACCCACTCCGCTCCTGCTCAGGGAGACAAGGGTTG
GTGACTTAAATCTGCTTCCCACTATCTTGGAAAGATAAAATTTACCATCTTCGATCTGCTCCACT
ACTA
Found at i:38971542 original size:132 final size:132
Alignment explanation
Indices: 38971304--38972651 Score: 2076
Period size: 132 Copynumber: 10.2 Consensus size: 132
38971294 NNNNNNNNNN
* *
38971304 ACCCACTCCGCTGCTGCTCAGGGAGACAAGGCTTTGTGACTTAAATATGCTTCCCACTATCTTGG
1 ACCCACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGACTTAAATCTGCTTCCCACTATCTTGG
* * * *
38971369 AAATATAAGATTTGTCGCCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAAATCTACAATTTT
66 AAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTT
38971434 CA
131 CA
* * * *
38971436 GCCCACTCCGCTGCTGCTTAGGGAGACAAGGCTTGTTGACTTAAAT-TATCTTCCCACTATCTTG
1 ACCCACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGACTTAAATCT-GCTTCCCACTATCTTG
* *
38971500 GAAAGATAAGATTTGCCATCTTCGATCAGCTCCACTACTGCTTAGGGAGATAAGATCTACAA-TT
65 GAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTT
38971564 TCA
130 TCA
* * * *
38971567 ACCCACTCCGCTGCTGCTCAGGGAGATAATGTTTGGTGACTTAAATCTGCTTCCCACTATGTTGG
1 ACCCACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGACTTAAATCTGCTTCCCACTATCTTGG
* * * * * * *
38971632 AAAGATAAAATTTGTCATCTTCGATCTGCTCTACTACTACTTAGGGAGATAAAAATATTACCAAT
66 AAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGAT-AAGAT-CTA-CAA-
38971697 TTTTCA
127 TTTTCA
* * * * *
38971703 ACCTACTCCGCTCCTGCTCAGGGAGACAAGGGTTGGTGGCTTAAATCTGCTTCCCACTTTCTTGG
1 ACCCACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGACTTAAATCTGCTTCCCACTATCTTGG
38971768 AAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTT
66 AAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTT
38971833 CA
131 CA
*
38971835 ACCCACTCCGCTGCTGCTCAGGGAGAC-AGTGCTTGGTGACTTAAATTTGCTTCCCACTATGC-T
1 ACCCACTCCGCTGCTGCTCAGGGAGACAAG-GCTTGGTGACTTAAATCTGCTTCCCACTAT-CTT
*
38971898 GGAAAGATAAGATTTACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATT
64 GGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATT
38971963 TTCA
129 TTCA
*
38971967 ACCCACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGACTTAAATCTGCTTCCCACTATCTTGA
1 ACCCACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGACTTAAATCTGCTTCCCACTATCTTGG
*
38972032 AAAGATAAAATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTT
66 AAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTT
38972097 CA
131 CA
* * *
38972099 ACACACTCCGCTGCTGCAT-AGAGAGACAAGGCTTGGTGCCTTAAATCTGCTTCCCACTATCTTG
1 ACCCACTCCGCTGCTGC-TCAGGGAGACAAGGCTTGGTGACTTAAATCTGCTTCCCACTATCTTG
*
38972163 GAAAGATAAGGTTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTT
65 GAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTT
38972228 TCA
130 TCA
* * * *
38972231 ACCCACTCCGCTGCTGCTCAGGGAGACAAGGCTTCGTGGCTTAAATCTACTTCCCCCTATCTTGG
1 ACCCACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGACTTAAATCTGCTTCCCACTATCTTGG
* * * * *
38972296 AAAGATAAGATTTGTCGTCCTCAATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACAAGTTT
66 AAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTT
38972361 CA
131 CA
* * **
38972363 ACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCACCTTCCCACTATCTTGG
1 ACCCACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGACTTAAATCTGCTTCCCACTATCTTGG
* *
38972428 AAATATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACATTTTT
66 AAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTT
38972493 CA
131 CA
* * **
38972495 ACCCACTCCGCTGTTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCACCTTCCCACTATCTTGG
1 ACCCACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGACTTAAATCTGCTTCCCACTATCTTGG
* *
38972560 AAATATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACATTTTT
66 AAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTT
38972625 CA
131 CA
38972627 ACCCACTCCGCTGCTGCTCAGGGAG
1 ACCCACTCCGCTGCTGCTCAGGGAG
38972652 GAAATGTTNN
Statistics
Matches: 1118, Mismatches: 85, Indels: 26
0.91 0.07 0.02
Matches are distributed among these distances:
131 110 0.10
132 883 0.79
133 9 0.01
134 5 0.00
135 4 0.00
136 107 0.10
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (132 bp):
ACCCACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGACTTAAATCTGCTTCCCACTATCTTGG
AAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTT
CA
Found at i:38971818 original size:44 final size:44
Alignment explanation
Indices: 38971503--38972614 Score: 146
Period size: 44 Copynumber: 25.2 Consensus size: 44
38971493 TATCTTGGAA
* * *
38971503 AGATAAGATTTGCCATCTTCGATCAGCTCCACTACTGCTTAGGG
1 AGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * ** * ** * * *
38971547 AGATAAGATCTACAAT-TTCAACCCACTCCGCTGCTGCTCAGGG
1 AGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
** * * *
38971590 AGATAATG-TTTGGTGACTTAAATCTGCTTCCCACTA-TG-TT-GGAA
1 AGATAA-GATTTGCCGTCTTCAATCTGC-T-CCACTACTGCTTAGG-G
* * * * * *
38971634 AGATAAAATTTGTCATCTTCGATCTGCTCTACTACTACTTAGGG
1 AGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * * * * * * * *
38971678 AGATAAAAATATTACCAATTTTTCAACCTACTCCGCTCCTGCTCAGGG
1 AGAT-AAGAT-TTGCC--GTCTTCAATCTGCTCCACTACTGCTTAGGG
* ** ** * * * *
38971726 AGACAAGGGTTGGTGGCTTAAATCTGCTTCC-C-ACTTTCTT-GGAA
1 AGATAAGATTTGCCGTCTTCAATCTGC-TCCACTAC-TGCTTAGG-G
*
38971770 AGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * ** * * ** * * *
38971814 AGATAAGATCTACAATTTTCAACCCACTCCGCTGCTGCTCAGGG
1 AGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* ** * * * *
38971858 AGA-CAG-TGCTTGGTGACTTAAATTTGCTTCCCACTA-TGC-T-GGAA
1 AGATAAGAT--TTGCCGTCTTCAATCTGC-T-CCACTACTGCTTAGG-G
* *
38971902 AGATAAGATTTACCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * ** * * ** * * *
38971946 AGATAAGATCTACAATTTTCAACCCACTCCGCTGCTGCTCAGGG
1 AGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* ** ** * * **
38971990 AGACAAGGCTTGGTGACTTAAATCTGCTTCCCACTA-T-CTT-GAAA
1 AGATAAGATTTGCCGTCTTCAATCTGC-T-CCACTACTGCTTAG-GG
* *
38972034 AGATAAAATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * ** * ** * * * *
38972078 AGATAAGATCTACAATTTTCAA-CACACTCCGCTGCTGCATAGAG
1 AGATAAGATTTGCCGTCTTCAATC-TGCTCCACTACTGCTTAGGG
* ** ** * * *
38972122 AGACAAGGCTTGGTGCCTTAAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGATAAGATTTGCCGTCTTCAATCTGC-T-CCACTACTGCTTAGG-G
* *
38972166 AGATAAGGTTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * ** * * ** * * *
38972210 AGATAAGATCTACAATTTTCAACCCACTCCGCTGCTGCTCAGGG
1 AGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* ** * * * *
38972254 AGACAAGGCTT--CGTGGCTTAAATCTACTTCCCCCTA-T-CTT-GGAA
1 AGATAAGATTTGCCGT--CTTCAATCTGC-T-CCACTACTGCTTAGG-G
* *
38972298 AGATAAGATTTGTCGTCCTCAATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * * * * * * * *
38972342 AGATAGGATCTACAAGT-TTCAACCTACTCCGCTGCTGCTCAGGG
1 AGATAAGATTTGC-CGTCTTCAATCTGCTCCACTACTGCTTAGGG
* ** ** * * ** *
38972386 AGACAAGGCTTGGTGGCTTAAATCACCTTCCCACTA-T-CTT-GGAA
1 AGATAAGATTTGCCGTCTTCAATCTGC-T-CCACTACTGCTTAGG-G
* *
38972430 ATATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * ** * * ** * ** *
38972474 AGATAAGATCTACATTTTTCAACCCACTCCGCTGTTGCTCAGGG
1 AGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* ** ** * * ** *
38972518 AGACAAGGCTTGGTGGCTTAAATCACCTTCCCACTA-T-CTT-GGAA
1 AGATAAGATTTGCCGTCTTCAATCTGC-T-CCACTACTGCTTAGG-G
* *
38972562 ATATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
38972606 AGATAAGAT
1 AGATAAGAT
38972615 CTACATTTTT
Statistics
Matches: 690, Mismatches: 311, Indels: 134
0.61 0.27 0.12
Matches are distributed among these distances:
42 42 0.06
43 66 0.10
44 473 0.69
45 47 0.07
46 37 0.05
47 2 0.00
48 23 0.03
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.30
Consensus pattern (44 bp):
AGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
Found at i:38973063 original size:132 final size:132
Alignment explanation
Indices: 38972760--38975037 Score: 3447
Period size: 132 Copynumber: 17.2 Consensus size: 132
38972750 NNNNNNNNNN
* * *
38972760 GACTTAAATCTGCTTCCCCCTATCTTGGAAAGATAAGATTTGTCGTCTTCGATCTGCACCACTAC
1 GACTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTAC
* * *
38972825 TGCTTAGGGAGATAAGATCTATAATTTTCAA-CCACTCCGCTGCTGCTCAGGAAGACAAGGCTTA
66 TGCTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCTTG
38972889 GT
131 GT
* *
38972891 GGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTATTCGATCTGCTCCACTAC
1 GACTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTAC
* *
38972956 TGCTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCACTGCTGCTCAGGGAGACAATGCTTG
66 TGCTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCTTG
38973021 GT
131 GT
* ** * *
38973023 GACTTAAATCTGCTTCCCACTATGTTATAAAGATAGGATTTACCGTCTTCGATTCTGCTCCCACT
1 GACTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGA-TCTGCT-CCACT
* *
38973088 ACTGCTTAGAGAGATAAGATCTACAATTTTCCAACCCCACTCCGCTGCTGCTCAGAGAGACAAGG
64 ACTGCTTAGGGAGATAAGATCTACAATTTT-CAA-CCCACTCCGCTGCTGCTCAGGGAGACAA-G
38973153 GCTTGGT
126 GCTTGGT
* * * *
38973160 GACTTAAATCTGCTTCCCTCTATCTTGGAAAGATTACATTTGCCGTCTTCGATTTGCTCCACTAC
1 GACTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTAC
*
38973225 TGCTTAGGGAAGATAAGATCTACAATTTTCAAGCCACTCCGCTGCTGCTCAGGGAGACAAGGCTT
66 TGCTTAGGG-AGATAAGATCTACAATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCTT
38973290 GGT
130 GGT
* * *
38973293 GGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAACATTTGCCGTCTTCGATTTGCTCCACTAC
1 GACTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTAC
* * *
38973358 TGCTTAGGAAGATAAGATCTACAATTTTCAAGCCACTCCGCTGCTGCTCAGTGAGACAAGGCTTG
66 TGCTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCTTG
38973423 GT
131 GT
*
38973425 GGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTAC
1 GACTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTAC
* * * * * * *
38973490 TGCTTCGGAAGATAAGATCTTCAATTTTCAACCCACTCTGCAGCTGCTCAGGGTGACAAGGCTTT
66 TGCTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCTTG
38973555 GT
131 GT
* * * * *
38973557 CACGTAAATCTGCTTCCCACTATCTTGGAAATATAACATTTGTCGTCTTCGATCTGCTCCACTAC
1 GACTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTAC
* * *
38973622 TGCTTAGGGAGATAAGATCTTCAATTTTAAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCTTT
66 TGCTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCTTG
38973687 GT
131 GT
* * * *
38973689 GACTTAAATATGCTTCCCACTATCTTGGAAATATAAGATTTGTCGCCTTCGATCTGCTCCACTAC
1 GACTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTAC
* * * *
38973754 TGCTTAGGGATATAAAATCTACAATTTTCAGCCCACTCCGCTGCTGCTTAGGGAGACAAGGCTTG
66 TGCTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCTTG
*
38973819 TT
131 GT
* * * *
38973821 GACTTAAAT-TATCTTCCCACTATCTTGGAAAGGTAAGATTTGCCATCTTCGATCAGCTCCACTA
1 GACTTAAATCT-GCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTA
* * * *
38973885 CTGCTTAGGGAGATAAGATCTACAA-TTTCAACCCACTCCGCTGCTGCTCAAGGAGATAATGTTT
65 CTGCTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCTT
38973949 GGT
130 GGT
* * * * * *
38973952 GACTTAAATCTGCTTCCCACTATGTTGGAAAGATAAAATTTGTCATCTTCGATCTGTTCTACTAC
1 GACTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTAC
* * * * * * *
38974017 TACTTAGGGAGATAAAATATACAATTTTCAACCTACTCTGCTCCTGCTCAGGGAGACAAGGGTTG
66 TGCTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCTTG
38974082 GT
131 GT
* * *
38974084 GGCTTAAATCTGCTTCCCACTTTCTTGGAAAGATAAGATTTGTCGTCTTCGATCTGCTCCACTAC
1 GACTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTAC
38974149 TGCTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCTGCTCAGGGAGAC-AGTGCTT
66 TGCTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAG-GCTT
38974213 GGT
130 GGT
* *
38974216 GACTTAAATTTGCTTCCCACTATGC-TGGAAAGATAAGATTTACCGTCTTCGATCTGCTCCACTA
1 GACTTAAATCTGCTTCCCACTAT-CTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTA
* *
38974280 CTGCTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAATGTTT
65 CTGCTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCTT
38974345 GGT
130 GGT
* * *
38974348 GACTTAAATCTGCTTCCTACTATCTTGGAAAGATAAGATTTGTCGTCTTCGATCTACTCCACTAC
1 GACTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTAC
* *
38974413 TACTTAGGCAGATAAGATCTACAATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCTTG
66 TGCTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCTTG
38974478 GT
131 GT
*
38974480 GGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTAC
1 GACTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTAC
38974545 TGCTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCTGCTCAGGGAGAC-AGTGCTT
66 TGCTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAG-GCTT
38974609 GGT
130 GGT
*
38974612 GACTTAAATCTGCTTCCCACTATGC-TGGAAAGATAAGATTTACCGTCTTCGATCTGCTCCACTA
1 GACTTAAATCTGCTTCCCACTAT-CTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTA
38974676 CTGCTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCTT
65 CTGCTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCTT
38974741 GGT
130 GGT
* * * *
38974744 GGCTTAAATCTGCTTCCCTCTATCTTGGAAAGATAACATTTGCCGTCTTCGATTTGCTCCACTAC
1 GACTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTAC
* *
38974809 TGCTTAAGAAGATAAGATCTACAATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCTTG
66 TGCTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCTTG
38974874 GT
131 GT
* * * * *
38974876 GACTTAAATCTACTTCCCATTATCTTGGAAAGATAAAATTTGCCCTTTTCGATCTGCTCCACTAC
1 GACTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTAC
* * * * *
38974941 TGCATAGGGAGATAAGATCTACAATTTTCAACACACTCCGCTGCTGCTTAGGGAGAAAATG-TTC
66 TGCTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCTT-
38975005 GGT
130 GGT
*
38975008 GACTTAAATCTGCTTCCCCCTATCTTGGAA
1 GACTTAAATCTGCTTCCCACTATCTTGGAA
38975038 NNNNNNNNNN
Statistics
Matches: 1958, Mismatches: 170, Indels: 37
0.90 0.08 0.02
Matches are distributed among these distances:
131 210 0.11
132 1477 0.75
133 89 0.05
134 60 0.03
135 21 0.01
136 50 0.03
137 51 0.03
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (132 bp):
GACTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTAC
TGCTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCTTG
GT
Found at i:38974295 original size:44 final size:44
Alignment explanation
Indices: 38974246--38974694 Score: 139
Period size: 44 Copynumber: 10.2 Consensus size: 44
38974236 TATGCTGGAA
*
38974246 AGATAAGATTTACCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTACCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* ** * * ** * * *
38974290 AGATAAGATCTACAATTTTCAACCCACTCCGCTGCTGCTCAGGG
1 AGATAAGATTTACCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* *** * * *
38974334 AGACAATG-TTTGGTGACTTAAATCTGCTTCCTACTA-T-CTT-GGAA
1 AGATAA-GATTTACCGTCTTCAATCTGC-TCC-ACTACTGCTTAGG-G
** * * * *
38974378 AGATAAGATTTGTCGTCTTCGATCTACTCCACTACTACTTAGGC
1 AGATAAGATTTACCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* ** * * ** * * *
38974422 AGATAAGATCTACAATTTTCAACCCACTCCGCTGCTGCTCAGGG
1 AGATAAGATTTACCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* ** *** * * *
38974466 AGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGATAAGATTTACCGTCTTCAATCTGC-T-CCACTACTGCTTAGG-G
* *
38974510 AGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTACCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* ** * * ** * * *
38974554 AGATAAGATCTACAATTTTCAACCCACTCCGCTGCTGCTCAGGG
1 AGATAAGATTTACCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* *** * * *
38974598 AGA-CAG-TGCTTGGTGACTTAAATCTGCTTCCCACTA-TGC-T-GGAA
1 AGATAAGAT--TTACCGTCTTCAATCTGC-T-CCACTACTGCTTAGG-G
*
38974642 AGATAAGATTTACCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTACCGTCTTCAATCTGCTCCACTACTGCTTAGGG
38974686 AGATAAGAT
1 AGATAAGAT
38974695 CTACAATTTT
Statistics
Matches: 269, Mismatches: 112, Indels: 48
0.63 0.26 0.11
Matches are distributed among these distances:
42 17 0.06
43 19 0.07
44 203 0.75
45 19 0.07
46 11 0.04
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.30
Consensus pattern (44 bp):
AGATAAGATTTACCGTCTTCAATCTGCTCCACTACTGCTTAGGG
Found at i:38975374 original size:132 final size:132
Alignment explanation
Indices: 38975138--38977509 Score: 3567
Period size: 132 Copynumber: 18.0 Consensus size: 132
38975128 NNNNNNNNNN
*
38975138 ACTGCTTAGGGAGATAAGATCTATAATTTTCAA-CCACTCCGCTGCTGCTCAGGGAGACAAGGCT
1 ACTGCTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCT
* * * **
38975202 TAGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTATTTAATCTGCTCCA
