Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 ID=Chr13-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: 58321163
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 747533 characters in sequence are not A, C, G, or T
File 175 of 199
Found at i:50796626 original size:3 final size:3
Alignment explanation
Indices: 50796563--50796614 Score: 52
Period size: 3 Copynumber: 17.0 Consensus size: 3
50796553 TAAGTAAATC
* * *
50796563 ATA ACA ATA ATA ATA ATA ACA ATA ATA ATGA A-A CTA ACTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA A-TA ATA ATA
50796609 ATA ATA
1 ATA ATA
50796615 TGATTAATAA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
2 1 0.03
3 34 0.85
4 5 0.12
ACGTcount: A:0.63, C:0.08, G:0.02, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:50796701 original size:23 final size:23
Alignment explanation
Indices: 50796649--50796701 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
50796639 AAATAAACAA
*
50796649 AATATAATAACAAGAATAATATG
1 AATATAATAACAAGAATAATAAG
* * *
50796672 AAGATAATAGC-ATAATAATAAAG
1 AATATAATAACAAGAATAAT-AAG
50796695 AATATAA
1 AATATAA
50796702 AAAAACTAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
22 7 0.29
23 17 0.71
ACGTcount: A:0.62, C:0.04, G:0.09, T:0.25
Consensus pattern (23 bp):
AATATAATAACAAGAATAATAAG
Found at i:50798396 original size:44 final size:45
Alignment explanation
Indices: 50798344--50799266 Score: 285
Period size: 44 Copynumber: 21.1 Consensus size: 45
50798334 AAATCTGCTT
* *
50798344 CACTACTGCTTTA-GAAGATAAGATTCT-CCGTCTCCGATCTACTC
1 CACTACTGCTTTAGGAAGATAAGA-TCTACCATCTCCGACCTACTC
* * *
50798388 CACTACTGC-TTAGGAAGATAGGATCTACCATCTTCGACCTGCTC
1 CACTACTGCTTTAGGAAGATAAGATCTACCATCTCCGACCTACTC
* * ***** *** * *
50798432 CACTACTGC-TTAGGGAGA-ATGGA-CTGGTGGCTTAAATCTACTT
1 CACTACTGCTTTAGGAAGATA-AGATCTACCATCTCCGACCTACTC
* * * * * *
50798475 TACTACTGC-TTAGGAAGATAAGAT-TCGCCGTCTTCGATCTGCTC
1 CACTACTGCTTTAGGAAGATAAGATCT-ACCATCTCCGACCTACTC
** * ** *
50798519 CACTACTGC-TTAGGGCGATAGGATCTACCATCTTTGACCTGCTC
1 CACTACTGCTTTAGGAAGATAAGATCTACCATCTCCGACCTACTC
* * * * *
50798563 CACTACTGC-TTAGGGAGATAATATTTACCATCTTCGACCTGCTC
1 CACTACTGCTTTAGGAAGATAAGATCTACCATCTCCGACCTACTC
* * ***** *** * * *
50798607 CACTACTGC-TTAGGGAGATAGGA-CTGGTGGCTTAAATCTGCTT
1 CACTACTGCTTTAGGAAGATAAGATCTACCATCTCCGACCTACTC
* * *
50798650 TACTACTGC-TTAGGAAGATAAGAT-T-CGTCATCTTCGATCTACTC
1 CACTACTGCTTTAGGAAGATAAGATCTAC--CATCTCCGACCTACTC
* * ** *
50798694 CACTACTGC-TTAGGGAGATAGGATCTACCATCTTTGACCTGCTC
1 CACTACTGCTTTAGGAAGATAAGATCTACCATCTCCGACCTACTC
* * * *
50798738 CACTACTGC-TTAGGGAGATAAGATTTACCATCTTCGACCTGCTC
1 CACTACTGCTTTAGGAAGATAAGATCTACCATCTCCGACCTACTC
* * ***** *** * * *
50798782 CACTACTGC-TTAGGGAGATAGGA-CTGGTGGCTTAAATCTGCTT
1 CACTACTGCTTTAGGAAGATAAGATCTACCATCTCCGACCTACTC
* * * *
50798825 CACTACTGC-TTAGGAAGATAAGAT-TCACCGTCTTCGATCTGCTC
1 CACTACTGCTTTAGGAAGATAAGATCT-ACCATCTCCGACCTACTC
* * ** *
50798869 CACTACTGC-TTAGGGAGATAGGATCTACCATCTTTGACCTGCTC
1 CACTACTGCTTTAGGAAGATAAGATCTACCATCTCCGACCTACTC
* * * * * *
50798913 CATTACTGC-TTAGGGAGATAGGATCTATCATCTTCGACCTGCTC
1 CACTACTGCTTTAGGAAGATAAGATCTACCATCTCCGACCTACTC
* * ***** *** * * *
50798957 CACTACTGC-TTAGGGAGATAGGA-CTGGTGGCTTAAATCTGCTT
1 CACTACTGCTTTAGGAAGATAAGATCTACCATCTCCGACCTACTC
* * * * * * *
50799000 CACTACTAC-TTAGGAAGATAAGAT-TCGCCGTCTTCGATCTGCTT
1 CACTACTGCTTTAGGAAGATAAGATCT-ACCATCTCCGACCTACTC
* * ** *
50799044 TACTACTGC-TTAGGGAGATAAGATCTACCATCTTTGACCTGCTC
1 CACTACTGCTTTAGGAAGATAAGATCTACCATCTCCGACCTACTC
* * * *
50799088 CACTACTGC-TTAGGGAGATAGGATCTACCATCTTCGACCTGCTC
1 CACTACTGCTTTAGGAAGATAAGATCTACCATCTCCGACCTACTC
* * * ***** *** * * *
50799132 TACTACTGC-TTAGGGAGATAGGAT-TGGTGGCTTAAATCTGCTT
1 CACTACTGCTTTAGGAAGATAAGATCTACCATCTCCGACCTACTC
* * ** *
50799175 CACTACTGC-TTAGAAAGATAAGAT-TCACCATCTTCGATTTGCTC
1 CACTACTGCTTTAGGAAGATAAGATCT-ACCATCTCCGACCTACTC
* * * *
50799219 CACTACTG-TTTAGGGAGATAAGATCTACAATCTTCAACCTACTC
1 CACTACTGCTTTAGGAAGATAAGATCTACCATCTCCGACCTACTC
50799263 CACT
1 CACT
50799267 GCTACTCAGG
Statistics
Matches: 700, Mismatches: 158, Indels: 42
0.78 0.18 0.05
Matches are distributed among these distances:
43 162 0.23
44 532 0.76
45 5 0.01
46 1 0.00
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.31
Consensus pattern (45 bp):
CACTACTGCTTTAGGAAGATAAGATCTACCATCTCCGACCTACTC
Found at i:50798433 original size:131 final size:131
Alignment explanation
Indices: 50798120--50799325 Score: 877
Period size: 131 Copynumber: 9.2 Consensus size: 131
50798110 AGACTGGATG
* * * * * * * * * ** *
50798120 CGATCTGCTCTACTAATTCTTAGAGATATAAGATCTACAATCTTCAACCTACTCCACTGTTGCTC
1 CGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCGACCTGCTCCACTACTGCTT
* * *** * * * *
50798185 AGGGAGATAGGATTAGTTTCTTTTGTCTGCTCCACTACTGCTTAAGGAGATAA-A-ACT-TG-AT
66 AGGGAGATAGGACTAGTGTCTTAAATCTGCTCCACTACTGCTTAGGGAGATAAGATTCTCCGTCT
*
50798246 G
131 T
* * * * * * * *
50798247 CGATCTGCTCCACTATTGCTTAGAGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTC
1 CGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCGACCTGCTCCACTACTGCTT
* * * *
50798312 AGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTTA-GAAGATAAGATTCTCCGTC
66 AGGGAGATAGGACTAGTGTCTTAAATCTGCTCCACTACTGC-TTAGGGAGATAAGATTCTCCGTC
*
50798376 TC
130 TT
* *
50798378 CGATCTACTCCACTACTGCTTAGGAAGATAGGATCTACCATCTTCGACCTGCTCCACTACTGCTT
1 CGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCGACCTGCTCCACTACTGCTT
* * * ** * *
50798443 AGGGAGA-ATGGACTGGTGGCTTAAATCTACTTTACTACTGCTTAGGAAGATAAGATTCGCCGTC
66 AGGGAGATA-GGACTAGTGTCTTAAATCTGCTCCACTACTGCTTAGGGAGATAAGATTCTCCGTC
50798507 TT
130 TT
* *
50798509 CGATCTGCTCCACTACTGCTTAGGGCGATAGGATCTACCATCTTTGACCTGCTCCACTACTGCTT
1 CGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCGACCTGCTCCACTACTGCTT
** * *** ** * * *
50798574 AGGGAGATAATATTTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAGGA--CT-GGTG
66 AGGGAGATAGGA-CTAGTGTCTTAAATCTGCTCCACTACTGCTTAGGGAGATAAGATTCTCCGT-
50798636 GCTT
129 -CTT
** ** * * * *
50798640 AAATCTGCTTTACTACTGCTTAGGAAGATAAGAT-T-CGTCATCTTCGATCTACTCCACTACTGC
1 CGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTAC--CATCTTCGACCTGCTCCACTACTGC
*** ** *
50798703 TTAGGGAGATAGGATCTACCATCTTTGACCTGCTCCACTACTGCTTAGGGAGATAAGATT-TACC
64 TTAGGGAGATAGGA-CTAGTGTCTTAAATCTGCTCCACTACTGCTTAGGGAGATAAGATTCT-CC
*
50798767 ATCTT
127 GTCTT
* ***** ** * *
50798772 CGACCTGCTCCACTACTGCTTAGGGAGATAGGA-CTGGTGGCTTAAATCTGCTTCACTACTGCTT
1 CGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCGACCTGCTCCACTACTGCTT
* * * ** ** * *
50798836 AGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGA-TCTACCAT
66 AGGGAGATAGGACT-AGTGTCTTAAATCTGCTCCACTACTGCTTAGGGAGATAAGATTCT-CCGT
50798900 CTT
129 CTT
* * * *
50798903 TGACCTGCTCCATTACTGCTTAGGGAGATAGGATCTATCATCTTCGACCTGCTCCACTACTGCTT
1 CGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCGACCTGCTCCACTACTGCTT
* * * * * *
50798968 AGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTACTTAGGAAGATAAGATTCGCCGTCT
66 AGGGAGATAGGACTAGTGTCTTAAATCTGCTCCACTACTGCTTAGGGAGATAAGATTCTCCGTCT
50799033 T
131 T
** * *
50799034 CGATCTGCTTTACTACTGCTTAGGGAGATAAGATCTACCATCTTTGACCTGCTCCACTACTGCTT
1 CGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCGACCTGCTCCACTACTGCTT
*** ** * * * * *
50799099 AGGGAGATAGGATCTACCATCTTCGACCTGCTCTACTACTGCTTAGGGAGATAGGATTGGT--GG
66 AGGGAGATAGGA-CTAGTGTCTTAAATCTGCTCCACTACTGCTTAGGGAGATAAGATT-CTCCGT
50799162 CTT
129 CTT
** * ** * ** *
50799165 AAATCTGCTTCACTACTGCTTAGAAAGATAAGAT-TCACCATCTTCGATTTGCTCCACTACTGTT
1 CGATCTGCTCCACTACTGCTTAGGGAGATAGGATCT-ACCATCTTCGACCTGCTCCACTACTGCT
* *** * * * * * * * * *
50799229 TAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTACTCAGGGAGATAGGATTGGT--T
65 TAGGGAGATAGGA-CTAGTGTCTTAAATCTGCTCCACTACTGCTTAGGGAGATAAGATT-CTCCG
50799292 TCTT
128 TCTT
*
50799296 CTG-TCTGCTCCACTACTGTTTAGGGAGATA
1 C-GATCTGCTCCACTACTGCTTAGGGAGATA
50799326 AGACTTGGTG
Statistics
Matches: 884, Mismatches: 168, Indels: 50
0.80 0.15 0.05
Matches are distributed among these distances:
127 100 0.11
128 4 0.00
129 5 0.01
130 10 0.01
131 636 0.72
132 128 0.14
134 1 0.00
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (131 bp):
CGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCGACCTGCTCCACTACTGCTT
AGGGAGATAGGACTAGTGTCTTAAATCTGCTCCACTACTGCTTAGGGAGATAAGATTCTCCGTCT
T
Found at i:50798526 original size:175 final size:175
Alignment explanation
Indices: 50798336--50799335 Score: 1470
Period size: 175 Copynumber: 5.7 Consensus size: 175
50798326 GGTGGCTTAA
* * * ** * *
50798336 ATCTGCTTCACTACTGCTTTA-GAAGATAAGATTCT-CCGTCTCCGATCTACTCCACTACTGCTT
1 ATCTGCTCCACTACTGC-TTAGGGAGATAAGA-TCTACCATCTTTGACCTGCTCCACTACTGCTT
*
50798399 AGGAAGATAGGATCTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGA-ATGGACTGGTGGC
64 AGGGAGATAGGATCTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATA-GGACTGGTGGC
* *
50798463 TTAAATCTACTTTACTACTGCTTAGGAAGATAAGATTCGCCGTCTTCG
128 TTAAATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCCGTCTTCG
* *
50798511 ATCTGCTCCACTACTGCTTAGGGCGATAGGATCTACCATCTTTGACCTGCTCCACTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGACCTGCTCCACTACTGCTTAG
** *
50798576 GGAGATAATATTTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTA
66 GGAGATAGGATCTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTA
* * *
50798641 AATCTGCTTTACTACTGCTTAGGAAGATAAGATTCGTCATCTTCG
131 AATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCCGTCTTCG
* *
50798686 ATCTACTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTTGACCTGCTCCACTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGACCTGCTCCACTACTGCTTAG
* *
50798751 GGAGATAAGATTTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTA
66 GGAGATAGGATCTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTA
*
50798816 AATCTGCTTCACTACTGCTTAGGAAGATAAGATTCACCGTCTTCG
131 AATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCCGTCTTCG
* *
50798861 ATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTTGACCTGCTCCATTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGACCTGCTCCACTACTGCTTAG
*
50798926 GGAGATAGGATCTATCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTA
66 GGAGATAGGATCTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTA
*
50798991 AATCTGCTTCACTACTACTTAGGAAGATAAGATTCGCCGTCTTCG
131 AATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCCGTCTTCG
**
50799036 ATCTGCTTTACTACTGCTTAGGGAGATAAGATCTACCATCTTTGACCTGCTCCACTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGACCTGCTCCACTACTGCTTAG
* *
50799101 GGAGATAGGATCTACCATCTTCGACCTGCTCTACTACTGCTTAGGGAGATAGGATTGGTGGCTTA
66 GGAGATAGGATCTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTA
* * *
50799166 AATCTGCTTCACTACTGCTTAGAAAGATAAGATTCACCATCTTCG
131 AATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCCGTCTTCG
* * * ** * * * *
50799211 ATTTGCTCCACTACTGTTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTACTCAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGACCTGCTCCACTACTGCTTAG
**** * * *
50799276 GGAGATAGGAT-TGGTTTCTTCTG-TCTGCTCCACTACTGTTTAGGGAGATAAGACTTGGTG
66 GGAGATAGGATCTACCATCTTC-GACCTGCTCCACTACTGCTTAGGGAGATAGGAC-TGGTG
50799336 CGATCTCTAC
Statistics
Matches: 759, Mismatches: 61, Indels: 10
0.91 0.07 0.01
Matches are distributed among these distances:
174 38 0.05
175 720 0.95
176 1 0.00
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.31
Consensus pattern (175 bp):
ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGACCTGCTCCACTACTGCTTAG
GGAGATAGGATCTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTA
AATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCCGTCTTCG
Found at i:50799326 original size:131 final size:131
Alignment explanation
Indices: 50798247--50799328 Score: 908
Period size: 131 Copynumber: 8.3 Consensus size: 131
50798237 AAACTTGATG
* * * * * * *
50798247 CGATCTGCTCCACTATTGCTTAGAGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTC
1 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTCGACCTGCTCCACTACTGCTT
* ***** ** * * * * *
50798312 AGGGAGATAGGA-CTGGTGGCTTAAATCTGCTTCACTACTGCTTTA-GAAGATAAGATTCTCCGT
66 AGGGAGATAAGATCTACCATCTTCGACCTGCTCCACTACTGC-TTAGGGAGATAGGATT-GCCGT
*
50798375 CTC
