Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 131 of 199
Found at i:37994477 original size:44 final size:44
Alignment explanation
Indices: 37994424--37994545 Score: 158
Period size: 44 Copynumber: 2.8 Consensus size: 44
37994414 TAGCTTCAGT
37994424 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCATA-TTCAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTG-ATACTTCAAC
* ** *
37994468 CTGCCCCACTGCAACTTCAAGGG-GATAAGGTTTGTTACTTCAAC
1 CTGCTCCACTGCAACTTC-AGGGAGATAAGACTTGATACTTCAAC
* *
37994512 CTGCTCTACTGCAACTTCAGAGAGATAAGACTTG
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTG
37994546 TAGCATGTGT
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
43 5 0.08
44 57 0.86
45 4 0.06
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (44 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGATACTTCAAC
Found at i:37994983 original size:51 final size:51
Alignment explanation
Indices: 37994887--37995005 Score: 143
Period size: 51 Copynumber: 2.4 Consensus size: 51
37994877 ATCTACTCCG
* *
37994887 CTTTAGCTTTAATCTATTCCATAGCAACGCTAGGGAAACAAGATTCGCTAC
1 CTTTAGCTTTAATCTATTCCATAGCAACGCCAGAGAAACAAGATTCGCTAC
* * * * *
37994938 CTTTAGCTTTAATCTGTTCCATTGCCACGCCAGAGAAATATGATTCGCTA-
1 CTTTAGCTTTAATCTATTCCATAGCAACGCCAGAGAAACAAGATTCGCTAC
*
37994988 -TTGTAGCTTCAATCTATT
1 CTT-TAGCTTTAATCTATT
37995006 TAACTGTAAT
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
49 2 0.03
50 13 0.22
51 43 0.74
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (51 bp):
CTTTAGCTTTAATCTATTCCATAGCAACGCCAGAGAAACAAGATTCGCTAC
Found at i:37995033 original size:50 final size:50
Alignment explanation
Indices: 37994979--37998256 Score: 2635
Period size: 50 Copynumber: 65.6 Consensus size: 50
37994969 AGAGAAATAT
* * * *
37994979 GATTCGCTATTGTAGCTTCAATCTATTTAACTGTAATGTCGGGGAAGCAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* *** * ** * ***
37995029 GATTCGCTGTTGTAGCTTCAATCAATCCCACTGTACCGCCAAAAAAGTAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* *
37995079 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* * ** * **
37995129 GATTCACTGTTGTAGCTTCAATCTGTTCCACTACACCG-CTAGGGAAGTAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTC-AGGGAAGTAA
* * *
37995179 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAG
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* * * * * * ** ** * *
37995229 GATTCACTATTATAGCTTAAATATGTTCCACTGCACCGCCAAGGAAGTAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* * * *
37995279 GATTCGCTGTTGTAGTTTCAATCTATTTAACTACAATTTCGGGGAAGTAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
** * * ** *
37995329 GATTCGCTGTTGTAGCTTCAATCTATTCCATTACACCGCCAGGGAAGTAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* * * ** *
37995379 GATTCACAGTTGTAACTTCAATCTATTTAACTGCAATGTGGGGGAAGCAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* * ** * ** * *
37995429 GATTCGCTGTTGTAGCTTCTATCTGTTCCACTACACCGCCAGAGAAGTAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* * * *
37995479 GATTCGTTGTTGTAGCTTCAATCTATTTAACTACAATGTCAGGAAAGCAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* ** ** * *
37995529 GATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGAGGTAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* ** *
37995579 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATATTGGGGAAGCAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* * ** * ** *
37995629 GATTTGCTGTTGTAGCTTCAATCCATTCGACTACACCGCCTA-GGAAGTAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTC-AGGGAAGTAA
** * * * *
37995679 GATTCATTGTTATAGTTTCAATCTATTTAACTGCAATGTCGGGGAAGCAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
*** * ** *
37995729 GATTTATTGTTGTAGCTTCAATCTGTTCCACTGC-ATCGCCAGGGAAGTAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAAT-GTCAGGGAAGTAA
** *
37995779 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTTGGGGAAGCAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* *** ** * *
37995829 GATTCGCTGTTGTACCTTCAATCTATCCCACTGCACCGCCAAGGAAGTAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
*** ** *
37995879 GATTCGCTGTTGTAGCTTCAATCTATCCCACTGCACCG-CTAAGGAAGTAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTC-AGGGAAGTAA
** * * *
37995929 GATTTACTGTTGTAGCTTCAATCTATTTAATTGCAATGTCGGGGAAGAAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* * ** ** * *
37995979 GATTCACTATTGTAGCTTCAATCTATTCCACTGCACCGCCAAGGAAGTAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* * *
37996029 GATTCGCTGTTGTAGCTTCAATCTATTTAATTGCAATGTCGGGGAAGCAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* * ** ** * *
37996079 GATTCACTATTGTAGCTTCAATCTATTCCACTGCACCGCCAAGGAAGTAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* * * *
37996129 GATTCGTTGTTGTAGCTTCAATCTATTTAATTGCAATGTCGGGGAAGCAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
** * * ** ** * *
37996179 GATTAACTATTGTAGCTTCAATCTGTTCCACTGCACCGGCAGGGAGGTAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* * * * * * ** *
37996229 GATTTGCTATTGTAGCTTTAGTCTATTTAACTGGAATTTTGGGGAAGCAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* * * ** * ** *
37996279 GATTTGTTGTTGTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* *
37996329 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* * * ** * * *
37996379 GATTCACTGTTGTAGCTTCAATATGTTCCACTACACTGCCAGGGAAGTAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* * * *
37996429 GATTCGTTGTTGTAGCTTCAATCTATTTAACTGTAATGTCGGGGAAGCAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* *** * ** * **
37996479 GATTCGCTGTTGTAGCTTCAATCAATCCCACTGTACCGCCAAAGAAGTAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* * * *
37996529 GATTCACTGTTGCAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* ** * **
37996579 GATTCACTGTTGTAGCTTCAATCTATTCCA-TCCCACCG-CGAGGGAAGTAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACT-GCAATGTC-AGGGAAGTAA
* * *
37996629 GATTCACTGTTGTAGCTTCAATCGATTTAACTGCAATGTTAGGGAA-TCAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGT-AA
* * * * *
37996679 GATTCACTGTTGTAGCTTCAATCTGTTCCACTACCGC-A-CT-AGGGAAGTAA
1 GATTCGCTGTTGTAGCTTCAATCTATT-TA--ACTGCAATGTCAGGGAAGTAA
* * * * * *