66 TGGTGACTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCA
38975267 CT
131 CT
* *
38975269 ACTGCTTAGGGAGATAAGATCTACAATTTTTAACCCACTCCGCTGCTGCTCAGGGAGACAATGCT
1 ACTGCTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCT
* ***
38975334 TGGTGACTTAAATCTGCTTCCCACTATGTCATAAAGATAAGATTTGCCGTCTTCGATCTGCTCCA
66 TGGTGACTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCA
38975399 CT
131 CT
* *
38975401 ACTGCTTAGGAAGATAAGATCTACAATTTTCAACCCACTCCGCTGCTGCTCTGGGAGAC-AGTGC
1 ACTGCTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAG-GC
* *
38975465 TTGGTGACTTAAATCTGCTTCCCACTATGC-TGGAAAGATAACATTTACCGTCTTCGATCTGCTC
65 TTGGTGACTTAAATCTGCTTCCCACTAT-CTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTC
38975529 CACT
129 CACT
*
38975533 ACAGCTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCT
1 ACTGCTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCT
* * * * *
38975598 TGGTGGCTTAAATCTTCTTCCCTCTATCTTGGAAAGATAACATTTGCCGTCTTCGATTTGCTCCA
66 TGGTGACTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCA
38975663 CT
131 CT
* * *
38975665 ACTGCTTAGGAAGATAAGATCTACAATTTTCAAGCCACTCCGCTGCTGCTCAGGGAGACAAGGCA
1 ACTGCTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCT
*
38975730 TGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCA
66 TGGTGACTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCA
38975795 CT
131 CT
* * * * * *
38975797 ACTGCTTCGGAAGATAAGATCTTCAATTTTCAACCCACTCTGCAGCTGCTCAGGGTGACAAGGCT
1 ACTGCTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCT
* * * * * *
38975862 TTGTCACGTAAATCTGCTTCCCACTATCTTGGAAATATAACATTTGTCGTCTTCGATCTGCTCCA
66 TGGTGACTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCA
38975927 CT
131 CT
* *
38975929 ACTGCTTAGGGAGATAAGATCTTCAATTTTAAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCT
1 ACTGCTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCT
* * * * *
38975994 TTGTGACTTAAATATGCTTCCCACTATCTTGGAAATATAAGATTTGTCGCCTTCGATCTGCTCCA
66 TGGTGACTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCA
38976059 CT
131 CT
* * *
38976061 ACTGCTTAGGGAGATAAAATCTACAATTTTCAGCCCACTCCGCTGCTGCTTAGGGAGACAAGGCT
1 ACTGCTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCT
* * * *
38976126 TGTTGACTTAAAATAT-CTTCCCACTATCTTGGAAAGATAAGATTTGCCATCTTCGATCAGCTCC
66 TGGTGACTT-AAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCC
38976190 ACT
130 ACT
* * *
38976193 ACTGCTTAGGGAGATAAGATCTACAA-TTTCAACCCACTCCGCTGCTGCTCAGGGAGATAATGTT
1 ACTGCTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCT
* * * * * *
38976257 TGGTGACTTAAATCTGCTTCCCACTATGTTGGAAAGATAAAATTTGTCATCTTCGATCTGTTCTA
66 TGGTGACTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCA
38976322 CT
131 CT
* * * * *
38976324 ACTACTTAGGGAGATAAAATATACAATTTT-AACCTAGTCCGCT-CTTGCTCAGGGAGACAAGGC
1 ACTGCTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGC-TGCTCAGGGAGACAAGGC
* * ** * * * * *
38976387 TTGGTGGCTTTAATCTGCTGACCATTTTCTTGGAAAGATAAGATTTGTCGACTTCGATCTGCTCA
65 TTGGTGACTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCC
38976452 ACT
130 ACT
* *
38976455 ACTGCTTAGGGAGATAAGATCTGCAATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAATGCT
1 ACTGCTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCT
* *
38976520 TGGTGACTTAAATCTGCTTCCCACTATGTTGGAAAGATAAGATTTACCGTCTTCGATCTGCTCCA
66 TGGTGACTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCA
38976585 CT
131 CT
* * *
38976587 ACTGCTTAGGGAGATAAGATGTA-ATATTTTCAACCAACTCCGCTGTTGCTCAGGGAGACAAGGC
1 ACTGCTTAGGGAGATAAGATCTACA-ATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGC
* * * * *
38976651 TTGGTGACTTAAATCTACTTCCCATTATCTTGGAAAGACAAAATTTGCCCTCTTCGATCTGCTCC
65 TTGGTGACTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCC
38976716 ACT
130 ACT
* *
38976719 ACTGCTTAGGGAGATAAGATCTACAATATTCAACCCACTCCGCTCCTGCTCAGGGAGACAAGGCT
1 ACTGCTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCT
* * * * *
38976784 TGGTGCCCTAAATCTGCTTCCCACTATCTTGAAAAGAGAAGGTTTGCCGTCTTCGATCTGCTCCA
66 TGGTGACTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCA
38976849 CT
131 CT
* *
38976851 ACTGCTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCTGCTCGGGGAGACAATGCT
1 ACTGCTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCT
* * * * *
38976916 TAGTGACTTAAATCTGCTTCCCACTATGTTGAAAAGATAAGATTTGTCATCTTCGATCTGCTCCA
66 TGGTGACTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCA
38976981 CT
131 CT
* *
38976983 ACTGCTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCTAG-TGAGGGAGACAATGC
1 ACTGCTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCT-GCTCAGGGAGACAAGGC
* * * *
38977047 TTGGTGACTTAAATCTACTTCCCACTATGTTGGAAAGATAAGATTTACCGTATTCGATCTGCTCC
65 TTGGTGACTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCC
38977112 ACT
130 ACT
38977115 ACTGCTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAATGGC
1 ACTGCTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAA-GGC
* *
38977180 TTGGTGACTTAAATCTGCTTCCCACTATGTTGGAAAGATAAAATTTGCCGTCTTCGATCTGCTCC
65 TTGGTGACTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCC
38977245 ACT
130 ACT
38977248 ACTGCTTAGGGAGATAAGATCTACAATTTTCAACCCCACCTCCGCTGCTGCTCAGGGAGACAAGG
1 ACTGCTTAGGGAGATAAGATCTACAATTTTCAA-CCCA-CTCCGCTGCTGCTCAGGGAGACAAGG
*
38977313 CTTGGTGACTTAAATCTGCTTCCCACTATGC-TGGAAAGATAAGATTTACCGTCTTCGATCTGCT
64 CTTGGTGACTTAAATCTGCTTCCCACTAT-CTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCT
38977377 CCACT
128 CCACT
38977382 ACTGCTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCT
1 ACTGCTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCT
* * *
38977447 TGGTGGCTTAAATCTGCTTCCCTCTATCTTGGAAAGATAACATTTGCCGTCTTCGATCTGCTC
66 TGGTGACTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTC
38977510 NNNNNNNNNN
Statistics
Matches: 2034, Mismatches: 187, Indels: 39
0.90 0.08 0.02
Matches are distributed among these distances:
130 6 0.00
131 253 0.12
132 1533 0.75
133 114 0.06
134 104 0.05
135 24 0.01
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.30
Consensus pattern (132 bp):
ACTGCTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCT
TGGTGACTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCA
CT
Found at i:38977397 original size:44 final size:44
Alignment explanation
Indices: 38977082--38977401 Score: 121
Period size: 44 Copynumber: 7.2 Consensus size: 44
38977072 TATGTTGGAA
* *
38977082 AGATAAGATTTACCGTATTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTACCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* ** * * ** * * *
38977126 AGATAAGATCTACAATTTTCAACCCACTCCGCTGCTGCTCAGGG
1 AGATAAGATTTACCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* ** *** * * *
38977170 AGACAATGGCTTGGTGACTTAAATCTGCTTCCCACTA-TG-TT-GGAA
1 AGATAA-GATTTACCGTCTTCAATCTGC-T-CCACTACTGCTTAGG-G
* * *
38977215 AGATAAAATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTACCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* ** * * ** * * *
38977259 AGATAAGATCTACAATTTTCAACCCCACCTCCGCTGCTGCTCAGGG
1 AGATAAGATTTACCGTCTTCAA--TCTGCTCCACTACTGCTTAGGG
* ** *** * * *
38977305 AGACAAGGCTTGGTGACTTAAATCTGCTTCCCACTA-TGC-T-GGAA
1 AGATAAGATTTACCGTCTTCAATCTGC-T-CCACTACTGCTTAGG-G
*
38977349 AGATAAGATTTACCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTACCGTCTTCAATCTGCTCCACTACTGCTTAGGG
38977393 AGATAAGAT
1 AGATAAGAT
38977402 CTACAATTTT
Statistics
Matches: 181, Mismatches: 80, Indels: 30
0.62 0.27 0.10
Matches are distributed among these distances:
42 12 0.07
43 9 0.05
44 100 0.55
45 22 0.12
46 34 0.19
47 4 0.02
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (44 bp):
AGATAAGATTTACCGTCTTCAATCTGCTCCACTACTGCTTAGGG
Found at i:38978700 original size:132 final size:132
Alignment explanation
Indices: 38978463--38979467 Score: 1460
Period size: 132 Copynumber: 7.6 Consensus size: 132
38978453 NNNNNNTCTT
* * * *
38978463 CAATTTTAAACCCACTCTGCTGCTGCTCAGGGAGACAAGGCTTTGTGACTTAAATATGCTTCCCA
1 CAATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGACTTAAATCTGCTTCCCA
* * * *
38978528 CTATCTTGGAAATATAAGATTTGTCGCCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAAATC
66 CTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATC
38978593 TA
131 TA
* * * *
38978595 CAATTTTCAGCCCACTCCGCTGCTGCTTAGGGAGACAAGGCTTGTTGACTTAAAATAT-CTTCCC
1 CAATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGACTT-AAATCTGCTTCCC
* *
38978659 ACTATCTTGGAAAGATAAGATTTGCCATCTTCGATCAGCTCCACTACTGCTTAGGGAGATAAGAT
65 ACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGAT
38978724 CTA
130 CTA
* * *
38978727 CAA-TTTCAACCCACTCCGCTGCTGCTCAGGGAGATAATGTTTGGTGACTTAAATCTGCTTCCCA
1 CAATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGACTTAAATCTGCTTCCCA
* * * * * * * * *
38978791 CTATGTTGGAAAGATAAAATTTGTCATCTTCGATCTGTTCTACTACTACTTAGGGAGATAAAATA
66 CTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATC
38978856 TA
131 TA
* * * * *
38978858 CAATTTTCAACCTACTCTGCTCCTGCTCAGGGAGACAAGGGTTGGTGGCTTAAATCTGCTTCCCA
1 CAATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGACTTAAATCTGCTTCCCA
* *
38978923 CTTTCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTGGGGAGATAAGATC
66 CTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATC
38978988 TA
131 TA
* *
38978990 CAATTTTCAACCCACTCCGCTGCTGCTCAGGGAGAC-AGTGCTTGGTGACTTAAATTTGCTGCCC
1 CAATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAG-GCTTGGTGACTTAAATCTGCTTCCC
*
38979054 ACTATGC-TGGAAAGATAAGATTTACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
65 ACTAT-CTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
38979118 TCTA
129 TCTA
* *
38979122 CAATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCT
1 CAATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGACTTAAATCTGCTTCCCA
* * *
38979187 CTATCTTGGAAAGATAACATTTGCCGTCTTCGATTTGCTCCACTACTGCTTAGGAAGATAAGATC
66 CTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATC
38979252 TA
131 TA
* * * *
38979254 CAATTTTTAAGCCACTCCGCTGCTGCTCAGTGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCA
1 CAATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGACTTAAATCTGCTTCCCA
* **
38979319 CTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTCGAAAGATAAGATC
66 CTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATC
*
38979384 TT
131 TA
* * * * *
38979386 CAATTTTCAACCCACTCCGCAGCTGCTCAGGGTGACAAGGCTTGGTCACGTAAATCCGCTTCCCA
1 CAATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGACTTAAATCTGCTTCCCA
*
38979451 CTATCTTGGAAATATAA
66 CTATCTTGGAAAGATAA
38979468 NNNNNNNNNN
Statistics
Matches: 783, Mismatches: 83, Indels: 14
0.89 0.09 0.02
Matches are distributed among these distances:
130 5 0.01
131 112 0.14
132 657 0.84
133 9 0.01
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (132 bp):
CAATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGACTTAAATCTGCTTCCCA
CTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATC
TA
Found at i:38979991 original size:132 final size:131
Alignment explanation
Indices: 38979718--38981673 Score: 2653
Period size: 132 Copynumber: 14.8 Consensus size: 131
38979708 NNNNNNNNNN
* * * *
38979718 TCTTGGGAAGATAAGATTTGTTGACTTCGATCTTCTCCACTACTGCTTAGGGAGATAAGATCTAC
1 TCTTGGAAAGATAAGATTTGTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTAC
*
38979783 AA-TTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTAAAATCTGCTTCCCAC
66 AATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGT-GCTTAAATCTGCTTCCCAC
38979847 TA
130 TA
* * *
38979849 TCTTGAAAAGATAAGATTTGTCATCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTAC
1 TCTTGGAAAGATAAGATTTGTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTAC
* * * * * *
38979914 AATTTTCAACCCACTCCGTTGCTACTCGGGGAGACAAGGCTTGGTGGTATAAATCTACTTCCCCC
66 AATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGCT-TAAATCTGCTTCCCAC
38979979 TA
130 TA
* * * * **
38979981 TCTTAGAAAGATGAGATTTGTCGTCTTCGATCTACTCGAAGACTGCTTAGGGAGATAAGATCTAC
1 TCTTGGAAAGATAAGATTTGTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTAC
* * *
38980046 AAGTTTCAACCCACTCCGCTGCAGCTCAGGGAGACAAGGCTTGGTGACTTAAATCTGCTTCCTAC
66 AATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTG-CTTAAATCTGCTTCCCAC
38980111 TA
130 TA
* * * ** *
38980113 TGTTGGAAGGATAAGATTT-TCCCTCTTCGATCTGCTCTTCTACTGCTTAGGGCGATAAGATCTA
1 TCTTGGAAAGATAAGATTTGT-CGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTA
* *
38980177 CAATTTTCAACCCACTCCACTGCTGCTCAGGGAGACAAGGCTTGGTAACTTAAATCTGCTTCCCA
65 CAATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGT-GCTTAAATCTGCTTCCCA
*
38980242 TTA
129 CTA
* * * *
38980245 TCTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTTC
1 TCTTGGAAAGATAAGATTTGTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTAC
* * * * ** * *
38980310 AATTTTGAACCCACTCCGATGCTGCTTAGGGTGACAAGGCTTACTCACTTAAATCTGCTTTCCAC
66 AATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGT-GCTTAAATCTGCTTCCCAC
38980375 TA
130 TA
* * * * *
38980377 TCTTGGAAATATAATG-TTTGTCATCATCGATCTGTTCCACTACTGCTTAGAGAGATAAGATCTA
1 TCTTGGAAAGATAA-GATTTGTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTA
* ** * * * **
38980441 CAATTTTCAACCCACTCCGTTTATG-ACAGGGAGACAATTGCTAGGTGGCTTAAATCCACTTCCC
65 CAATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAA-GGCTTGGT-GCTTAAATCTGCTTCCC
*
38980505 CCTA
128 ACTA
* * *
38980509 TCTTGGAAAAATAAGATTTGTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATCAGATCTGC
1 TCTTGGAAAGATAAGATTTGTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTAC
* *
38980574 AAGTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCTTTGTGACTTAAATCTGCTTCCCAC
66 AATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTG-CTTAAATCTGCTTCCCAC
38980639 TA
130 TA
* * * * * *
38980641 TCTTTGAAAGATACGATTTGCCGTCTTCGATCTACTCCACTATTGCATAGGGAGATAAGATCTAC
1 TCTTGGAAAGATAAGATTTGTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTAC
*
38980706 AATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAAGCTTGGTGGCTTAAATCTGCTTCCCAC
66 AATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGT-GCTTAAATCTGCTTCCCAC
38980771 TA
130 TA
* * * * *
38980773 TCTTGGAAAGATAAGATCTGCCGTCTTCGATCTTCTTCACTACTGCTTAGGGAGATAGGATCTAC
1 TCTTGGAAAGATAAGATTTGTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTAC
*
38980838 AATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAATGCTTGGTGACTTAAATCTGCTTCCCAC
66 AATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTG-CTTAAATCTGCTTCCCAC
38980903 TA
130 TA
* * * *
38980905 TGTTGGAAAGATAAGATTTGCCGTCCTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTAC
1 TCTTGGAAAGATAAGATTTGTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTAC
* *
38980970 AATTTTCAACCCACTCCGCTCCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCAGCTTCCCAC
66 AATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGT-GCTTAAATCTGCTTCCCAC
38981035 TA
130 TA
* * *
38981037 TCTTGGAAAGATAAGATTTGTCGTCTTTGATCTGCTCCACTACTGCCTAGGGATATAAGATCTAC
1 TCTTGGAAAGATAAGATTTGTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTAC
* ** * * * *
38981102 AATTTTCAATCCACTCTACTGCTGCTCAGGGAAACTAGGCTTGGTGACTTCAATCTACTTCCCAC
66 AATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTG-CTTAAATCTGCTTCCCAC
38981167 TA
130 TA
* * ** * *
38981169 TGTTGGAAAGATACGATTTACCGTCTTTGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTAC
1 TCTTGGAAAGATAAGATTTGTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTAC
* * *
38981234 AATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAATGCTTGGTGACTTAAGTCTGCTTCCCAT
66 AATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTG-CTTAAATCTGCTTCCCAC
38981299 TA
130 TA
* * * * *
38981301 TCTTGGAAAGATAAGATTTGCCATCTTCGATCTCCTGCACTACTGCTTAGGGAGATAAGATCTAT
1 TCTTGGAAAGATAAGATTTGTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTAC
* * * * *
38981366 AATTTTCAGCCTACACCGCTGCTGCTCAGGGAGACAATGTTTGGTGACTTAAATCTGCTTCCCAC
66 AATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTG-CTTAAATCTGCTTCCCAC
38981431 TA
130 TA
* * *
38981433 TCTTGGGAAGATAAGATTTGTTGTCTTCGATCTGCTCAACTACTGCTTAGGGAGATAAGATCTAC
1 TCTTGGAAAGATAAGATTTGTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTAC
38981498 AATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCAC
66 AATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGT-GCTTAAATCTGCTTCCCAC
38981563 TA
130 TA
* * *
38981565 TCTTGAAAAGATAAGATTTGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTAC
1 TCTTGGAAAGATAAGATTTGTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTAC
*
38981630 AATTTTCAGCCCACTCCGCTGCTGCTC-GAGGAGACAAGGCTTGG
66 AATTTTCAACCCACTCCGCTGCTGCTCAG-GGAGACAAGGCTTGG
38981674 NNNNNNNNNN
Statistics
Matches: 1599, Mismatches: 209, Indels: 33
0.87 0.11 0.02
Matches are distributed among these distances:
131 77 0.05
132 1506 0.94
133 16 0.01
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (131 bp):
TCTTGGAAAGATAAGATTTGTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTAC
AATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGCTTAAATCTGCTTCCCACT
A
Found at i:38982477 original size:132 final size:132
Alignment explanation
Indices: 38982238--38983259 Score: 1521
Period size: 132 Copynumber: 7.7 Consensus size: 132
38982228 NNNNNNNNNN
* *
38982238 AGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAAGCAA
1 AGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAACCCA
* * *
38982303 CACCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAACGA
66 CTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGACTTAAATCTGCTTCCCACTATCTTGGAAAGA
38982368 TA
131 TA
* *
38982370 ACATTTGCCGTCTTCGATATGCTCCACTACTGCTTAGGGAGATAAGATCTACAA-TTTCTAACCC
1 AGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTC-AACCC
* *
38982434 ACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGACTTAAATCTGGTTCCCACTATTTTGGAAAG
65 ACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGACTTAAATCTGCTTCCCACTATCTTGGAAAG
38982499 ATA
130 ATA
* * * * *
38982502 AGATTTGCCGTCTTCGATCTGCACTACTATTGCTTAGGGAGATAAGATCTATAATTTTTAACCCA
1 AGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAACCCA
* * * ** *
38982567 CTCCGCTGCCTCCCCAGGGAGGCAATGTTTGGTGGTGACTTAAATCTGCTTCCCACTATCTTGGG
66 CTCCGCTG-CTGCTCAGGGAGACAA-GGCT--TGGTGACTTAAATCTGCTTCCCACTATCTTGGA
38982632 AAGATA
127 AAGATA
** * *
38982638 AGATTTGTTGACTTCGATCTTCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAACCCA
1 AGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAACCCA
* * *
38982703 CTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTAAAATCTGCTTCCCACTATCTTGAAAAGA
66 CTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGACTTAAATCTGCTTCCCACTATCTTGGAAAGA
38982768 TA
131 TA
* **
38982770 AGATTTGCCATCTTCGATCTGCAGCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAACCCA
1 AGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAACCCA
*
38982835 CACCGCTGCTGCTCAGGGAGACAAGGCCTTGGTGACTTAAATCTGCTT-CCACTATCTT-GAAAG
66 CTCCGCTGCTGCTCAGGGAGACAAGG-CTTGGTGACTTAAATCTGCTTCCCACTATCTTGGAAAG
38982898 ATA
130 ATA
* *
38982901 AGATTTGCCATCTTCCGATCTGCTCCACTACTGCTTAGGCAGATAAGATCTACAATTTTCAACCC
1 AGATTTGCCGTCTT-CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAACCC
* * *
38982966 ACTCCGCTGCTGCTCAGGGAGATAAGGCTTGGTGACTTAAATCTACTTCCCATTATCTTGGAAAG
65 ACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGACTTAAATCTGCTTCCCACTATCTTGGAAAG
38983031 ATA
130 ATA
* *
38983034 AGATTTGCCGTCTTCGATCTGCTCCACTATTGCTTAGGGAGATAAGATATACAATTTTCAACCCA
1 AGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAACCCA
* *
38983099 CTCCGCTGCTGC-AACGGGAGACAAGGCTTGGTTACTTAAATCTGCTTCCCACTATCTTGGAAAG
66 CTCCGCTGCTGCTCA-GGGAGACAAGGCTTGGTGACTTAAATCTGCTTCCCACTATCTTGGAAAG
38983163 ATA
130 ATA
** *
38983166 AGATTTATCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAACCTA
1 AGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAACCCA
* * * *
38983231 CTCTGTTGTTGCTCAGGGAGAGAAGGCTT
66 CTCCGCTGCTGCTCAGGGAGACAAGGCTT
38983260 AGTGTTTCAC
Statistics
Matches: 799, Mismatches: 79, Indels: 24
0.89 0.09 0.03
Matches are distributed among these distances:
131 46 0.06
132 579 0.72
133 57 0.07
134 4 0.01
135 13 0.02
136 100 0.13
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (132 bp):
AGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAACCCA
CTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGACTTAAATCTGCTTCCCACTATCTTGGAAAGA
TA
Found at i:38987887 original size:195 final size:195
Alignment explanation
Indices: 38987554--38987943 Score: 735
Period size: 195 Copynumber: 2.0 Consensus size: 195
38987544 ACCATGTGAA
* *
38987554 GACATCTTTGAATTCTTGGAGTAATTTAATAAGGTCTCGTCTTGTCTTTGCAGAAATCTCAGTTC
1 GACATCTTTGAATTCTTCGAGTAATTCAATAAGGTCTCGTCTTGTCTTTGCAGAAATCTCAGTTC
38987619 CAATTTTCACCTCTTTTCCTTCTTCCAAACTCACAATTTCTACTAATTCTCTGTGAGGTAGGATT
66 CAATTTTCACCTCTTTTCCTTCTTCCAAACTCACAATTTCTACTAATTCTCTGTGAGGTAGGATT
*
38987684 TGCTTTTTCTCTTGTTCTACCATCATCAACAAATCCAAAGATAAACCACTATCTTCGTCACCTTC
131 TACTTTTTCTCTTGTTCTACCATCATCAACAAATCCAAAGATAAACCACTATCTTCGTCACCTTC
*
38987749 GACATCTTTGAATTCTTCGAGTAATTCAATGAGGTCTCGTCTTGTCTTTGCAGAAATCTCAGTTC
1 GACATCTTTGAATTCTTCGAGTAATTCAATAAGGTCTCGTCTTGTCTTTGCAGAAATCTCAGTTC
38987814 CAATTTTCACCTCTTTTCCTTCTTCCAAACTCACAATTTCTACTAATTCTCTGTGAGGTAGGATT
66 CAATTTTCACCTCTTTTCCTTCTTCCAAACTCACAATTTCTACTAATTCTCTGTGAGGTAGGATT
*
38987879 TACTTTTTCTCTTGTTCTACCATCATCAACAAATCTAAAGATAAACCACTATCTTCGTCACCTTC
131 TACTTTTTCTCTTGTTCTACCATCATCAACAAATCCAAAGATAAACCACTATCTTCGTCACCTTC
38987944 AAAGTCGTAC
Statistics
Matches: 190, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
195 190 1.00
ACGTcount: A:0.25, C:0.25, G:0.11, T:0.39
Consensus pattern (195 bp):
GACATCTTTGAATTCTTCGAGTAATTCAATAAGGTCTCGTCTTGTCTTTGCAGAAATCTCAGTTC
CAATTTTCACCTCTTTTCCTTCTTCCAAACTCACAATTTCTACTAATTCTCTGTGAGGTAGGATT
TACTTTTTCTCTTGTTCTACCATCATCAACAAATCCAAAGATAAACCACTATCTTCGTCACCTTC
Found at i:38995578 original size:24 final size:23
Alignment explanation
Indices: 38995551--38995615 Score: 62
Period size: 24 Copynumber: 2.7 Consensus size: 23
38995541 ATACATACGT
38995551 ATATATAATAAAATAAAT-ATATAC
1 ATATA-AATAAAATAAATAAT-TAC
*
38995575 ATATAGATTATAAA-AAATAATTAC
1 ATATA-AATA-AAATAAATAATTAC
38995599 ATATAAATAAAAATAAA
1 ATATAAAT-AAAATAAA
38995616 AATAAAATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
23 5 0.15
24 24 0.71
25 5 0.15
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.31
Consensus pattern (23 bp):
ATATAAATAAAATAAATAATTAC
Found at i:38997918 original size:25 final size:25
Alignment explanation
Indices: 38997868--38997927 Score: 59
Period size: 25 Copynumber: 2.4 Consensus size: 25
38997858 ATATAAATTT
* * *
38997868 TAATTTTTTTAAAAATTTAATGTAA
1 TAATGTTTTTAAAAATATAATATAA
*
38997893 TTATGTTTTTAAAAA-ATAATAATAA
1 TAATGTTTTTAAAAATATAAT-ATAA
*
38997918 TAATTTTTTT
1 TAATGTTTTT
38997928 TAAAGATACT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
24 4 0.14
25 24 0.86
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (25 bp):
TAATGTTTTTAAAAATATAATATAA
Found at i:38998202 original size:20 final size:19
Alignment explanation
Indices: 38998157--38998202 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
38998147 ATCAAAATTT
*
38998157 TAAAATGTATTATATTTAT
1 TAAAATGTATTATATTTAA
*
38998176 TACAAATGTTTTATATTTAAA
1 TA-AAATGTATTATATTT-AA
38998197 TAAAAT
1 TAAAAT
38998203 TTAAAAGATC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (19 bp):
TAAAATGTATTATATTTAA
Found at i:39000824 original size:23 final size:23
Alignment explanation
Indices: 39000797--39000895 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
39000787 AGTGTTATTG
*
39000797 ATCAGTGGTAGCTTCGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACAT
*
39000820 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
39000843 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
39000866 AACAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
39000889 ATCAGTG
1 ATCAGTG
39000896 TTGCACTTAT
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 71 1.00
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.31
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:39021764 original size:29 final size:29
Alignment explanation
Indices: 39021722--39021787 Score: 105
Period size: 29 Copynumber: 2.3 Consensus size: 29
39021712 ACACGATTCA
39021722 GCACACGGTCTGTCACATAGCCATGTGTC
1 GCACACGGTCTGTCACATAGCCATGTGTC
* * *
39021751 GCACACGGTCTGTCACATGGCCGTGTGTT
1 GCACACGGTCTGTCACATAGCCATGTGTC
39021780 GCACACGG
1 GCACACGG
39021788 CCTACCACAC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.18, C:0.30, G:0.29, T:0.23
Consensus pattern (29 bp):
GCACACGGTCTGTCACATAGCCATGTGTC
Found at i:39021796 original size:29 final size:29
Alignment explanation
Indices: 39021735--39021806 Score: 72
Period size: 29 Copynumber: 2.5 Consensus size: 29
39021725 CACGGTCTGT
* * * **
39021735 CACATAGCCATGTGTCGCACACGGTCTGT
1 CACATGGCCGTGTGTCGCACACGGCCTAC
*
39021764 CACATGGCCGTGTGTTGCACACGGCCTAC
1 CACATGGCCGTGTGTCGCACACGGCCTAC
* *
39021793 CACACGACCGTGTG
1 CACATGGCCGTGTG
39021807 GCGTTGACAG
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.19, C:0.33, G:0.26, T:0.21
Consensus pattern (29 bp):
CACATGGCCGTGTGTCGCACACGGCCTAC
Found at i:39022575 original size:15 final size:15
Alignment explanation
Indices: 39022555--39022583 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
39022545 ATATATATAT
39022555 TTTAAAATTAACTCA
1 TTTAAAATTAACTCA
39022570 TTTAAAATTAACTC
1 TTTAAAATTAACTC
39022584 TAAAATTAAT
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:0.45, C:0.14, G:0.00, T:0.41
Consensus pattern (15 bp):
TTTAAAATTAACTCA
Found at i:39025685 original size:11 final size:11
Alignment explanation
Indices: 39025669--39025695 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
39025659 ATTTGATAAA
39025669 CAATGCAAATT
1 CAATGCAAATT
39025680 CAATGCAAATT
1 CAATGCAAATT
39025691 CAATG
1 CAATG
39025696 GCTAAAAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.44, C:0.19, G:0.11, T:0.26
Consensus pattern (11 bp):
CAATGCAAATT
Found at i:39026278 original size:29 final size:28
Alignment explanation
Indices: 39026203--39026280 Score: 77
Period size: 29 Copynumber: 2.7 Consensus size: 28
39026193 ATTGGACTTA
* * *
39026203 AAATTTGAAATTTGAAAAATAGATAGACT
1 AAATTTCAAAATT-AAAAATACATAGACT
* *
39026232 AAATTCTTAGAAA-TAAAAGTACATAGACT
1 AAATT-TCA-AAATTAAAAATACATAGACT
39026261 AAATTTCAAAATTAAAAATA
1 AAATTTCAAAATTAAAAATA
39026281 ATACAAAAAC
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
27 3 0.08
28 9 0.22
29 23 0.57
30 3 0.08
31 2 0.05
ACGTcount: A:0.55, C:0.06, G:0.09, T:0.29
Consensus pattern (28 bp):
AAATTTCAAAATTAAAAATACATAGACT
Found at i:39027420 original size:38 final size:36
Alignment explanation
Indices: 39027290--39028039 Score: 524
Period size: 37 Copynumber: 20.5 Consensus size: 36
39027280 TCATTGAAGG
* * *
39027290 GTTGGGAAAGACCTAGTC-AAGGCCAACCTTTGAAAAAG
1 GTTGGGATAGACCTTGTCTAAGG-CAA-CTTT-AAAAAA
* * * * *
39027328 GTTGTGATATA-CTTGCCTAAGGCAACCTTAAAAAG
1 GTTGGGATAGACCTTGTCTAAGGCAACTTTAAAAAA
** **
39027363 GTTGGGATAG-CCGAGTCTAAGATAACTATTTAAAAAA
1 GTTGGGATAGACCTTGTCTAAGGCAAC--TTTAAAAAA
*
39027400 GTTGGGATAGACCTTATCTAAGGCAACATTTAAAAAAA
1 GTTGGGATAGACCTTGTCTAAGGCAAC-TTT-AAAAAA
* *
39027438 GTTGGGATAGATCTTGTCTAAGACAACCTTTAAAAAA
1 GTTGGGATAGACCTTGTCTAAGGCAA-CTTTAAAAAA
* * * * * *
39027475 GATTGGGATAGA-ATCGTCTAAAGCAACCTTAAATAG
1 G-TTGGGATAGACCTTGTCTAAGGCAACTTTAAAAAA
* * *
39027511 GTTGGTATAGACCGTGTCTAAGGCAACCTTTAAGAAAG
1 GTTGGGATAGACCTTGTCTAAGGCAA-CTTTAA-AAAA
* * * *
39027549 GTTGAGATAGACC-AGTTTAAGGTAACCTTTAAAAAAA
1 GTTGGGATAGACCTTGTCTAAGGCAA-CTTT-AAAAAA
39027586 GTTGGGATAGACCTTGTCTAAGGCAACCTTTAAAAAAA
1 GTTGGGATAGACCTTGTCTAAGGCAA-CTTT-AAAAAA
*
39027624 GTTGGGATAGACC-TGTCTAAGGCAATCTTTTAAAAAT
1 GTTGGGATAGACCTTGTCTAAGGCAA-C-TTTAAAAAA
* *
39027661 GTTGGGATAGATCTTGTCTAAGGCAACCTTAAAAAA
1 GTTGGGATAGACCTTGTCTAAGGCAACTTTAAAAAA
* * *
39027697 GGGTTGGGATA-AACTTGTCTAAGGCAATCTTCAAAAAGG
1 --GTTGGGATAGACCTTGTCTAAGGCAA-CTTTAAAAA-A
* * *
39027736 GTTGGGATAGA-CTTGTCTAAAGCAACATTAAAAAG
1 GTTGGGATAGACCTTGTCTAAGGCAACTTTAAAAAA
* * * * *
39027771 GCTGGGATAGA--TTGATCTAAAGTAACCTTAAAAAG
1 GTTGGGATAGACCTTG-TCTAAGGCAACTTTAAAAAA
* * *
39027806 GTTGAGATAGACCTTGTCTAAGGCAAATTTTAGAAAAG
1 GTTGGGATAGACCTTGTCTAAGGC-AACTTTA-AAAAA
* * * *
39027844 GTTGGGATTGACC-TGTCTAAGACAACCTTAAAAAT
1 GTTGGGATAGACCTTGTCTAAGGCAACTTTAAAAAA
* * * * * *
39027879 GTCGGGATAGACC-CGTTTAAAGCAACCTTAAAAAG
1 GTTGGGATAGACCTTGTCTAAGGCAACTTTAAAAAA
* * * *
39027914 GTTGGGATAAACCTTTTCCAAGGCAACTTAAAAAAA
1 GTTGGGATAGACCTTGTCTAAGGCAACTTTAAAAAA
* ** * *
39027950 GTTGGGATAAACC-CATCTAAGGCAACCTTAAAAAG
1 GTTGGGATAGACCTTGTCTAAGGCAACTTTAAAAAA
* * * *
39027985 GTTAAGG-TA-AACTCGTCTAAGGCAAAC-TTAAAAAG
1 GTT-GGGATAGACCTTGTCTAAGGC-AACTTTAAAAAA
*
39028020 GTTGGGATAGATCTTTGTCT
1 GTTGGGATAGA-CCTTGTCT
39028040 CATGTCTAAT
Statistics
Matches: 576, Mismatches: 104, Indels: 65
0.77 0.14 0.09
Matches are distributed among these distances:
34 7 0.01
35 157 0.27
36 79 0.14
37 169 0.29
38 163 0.28
39 1 0.00
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.26
Consensus pattern (36 bp):
GTTGGGATAGACCTTGTCTAAGGCAACTTTAAAAAA
Found at i:39027470 original size:75 final size:73
Alignment explanation
Indices: 39027289--39028039 Score: 581
Period size: 75 Copynumber: 10.3 Consensus size: 73
39027279 CTCATTGAAG
* * * * * *
39027289 GGTTGGGAAAGACCTAGTC-AAGGCCAACCTTTGAAAAAGGTTGTGATATA-CTTGCCTAAGGCA
1 GGTTGGGATAGACCTTGTCTAA-GACAACCTTT-AAAAAGGTTGGGATAGACCTTGTCTAAGGCA
39027352 ACCTTAAAAA
64 ACCTTAAAAA
** * * * *
39027362 GGTTGGGATAG-CCGAGTCTAAGATAACTATTTAAAAAAGTTGGGATAGACCTTATCTAAGGCAA
1 GGTTGGGATAGACCTTGTCTAAGACAAC-CTTTAAAAAGGTTGGGATAGACCTTGTCTAAGGCAA
*
39027426 CATTTAAAAAA
65 C-CTT-AAAAA
* * * * * *
39027437 AGTTGGGATAGATCTTGTCTAAGACAACCTTTAAAAAAGATTGGGATAGA-ATCGTCTAAAGCAA
1 GGTTGGGATAGACCTTGTCTAAGACAACCTTT-AAAAAGGTTGGGATAGACCTTGTCTAAGGCAA
*
39027501 CCTTAAATA
65 CCTTAAAAA
* * * * * * *
39027510 GGTTGGTATAGACCGTGTCTAAGGCAACCTTTAAGAAAGGTTGAGATAGACC-AGTTTAAGGTAA
1 GGTTGGGATAGACCTTGTCTAAGACAACCTTTAA-AAAGGTTGGGATAGACCTTGTCTAAGGCAA
39027574 CCTTTAAAAAA
65 CC-TT-AAAAA
* * *
39027585 AGTTGGGATAGACCTTGTCTAAGGCAACCTTTAAAAAAAGTTGGGATAGACC-TGTCTAAGGCAA
1 GGTTGGGATAGACCTTGTCTAAGACAACCTTT-AAAAAGGTTGGGATAGACCTTGTCTAAGGCAA
*
39027649 TCTTTTAAAAA
65 -C-CTTAAAAA
* * * * *
39027660 TGTTGGGATAGATCTTGTCTAAGGCAACCTTAAAAAAGGGTTGGGATA-AACTTGTCTAAGGCAA
1 GGTTGGGATAGACCTTGTCTAAGACAACCTTTAAAAA-GGTTGGGATAGACCTTGTCTAAGGCAA
*
39027724 TCTTCAAAAA
65 CCTT-AAAAA
* * * *
39027734 GGGTTGGGATAGA-CTTGTCTAA-AGCAA-CATTAAAAAGGCTGGGATAGA--TTGATCTAAAGT
1 -GGTTGGGATAGACCTTGTCTAAGA-CAACCTTTAAAAAGGTTGGGATAGACCTTG-TCTAAGGC
39027794 AACCTTAAAAA
63 AACCTTAAAAA
* * ** * *
39027805 GGTTGAGATAGACCTTGTCTAAGGCAAATTTTAGAAAAGGTTGGGATTGACC-TGTCTAAGACAA
1 GGTTGGGATAGACCTTGTCTAAGACAACCTTTA-AAAAGGTTGGGATAGACCTTGTCTAAGGCAA
39027869 CCTTAAAAA
65 CCTTAAAAA
* * * * * * *
39027878 TGTCGGGATAGACC-CGTTTAA-AGCAACC-TTAAAAAGGTTGGGATAAACCTTTTCCAAGGCAA
1 GGTTGGGATAGACCTTGTCTAAGA-CAACCTTTAAAAAGGTTGGGATAGACCTTGTCTAAGGCAA
39027940 -CTTAAAAAA
65 CCTT-AAAAA
* * ** * * * *
39027949 AGTTGGGATAAACC-CATCTAAGGCAACC-TTAAAAAGGTTAAGG-TA-AACTCGTCTAAGGCAA
1 GGTTGGGATAGACCTTGTCTAAGACAACCTTTAAAAAGGTT-GGGATAGACCTTGTCTAAGGCAA
*
39028010 ACTTAAAAA
65 CCTTAAAAA
*
39028019 GGTTGGGATAGATCTTTGTCT
1 GGTTGGGATAGA-CCTTGTCT
39028040 CATGTCTAAT
Statistics
Matches: 543, Mismatches: 100, Indels: 71
0.76 0.14 0.10
Matches are distributed among these distances:
70 57 0.10
71 75 0.14
72 62 0.11
73 133 0.24
74 32 0.06
75 152 0.28
76 32 0.06
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.26
Consensus pattern (73 bp):
GGTTGGGATAGACCTTGTCTAAGACAACCTTTAAAAAGGTTGGGATAGACCTTGTCTAAGGCAAC
CTTAAAAA
Found at i:39027847 original size:108 final size:107
Alignment explanation
Indices: 39027333--39028039 Score: 470
Period size: 108 Copynumber: 6.5 Consensus size: 107
39027323 AAAAGGTTGT
* * * ** ** *
39027333 GATATACTTGCCTAAGGCAACCTT-AAAAAGGTTGGGATAG-CCGAGTCTAAGATAACTATTTAA
1 GATAGACTTGTCTAAAGCAACCTTAAAAAAGGTTGGGATAGACCTTGTCTAAGGCAAAT-TTTAA
* * * *
39027396 AAAAGTTGGGATAGACCTTATCTAAGGCAACATTTAAAAAAAGTTGG
65 AAAGGTTGGGATAGACC-TGTCTAAAGCAACA-TT-AAAAATG-TGG
* * * * **
39027443 GATAGATCTTGTCT-AAGACAACCTTTAAAAAAGATTGGGATAGA-ATCGTCTAAAGC-AACCTT
1 GATAGA-CTTGTCTAAAG-CAACC-TTAAAAAAGGTTGGGATAGACCTTGTCTAAGGCAAATTTT
* * * * * *
39027505 AAATAGGTTGGTATAGACCGTGTCTAAGGCAACCTTTAAGAAAGGTTGA
63 AAAAAGGTTGGGATAGACC-TGTCTAAAGCAA-CATTAA-AAATG-TGG
** * * * * * *
39027554 GATAGACCAGTTTAAGGTAACCTTTAAAAAAAGTTGGGATAGACCTTGTCTAAGGCAACCTTTAA
1 GATAGACTTGTCTAAAGCAACC-TTAAAAAAGGTTGGGATAGACCTTGTCTAAGGCAA-ATTTTA
* * *
39027619 AAAAAGTTGGGATAGACCTGTCTAAGGCAATCTTTTAAAAATGTTGG
64 AAAAGGTTGGGATAGACCTGTCTAAAGCAA-C-ATTAAAAATG-TGG
* * *
39027666 GATAGATCTTGTCTAAGGCAACCTTAAAAAAGGGTTGGGATA-AACTTGTCTAAGGC-AATCTTC