129 CTT
* * *
50798378 CGATCTACTCCACTACTGCTTAGGAAGATAGGATCTACCATCTTCGACCTGCTCCACTACTGCTT
1 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTCGACCTGCTCCACTACTGCTT
* ***** ** * * ** * *
50798443 AGGGAGA-ATGGA-CTGGTGGCTTAAATCTACTTTACTACTGCTTAGGAAGATAAGATTCGCCGT
66 AGGGAGATA-AGATCTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAGGATT-GCCGT
50798506 CTT
129 CTT
* * *
50798509 CGATCTGCTCCACTACTGCTTAGGGCGATAGGATCTACCATCTTTGACCTGCTCCACTACTGCTT
1 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTCGACCTGCTCCACTACTGCTT
* * * ** *
50798574 AGGGAGATAATATTTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCT
66 AGGGAGATAAGATCTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAGGATTGCCGTCT
50798639 T
131 T
** ** * * *
50798640 AAATCTGCTTTACTACTGCTTAGGAAGATAAGAT-T-CGTCATCTTCGATCTACTCCACTACTGC
1 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTAC--CATCTTCGACCTGCTCCACTACTGC
* * * * *
50798703 TTAGGGAGATAGGATCTACCATCTTTGACCTGCTCCACTACTGCTTAGGGAGATAAGATTTACCA
64 TTAGGGAGATAAGATCTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAGGA-TTGCCG
50798768 TCTT
128 TCTT
* * ***** ** * *
50798772 CGACCTGCTCCACTACTGCTTAGGGAGATAGGA-CTGGTGGCTTAAATCTGCTTCACTACTGCTT
1 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTCGACCTGCTCCACTACTGCTT
* * * * *
50798836 AGGAAGATAAGAT-TCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCAT
66 AGGGAGATAAGATCT-ACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAGGAT-TGCCGT
50798900 CTT
129 CTT
* * * * *
50798903 TGACCTGCTCCATTACTGCTTAGGGAGATAGGATCTATCATCTTCGACCTGCTCCACTACTGCTT
1 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTCGACCTGCTCCACTACTGCTT
* ***** ** * * * * *
50798968 AGGGAGATAGGA-CTGGTGGCTTAAATCTGCTTCACTACTACTTAGGAAGATAAGATTCGCCGTC
66 AGGGAGATAAGATCTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAGGATT-GCCGTC
50799032 TT
130 TT
** *
50799034 CGATCTGCTTTACTACTGCTTAGGGAGATAAGATCTACCATCTTTGACCTGCTCCACTACTGCTT
1 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTCGACCTGCTCCACTACTGCTT
* * ** *
50799099 AGGGAGATAGGATCTACCATCTTCGACCTGCTCTACTACTGCTTAGGGAGATAGGATTGGTGGCT
66 AGGGAGATAAGATCTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAGGATTGCCGTCT
50799164 T
131 T
** * ** ** *
50799165 AAATCTGCTTCACTACTGCTTAGAAAGATAAGAT-TCACCATCTTCGATTTGCTCCACTACTGTT
1 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT-ACCATCTTCGACCTGCTCCACTACTGCT
* * * * * * ***
50799229 TAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTACTCAGGGAGATAGGATTGGTTTC
65 TAGGGAGATAAGATCTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAGGATTGCCGTC
50799294 TT
130 TT
*
50799296 CTG-TCTGCTCCACTACTGTTTAGGGAGATAAGA
1 C-GATCTGCTCCACTACTGCTTAGGGAGATAAGA
50799329 CTTGGTGCGA
Statistics
Matches: 780, Mismatches: 154, Indels: 34
0.81 0.16 0.04
Matches are distributed among these distances:
129 1 0.00
130 9 0.01
131 643 0.82
132 127 0.16
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.31
Consensus pattern (131 bp):
CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTCGACCTGCTCCACTACTGCTT
AGGGAGATAAGATCTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAGGATTGCCGTCT
T
Found at i:50799421 original size:125 final size:125
Alignment explanation
Indices: 50799260--50799591 Score: 569
Period size: 125 Copynumber: 2.7 Consensus size: 125
50799250 CTTCAACCTA
*
50799260 CTCCACTGCTAC-TCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTGTTTAGGGAGA
1 CTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTGTTTAGGGAGA
* *
50799324 TAAGACTTGGTGCGATCTCTACTGTAACTTCAGAGAGATAATATAT-TTGGTTTTAATCCT
66 TAAGACTTGATGCGATCTCTACTGTAACTTCAAAGAGATAATATATGTT-GTTTTAATCCT
* *
50799384 CTCCACTGCAACTTTAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTGCTTAGGGAGA
1 CTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTGTTTAGGGAGA
* * *
50799449 TAAGACTTGATACGATCTCTACTGTAACTTTAAAGAGATAATATCTGTTGTTTTAATCCT
66 TAAGACTTGATGCGATCTCTACTGTAACTTCAAAGAGATAATATATGTTGTTTTAATCCT
50799509 CTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTGTTTAGGGAGA
1 CTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTGTTTAGGGAGA
50799574 TAAGACTTGATGCGATCT
66 TAAGACTTGATGCGATCT
50799592 GCTCTGCTAC
Statistics
Matches: 195, Mismatches: 11, Indels: 3
0.93 0.05 0.01
Matches are distributed among these distances:
124 11 0.06
125 182 0.93
126 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (125 bp):
CTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTGTTTAGGGAGA
TAAGACTTGATGCGATCTCTACTGTAACTTCAAAGAGATAATATATGTTGTTTTAATCCT
Found at i:50799748 original size:43 final size:43
Alignment explanation
Indices: 50799700--50799921 Score: 129
Period size: 43 Copynumber: 5.2 Consensus size: 43
50799690 TAACACAGGA
50799700 AGGCAAGATCTGTTTCTTTAACCAGCTTCACTGCAACCGATGG
1 AGGCAAGATCTGTTTCTTTAACCAGCTTCACTGCAACCGATGG
* * * * *
50799743 AGGCAAGA-CT-TTGT-TTTCGATCTGCTTCGCTGTTAACTC-A-GG
1 AGGCAAGATCTGTT-TCTTT-AACCAGCTTCACTG-CAAC-CGATGG
* * * *
50799785 AATGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACTGATGG
1 -AGGCAAGATCTGTTTCTTTAACCAGCTTCACTGCAACCGATGG
* * * * * * *
50799829 AGGTAAGA-CT-TTGT-TTTCGATCTGCTTCACTGTTAA-CGCAAGA
1 AGGCAAGATCTGTT-TCTTT-AACCAGCTTCACTG-CAACCG-ATGG
* * *
50799872 AGGTAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGG
1 AGGCAAGATCTGTTTCTTTAACCAGCTTCACTGCAACCGATGG
50799915 AGGCAAG
1 AGGCAAG
50799922 GCTTTGTTTT
Statistics
Matches: 127, Mismatches: 34, Indels: 36
0.64 0.17 0.18
Matches are distributed among these distances:
41 9 0.07
42 29 0.23
43 51 0.40
44 30 0.24
45 8 0.06
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (43 bp):
AGGCAAGATCTGTTTCTTTAACCAGCTTCACTGCAACCGATGG
Found at i:50799786 original size:86 final size:86
Alignment explanation
Indices: 50799686--50800023 Score: 523
Period size: 86 Copynumber: 3.9 Consensus size: 86
50799676 GTCTGCTCTG
* * *
50799686 CTGTTAACACAGGAAGGCAAGATCTGTTTCTTTAACCAGCTTCACTGCAACCGATGGAGGCAAGA
1 CTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGA
*
50799751 CTTTGTTTTCGATCTGCTTCG
66 CTTTGTTTTCGATCTGCTTCA
* * * *
50799772 CTGTTAACTCAGGAATGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACTGATGGAGGTAAGA
1 CTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGA
50799837 CTTTGTTTTCGATCTGCTTCA
66 CTTTGTTTTCGATCTGCTTCA
* * *
50799858 CTGTTAACGCAAGAAGGTAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGG
1 CTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGA
50799923 CTTTGTTTTCGATCTGCTTCA
66 CTTTGTTTTCGATCTGCTTCA
* * * * * *
50799944 CTGTTAACGCAGGAAGGCAATATCTGCTTCTTTAACTAGCTCTACTACAACCGATGAAGGCAAGG
1 CTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGA
50800009 CTTTGTTTTCGATCT
66 CTTTGTTTTCGATCT
50800024 TTACTGATCT
Statistics
Matches: 231, Mismatches: 21, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
86 231 1.00
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (86 bp):
CTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGA
CTTTGTTTTCGATCTGCTTCA
Found at i:50799963 original size:43 final size:42
Alignment explanation
Indices: 50799743--50799963 Score: 103
Period size: 43 Copynumber: 5.1 Consensus size: 42
50799733 CAACCGATGG
* *
50799743 AGGCAAGACTTTGTTTTCGATCTGCTTCGCTGTTAACTCAGGA
1 AGGCAAG-CTTTGTTTTCGATCTGCTTCACTGTTAACGCAGGA
* * * ** * * * *
50799786 ATGCAAGATCTGCTTCTTTAACCAGCTCCACTG-CAACTG-ATGG-
1 AGGCAAGCTTTG-TT-TTCGATCTGCTTCACTGTTAAC-GCA-GGA
* *
50799829 AGGTAAGACTTTGTTTTCGATCTGCTTCACTGTTAACGCAAGA
1 AGGCAAG-CTTTGTTTTCGATCTGCTTCACTGTTAACGCAGGA
* * * ** * * * *
50799872 AGGTAAGATCTGCTTCTTTAACCAGCTCCACTG-CAAC-CGATGG-
1 AGGCAAGCTTTG-TT-TTCGATCTGCTTCACTGTTAACGC-A-GGA
50799915 AGGCAAGGCTTTGTTTTCGATCTGCTTCACTGTTAACGCAGGA
1 AGGCAA-GCTTTGTTTTCGATCTGCTTCACTGTTAACGCAGGA
50799958 AGGCAA
1 AGGCAA
50799964 TATCTGCTTC
Statistics
Matches: 122, Mismatches: 40, Indels: 32
0.63 0.21 0.16
Matches are distributed among these distances:
42 35 0.29
43 53 0.43
44 34 0.28
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.30
Consensus pattern (42 bp):
AGGCAAGCTTTGTTTTCGATCTGCTTCACTGTTAACGCAGGA
Found at i:50802126 original size:15 final size:16
Alignment explanation
Indices: 50802106--50802140 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
50802096 CTCCTTTTTC
50802106 TTTTCTTTTTCTCTT-
1 TTTTCTTTTTCTCTTA
50802121 TTTTCTTTTTCTCTTA
1 TTTTCTTTTTCTCTTA
50802137 TTTT
1 TTTT
50802141 TGAATTTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 15 0.79
16 4 0.21
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTCTTTTTCTCTTA
Found at i:50804682 original size:33 final size:33
Alignment explanation
Indices: 50804645--50804710 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
50804635 CGAAACATGT
50804645 TAGTACAAAGCAAAAGCAAACAAGAAAAATAGA
1 TAGTACAAAGCAAAAGCAAACAAGAAAAATAGA
50804678 TAGTACAAAGCAAAAGCAAACAAGAAAAATAGA
1 TAGTACAAAGCAAAAGCAAACAAGAAAAATAGA
50804711 GTACCTATTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.64, C:0.12, G:0.15, T:0.09
Consensus pattern (33 bp):
TAGTACAAAGCAAAAGCAAACAAGAAAAATAGA
Found at i:50805257 original size:19 final size:19
Alignment explanation
Indices: 50805233--50805270 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
50805223 TCGCCAAGCT
50805233 GTTGACACCATTTTTTGGA
1 GTTGACACCATTTTTTGGA
50805252 GTTGACACCATTTTTTGGA
1 GTTGACACCATTTTTTGGA
50805271 TGAAAACGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.16, G:0.21, T:0.42
Consensus pattern (19 bp):
GTTGACACCATTTTTTGGA
Found at i:50805799 original size:107 final size:106
Alignment explanation
Indices: 50805594--50805805 Score: 284
Period size: 107 Copynumber: 2.0 Consensus size: 106
50805584 TGGATTGAGA
* * * *
50805594 TTTAAGAGGATATTAGGCTATTTGGTTCAACGAGAAATCGAAACTCAGCACGTTAGCGCACGTTT
1 TTTAAAAGGATATTAGGCTATTTGGTTCAACGAAAAATCGAAACCCAGCACGTTAGCGCACATTT
** * *
50805659 TCTCGAATTTTCAAACGCAAAATATCGCTTTATTTTGAAAT
66 TCTCGAATTCCCAAACGCAAAATATCGCCTTATTTAGAAAT
*
50805700 TTTAAAAGGATATTTTA-GCTATTTGG-TCGAACGAAAAATCGAAACCCAGCACGTTAGGGCACA
1 TTTAAAAGGATA--TTAGGCTATTTGGTTC-AACGAAAAATCGAAACCCAGCACGTTAGCGCACA
* *
50805763 TTTTCTCGAATTCCCAAATGCAAAATATTGCCTTATTTAGAAA
63 TTTTCTCGAATTCCCAAACGCAAAATATCGCCTTATTTAGAAA
50805806 AATTTTCCTT
Statistics
Matches: 92, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
106 13 0.14
107 76 0.83
108 3 0.03
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (106 bp):
TTTAAAAGGATATTAGGCTATTTGGTTCAACGAAAAATCGAAACCCAGCACGTTAGCGCACATTT
TCTCGAATTCCCAAACGCAAAATATCGCCTTATTTAGAAAT
Found at i:50806259 original size:2 final size:2
Alignment explanation
Indices: 50806252--50806308 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
50806242 TGTATGCATG
50806252 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
50806294 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
50806309 GTTTTGAAAT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:50806428 original size:2 final size:2
Alignment explanation
Indices: 50806423--50806488 Score: 50
Period size: 2 Copynumber: 34.0 Consensus size: 2
50806413 GTGTGTACAC
* * * *
50806423 AT AT AT GT AT AT AT AT AT AT A- AG GT AT AT AA AT A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
50806463 A- AGT AT GA- AT AT AT AT AT AT AT AT AT
1 AT A-T AT -AT AT AT AT AT AT AT AT AT AT
50806489 GACAAAATGT
Statistics
Matches: 51, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
1 4 0.08
2 45 0.88
3 2 0.04
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (2 bp):
AT
Found at i:50806694 original size:23 final size:23
Alignment explanation
Indices: 50806642--50806694 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
50806632 AAATAAACAA
*
50806642 AATATAATAACAAGAATAATATG
1 AATATAATAACAAGAATAATAAG
* * *
50806665 AAGATAATAGC-ATAATAATAAAG
1 AATATAATAACAAGAATAAT-AAG
50806688 AATATAA
1 AATATAA
50806695 AAAAACTAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
22 7 0.29
23 17 0.71
ACGTcount: A:0.62, C:0.04, G:0.09, T:0.25
Consensus pattern (23 bp):
AATATAATAACAAGAATAATAAG
Found at i:50807183 original size:11 final size:11
Alignment explanation
Indices: 50807167--50807197 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
50807157 CCGATTGAAG
50807167 GCTCCGCCGTA
1 GCTCCGCCGTA