37996729 GATTCACTGTTGTAACTTCAATCTATCTAACTTCAATGT-TGGTGAAGCAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGG-GAAGTAA
* * * * *
37996779 GATTCGTTGTTGTAGCTTCAATCTGTTTGACTACACTGTCAGGGAAGTAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* * * *
37996829 GATTCGCTGTTGTAGCTTCAATTTATTTAATTGCAATGTCGGGGAAGCAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* * ** * ** *
37996879 GATTCACTGTTGTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* *
37996929 GAGTCACTCGTTGTAGCTTCAATCTATTTAACTGCAATGTC-GGAGAAGTAA
1 GATTCGCT-GTTGTAGCTTCAATCTATTTAACTGCAATGTCAGG-GAAGTAA
* ** ** * *
37996980 GATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAAGGAAGTAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* * * *
37997030 GATTTGCTATTGTAGCTTTAATCTATTTAACTGCAATGTCGGGGAAGTAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* * * ** * ** *
37997080 GATTCACTGTTGTCGCTTCAATCTGTTCCACTG-TATCACCAGGGATGTAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAAT-GTCAGGGAAGTAA
* * *
37997130 CATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* ** * * ** * **
37997180 TATTCATTATTGTAGCTTCAATCTGTTCCACTAC-ATCACCAGGGAAGTAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAAT-GTCAGGGAAGTAA
* * * * *
37997230 GATTCGCTGTTGTAGCTTTAATATATTTAACTGCAATTTCGGGGAAGCAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* ** * * *
37997280 GATTCGCTGTCGTAGCTTCAATCTATTCCACTAC-ATCGCCAGGAAAGTAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAAT-GTCAGGGAAGTAA
* * * *
37997330 GATTTGTTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* * * ** **
37997380 GATTCACTGTTGTTGCTTCAATCTGTTCCACTGCACCGTCAGGGAAGTAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* * * *
37997430 AATTCGCTGTTGTAGCTCCAATCTATTTAACTGCAATTTC-GAGGAAGCAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAG-GGAAGTAA
* * *** ** * **
37997480 AATTCGCTGTTGTAGTTTCAATCTATCCCACTGCACCGCCAAAGAAGTAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* * * *
37997530 GATTCGCTATTGTAGCTTCAATCTATTTAACTGCACTGTCGGGGAAGCAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* * ** * * *
37997580 GATTCACTGTTGTAGCTTCAATCTGTTCT-ACTGCACCGCCTGGAAAGTAA
1 GATTCGCTGTTGTAGCTTCAATCTATT-TAACTGCAATGTCAGGGAAGTAA
* *
37997630 GATTCGCTGTTGTAGC-TCAAATCTATTTAACTACAATGTCAGGGAAGCAA
1 GATTCGCTGTTGTAGCTTC-AATCTATTTAACTGCAATGTCAGGGAAGTAA
* * ** * *
37997680 GATTCTCTGTTGTAGCTTCAATCTGTTCCACTGCACT-ACTAGGGAAGTAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTC-AGGGAAGTAA
** * * *
37997730 GATTTACTGTTGTAACTTCAATTTATTTAACTGCAATGTCAGGGAAGAAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* * * ** * ** *
37997780 GATTTGCTATTGTAGCTTCAATCTGTTCGACTACACCGCCAGGGAAGTAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* * *
37997830 GATTCACTGTTGTAGC-TCAATCTATTTAACTGCAATGTCGGGGAAGCAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
** * * ** * ** * **
37997879 GATTCATTATTGTAGCTTCAATCTGTTCCACTGTACCGCCAGAAAAGTAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* * * *
37997929 GATTCGCTATTGTAGCTTCAATCTATTTAACTGTAATGTCGGGGAAGCAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* ** ** * *
37997979 GATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGAGGTAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* * ** *
37998029 GATTCACTGTTGTAGCTTCAATCTATATAACTGCAATGTTGGGGAAGCAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* * **** ** *
37998079 GATTC-ATGTTGTAGCTTCAATCTGTTCCGTTGCACA-CCCAGGGAAGTAG
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCA-ATGTCAGGGAAGTAA
* * * *
37998128 GATTTGCTGTTGTAGTTTGAATCTATTTAACTGCAATGTCGGGGAAGTAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* ** * * *
37998178 GATTCGCTGTTGTAGCTTCAATCTGTTCCACTACACCA-CT-AAGGAAGTAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCA--ATGTCAGGGAAGTAA
*
37998228 GATTAGCTGTTGTAGCTTCAATCTATTTA
1 GATTCGCTGTTGTAGCTTCAATCTATTTA
37998257 GGGGGATAGG
Statistics
Matches: 2467, Mismatches: 717, Indels: 88
0.75 0.22 0.03
Matches are distributed among these distances:
47 3 0.00
48 1 0.00
49 94 0.04
50 2303 0.93
51 60 0.02
52 2 0.00
53 4 0.00
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (50 bp):
GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
Found at i:37998053 original size:100 final size:100
Alignment explanation
Indices: 37995320--37998256 Score: 3253
Period size: 100 Copynumber: 29.4 Consensus size: 100
37995310 TACAATTTCG
** * * ** * * *
37995320 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTCCATTACACCGCCAGGGAAGTAAGATTCA
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTCA
* * * ** ** ***
37995385 CAGTTGTAACTTCAATCTATTTAACTGCAATGTGG
66 CTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCA
* * * ** * ** * * * * *
37995420 GGGAAGCAAGATTCGCTGTTGTAGCTTCTATCTGTTCCACTACACCGCCAGAGAAGTAAGATTCG
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTCA
* * ** * ** *
37995485 TTGTTGTAGCTTCAATCTATTTAACTACAATGTCA
66 CTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCA
* * * ** ** * * * * *
37995520 GGAAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGAGGTAAGATTCG
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTCA
* ** ******
37995585 CTGTTGTAGCTTCAATCTATTTAACTGCAATATTG
66 CTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCA
* * * ** * ** * ** *
37995620 GGGAAGCAAGATTTGCTGTTGTAGCTTCAATCCATTCGACTACACCGCCTAGGAAGTAAGATTCA
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTCA
* * * * ** ** * *
37995685 TTGTTATAGTTTCAATCTATTTAACTGCAATGTCG
66 CTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCA
* *** * ** * * *
37995720 GGGAAGCAAGATTTATTGTTGTAGCTTCAATCTGTTCCACTGC-ATCGCCAGGGAAGTAAGATTC
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAAT-GTCGGGGAAGCAAGATTC
* * ** ** ***
37995784 GCTGTTGTAGCTTCAATCTATTTAACTGCAATGTTG
65 ACTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCA
* * *** ** * ** * *
37995820 GGGAAGCAAGATTCGCTGTTGTACCTTCAATCTATCCCACTGCACCGCCAAGGAAGTAAGATTCG
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTCA
* * *
37995885 CTGTTGTAGCTTCAATCTATCCCACTGCACCGCTA
66 CTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCA
* ** * *
37995920 AGGAAGTAAGATTTACTGTTGTAGCTTCAATCTATTTAATTGCAATGTCGGGGAAGAAAGATTCA
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTCA
* *
37995985 CTATTGTAGCTTCAATCTATTCCACTGCACCGCCA
66 CTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCA
* *
37996020 AGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAATTGCAATGTCGGGGAAGCAAGATTCA
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTCA
* *
37996085 CTATTGTAGCTTCAATCTATTCCACTGCACCGCCA
66 CTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCA
* * * *
37996120 AGGAAGTAAGATTCGTTGTTGTAGCTTCAATCTATTTAATTGCAATGTCGGGGAAGCAAGATTAA
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTCA
* *
37996185 CTATTGTAGCTTCAATCTGTTCCACTGCACCGGCA
66 CTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCA
* * * * * * * * **
37996220 GGGAGGTAAGATTTGCTATTGTAGCTTTAGTCTATTTAACTGGAATTTTGGGGAAGCAAGATTTG
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTCA
* *
37996285 TTGTTGTAGCTTCAATCTGTTCCACTACACCGCCA
66 CTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCA
37996320 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTCA
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTCA
* * *
37996385 CTGTTGTAGCTTCAATATGTTCCACTACACTGCCA
66 CTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCA
* * *
37996420 GGGAAGTAAGATTCGTTGTTGTAGCTTCAATCTATTTAACTGTAATGTCGGGGAAGCAAGATTCG
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTCA
** * *
37996485 CTGTTGTAGCTTCAATCAATCCCACTGTACCGCCA
66 CTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCA
** * *
37996520 AAGAAGTAAGATTCACTGTTGCAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTCA
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTCA
* * *
37996585 CTGTTGTAGCTTCAATCTATTCCA-TCCCACCGCGA
66 CTGTTGTAGCTTCAATCTGTTCCACT-GCACCGCCA
* * ** *
37996620 GGGAAGTAAGATTCACTGTTGTAGCTTCAATCGATTTAACTGCAATGTTAGGGAATCAAGATTCA
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTCA
37996685 CTGTTGTAGCTTCAATCTGTTCCACT--ACCGCACTA
66 CTGTTGTAGCTTCAATCTGTTCCACTGCACCGC-C-A
* * * * * * *
37996720 GGGAAGTAAGATTCACTGTTGTAACTTCAATCTATCTAACTTCAATGTTGGTGAAGCAAGATTCG
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTCA
* ** * * *
37996785 TTGTTGTAGCTTCAATCTGTTTGACTACACTGTCA
66 CTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCA
* *
37996820 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATTTATTTAATTGCAATGTCGGGGAAGCAAGATTCA
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTCA
*
37996885 CTGTTGTAGCTTCAATCTGTTCCACTACACCGCCA
66 CTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCA
* * * *
37996920 GGGAAGTAAGAGTCACTCGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGAGAAGTAAGATTC
1 GGGAAGTAAGATTCGCT-GTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTC
*
37996985 GCTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCA
65 ACTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCA
* * * * *
37997021 AGGAAGTAAGATTTGCTATTGTAGCTTTAATCTATTTAACTGCAATGTCGGGGAAGTAAGATTCA
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTCA
* * * *
37997086 CTGTTGTCGCTTCAATCTGTTCCACTGTATCACCA
66 CTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCA
* * *
37997121 GGGATGTAACATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAATATTCA
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTCA
* * * * *
37997186 TTATTGTAGCTTCAATCTGTTCCACTACATCACCA
66 CTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCA
* * * *
37997221 GGGAAGTAAGATTCGCTGTTGTAGCTTTAATATATTTAACTGCAATTTCGGGGAAGCAAGATTCG
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTCA
* * * *
37997286 CTGTCGTAGCTTCAATCTATTCCACTACATCGCCA
66 CTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCA
* * *
37997321 GGAAAGTAAGATTTGTTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTCA
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTCA
* *
37997386 CTGTTGTTGCTTCAATCTGTTCCACTGCACCGTCA
66 CTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCA
* * * * * *
37997421 GGGAAGTAAAATTCGCTGTTGTAGCTCCAATCTATTTAACTGCAATTTCGAGGAAGCAAAATTCG
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTCA
* * *
37997486 CTGTTGTAGTTTCAATCTATCCCACTGCACCGCCA
66 CTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCA
** * *
37997521 AAGAAGTAAGATTCGCTATTGTAGCTTCAATCTATTTAACTGCACTGTCGGGGAAGCAAGATTCA
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTCA
* *
37997586 CTGTTGTAGCTTCAATCTGTTCTACTGCACCGCCT
66 CTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCA
* * *
37997621 GGAAAGTAAGATTCGCTGTTGTAGC-TCAAATCTATTTAACTACAATGTCAGGGAAGCAAGATTC
1 GGGAAGTAAGATTCGCTGTTGTAGCTTC-AATCTATTTAACTGCAATGTCGGGGAAGCAAGATTC
* ** *
37997685 TCTGTTGTAGCTTCAATCTGTTCCACTGCACTACTA
65 ACTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCA
** * * * * **
37997721 GGGAAGTAAGATTTACTGTTGTAACTTCAATTTATTTAACTGCAATGTCAGGGAAGAAAGATTTG
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTCA
* * *
37997786 CTATTGTAGCTTCAATCTGTTCGACTACACCGCCA
66 CTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCA
*
37997821 GGGAAGTAAGATTCACTGTTGTAGC-TCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTCA
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTCA
* * *
37997885 TTATTGTAGCTTCAATCTGTTCCACTGTACCGCCA
66 CTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCA
** * * *
37997920 GAAAAGTAAGATTCGCTATTGTAGCTTCAATCTATTTAACTGTAATGTCGGGGAAGCAAGATTCG
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTCA
37997985 CTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCA
66 CTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCA
* * * *
37998020 GGGAGGTAAGATTCACTGTTGTAGCTTCAATCTATATAACTGCAATGTTGGGGAAGCAAGATTCA
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTCA
**
37998085 -TGTTGTAGCTTCAATCTGTTCCGTTGCACAC-CCA
66 CTGTTGTAGCTTCAATCTGTTCCACTGCAC-CGCCA
* * * * * *
37998119 GGGAAGTAGGATTTGCTGTTGTAGTTTGAATCTATTTAACTGCAATGTCGGGGAAGTAAGATTCG
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTCA
* * *
37998184 CTGTTGTAGCTTCAATCTGTTCCACTACACCACTA
66 CTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCA
* *
37998219 AGGAAGTAAGATTAGCTGTTGTAGCTTCAATCTATTTA
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTA
37998257 GGGGGATAGG
Statistics
Matches: 2475, Mismatches: 347, Indels: 30
0.87 0.12 0.01
Matches are distributed among these distances:
98 5 0.00