1 GATAGA-CTTGTCTAAAGCAACCTTAAAAAA-GGTTGGGATAGACCTTGTCTAAGGCAAAT-TTT
* *
39027729 AAAAAGGGTTGGGATAGACTTGTCTAAAGCAACATTAAAAAGGCTGG
63 AAAAA-GGTTGGGATAGACCTGTCTAAAGCAACATTAAAAATG-TGG
* *
39027776 GATAGA-TTGATCTAAAGTAACCTT-AAAAAGGTTGAGATAGACCTTGTCTAAGGCAAATTTTAG
1 GATAGACTTG-TCTAAAGCAACCTTAAAAAAGGTTGGGATAGACCTTGTCTAAGGCAAATTTTA-
* *
39027839 AAAAGGTTGGGATTGACCTGTCT-AAGACAACCTTAAAAATGTCGG
64 AAAAGGTTGGGATAGACCTGTCTAAAG-CAACATTAAAAATGT-GG
** * * * * * *
39027884 GATAGACCCGTTTAAAGCAACCTT-AAAAAGGTTGGGATAAACCTTTTCCAAGGC-AACTTAAAA
1 GATAGACTTGTCTAAAGCAACCTTAAAAAAGGTTGGGATAGACCTTGTCTAAGGCAAATTTTAAA
* * ** * * * *
39027947 AAAGTTGGGATAAACCCATCTAAGGCAACCTTAAAAAGGTTAAG
66 AAGGTTGGGATAGACCTGTCTAAAGCAACATTAAAAATG-T-GG
* * * * *
39027991 G-TAAACTCGTCTAAGGCAAACTT-AAAAAGGTTGGGATAGATCTTTGTCT
1 GATAGACTTGTCTAAAGCAACCTTAAAAAAGGTTGGGATAGA-CCTTGTCT
39028040 CATGTCTAAT
Statistics
Matches: 479, Mismatches: 92, Indels: 55
0.77 0.15 0.09
Matches are distributed among these distances:
106 64 0.13
107 28 0.06
108 99 0.21
109 20 0.04
110 54 0.11
111 75 0.16
112 75 0.16
113 64 0.13
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.27
Consensus pattern (107 bp):
GATAGACTTGTCTAAAGCAACCTTAAAAAAGGTTGGGATAGACCTTGTCTAAGGCAAATTTTAAA
AAGGTTGGGATAGACCTGTCTAAAGCAACATTAAAAATGTGG
Found at i:39027996 original size:71 final size:70
Alignment explanation
Indices: 39027870--39028028 Score: 178
Period size: 71 Copynumber: 2.3 Consensus size: 70
39027860 CTAAGACAAC
* * * * * * **
39027870 CTTAAAAATGTCGGGATAGACCCGTTTAAAGCAACCTTAAAAAGGTTGGGATAAACCTTTTCCAA
1 CTTAAAAAAGTTGGGATAAACCCATCTAAAGCAACCTTAAAAAGGTTAGGATAAA-CTCGTCCAA
39027935 GGC-AA
65 GGCAAA
* *
39027940 CTTAAAAAAAGTTGGGATAAACCCATCTAAGGCAACCTTAAAAAGGTTAAGG-TAAACTCGTCTA
1 CTT-AAAAAAGTTGGGATAAACCCATCTAAAGCAACCTTAAAAAGGTT-AGGATAAACTCGTCCA
39028004 AGGCAAA
64 AGGCAAA
*
39028011 CTTAAAAAGGTTGGGATA
1 CTTAAAAAAGTTGGGATA
39028029 GATCTTTGTC
Statistics
Matches: 75, Mismatches: 11, Indels: 6
0.82 0.12 0.07
Matches are distributed among these distances:
70 26 0.35
71 47 0.63
72 2 0.03
ACGTcount: A:0.40, C:0.16, G:0.20, T:0.23
Consensus pattern (70 bp):
CTTAAAAAAGTTGGGATAAACCCATCTAAAGCAACCTTAAAAAGGTTAGGATAAACTCGTCCAAG
GCAAA
Found at i:39028343 original size:74 final size:75
Alignment explanation
Indices: 39028221--39028372 Score: 234
Period size: 74 Copynumber: 2.0 Consensus size: 75
39028211 TAGTAATTTA
* *
39028221 TATACAAAATCCTAATAGAAGGAGTCAACAAGTTGCGAACATATTGTCAACCTATTTCACATGAC
1 TATACAAAATCCTAATAGAAGCAGTCAACAAGTTGCAAACATATTGTCAACCTATTTCACATGAC
39028286 ATCAAAAAAT
66 ATCAAAAAAT
* * * * *
39028296 TATACAAAATCCTAATAGAA-CAGTCAACACGTTGCAAACATGTTGTCAACTTGTTTCCCATGAC
1 TATACAAAATCCTAATAGAAGCAGTCAACAAGTTGCAAACATATTGTCAACCTATTTCACATGAC
39028360 ATCAAAAAAT
66 ATCAAAAAAT
39028370 TAT
1 TAT
39028373 GGGACAACAA
Statistics
Matches: 70, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
74 50 0.71
75 20 0.29
ACGTcount: A:0.42, C:0.20, G:0.11, T:0.27
Consensus pattern (75 bp):
TATACAAAATCCTAATAGAAGCAGTCAACAAGTTGCAAACATATTGTCAACCTATTTCACATGAC
ATCAAAAAAT
Found at i:39032547 original size:8 final size:8
Alignment explanation
Indices: 39032523--39032585 Score: 56
Period size: 8 Copynumber: 7.4 Consensus size: 8
39032513 ATTATTTTGA
39032523 AAATATAT
1 AAATATAT
39032531 AAA-ATAT
1 AAATATAT
39032538 AAATATAT
1 AAATATAT
*
39032546 AAAATCCTAT
1 -AAAT-ATAT
*
39032556 AACATATGCAA
1 AA-ATAT--AT
39032567 AAATATAT
1 AAATATAT
39032575 AAATATAT
1 AAATATAT
39032583 AAA
1 AAA
39032586 AGTGTCTAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
7 7 0.16
8 19 0.42
9 7 0.16
10 9 0.20
11 3 0.07
ACGTcount: A:0.62, C:0.06, G:0.02, T:0.30
Consensus pattern (8 bp):
AAATATAT
Found at i:39032646 original size:20 final size:19
Alignment explanation
Indices: 39032623--39032668 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
39032613 AAAAATTATA
*
39032623 ATATATAAGTTTATAAAAAT
1 ATATATAAATTTA-AAAAAT
*
39032643 ATATTATAAATTTAGAAAAT
1 ATA-TATAAATTTAAAAAAT
39032663 ATATAT
1 ATATAT
39032669 TTGTTATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 3 0.13
20 11 0.48
21 9 0.39
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.41
Consensus pattern (19 bp):
ATATATAAATTTAAAAAAT
Found at i:39032669 original size:22 final size:21
Alignment explanation
Indices: 39032626--39032669 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
39032616 AATTATAATA
* *
39032626 TATAAGTTTATAAAAATATAT
1 TATAAATTTAGAAAAATATAT
39032647 TATAAATTTAGAAAATATATAT
1 TATAAATTTAGAAAA-ATATAT
39032669 T
1 T
39032670 TGTTATATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (21 bp):
TATAAATTTAGAAAAATATAT
Found at i:39038288 original size:43 final size:43
Alignment explanation
Indices: 39038211--39038593 Score: 336
Period size: 43 Copynumber: 8.9 Consensus size: 43
39038201 AGCTCGTACA
* * * *
39038211 ATGCC-ATATCCCAGACAGGGTCTTATACGAAATCATATAATG
1 ATGCCAATGTCCCAGACATGGTCTTATACGTAATCACATAATG
** *
39038253 ATGCCAATGTCCCAGACATGGAGTTAAACGTAATCACAGTACA--
1 ATGCCAATGTCCCAGACATGGTCTTATACGTAATCACA-TA-ATG
* * *
39038296 ATGCCAATGTCCCAGACATGGTCTTACATGTTATCACAT-ATCG
1 ATGCCAATGTCCCAGACATGGTCTTATACGTAATCACATAAT-G
* * * *
39038339 ATGCCACTGTCCCAGACAGGGTCTTATACGAAATCATATAATG
1 ATGCCAATGTCCCAGACATGGTCTTATACGTAATCACATAATG
* *
39038382 ATGTCAATGTCCTAGACATGGTCTTATACGTAATCACAATACA--
1 ATGCCAATGTCCCAGACATGGTCTTATACGTAATCAC-ATA-ATG
* * * * *
39038425 ATGTCAAAGTCCCAGACATGGTCTTACATGTTATCACAT-ATCG
1 ATGCCAATGTCCCAGACATGGTCTTATACGTAATCACATAAT-G
* ** * *
39038468 ATGCCATTGTCCCAGACA-GCGTCTTATACAAAATCATATAACG
1 ATGCCAATGTCCCAGACATG-GTCTTATACGTAATCACATAATG
*
39038511 ATGTCAATGTCCCAGACATGGTCTTATACGTAATCACAGTACA--
1 ATGCCAATGTCCCAGACATGGTCTTATACGTAATCACA-TA-ATG
* * * *
39038554 ATGCCAATGTCCTAGACATGGTCTTACATGTTATCACATA
1 ATGCCAATGTCCCAGACATGGTCTTATACGTAATCACATA
39038594 TCGGTAACCC
Statistics
Matches: 274, Mismatches: 50, Indels: 34
0.77 0.14 0.09
Matches are distributed among these distances:
40 2 0.01
42 11 0.04
43 247 0.90
44 11 0.04
45 3 0.01
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTATACGTAATCACATAATG
Found at i:39038449 original size:129 final size:128
Alignment explanation
Indices: 39038211--39038596 Score: 637
Period size: 129 Copynumber: 3.0 Consensus size: 128
39038201 AGCTCGTACA
* * **
39038211 ATGCCATATCCCAGACAGGGTCTTATACGAAATCATATAATGATGCCAATGTCCCAGACATGGAG
1 ATGCCATGTCCCAGACAGGGTCTTATACGAAATCATATAATGATGTCAATGTCCCAGACATGGTC
*
39038276 TTAAACGTAATCACAGTACAATGCCAATGTCCCAGACATGGTCTTACATGTTATCACATATCG
66 TTATACGTAATCACAGTACAATGCCAATGTCCCAGACATGGTCTTACATGTTATCACATATCG
*
39038339 ATGCCACTGTCCCAGACAGGGTCTTATACGAAATCATATAATGATGTCAATGTCCTAGACATGGT
1 ATGCCA-TGTCCCAGACAGGGTCTTATACGAAATCATATAATGATGTCAATGTCCCAGACATGGT
* * *
39038404 CTTATACGTAATCACAATACAATGTCAAAGTCCCAGACATGGTCTTACATGTTATCACATATCG
65 CTTATACGTAATCACAGTACAATGCCAATGTCCCAGACATGGTCTTACATGTTATCACATATCG
* * *
39038468 ATGCCATTGTCCCAGACAGCGTCTTATACAAAATCATATAACGATGTCAATGTCCCAGACATGGT
1 ATGCCA-TGTCCCAGACAGGGTCTTATACGAAATCATATAATGATGTCAATGTCCCAGACATGGT
*
39038533 CTTATACGTAATCACAGTACAATGCCAATGTCCTAGACATGGTCTTACATGTTATCACATATCG
65 CTTATACGTAATCACAGTACAATGCCAATGTCCCAGACATGGTCTTACATGTTATCACATATCG
39038597 GTAACCCTAA
Statistics
Matches: 239, Mismatches: 18, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
128 6 0.03
129 233 0.97
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (128 bp):
ATGCCATGTCCCAGACAGGGTCTTATACGAAATCATATAATGATGTCAATGTCCCAGACATGGTC
TTATACGTAATCACAGTACAATGCCAATGTCCCAGACATGGTCTTACATGTTATCACATATCG
Found at i:39045133 original size:43 final size:42
Alignment explanation
Indices: 39045056--39045438 Score: 355
Period size: 43 Copynumber: 9.0 Consensus size: 42
39045046 ACCTCGTACA
* * * *
39045056 ATGCC-ATATCCCAGACAAGGTCTTATACGAAATCATATAAT
1 ATGCCAATGTCCCAGACATGGTCTTATACGTAATCACATAAT
* *
39045097 GATGCCAATGTCCCAGACATGGACTTAAACGTAATCACAGTACA-
1 -ATGCCAATGTCCCAGACATGGTCTTATACGTAATCACA-TA-AT
* * *
39045141 ATGCCAATGTCCCAGACATGGTCTTACATGTTATCACAT-AT
1 ATGCCAATGTCCCAGACATGGTCTTATACGTAATCACATAAT
* * * *
39045182 CAATGCCACTGTCCCAGACAGGGTCTTATACGAAATCATATAAT
1 --ATGCCAATGTCCCAGACATGGTCTTATACGTAATCACATAAT
*
39045226 GATGCCAATGTCCTAGACATGGTCTTATACGTAATCACAATACA-
1 -ATGCCAATGTCCCAGACATGGTCTTATACGTAATCAC-ATA-AT
* * *
39045270 ATGCCAATGTCCCAGACATGGTCTTACATGTTATCACAT-AT
1 ATGCCAATGTCCCAGACATGGTCTTATACGTAATCACATAAT
* * ** * *
39045311 CGATGCCACTGTCCCAGACAGGGTCTTATACAAAATCATATAACA
1 --ATGCCAATGTCCCAGACATGGTCTTATACGTAATCACATAA-T
*
39045356 ATGCCAATGTCCCAGACATGGTCTTATACATAATCACAGTACA-
1 ATGCCAATGTCCCAGACATGGTCTTATACGTAATCACA-TA-AT
* * * *
39045399 ATGCCAATGTCCTAGACATGGTCTTACATGTTATCACATA
1 ATGCCAATGTCCCAGACATGGTCTTATACGTAATCACATA
39045439 TCGGTAACCC
Statistics
Matches: 280, Mismatches: 45, Indels: 32
0.78 0.13 0.09
Matches are distributed among these distances:
40 2 0.01
42 10 0.04
43 255 0.91
44 10 0.04
45 3 0.01
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.27
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATGGTCTTATACGTAATCACATAAT
Found at i:39045164 original size:86 final size:86
Alignment explanation
Indices: 39045051--39045424 Score: 409
Period size: 86 Copynumber: 4.4 Consensus size: 86
39045041 ATTATACCTC
* * *
39045051 GTACAATGCC-ATATCCCAGACAAGGTCTTATACGAAATCATATAATGATGCCAATGTCCCAGAC
1 GTACAATGCCAATGTCCCAGACATGGTCTTATACGAAATCATATAATAATGCCAATGTCCCAGAC
* *
39045115 ATGGACTTAAACGTAATCACA
66 ATGGTCTTATACGTAATCACA
* * ** * *
39045136 GTACAATGCCAATGTCCCAGACATGGTCTTACATGTTATCACAT-ATCAATGCCACTGTCCCAGA
1 GTACAATGCCAATGTCCCAGACATGGTCTTATACGAAATCATATAAT-AATGCCAATGTCCCAGA
* * *
39045200 CAGGGTCTTATACGAAATCATA
65 CATGGTCTTATACGTAATCACA
* * * *
39045222 -TA-ATGATGCCAATGTCCTAGACATGGTCTTATACGTAATCACA-ATACAATGCCAATGTCCCA
1 GTACA--ATGCCAATGTCCCAGACATGGTCTTATACGAAATCATATA-ATAATGCCAATGTCCCA
* * *
39045284 GACATGGTCTTACATGTTATCACA
63 GACATGGTCTTATACGTAATCACA
* * * * *
39045308 -TATCGATGCCACTGTCCCAGACAGGGTCTTATACAAAATCATATAACAATGCCAATGTCCCAGA
1 GTA-CAATGCCAATGTCCCAGACATGGTCTTATACGAAATCATATAATAATGCCAATGTCCCAGA
*
39045372 CATGGTCTTATACATAATCACA
65 CATGGTCTTATACGTAATCACA
*
39045394 GTACAATGCCAATGTCCTAGACATGGTCTTA
1 GTACAATGCCAATGTCCCAGACATGGTCTTA
39045425 CATGTTATCA
Statistics
Matches: 238, Mismatches: 41, Indels: 19
0.80 0.14 0.06
Matches are distributed among these distances:
84 1 0.00
85 14 0.06
86 219 0.92
87 4 0.02
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (86 bp):
GTACAATGCCAATGTCCCAGACATGGTCTTATACGAAATCATATAATAATGCCAATGTCCCAGAC
ATGGTCTTATACGTAATCACA
Found at i:39045294 original size:129 final size:129
Alignment explanation
Indices: 39045054--39045440 Score: 659
Period size: 129 Copynumber: 3.0 Consensus size: 129
39045044 ATACCTCGTA
* *
39045054 CAATGCCA-TATCCCAGACAAGGTCTTATACGAAATCATATAATGATGCCAATGTCCCAGACATG
1 CAATGCCACTGTCCCAGACAGGGTCTTATACGAAATCATATAATGATGCCAATGTCCCAGACATG
* *
39045118 GACTTAAACGTAATCACAGTACAATGCCAATGTCCCAGACATGGTCTTACATGTTATCACATAT
66 GTCTTATACGTAATCACAGTACAATGCCAATGTCCCAGACATGGTCTTACATGTTATCACATAT
*
39045182 CAATGCCACTGTCCCAGACAGGGTCTTATACGAAATCATATAATGATGCCAATGTCCTAGACATG
1 CAATGCCACTGTCCCAGACAGGGTCTTATACGAAATCATATAATGATGCCAATGTCCCAGACATG
*
39045247 GTCTTATACGTAATCACAATACAATGCCAATGTCCCAGACATGGTCTTACATGTTATCACATAT
66 GTCTTATACGTAATCACAGTACAATGCCAATGTCCCAGACATGGTCTTACATGTTATCACATAT
* * **
39045311 CGATGCCACTGTCCCAGACAGGGTCTTATACAAAATCATATAACAATGCCAATGTCCCAGACATG
1 CAATGCCACTGTCCCAGACAGGGTCTTATACGAAATCATATAATGATGCCAATGTCCCAGACATG
* *
39045376 GTCTTATACATAATCACAGTACAATGCCAATGTCCTAGACATGGTCTTACATGTTATCACATAT
66 GTCTTATACGTAATCACAGTACAATGCCAATGTCCCAGACATGGTCTTACATGTTATCACATAT
39045440 C
1 C
39045441 GGTAACCCTA
Statistics
Matches: 244, Mismatches: 14, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
128 8 0.03
129 236 0.97
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.27
Consensus pattern (129 bp):
CAATGCCACTGTCCCAGACAGGGTCTTATACGAAATCATATAATGATGCCAATGTCCCAGACATG
GTCTTATACGTAATCACAGTACAATGCCAATGTCCCAGACATGGTCTTACATGTTATCACATAT
Found at i:39048865 original size:13 final size:13
Alignment explanation
Indices: 39048847--39048871 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
39048837 TTTTATTTGT
39048847 TTATTCCCACCGA
1 TTATTCCCACCGA
39048860 TTATTCCCACCG
1 TTATTCCCACCG
39048872 GCCGAATGTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.40, G:0.08, T:0.32
Consensus pattern (13 bp):
TTATTCCCACCGA
Found at i:39055186 original size:15 final size:17
Alignment explanation
Indices: 39055148--39055181 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
39055138 TTTATTAACA
39055148 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
39055165 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
39055182 TTTATAACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:39055195 original size:16 final size:15
Alignment explanation
Indices: 39055148--39055195 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 15
39055138 TTTATTAACA
*
39055148 ATTTTATTAAATTATAT
1 ATTTTA-TAAAAT-TAT
*
39055165 ATTTTATTAAATTAT
1 ATTTTATAAAATTAT
39055180 ATTTTATAACAATTAT
1 ATTTTATAA-AATTAT
39055196 GTTAAAATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 11 0.41
16 10 0.37
17 6 0.22
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (15 bp):
ATTTTATAAAATTAT
Found at i:39055373 original size:39 final size:41
Alignment explanation
Indices: 39055328--39055433 Score: 135
Period size: 44 Copynumber: 2.5 Consensus size: 41
39055318 TTTCCTTATG
* *
39055328 CTATTACACCTCTATTCCATTCAACCAAACACAAGAA-TAC
1 CTATTACGCCTCTATTCCATTCAACCAAACAAAAGAATTAC
39055368 C-ATTACGCCTCTATTCCATTACATTCAACCAAACAAAAGAATTAC
1 CTATTACGCCTCTATT-C----CATTCAACCAAACAAAAGAATTAC
39055413 CTATTACGCCTCTATTCCATT
1 CTATTACGCCTCTATTCCATT
39055434 ACAGCGAACC
Statistics
Matches: 57, Mismatches: 2, Indels: 13
0.79 0.03 0.18
Matches are distributed among these distances:
39 13 0.23
40 2 0.04
41 4 0.07
44 19 0.33
45 5 0.09
46 14 0.25
ACGTcount: A:0.36, C:0.31, G:0.04, T:0.29
Consensus pattern (41 bp):
CTATTACGCCTCTATTCCATTCAACCAAACAAAAGAATTAC
Found at i:39055408 original size:44 final size:46
Alignment explanation
Indices: 39055345--39055436 Score: 161
Period size: 46 Copynumber: 2.0 Consensus size: 46
39055335 ACCTCTATTC
*
39055345 CATTCAACCAAACACAAGAA-TACC-ATTACGCCTCTATTCCATTA
1 CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATTA
39055389 CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATTA
39055435 CA
1 CA
39055437 GCGAACCAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
44 19 0.42
45 4 0.09
46 22 0.49
ACGTcount: A:0.39, C:0.30, G:0.04, T:0.26
Consensus pattern (46 bp):
CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATTA
Found at i:39055444 original size:46 final size:43
Alignment explanation
Indices: 39055328--39055447 Score: 149
Period size: 46 Copynumber: 2.8 Consensus size: 43
39055318 TTTCCTTATG
* *
39055328 CTATTACACCTCTATTCCATT---CAACCAAACACAAGAATAC
1 CTATTACGCCTCTATTCCATTACACAACCAAACAAAAGAATAC
39055368 C-ATTACGCCTCTATTCCATTACATTCAACCAAACAAAAGAATTAC
1 CTATTACGCCTCTATTCCATTACA--CAACCAAACAAAAGAA-TAC
39055413 CTATTACGCCTCTATTCCATTACAGCGAACCAAAC
1 CTATTACGCCTCTATTCCATTACA-C-AACCAAAC
39055448 GTGCTGTAAG
Statistics
Matches: 69, Mismatches: 3, Indels: 10
0.84 0.04 0.12
Matches are distributed among these distances:
39 18 0.26
40 1 0.01
44 15 0.22
45 5 0.07
46 30 0.43
ACGTcount: A:0.38, C:0.32, G:0.05, T:0.26
Consensus pattern (43 bp):
CTATTACGCCTCTATTCCATTACACAACCAAACAAAAGAATAC
Found at i:39055912 original size:22 final size:21
Alignment explanation
Indices: 39055872--39055912 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
39055862 AAAATTAAAA
*
39055872 TTCAAAAAATTATACAAATAG
1 TTCAAAAAATTATAAAAATAG
*
39055893 TTCATAAAAATTTTAAAAAT
1 TTCA-AAAAATTATAAAAAT
39055913 TAATAAGATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.34
Consensus pattern (21 bp):
TTCAAAAAATTATAAAAATAG
Found at i:39056008 original size:39 final size:39
Alignment explanation
Indices: 39055949--39056028 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
39055939 CGTTTAAATT
*
39055949 TTTCACATTTTAATTGGTTTTTCATTAAAATAATAATGA
1 TTTCACATTTTAATTAGTTTTTCATTAAAATAATAATGA
39055988 TTTCACATTTTAATTAGTTTTTCATTAAAATAATAATGA
1 TTTCACATTTTAATTAGTTTTTCATTAAAATAATAATGA
39056027 TT
1 TT
39056029 AAGAATTAGA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.36, C:0.07, G:0.06, T:0.50