50807178 GCTCCGCCGTA
1 GCTCCGCCGTA
50807189 GCTCCGCCG
1 GCTCCGCCG
50807198 CAAGCGGCGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.06, C:0.48, G:0.29, T:0.16
Consensus pattern (11 bp):
GCTCCGCCGTA
Found at i:50814103 original size:24 final size:24
Alignment explanation
Indices: 50814067--50814119 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
50814057 TATTTTATCG
* * *
50814067 TTATTTTTGTTATTAGTAGCAATA
1 TTATTTATATTATTAATAGCAATA
* *
50814091 TTATTTATATTATTAATAGTATTA
1 TTATTTATATTATTAATAGCAATA
50814115 TTATT
1 TTATT
50814120 AATGTCAACA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.32, C:0.02, G:0.08, T:0.58
Consensus pattern (24 bp):
TTATTTATATTATTAATAGCAATA
Found at i:50814113 original size:9 final size:9
Alignment explanation
Indices: 50814087--50814209 Score: 52
Period size: 9 Copynumber: 13.1 Consensus size: 9
50814077 TATTAGTAGC
50814087 AATATTATT
1 AATATTATT
*
50814096 TATATTATT
1 AATATTATT
*
50814105 AATAGTATT
1 AATATTATT
*
50814114 ATTATTAATGT
1 AATATT-AT-T
*
50814125 CAACATTACTAT
1 -AATATTA-T-T
50814137 AGA-ATTATT
1 A-ATATTATT
*
50814146 ACCT-TTATT
1 A-ATATTATT
* *
50814155 ACTTTTATT
1 AATATTATT
* *
50814164 ATTATTGTT
1 AATATTATT
*
50814173 ATTATTATT
1 AATATTATT
*
50814182 ATTATTATT
1 AATATTATT
*
50814191 ATTATTATT
1 AATATTATT
*
50814200 ATTATTATT
1 AATATTATT
50814209 A
1 A
50814210 TTTGTTTATG
Statistics
Matches: 93, Mismatches: 14, Indels: 14
0.77 0.12 0.12
Matches are distributed among these distances:
8 2 0.02
9 74 0.80
10 3 0.03
11 7 0.08
12 7 0.08
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (9 bp):
AATATTATT
Found at i:50814165 original size:3 final size:3
Alignment explanation
Indices: 50814150--50814211 Score: 99
Period size: 3 Copynumber: 20.7 Consensus size: 3
50814140 ATTATTACCT
*
50814150 TTA TTA CTT- TTA TTA TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
50814195 TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TT
50814212 TGTTTATGTT
Statistics
Matches: 55, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
2 2 0.04
3 51 0.93
4 2 0.04
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:50814518 original size:26 final size:28
Alignment explanation
Indices: 50814489--50814547 Score: 77
Period size: 26 Copynumber: 2.2 Consensus size: 28
50814479 TGTAAATACT
50814489 TATATTTTCATATCTT-ATAA-TTTATA
1 TATATTTTCATATCTTCATAATTTTATA
* * *
50814515 TATATTTTTATATTTTCATAATTTTATG
1 TATATTTTCATATCTTCATAATTTTATA
50814543 TATAT
1 TATAT
50814548 ACATACATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 14 0.50
27 4 0.14
28 10 0.36
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (28 bp):
TATATTTTCATATCTTCATAATTTTATA
Found at i:50815182 original size:108 final size:109
Alignment explanation
Indices: 50814820--50815227 Score: 649
Period size: 108 Copynumber: 3.8 Consensus size: 109
50814810 AAATTTTTCT
* * * *
50814820 AAATAAGGCAATATTTAGCATTTGGAAATTCGAGGAAACGTGCCCTAAGGTGCTGGGTGTCGA-T
1 AAATAAGGCAATGTTTTGCATTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
* * * *
50814884 TTTCTCGTTCAACCAAATAGCTAAATATCCTTCTAAAAATTTCA
66 TTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTA
*
50814928 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
1 AAATAAGGCAATGTTTTGCATTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
50814993 TTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTA
66 TTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTA
* * *
50815037 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGTTGTGTGTCGATT
1 AAATAAGGCAATGTTTTGCATTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
50815102 TTTCT-GTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTA
66 TTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTA
* * * *
50815145 AAATAAGACAATGTTTTGTATTTGGGAATTTGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
1 AAATAAGGCAATGTTTTGCATTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
*
50815210 TTTCTCGTTTAACCAAAT
66 TTTCTCGTTCAACCAAAT
50815228 TGCCAAATAT
Statistics
Matches: 279, Mismatches: 19, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
108 159 0.57
109 120 0.43
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.34
Consensus pattern (109 bp):
AAATAAGGCAATGTTTTGCATTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
TTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTA
Found at i:50815195 original size:217 final size:217
Alignment explanation
Indices: 50814820--50815227 Score: 647
Period size: 217 Copynumber: 1.9 Consensus size: 217
50814810 AAATTTTTCT
* *
50814820 AAATAAGGCAATATTTAGCATTTGGAAATTCGAGGAAACGTGCCCTAAGGTGCTGGGTGTCGATT
1 AAATAAGGCAATATTTAGCATTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
* *
50814885 TTCTCGTTCAACCAAATAGCTAAATATCCTTCTAAAAATTTCAAAATAAGGCAATGTTTTGCGTT
66 TTCTCGTTCAACCAAATAGCTAAATATCCTTCTAAAAATTTCAAAATAAGACAATGTTTTGCATT
50814950 TGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATGGCT
131 TGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATGGCT
50815015 TAATATCCTTTTAAAAATTTTA
196 TAATATCCTTTTAAAAATTTTA
* * * * *
50815037 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGTTGTGTGTCGATT
1 AAATAAGGCAATATTTAGCATTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
* * * * *
50815102 TT-TCTGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTAAAATAAGACAATGTTTTGTAT
66 TTCTC-GTTCAACCAAATAGCTAAATATCCTTCTAAAAATTTCAAAATAAGACAATGTTTTGCAT
* * *
50815166 TTGGGAATTTGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTTAACCAAAT
130 TTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAAT
50815228 TGCCAAATAT
Statistics
Matches: 173, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
216 2 0.01
217 171 0.99
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.34
Consensus pattern (217 bp):
AAATAAGGCAATATTTAGCATTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
TTCTCGTTCAACCAAATAGCTAAATATCCTTCTAAAAATTTCAAAATAAGACAATGTTTTGCATT
TGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATGGCT
TAATATCCTTTTAAAAATTTTA
Found at i:50815901 original size:38 final size:38
Alignment explanation
Indices: 50815850--50815964 Score: 230
Period size: 38 Copynumber: 3.0 Consensus size: 38
50815840 TAATAGAAGT
50815850 TATGTGAATTTATAAATTCATTTAATAAAATATTAAAA
1 TATGTGAATTTATAAATTCATTTAATAAAATATTAAAA
50815888 TATGTGAATTTATAAATTCATTTAATAAAATATTAAAA
1 TATGTGAATTTATAAATTCATTTAATAAAATATTAAAA
50815926 TATGTGAATTTATAAATTCATTTAATAAAATATTAAAA
1 TATGTGAATTTATAAATTCATTTAATAAAATATTAAAA
50815964 T
1 T
50815965 GTATCTTCCA
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 77 1.00
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.43
Consensus pattern (38 bp):
TATGTGAATTTATAAATTCATTTAATAAAATATTAAAA
Found at i:50821406 original size:23 final size:25
Alignment explanation
Indices: 50821380--50821428 Score: 66
Period size: 23 Copynumber: 2.0 Consensus size: 25
50821370 TATAAATCAA
*
50821380 AAAATTATCTC-TAGA-AATTTTCT
1 AAAATAATCTCTTAGAGAATTTTCT
50821403 AAAATAATCTCTTTAGAGAATTTTCT
1 AAAATAATCTC-TTAGAGAATTTTCT
50821429 CTTTACAACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 10 0.45
25 4 0.18
26 8 0.36
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.43
Consensus pattern (25 bp):
AAAATAATCTCTTAGAGAATTTTCT
Found at i:50821720 original size:29 final size:28
Alignment explanation
Indices: 50821688--50821765 Score: 68
Period size: 30 Copynumber: 2.6 Consensus size: 28
50821678 TTGGCCCATG
50821688 AACTTTTCTAAATTACATTTCAAACCCTA
1 AACTTTTCTAAATTACATTT-AAACCCTA
* * * *
50821717 AACTTTCTCAAAATTTCACTTTGACCCCTA
1 AACTTT-TCTAAATTACA-TTTAAACCCTA
50821747 AA-TTTTCTAGAAATTACAT
1 AACTTTTCT--AAATTACAT
50821766 GTTGGCCCTA
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
28 2 0.05
29 10 0.26
30 24 0.62
31 3 0.08
ACGTcount: A:0.36, C:0.23, G:0.03, T:0.38
Consensus pattern (28 bp):
AACTTTTCTAAATTACATTTAAACCCTA
Found at i:50822234 original size:12 final size:13
Alignment explanation
Indices: 50822218--50822249 Score: 57
Period size: 12 Copynumber: 2.5 Consensus size: 13
50822208 AAAAAAAGCA
50822218 AAGAAGAAAGAAG
1 AAGAAGAAAGAAG
50822231 -AGAAGAAAGAAG
1 AAGAAGAAAGAAG
50822243 AAGAAGA
1 AAGAAGA
50822250 GATGAGGGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.67
13 6 0.33
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (13 bp):
AAGAAGAAAGAAG
Found at i:50822376 original size:12 final size:11
Alignment explanation
Indices: 50822361--50822443 Score: 61
Period size: 10 Copynumber: 7.8 Consensus size: 11
50822351 GAGGAAGAAG
50822361 AAGAAAAATAGA
1 AAGAAAAA-AGA
50822373 AAGAAAAAAGA
1 AAGAAAAAAGA
*
50822384 AA-AAATAAG-
1 AAGAAAAAAGA
*
50822393 AAGAAAAGA-A
1 AAGAAAAAAGA
50822403 AAG-AAAAA-A
1 AAGAAAAAAGA
*
50822412 AAGAAAAAGGA
1 AAGAAAAAAGA
*
50822423 AA-AAAATAATA
1 AAGAAAA-AAGA
50822434 AAGAATAAAA
1 AAGAA-AAAA
50822444 AACAGCAGCA
Statistics
Matches: 57, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
9 10 0.18
10 21 0.37
11 12 0.21
12 12 0.21
13 2 0.04
ACGTcount: A:0.80, C:0.00, G:0.14, T:0.06
Consensus pattern (11 bp):
AAGAAAAAAGA
Found at i:50822384 original size:7 final size:7
Alignment explanation
Indices: 50822372--50822427 Score: 51
Period size: 7 Copynumber: 7.4 Consensus size: 7
50822362 AGAAAAATAG
50822372 AAAGAAA
1 AAAGAAA
50822379 AAAGAAAAA
1 AAAG--AAA
50822388 ATAAGAAGA
1 A-AAGAA-A
50822397 AAAGAAA
1 AAAGAAA
50822404 AGAA-AAA
1 A-AAGAAA
50822411 AAAGAAA
1 AAAGAAA
*
50822418 AAGGAAA
1 AAAGAAA
50822425 AAA
1 AAA
50822428 ATAATAAAGA
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
6 2 0.05
7 21 0.51
8 9 0.22
9 6 0.15
10 3 0.07
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (7 bp):
AAAGAAA
Found at i:50822386 original size:18 final size:18
Alignment explanation
Indices: 50822354--50822418 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 18
50822344 TTCCAAAGAG
*
50822354 GAAGAAGAAGAAAAATAGAAA
1 GAAGAA-AAGAAAAA-A-TAA
50822375 GAA-AAAAGAAAAAATAA
1 GAAGAAAAGAAAAAATAA
*
50822392 GAAGAAAAGAAAAGAAAAA
1 GAAGAAAAGAAAA-AATAA
*
50822411 AAAGAAAA
1 GAAGAAAA
50822419 AGGAAAAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
17 5 0.13
18 10 0.26
19 19 0.49
20 2 0.05
21 3 0.08
ACGTcount: A:0.78, C:0.00, G:0.18, T:0.03
Consensus pattern (18 bp):
GAAGAAAAGAAAAAATAA
Found at i:50822389 original size:20 final size:19
Alignment explanation
Indices: 50822364--50822427 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 19
50822354 GAAGAAGAAG
50822364 AAAAATAGAAAGAAAAAAGA
1 AAAAATA-AAAGAAAAAAGA
50822384 AAAAATAAGAAGAAAAGAA-A
1 AAAAATAA-AAGAAAA-AAGA
*
50822404 AGAAAA-AAAAGAAAAAGGA
1 A-AAAATAAAAGAAAAAAGA
50822423 AAAAA
1 AAAAA
50822428 ATAATAAAGA
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
18 5 0.13
19 10 0.26
20 18 0.46
21 6 0.15
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.03
Consensus pattern (19 bp):
AAAAATAAAAGAAAAAAGA
Found at i:50822396 original size:13 final size:12
Alignment explanation
Indices: 50822355--50822428 Score: 55
Period size: 11 Copynumber: 6.1 Consensus size: 12
50822345 TCCAAAGAGG
*
50822355 AAGAAGAAGAAA
1 AAGAAGAAAAAA
* *
50822367 AA-TAGAAAGAA
1 AAGAAGAAAAAA
50822378 AA-AAGAAAAAA
1 AAGAAGAAAAAA
50822389 TAAGAAGAAAAGAA
1 -AAGAAGAAAA-AA
50822403 AAGAA-AAAAAA
1 AAGAAGAAAAAA
*
50822414 GAAAAAGGAAAAAA
1 -AAGAA-GAAAAAA
50822428 A
1 A
50822429 TAATAAAGAA
Statistics
Matches: 50, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
11 17 0.34
12 12 0.24
13 13 0.26
14 8 0.16
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.03
Consensus pattern (12 bp):
AAGAAGAAAAAA
Found at i:50822400 original size:25 final size:23
Alignment explanation
Indices: 50822372--50822427 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 23
50822362 AGAAAAATAG
50822372 AAAGAAAAAAGAAAAAATAAGAAGA
1 AAAGAAAAAAGAAAAAA-AAGAA-A
50822397 AAAG--AAAAGAAAAAAAAGAAA
1 AAAGAAAAAAGAAAAAAAAGAAA
*
50822418 AAGGAAAAAA
1 AAAGAAAAAA
50822428 ATAATAAAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
21 4 0.14
22 5 0.18
23 15 0.54
25 4 0.14
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (23 bp):
AAAGAAAAAAGAAAAAAAAGAAA
Found at i:50822428 original size:10 final size:9
Alignment explanation