99 175 0.07
100 2198 0.89
101 94 0.04
102 3 0.00
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (100 bp):
GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTCA
CTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCA
Found at i:37999676 original size:13 final size:14
Alignment explanation
Indices: 37999658--37999692 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
37999648 CCTTGGCCTC
37999658 TCTTTTTTTCTT-T
1 TCTTTTTTTCTTAT
37999671 TCTTTTTTTCTTAT
1 TCTTTTTTTCTTAT
37999685 T-TTTTTTT
1 TCTTTTTTT
37999693 GAAATATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 19 0.90
14 2 0.10
ACGTcount: A:0.03, C:0.11, G:0.00, T:0.86
Consensus pattern (14 bp):
TCTTTTTTTCTTAT
Found at i:38004963 original size:71 final size:71
Alignment explanation
Indices: 38004843--38004984 Score: 239
Period size: 71 Copynumber: 2.0 Consensus size: 71
38004833 TCTCGGATTT
* *
38004843 AAAAAAGGGATCATGCCCAGTAAGTTAGGACACGATCTTTTCTTAATTCCCGAGATAATTTAAAA
1 AAAAAAAGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATAATTTAAAA
38004908 CTTGAG
66 CTTGAG
* **
38004914 AAAAAAAGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTCATTCCCGAGATCGTTTAAAA
1 AAAAAAAGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATAATTTAAAA
38004979 CTTGAG
66 CTTGAG
38004985 TTTGAAAAGA
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
71 66 1.00
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.27
Consensus pattern (71 bp):
AAAAAAAGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATAATTTAAAA
CTTGAG
Found at i:38005449 original size:26 final size:26
Alignment explanation
Indices: 38005419--38005481 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
38005409 AAAATATAAC
**
38005419 AAATATATATGTATATATAAATTATA
1 AAATATATATACATATATAAATTATA
* **
38005445 AAATATATGTACATATATGTATTATA
1 AAATATATATACATATATAAATTATA
*
38005471 AAATGTATATA
1 AAATATATATA
38005482 AGTATACTTA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.51, C:0.02, G:0.06, T:0.41
Consensus pattern (26 bp):
AAATATATATACATATATAAATTATA
Found at i:38005701 original size:27 final size:28
Alignment explanation
Indices: 38005664--38005719 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
38005654 TAAAAAACAT
* * *
38005664 AAAATATATGTGCGTATGTATAT-TATA
1 AAAATACATGTACATATGTATATATATA
*
38005691 AAAATACATGTATATATGTATATATATA
1 AAAATACATGTACATATGTATATATATA
38005719 A
1 A
38005720 CAAAATTTTG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 19 0.79
28 5 0.21
ACGTcount: A:0.46, C:0.04, G:0.11, T:0.39
Consensus pattern (28 bp):
AAAATACATGTACATATGTATATATATA
Found at i:38005775 original size:7 final size:6
Alignment explanation
Indices: 38005750--38005785 Score: 56
Period size: 6 Copynumber: 6.0 Consensus size: 6
38005740 GGTATGAACG
38005750 AAAT-A AAATAA AAATAA AAATAA AAATAA ATAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA A-AATAA
38005786 CACAATATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 4 0.14
6 20 0.69
7 5 0.17
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
AAATAA
Found at i:38012226 original size:11 final size:11
Alignment explanation
Indices: 38012212--38012245 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
38012202 CAAAATTTGG
*
38012212 AATAAATAAAT
1 AATAAATTAAT
38012223 AATAAATTAAT
1 AATAAATTAAT
38012234 AA-AAATTAAT
1 AATAAATTAAT
38012244 AA
1 AA
38012246 ATACAATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 10 0.45
11 12 0.55
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (11 bp):
AATAAATTAAT
Found at i:38021231 original size:16 final size:17
Alignment explanation
Indices: 38021210--38021243 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
38021200 ACATAATTAT
*
38021210 TAGTAA-AAGGTTAATA
1 TAGTAATAAGGTAAATA
38021226 TAGTAATAAGGTAAATA
1 TAGTAATAAGGTAAATA
38021243 T
1 T
38021244 TAACTTTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.50, C:0.00, G:0.18, T:0.32
Consensus pattern (17 bp):
TAGTAATAAGGTAAATA
Found at i:38021697 original size:42 final size:42
Alignment explanation
Indices: 38021642--38021739 Score: 160
Period size: 42 Copynumber: 2.3 Consensus size: 42
38021632 ATATGAACGA
* *
38021642 CACTAAGTGTGCGAAATTAAAATAATGATGTTGGATAATGGG
1 CACTAAGTGTGCGAAATTAAAATAATGATGTTGAATAACGGG
* *
38021684 CACTAAGTGTGCGAGATTAAAATGATGATGTTGAATAACGGG
1 CACTAAGTGTGCGAAATTAAAATAATGATGTTGAATAACGGG
38021726 CACTAAGTGTGCGA
1 CACTAAGTGTGCGA
38021740 TACCGAGAGC
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.36, C:0.10, G:0.28, T:0.27
Consensus pattern (42 bp):
CACTAAGTGTGCGAAATTAAAATAATGATGTTGAATAACGGG
Found at i:38024981 original size:22 final size:20
Alignment explanation
Indices: 38024947--38024990 Score: 61
Period size: 22 Copynumber: 2.1 Consensus size: 20
38024937 TACCGAATCG
*
38024947 TAAACAATTAAAATTTTAAT
1 TAAACAATTAAAATTATAAT
38024967 TAAACATAGTTAAAATTATAAT
1 TAAACA-A-TTAAAATTATAAT
38024989 TA
1 TA
38024991 TAAATGCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 6 0.29
21 1 0.05
22 14 0.67
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.39
Consensus pattern (20 bp):
TAAACAATTAAAATTATAAT
Found at i:38031445 original size:32 final size:32
Alignment explanation
Indices: 38031404--38031470 Score: 125
Period size: 32 Copynumber: 2.1 Consensus size: 32
38031394 TTCTAAAGAC
*
38031404 AAGTATATAAGGTATTTCCATATTATCTTACT
1 AAGTATATAAGGTATTTCCATATTATCGTACT
38031436 AAGTATATAAGGTATTTCCATATTATCGTACT
1 AAGTATATAAGGTATTTCCATATTATCGTACT
38031468 AAG
1 AAG
38031471 CTTTATGCTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (32 bp):
AAGTATATAAGGTATTTCCATATTATCGTACT
Found at i:38033399 original size:24 final size:27
Alignment explanation
Indices: 38033344--38033399 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 27
38033334 CTTTTCGTAT
*
38033344 ATTTGATTTTTTTAATACATATGTTTTT
1 ATTTGATTTTTTTAATACATA-GTTTTC
38033372 ATTTGATTTTTTT-ATA-ATA-TTTTC
1 ATTTGATTTTTTTAATACATAGTTTTC
38033396 ATTT
1 ATTT
38033400 TTAAATCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 8 0.30
26 3 0.11
27 3 0.11
28 13 0.48
ACGTcount: A:0.25, C:0.04, G:0.05, T:0.66
Consensus pattern (27 bp):
ATTTGATTTTTTTAATACATAGTTTTC
Found at i:38033455 original size:22 final size:22