Consensus pattern (39 bp):
TTTCACATTTTAATTAGTTTTTCATTAAAATAATAATGA
Found at i:39056908 original size:126 final size:126
Alignment explanation
Indices: 39056683--39057611 Score: 569
Period size: 141 Copynumber: 6.9 Consensus size: 126
39056673 AGACATACTA
* * **
39056683 TTGGACAAAGCCAACTCTTATTTAAGTATTACCTTAGGCATGCATAGACCAACCCTTATACAAAG
1 TTGGACAAAGCCAACTCTTATTTAAGCATTGCCTTAGGCATGCATATCCCAACCCTTATACAAAG
** *
39056748 AGTTGGCCAAAGAATATGTTGACAAGTCTATCCCAACACTTAGGAAAGTGTTGGCATAGTG
66 AGTTAACCAAAGTATATGTTGACAAGTCTATCCCAACACTTAGGAAAGTGTTGGCATAGTG
* *
39056809 TTGGACAAAGCCGAA-TCTTATTGAAGCATTGCCTTAGGCATGCATATCCCAACCCTTACACAAA
1 TTGGACAAAGCC-AACTCTTATTTAAGCATTGCCTTAGGCATGCATATCCCAACCCTTATACAAA
* * *
39056873 GAGTTAACCAAAGTGTATGTTGGCAAGTATATCCCAACACTTAGGAAAGTGTTAGCCCAAAAGTG
65 GAGTTAACCAAAGTATATGTTGACAAGTCTATCCCAACACTTAGGAAA--G-T---------GT-
*
39056938 TAGGCACAGTG
117 T-GGCATAGTG
* * * *
39056949 TTGGACAAAGTCGAA-TCTTATTTAAGCGTTGCCTTAAGCATGCATATCCCAACCCTTATATAAA
1 TTGGACAAAG-CCAACTCTTATTTAAGCATTGCCTTAGGCATGCATATCCCAACCCTTATACAAA
* * * * * * *** *
39057013 AAGTTGACCAAAATGTATG-TCAGCAAGTCTA-CCCAACACTTAGGAAAATGTCATCTTAG-G
65 GAGTTAACCAAAGTATATGTTGA-CAAGTCTATCCCAACACTTAGGAAAGTGTTGGCATAGTG
* * *
39057073 ACTGGACAAAGCCAACTCTTATTTAAGCATTGCCGTAGGCATGCATACCCCAACCCTTATACAAA
1 -TTGGACAAAGCCAACTCTTATTTAAGCATTGCCTTAGGCATGCATATCCCAACCCTTATACAAA
* * * * * * *
39057138 GAGTTAGCCAGAGCATATGTTGACAAGTCTATCCCAACACTTAGGAAGGTGTCGCCCCAAAAGTG
65 GAGTTAACCAAAGTATATGTTGACAAGTCTATCCCAACACTTAGGAAAGTGTTG--GC-ATA--G
39057203 TCG
125 T-G
* * *
39057206 TCTTAGGACTACACAAAAGCCAACTCTTATTTAAGCGTTGTCTTAGGCATGCATA-CCTCAACCT
1 --TT-GG-----AC-AAAGCCAACTCTTATTTAAGCATTGCCTTAGGCATGCATATCC-CAACCC
* * * *** *** * * *
39057270 TTATGCAAAAATTTGGTCAAAACGTATGTTGGCAAGTCTATCCCAACACTTAGAAAAGTGTCGCC
56 TTATACAAAGAGTTAACCAAAGTATATGTTGACAAGTCTATCCCAACACTTAGGAAAGTGTTG--
* *
39057335 CCAAAAGTG
119 GC-ATAGTG
** *
39057344 TCATCTTAGGACTACACAAAAGCCAACTCTTATTTAAGTGTTGCCTTAGGCATACATATCCCAAC
1 -----TT-GG-----AC-AAAGCCAACTCTTATTTAAGCATTGCCTTAGGCATGCATATCCCAAC
* ** **
39057409 CCTTATACAAAGAGTTGACCAAAGCGTATGTTGGTAAGTCTATCCCAACACTTAGGAAAGTGTCA
54 CCTTATACAAAGAGTTAACCAAAGTATATGTTGACAAGTCTATCCCAACACTTAGGAAAGTGT--
*** *
39057474 CCCCAAAAGTGTCG
117 TGGC-ATA--GT-G
39057488 TCTTAGGACTAGACAGAGCCAACTCTTATTTAAG-AGTTGCCTTAGGCATGCATATCCCAACCCT
1 --TT-GGAC---A-A-AGCCAACTCTTATTTAAGCA-TTGCCTTAGGCATGCATATCCCAACCCT
* *** **
39057552 AATACAAAGAGTTGGTCAAAGCGTATGTTGATCAA-TCTATCCCAACACTTAGGAAAGTGT
57 TATACAAAGAGTTAACCAAAGTATATGTTGA-CAAGTCTATCCCAACACTTAGGAAAGTGT
39057612 AGCCCCAAAA
Statistics
Matches: 661, Mismatches: 90, Indels: 90
0.79 0.11 0.11
Matches are distributed among these distances:
124 4 0.01
125 76 0.11
126 118 0.18
127 4 0.01
128 2 0.00
129 2 0.00
131 1 0.00
133 1 0.00
134 1 0.00
135 2 0.00
136 3 0.00
138 4 0.01
139 21 0.03
140 188 0.28
141 228 0.34
142 2 0.00
143 3 0.00
144 1 0.00
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (126 bp):
TTGGACAAAGCCAACTCTTATTTAAGCATTGCCTTAGGCATGCATATCCCAACCCTTATACAAAG
AGTTAACCAAAGTATATGTTGACAAGTCTATCCCAACACTTAGGAAAGTGTTGGCATAGTG
Found at i:39057298 original size:141 final size:140
Alignment explanation
Indices: 39057057--39057638 Score: 819
Period size: 141 Copynumber: 4.2 Consensus size: 140
39057047 AACACTTAGG
** * * *
39057057 AAAA-TGTCATCTTAGGACTGGACAAAGCCAACTCTTATTTAAGCATTGCCGTAGGCATGCATAC
1 AAAAGTGTCATCTTAGGACTACACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATAT
* * * *
39057121 CCCAACCCTTATACAAAGAGTTAGCCAGAGCATATGTTGACAAGTCTATCCCAACACTTAGGAAG
66 CCCAACCCTTATACAAAGAGTTGGCCAAAGCGTATGTTGACAAGTCTATCCCAACACTTAGGAAA
39057186 GTGTCGCCCC
131 GTGTCGCCCC
* *
39057196 AAAAGTGTCGTCTTAGGACTACACAAAAGCCAACTCTTATTTAAGCGTTGTCTTAGGCATGCATA
1 AAAAGTGTCATCTTAGGACTACAC-AAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATA
* * * * * * * *
39057261 -CCTCAACCTTTATGCAAAAATTTGGTCAAAACGTATGTTGGCAAGTCTATCCCAACACTTAGAA
65 TCC-CAACCCTTATACAAAGAGTTGGCCAAAGCGTATGTTGACAAGTCTATCCCAACACTTAGGA
39057325 AAGTGTCGCCCC
129 AAGTGTCGCCCC
* *
39057337 AAAAGTGTCATCTTAGGACTACACAAAAGCCAACTCTTATTTAAGTGTTGCCTTAGGCATACATA
1 AAAAGTGTCATCTTAGGACTACAC-AAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATA
* **
39057402 TCCCAACCCTTATACAAAGAGTTGACCAAAGCGTATGTTGGTAAGTCTATCCCAACACTTAGGAA
65 TCCCAACCCTTATACAAAGAGTTGGCCAAAGCGTATGTTGACAAGTCTATCCCAACACTTAGGAA
*
39057467 AGTGTCACCCC
130 AGTGTCGCCCC
* * * *
39057478 AAAAGTGTCGTCTTAGGACTAGACAGAGCCAACTCTTATTTAAGAGTTGCCTTAGGCATGCATAT
1 AAAAGTGTCATCTTAGGACTACACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATAT
* *
39057543 CCCAACCCTAATACAAAGAGTTGGTCAAAGCGTATGTTGATCAA-TCTATCCCAACACTTAGGAA
66 CCCAACCCTTATACAAAGAGTTGGCCAAAGCGTATGTTGA-CAAGTCTATCCCAACACTTAGGAA
*
39057607 AGTGTAGCCCC
130 AGTGTCGCCCC
39057618 AAAAGTGTCATCTTAGGACTA
1 AAAAGTGTCATCTTAGGACTA
39057639 TTTTGTTGTA
Statistics
Matches: 393, Mismatches: 45, Indels: 9
0.88 0.10 0.02
Matches are distributed among these distances:
139 4 0.01
140 141 0.36
141 246 0.63
142 2 0.01
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (140 bp):
AAAAGTGTCATCTTAGGACTACACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATAT
CCCAACCCTTATACAAAGAGTTGGCCAAAGCGTATGTTGACAAGTCTATCCCAACACTTAGGAAA
GTGTCGCCCC
Found at i:39060409 original size:49 final size:49
Alignment explanation
Indices: 39060331--39060427 Score: 158
Period size: 49 Copynumber: 2.0 Consensus size: 49
39060321 TTATGCTATG
* *
39060331 CATTTCTAAACTTGGTCTTCCATTATCTACACTCTTATCACTATTTATA
1 CATTGCTAAACTTAGTCTTCCATTATCTACACTCTTATCACTATTTATA
* *
39060380 CATTGCTAAACTTAGTCTTCCATTGTCTACACTCTTATCGCTATTTAT
1 CATTGCTAAACTTAGTCTTCCATTATCTACACTCTTATCACTATTTAT
39060428 CCCTTCTAGA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.25, C:0.25, G:0.06, T:0.44
Consensus pattern (49 bp):
CATTGCTAAACTTAGTCTTCCATTATCTACACTCTTATCACTATTTATA
Found at i:39061742 original size:43 final size:43
Alignment explanation
Indices: 39061690--39061775 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 43
39061680 TCATATCTCA
*
39061690 TTTCTCATCTCATAATCATTTCTCATATTTGCCATTTCAATAT
1 TTTCTCATCTCATAATCATTTCTCATAATTGCCATTTCAATAT
* *
39061733 TTTCTCATCTCATATTCATTTCTCATAATTGTCATTTCAATAT
1 TTTCTCATCTCATAATCATTTCTCATAATTGCCATTTCAATAT
39061776 CAATCACATA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.26, C:0.22, G:0.02, T:0.50
Consensus pattern (43 bp):
TTTCTCATCTCATAATCATTTCTCATAATTGCCATTTCAATAT
Found at i:39072513 original size:18 final size:17
Alignment explanation
Indices: 39072480--39072513 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
39072470 TCAGAGTGTG
*
39072480 TGTTAGTGAGATTTAGT
1 TGTTAGTGAGAGTTAGT
39072497 TGTTAGTGGAGAGTTAG
1 TGTTAGT-GAGAGTTAG
39072514 GATATTCTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.24, C:0.00, G:0.35, T:0.41
Consensus pattern (17 bp):
TGTTAGTGAGAGTTAGT
Found at i:39075198 original size:24 final size:24
Alignment explanation
Indices: 39075171--39075222 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
39075161 TTAGTAAGTC
*
39075171 AAATAAAATATACTAATAAATGCT
1 AAATAAAATATACTAATAAATACT
* *
39075195 AAATATATTATACTAATAAATACT
1 AAATAAAATATACTAATAAATACT
39075219 AAAT
1 AAAT
39075223 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.58, C:0.08, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAAATATACTAATAAATACT
Found at i:39077034 original size:15 final size:15
Alignment explanation
Indices: 39077004--39077033 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
39076994 AAACTAAACC
39077004 CAAAAACCCGAAAAA
1 CAAAAACCCGAAAAA
39077019 CAAAGAACCCGAAAA
1 CAAA-AACCCGAAAA
39077034 CGTAAGCACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.63, C:0.27, G:0.10, T:0.00
Consensus pattern (15 bp):
CAAAAACCCGAAAAA
Found at i:39089817 original size:50 final size:50
Alignment explanation
Indices: 39089710--39089956 Score: 248
Period size: 50 Copynumber: 4.8 Consensus size: 50
39089700 ATTTGGGTAA
* *
39089710 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGTTGAGGTTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGA-G--ATG
*
39089766 AGAGGTCCCATGTAAGATCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * *
39089816 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * *
39089866 AGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCA--GTACA-G
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATG
* ** * *
39089914 AAAACATCCCATGCAAGACCATGTCTGGGACATGGCTTTGGCA
1 -AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
39089957 TGTTATTATC
Statistics
Matches: 166, Mismatches: 23, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
48 2 0.01
49 37 0.22
50 83 0.50
52 1 0.01
53 2 0.01
55 1 0.01
56 40 0.24
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:39104273 original size:18 final size:18
Alignment explanation
Indices: 39104250--39104288 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
39104240 CCACAGGAGA
*
39104250 AAGGAAGTGAGGACGAGG
1 AAGGAAGTGAAGACGAGG
*
39104268 AAGGAAGTGAAGAGGAGG
1 AAGGAAGTGAAGACGAGG
39104286 AAG
1 AAG
39104289 AAGCTACAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.44, C:0.03, G:0.49, T:0.05
Consensus pattern (18 bp):
AAGGAAGTGAAGACGAGG
Found at i:39115333 original size:36 final size:35
Alignment explanation
Indices: 39115278--39115350 Score: 101
Period size: 36 Copynumber: 2.1 Consensus size: 35
39115268 TGAGTCTCCA
* **
39115278 TCCAAACATACCAAAGAGCACATAAGTGGTAATCC
1 TCCAAACACACCAAAGAGCACATAAGTACTAATCC
*
39115313 TCCAAAGCACACCATAGAGCACATAAGTACTAATCC
1 TCCAAA-CACACCAAAGAGCACATAAGTACTAATCC
39115349 TC
1 TC
39115351 TAAAACATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
35 6 0.18
36 27 0.82
ACGTcount: A:0.41, C:0.29, G:0.12, T:0.18
Consensus pattern (35 bp):
TCCAAACACACCAAAGAGCACATAAGTACTAATCC
Found at i:39115490 original size:18 final size:18
Alignment explanation
Indices: 39115430--39115495 Score: 60
Period size: 18 Copynumber: 3.7 Consensus size: 18
39115420 AAGGAAATAG
* *
39115430 AACTCCAGATCACAACAA
1 AACTCCATATCAGAACAA
* * * *
39115448 AAATCCATATTAGAATAG
1 AACTCCATATCAGAACAA
*
39115466 AATTCCATATCAGAACAA
1 AACTCCATATCAGAACAA
*
39115484 AACTCCACATCA
1 AACTCCATATCA
39115496 CAACTAAAAT
Statistics
Matches: 36, Mismatches: 12, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.48, C:0.26, G:0.06, T:0.20
Consensus pattern (18 bp):
AACTCCATATCAGAACAA
Found at i:39117423 original size:42 final size:42
Alignment explanation
Indices: 39117374--39117459 Score: 163
Period size: 42 Copynumber: 2.0 Consensus size: 42
39117364 TAAATTCTTC
*
39117374 TTTCATAAAAATTCTTTATCTCATCCAATATCCTCAAAATTT
1 TTTCATAAAAATTCTTTATCTCATCCAATATCCTCAAAAATT
39117416 TTTCATAAAAATTCTTTATCTCATCCAATATCCTCAAAAATT
1 TTTCATAAAAATTCTTTATCTCATCCAATATCCTCAAAAATT
39117458 TT
1 TT
39117460 CACTTATCTA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.43
Consensus pattern (42 bp):
TTTCATAAAAATTCTTTATCTCATCCAATATCCTCAAAAATT
Found at i:39117760 original size:21 final size:21
Alignment explanation
Indices: 39117736--39117789 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
39117726 TTGGGTAGAG
39117736 GTTTTGAGACATATTAGACAA
1 GTTTTGAGACATATTAGACAA
39117757 GTTTTGAGACATATTAGACAA
1 GTTTTGAGACATATTAGACAA
*
39117778 GTTTCGAGACAT
1 GTTTTGAGACAT
39117790 GATACCATTG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.35, C:0.11, G:0.20, T:0.33
Consensus pattern (21 bp):
GTTTTGAGACATATTAGACAA
Found at i:39117965 original size:20 final size:20
Alignment explanation
Indices: 39117934--39117980 Score: 62
Period size: 18 Copynumber: 2.4 Consensus size: 20
39117924 TTTATTACAA
*
39117934 TTTTATTAAT-TTTTATG-T
1 TTTTATAAATATTTTATGAT
39117952 TTTTATAAATATTTTATGATT
1 TTTTATAAATATTTTATGA-T
39117973 TTTTATAA
1 TTTTATAA
39117981 CCACGTTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 9 0.36
19 7 0.28
21 9 0.36
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (20 bp):
TTTTATAAATATTTTATGAT
Found at i:39118110 original size:20 final size:20
Alignment explanation
Indices: 39118079--39118125 Score: 62
Period size: 18 Copynumber: 2.4 Consensus size: 20
39118069 TTTATTACAA
*
39118079 TTTTATTAAT-TTTTATG-T
1 TTTTATAAATATTTTATGAT
39118097 TTTTATAAATATTTTATGATT
1 TTTTATAAATATTTTATGA-T
39118118 TTTTATAA
1 TTTTATAA
39118126 CCACGTTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 9 0.36
19 7 0.28
21 9 0.36
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (20 bp):
TTTTATAAATATTTTATGAT
Found at i:39118128 original size:145 final size:145
Alignment explanation
Indices: 39117865--39118155 Score: 582
Period size: 145 Copynumber: 2.0 Consensus size: 145
39117855 TAACAAGCAA
39117865 AGCCTTCTCTAAGTTAGTGATGGTGGAATATTTTAATAATTATTTATAATTATTTTATTTTTATT
1 AGCCTTCTCTAAGTTAGTGATGGTGGAATATTTTAATAATTATTTATAATTATTTTATTTTTATT
39117930 ACAATTTTATTAATTTTTATGTTTTTATAAATATTTTATGATTTTTTATAACCACGTTTAAAATG
66 ACAATTTTATTAATTTTTATGTTTTTATAAATATTTTATGATTTTTTATAACCACGTTTAAAATG
39117995 AATCTAGACAAATAT
131 AATCTAGACAAATAT
39118010 AGCCTTCTCTAAGTTAGTGATGGTGGAATATTTTAATAATTATTTATAATTATTTTATTTTTATT
1 AGCCTTCTCTAAGTTAGTGATGGTGGAATATTTTAATAATTATTTATAATTATTTTATTTTTATT
39118075 ACAATTTTATTAATTTTTATGTTTTTATAAATATTTTATGATTTTTTATAACCACGTTTAAAATG
66 ACAATTTTATTAATTTTTATGTTTTTATAAATATTTTATGATTTTTTATAACCACGTTTAAAATG
39118140 AATCTAGACAAATAT
131 AATCTAGACAAATAT
39118155 A
1 A
39118156 AATAAATATT
Statistics
Matches: 146, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
145 146 1.00
ACGTcount: A:0.34, C:0.07, G:0.09, T:0.50
Consensus pattern (145 bp):
AGCCTTCTCTAAGTTAGTGATGGTGGAATATTTTAATAATTATTTATAATTATTTTATTTTTATT
ACAATTTTATTAATTTTTATGTTTTTATAAATATTTTATGATTTTTTATAACCACGTTTAAAATG
AATCTAGACAAATAT
Found at i:39119326 original size:20 final size:21
Alignment explanation
Indices: 39119288--39119344 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 21
39119278 TTGAAAAATT
39119288 AATGACAAAATTAAATTAAAA
1 AATGACAAAATTAAATTAAAA
*
39119309 AATGACCAAATT-AATTAAAA
1 AATGACAAAATTAAATTAAAA
**
39119329 AAAAACAAACATTAAA
1 AATGACAAA-ATTAAA
39119345 AACTAAAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 14 0.47
21 14 0.47
22 2 0.07
ACGTcount: A:0.67, C:0.09, G:0.04, T:0.21
Consensus pattern (21 bp):
AATGACAAAATTAAATTAAAA
Found at i:39136528 original size:17 final size:17
Alignment explanation
Indices: 39136506--39136538 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
39136496 ATAAGTACAC
39136506 ATTGTCATTACATTTTT
1 ATTGTCATTACATTTTT
39136523 ATTGTCATTACATTTT
1 ATTGTCATTACATTTT
39136539 CATGTTAGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.12, G:0.06, T:0.58
Consensus pattern (17 bp):
ATTGTCATTACATTTTT
Found at i:39145932 original size:10 final size:10
Alignment explanation
Indices: 39145915--39145944 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
39145905 CCAAAAAATC
39145915 AGTC-AAAAA
1 AGTCAAAAAA
39145924 AGTCAAAAAA
1 AGTCAAAAAA
39145934 AGTCAAAAAA
1 AGTCAAAAAA
39145944 A
1 A
39145945 TACGAAATCC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 4 0.20
10 16 0.80
ACGTcount: A:0.70, C:0.10, G:0.10, T:0.10
Consensus pattern (10 bp):
AGTCAAAAAA
Found at i:39159348 original size:2 final size:2
Alignment explanation
Indices: 39159341--39159367 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
39159331 TTACCTAAAC
39159341 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
39159368 CTTGACTACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:39162560 original size:50 final size:50
Alignment explanation
Indices: 39162491--39162635 Score: 182
Period size: 50 Copynumber: 2.9 Consensus size: 50
39162481 TATTGAGGTT
** *
39162491 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCGTTGGCATTGAG
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAC
* * *
39162541 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGAC
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAC
** * * * *
39162591 ATGAGAACTCCCATGTACGACCATATCTGGGATATGGCGTTGGCA
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCGTTGGCA
39162636 GTACAGGAAA
Statistics
Matches: 80, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 80 1.00
ACGTcount: A:0.25, C:0.23, G:0.31, T:0.21
Consensus pattern (50 bp):
ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAC
Found at i:39169985 original size:50 final size:50
Alignment explanation
Indices: 39169910--39170041 Score: 174