Indices: 50822372--50822419 Score: 53
Period size: 9 Copynumber: 5.0 Consensus size: 9
50822362 AGAAAAATAG
50822372 AAAGAAAAA
1 AAAGAAAAA
50822381 AGAA-AAAATA
1 A-AAGAAAA-A
50822391 AGAAGAAAAGA
1 A-AAGAAAA-A
50822402 AAAGAAAAA
1 AAAGAAAAA
50822411 AAAGAAAAA
1 AAAGAAAAA
50822420 GGAAAAAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
9 15 0.43
10 14 0.40
11 6 0.17
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (9 bp):
AAAGAAAAA
Found at i:50822428 original size:29 final size:28
Alignment explanation
Indices: 50822354--50822428 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 28
50822344 TTCCAAAGAG
* *
50822354 GAAGAAGAAGAAAAATAGAAAGAAAAAA
1 GAAGAAAAAGAAAAAAAGAAAGAAAAAA
* *
50822382 GAAAAAATAAGAAGAAAAGAAAAGAAAAAA
1 GAAGAAA-AAGAAAAAAAG-AAAGAAAAAA
50822412 -AAGAAAAAGGAAAAAAA
1 GAAGAAAAA-GAAAAAAA
50822429 TAATAAAGAA
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
28 7 0.18
29 21 0.55
30 10 0.26
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.03
Consensus pattern (28 bp):
GAAGAAAAAGAAAAAAAGAAAGAAAAAA
Found at i:50822436 original size:16 final size:15
Alignment explanation
Indices: 50822358--50822445 Score: 63
Period size: 15 Copynumber: 5.7 Consensus size: 15
50822348 AAAGAGGAAG
* * *
50822358 AAGAAGAAAAATAGA
1 AAGAAAAAAAAGAAA
*
50822373 AAGAAAAAAGAAAAAA
1 AAGAAAAAA-AAGAAA
*
50822389 TAAG-AAGAAAAG-AA
1 -AAGAAAAAAAAGAAA
50822403 AAGAAAAAAAAGAAA
1 AAGAAAAAAAAGAAA
* *
50822418 AAGGAAAAAAATAATA
1 AAGAAAAAAAAGAA-A
50822434 AAGAATAAAAAA
1 AAGAA-AAAAAA
50822446 CAGCAGCAAC
Statistics
Matches: 58, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
13 3 0.05
14 9 0.16
15 24 0.41
16 13 0.22
17 9 0.16
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.06
Consensus pattern (15 bp):
AAGAAAAAAAAGAAA
Found at i:50822592 original size:20 final size:20
Alignment explanation
Indices: 50822569--50822639 Score: 70
Period size: 20 Copynumber: 3.4 Consensus size: 20
50822559 GCAGGTTAGC
50822569 TCCAGCAGCCCCAGGCCCAT
1 TCCAGCAGCCCCAGGCCCAT
* * *
50822589 TCCAGCAGCAGGCCAGCACCCAG
1 TCCAGCAGC--CCCAG-GCCCAT
* *
50822612 TCCAGCAGTCCCAGGCCCGT
1 TCCAGCAGCCCCAGGCCCAT
50822632 TCCAGCAG
1 TCCAGCAG
50822640 TAGGCCAGCA
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
20 20 0.50
21 4 0.10
22 4 0.10
23 12 0.30
ACGTcount: A:0.21, C:0.45, G:0.24, T:0.10
Consensus pattern (20 bp):
TCCAGCAGCCCCAGGCCCAT
Found at i:50822710 original size:14 final size:13
Alignment explanation
Indices: 50822687--50822748 Score: 51
Period size: 13 Copynumber: 4.8 Consensus size: 13
50822677 TGCAAAAATA
*
50822687 AAAAATAAAAGAGG
1 AAAAAGAAAA-AGG
50822701 AAAAAG-AAAA-G
1 AAAAAGAAAAAGG
50822712 AAAAAGAAAAAAGG
1 AAAAAG-AAAAAGG
50822726 AAAAAAGAGAAAA-G
1 -AAAAAGA-AAAAGG
50822740 AAAAA-AAAA
1 AAAAAGAAAA
50822749 CAAAAAGGCC
Statistics
Matches: 42, Mismatches: 1, Indels: 13
0.75 0.02 0.23
Matches are distributed among these distances:
11 10 0.24
12 2 0.05
13 12 0.29
14 8 0.19
15 10 0.24
ACGTcount: A:0.81, C:0.00, G:0.18, T:0.02
Consensus pattern (13 bp):
AAAAAGAAAAAGG
Found at i:50822724 original size:7 final size:7
Alignment explanation
Indices: 50822680--50822745 Score: 57
Period size: 7 Copynumber: 9.7 Consensus size: 7
50822670 CCCAATCTGC
*
50822680 AAAAATA
1 AAAAAGA
*
50822687 AAAAATA
1 AAAAAGA
* *
50822694 AAAGAGG
1 AAAAAGA
50822701 AAAAAG-
1 AAAAAGA
50822707 -AAAAG-
1 AAAAAGA
50822712 AAAAAGA
1 AAAAAGA
50822719 AAAAAGGA
1 AAAAA-GA
50822727 AAAAAGA
1 AAAAAGA
*
50822734 GAAAAGA
1 AAAAAGA
50822741 AAAAA
1 AAAAA
50822746 AAACAAAAAG
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
5 5 0.10
6 5 0.10
7 33 0.66
8 7 0.14
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (7 bp):
AAAAAGA
Found at i:50822732 original size:15 final size:15
Alignment explanation
Indices: 50822712--50822756 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
50822702 AAAAGAAAAG
50822712 AAAAAGAAAAAAGGA
1 AAAAAGAAAAAAGGA
* *
50822727 AAAAAGAGAAAAGAA
1 AAAAAGAAAAAAGGA
*
50822742 AAAAAAACAAAAAGG
1 AAAAAGA-AAAAAGG
50822757 CCCGAGGGCT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
15 19 0.79
16 5 0.21
ACGTcount: A:0.80, C:0.02, G:0.18, T:0.00
Consensus pattern (15 bp):
AAAAAGAAAAAAGGA
Found at i:50822753 original size:23 final size:21
Alignment explanation
Indices: 50822701--50822755 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 21
50822691 ATAAAAGAGG
*
50822701 AAAAAGAAAAGAAAAAGAAAA
1 AAAAAAAAAAGAAAAAGAAAA
**
50822722 AAGGAAAAAAGAGAAAAGAAAA
1 AAAAAAAAAAGA-AAAAGAAAA
50822744 AAAAACAAAAAG
1 AAAAA-AAAAAG
50822756 GCCCGAGGGC
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 9 0.33
22 12 0.44
23 6 0.22
ACGTcount: A:0.82, C:0.02, G:0.16, T:0.00
Consensus pattern (21 bp):
AAAAAAAAAAGAAAAAGAAAA
Found at i:50823054 original size:20 final size:20
Alignment explanation
Indices: 50823031--50823069 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
50823021 GAAAATATTC
50823031 AAAAATTCTCGTGTTTTAAA
1 AAAAATTCTCGTGTTTTAAA
50823051 AAAAATTCTCGTGTTTTAA
1 AAAAATTCTCGTGTTTTAA
50823070 TAGGATCACG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.41
Consensus pattern (20 bp):
AAAAATTCTCGTGTTTTAAA
Found at i:50823220 original size:17 final size:17
Alignment explanation
Indices: 50823200--50823232 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
50823190 CCGTGTTCAA
50823200 AAATTTCGAGTTTTAAG
1 AAATTTCGAGTTTTAAG
*
50823217 AAATTTTGAGTTTTAA
1 AAATTTCGAGTTTTAA
50823233 AAAAAAAAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.03, G:0.15, T:0.45
Consensus pattern (17 bp):
AAATTTCGAGTTTTAAG
Found at i:50823324 original size:19 final size:19
Alignment explanation
Indices: 50823302--50823377 Score: 65
Period size: 19 Copynumber: 4.2 Consensus size: 19
50823292 ACACGTGCTT
50823302 AAAAAATTTTCGTGTTTTC
1 AAAAAATTTTCGTGTTTTC
*
50823321 AAAAAATGTTCCGTG-TTTC
1 AAAAAAT-TTTCGTGTTTTC
50823340 ---AAATTTTCGTGTTTT-
1 AAAAAATTTTCGTGTTTTC
* *
50823355 TAAAAATTTCTCGT-ATTTC
1 AAAAAATTT-TCGTGTTTTC
50823374 AAAA
1 AAAA
50823378 TTTTTGACTT
Statistics
Matches: 46, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
15 6 0.13
16 7 0.15
18 9 0.20
19 18 0.39
20 6 0.13
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.45
Consensus pattern (19 bp):
AAAAAATTTTCGTGTTTTC
Found at i:50823374 original size:34 final size:36
Alignment explanation
Indices: 50823304--50823381 Score: 108
Period size: 35 Copynumber: 2.2 Consensus size: 36
50823294 ACGTGCTTAA
*
50823304 AAAATTTTCGTGTTTTCAAAAAATGTTCCGTGTTTC
1 AAAATTTTCGTGTTTTCAAAAAATGTTCCGTATTTC
*
50823340 -AAATTTTCGTGTTTT-TAAAAAT-TTCTCGTATTTC
1 AAAATTTTCGTGTTTTCAAAAAATGTTC-CGTATTTC
50823374 AAAATTTT
1 AAAATTTT
50823382 TGACTTTTTG
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
33 3 0.08
34 13 0.34
35 22 0.58
ACGTcount: A:0.29, C:0.12, G:0.10, T:0.49
Consensus pattern (36 bp):
AAAATTTTCGTGTTTTCAAAAAATGTTCCGTATTTC
Found at i:50823487 original size:18 final size:18
Alignment explanation
Indices: 50823464--50823530 Score: 52
Period size: 18 Copynumber: 3.8 Consensus size: 18
50823454 TTTTTTTAAG
50823464 AAAATTTTTCGTGTTTCT
1 AAAATTTTTCGTGTTTCT
*
50823482 AAAATTCTTAC--GTTT-T
1 AAAATT-TTTCGTGTTTCT
***
50823498 AAAAAAATTCGTGCTTTC-
1 AAAATTTTTCGTG-TTTCT
50823516 AAAATTTTTCGTGTT
1 AAAATTTTTCGTGTT
50823531 ATATAAAAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 11
0.65 0.15 0.20
Matches are distributed among these distances:
15 2 0.06
16 5 0.14
17 7 0.19
18 19 0.53
19 3 0.08
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.48
Consensus pattern (18 bp):
AAAATTTTTCGTGTTTCT
Found at i:50823520 original size:34 final size:33
Alignment explanation
Indices: 50823471--50823583 Score: 122
Period size: 34 Copynumber: 3.3 Consensus size: 33
50823461 AAGAAAATTT
50823471 TTCGTGTTTCTAAAATTCTTACGT-TTTAAAAAAA
1 TTCGTGTTTC-AAAATTCTT-CGTGTTTAAAAAAA
*
50823505 TTCGTGCTTTCAAAATTTTTCGTGTTATATAAAAAA
1 TTCGTG-TTTCAAAATTCTTCGTGTT-TA-AAAAAA
* *
50823541 TTCATATTTCAAAATTC-TCGTGTTTAAAAAAAA
1 TTCGTGTTTCAAAATTCTTCGTGTTT-AAAAAAA
50823574 TTTCGTGTTT
1 -TTCGTGTTT
50823584 AATCGGATCA
Statistics
Matches: 67, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
33 10 0.15
34 31 0.46
35 16 0.24
36 10 0.15
ACGTcount: A:0.34, C:0.12, G:0.10, T:0.45
Consensus pattern (33 bp):
TTCGTGTTTCAAAATTCTTCGTGTTTAAAAAAA
Found at i:50824741 original size:12 final size:13
Alignment explanation
Indices: 50824720--50824747 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
50824710 AAGTTGGGGC
50824720 AAAACAAAAAAAA
1 AAAACAAAAAAAA
50824733 AAAACAAAAAAAA
1 AAAACAAAAAAAA
50824746 AA
1 AA
50824748 TGTAGGTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAACAAAAAAAA
Found at i:50836465 original size:80 final size:79
Alignment explanation
Indices: 50836119--50836814 Score: 771
Period size: 79 Copynumber: 8.8 Consensus size: 79
50836109 TAAAAAAAAT
* * *
50836119 AAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGTGTCACATGCCGAGGTATTTCTTTTAAA
1 AAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTA--T-TTTTCAA
*
50836184 TTTCTG-TTTTTT--AA
63 TTTTTGTTTTTTTCAAA
* * * *
50836198 AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCAC--GCTGAGGTA-TTCTCAACTT
1 AAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTTCAA-TT
*
50836260 CTGTT-TTTTTTTAAAAA
65 -T-TTGTTTTTTT-CAAA
* * *
50836277 AAATCAACTCATAATGCGAGAGGTGAGTTGAACCTCAGGTCAC--GCTGAGGTA-TTTTCAATTT
1 AAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTTCAATTT
* ***
50836339 ATGTTTTTCAAAAAAAA
66 TTGTTTTT---TTCAAA
* *
50836356 AAATCAACTCATAATGCGAGAGGTGAGTTGAGCTTCGGGTCACATGCCGAGGTATTTTTTAATTT
1 AAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTTCAATTT
50836421 TTGTTTTTTTCGAAA
66 TTGTTTTTTTC-AAA
*
50836436 AAATCAACTCATAATGTGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTTTCAATT
1 AAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTA-TTTTTCAATT
50836501 TTTGTTTTTTTCAAA
65 TTTGTTTTTTTCAAA
50836516 AAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTTCAATTT
1 AAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTTCAA-TT
*
50836581 TCGTTTTTTTTTTCAAA
65 T--TTGTTTTTTTCAAA
*
50836598 AAATCAACTCATAATGCGAGAGGTGAGTTGAGCCCCGGGTCACATGCCGAGGTATTTTTCAATTT
1 AAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTTCAATTT
50836663 TCTG--TTTTTCAAA
66 T-TGTTTTTTTCAAA
* * * * ** *
50836676 AAATTAACTCATAATGTGAGAGGTGAGTTAAGTCTTAGGTCAC--GCTGAGGTA-TTTTCAATTT
1 AAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTTCAATTT
* ****
50836738 ATGTTTTCAAAAAAA
66 TTGTTTT-TTTCAAA
* * * * *
50836753 AAATTAACTCATAATCCGAGAGGTGAGTTGAGCCTCGAGTCA-A-GCTGATGTATTTTT-AATTT
1 AAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTTCAATTT
50836815 CTATTTTTCA
Statistics
Matches: 539, Mismatches: 53, Indels: 52
0.84 0.08 0.08
Matches are distributed among these distances:
73 5 0.01
74 4 0.01
75 11 0.02
76 18 0.03
77 65 0.12
78 51 0.09
79 148 0.27
80 115 0.21
81 32 0.06
82 90 0.17
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.35
Consensus pattern (79 bp):
AAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTTCAATTT
TTGTTTTTTTCAAA
Found at i:50836540 original size:160 final size:160
Alignment explanation
Indices: 50835974--50836822 Score: 884
Period size: 160 Copynumber: 5.3 Consensus size: 160
50835964 GTGTGTTACA
* *
50835974 AGTTGAGCCTCGGGTCACATGCCGAGGTATTTCTTTTAAATTTCTG-ATTTTC-AAAAATCAACT
1 AGTTGAGCCTCGGGTCACATGCCGAGGTA-TT-TTTTCAATTTCTGTTTTTTCAAAAAATCAACT
* * * * *
50836037 CATATTGCGAGAAGTGAGTTAAGCCTCGGGTCACATACCGAGGTATTTCTTTTAAATTTCTGTTT
64 CATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTA--T-TTTTCAA--T-T-TTT
* *
50836102 TGTTTTTTAAAAAAAATAAATCAACTCATAATCCGAGAGGTG
122 TGTTTTTT--TAAAAA-AAATCAACTCATAATGCGAGAGGTG
* *
50836144 AGTTGAGCCTCGTGTCACATGCCGAGGTATTTCTTTTAAATTTCTGTTTTTT--AAAAATCAACT
1 AGTTGAGCCTCGGGTCACATGCCGAGGTA-TT-TTTTCAATTTCTGTTTTTTCAAAAAATCAACT
* * * * *
50836207 CATATTGCGAGAAGTGAGTTGAGCCTCGGGTCAC--GCTGAGGTA-TTCTCAACTTCTGTT-TTT
64 CATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTTCAA-TT-TTTTGTTT
50836268 TTTTAAAAAAAATCAACTCATAATGCGAGAGGTG
127 TTTTAAAAAAAATCAACTCATAATGCGAGAGGTG
* * * *
50836302 AGTTGAACCTCAGGTCAC--GCTGAGGTA--TTTTCAATTTATG-TTTTTCAAAAAAAAAAATCA