Alignment explanation
Indices: 38033407--38033458 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
38033397 TTTTTAAATC
*
38033407 ATTTTTATAATTTGTTATCGAAT
1 ATTTTT-TAATTTATTATCGAAT
* *
38033430 -TTTTTTAATTTATTTTGGAAT
1 ATTTTTTAATTTATTATCGAAT
38033451 ATTTTTTA
1 ATTTTTTA
38033459 GAATTATAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 13 0.52
22 12 0.48
ACGTcount: A:0.27, C:0.02, G:0.08, T:0.63
Consensus pattern (22 bp):
ATTTTTTAATTTATTATCGAAT
Found at i:38033884 original size:24 final size:24
Alignment explanation
Indices: 38033838--38033885 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
38033828 TTTTTAAAAA
*
38033838 AATATATTTATATTATATCATTTT
1 AATATATTTATATTATATAATTTT
*
38033862 AATAT-TTTATAATTTTATAATTTT
1 AATATATTTAT-ATTATATAATTTT
38033886 TTATATAGCC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (24 bp):
AATATATTTATATTATATAATTTT
Found at i:38039191 original size:23 final size:23
Alignment explanation
Indices: 38039165--38039212 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
38039155 TCAGGCTCAA
* * *
38039165 TTCATTTAGCGTTCGCGAACATG
1 TTCATTTAACATTCGCAAACATG
38039188 TTCATTTAACATTCGCAAACATG
1 TTCATTTAACATTCGCAAACATG
38039211 TT
1 TT
38039213 TGTTTATATG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.38
Consensus pattern (23 bp):
TTCATTTAACATTCGCAAACATG
Found at i:38057646 original size:20 final size:20
Alignment explanation
Indices: 38057621--38057658 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
38057611 TTAATAATTC
38057621 AATAAAATTAAAAATTAGAT
1 AATAAAATTAAAAATTAGAT
*
38057641 AATAAAATTAAAATTTAG
1 AATAAAATTAAAAATTAG
38057659 GAGAAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (20 bp):
AATAAAATTAAAAATTAGAT
Found at i:38061673 original size:12 final size:12
Alignment explanation
Indices: 38061643--38061681 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
38061633 TACTTCTTCT
* *
38061643 TTACTTATTCAC
1 TTACTTGTTTAC
38061655 TTACTTGTTTAC
1 TTACTTGTTTAC
*
38061667 TTACTTGCTTAC
1 TTACTTGTTTAC
38061679 TTA
1 TTA
38061682 AATAACTCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.21, C:0.21, G:0.05, T:0.54
Consensus pattern (12 bp):
TTACTTGTTTAC
Found at i:38062007 original size:50 final size:50
Alignment explanation
Indices: 38061945--38062077 Score: 131
Period size: 50 Copynumber: 2.7 Consensus size: 50
38061935 AAATGTCAAA
* * ** * *
38061945 TCCCAGATATGGTCTTACACATGAGTTCTCATATCGGTGCCCATGCCATG
1 TCCCAGACATGGTCTTACACAGGACCTCTCATATCGGTGCCAACGCCATG
**** * *
38061995 TCCCAGACATGGTCTTATGGGGGACCTCTTATCTCGGTGCCAACGCCATG
1 TCCCAGACATGGTCTTACACAGGACCTCTCATATCGGTGCCAACGCCATG
***
38062045 TCCCAGACATGGTCTTACGTGGGACCTCTCATA
1 TCCCAGACATGGTCTTACACAGGACCTCTCATA
38062078 ACCTCAATAA
Statistics
Matches: 67, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
50 67 1.00
ACGTcount: A:0.20, C:0.29, G:0.23, T:0.28
Consensus pattern (50 bp):
TCCCAGACATGGTCTTACACAGGACCTCTCATATCGGTGCCAACGCCATG
Found at i:38062825 original size:56 final size:56
Alignment explanation
Indices: 38062739--38062858 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
38062729 ACAAGGGATG
38062739 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
38062795 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
38062851 ATGGGCAA
1 ATGGGCAA
38062859 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:38064392 original size:49 final size:49
Alignment explanation
Indices: 38064313--38064819 Score: 745
Period size: 49 Copynumber: 10.6 Consensus size: 49
38064303 TATTTGAATA
* *
38064313 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTGGTG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
38064360 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
38064409 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGACCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
38064458 AATGTCAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
38064507 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
38064556 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
38064603 AATGTGCAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
38064652 AATGTGAACA-TG--TGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
38064699 AATGTGAACA-TG--CATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
38064746 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
38064793 GATGTGGAAGTGTATA-A-ATGTGATAAG
1 AATGTGAAAGTGTATATATATGTGATAAG
38064820 TCCCGAAGGG
Statistics
Matches: 432, Mismatches: 20, Indels: 16
0.92 0.04 0.03
Matches are distributed among these distances:
46 1 0.00
47 195 0.45
48 1 0.00
49 234 0.54
50 1 0.00
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.29
Consensus pattern (49 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:38064421 original size:96 final size:95
Alignment explanation
Indices: 38064313--38064819 Score: 745
Period size: 96 Copynumber: 5.3 Consensus size: 95
38064303 TATTTGAATA
*
38064313 AATGTGAAAGTG-TATATATGTGATAAGGCCTAATGGCCAATGTGGTGAATGTGAAAGTGTATAT
1 AATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG--TAT
*
38064377 ATATGTGATAAGGCCTAATGGCCAATGTGATG
64 ATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
38064409 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGACCAATGTGATGAATGTCAAAGTGTATA
1 AATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG--TA
* *
38064474 TATATGTGATAAGGCCTAATGGCCGATGTGATG
63 TATATGTGATAAGGCCGAATGGCCAATGTGATG
*
38064507 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATA
38064572 TATGTGATAAGGCCGAATGGCCAATGTGATG
65 TATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
38064603 AATGTGCAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGTGT
1 AATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAA-AGTGTAT
*
38064667 ATGTGTGATAAGGCCGAATGGCCAATGTGATG
64 ATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
38064699 AATGTGAACA-TG-CATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 AATGTGAA-AGTGATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATA
38064762 TATGTGATAAGGCCGAATGGCCAATGTGATG
65 TATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
38064793 GATGTGGAAGTG-TATAAATGTGATAAG
1 AATGTGAAAGTGATATATATGTGATAAG