Period size: 50 Copynumber: 2.6 Consensus size: 50
39169900 TATTAAGGTT
* * * *
39169910 ATGAGAGGTCCCACGTAAGAACATGTCTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATGGGCACCAAG
* *
39169960 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCAAT
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATGGGCACCAAG
** * *
39170010 ATGAGAACTCCCATGTAAGACCATATCTGGGA
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGA
39170042 TATGACATTA
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 71 1.00
ACGTcount: A:0.28, C:0.23, G:0.30, T:0.19
Consensus pattern (50 bp):
ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATGGGCACCAAG
Found at i:39170330 original size:20 final size:20
Alignment explanation
Indices: 39170305--39170343 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
39170295 TGAGTTACTT
39170305 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
39170325 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
39170344 GAAGAAGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:39179571 original size:25 final size:25
Alignment explanation
Indices: 39179543--39179596 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
39179533 TGTAGTGGCA
39179543 AGGTGGCAACACAAGTGTGGCAAGG
1 AGGTGGCAACACAAGTGTGGCAAGG
** * *
39179568 AGGTGGCGTCACAGGTGTGGTAAGG
1 AGGTGGCAACACAAGTGTGGCAAGG
39179593 AGGT
1 AGGT
39179597 CAGAGGTTCA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.26, C:0.13, G:0.44, T:0.17
Consensus pattern (25 bp):
AGGTGGCAACACAAGTGTGGCAAGG
Found at i:39180292 original size:27 final size:27
Alignment explanation
Indices: 39180230--39180572 Score: 406
Period size: 27 Copynumber: 12.7 Consensus size: 27
39180220 GGCTTGGACC
*
39180230 GTAAAATTATCGAAATA-CCTCGAAGG
1 GTAAAATTATCGAAATACCCTCGATGG
*
39180256 GTAAAATTATCGAAATACCCCCGATGG
1 GTAAAATTATCGAAATACCCTCGATGG
*
39180283 GTAAAATTATCGAAATACCCTCGAAGG
1 GTAAAATTATCGAAATACCCTCGATGG
* * *
39180310 GTAAAATTATTGAAATACCCCCGATAG
1 GTAAAATTATCGAAATACCCTCGATGG
*
39180337 GTAAAATTA-CTGAAATACCCTCTATGG
1 GTAAAATTATC-GAAATACCCTCGATGG
39180364 GTAAAATTATCGAAATACCCTCGATGG
1 GTAAAATTATCGAAATACCCTCGATGG
* *
39180391 GTAAAACTACCGAAATACCCTCGATGG
1 GTAAAATTATCGAAATACCCTCGATGG
* * **
39180418 GTAAAATTACCGAAATACCATTAATGG
1 GTAAAATTATCGAAATACCCTCGATGG
* * **
39180445 GTAAAACTATCAAAATATTCTCGATGG
1 GTAAAATTATCGAAATACCCTCGATGG
*
39180472 GTAAAATTATCGAAATGCCCTCGATGG
1 GTAAAATTATCGAAATACCCTCGATGG
* * *
39180499 GTAAAATTATCTAAATACCCCCGGTGG
1 GTAAAATTATCGAAATACCCTCGATGG
* * * *
39180526 GGAAAATTA-CTGAAATACCCCCAAAGG
1 GTAAAATTATC-GAAATACCCTCGATGG
39180553 GTAAAATTA-CTGAAATACCC
1 GTAAAATTATC-GAAATACCC
39180573 CCATAGGGTA
Statistics
Matches: 271, Mismatches: 42, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
26 18 0.07
27 252 0.93
28 1 0.00
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.24
Consensus pattern (27 bp):
GTAAAATTATCGAAATACCCTCGATGG
Found at i:39183023 original size:33 final size:34
Alignment explanation
Indices: 39182972--39183046 Score: 107
Period size: 33 Copynumber: 2.2 Consensus size: 34
39182962 AGATTTAAAC
*
39182972 AAATTAATTACTAACACTTATTTAAGCTGAACTA
1 AAATTAATTACTAACACTTACTTAAGCTGAACTA
* *
39183006 AAATTAATT-CTAACACTTACTTGAGTTGAACTA
1 AAATTAATTACTAACACTTACTTAAGCTGAACTA
*
39183039 AATTTAAT
1 AAATTAAT
39183047 AAACTAACTC
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
33 28 0.76
34 9 0.24
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.37
Consensus pattern (34 bp):
AAATTAATTACTAACACTTACTTAAGCTGAACTA
Found at i:39184840 original size:18 final size:18
Alignment explanation
Indices: 39184817--39184855 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
39184807 CTCTTTTTGC
39184817 TCTTTTTC-ATTCTCTTTT
1 TCTTTTTCGATT-TCTTTT
39184835 TCTTTTTCGATTTCTTTT
1 TCTTTTTCGATTTCTTTT
39184853 TCT
1 TCT
39184856 GTCTTTCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 17 0.85
19 3 0.15
ACGTcount: A:0.05, C:0.21, G:0.03, T:0.72
Consensus pattern (18 bp):
TCTTTTTCGATTTCTTTT
Found at i:39187971 original size:18 final size:18
Alignment explanation
Indices: 39187928--39187964 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
39187918 AATTTCAAGA
39187928 AGGGTTTTTAATGAAAAC
1 AGGGTTTTTAATGAAAAC
39187946 AGGGTTTTTAATGAAAAC
1 AGGGTTTTTAATGAAAAC
39187964 A
1 A
39187965 TGTTTTTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.05, G:0.22, T:0.32
Consensus pattern (18 bp):
AGGGTTTTTAATGAAAAC
Found at i:39190528 original size:946 final size:934
Alignment explanation
Indices: 39189128--39190881 Score: 2536
Period size: 946 Copynumber: 1.9 Consensus size: 934
39189118 ATATGGTAGG
* *
39189128 TTTCATATAGAAATAAGTTAGTTGTGAATGGTTGATAAACAGAAAAATATGCACAAGTTTAGATA
1 TTTCATATAAAAATAAGTTAGTTGGGAATGGTTGATAAACAGAAAAATATGCACAAGTTTAGATA
*
39189193 GGTTTGATAAATTGTGATTGAGGTGCCTTTTGGCATATTGGTTGTGTGGATATTTGGTATAGAAA
66 GGTTTGATAAATTGTGATTGAGGTGCCTTTTGGCATATTGGTTGTATGGATATTTGGTATAGAAA
*
39189258 TTTGGTTATTTTATGCATGTATTGGACATGATTAAGGGTATTGGTTTTATGTGCAAATGGCTTGT
131 TTTGGTTATTTTATGCATGTATTGGACATGATTAAGGGTATTGGTTTTATGTACAAATGGCTTGT
* *
39189323 AGGTATGTGCTTGAATTGGGTGAAAGAAATGGCTTGATTTTGGCCTATTTCTTGTCCACATGCCT
196 AGGTATGTGCTTGAATTGGGTGAAAGAAATGGCTTGATTTTGGCCTATTTCTTGCCCACAGGCCT
* * * *
39189388 AAGACATGGGCGTGTCTCTCAACCGTGTGTGACACACAGCCAAGCGACACGACCATGTGTCCCAT
261 AAGACATCGGCATGTCTCTCAACCGTGTGTGACACACAGCCAAGCAACACGACCATCTGTCCCAT
* * **
39189453 GTAGATTTTAAAGGGTTACAAGTCAGGTAGTTACACGGCCTAGCACATGGGTGTGTGAGACCATT
326 GTAGATTTTAAAGGGTTACAAGTCAGGTAGATACACGGCCTAGCACAAGGGCATGTGAGACCATT
* *
39189518 TCGAGAGTTACACAGCCTGGCACACAAGCGTGTGGCTTGGCCGTGTCACCCAAGTCAGAGAGTTA
391 TCGAGAGTTACACAGCCTGGCACACAAGCGTGTAGCTTGGCCATGTCACCCAAGTCAGAGAGTTA
* * **
39189583 CACGAGCACAGACACGATTTGGGACACGGCTATATGTGTCCCTATTTTGAATGTTACACGACCTA
456 CAC--G---AG---C----TGGGACACGGC--CATGTGTCCCTATGTCAAATGTTACACGACCTA
* *
39189648 AGACACAAGCGTGTGTCTCAGCCGTGTGAGGAACACAGCCTGGCCACACGGCTGTGTAACCCCTA
507 AGACACAAGCGTGTGTCTCAGCCGCGTGAGGAACACAGCCTGGCCACACGGCCGTGTAACCCCTA
*
39189713 CAGTGTGAATTTTTCTAGCTTTTTCCTTAAGGTTTCATATGTTTTCGATTTAGTCCC-GAAT-CG
572 CAGTGTGAATTTTTCTAACTTTTTCCTTAAGGTTTCATATGTTTTCGATTTAG-CCCAGAATGC-
* * * * * * *
39189776 TTTCTAAAGTGTTTTTAAGGCCTCGAGG-TTCGAACAAGGGATGATATGCATGTGTTTTAATGGA
635 TTTATAAAGTGTTTTTAAGGACTCAAGGCCTCGAACAAGGGACGATATGCATGTATTTGAATGGA
* * *
39189840 TTATGCTATGATTTATGAAATGTTTGGAAAAT-AATGA-TTCAAGTTACGTTTTTACGGTAATGA
700 TTATGATATGATTTATGAAATGTTTGG-AAATGAATGATTTCAAGTTACATTTTTACGGTAATGC
*
39189903 T-TCGTAA-TCTCATTCTAGCGA-CGGATATGGGTTAGGGGTGTTACATTTAATGGTATCAGAGC
764 TCT-GTAACCCT-ATTCTAGCGATC-GATATGGGTTAGGGGTGTTACATTTAATGGTATCAGAGC
39189965 TACAGTTTAGTCAATTCTCAGACTGAACATTGTTTGTATGAGTCTAGAAATACATGCCATTATAT
826 TACAGTTTAGTCAATTCTCAGACTGAACATTGTTTGTATGAGTCTAGAAATACATGCCATTATAT
39190030 AACCTGAGATAGTGTGATAACTCTTGACTCATTTTGAATTATGC
891 AACCTGAGATAGTGTGATAACTCTTGACTCATTTTGAATTATGC
* * * *
39190074 TTTCGTATAAAAATAAGTTAGTTGGGAATGGTTGATGAATAGACAAATATGCACAAGTTTAGATA
1 TTTCATATAAAAATAAGTTAGTTGGGAATGGTTGATAAACAGAAAAATATGCACAAGTTTAGATA
39190139 GGTTTGATAAATTGTGATTGAGGTGCCTTTTGGCATATTGGTTGTAT-GATATTTGGTATAGAAA
66 GGTTTGATAAATTGTGATTGAGGTGCCTTTTGGCATATTGGTTGTATGGATATTTGGTATAGAAA
** * *
39190203 TTTTTTTATTTTATGCATGTATTGGACATGATTTAGGGTCTTGGTTTTATGTACAAATGGCTTGT
131 TTTGGTTATTTTATGCATGTATTGGACATGATTAAGGGTATTGGTTTTATGTACAAATGGCTTGT
* *
39190268 AGGTATGTGCTTGAATTGGGTGAAATAAATTGCTTGATTTTGGCCTATTTCTTGCCCACACGGCC
196 AGGTATGTGCTTGAATTGGGTGAAAGAAATGGCTTGATTTTGGCCTATTTCTTGCCCACA-GGCC
* * ** * * *
39190333 TAATACATCGGTATGTCTCTCAACCGTGTGTTTCACACGGCCAGGCAACACGACCGTCTGTCCCA
260 TAAGACATCGGCATGTCTCTCAACCGTGTGTGACACACAGCCAAGCAACACGACCATCTGTCCCA
* * *
39190398 TGTAGATTTTAAAGGGTTGCAAGTCAGGTAGATACACGGCCTATCACAAGGGCATGTGAGGCCAT
325 TGTAGATTTTAAAGGGTTACAAGTCAGGTAGATACACGGCCTAGCACAAGGGCATGTGAGACCAT
* ** * *
39190463 TTTGAGAGTTACACAGCCTGGCACACGGGCGTGTAGCTTGGCCATGTGACCCAATTCAGAGAGTT
390 TTCGAGAGTTACACAGCCTGGCACACAAGCGTGTAGCTTGGCCATGTCACCCAAGTCAGAGAGTT
* * ** *
39190528 ACACGAGCTGGGACACGGCCATGTGTCCCTATGTCAAATGTTACATGGCCTAAGACACGGGCTTG
455 ACACGAGCTGGGACACGGCCATGTGTCCCTATGTCAAATGTTACACGACCTAAGACACAAGCGTG
* * * * * *
39190593 TGTCTCAGCCGCGTGAGGCACACAGCTTGGCCACATGGCCGTGTGACCGCTATAGTGTGAATTTT
520 TGTCTCAGCCGCGTGAGGAACACAGCCTGGCCACACGGCCGTGTAACCCCTACAGTGTGAATTTT
** *
39190658 TCTAACTTTTTCCTTAAGGTTTCATATGTTTTTTATTTAGCCCAGAATGCTTTATAATGTGTTTT
585 TCTAACTTTTTCCTTAAGGTTTCATATGTTTTCGATTTAGCCCAGAATGCTTTATAAAGTGTTTT
*
39190723 TAAGGACTCAAGGCCTCGAACAAGGGACGATATGCATGTATTTGAATGGATTCTGATATGATTTA
650 TAAGGACTCAAGGCCTCGAACAAGGGACGATATGCATGTATTTGAATGGATTATGATATGATTTA
* * * * *
39190788 TGAAATGTTTGGAAATGGATTATTTTAAGTTACATTTTTATGGTAATGCTCTGTAACCCTATTTT
715 TGAAATGTTTGGAAATGAATGATTTCAAGTTACATTTTTACGGTAATGCTCTGTAACCCTATTCT
*
39190853 AGTGATCGATATGGGTTAGGGGTGTTACA
780 AGCGATCGATATGGGTTAGGGGTGTTACA
39190882 AAAATGCTCT
Statistics
Matches: 719, Mismatches: 80, Indels: 30
0.87 0.10 0.04
Matches are distributed among these distances:
931 3 0.00
932 163 0.23
933 61 0.08
934 68 0.09
935 4 0.01
938 1 0.00
941 2 0.00
944 1 0.00
945 134 0.19
946 282 0.39
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.33
Consensus pattern (934 bp):
TTTCATATAAAAATAAGTTAGTTGGGAATGGTTGATAAACAGAAAAATATGCACAAGTTTAGATA
GGTTTGATAAATTGTGATTGAGGTGCCTTTTGGCATATTGGTTGTATGGATATTTGGTATAGAAA
TTTGGTTATTTTATGCATGTATTGGACATGATTAAGGGTATTGGTTTTATGTACAAATGGCTTGT
AGGTATGTGCTTGAATTGGGTGAAAGAAATGGCTTGATTTTGGCCTATTTCTTGCCCACAGGCCT
AAGACATCGGCATGTCTCTCAACCGTGTGTGACACACAGCCAAGCAACACGACCATCTGTCCCAT
GTAGATTTTAAAGGGTTACAAGTCAGGTAGATACACGGCCTAGCACAAGGGCATGTGAGACCATT
TCGAGAGTTACACAGCCTGGCACACAAGCGTGTAGCTTGGCCATGTCACCCAAGTCAGAGAGTTA
CACGAGCTGGGACACGGCCATGTGTCCCTATGTCAAATGTTACACGACCTAAGACACAAGCGTGT
GTCTCAGCCGCGTGAGGAACACAGCCTGGCCACACGGCCGTGTAACCCCTACAGTGTGAATTTTT
CTAACTTTTTCCTTAAGGTTTCATATGTTTTCGATTTAGCCCAGAATGCTTTATAAAGTGTTTTT
AAGGACTCAAGGCCTCGAACAAGGGACGATATGCATGTATTTGAATGGATTATGATATGATTTAT
GAAATGTTTGGAAATGAATGATTTCAAGTTACATTTTTACGGTAATGCTCTGTAACCCTATTCTA
GCGATCGATATGGGTTAGGGGTGTTACATTTAATGGTATCAGAGCTACAGTTTAGTCAATTCTCA
GACTGAACATTGTTTGTATGAGTCTAGAAATACATGCCATTATATAACCTGAGATAGTGTGATAA
CTCTTGACTCATTTTGAATTATGC
Found at i:39204858 original size:11 final size:11
Alignment explanation
Indices: 39204844--39204868 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
39204834 TATGTCATTA
39204844 ATATAGTTTGC
1 ATATAGTTTGC
39204855 ATATAGTTTGC
1 ATATAGTTTGC
39204866 ATA
1 ATA
39204869 CTTAGGATTA
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:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (11 bp):
ATATAGTTTGC
Found at i:39208834 original size:45 final size:45
Alignment explanation
Indices: 39208763--39208869 Score: 182
Period size: 45 Copynumber: 2.4 Consensus size: 45
39208753 ATAAGGGTGG
*
39208763 GATC-ACTTAATGAAACTCTTATTTTCTTTAATTACTAAAGCGTA
1 GATCTACTTAATGAAACTCTTAATTTCTTTAATTACTAAAGCGTA
39208807 GATCTACTTAATGAAACTCTTAATTTCTTTAATTACTAAAGCGTA
1 GATCTACTTAATGAAACTCTTAATTTCTTTAATTACTAAAGCGTA
39208852 GATCTACTTTAAT-AAACT
1 GATCTAC-TTAATGAAACT
39208870 ATTTCATTTA
Statistics
Matches: 60, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
44 4 0.07
45 51 0.85
46 5 0.08
ACGTcount: A:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (45 bp):
GATCTACTTAATGAAACTCTTAATTTCTTTAATTACTAAAGCGTA
Found at i:39222311 original size:41 final size:41
Alignment explanation
Indices: 39222254--39222543 Score: 305
Period size: 41 Copynumber: 7.0 Consensus size: 41
39222244 TGTAAACAGA
* **
39222254 GGCACGTATGTGCAATTCAAGACTACCGAAA-TACAAATAGG
1 GGCACGTATGTGCAATTCAGGGGTACC-AAAGTACAAATAGG
*
39222295 GGCACGTATGTGCAATTCAGGGGTA-CACAAGTACAACAGTGTCAGT
1 GGCACGTATGTGCAATTCAGGGGTACCA-AAGTACAA-A---T-AGG
* * * * *
39222341 GTCATGTATGTGCAATTCAAGGGTACCAAAGTACAAACAGT
1 GGCACGTATGTGCAATTCAGGGGTACCAAAGTACAAATAGG
* * *
39222382 GGCACGTATGTGCAATTTAGGGGTACTAAAGTACAAATAGT
1 GGCACGTATGTGCAATTCAGGGGTACCAAAGTACAAATAGG
* *
39222423 GGCACGTATGTGTAATTTAGGGGTACCAAAGTACAAATAGG
1 GGCACGTATGTGCAATTCAGGGGTACCAAAGTACAAATAGG
* * * * *
39222464 GGCACGTATGTGCAATTTAGGGGTATCGAAGTAAAAATATG
1 GGCACGTATGTGCAATTCAGGGGTACCAAAGTACAAATAGG
* * *
39222505 GGCACGTATGTGCAATTCAGGGGTATCGAAGTAAAAATA
1 GGCACGTATGTGCAATTCAGGGGTACCAAAGTACAAATA
39222544 TGAGATATTA
Statistics
Matches: 218, Mismatches: 23, Indels: 16
0.85 0.09 0.06
Matches are distributed among these distances:
39 1 0.00
40 3 0.01
41 177 0.81
42 1 0.00
45 2 0.01
46 32 0.15
47 2 0.01
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.24
Consensus pattern (41 bp):
GGCACGTATGTGCAATTCAGGGGTACCAAAGTACAAATAGG
Found at i:39222486 original size:21 final size:21
Alignment explanation
Indices: 39222382--39222486 Score: 72
Period size: 21 Copynumber: 5.1 Consensus size: 21
39222372 TACAAACAGT
39222382 GGCACGTATGTGCAATTTAGG
1 GGCACGTATGTGCAATTTAGG
* * * * *
39222403 GGTAC-TAAAGTACAA-ATAGT
1 GGCACGT-ATGTGCAATTTAGG
*
39222423 GGCACGTATGTGTAATTTAGG
1 GGCACGTATGTGCAATTTAGG
* ** * * *
39222444 GGTACCAAAGTACAA-ATAGG
1 GGCACGTATGTGCAATTTAGG
39222464 GGCACGTATGTGCAATTTAGG
1 GGCACGTATGTGCAATTTAGG
39222485 GG
1 GG
39222487 TATCGAAGTA
Statistics
Matches: 56, Mismatches: 24, Indels: 8
0.64 0.27 0.09
Matches are distributed among these distances:
20 27 0.48
21 29 0.52
ACGTcount: A:0.31, C:0.12, G:0.30, T:0.26
Consensus pattern (21 bp):
GGCACGTATGTGCAATTTAGG
Found at i:39224629 original size:6 final size:6
Alignment explanation
Indices: 39224611--39224658 Score: 78
Period size: 6 Copynumber: 7.8 Consensus size: 6
39224601 GCAAATAAAT
*
39224611 CATTTC TCATTTC CATTTC CATTTC CATTTC AATTTC CATTTC CATTT
1 CATTTC -CATTTC CATTTC CATTTC CATTTC CATTTC CATTTC CATTT
39224659 TTGGGAAAAC
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
6 33 0.85
7 6 0.15
ACGTcount: A:0.19, C:0.29, G:0.00, T:0.52
Consensus pattern (6 bp):
CATTTC
Found at i:39231494 original size:9 final size:9
Alignment explanation
Indices: 39231480--39231504 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
39231470 TATCATTTTC
39231480 CATTTTATT
1 CATTTTATT
39231489 CATTTTATT
1 CATTTTATT
39231498 CATTTTA
1 CATTTTA
39231505 GTCCTCTATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.64
Consensus pattern (9 bp):
CATTTTATT
Found at i:39234211 original size:35 final size:35
Alignment explanation
Indices: 39234165--39234234 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
39234155 AAGAATCATC
* * *
39234165 TTTCATATTTTATTTTTATGTTTGTTTGCTTGAGG
1 TTTCAAATTTTATTTTTATGTTTCTTTACTTGAGG
39234200 TTTCAAATTTTATTTTTATGTTTCTTTACTTGAGG
1 TTTCAAATTTTATTTTTATGTTTCTTTACTTGAGG
39234235 ACAAGCAATG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.17, C:0.07, G:0.14, T:0.61
Consensus pattern (35 bp):
TTTCAAATTTTATTTTTATGTTTCTTTACTTGAGG
Found at i:39237723 original size:27 final size:27
Alignment explanation
Indices: 39237684--39237755 Score: 92
Period size: 27 Copynumber: 2.6 Consensus size: 27
39237674 CATATCGGAA
* *
39237684 AAAGGAAGTCTTTGTGGCCATCTAT-G
1 AAAGGAAGCCTTTATGGCCATCTATAG
*
39237710 AAATGGAAGCCTTTATGGCGATCTATAG
1 AAA-GGAAGCCTTTATGGCCATCTATAG
39237738 AAAGGAATGCCTTTATGG
1 AAAGGAA-GCCTTTATGG
39237756 TGCATTCTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
26 3 0.08
27 23 0.57
28 14 0.35
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (27 bp):
AAAGGAAGCCTTTATGGCCATCTATAG
Found at i:39237772 original size:30 final size:27
Alignment explanation
Indices: 39237684--39237772 Score: 81
Period size: 27 Copynumber: 3.2 Consensus size: 27
39237674 CATATCGGAA
* * * *
39237684 AAAGGAAGTCTTTGTGGCCATCT-ATG
1 AAAGGAAGCCTTTATGGCGATCTAAAG
*
39237710 AAATGGAAGCCTTTATGGCGATCTATAG
1 AAA-GGAAGCCTTTATGGCGATCTAAAG
*
39237738 AAAGGAATGCCTTTATGGTGCATTCTAAAG
1 AAAGGAA-GCCTTTATGGCG-A-TCTAAAG
39237768 AAAGG
1 AAAGG
39237773 CCCTAATGGT
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
26 3 0.06
27 21 0.41
28 15 0.29
29 1 0.02
30 11 0.22
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (27 bp):
AAAGGAAGCCTTTATGGCGATCTAAAG
Found at i:39237953 original size:27 final size:27
Alignment explanation
Indices: 39237907--39237992 Score: 77
Period size: 27 Copynumber: 3.2 Consensus size: 27
39237897 AACATTGAGA
* **
39237907 GAATAATATGTGTGTTAAACTCTGAAG
1 GAATAATATGTATGGCAAACTCTGAAG
*
39237934 GAATAATATGTATGGCAAACTCTAAAAG
1 GAATAATATGTATGGCAAACTCT-GAAG
* * *
39237962 G-ATAA-ATCTTATAGCGAACTCTGAAG