1 AGTTGAGCCTCGGGTCACATGCCGAGGTATTTTTTCAATTTCTGTTTTTTC-----AAAAAATCA
* *
50836362 ACTCATAATGCGAGAGGTGAGTTGAGCTTCGGGTCACATGCCGAGGTATTTTTTAA-TTTTTGTT
61 ACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTTCAATTTTTTGTT
** *
50836426 TTTTTCGAAAAAATCAACTCATAATGTGAGAGGTG
126 TTTTTAAAAAAAATCAACTCATAATGCGAGAGGTG
*
50836461 AGTTGAGCCTCGGGTCACATGCCGAGGTATTTTTTCAATTTTTGTTTTTTTCAAAAAATCAACTC
1 AGTTGAGCCTCGGGTCACATGCCGAGGTATTTTTTCAATTTCTG-TTTTTTCAAAAAATCAACTC
50836526 ATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTTCAATTTTCGTT-TTTT
65 ATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTTCAATTTT--TTGTTTT
**
50836590 TTTTCAAAAAATCAACTCATAATGCGAGAGGTG
128 TTTAAAAAAAATCAACTCATAATGCGAGAGGTG
* *
50836623 AGTTGAGCCCCGGGTCACATGCCGAGGTA-TTTTTCAATTTTCTG-TTTTTCAAAAAATTAACTC
1 AGTTGAGCCTCGGGTCACATGCCGAGGTATTTTTTCAA-TTTCTGTTTTTTCAAAAAATCAACTC
* * * ** * * **
50836686 ATAATGTGAGAGGTGAGTTAAGTCTTAGGTCAC--GCTGAGGTA-TTTTCAA-TTTATGTTTTCA
65 ATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTTCAATTTTTTGTTTTTT
* * *
50836747 AAAAAAAAATTAACTCATAATCCGAGAGGTG
130 TAAAAAAAATCAACTCATAATGCGAGAGGTG
* * * *
50836778 AGTTGAGCCTCGAGTCA-A-GCTGATGTA-TTTTT-AATTTCTATTTTT
1 AGTTGAGCCTCGGGTCACATGCCGAGGTATTTTTTCAATTTCTGTTTTT
50836823 CAAGGGTCAA
Statistics
Matches: 596, Mismatches: 59, Indels: 66
0.83 0.08 0.09
Matches are distributed among these distances:
151 10 0.02
152 17 0.03
153 12 0.02
154 2 0.00
155 45 0.08
156 11 0.02
157 7 0.01
158 92 0.15
159 56 0.09
160 117 0.20
161 30 0.05
162 71 0.12
163 15 0.03
164 5 0.01
165 6 0.01
168 7 0.01
170 89 0.15
171 4 0.01
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.36
Consensus pattern (160 bp):
AGTTGAGCCTCGGGTCACATGCCGAGGTATTTTTTCAATTTCTGTTTTTTCAAAAAATCAACTCA
TAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTTCAATTTTTTGTTTTTTT
AAAAAAAATCAACTCATAATGCGAGAGGTG
Found at i:50836774 original size:77 final size:77
Alignment explanation
Indices: 50836589--50836786 Score: 224
Period size: 78 Copynumber: 2.6 Consensus size: 77
50836579 TTTCGTTTTT
* * *
50836589 TTTTTCAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCCCGGGTCACATGCCGAGGTATT
1 TTTTTCAAAAAATTAACTCATAATGCGAGAGGTGAGTTAAGCCCCAGGTCACA-GCCGAGGTATT
*
50836654 TTTCAATTTTCTG
65 TTTCAATTTTATG
* * ** *
50836667 TTTTTCAAAAAATTAACTCATAATGTGAGAGGTGAGTTAAGTCTTAGGTCAC-GCTGAGGTA-TT
1 TTTTTCAAAAAATTAACTCATAATGCGAGAGGTGAGTTAAGCCCCAGGTCACAGCCGAGGTATTT
50836730 TTCAA-TTTATG
66 TTCAATTTTATG
* *
50836741 -TTTTCAAAAAAAAAATTAACTCATAATCCGAGAGGTGAGTTGAGCC
1 TTTTTC----AAAAAATTAACTCATAATGCGAGAGGTGAGTTAAGCC
50836787 TCGAGTCAAG
Statistics
Matches: 103, Mismatches: 13, Indels: 9
0.82 0.10 0.07
Matches are distributed among these distances:
73 5 0.05
74 5 0.05
75 7 0.07
76 8 0.08
77 33 0.32
78 45 0.44
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.33
Consensus pattern (77 bp):
TTTTTCAAAAAATTAACTCATAATGCGAGAGGTGAGTTAAGCCCCAGGTCACAGCCGAGGTATTT
TTCAATTTTATG
Found at i:50837224 original size:29 final size:29
Alignment explanation
Indices: 50837177--50837306 Score: 129
Period size: 29 Copynumber: 4.4 Consensus size: 29
50837167 ACAAAAAATA
*** *
50837177 TAAATTACATTTTGGCCCCTGAACTTTTC
1 TAAATTACATTTCAACCCCTAAACTTTTC
*
50837206 TAAATTACATTTCAACCCCTAAACTATTC
1 TAAATTACATTTCAACCCCTAAACTTTTC
*
50837235 TAAATTACATTTCAACCTCTAAACTTTCTC
1 TAAATTACATTTCAACCCCTAAACTTT-TC
* * *
50837265 AAAATTTCACTTT-GACCCCTAAA-TTTTC
1 TAAATTACA-TTTCAACCCCTAAACTTTTC
50837293 TAGAAATTACATTT
1 T--AAATTACATTT
50837307 TAGCCCTATA
Statistics
Matches: 84, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
28 2 0.02
29 55 0.65
30 24 0.29
31 3 0.04
ACGTcount: A:0.33, C:0.24, G:0.04, T:0.39
Consensus pattern (29 bp):
TAAATTACATTTCAACCCCTAAACTTTTC
Found at i:50837320 original size:29 final size:29
Alignment explanation
Indices: 50837178--50837336 Score: 96
Period size: 29 Copynumber: 5.4 Consensus size: 29
50837168 CAAAAAATAT
* *
50837178 AAATTACATTTTGGCCCCTGAACTTTT-CT-
1 AAATTACATTTTAG-CCCT-AAATTTTCCTA
* * *
50837207 AAATTACATTTCAACCCCTAAACTATT-CT-
1 AAATTACATTT-TAGCCCTAAA-TTTTCCTA
* * *
50837236 AAATTACATTTCAACCTCTAAACTTT-CTCA
1 AAATTACATTTTAGCC-CTAAATTTTCCT-A
* * *
50837266 AAATTTCACTTTGACCCCTAAATTTT-CTA
1 AAATTACA-TTTTAGCCCTAAATTTTCCTA
*
50837295 GAAATTACATTTTAGCCCTATATTTTCCTA
1 -AAATTACATTTTAGCCCTAAATTTTCCTA
50837325 AAATTACATTTT
1 AAATTACATTTT
50837337 TACCCCAAAT
Statistics
Matches: 105, Mismatches: 17, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
28 9 0.09
29 63 0.60
30 27 0.26
31 6 0.06
ACGTcount: A:0.33, C:0.23, G:0.04, T:0.40
Consensus pattern (29 bp):
AAATTACATTTTAGCCCTAAATTTTCCTA
Found at i:50837772 original size:12 final size:13
Alignment explanation
Indices: 50837756--50837787 Score: 57
Period size: 12 Copynumber: 2.5 Consensus size: 13
50837746 AAAAAAAGCA
50837756 AAGAAGAAAGAAG
1 AAGAAGAAAGAAG
50837769 -AGAAGAAAGAAG
1 AAGAAGAAAGAAG
50837781 AAGAAGA
1 AAGAAGA
50837788 GATGAGGGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.67
13 6 0.33
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (13 bp):
AAGAAGAAAGAAG
Found at i:50837929 original size:32 final size:32
Alignment explanation
Indices: 50837893--50837957 Score: 89
Period size: 32 Copynumber: 2.0 Consensus size: 32
50837883 TCCAAAGAGG
*
50837893 AATAAGAAGAA-A-AATAGAAAGAAAAAAGAAAA
1 AATAAGAAGAAGAGAAAAG-AA-AAAAAAGAAAA
50837925 AATAAGAAGAAGAGAAAAGAAAAAAAAGAAAA
1 AATAAGAAGAAGAGAAAAGAAAAAAAAGAAAA
50837957 A
1 A
50837958 GGAAAAAAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
32 23 0.77
33 3 0.10
34 4 0.13
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.05
Consensus pattern (32 bp):
AATAAGAAGAAGAGAAAAGAAAAAAAAGAAAA
Found at i:50837942 original size:23 final size:23
Alignment explanation
Indices: 50837910--50837977 Score: 81
Period size: 23 Copynumber: 3.1 Consensus size: 23
50837900 AGAAAAATAG
*
50837910 AAAGAAAAAAGAAAAAATAAGAA
1 AAAGAGAAAAGAAAAAATAAGAA
*
50837933 GAAGAGAAAAGAAAAAA-AAGAA
1 AAAGAGAAAAGAAAAAATAAGAA
*
50837955 AAAG-GAAAA-AAAGAATAA-AA
1 AAAGAGAAAAGAAAAAATAAGAA
50837975 AAA
1 AAA
50837978 CAGCAGCAGC
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
20 10 0.25
21 7 0.17
22 8 0.20
23 15 0.38
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.03
Consensus pattern (23 bp):
AAAGAGAAAAGAAAAAATAAGAA
Found at i:50837953 original size:16 final size:15
Alignment explanation
Indices: 50837896--50837969 Score: 60
Period size: 15 Copynumber: 4.9 Consensus size: 15
50837886 AAAGAGGAAT
* * *
50837896 AAGAAGAAAAATAGA
1 AAGAAAAAAAAGAAA
*
50837911 AAGAAAAAAGA-AAA
1 AAGAAAAAAAAGAAA
* * *
50837925 AATAAGAAGAAGAGAA
1 AAGAAAAAAAAGA-AA
50837941 AAGAAAAAAAAGAAA
1 AAGAAAAAAAAGAAA
*
50837956 AAGGAAAAAAAGAA
1 AAGAAAAAAAAGAA
50837970 TAAAAAAACA
Statistics
Matches: 46, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
14 9 0.20
15 25 0.54
16 12 0.26
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (15 bp):
AAGAAAAAAAAGAAA
Found at i:50837969 original size:29 final size:30
Alignment explanation
Indices: 50837893--50837977 Score: 77
Period size: 30 Copynumber: 2.8 Consensus size: 30
50837883 TCCAAAGAGG
*
50837893 AATAAGAAGAAAAATAGAAAGAAAAAAGAAAA
1 AATAAGAA-AAAAAGA-AAAGAAAAAAGAAAA
* *
50837925 AATAAGAAGAAGAGAAAAGAAAAAA-AAGAA
1 AATAAGAAAAAAAGAAAAGAAAAAAGAA-AA
* *
50837955 AA-AGGAAAAAAAGAATA-AAAAAA
1 AATAAGAAAAAAAGAAAAGAAAAAA
50837978 CAGCAGCAGC
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
28 6 0.13
29 13 0.29
30 14 0.31
31 4 0.09
32 8 0.18
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.05
Consensus pattern (30 bp):
AATAAGAAAAAAAGAAAAGAAAAAAGAAAA
Found at i:50838190 original size:43 final size:43
Alignment explanation
Indices: 50838096--50838178 Score: 121
Period size: 43 Copynumber: 1.9 Consensus size: 43
50838086 CTCCAGCAGG
* ** *
50838096 CCCAGGCCCGTTCCAGCAGCAGGCTAGCACCCAGTCCATCAGT
1 CCCAGGCCCGTTCCAGCAGCAGGCCAGCACCCAACCCAACAGT
*
50838139 CCCAGGCCCGTTCCAGCAGCAGGCCAGCAGCCAACCCAAC
1 CCCAGGCCCGTTCCAGCAGCAGGCCAGCACCCAACCCAAC
50838179 GCCCAGCGGC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.23, C:0.45, G:0.23, T:0.10
Consensus pattern (43 bp):
CCCAGGCCCGTTCCAGCAGCAGGCCAGCACCCAACCCAACAGT
Found at i:50838227 original size:14 final size:13
Alignment explanation
Indices: 50838204--50838264 Score: 51
Period size: 12 Copynumber: 4.8 Consensus size: 13
50838194 CTGCAAAAAT
*
50838204 AAAAA-AAAGAGG
1 AAAAAGAAAAAGG
50838216 AAAAAG-AAAA-G
1 AAAAAGAAAAAGG
50838227 AAAAAGAAAAAAGG
1 AAAAAG-AAAAAGG
50838241 AAAAAAGAGAAAA-G
1 -AAAAAGA-AAAAGG
50838255 -AAAAGAAAAA
1 AAAAAGAAAAA
50838265 ACAAAAAGGC
Statistics
Matches: 42, Mismatches: 1, Indels: 13
0.75 0.02 0.23
Matches are distributed among these distances:
11 11 0.26
12 14 0.33
13 4 0.10
14 3 0.07
15 10 0.24
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAAAGG
Found at i:50838239 original size:7 final size:7
Alignment explanation
Indices: 50838222--50838271 Score: 52
Period size: 7 Copynumber: 7.4 Consensus size: 7
50838212 GAGGAAAAAG
50838222 AAAAG-A
1 AAAAGAA
50838228 AAAAGAA
1 AAAAGAA
50838235 AAAAGGAA
1 AAAA-GAA
*
50838243 AAAAGAG
1 AAAAGAA
50838250 AAAAG--
1 AAAAGAA
50838255 AAAAGAA
1 AAAAGAA
*
50838262 AAAACAA
1 AAAAGAA
50838269 AAA
1 AAA
50838272 GGCCCGAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
5 5 0.13
6 5 0.13
7 21 0.55
8 7 0.18
ACGTcount: A:0.82, C:0.02, G:0.16, T:0.00
Consensus pattern (7 bp):
AAAAGAA
Found at i:50838247 original size:15 final size:14
Alignment explanation
Indices: 50838222--50838271 Score: 52
Period size: 15 Copynumber: 3.7 Consensus size: 14
50838212 GAGGAAAAAG
50838222 AAAAG-AAAAAGAA
1 AAAAGAAAAAAGAA
*
50838235 AAAAGGAAAAAAGAG
1 AAAA-GAAAAAAGAA
50838250 AAAAG--AAAAGAA
1 AAAAGAAAAAAGAA
*
50838262 AAAACAAAAA
1 AAAAGAAAAA
50838272 GGCCCGAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
12 10 0.33
13 4 0.13
14 5 0.17
15 11 0.37
ACGTcount: A:0.82, C:0.02, G:0.16, T:0.00
Consensus pattern (14 bp):
AAAAGAAAAAAGAA
Found at i:50838608 original size:22 final size:22
Alignment explanation
Indices: 50838581--50838622 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
50838571 TGAAAATATT
50838581 AAAAAATTCTCGTGTTTTAAAA
1 AAAAAATTCTCGTGTTTTAAAA
50838603 AAAAAATTCTCGTGTTTTAA
1 AAAAAATTCTCGTGTTTTAA
50838623 TAGGATCACG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.38
Consensus pattern (22 bp):
AAAAAATTCTCGTGTTTTAAAA
Found at i:50838938 original size:35 final size:35
Alignment explanation
Indices: 50838867--50838940 Score: 89
Period size: 35 Copynumber: 2.1 Consensus size: 35
50838857 CTTAAAATTT
*
50838867 TTTTCGTGTTTTCAAAAAATGTTCCGTGTTTCAAA
1 TTTTCGTGTTTTCAAAAAATGTTCCGTATTTCAAA
* *
50838902 TTTTCGTGTTTT-TAGAAAT-TTCTCGTATTTCAAAA
1 TTTTCGTGTTTTCAAAAAATGTTC-CGTATTTC-AAA
50838937 TTTT
1 TTTT
50838941 TGACTTTTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
33 3 0.09
34 12 0.35
35 19 0.56
ACGTcount: A:0.24, C:0.12, G:0.12, T:0.51
Consensus pattern (35 bp):
TTTTCGTGTTTTCAAAAAATGTTCCGTATTTCAAA
Found at i:50839046 original size:17 final size:16
Alignment explanation
Indices: 50839024--50839089 Score: 53
Period size: 17 Copynumber: 3.9 Consensus size: 16
50839014 TTTTTTAAGA
50839024 AAAATTTTCGTGTTTC
1 AAAATTTTCGTGTTTC
*
50839040 TAAAATTCTTGCGT-TTTA
1 -AAAATT-TT-CGTGTTTC
**
50839058 AAAAAATTCGTGCTTTC
1 AAAATTTTCGTG-TTTC
50839075 AAAATTTTTCGTGTT
1 AAAA-TTTTCGTGTT
50839090 ATATAAAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
15 3 0.08
16 2 0.05
17 19 0.50
18 11 0.29
19 3 0.08
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.47
Consensus pattern (16 bp):
AAAATTTTCGTGTTTC
Found at i:50839068 original size:34 final size:34
Alignment explanation
Indices: 50839034--50839142 Score: 114
Period size: 34 Copynumber: 3.1 Consensus size: 34
50839024 AAAATTTTCG
*
50839034 TGTTTCTAAAATTCTTGCGTTT-TAAAAAAATTCG
1 TGTTTC-AAAATTCTTGCGTTTATAAAAAAATTCA
*
50839068 TGCTTTCAAAATT-TTTCGTGTTATATAAAAAATTCA
1 TG-TTTCAAAATTCTTGCGT-TTATA-AAAAAATTCA
* * * *
50839104 TATTTCAAAATTCTCGTGTTTAAAAAAAAATTCA
1 TGTTTCAAAATTCTTGCGTTTATAAAAAAATTCA
50839138 TGTTT
1 TGTTT
50839143 TAATCGGATC
Statistics
Matches: 62, Mismatches: 8, Indels: 10