38064820 TCCCGAAGGG
Statistics
Matches: 381, Mismatches: 24, Indels: 14
0.91 0.06 0.03
Matches are distributed among these distances:
93 2 0.01
94 96 0.25
96 143 0.38
97 2 0.01
98 138 0.36
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.29
Consensus pattern (95 bp):
AATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATAT
ATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:38072714 original size:50 final size:50
Alignment explanation
Indices: 38072652--38072784 Score: 140
Period size: 50 Copynumber: 2.7 Consensus size: 50
38072642 AAATGTCAAA
* * ** * *
38072652 TCCCAGATATGGTCTTACACATGAGTTCTCATATCGGTGCCCATGCCATG
1 TCCCAGACATGGTCTTACACAGGACCTCTCATATCGGTGCCAACGCCATG
**** *
38072702 TCCCAGACATGGTCTTATGGGGGACCTCTTATATCGGTGCCAACGCCATG
1 TCCCAGACATGGTCTTACACAGGACCTCTCATATCGGTGCCAACGCCATG
***
38072752 TCCCAGACATGGTCTTACGTGGGACCTCTCATA
1 TCCCAGACATGGTCTTACACAGGACCTCTCATA
38072785 ACCTCAATAA
Statistics
Matches: 69, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 69 1.00
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.28
Consensus pattern (50 bp):
TCCCAGACATGGTCTTACACAGGACCTCTCATATCGGTGCCAACGCCATG
Found at i:38087588 original size:17 final size:17
Alignment explanation
Indices: 38087566--38087605 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
38087556 AAAGAGATAA
38087566 AATTTTTAATTTAAT-TT
1 AATTTTT-ATTTAATGTT
38087583 AATTTTTATTTAATGTT
1 AATTTTTATTTAATGTT
38087600 AATTTT
1 AATTTT
38087606 AAATATTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 7 0.32
17 15 0.68
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (17 bp):
AATTTTTATTTAATGTT
Found at i:38090987 original size:29 final size:29
Alignment explanation
Indices: 38090945--38091001 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
38090935 CTTGCAAGCC
*
38090945 TGTTGAAGACAGTAAGCAAAGTGCGAGCT
1 TGTTGAAGACAGTAACCAAAGTGCGAGCT
* *
38090974 TGTTGAAGAGAGTAACCAAAGTGTGAGC
1 TGTTGAAGACAGTAACCAAAGTGCGAGC
38091002 CTATCAAACT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.35, C:0.12, G:0.32, T:0.21
Consensus pattern (29 bp):
TGTTGAAGACAGTAACCAAAGTGCGAGCT
Found at i:38096192 original size:21 final size:19
Alignment explanation
Indices: 38096157--38096215 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 19
38096147 CTTCTTCTTG
*
38096157 AATTTTTATG-AATTTTTT
1 AATTTTTTTGAAATTTTTT
*
38096175 ATTTTTATTTTGAAATTTTCTT
1 A-ATTT-TTTTGAAATTTT-TT
38096197 AATTTTTTTGAATATTTTT
1 AATTTTTTTGAA-ATTTTT
38096216 ATAAACTTCA
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
18 1 0.03
19 3 0.09
20 12 0.36
21 14 0.42
22 3 0.09
ACGTcount: A:0.25, C:0.02, G:0.05, T:0.68
Consensus pattern (19 bp):
AATTTTTTTGAAATTTTTT
Found at i:38106411 original size:12 final size:12
Alignment explanation
Indices: 38106394--38106418 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
38106384 GGATGCTTCC
38106394 AAAATGGAAATG
1 AAAATGGAAATG
38106406 AAAATGGAAATG
1 AAAATGGAAATG
38106418 A
1 A
38106419 TTCATTTGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.24, T:0.16
Consensus pattern (12 bp):
AAAATGGAAATG
Found at i:38114688 original size:15 final size:16
Alignment explanation
Indices: 38114647--38114689 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
38114637 AAAGACATTA
*
38114647 TATAATAACAAATCAAC
1 TATAA-AACAAAACAAC
38114664 TATAAAACAAAACAA-
1 TATAAAACAAAACAAC
*
38114679 TATAACACAAA
1 TATAAAACAAA
38114690 TATATCATCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 10 0.42
16 9 0.38
17 5 0.21
ACGTcount: A:0.65, C:0.16, G:0.00, T:0.19
Consensus pattern (16 bp):
TATAAAACAAAACAAC
Found at i:38118199 original size:26 final size:26
Alignment explanation
Indices: 38118170--38118219 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
38118160 ACAAAAATGT
* * *
38118170 TTTTCTTTTTTTTTTTATTTTTTTAC
1 TTTTCTTTATTTTTTAAATTTTTTAC
38118196 TTTTCTTTATTTTTTAAATTTTTT
1 TTTTCTTTATTTTTTAAATTTTTT
38118220 GTGGGAAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.82
Consensus pattern (26 bp):
TTTTCTTTATTTTTTAAATTTTTTAC
Found at i:38118217 original size:18 final size:18
Alignment explanation
Indices: 38118178--38118217 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
38118168 GTTTTTCTTT
* * *
38118178 TTTTTTTTATTTTTTTAC
1 TTTTCTTTATTTTTTAAA
38118196 TTTTCTTTATTTTTTAAA
1 TTTTCTTTATTTTTTAAA
38118214 TTTT
1 TTTT
38118218 TTGTGGGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTTCTTTATTTTTTAAA
Found at i:38125142 original size:19 final size:19
Alignment explanation
Indices: 38125118--38125156 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
38125108 GGCTAATTAC
38125118 ATCCCAAAAAATCTGCTAT
1 ATCCCAAAAAATCTGCTAT
*
38125137 ATCCCAAATAATCTGCTAT
1 ATCCCAAAAAATCTGCTAT
38125156 A
1 A
38125157 CCAATTAGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.41, C:0.26, G:0.05, T:0.28
Consensus pattern (19 bp):
ATCCCAAAAAATCTGCTAT
Found at i:38129119 original size:15 final size:15
Alignment explanation
Indices: 38129096--38129136 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
38129086 CTTTTGTTCA
38129096 AATCTTGTTGTAGAT
1 AATCTTGTTGTAGAT
* *
38129111 AATCGTGTTGTGGAT
1 AATCTTGTTGTAGAT
38129126 AATCTTGTTGT
1 AATCTTGTTGT
38129137 TTATTGTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.22, C:0.07, G:0.24, T:0.46
Consensus pattern (15 bp):
AATCTTGTTGTAGAT
Found at i:38130659 original size:3 final size:3
Alignment explanation
Indices: 38130651--38130675 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
38130641 ATTTTAAGAG
38130651 ACA ACA ACA ACA ACA ACA ACA ACA A
1 ACA ACA ACA ACA ACA ACA ACA ACA A
38130676 AAGGAAAAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:38134513 original size:140 final size:140
Alignment explanation
Indices: 38134261--38134541 Score: 553
Period size: 140 Copynumber: 2.0 Consensus size: 140
38134251 ACACCTTGAC
38134261 AGCACTGGCAAGTAGTGTACCATCTGAACTACATGTCAGCACCTAATACGCATTTATTAATTCTC
1 AGCACTGGCAAGTAGTGTACCATCTGAACTACATGTCAGCACCTAATACGCATTTATTAATTCTC
38134326 AACAGGGTCATGCTGATTGAACACGAGAAACTTCGAGGAAAGATATAAACAATTATATGAGTCCA
66 AACAGGGTCATGCTGATTGAACACGAGAAACTTCGAGGAAAGATATAAACAATTATATGAGTCCA
38134391 AACTATGATT
131 AACTATGATT
*