1 GAATAATAT-GTATGGCAAACTCTGAAG
39237988 GAATA
1 GAATA
39237993 GTACATATGG
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
26 6 0.12
27 38 0.79
28 4 0.08
ACGTcount: A:0.42, C:0.10, G:0.20, T:0.28
Consensus pattern (27 bp):
GAATAATATGTATGGCAAACTCTGAAG
Found at i:39240613 original size:21 final size:23
Alignment explanation
Indices: 39240568--39240616 Score: 66
Period size: 21 Copynumber: 2.2 Consensus size: 23
39240558 TGCACATAGT
39240568 TATGAAAACCCTTTTATGAGTAG
1 TATGAAAACCCTTTTATGAGTAG
* *
39240591 TATGAAAGCCC-TTTA-GGGTAG
1 TATGAAAACCCTTTTATGAGTAG
39240612 TATGA
1 TATGA
39240617 GACTTTCCGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 10 0.42
22 4 0.17
23 10 0.42
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.33
Consensus pattern (23 bp):
TATGAAAACCCTTTTATGAGTAG
Found at i:39240760 original size:36 final size:37
Alignment explanation
Indices: 39240671--39240883 Score: 146
Period size: 37 Copynumber: 5.8 Consensus size: 37
39240661 AGACCATATC
* * *
39240671 CATGGCATGATCCAGGAAAGTCTGCCAGACTCACCTA
1 CATGGCATGATCCAGGGAGGTCAGCCAGACTCACCTA
* * *
39240708 TATGGCATGATCCAGGGAGGTCAGCCGGACTCATCTA
1 CATGGCATGATCCAGGGAGGTCAGCCAGACTCACCTA
* *
39240745 CATGG-ATGATCCAGGGAGGTTC-GCCA-AATCCACCTT
1 CATGGCATGATCCAGGGAGG-TCAGCCAGACT-CACCTA
* * * ** ** *
39240781 TAAGGCATAATCCAATGAGGTCAGTAAGACTCGCCTA
1 CATGGCATGATCCAGGGAGGTCAGCCAGACTCACCTA
* * * * *
39240818 TATGGCATGATCTAGGGAGGTCAGCTAAACTCGCCTA
1 CATGGCATGATCCAGGGAGGTCAGCCAGACTCACCTA
* ** *
39240855 TATGGCACAACCCAGGGAGGTTCA-CCAGA
1 CATGGCATGATCCAGGGAGG-TCAGCCAGA
39240884 TCCATCTTTA
Statistics
Matches: 135, Mismatches: 35, Indels: 12
0.74 0.19 0.07
Matches are distributed among these distances:
35 2 0.01
36 26 0.19
37 102 0.76
38 5 0.04
ACGTcount: A:0.29, C:0.25, G:0.25, T:0.21
Consensus pattern (37 bp):
CATGGCATGATCCAGGGAGGTCAGCCAGACTCACCTA
Found at i:39240905 original size:111 final size:110
Alignment explanation
Indices: 39240697--39240947 Score: 299
Period size: 111 Copynumber: 2.3 Consensus size: 110
39240687 AAAGTCTGCC
* * ** * ** *
39240697 AGACTCACCTATATGGCATGATCCAGGGAGGTCAGCCGGACTCATCTACATGGATGATCCAGGGA
1 AGACTCGCCTATATGGCATGATCTAGGGAGGTCAGCCAAACTCACCTACATGGACAACCCAGGGA
* *
39240762 GGTTCGCCAAATCCACCTTTAAGGCATAATCCAATGAGGTCAG-T
66 GGTTCACCAAATCCACCTTTAAGGCATAATCCAAGGAGGTCAGCT
* * *
39240806 AAGACTCGCCTATATGGCATGATCTAGGGAGGTCAGCTAAACTCGCCTATATGGCACAACCCAGG
1 -AGACTCGCCTATATGGCATGATCTAGGGAGGTCAGCCAAACTCACCTACATGG-ACAACCCAGG
* * * *
39240871 GAGGTTCACCAGATCCATCTTTAAGGCATAATCCAGGGAGGTTAGCT
64 GAGGTTCACCAAATCCACCTTTAAGGCATAATCCAAGGAGGTCAGCT
*
39240918 TGACTCG-CTCATATGGCATGATCTAGGGAG
1 AGACTCGCCT-ATATGGCATGATCTAGGGAG
39240948 TTTCACCAGA
Statistics
Matches: 120, Mismatches: 18, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
110 47 0.39
111 72 0.60
112 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.25, T:0.23
Consensus pattern (110 bp):
AGACTCGCCTATATGGCATGATCTAGGGAGGTCAGCCAAACTCACCTACATGGACAACCCAGGGA
GGTTCACCAAATCCACCTTTAAGGCATAATCCAAGGAGGTCAGCT
Found at i:39241016 original size:74 final size:74
Alignment explanation
Indices: 39240821--39241017 Score: 234
Period size: 74 Copynumber: 2.7 Consensus size: 74
39240811 TCGCCTATAT
* * *
39240821 GGCATGATCTAGGGAGGTCAGCTAAACTCGCCTATATGGCACAACCCAGGGAGGTTCACCAGATC
1 GGCATAATCTAGGGAGGTCAGCTAAACTCGCCTATATGGCACAATCTAGGGAGGTTCACCAGATC
* *
39240886 CATCTTTAA
66 AACCTTTAA
* * ** ** *
39240895 GGCATAATCCAGGGAGGTTAGCTTGACTCG-CTCATATGGCATGATCTAGGGAGTTTCACCAGAT
1 GGCATAATCTAGGGAGGTCAGCTAAACTCGCCT-ATATGGCACAATCTAGGGAGGTTCACCAGAT
39240959 CAACCTTTAA
65 CAACCTTTAA
* * * *
39240969 GGCATAATCTAGTGAGGTCAGCCAAACACGCCTGTATGGCACAATCTAG
1 GGCATAATCTAGGGAGGTCAGCTAAACTCGCCTATATGGCACAATCTAG
39241018 TAGAGCCCAT
Statistics
Matches: 99, Mismatches: 22, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
73 2 0.02
74 95 0.96
75 2 0.02
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.23
Consensus pattern (74 bp):
GGCATAATCTAGGGAGGTCAGCTAAACTCGCCTATATGGCACAATCTAGGGAGGTTCACCAGATC
AACCTTTAA
Found at i:39243040 original size:25 final size:26
Alignment explanation
Indices: 39242985--39243056 Score: 85
Period size: 26 Copynumber: 2.8 Consensus size: 26
39242975 CCCGATATAT
* *
39242985 GGCTCTTTATGAGCTTCTCGATTAAA
1 GGCTCTTTGTGAGCTTCCCGATTAAA
*
39243011 GGCTCTTTGTGAGCTTCCCG-TTAAC
1 GGCTCTTTGTGAGCTTCCCGATTAAA
**
39243036 GGCTCTCCG-GAGCTTCCCGAT
1 GGCTCTTTGTGAGCTTCCCGAT
39243057 ACTTGCTTGT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
24 10 0.25
25 12 0.30
26 18 0.45
ACGTcount: A:0.15, C:0.28, G:0.24, T:0.33
Consensus pattern (26 bp):
GGCTCTTTGTGAGCTTCCCGATTAAA
Found at i:39248884 original size:17 final size:17
Alignment explanation
Indices: 39248862--39248898 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
39248852 GCTGGAGAAT
39248862 GTTGCAGTAATATGGTG
1 GTTGCAGTAATATGGTG
39248879 GTTGCAGTAATATGGTG
1 GTTGCAGTAATATGGTG
39248896 GTT
1 GTT
39248899 TACTAATTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.22, C:0.05, G:0.35, T:0.38
Consensus pattern (17 bp):
GTTGCAGTAATATGGTG
Found at i:39253578 original size:275 final size:280
Alignment explanation
Indices: 39253042--39253584 Score: 649
Period size: 275 Copynumber: 1.9 Consensus size: 280
39253032 AATATGTTAT
* * *
39253042 ATTACATAAATGTATTATTTATAAAATCATATATATGATATATAAAGATATTTATTATATAAATA
1 ATTACATAAATGTATTATTTATAAAATCATACACATGAAATATAAAGATATTTATTATATAAATA
* * * *
39253107 ATTAAATTTTGATTTTAAAACTAAAGCAGAAGAATTATTTTTTTACTTTTTTGGTTAATGGAAAA
66 ATTAAATTTTAATTTTAAAACTAAA-CAG-AGAATTATTTTTTCACTATTTTGATTAATGGAAAA
* * *
39253172 AAAATACTTTAAAATTAAGTAATTTGATAAAAAAATTAACTTTTTTATTTATTATCATATAAATG
129 AAAATACTTTAAAATAAAATAATTTGATAAAAAAATTAACTTTTTTA-TAATTATCATATAAATG
* ** *
39253237 CATTAAACAAAAGTGTTTTAAAAGAATCAAAATTCTTTTTTATACCTGTGATAAATCTAGTAAAT
193 CATTAAACAAAAGTGTTTTAAAAGAATCAAAATTCTTATTTATAAATATGATAAATCTAGTAAAT
39253302 AATAAAAACCATTTATATAATAA
258 AATAAAAACCATTTATATAATAA
* * *
39253325 ATTATATAAAT-TATTATTTATAAAATTATACACATGAAATATAAAGTTATTTATTATATAAATA
1 ATTACATAAATGTATTATTTATAAAATCATACACATGAAATATAAAGATATTTATTATATAAATA
* *
39253389 ATTAAATTTTAATATTTAAAACT-AA-AG-TAA-TATTTTTTCACTATTTT-ATTAAT-GAAACA
66 ATTAAATTTTAAT-TTTAAAACTAAACAGAGAATTATTTTTTCACTATTTTGATTAATGGAAAAA
* * * ** *
39253448 TAATACTTTAAAGATAAAAT-ATTT-CTACATTAATTTTAACCTTTTTTA-AATTATTATATAAA
130 AAATACTTTAAA-ATAAAATAATTTGATA-A-AAAAATTAA-CTTTTTTATAATTATCATATAAA
* * * ** *
39253510 TTCATTTAACAGAAGTGTTTTAAAAGAATCAGGATTCTTATTTATAAATATGATAAATTTTA-TA
191 TGCATTAAACAAAAGTGTTTTAAAAGAATCAAAATTCTTATTTATAAATATGATAAA-TCTAGTA
39253574 AATAATAAAAA
255 AATAATAAAAA
39253585 ATATTTAAAA
Statistics
Matches: 223, Mismatches: 31, Indels: 20
0.81 0.11 0.07
Matches are distributed among these distances:
274 2 0.01
275 94 0.42
276 19 0.09
277 23 0.10
278 2 0.01
280 2 0.01
282 62 0.28
283 19 0.09
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.42
Consensus pattern (280 bp):
ATTACATAAATGTATTATTTATAAAATCATACACATGAAATATAAAGATATTTATTATATAAATA
ATTAAATTTTAATTTTAAAACTAAACAGAGAATTATTTTTTCACTATTTTGATTAATGGAAAAAA
AATACTTTAAAATAAAATAATTTGATAAAAAAATTAACTTTTTTATAATTATCATATAAATGCAT
TAAACAAAAGTGTTTTAAAAGAATCAAAATTCTTATTTATAAATATGATAAATCTAGTAAATAAT
AAAAACCATTTATATAATAA
Found at i:39253607 original size:20 final size:20
Alignment explanation
Indices: 39253548--39253607 Score: 63
Period size: 19 Copynumber: 3.1 Consensus size: 20
39253538 TCAGGATTCT
* *
39253548 TATTTATAAAT-ATGATAAA
1 TATTTATAAATAATAAAAAA
39253567 T-TTTATAAATAATAAAAAA
1 TATTTATAAATAATAAAAAA
*
39253586 TATTTA-AAATGATAAAACAA
1 TATTTATAAATAATAAAA-AA
39253606 TA
1 TA
39253608 ATATAATCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
18 9 0.26
19 18 0.51
20 8 0.23
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.37
Consensus pattern (20 bp):
TATTTATAAATAATAAAAAA
Found at i:39259298 original size:7 final size:7
Alignment explanation
Indices: 39259286--39259319 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
39259276 CTAAAAGACC
39259286 ATAAAAA
1 ATAAAAA
39259293 AT-AAAA
1 ATAAAAA
39259299 AT-AAAA
1 ATAAAAA
39259305 ATAAAAA
1 ATAAAAA
39259312 ATAAAAA
1 ATAAAAA
39259319 A
1 A
39259320 CCAAGTAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 12 0.46
7 14 0.54
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
ATAAAAA
Found at i:39259304 original size:5 final size:6
Alignment explanation
Indices: 39259289--39259318 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
39259279 AAAGACCATA
39259289 AAAAAT AAAAAT AAAAAT AAAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT -AAAAAT AAAAA
39259319 ACCAAGTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (6 bp):
AAAAAT
Found at i:39259304 original size:13 final size:12
Alignment explanation
Indices: 39259289--39259318 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
39259279 AAAGACCATA
39259289 AAAAATAAAAAT
1 AAAAATAAAAAT
39259301 AAAAATAAAAAAT
1 AAAAAT-AAAAAT
39259314 AAAAA
1 AAAAA
39259319 ACCAAGTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.35
13 11 0.65
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (12 bp):
AAAAATAAAAAT
Found at i:39262224 original size:18 final size:18
Alignment explanation
Indices: 39262198--39262256 Score: 54
Period size: 16 Copynumber: 3.5 Consensus size: 18
39262188 CTTTGATTTT
*
39262198 CAAAATATTTTGATATAA
1 CAAACTATTTTGATATAA
* * *
39262216 CAAACTA--TTAAGATGA
1 CAAACTATTTTGATATAA
39262232 -AAA-TATTTTGATATAA
1 CAAACTATTTTGATATAA
39262248 CAAACTATT
1 CAAACTATT
39262257 AAGAATTAAA
Statistics
Matches: 30, Mismatches: 7, Indels: 8
0.67 0.16 0.18
Matches are distributed among these distances:
14 2 0.07
15 3 0.10
16 12 0.40
17 3 0.10
18 10 0.33
ACGTcount: A:0.49, C:0.08, G:0.07, T:0.36
Consensus pattern (18 bp):
CAAACTATTTTGATATAA
Found at i:39262236 original size:32 final size:32
Alignment explanation
Indices: 39262199--39262260 Score: 124
Period size: 32 Copynumber: 1.9 Consensus size: 32
39262189 TTTGATTTTC
39262199 AAAATATTTTGATATAACAAACTATTAAGATG
1 AAAATATTTTGATATAACAAACTATTAAGATG
39262231 AAAATATTTTGATATAACAAACTATTAAGA
1 AAAATATTTTGATATAACAAACTATTAAGA
39262261 ATTAAATTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.34
Consensus pattern (32 bp):
AAAATATTTTGATATAACAAACTATTAAGATG
Found at i:39267664 original size:45 final size:45
Alignment explanation
Indices: 39267592--39267709 Score: 121
Period size: 45 Copynumber: 2.6 Consensus size: 45
39267582 GCTATACGCT
* * * *
39267592 TAAAATGAATAAGGCCGTAGCTGAAAGATGCTATGGCATCATGAC
1 TAAAATGAATAAGACCATAGCTAAAAGATGCTATAGCATCATGAC
* * * *
39267637 TAAAATGAGTAAGACCATGGCTAAAAGATGTTATAGCATCATG-G
1 TAAAATGAATAAGACCATAGCTAAAAGATGCTATAGCATCATGAC
* * *
39267681 TAAATAAGACTAAGACCATAGCTGAAAGA
1 TAAA-ATGAATAAGACCATAGCTAAAAGA
39267710 CTTTATGGCA
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
44 4 0.07
45 56 0.93
ACGTcount: A:0.42, C:0.14, G:0.22, T:0.22
Consensus pattern (45 bp):
TAAAATGAATAAGACCATAGCTAAAAGATGCTATAGCATCATGAC
Found at i:39267721 original size:45 final size:45
Alignment explanation
Indices: 39267609--39267721 Score: 131
Period size: 45 Copynumber: 2.5 Consensus size: 45
39267599 AATAAGGCCG
* * *
39267609 TAGCTGAAAGATGCTATGGCATCATGACTAAAATGAGTAAGACCA
1 TAGCTGAAAGATGTTATGGCATCATGACTAAAAAGACTAAGACCA
* * * *
39267654 TGGCTAAAAGATGTTATAGCATCATG-GTAAATAAGACTAAGACCA
1 TAGCTGAAAGATGTTATGGCATCATGACTAAA-AAGACTAAGACCA
39267699 TAGCTGAAAGACT-TTATGGCATC
1 TAGCTGAAAGA-TGTTATGGCATC
39267722 TTTCGATAGT
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
44 4 0.07
45 51 0.91
46 1 0.02
ACGTcount: A:0.39, C:0.15, G:0.21, T:0.25
Consensus pattern (45 bp):
TAGCTGAAAGATGTTATGGCATCATGACTAAAAAGACTAAGACCA
Found at i:39270095 original size:68 final size:67
Alignment explanation
Indices: 39269909--39270141 Score: 222
Period size: 68 Copynumber: 3.4 Consensus size: 67
39269899 AAAGAGGTTT
* * * ** *
39269909 AAGGTGTAAGATCATAGCTCGGCTATGACCACCAATAAAGTCTGCCAAAATGTTAAACATGGGTT
1 AAGGTGTAAGACCATAGCTCGGCTATGACAACCAATAGAGTCTGCCAGGACGTTAAACATGGGTT
39269974 AC
66 AC
* * *
39269976 AAGGTGTAAGACCATAGCTTGGATATGACAACCAATAGAGT-T-CAACTGGACGTTAAACATGAG
1 AAGGTGTAAGACCATAGCTCGGCTATGACAACCAATAGAGTCTGC--CAGGACGTTAAACATG-G
* *
39270039 TTTCC
63 GTTAC
* * *
39270044 AATGTGT-AGAACCATAGCTCAGCTATGACAACTAATAGAGTCTGCCAGGACGTTAAACATGGGT
1 AAGGTGTAAG-ACCATAGCTCGGCTATGACAACCAATAGAGTCTGCCAGGACGTTAAACATGGGT
39270108 T-C
65 TAC
* * **
39270110 ATACTGTGTAAGACCATAACTCAACTATGACA
1 A-A-GGTGTAAGACCATAGCTCGGCTATGACA
39270142 TTAGGTGAAG
Statistics
Matches: 137, Mismatches: 20, Indels: 17
0.79 0.11 0.10
Matches are distributed among these distances:
65 1 0.01
66 3 0.02
67 54 0.39
68 75 0.55
69 3 0.02
70 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (67 bp):
AAGGTGTAAGACCATAGCTCGGCTATGACAACCAATAGAGTCTGCCAGGACGTTAAACATGGGTT
AC
Found at i:39274227 original size:19 final size:18
Alignment explanation
Indices: 39274197--39274234 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
39274187 ATTAATTAAT
*
39274197 TTACTATTATTATTTTTA
1 TTACTATTATTATTGTTA
39274215 TTACTATTTATTATTGTTA
1 TTACTA-TTATTATTGTTA
39274234 T
1 T
39274235 CATTATTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.26, C:0.05, G:0.03, T:0.66
Consensus pattern (18 bp):
TTACTATTATTATTGTTA
Found at i:39274229 original size:25 final size:24
Alignment explanation
Indices: 39274191--39274252 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
39274181 ATTTCTATTA
* **
39274191 ATTA-ATTTACTATTATTATTTTT
1 ATTATATTTATTATTATTATCATT
*
39274214 ATTACTATTTATTATTGTTATCATT
1 ATTA-TATTTATTATTATTATCATT
39274239 ATTATATTTGATTA
1 ATTATATTT-ATTA
39274253 CATTTCTATT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
23 4 0.12
24 5 0.16
25 23 0.72
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.61
Consensus pattern (24 bp):
ATTATATTTATTATTATTATCATT
Found at i:39274241 original size:19 final size:19
Alignment explanation
Indices: 39274199--39274246 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
39274189 TAATTAATTT
* *
39274199 ACTA-TTATTATTTTTATT
1 ACTATTTATTATTGTTATC
39274217 ACTATTTATTATTGTTATC
1 ACTATTTATTATTGTTATC
*
39274236 ATTATTATATT
1 ACTATT-TATT
39274247 TGATTACATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 4 0.16
19 17 0.68
20 4 0.16
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.62
Consensus pattern (19 bp):
ACTATTTATTATTGTTATC
Found at i:39279408 original size:6 final size:6
Alignment explanation
Indices: 39279347--39279431 Score: 62
Period size: 6 Copynumber: 13.7 Consensus size: 6
39279337 AGAAAACAAA
* ** **
39279347 AAAATC AAAATC AAAATC AAAAATAA AAAATC AAAAAA AAGAAGA AAAATC
1 AAAATC AAAATC AAAATC -AAAAT-C AAAATC AAAATC AA-AATC AAAATC
** * *
39279398 AAAATC AAAATC AAGGTC AAAATG AAAATG AAAA
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAA
39279432 AAGAGAAGAA
Statistics
Matches: 64, Mismatches: 12, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
6 49 0.77
7 15 0.23
ACGTcount: A:0.71, C:0.09, G:0.07, T:0.13
Consensus pattern (6 bp):
AAAATC
Found at i:39280208 original size:8 final size:8
Alignment explanation
Indices: 39280191--39280230 Score: 73
Period size: 8 Copynumber: 5.1 Consensus size: 8
39280181 ATGAACTATG
39280191 AATG-AAA
1 AATGAAAA
39280198 AATGAAAA
1 AATGAAAA
39280206 AATGAAAA
1 AATGAAAA
39280214 AATGAAAA
1 AATGAAAA
39280222 AATGAAAA
1 AATGAAAA
39280230 A
1 A
39280231 GTAAAAATGG
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
7 4 0.12
8 28 0.88
ACGTcount: A:0.75, C:0.00, G:0.12, T:0.12
Consensus pattern (8 bp):
AATGAAAA
Found at i:39280213 original size:6 final size:7
Alignment explanation
Indices: 39280191--39280239 Score: 55
Period size: 8 Copynumber: 6.6 Consensus size: 7
39280181 ATGAACTATG
39280191 AATGAAA
1 AATGAAA
39280198 AATGAAAA
1 AATG-AAA
39280206 AATGAAAA
1 AATG-AAA
39280214 AATGAAAA
1 AATG-AAA
39280222 AATGAAA
1 AATGAAA
39280229 AA-GTAAA
1 AATG-AAA
39280236 AATG
1 AATG
39280240 GAGAGGCTAA
Statistics
Matches: 39, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
6 1 0.03
7 14 0.36
8 24 0.62
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (7 bp):
AATGAAA
Found at i:39280237 original size:16 final size:15
Alignment explanation
Indices: 39280191--39280239 Score: 73
Period size: 16 Copynumber: 3.3 Consensus size: 15
39280181 ATGAACTATG
39280191 AATGAAAAATGAAAA