0.77 0.10 0.12
Matches are distributed among these distances:
33 5 0.08
34 24 0.39
35 20 0.32
36 13 0.21
ACGTcount: A:0.36, C:0.11, G:0.09, T:0.44
Consensus pattern (34 bp):
TGTTTCAAAATTCTTGCGTTTATAAAAAAATTCA
Found at i:50839078 original size:18 final size:19
Alignment explanation
Indices: 50839041--50839078 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
50839031 TCGTGTTTCT
* *
50839041 AAAATTCTTGCGTTTTAAA
1 AAAATTCGTGCGTTTCAAA
50839060 AAAATTCGTGC-TTTCAAA
1 AAAATTCGTGCGTTTCAAA
50839078 A
1 A
50839079 TTTTTCGTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.39, C:0.13, G:0.11, T:0.37
Consensus pattern (19 bp):
AAAATTCGTGCGTTTCAAA
Found at i:50847106 original size:6 final size:6
Alignment explanation
Indices: 50847095--50847124 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
50847085 TGAGCTTTTT
50847095 AAAGCA AAAGCA AAAGCA AAAGCA AAAGCA
1 AAAGCA AAAGCA AAAGCA AAAGCA AAAGCA
50847125 GCAGCAGCAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.67, C:0.17, G:0.17, T:0.00
Consensus pattern (6 bp):
AAAGCA
Found at i:50848726 original size:23 final size:25
Alignment explanation
Indices: 50848668--50848728 Score: 76
Period size: 23 Copynumber: 2.6 Consensus size: 25
50848658 TATAGAAATG
50848668 TATAATAAAATAAAATAATAATACC
1 TATAATAAAATAAAATAATAATACC
* *
50848693 TA-AA-AACATAAAATAAT-AT-CT
1 TATAATAAAATAAAATAATAATACC
50848714 TATAATAAAATAAAA
1 TATAATAAAATAAAA
50848729 GGATCTATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
21 3 0.10
22 4 0.13
23 20 0.65
24 2 0.06
25 2 0.06
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.28
Consensus pattern (25 bp):
TATAATAAAATAAAATAATAATACC
Found at i:50848789 original size:3 final size:3
Alignment explanation
Indices: 50848781--50848829 Score: 53
Period size: 3 Copynumber: 16.0 Consensus size: 3
50848771 TATAAAAGAC
* * * *
50848781 TAA TAA TAA TAA CAA TAA TAA TAA TGAC TAA TAA AAA TAA TAA CAA
1 TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA
50848827 TAA
1 TAA
50848830 ATCAATTAAT
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
3 35 0.95
4 2 0.05
ACGTcount: A:0.65, C:0.06, G:0.02, T:0.27
Consensus pattern (3 bp):
TAA
Found at i:50853427 original size:44 final size:43
Alignment explanation
Indices: 50853356--50853458 Score: 161
Period size: 44 Copynumber: 2.3 Consensus size: 43
50853346 ATATATAAGC
*
50853356 AAATAAAGTTAAAGCATTCTTTTAAAATAATAACAAAAATATAAAT
1 AAATAAAG--AAAACATTCTTTTAAAATAATAACAAAAATAT-AAT
50853402 AAATAAAGAAAACATTCTTTTAAAATAATAACAAAAATATAAT
1 AAATAAAGAAAACATTCTTTTAAAATAATAACAAAAATATAAT
*
50853445 TAATAAAGAAAACA
1 AAATAAAGAAAACA
50853459 AACAAATATA
Statistics
Matches: 55, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
43 16 0.29
44 31 0.56
46 8 0.15
ACGTcount: A:0.62, C:0.07, G:0.04, T:0.27
Consensus pattern (43 bp):
AAATAAAGAAAACATTCTTTTAAAATAATAACAAAAATATAAT
Found at i:50853549 original size:24 final size:25
Alignment explanation
Indices: 50853496--50853552 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
50853486 AAGGATGTGT
* *
50853496 ATATATAAAGTTATAAAATAATATAC
1 ATATAT-AAGTTATAAAATAATAAAA
50853522 ATATATAAGTTATAAAAT-ATAAAA
1 ATATATAAGTTATAAAATAATAAAA
50853546 ATATATA
1 ATATATA
50853553 TAAGAATGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 11 0.38
25 12 0.41
26 6 0.21
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATATAAGTTATAAAATAATAAAA
Found at i:50853551 original size:26 final size:25
Alignment explanation
Indices: 50853495--50853556 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 25
50853485 AAAGGATGTG
* *
50853495 TATATATAAAGTTATAAAATAATATA
1 TATATAT-AAGTTATAAAATAAAAAA
*
50853521 CATATATAAGTTATAAAATATAAAAA
1 TATATATAAGTTATAAAATA-AAAAA
50853547 TATATATAAG
1 TATATATAAG
50853557 AATGTATGTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 13 0.42
26 18 0.58
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (25 bp):
TATATATAAGTTATAAAATAAAAAA
Found at i:50853701 original size:13 final size:13
Alignment explanation
Indices: 50853683--50853707 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50853673 AAAATGAGTA
50853683 AATAATAATAATC
1 AATAATAATAATC
50853696 AATAATAATAAT
1 AATAATAATAAT
50853708 ACAAGATTAA
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:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (13 bp):
AATAATAATAATC
Found at i:50854214 original size:25 final size:25
Alignment explanation
Indices: 50854186--50854241 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 25
50854176 AACGACGTCG
*
50854186 TTTTGCTTCCCTATTTAAACCAATA
1 TTTTCCTTCCCTATTTAAACCAATA
*
50854211 TTTTCCTTCCCTATTTAAACCAATT
1 TTTTCCTTCCCTATTTAAACCAATA
50854236 TTTTCC
1 TTTTCC
50854242 AAAAATTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.23, C:0.27, G:0.02, T:0.48
Consensus pattern (25 bp):
TTTTCCTTCCCTATTTAAACCAATA
Found at i:50855421 original size:88 final size:88
Alignment explanation
Indices: 50855313--50855505 Score: 296
Period size: 88 Copynumber: 2.2 Consensus size: 88
50855303 GACCTACTCT
* * *
50855313 ACTACTGCTTAGGCAGATAGGACTAACGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAG
1 ACTACTGCTTAGGGAGATAGGACTAACGACTTAAATCTGCTTCTCCACTATATTGGGAAGATAAG
* * **
50855378 CTTCACCATTTTTTATATGCTCC
66 ATTCACCATCTTCAATATGCTCC
*
50855401 ACTACTGCTTAGGGAGATAGGACTAATGACTTAAATCTGCTTCTCCACTATATTGGGAAGATAAG
1 ACTACTGCTTAGGGAGATAGGACTAACGACTTAAATCTGCTTCTCCACTATATTGGGAAGATAAG
* *
50855466 ATTCACTATCTTCAATCTGCTCC
66 ATTCACCATCTTCAATATGCTCC
50855489 ACTACTGCTTAGGGAGA
1 ACTACTGCTTAGGGAGA
50855506 CAGAATCTGC
Statistics
Matches: 95, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
88 95 1.00
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (88 bp):
ACTACTGCTTAGGGAGATAGGACTAACGACTTAAATCTGCTTCTCCACTATATTGGGAAGATAAG
ATTCACCATCTTCAATATGCTCC
Found at i:50855639 original size:46 final size:46
Alignment explanation
Indices: 50855605--50856059 Score: 658
Period size: 46 Copynumber: 9.9 Consensus size: 46
50855595 AACATTCACC
* * * * *
50855605 ATCTTCGATCTCTTCCGTTGCCAAATACATGAAGATAAGATCTGCT
1 ATCTTCGATCCCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
** *
50855651 ATCTTCGATCTTCTCCGCTGCCAAATACATGAAGACAAGATCTGCT
1 ATCTTCGATCCCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
**
50855697 ATCTTCGATCTTCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCCCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * * *
50855743 ATCTTTGATCCCCTTCGCTGCCAAATACACGAAGACAAGATCTGTT
1 ATCTTCGATCCCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* *
50855789 ATCTTCGATCCCCTCCGCTGCCAAATACAGGAAGATAAGATCTACT
1 ATCTTCGATCCCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
50855835 ATCTTCGATCCCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCCCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* *
50855881 ATCTTCGATCCCCTCTGCTGCCAATTACAGGAAGACAAGATCTGCT
1 ATCTTCGATCCCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * * *
50855927 ATCCTCGATCCCCTCCGTTGCCAAATATAGGAAGATAAGATCTGCT
1 ATCTTCGATCCCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * *
50855973 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGATAAGATCTTCT
1 ATCTTCGATCCCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * *
50856019 ATCTTCGATCTCCTCTGCTGCCAAATACAGGAAGATAAGAT
1 ATCTTCGATCCCCTCCGCTGCCAAATACAGGAAGACAAGAT
50856060 ATTCTGCTGC
Statistics
Matches: 376, Mismatches: 33, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 376 1.00
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (46 bp):
ATCTTCGATCCCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
Found at i:50855771 original size:138 final size:138
Alignment explanation
Indices: 50855605--50856368 Score: 1035
Period size: 138 Copynumber: 5.6 Consensus size: 138
50855595 AACATTCACC
* * * **
50855605 ATCTTCGATCT-CTTCCGTTGCCAAATACATGAAGATAAGATCTGCTATCTTCGATCTTCTCCGC
1 ATCTTCGATCTCCTT-CGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCCCCTCCGC
* *
50855669 TGCCAAATACATGAAGACAAGATCTGCTATCTTCGATCTTCTCCGCTGCCAAATACAGGAAGACA
65 TGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACA
50855734 AGATCTGCT
130 AGATCTGCT
* * * *
50855743 ATCTTTGATCCCCTTCGCTGCCAAATACACGAAGACAAGATCTGTTATCTTCGATCCCCTCCGCT
1 ATCTTCGATCTCCTTCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCCCCTCCGCT
* * *
50855808 GCCAAATACAGGAAGATAAGATCTACTATCTTCGATCCCCTCCGCTGCCAAATACAGGAAGACAA
66 GCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAA
50855873 GATCTGCT
131 GATCTGCT
* * * *
50855881 ATCTTCGATC-CCCTCTGCTGCCAATTACAGGAAGACAAGATCTGCTATCCTCGATCCCCTCCGT
1 ATCTTCGATCTCCTTC-GCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCCCCTCCGC
* * *
50855945 TGCCAAATATAGGAAGATAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGATA
65 TGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACA
*
50856010 AGATCTTCT
130 AGATCTGCT
*
50856019 ATCTTCGATCTCC-TCTGCTGCCAAATACAGGAAGATAAGA-----TA---T---T---CT--GC
1 ATCTTCGATCTCCTTC-GCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCCCCTCCGC
* *
50856067 TGCCAAATACAGGAAGATAAGATCCGCTATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACA
65 TGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACA
*
50856132 GGATTCTGCT
130 AGA-TCTGCT
* * *
50856142 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAGGATCTGCTATCTTCGATCTCCTCCGCT
1 ATCTTCGATCTCCTTCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCCCCTCCGCT
* *
50856207 GCCAAATACAGGAAGACAAGATCTGCTATCTTCGTTCTCCTTCGCTGCCAAATACAGGAAGACAA
66 GCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAA
50856272 GATCTGCT
131 GATCTGCT
* * *
50856280 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTACTATCTTCGATCCCCTCCGTT
1 ATCTTCGATCTCCTTCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCCCCTCCGCT
* *
50856345 GCTAAATGCAGGAAGACAAGATCT
66 GCCAAATACAGGAAGACAAGATCT
50856369 ATAACTTCGT
Statistics
Matches: 558, Mismatches: 47, Indels: 42
0.86 0.07 0.06
Matches are distributed among these distances:
122 65 0.12
123 40 0.07
124 3 0.01
127 1 0.00
128 2 0.00
130 1 0.00
131 1 0.00
133 2 0.00
134 1 0.00
137 6 0.01
138 366 0.66
139 70 0.13
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (138 bp):
ATCTTCGATCTCCTTCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCCCCTCCGCT
GCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAA
GATCTGCT
Found at i:50856068 original size:30 final size:30
Alignment explanation
Indices: 50856032--50856089 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
50856022 TTCGATCTCC
50856032 TCTGCTGCCAAATACAGGAAGATAAGATAT
1 TCTGCTGCCAAATACAGGAAGATAAGATAT
50856062 TCTGCTGCCAAATACAGGAAGATAAGAT
1 TCTGCTGCCAAATACAGGAAGATAAGAT
50856090 CCGCTATCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.22
Consensus pattern (30 bp):
TCTGCTGCCAAATACAGGAAGATAAGATAT
Found at i:50856115 original size:76 final size:76
Alignment explanation
Indices: 50855989--50856129 Score: 255
Period size: 76 Copynumber: 1.9 Consensus size: 76
50855979 GATCTCCTCC
** *
50855989 GCTGCCAAATACAGGAAGATAAGATCTTCTATCTTCGATCTCCTCTGCTGCCAAATACAGGAAGA
1 GCTGCCAAATACAGGAAGATAAGATCCGCTATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGA
50856054 TAAGATATTCT
66 TAAGATATTCT
50856065 GCTGCCAAATACAGGAAGATAAGATCCGCTATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGA
1 GCTGCCAAATACAGGAAGATAAGATCCGCTATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGA
50856130 CAGGATTCTG
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
76 62 1.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (76 bp):
GCTGCCAAATACAGGAAGATAAGATCCGCTATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGA
TAAGATATTCT
Found at i:50856369 original size:46 final size:46
Alignment explanation
Indices: 50856065--50856368 Score: 500
Period size: 46 Copynumber: 6.6 Consensus size: 46
50856055 AAGATATTCT
* *
50856065 GCTGCCAAATACAGGAAGATAAGATCCGCTATCTTCGATCTCCTCC
1 GCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTCCTCC
*
50856111 GCTGCCAAATACAGGAAGACAGGATTCTGCTATCTTCGATCTCCTCC
1 GCTGCCAAATACAGGAAGACAAGA-TCTGCTATCTTCGATCTCCTCC
*
50856158 GCTGCCAAATACAGGAAGACAGGATCTGCTATCTTCGATCTCCTCC
1 GCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTCCTCC
* *
50856204 GCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGTTCTCCTTC
1 GCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTCCTCC
50856250 GCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTCCTCC
1 GCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTCCTCC
* *
50856296 GCTGCCAAATACAGGAAGACAAGATCTACTATCTTCGATCCCCTCC
1 GCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTCCTCC
* * *
50856342 GTTGCTAAATGCAGGAAGACAAGATCT
1 GCTGCCAAATACAGGAAGACAAGATCT
50856369 ATAACTTCGT
Statistics
Matches: 244, Mismatches: 13, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
46 199 0.82
47 45 0.18
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.24
Consensus pattern (46 bp):
GCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTCCTCC
Found at i:50857468 original size:21 final size:21
Alignment explanation
Indices: 50857442--50857488 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
50857432 GGTATAGTAA
50857442 GATCACCACATGCCCCAATCT
1 GATCACCACATGCCCCAATCT
** *
50857463 GATCACTTCATGCCCCATTCT
1 GATCACCACATGCCCCAATCT
50857484 GATCA
1 GATCA
50857489 ATATTTGAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.26, C:0.38, G:0.11, T:0.26
Consensus pattern (21 bp):
GATCACCACATGCCCCAATCT
Found at i:50857597 original size:23 final size:23
Alignment explanation
Indices: 50857571--50857623 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
50857561 TTAGCCTCTC
**
50857571 CATTTTT-ACTTTTTCATTTTTTT
1 CATTTTTCACTTTTTC-TTTCATT
*
50857594 CATTTTTCATTTTTTCTTTCATT
1 CATTTTTCACTTTTTCTTTCATT
50857617 CATTTTT
1 CATTTTT
50857624 TATATATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 19 0.73
24 7 0.27
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.72
Consensus pattern (23 bp):
CATTTTTCACTTTTTCTTTCATT
Found at i:50857618 original size:16 final size:14
Alignment explanation
Indices: 50857571--50857624 Score: 63
Period size: 16 Copynumber: 3.6 Consensus size: 14
50857561 TTAGCCTCTC
*
50857571 CATTTTTACTTTTT
1 CATTTTTTCTTTTT
50857585 CATTTTTTTCATTTTT
1 CA-TTTTTTC-TTTTT
50857601 CATTTTTTCTTTCATT
1 CATTTTTTCTTT--TT
50857617 CATTTTTT
1 CATTTTTT
50857625 ATATATATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
14 5 0.14
15 13 0.37
16 17 0.49
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.72
Consensus pattern (14 bp):
CATTTTTTCTTTTT
Found at i:50858477 original size:9 final size:9
Alignment explanation
Indices: 50858463--50858507 Score: 56
Period size: 9 Copynumber: 5.0 Consensus size: 9
50858453 TTTGACTTTG
50858463 ATTTTTTTT
1 ATTTTTTTT
50858472 ATTTTTTTGT
1 ATTTTTTT-T
*
50858482 -TTTTTTTG
1 ATTTTTTTT
*
50858490 ATTTTTTTG
1 ATTTTTTTT
50858499 ATTTTTTTT
1 ATTTTTTTT
50858508 TAGTCTGAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
9 31 0.97
10 1 0.03
ACGTcount: A:0.09, C:0.00, G:0.07, T:0.84
Consensus pattern (9 bp):
ATTTTTTTT
Found at i:50858485 original size:18 final size:18
Alignment explanation
Indices: 50858459--50858509 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
50858449 AATTTTTGAC
*
50858459 TTTGATTTTTTTTATTTT
1 TTTGTTTTTTTTTATTTT
*
50858477 TTTGTTTTTTTTGATTTT
1 TTTGTTTTTTTTTATTTT
50858495 TTTGATTTTTTTTTA
1 TTTG-TTTTTTTTTA
50858510 GTCTGAACTC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
18 20 0.69
19 9 0.31
ACGTcount: A:0.10, C:0.00, G:0.08, T:0.82
Consensus pattern (18 bp):
TTTGTTTTTTTTTATTTT
Found at i:50860553 original size:19 final size:17
Alignment explanation
Indices: 50860531--50860573 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 17
50860521 GTGAAATTTG
50860531 ATGCATGCAATGAAATGCA
1 ATGCATGC-ATGAAATG-A
50860550 ATGCAGATGCATGAAATGA
1 ATGC--ATGCATGAAATGA
50860569 ATGCA
1 ATGCA
50860574 AAAAAGAGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
17 1 0.05
19 9 0.41
20 8 0.36
21 4 0.18
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (17 bp):
ATGCATGCATGAAATGA
Found at i:50862662 original size:24 final size:23
Alignment explanation
Indices: 50862611--50862665 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 23
50862601 AAGGATGTAT
* *
50862611 ATATATAAAGTTATAAAATAATAT
1 ATATAT-AAGTTATAAAATAAAAA
50862635 ATATATAAGTTATAAAATATAAAA
1 ATATATAAGTTATAAAATA-AAAA
50862659 ATATATA
1 ATATATA
50862666 TAAGTATGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 13 0.46
24 15 0.54
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (23 bp):
ATATATAAGTTATAAAATAAAAA
Found at i:50862662 original size:26 final size:23
Alignment explanation
Indices: 50862609--50862670 Score: 79
Period size: 26 Copynumber: 2.5 Consensus size: 23
50862599 AAAAGGATGT
*
50862609 ATATATATAAAGTTATAAAATAAT
1 ATATATAT-AAGTTATAAAATAAA
50862633 ATATATATAAGTTATAAAATATAAAA
1 ATATATATAAGTTAT-AAA-AT-AAA
50862659 ATATATATAAGT
1 ATATATATAAGT
50862671 ATGTATGTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
23 7 0.21
24 11 0.32
25 2 0.06
26 14 0.41
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (23 bp):
ATATATATAAGTTATAAAATAAA
Found at i:50862667 original size:28 final size:24
Alignment explanation
Indices: 50862608--50862653 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 24
50862598 TAAAAGGATG
50862608 TATATATATAAAGTTATAAAATAA
1 TATATATATAAAGTTATAAAATAA
50862632 TATATATAT-AAGTTATAAAATA
1 TATATATATAAAGTTATAAAATA
50862654 TAAAAATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 13 0.59
24 9 0.41
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (24 bp):
TATATATATAAAGTTATAAAATAA
Found at i:50862814 original size:13 final size:13
Alignment explanation
Indices: 50862796--50862820 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50862786 AAAATGAGTA
50862796 AATAATAATAATC
1 AATAATAATAATC
50862809 AATAATAATAAT
1 AATAATAATAAT
50862821 ACAAGATTAA
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:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (13 bp):
AATAATAATAATC
Found at i:50863665 original size:20 final size:19
Alignment explanation
Indices: 50863628--50863669 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
50863618 CGATATTTTG
*
50863628 AAATAAACAAAACAATAAA
1 AAATAAACAAAAAAATAAA
*
50863647 AAATAAATAAAAAATATAAA
1 AAATAAACAAAAAA-ATAAA
50863667 AAA
1 AAA
50863670 ATGATAAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.81, C:0.05, G:0.00, T:0.14
Consensus pattern (19 bp):
AAATAAACAAAAAAATAAA
Found at i:50869835 original size:114 final size:114
Alignment explanation
Indices: 50869557--50870220 Score: 906
Period size: 114 Copynumber: 5.8 Consensus size: 114
50869547 CCCAGAAAGT
* *
50869557 GCCGC-AAAATACCTAAGCCCAAACGACGCTGTTTTCTGAGCTTTCGGGGATTTAGCGGCGTTTT
1 GCCGCAAAAATACCTAAGCCC-AACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTT
* * * ***
50869621 TAAGGAAGCGCCGCTAATGTTCA-GGCTTTAGCGGCGTTTTTGATAAAGC
65 TAAGTAAGCGCCGCTAATGCTCAGGGCTTTAACGGCGTTTTTGGGGAAGC
* * *
50869670 TCCACAAAAA-ACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGTGGCTTTTTT
1 GCCGCAAAAATACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTTT
50869734 AAGTAAGCGCCGCTAATGCTCAGGGCTTTAACGGCGTTTTTGGGGAAGC
66 AAGTAAGCGCCGCTAATGCTCAGGGCTTTAACGGCGTTTTTGGGGAAGC
* *
50869783 GCCGCAAAAATACCTAAGCCCAACGACGCTGTTTTCTGAGCTTTCGGGGATTTAGTGGCATTTTT
1 GCCGCAAAAATACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTTT
*
50869848 AAGTAAGCGCCGCTAATGCTCAGGGCTTTATCGGCGTTTTT-GGGAAGGC
66 AAGTAAGCGCCGCTAATGCTCAGGGCTTTAACGGCGTTTTTGGGGAA-GC
* * * * *
50869897 ACCGCAAAAATACCTAAGCCCAACGACACCGTTTACTGAGCTTTTGGGGATTTAGTAGCGTTTTT
1 GCCGCAAAAATACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTTT
* *
50869962 AAGTAAGCGCCGCTAATGCTCAAGGCTTTATCGGCGTTTTT-GGGAAGGC
66 AAGTAAGCGCCGCTAATGCTCAGGGCTTTAACGGCGTTTTTGGGGAA-GC
* * * * *
50870011 TCCGCAAAAATACCTAAGCCCAACGATGCTGTTTACTGAGCTTTCGGGGATTTAGTGGAGTTTTT
1 GCCGCAAAAATACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTTT
* * * *
50870076 ATGTAAGCGCCGCTAATGCTCAGGTCTTTAGCGGCGTTTTTGGGAAAGC
66 AAGTAAGCGCCGCTAATGCTCAGGGCTTTAACGGCGTTTTTGGGGAAGC
* * * **
50870125 GCCGCAAAAATACTTCAGCCCAACGACGCCGTTTTTTGAGCTTTCGGGGATTTAGTGGCGTTCGT
1 GCCGCAAAAATACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTTT
* ** * *
50870190 ATGTAAGCGCTACTAATACTCAGGGATTTAA
66 AAGTAAGCGCCGCTAATGCTCAGGGCTTTAA
50870221 AATAATTTAA
Statistics
Matches: 494, Mismatches: 52, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
112 61 0.12
113 48 0.10
114 381 0.77
115 4 0.01
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.29
Consensus pattern (114 bp):
GCCGCAAAAATACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTTT
AAGTAAGCGCCGCTAATGCTCAGGGCTTTAACGGCGTTTTTGGGGAAGC
Found at i:50871706 original size:4 final size:4
Alignment explanation
Indices: 50871697--50871759 Score: 126
Period size: 4 Copynumber: 15.8 Consensus size: 4
50871687 AACTGCATAA
50871697 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
50871745 TATG TATG TATG TAT
1 TATG TATG TATG TAT
50871760 ATATATATAT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 59 1.00
ACGTcount: A:0.25, C:0.00, G:0.24, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:50872502 original size:18 final size:19
Alignment explanation
Indices: 50872479--50872522 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
50872469 CAGAAATTTC
*
50872479 TGTTTCTCTAGCA-TGTTA
1 TGTTTCTCTACCATTGTTA
* *
50872497 TGTTTCTGTACCATTTTTA
1 TGTTTCTCTACCATTGTTA
50872516 TGTTTCT
1 TGTTTCT
50872523 TTATTTTCTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.14, C:0.16, G:0.14, T:0.57
Consensus pattern (19 bp):
TGTTTCTCTACCATTGTTA
Found at i:50872538 original size:7 final size:7
Alignment explanation
Indices: 50872526--50872563 Score: 58
Period size: 7 Copynumber: 5.3 Consensus size: 7
50872516 TGTTTCTTTA
50872526 TTTTCTG
1 TTTTCTG
50872533 TTTTCTG
1 TTTTCTG
50872540 TTTTCTG
1 TTTTCTG
*
50872547 TTTTGCTA
1 TTTT-CTG
50872555 TTTTCTG
1 TTTTCTG
50872562 TT
1 TT
50872564 GAATGAAGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
7 22 0.79
8 6 0.21
ACGTcount: A:0.03, C:0.13, G:0.13, T:0.71
Consensus pattern (7 bp):
TTTTCTG
Found at i:50872545 original size:14 final size:15
Alignment explanation
Indices: 50872524--50872563 Score: 64
Period size: 14 Copynumber: 2.7 Consensus size: 15
50872514 TATGTTTCTT
50872524 TATTTTCTGTTTT-C
1 TATTTTCTGTTTTGC
*
50872538 TGTTTTCTGTTTTGC
1 TATTTTCTGTTTTGC
50872553 TATTTTCTGTT
1 TATTTTCTGTT
50872564 GAATGAAGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.05, C:0.12, G:0.12, T:0.70
Consensus pattern (15 bp):
TATTTTCTGTTTTGC
Found at i:50873127 original size:45 final size:43
Alignment explanation
Indices: 50873032--50873127 Score: 99
Period size: 45 Copynumber: 2.2 Consensus size: 43
50873022 TATAATTTTT
* *
50873032 TAAAATTT--ATATCTTACATTACTTAAATAAATATTTTTAAG
1 TAAAATTTACATATCTTACATTACATAAATAAATATTTTTAAC
* * *
50873073 TATATTTTACATATCTTACATTA-ATAAATAAAACATATTTTTTAC
1 TAAAATTTACATATCTTACATTACATAAAT--AA-ATATTTTTAAC
50873118 TAAAATTTAC
1 TAAAATTTAC
50873128 TCTTAATATA
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
41 6 0.14
42 5 0.12
43 13 0.30
44 2 0.05
45 17 0.40
ACGTcount: A:0.44, C:0.09, G:0.01, T:0.46
Consensus pattern (43 bp):
TAAAATTTACATATCTTACATTACATAAATAAATATTTTTAAC
Found at i:50873150 original size:13 final size:13
Alignment explanation
Indices: 50873132--50873289 Score: 106
Period size: 13 Copynumber: 12.0 Consensus size: 13
50873122 ATTTACTCTT
*
50873132 AATATATTACTTG
1 AATATATTACTTA
50873145 AATATATTACTTA
1 AATATATTACTTA
*
50873158 AATAAATTACTTA
1 AATATATTACTTA
*
50873171 AATACATTACTTA
1 AATATATTACTTA
* **
50873184 CTAAAAT-TTTGTTA
1 --AATATATTACTTA
*
50873198 AATTTATTACTTA
1 AATATATTACTTA
*
50873211 AATATGTTACTTA
1 AATATATTACTTA
*
50873224 AATACATTACTTA
1 AATATATTACTTA
* ** *
50873237 CTAAAAT-TTGGTCA
1 --AATATATTACTTA
*
50873251 AA-ATTTTTACTTA
1 AATA-TATTACTTA
*
50873264 AATATGTTACTTA
1 AATATATTACTTA
*
50873277 AATACATTACTTA
1 AATATATTACTTA
50873290 CTAAAATTTA
Statistics
Matches: 111, Mismatches: 26, Indels: 16
0.73 0.17 0.10
Matches are distributed among these distances:
11 1 0.01
12 6 0.05
13 88 0.79
14 10 0.09
15 6 0.05
ACGTcount: A:0.42, C:0.10, G:0.04, T:0.44
Consensus pattern (13 bp):
AATATATTACTTA