38134401 AGCACTGGCAAGTAGTGTACCATCTGCACTACATGTCAGCACCTAATACGCATTTATTAATTCTC
1 AGCACTGGCAAGTAGTGTACCATCTGAACTACATGTCAGCACCTAATACGCATTTATTAATTCTC
38134466 AACAGGGTCATGCTGATTGAACACGAGAAACTTCGAGGAAAGATATAAACAATTATATGAGTCCA
66 AACAGGGTCATGCTGATTGAACACGAGAAACTTCGAGGAAAGATATAAACAATTATATGAGTCCA
38134531 AACTATGATT
131 AACTATGATT
38134541 A
1 A
38134542 AAGAAATGCA
Statistics
Matches: 140, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
140 140 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (140 bp):
AGCACTGGCAAGTAGTGTACCATCTGAACTACATGTCAGCACCTAATACGCATTTATTAATTCTC
AACAGGGTCATGCTGATTGAACACGAGAAACTTCGAGGAAAGATATAAACAATTATATGAGTCCA
AACTATGATT
Found at i:38137819 original size:17 final size:17
Alignment explanation
Indices: 38137797--38137834 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
38137787 TACGAACTAA
*
38137797 TTGGTGAATCCTGTGTT
1 TTGGTGAATCATGTGTT
*
38137814 TTGGTGAATTATGTGTT
1 TTGGTGAATCATGTGTT
38137831 TTGG
1 TTGG
38137835 CGAGATTTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.13, C:0.05, G:0.32, T:0.50
Consensus pattern (17 bp):
TTGGTGAATCATGTGTT
Found at i:38148579 original size:39 final size:40
Alignment explanation
Indices: 38148470--38148605 Score: 166
Period size: 40 Copynumber: 3.4 Consensus size: 40
38148460 TAGATAGACC
* * * **
38148470 AAACACACCAAACAGAAACTCATAAGAGCTGATCCAATCG
1 AAACACGCCAAATAGAAGCTCATAAGAGCTGATCCACCCG
* * * *
38148510 AAATACGCCAAACAAAAGCTCATAAGAGCTGGTCCACCCG
1 AAACACGCCAAATAGAAGCTCATAAGAGCTGATCCACCCG
38148550 AAACACGCC-AATAGAAGCTCATAAGAGCTGATCCACCCG
1 AAACACGCCAAATAGAAGCTCATAAGAGCTGATCCACCCG
* *
38148589 AATCACACCAAATAGAA
1 AAACACGCCAAATAGAA
38148606 AGTATAACAG
Statistics
Matches: 82, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
39 34 0.41
40 48 0.59
ACGTcount: A:0.44, C:0.29, G:0.15, T:0.12
Consensus pattern (40 bp):
AAACACGCCAAATAGAAGCTCATAAGAGCTGATCCACCCG
Found at i:38150315 original size:13 final size:13
Alignment explanation
Indices: 38150264--38150318 Score: 65
Period size: 13 Copynumber: 4.2 Consensus size: 13
38150254 AGCATGCGTG
*
38150264 AAACATATCTTTA
1 AAACATATCTTGA
* *
38150277 AAACATAGCTTAA
1 AAACATATCTTGA
*
38150290 AAACATAACTTGA
1 AAACATATCTTGA
*
38150303 AAACATATTTTGA
1 AAACATATCTTGA
38150316 AAA
1 AAA
38150319 TAGAGTATTA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 36 1.00
ACGTcount: A:0.53, C:0.13, G:0.05, T:0.29
Consensus pattern (13 bp):
AAACATATCTTGA
Found at i:38163551 original size:16 final size:16
Alignment explanation
Indices: 38163527--38163560 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
38163517 ATTAAATCCT
38163527 AATTACTAAAGAAATA
1 AATTACTAAAGAAATA
* *
38163543 AATTCCTAAAGAACTA
1 AATTACTAAAGAAATA
38163559 AA
1 AA
38163561 AAATAATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.59, C:0.12, G:0.06, T:0.24
Consensus pattern (16 bp):
AATTACTAAAGAAATA
Found at i:38164975 original size:10 final size:10
Alignment explanation
Indices: 38164960--38164984 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
38164950 TTGGCACTTA
38164960 TCACAGTTCT
1 TCACAGTTCT
38164970 TCACAGTTCT
1 TCACAGTTCT
38164980 TCACA
1 TCACA
38164985 TAAGCGTAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.24, C:0.32, G:0.08, T:0.36
Consensus pattern (10 bp):
TCACAGTTCT
Found at i:38182197 original size:7 final size:7
Alignment explanation
Indices: 38182185--38182214 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
38182175 TATTAGTAAT
38182185 TGTTAAA
1 TGTTAAA
38182192 TGTTAAA
1 TGTTAAA
38182199 TGTTAAA
1 TGTTAAA
*
38182206 TGTTCAA
1 TGTTAAA
38182213 TG
1 TG
38182215 AATTACTTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.37, C:0.03, G:0.17, T:0.43
Consensus pattern (7 bp):
TGTTAAA
Found at i:38187238 original size:35 final size:35
Alignment explanation
Indices: 38187192--38187299 Score: 119
Period size: 35 Copynumber: 3.1 Consensus size: 35
38187182 TTATTCCAGT
38187192 GACCTATATACCATTTACACGGTGTCGCCCCAAAG
1 GACCTATATACCATTTACACGGTGTCGCCCCAAAG
* ** ** * *
38187227 GACCTATATACCATTTATATTGTGTTTCCTCAAAA
1 GACCTATATACCATTTACACGGTGTCGCCCCAAAG
* *
38187262 GACCTATATACCATCTT-CACGGTATCGCCCCGAAG
1 GACCTATATACCAT-TTACACGGTGTCGCCCCAAAG
38187297 GAC
1 GAC
38187300 AAATAGATAA
Statistics
Matches: 56, Mismatches: 16, Indels: 2
0.76 0.22 0.03
Matches are distributed among these distances:
35 54 0.96
36 2 0.04
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.28
Consensus pattern (35 bp):
GACCTATATACCATTTACACGGTGTCGCCCCAAAG
Found at i:38191300 original size:15 final size:15
Alignment explanation
Indices: 38191275--38191309 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
38191265 GAGTCTATTT
*
38191275 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
38191289 TAATTAATATTAAGA
1 TAATTAATATTAAGA
38191304 TAATTA
1 TAATTA
38191310 TTAAAGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:38197787 original size:4 final size:4
Alignment explanation
Indices: 38197778--38197855 Score: 63
Period size: 4 Copynumber: 18.5 Consensus size: 4
38197768 AATTTTTATT
*
38197778 TTTA TTTA TTTA TTTA TTTA -TTA TTTTA TTTTA TTTTC TTTA CTTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA -TTTA -TTTA -TTTA TTTA -TTTA
38197825 TTTA -TTA CTTTA TTTTA TTT- TATTA TTTA TT
1 TTTA TTTA -TTTA -TTTA TTTA T-TTA TTTA TT
38197856 ACTTATTTGG
Statistics
Matches: 64, Mismatches: 3, Indels: 14
0.79 0.04 0.17
Matches are distributed among these distances:
3 7 0.11
4 33 0.52
5 24 0.38
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:38197808 original size:5 final size:5
Alignment explanation
Indices: 38197771--38197848 Score: 56
Period size: 5 Copynumber: 15.4 Consensus size: 5
38197761 GCAACCCAAT
38197771 TTTTA TTTT- TATTTA -TTTA -TTTA TTTATTA TTTTA TTTTA TTTT-
1 TTTTA TTTTA T-TTTA TTTTA TTTTA -TT-TTA TTTTA TTTTA TTTTA
* * *
38197815 CTTTA CTTTA TTTATTA CTTTA TTTTA TTTTA TT
1 TTTTA TTTTA -TT-TTA TTTTA TTTTA TTTTA TT
38197849 ATTTATTACT
Statistics
Matches: 61, Mismatches: 4, Indels: 16
0.75 0.05 0.20
Matches are distributed among these distances:
4 12 0.20
5 38 0.62
6 5 0.08
7 6 0.10
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:38197825 original size:31 final size:30