1 AATGAAAAATGAAAA
39280206 AATGAAAAAATGAAAA
1 AATG-AAAAATGAAAA
*
39280222 AATGAAAAA-GTAAA
1 AATGAAAAATGAAAA
39280236 AATG
1 AATG
39280240 GAGAGGCTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
14 8 0.25
15 9 0.28
16 15 0.47
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (15 bp):
AATGAAAAATGAAAA
Found at i:39281543 original size:44 final size:44
Alignment explanation
Indices: 39281478--39281734 Score: 460
Period size: 44 Copynumber: 5.8 Consensus size: 44
39281468 ACTGGAATCA
*
39281478 CAAAACCTAGCTCCCTAACCAGCAGTGGAATAGGTTGAAGATTG
1 CAAAACCTAGCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTG
39281522 CAAAACCTAGCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTG
1 CAAAACCTAGCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTG
*
39281566 CAAAACTTAGCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTG
1 CAAAACCTAGCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTG
*
39281610 CAAAACCTAGCTCCTTGACCAGCAGTGGAATAGGTTGAAGATTG
1 CAAAACCTAGCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTG
39281654 CAAAACCTAGCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTG
1 CAAAACCTAGCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTG
* * *
39281698 CAAAATCTAGCTCCTTAACCAGCAGTGGAATAGGTTG
1 CAAAACCTAGCTCCCTGACCAGCAGTGGAATAGGTTG
39281735 GAAATCACAG
Statistics
Matches: 205, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 205 1.00
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.22
Consensus pattern (44 bp):
CAAAACCTAGCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTG
Found at i:39281789 original size:132 final size:132
Alignment explanation
Indices: 39281478--39281789 Score: 362
Period size: 132 Copynumber: 2.4 Consensus size: 132
39281468 ACTGGAATCA
** * * **
39281478 CAAAACCTAGCTCCCTAACCAGCAGTGGAATAGGTTGAAGATTGCAAAACCTAGCTCCCTGACCA
1 CAAAACCTAGCTCCCTAACCAGCAGCAGAATAGATGGAAGACGGCAAAACCTAGCTCCCTGACCA
*
39281543 GCAGTGGAATAGGTTGAAGATTGCAAAACTTAGCTCCCTGACCAGCAGTGGAATAGGTTGAAGAT
66 GCAGTGGAATAGGTTGAAGATTGCAAAACTTAGCTCCCTAACCAGCAGTGGAATAGGTTGAAGAT
39281608 TG
131 TG
* * ** * * **
39281610 CAAAACCTAGCTCCTTGACCAGCAGTGGAATAGGTTGAAGATTGCAAAACCTAGCTCCCTGACCA
1 CAAAACCTAGCTCCCTAACCAGCAGCAGAATAGATGGAAGACGGCAAAACCTAGCTCCCTGACCA
*
39281675 GCAGTGGAATAGGTTGAAGATTGCAAAA-TCTAGCTCCTTAACCAGCAGTGGAATAGGTTGGAA-
66 GCAGTGGAATAGGTTGAAGATTGCAAAACT-TAGCTCCCTAACCAGCAGTGGAATAGGTT-GAAG
39281738 A-T-
129 ATTG
* * * * * *
39281740 CACAGATCTTGTCTCCCTAAGCAGTAGCAGAGTAGATGGAAGACGGCAAA
1 CA-AAACCTAG-CTCCCTAACCAGCAGCAGAATAGATGGAAGACGGCAAA
39281790 TCTTATCTTC
Statistics
Matches: 158, Mismatches: 18, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
130 2 0.01
131 7 0.04
132 146 0.92
133 3 0.02
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.21
Consensus pattern (132 bp):
CAAAACCTAGCTCCCTAACCAGCAGCAGAATAGATGGAAGACGGCAAAACCTAGCTCCCTGACCA
GCAGTGGAATAGGTTGAAGATTGCAAAACTTAGCTCCCTAACCAGCAGTGGAATAGGTTGAAGAT
TG
Found at i:39282060 original size:128 final size:128
Alignment explanation
Indices: 39281717--39282096 Score: 595
Period size: 129 Copynumber: 3.0 Consensus size: 128
39281707 GCTCCTTAAC
* * *
39281717 CAGCAGTGGAATAGGTTGGAAATCACAGATCTTGTCTCCCTAAGCAGTAGCAGAGTAGA-TGGAA
1 CAGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCAGAGCAGATTGAAA
* * * *
39281781 GACGGCAAATCTTATCTTCAAGAGTAAGGAAACAGATTTAAGCCACAAGTTCTATATCCCTGGT
66 G-CGGCAAATCTTATCTTCAAGTGTAAGGAAGCAGATTCAAGCCACAAGTCCTATATCCCTGGT
* *
39281845 CAGCAGTGGAATAGGTTGGGAAATTACAGATCTTGTCTCCCTAAGCAATAGCAGAGCAGATCGAA
1 CAGCAGTGGAATAGGTT-GGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCAGAGCAGATTGAA
*
39281910 AGCGGCAAATCTTATCTTCAAGTGTAAGGAAGCAGATTCAAGCCACAAGTCCTATGTCCCTGGT
65 AGCGGCAAATCTTATCTTCAAGTGTAAGGAAGCAGATTCAAGCCACAAGTCCTATATCCCTGGT
* *
39281974 CAGCAGTGGAGTAGGTTGGAAATTACAGATCTTGTCTCCTTAAGCAGTAGCAGAGCAGATTGAAA
1 CAGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCAGAGCAGATTGAAA
* *
39282039 GCAGCAAATCTTATCTTCAAGTGTAAGGAAGCAGATTCAAGCAACAAGT-CT-TATCCCT
66 GCGGCAAATCTTATCTTCAAGTGTAAGGAAGCAGATTCAAGCCACAAGTCCTATATCCCT
39282097 CTGAAGTCAT
Statistics
Matches: 233, Mismatches: 17, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
126 6 0.03
127 2 0.01
128 109 0.47
129 112 0.48
130 4 0.02
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.24
Consensus pattern (128 bp):
CAGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCAGAGCAGATTGAAA
GCGGCAAATCTTATCTTCAAGTGTAAGGAAGCAGATTCAAGCCACAAGTCCTATATCCCTGGT
Found at i:39282155 original size:44 final size:44
Alignment explanation
Indices: 39282107--39282410 Score: 147
Period size: 44 Copynumber: 7.0 Consensus size: 44
39282097 CTGAAGTCAT
* *
39282107 AGTGGGGCAGACCGAAGAAGCAAATCTTATCTCCCTGAGGTTGC
1 AGTGGAGCAGACCGAAGAAGCAAATCTTATCTCCCTGAAGTTGC
* ** ** * *
39282151 AGTGGAGTAGATTGAAGTCG-ATAATCCTATCTCCCTGAAGTTGT
1 AGTGGAGCAGACCGAAGAAGCA-AATCTTATCTCCCTGAAGTTGC
* *** * * * *
39282195 AGTAGAGCAGATTAAAGTAA-TAGATCTTATCTCTCTGAAGTTAC
1 AGTGGAGCAGACCGAAG-AAGCAAATCTTATCTCCCTGAAGTTGC
* ** * * * ** * *
39282239 AGTAGAGTGGATC---GCATCAGGTCTTATCTCCTTGAGGTTGC
1 AGTGGAGCAGACCGAAGAAGCAAATCTTATCTCCCTGAAGTTGC
* * * * **
39282280 TGTGGAGCAGACTG-AGAAAACAAGTCTTATC-CCCTTGAAGTCAC
1 AGTGGAGCAGACCGAAG-AAGCAAATCTTATCTCCC-TGAAGTTGC
* *
39282324 AGTGGGGCAGACCGAAGAAGCAAATCTTATCTCCCTGAGGTTGC
1 AGTGGAGCAGACCGAAGAAGCAAATCTTATCTCCCTGAAGTTGC
** ** *
39282368 AGTGGAGCAGATTGAAGTCG-ATAATCCTATCTCCCTGAAGTTG
1 AGTGGAGCAGACCGAAGAAGCA-AATCTTATCTCCCTGAAGTTG
39282411 TAATAGAGCA
Statistics
Matches: 192, Mismatches: 57, Indels: 22
0.71 0.21 0.08
Matches are distributed among these distances:
40 1 0.01
41 26 0.14
43 5 0.03
44 154 0.80
45 6 0.03
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (44 bp):
AGTGGAGCAGACCGAAGAAGCAAATCTTATCTCCCTGAAGTTGC
Found at i:39282336 original size:217 final size:223
Alignment explanation
Indices: 39282081--39282736 Score: 812
Period size: 217 Copynumber: 2.9 Consensus size: 223
39282071 AGATTCAAGC
*
39282081 AACAAGTCTTAT-CCCTCTGAAGTCATAGTGGGGCAGACCGAAGAAGCAAATCTTATCTCCCTGA
1 AACAAGTCTTATCCCCT-TGAAGTCACAGTGGGGCAGACCGAAGAAGCAAATCTTATCTCCCTGA
39282145 GGTTGCAGTGGAGTAGATTGAAGTCGATAATCCTATCTCCCTGAAGTTGTAGTAGAGCAGATTAA
65 GGTTGCAGTGGAGTAGATTGAAGTCGATAATCCTATCTCCCTGAAGTTGTAGTAGAGCAGATTAA
* * * *
39282210 AGTAATA-GATCTTATCTCTCTGAAGTTACAGTAGAGTGGATCGCATCAGGTCTTATCTCCTTGA
130 AATAA-AGGATCTTATCTCTCTGAAATTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGA
* * * *
39282274 GGTTGCTGTGG-AG-C-AG-A-CTGA-GAA
194 GATTACAGTGGAAGACAAGAATCTAACGAA
39282298 AACAAGTCTTATCCCCTTGAAGTCACAGTGGGGCAGACCGAAGAAGCAAATCTTATCTCCCTGAG
1 AACAAGTCTTATCCCCTTGAAGTCACAGTGGGGCAGACCGAAGAAGCAAATCTTATCTCCCTGAG
* *
39282363 GTTGCAGTGGAGCAGATTGAAGTCGATAATCCTATCTCCCTGAAGTTGTAATAGAGCAGATTAAA
66 GTTGCAGTGGAGTAGATTGAAGTCGATAATCCTATCTCCCTGAAGTTGTAGTAGAGCAGATTAAA
* *
39282428 ATAAAGGATCTTATCTCTCTGAAATTATAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTAAGA
131 ATAAAGGATCTTATCTCTCTGAAATTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGA
39282493 TTACAGTGGAATAGACCAAAGAATTTCTAATCGAA
196 TTACAGTGG-A-AGA-C-AAGAA--TCTAA-CGAA
* * * * * ** * *
39282528 AATGGTGAA-TCTTATCTCCC-TGAGGTTACAGTGGAGTAGATTGAAGCCAG-AAATCGTATCTC
1 AA----CAAGTCTTATC-CCCTTGAAGTCACAGTGGGGCAGACCGAAG-AAGCAAATCTTATCTC
* * * * * ** *
39282590 CCTAAGATTACAGTTGAGTAGATTGAAGCCGATAATCCTATCTCCCTGAAGTTACAGTGGAGCAG
60 CCTGAGGTTGCAGTGGAGTAGATTGAAGTCGATAATCCTATCTCCCTGAAGTTGTAGTAGAGCAG
*
39282655 ATTAAAATAAAGGATCTTATCTCTCTGAAATTACAGTAGAGTAGATAGCATCAGGTCTTATCTCC
125 ATTAAAATAAAGGATCTTATCTCTCTGAAATTACAGTAGAGTAGATCGCATCAGGTCTTATCTCC
*
39282720 CTGAGATTATAGTGGAA
190 CTGAGATTACAGTGGAA
39282737 TAGACCGAAG
Statistics
Matches: 382, Mismatches: 36, Indels: 28
0.86 0.08 0.06
Matches are distributed among these distances:
216 1 0.00
217 185 0.48
218 4 0.01
220 2 0.01
222 1 0.00
224 2 0.01
225 1 0.00
228 3 0.01
230 5 0.01
231 1 0.00
232 1 0.00
233 169 0.44
234 7 0.02
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.28
Consensus pattern (223 bp):
AACAAGTCTTATCCCCTTGAAGTCACAGTGGGGCAGACCGAAGAAGCAAATCTTATCTCCCTGAG
GTTGCAGTGGAGTAGATTGAAGTCGATAATCCTATCTCCCTGAAGTTGTAGTAGAGCAGATTAAA
ATAAAGGATCTTATCTCTCTGAAATTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGA
TTACAGTGGAAGACAAGAATCTAACGAA
Found at i:39282603 original size:44 final size:43
Alignment explanation
Indices: 39282535--39282657 Score: 158
Period size: 44 Copynumber: 2.8 Consensus size: 43
39282525 GAAAATGGTG
* *
39282535 AATCTTATCTCCCTGAGGTTACAGTGGAGTAGATTGAAGCCAGA-
1 AATCCTATCTCCCT-AAGTTACAGTGGAGTAGATTGAAGCC-GAT
* *
39282579 AATCGTATCTCCCTAAGATTACAGTTGAGTAGATTGAAGCCGAT
1 AATCCTATCTCCCTAAG-TTACAGTGGAGTAGATTGAAGCCGAT
*
39282623 AATCCTATCTCCCTGAAGTTACAGTGGAGCAGATT
1 AATCCTATCTCCCT-AAGTTACAGTGGAGTAGATT
39282658 AAAATAAAGG
Statistics
Matches: 70, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
43 4 0.06
44 63 0.90
45 3 0.04
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (43 bp):
AATCCTATCTCCCTAAGTTACAGTGGAGTAGATTGAAGCCGAT
Found at i:39282689 original size:88 final size:88
Alignment explanation
Indices: 39282535--39282700 Score: 203
Period size: 88 Copynumber: 1.9 Consensus size: 88
39282525 GAAAATGGTG
* * * **
39282535 AATCTTATCTCCCTGAGGTTACAGTGGAGTAGATTGAAGCCAGAAATCGTATCTCCCTAAGATTA
1 AATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAAACAGAAATCGTATCTCCCTAAGATTA
*
39282600 CAGTTGAGTAGATTGAAGCCGAT
66 CAGTAGAGTAGATTGAAGCCGAT
* * *
39282623 AATCCTATCTCCCTGAAGTTACAGTGGAGCAGATT-AAAATA-AAGGATCTTATCTCTCTGAA-A
1 AATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAAACAGAA--ATCGTATCTCCCT-AAGA
39282685 TTACAGTAGAGTAGAT
63 TTACAGTAGAGTAGAT
39282701 AGCATCAGGT
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
86 2 0.03
87 3 0.05
88 59 0.89
89 2 0.03
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.29
Consensus pattern (88 bp):
AATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAAACAGAAATCGTATCTCCCTAAGATTA
CAGTAGAGTAGATTGAAGCCGAT
Found at i:39282711 original size:233 final size:233
Alignment explanation
Indices: 39282345--39282825 Score: 766
Period size: 233 Copynumber: 2.1 Consensus size: 233
39282335 CCGAAGAAGC
* * * *
39282345 AAATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGTCGATAATCCTATCTCCCTGAAGTT
1 AAATCTTATCTCCCTAAGATTACAGTGGAGCAGATTGAAGCCGATAATCCTATCTCCCTGAAGTT
** * *
39282410 GTAATAGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAATTATAGTAGAGTAGATCGCATCA
66 ACAATAGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAATTACAGTAGAGTAGATAGCATCA
39282475 GGTCTTATCTCCCTAAGATTACAGTGGAATAGACCAAAGAA-TTTCTAATCGAAAATGGTGAATC
131 GGTCTTATCTCCCTAAGATTACAGTGGAATAGACCAAAGAACTTT-TAATCGAAAATGGTGAATC
*
39282539 TTATCTCCCTGAGGTTACAGTGGAGTAGATTGAAGCCAG
195 TTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
* * *
39282578 AAATCGTATCTCCCTAAGATTACAGTTGAGTAGATTGAAGCCGATAATCCTATCTCCCTGAAGTT
1 AAATCTTATCTCCCTAAGATTACAGTGGAGCAGATTGAAGCCGATAATCCTATCTCCCTGAAGTT
* *
39282643 ACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAATTACAGTAGAGTAGATAGCATCA
66 ACAATAGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAATTACAGTAGAGTAGATAGCATCA
* * *
39282708 GGTCTTATCTCCCTGAGATTATAGTGGAATAGACCGAAGAACTTTTAATCGAAAATGGTGAATCT
131 GGTCTTATCTCCCTAAGATTACAGTGGAATAGACCAAAGAACTTTTAATCGAAAATGGTGAATCT
* * *
39282773 TATCTTCTTGAGGTTACCGTGGAGCAGATTGAAGCCAG
196 TATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
39282811 AAATCTTATCTCCCT
1 AAATCTTATCTCCCT
39282826 GTGGTACAGT
Statistics
Matches: 226, Mismatches: 21, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
233 223 0.99
234 3 0.01
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (233 bp):
AAATCTTATCTCCCTAAGATTACAGTGGAGCAGATTGAAGCCGATAATCCTATCTCCCTGAAGTT
ACAATAGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAATTACAGTAGAGTAGATAGCATCA
GGTCTTATCTCCCTAAGATTACAGTGGAATAGACCAAAGAACTTTTAATCGAAAATGGTGAATCT
TATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
Found at i:39283360 original size:13 final size:13
Alignment explanation
Indices: 39283342--39283375 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
39283332 ATTGTCTGCT
39283342 ACACCTCCAACTC
1 ACACCTCCAACTC
39283355 ACACCTCCAACTC
1 ACACCTCCAACTC
39283368 ACACCTCC
1 ACACCTCC
39283376 GTACAGCCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.29, C:0.56, G:0.00, T:0.15
Consensus pattern (13 bp):
ACACCTCCAACTC
Found at i:39284383 original size:22 final size:19
Alignment explanation
Indices: 39284337--39284374 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
39284327 ATTAATTAAT
39284337 TTACTA-TTATTATTTTTA
1 TTACTATTTATTATTTTTA
* *
39284355 TTGCTATTTATTATTGTTA
1 TTACTATTTATTATTTTTA
39284374 T
1 T
39284375 CATTACTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.66
Consensus pattern (19 bp):
TTACTATTTATTATTTTTA
Found at i:39293610 original size:35 final size:35
Alignment explanation
Indices: 39293571--39293665 Score: 154
Period size: 35 Copynumber: 2.7 Consensus size: 35
39293561 TCAGTTGCAC
* *
39293571 TAGCTCTTATGAGCATTGGTGTGTTTTGGTGGGAT
1 TAGCTCTTATGAGCATTGGTGTGTTTTAGAGGGAT
*
39293606 TAGCTTTTATGAGCATTGGTGTGTTTTAGAGGGAT
1 TAGCTCTTATGAGCATTGGTGTGTTTTAGAGGGAT
*
39293641 TAGCTCTTACGAGCATTGGTGTGTT
1 TAGCTCTTATGAGCATTGGTGTGTT
39293666 GTAACACTTA
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 55 1.00
ACGTcount: A:0.17, C:0.09, G:0.32, T:0.42
Consensus pattern (35 bp):
TAGCTCTTATGAGCATTGGTGTGTTTTAGAGGGAT
Found at i:39298796 original size:11 final size:11
Alignment explanation
Indices: 39298777--39298806 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
39298767 TATTATAAAG
39298777 AAAAA-ATGAT
1 AAAAAGATGAT
39298787 AAAAAGATGAT
1 AAAAAGATGAT
39298798 AAAAAGATG
1 AAAAAGATG
39298807 GAAACCCTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.26
11 14 0.74
ACGTcount: A:0.67, C:0.00, G:0.17, T:0.17
Consensus pattern (11 bp):
AAAAAGATGAT
Found at i:39299826 original size:25 final size:25
Alignment explanation
Indices: 39299798--39299870 Score: 92
Period size: 27 Copynumber: 2.8 Consensus size: 25
39299788 CTCGATATAT
*
39299798 GGCTCTTTGGAGCTTCCTGATTAAA
1 GGCTCTTTGGAGCTTCCCGATTAAA
* *
39299823 GGCTCTTTCATGAGCTTCCCGATTAAT
1 GGCTCTTT--GGAGCTTCCCGATTAAA
*
39299850 GGCTCTCTGGAGCTTCCCGAT
1 GGCTCTTTGGAGCTTCCCGAT
39299871 ATTGGCTCGC
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
25 20 0.49
27 21 0.51
ACGTcount: A:0.16, C:0.26, G:0.23, T:0.34
Consensus pattern (25 bp):
GGCTCTTTGGAGCTTCCCGATTAAA
Found at i:39299960 original size:25 final size:25
Alignment explanation
Indices: 39299906--39299999 Score: 102
Period size: 25 Copynumber: 3.8 Consensus size: 25
39299896 ATTAGCTCGT
*
39299906 ATGAGCTTCCCGTTA-ATGGCTC-T
1 ATGAGCTTCCCGTTACATGGCTCAA
*
39299929 CTAGAGCTTCCCGTTACATGGCTCAA
1 AT-GAGCTTCCCGTTACATGGCTCAA
* **
39299955 ATGAGCTTCTCGTTTTATGGCTCAA
1 ATGAGCTTCCCGTTACATGGCTCAA
*
39299980 AAGAGCTTCCCGTTTACATG
1 ATGAGCTTCCCG-TTACATG
39300000 TCTGCATAAG
Statistics
Matches: 57, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
23 1 0.02
24 13 0.23
25 37 0.65
26 6 0.11
ACGTcount: A:0.21, C:0.26, G:0.20, T:0.33
Consensus pattern (25 bp):
ATGAGCTTCCCGTTACATGGCTCAA
Found at i:39306771 original size:6 final size:6
Alignment explanation
Indices: 39306760--39306784 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
39306750 ATCAATAATC
39306760 AAATAA AAATAA AAATAA AAATAA A
1 AAATAA AAATAA AAATAA AAATAA A
39306785 TTTCACTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:39307995 original size:17 final size:18
Alignment explanation
Indices: 39307969--39308005 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
39307959 ACACAAGGTC
39307969 CACCACCTTCT-GAATAT
1 CACCACCTTCTGGAATAT
*
39307986 CACCAGCTTCTGGAATAT
1 CACCACCTTCTGGAATAT
39308004 CA
1 CA
39308006 GATGTTGATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.30, C:0.32, G:0.11, T:0.27
Consensus pattern (18 bp):
CACCACCTTCTGGAATAT
Found at i:39312009 original size:14 final size:14
Alignment explanation
Indices: 39311971--39312009 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
39311961 TTAGACCTTG
39311971 AACCCTGGACCCTA
1 AACCCTGGACCCTA
* *
39311985 GACCATGGACCCTA
1 AACCCTGGACCCTA
*
39311999 AACCCTAGACC
1 AACCCTGGACC
39312010 TTGGACCTTG
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.41, G:0.15, T:0.13
Consensus pattern (14 bp):
AACCCTGGACCCTA
Done.