Found at i:50873207 original size:53 final size:54
Alignment explanation
Indices: 50873149--50873298 Score: 250
Period size: 53 Copynumber: 2.8 Consensus size: 54
50873139 TACTTGAATA
** * *
50873149 TATTACTTAAATAAATTACTTAAATACATTACTTACTAAAATTTTGT-TAAATT
1 TATTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTTGGTCAAAATT
50873202 TATTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTTGGTCAAAATT
1 TATTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTTGGTCAAAATT
50873256 T-TTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTT
1 TATTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTT
50873299 AAGTATATAT
Statistics
Matches: 92, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
53 86 0.93
54 6 0.07
ACGTcount: A:0.41, C:0.11, G:0.03, T:0.45
Consensus pattern (54 bp):
TATTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTTGGTCAAAATT
Found at i:50875601 original size:21 final size:21
Alignment explanation
Indices: 50875557--50875601 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
50875547 GTACAACTTA
*
50875557 AAGCAGAGGCGGCAACGAGGG
1 AAGCAGAGGCGGCAACGAGAG
* * *
50875578 AAGCAGAGGCTGCAGCGCGAG
1 AAGCAGAGGCGGCAACGAGAG
50875599 AAG
1 AAG
50875602 TAGCGAGAGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.20, G:0.44, T:0.02
Consensus pattern (21 bp):
AAGCAGAGGCGGCAACGAGAG
Found at i:50876097 original size:43 final size:41
Alignment explanation
Indices: 50876050--50876258 Score: 249
Period size: 42 Copynumber: 5.0 Consensus size: 41
50876040 TTCGTGATGA
* *
50876050 AAGCGCCGCTAAAGAACATGATCTATAGCGGCGTTTTTTTACC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT--T
* * *
50876093 AAGCGCCGCTAAAGAACATTATCTTTAGCAGAGTTTTTCTTT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTT-TTT
* * *
50876135 AAGCGCCGCTAAAGAACATTATCTTTAGCGGTGATTTTTTGT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTTTT
* * *
50876177 AACCGCCGCTAAAGATA-ATGTTCTTTAGCGGCATCTTTTTTT
1 AAGCGCCGCTAAAGA-ACATGATCTTTAGCGGCGT-TTTTTTT
*
50876219 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT
50876259 CTGTAAACGC
Statistics
Matches: 144, Mismatches: 17, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
41 8 0.06
42 94 0.65
43 40 0.28
44 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (41 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTT
Found at i:50878571 original size:9 final size:9
Alignment explanation
Indices: 50878557--50878593 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
50878547 TATAGTTTAA
50878557 TATTCGAAT
1 TATTCGAAT
50878566 TATTCGAAT
1 TATTCGAAT
*
50878575 TATTCGAGT
1 TATTCGAAT
50878584 TATTCGAAT
1 TATTCGAAT
50878593 T
1 T
50878594 CGAAAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:50878631 original size:9 final size:9
Alignment explanation
Indices: 50878614--50878653 Score: 62
Period size: 9 Copynumber: 4.4 Consensus size: 9
50878604 TCGAGTTGAT
50878614 TCGAATAAC
1 TCGAATAAC
*
50878623 TCGATTAAC
1 TCGAATAAC
50878632 TCGAATAAC
1 TCGAATAAC
*
50878641 TTGAATAAC
1 TCGAATAAC
50878650 TCGA
1 TCGA
50878654 TTCGTTTAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.40, C:0.20, G:0.12, T:0.28
Consensus pattern (9 bp):
TCGAATAAC
Found at i:50879060 original size:25 final size:25
Alignment explanation
Indices: 50879032--50879080 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
50879022 ATTTTTCTGG
50879032 TGAGTTTTTGAT-AATTTAAACTGAT
1 TGAGTTTTTGATAAATTT-AACTGAT
*
50879057 TGAGTTTTTGGTAAATTTAACTGA
1 TGAGTTTTTGATAAATTTAACTGA
50879081 ATTTAAATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.31, C:0.04, G:0.18, T:0.47
Consensus pattern (25 bp):
TGAGTTTTTGATAAATTTAACTGAT
Found at i:50883256 original size:14 final size:14
Alignment explanation
Indices: 50883173--50883266 Score: 66
Period size: 14 Copynumber: 6.6 Consensus size: 14
50883163 TCAGGTACAA
*
50883173 GTTT-GGGTTTAGG
1 GTTTAGGGTTTAAG
* *
50883186 GTTTAGTGTTTATG
1 GTTTAGGGTTTAAG
*
50883200 ATTTTAGGGTTTAAG
1 -GTTTAGGGTTTAAG
*
50883215 GTTTTAAGGTTTAGAG
1 G-TTTAGGGTTTA-AG
* ** *
50883231 TTTTA-GAATTAAT
1 GTTTAGGGTTTAAG
50883244 GTTTAGGGTTTAAG
1 GTTTAGGGTTTAAG
50883258 GTTTAGGGT
1 GTTTAGGGT
50883267 AAATAATTTA
Statistics
Matches: 61, Mismatches: 15, Indels: 9
0.72 0.18 0.11
Matches are distributed among these distances:
13 9 0.15
14 25 0.41
15 25 0.41
16 2 0.03
ACGTcount: A:0.21, C:0.00, G:0.31, T:0.48
Consensus pattern (14 bp):
GTTTAGGGTTTAAG
Found at i:50883700 original size:7 final size:7
Alignment explanation
Indices: 50883688--50883749 Score: 54
Period size: 7 Copynumber: 8.9 Consensus size: 7
50883678 CCTTGAATCC
50883688 TAAACCT
1 TAAACCT
*
50883695 TAAACCA
1 TAAACCT
50883702 TAAA-CT
1 TAAACCT
50883708 CTAAACCT
1 -TAAACCT
*
50883716 TAAATCT
1 TAAACCT
* *
50883723 AAAATCT
1 TAAACCT
*
50883730 TAAACCC
1 TAAACCT
*
50883737 TAAACCC
1 TAAACCT
50883744 TAAACC
1 TAAACC
50883750 ATAAGCTTTA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
6 1 0.02
7 43 0.93
8 2 0.04
ACGTcount: A:0.47, C:0.29, G:0.00, T:0.24
Consensus pattern (7 bp):
TAAACCT
Found at i:50883711 original size:21 final size:20
Alignment explanation
Indices: 50883687--50883748 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 20
50883677 ACCTTGAATC
50883687 CTAAACCTTAAACCATAAACT
1 CTAAACCTTAAACC-TAAACT
* *
50883708 CTAAACCTTAAATCTAAAAT
1 CTAAACCTTAAACCTAAACT
*
50883728 CTTAAACCCTAAACCCTAAAC
1 C-TAAACCTTAAA-CCTAAAC
50883749 CATAAGCTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
20 6 0.18
21 23 0.68
22 5 0.15
ACGTcount: A:0.47, C:0.29, G:0.00, T:0.24
Consensus pattern (20 bp):
CTAAACCTTAAACCTAAACT
Found at i:50883716 original size:35 final size:35
Alignment explanation
Indices: 50883676--50883749 Score: 96
Period size: 35 Copynumber: 2.1 Consensus size: 35
50883666 TCAAAATTAT
* *
50883676 AACCTTGAATCCT-AAACCTTAAACCATAAACTCTA
1 AACCTTAAAT-CTAAAACCTTAAACCATAAACCCTA
* *
50883711 AACCTTAAATCTAAAATCTTAAACCCTAAACCCTA
1 AACCTTAAATCTAAAACCTTAAACCATAAACCCTA
50883746 AACC
1 AACC
50883750 ATAAGCTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
34 2 0.06
35 32 0.94
ACGTcount: A:0.45, C:0.30, G:0.01, T:0.24
Consensus pattern (35 bp):
AACCTTAAATCTAAAACCTTAAACCATAAACCCTA
Found at i:50884143 original size:61 final size:61
Alignment explanation
Indices: 50884068--50884205 Score: 258
Period size: 61 Copynumber: 2.3 Consensus size: 61
50884058 ATAAACCATA
*
50884068 AACCATAAACCCTAAAACCTTAAACACAAACTTAAACTCAAACCCATAACATTGAATCTTG
1 AACCCTAAACCCTAAAACCTTAAACACAAACTTAAACTCAAACCCATAACATTGAATCTTG
50884129 AACCCTAAACCCTAAAACCTTAAACACAAACTTAAACTCAAACCCATAACATTGAATCTTG
1 AACCCTAAACCCTAAAACCTTAAACACAAACTTAAACTCAAACCCATAACATTGAATCTTG
*
50884190 AACCCTAAACCTTAAA
1 AACCCTAAACCCTAAA
50884206 TCTAAAATCT
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 75 1.00
ACGTcount: A:0.47, C:0.29, G:0.03, T:0.21
Consensus pattern (61 bp):
AACCCTAAACCCTAAAACCTTAAACACAAACTTAAACTCAAACCCATAACATTGAATCTTG
Found at i:50884207 original size:21 final size:20
Alignment explanation
Indices: 50884086--50884208 Score: 65
Period size: 21 Copynumber: 6.1 Consensus size: 20
50884076 ACCCTAAAAC
*
50884086 CTTAAACACAAA-CTTAAA-
1 CTTAAACCCAAACCTTAAAT
* * *
50884104 CTCAAACCCATAACATTGAAT
1 CTTAAACCCA-AACCTTAAAT
* * *
50884125 CTTGAACCCTAAACCCTAAAAC
1 CTTAAACCC-AAA-CCTTAAAT
*
50884147 CTTAAACACAAA-CTTAAA-
1 CTTAAACCCAAACCTTAAAT
* * *
50884165 CTCAAACCCATAACATTGAAT
1 CTTAAACCCA-AACCTTAAAT
*
50884186 CTTGAACCCTAAACCTTAAAT
1 CTTAAACCC-AAACCTTAAAT
50884207 CT
1 CT
50884209 AAAATCTTGA
Statistics
Matches: 75, Mismatches: 21, Indels: 15
0.68 0.19 0.14
Matches are distributed among these distances:
18 16 0.21
19 9 0.12
20 8 0.11
21 29 0.39
22 13 0.17
ACGTcount: A:0.45, C:0.28, G:0.03, T:0.24
Consensus pattern (20 bp):
CTTAAACCCAAACCTTAAAT
Found at i:50884214 original size:28 final size:29
Alignment explanation
Indices: 50884183--50884240 Score: 91
Period size: 28 Copynumber: 2.0 Consensus size: 29
50884173 CATAACATTG
*
50884183 AATCTTGAACCCTAAACCTTAAA-TCTAA
1 AATCTTGAACCCTAAACCCTAAACTCTAA
*
50884211 AATCTTGAACCTTAAACCCTAAACTCTAA
1 AATCTTGAACCCTAAACCCTAAACTCTAA
50884240 A
1 A
50884241 CCCTAAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 21 0.78
29 6 0.22
ACGTcount: A:0.43, C:0.26, G:0.03, T:0.28
Consensus pattern (29 bp):
AATCTTGAACCCTAAACCCTAAACTCTAA
Found at i:50884219 original size:35 final size:36
Alignment explanation
Indices: 50884179--50884270 Score: 109
Period size: 35 Copynumber: 2.6 Consensus size: 36
50884169 AACCCATAAC
*
50884179 ATTGAATCTTGAACCCTAAACCT-TAAA-TCTAAAAT
1 ATTGAATCTTGAACCCTAAACCTCTAAACCCT-AAAT
* * *
50884214 CTTGAACCTTAAACCCTAAA-CTCTAAACCCTAAAT
1 ATTGAATCTTGAACCCTAAACCTCTAAACCCTAAAT
*
50884249 ATAGAATCTTGAACCCTAAACC
1 ATTGAATCTTGAACCCTAAACC
50884271 CAAAACATAA
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
34 2 0.04
35 41 0.89
36 3 0.07
ACGTcount: A:0.41, C:0.26, G:0.05, T:0.27
Consensus pattern (36 bp):
ATTGAATCTTGAACCCTAAACCTCTAAACCCTAAAT
Found at i:50884221 original size:21 final size:21
Alignment explanation
Indices: 50884197--50884268 Score: 65
Period size: 21 Copynumber: 3.4 Consensus size: 21
50884187 TTGAACCCTA
*
50884197 AACCTTAAATCTAAAATCTTG
1 AACCCTAAATCTAAAATCTTG
* * * *
50884218 AACCTTAAACCCTAAACTC-TA
1 AACCCTAAA-TCTAAAATCTTG
* *
50884239 AACCCTAAATATAGAATCTTG
1 AACCCTAAATCTAAAATCTTG
50884260 AACCCTAAA
1 AACCCTAAA
50884269 CCCAAAACAT
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
20 5 0.12
21 28 0.70
22 7 0.17
ACGTcount: A:0.44, C:0.25, G:0.04, T:0.26
Consensus pattern (21 bp):
AACCCTAAATCTAAAATCTTG
Found at i:50884241 original size:42 final size:42
Alignment explanation
Indices: 50884194--50884276 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 42
50884184 ATCTTGAACC
* * * *
50884194 CTAAACCTTAAATCTAAAATCTTGAACCTTAAACCCTAAACT
1 CTAAACCCTAAATATAAAATCTTGAACCCTAAACCCAAAACT
*
50884236 CTAAACCCTAAATATAGAATCTTGAACCCTAAACCCAAAAC
1 CTAAACCCTAAATATAAAATCTTGAACCCTAAACCCAAAAC
50884277 ATAAAAGCTC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.45, C:0.28, G:0.04, T:0.24
Consensus pattern (42 bp):
CTAAACCCTAAATATAAAATCTTGAACCCTAAACCCAAAACT
Found at i:50884354 original size:14 final size:13
Alignment explanation
Indices: 50884335--50884379 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 13
50884325 CTAGAATCTC
50884335 AAACCCTAAACTAT
1 AAACCCTAAACT-T
50884349 AAACCCTAAACCTT
1 AAACCCTAAA-CTT
50884363 AAACCC-AAACTCT
1 AAACCCTAAACT-T
50884376 AAAC
1 AAAC
50884380 TCGTACCTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
12 2 0.07
13 8 0.28
14 17 0.59
15 2 0.07
ACGTcount: A:0.49, C:0.33, G:0.00, T:0.18
Consensus pattern (13 bp):
AAACCCTAAACTT
Found at i:50884490 original size:15 final size:13
Alignment explanation
Indices: 50884455--50884493 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
50884445 TAAACCCTTG
50884455 AACCTTAAACCAA
1 AACCTTAAACCAA
*
50884468 AACCTTAAAGCCCA
1 AACCTTAAA-CCAA
50884482 AACCGTTAAACC
1 AACC-TTAAACC
50884494 CTAAACATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 9 0.39
14 9 0.39
15 5 0.22
ACGTcount: A:0.46, C:0.33, G:0.05, T:0.15
Consensus pattern (13 bp):
AACCTTAAACCAA
Found at i:50884499 original size:15 final size:14
Alignment explanation
Indices: 50884440--50884499 Score: 52
Period size: 15 Copynumber: 4.2 Consensus size: 14
50884430 CCAAACTCAT
* *
50884440 AACCCTAAACCCTTG
1 AACCTTAAACCC-TA
*
50884455 AACCTTAAA-CCAA
1 AACCTTAAACCCTA
50884468 AACCTTAAAGCCC-A
1 AACCTTAAA-CCCTA
50884482 AACCGTTAAACCCTA
1 AACC-TTAAACCCTA
50884497 AAC
1 AAC
50884500 ATAAGCATTG
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
13 9 0.24
14 10 0.26
15 19 0.50
ACGTcount: A:0.43, C:0.35, G:0.05, T:0.17
Consensus pattern (14 bp):
AACCTTAAACCCTA
Found at i:50884591 original size:13 final size:13
Alignment explanation
Indices: 50884573--50884611 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
50884563 AAACCTCAGG
50884573 GTTTAAGGTTTGA
1 GTTTAAGGTTTGA
*
50884586 GTTTAAGATTTGA
1 GTTTAAGGTTTGA
*
50884599 GATTTTAGGTTTG
1 G-TTTAAGGTTTG
50884612 GGGTTCAGGG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.49
Consensus pattern (13 bp):
GTTTAAGGTTTGA
Done.