Alignment explanation
Indices: 38197771--38197863 Score: 120
Period size: 31 Copynumber: 3.1 Consensus size: 30
38197761 GCAACCCAAT
38197771 TTTTATTTT-TATTTATTTATTTATTTATTA
1 TTTTATTTTAT-TTTATTTATTTATTTATTA
*
38197801 TTTTATTTTATTTTCTTTACTTTATTTATTA
1 TTTTATTTTATTTTATTTA-TTTATTTATTA
*
38197832 CTTTATTTTATTTTA-TTATTTA-TTACTTA
1 TTTTATTTTATTTTATTTATTTATTTA-TTA
38197861 TTT
1 TTT
38197864 GGATACTAAT
Statistics
Matches: 56, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
28 3 0.05
29 9 0.16
30 19 0.34
31 25 0.45
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (30 bp):
TTTTATTTTATTTTATTTATTTATTTATTA
Found at i:38199566 original size:15 final size:15
Alignment explanation
Indices: 38199541--38199575 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
38199531 GACTCTATTT
*
38199541 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
38199555 TAATTAATATTAAGA
1 TAATTAATATTAAGA
38199570 TAATTA
1 TAATTA
38199576 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:38213530 original size:49 final size:49
Alignment explanation
Indices: 38213470--38213586 Score: 123
Period size: 49 Copynumber: 2.4 Consensus size: 49
38213460 GTTAATAACT
* * *
38213470 AACATGTCCTACCAGTGGCCCATCATACA-CGT-CAATCTAGTTAGCAACG
1 AACATGCCCTACCAGTGGCCC-TAAAACATC-TACAATCTAGTTAGCAACG
* * * *
38213519 AACATGCCCTACCAATGG-TCTAAAACATCTACCAATCTAGTTTGCAACT
1 AACATGCCCTACCAGTGGCCCTAAAACATCTA-CAATCTAGTTAGCAACG
38213568 AACATGCCCTACCAGTGGC
1 AACATGCCCTACCAGTGGC
38213587 TTACTGTAAC
Statistics
Matches: 56, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
47 6 0.11
48 2 0.04
49 48 0.86
ACGTcount: A:0.32, C:0.31, G:0.15, T:0.23
Consensus pattern (49 bp):
AACATGCCCTACCAGTGGCCCTAAAACATCTACAATCTAGTTAGCAACG
Found at i:38214045 original size:34 final size:34
Alignment explanation
Indices: 38213999--38214069 Score: 133
Period size: 34 Copynumber: 2.1 Consensus size: 34
38213989 CTCTCGTAGA
38213999 ACTAACACGTGGCTAACATGCAAAGCTAACACAT
1 ACTAACACGTGGCTAACATGCAAAGCTAACACAT
*
38214033 ACTAACATGTGGCTAACATGCAAAGCTAACACAT
1 ACTAACACGTGGCTAACATGCAAAGCTAACACAT
38214067 ACT
1 ACT
38214070 CTATTGTGGA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.41, C:0.25, G:0.14, T:0.20
Consensus pattern (34 bp):
ACTAACACGTGGCTAACATGCAAAGCTAACACAT
Found at i:38217733 original size:7 final size:7
Alignment explanation
Indices: 38217717--38217751 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
38217707 AGCACTATCA
38217717 ATATGTG
1 ATATGTG
*
38217724 ATACGTG
1 ATATGTG
38217731 ATATGTG
1 ATATGTG
38217738 ATATGTG
1 ATATGTG
38217745 ATATGTG
1 ATATGTG
38217752 TTGATGAAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.29, C:0.03, G:0.29, T:0.40
Consensus pattern (7 bp):
ATATGTG
Found at i:38219662 original size:22 final size:21
Alignment explanation
Indices: 38219619--38219685 Score: 53
Period size: 22 Copynumber: 3.0 Consensus size: 21
38219609 ATATCGCAAA
* **
38219619 ATCGAACCATTGGTATCACGAT
1 ATCG-ACCCTTGGTATGGCGAT
38219641 ATCGCACCCTTGGTATGGCGAT
1 ATCG-ACCCTTGGTATGGCGAT
* * *
38219663 ACCAGACCCTTAGTATGGAGAT
1 ATC-GACCCTTGGTATGGCGAT
38219685 A
1 A
38219686 CCAGACCCCT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
22 36 0.97
23 1 0.03
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.25
Consensus pattern (21 bp):
ATCGACCCTTGGTATGGCGAT
Found at i:38219686 original size:22 final size:22
Alignment explanation
Indices: 38219646--38219693 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
38219636 ACGATATCGC
* *
38219646 ACCCTTGGTATGGCGATACCAG
1 ACCCTTAGTATGGAGATACCAG
38219668 ACCCTTAGTATGGAGATACCAG
1 ACCCTTAGTATGGAGATACCAG
38219690 ACCC
1 ACCC
38219694 CTAGCATCGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.21
Consensus pattern (22 bp):
ACCCTTAGTATGGAGATACCAG
Found at i:38219708 original size:22 final size:22
Alignment explanation
Indices: 38219661--38219735 Score: 73
Period size: 22 Copynumber: 3.4 Consensus size: 22
38219651 TGGTATGGCG
* * *
38219661 ATACCAGACCCTTAGTAT-GGA
1 ATACCAGACCCCTAGCATCGCA
38219682 GATACCAGACCCCTAGCATCGCA
1 -ATACCAGACCCCTAGCATCGCA
*
38219705 ATACC-GAACCCCTAGCATCGCG
1 ATACCAG-ACCCCTAGCATCGCA
*
38219727 ATACTAGAC
1 ATACCAGAC
38219736 TCATTGCATG
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
21 1 0.02
22 41 0.91
23 3 0.07
ACGTcount: A:0.32, C:0.33, G:0.17, T:0.17
Consensus pattern (22 bp):
ATACCAGACCCCTAGCATCGCA
Found at i:38219966 original size:287 final size:288
Alignment explanation
Indices: 38219447--38220016 Score: 801
Period size: 287 Copynumber: 2.0 Consensus size: 288
38219437 GGTTTTAAAT
* * *
38219447 TCATTGCATGTTGAATTTTAGGGATTTAGGGGTCTTGTTTTGTGTTTAGAGGAAGATGAAAATTT
1 TCATTGCATGTTGAATTTTAGGGATTTAGGGGTCCTATTTTGTGTTTAGAGGAAGATGAAAAATT
* * * *
38219512 TGTGAAATTTTGAGAACTATACAGTTGTATCACGACACCTAAGGCTGGATATCGCAATACCCTTG
66 TGTGAAAGTTTGACAACTATACAGTGGTATCACGACACCTAAGGCTGGATATCGCAATACCCTGG
*
38219577 ATAGTTTCGAAAGAAGGCCAAAAATTTTATGGATATCGCAAAATCGAACCATTGGTATCACGATA
131 ATAGTTTCGAAAGAAGGCCAAAAATCTTATGGATATCGCAAAATCGAACCATTGGTATCACGATA
* * * * *
38219642 TCGCACCCTTGGTATGGCGATACCAGACCCTTAGTATGGAGATACCAGACCCCTAGCATCGCAAT
196 GCGAACCCTTAGTATGGCGATACCAAACCCCTAGTATGGAGATACCAGA-CCCTAGCATCGCAAT
38219707 ACCGAA-CCCCTAGCATCGCGATACTAGAC
260 ACC-AAGCCCCTAGCATCGCGATACTAGAC
38219736 TCATTGCATGTTGAATTTTAGGGATTTAGGGGTCCTATTTTGTGTTTAGAGGAAGAT-AAAAATT
1 TCATTGCATGTTGAATTTTAGGGATTTAGGGGTCCTATTTTGTGTTTAGAGGAAGATGAAAAATT
*
38219800 T-TGAAAGTTTGACAACTATACAGTGGTATCACGACACCTAATGG-TGGATATCGCAATATCCTG
66 TGTGAAAGTTTGACAACTATACAGTGGTATCACGACACCTAA-GGCTGGATATCGCAATACCCTG
** * * * * * * *
38219863 GATAGTTTCGAGGGGAGGCCAAAACTCTTATGGATATCGCGATA-CGGGACCTTTGGTATCGCGA
130 GATAGTTTCGAAAGAAGGCCAAAAATCTTATGGATATCGCAAAATC-GAACCATTGGTATCACGA
* * * **
38219927 TAGCGAACACC-TAGTATGGTGATACCAAACCCCTAGTATGGCGATACCAGACCCTGGCATCGTG
194 TAGCGAAC-CCTTAGTATGGCGATACCAAACCCCTAGTATGGAGATACCAGACCCTAGCATCGCA
38219991 ATACCAAGCCCCTAGCATCGCGATAC
258 ATACCAAGCCCCTAGCATCGCGATAC
38220017 CGGACCTCTG
Statistics
Matches: 249, Mismatches: 28, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
285 2 0.01
286 34 0.14
287 147 0.59
288 11 0.04
289 55 0.22
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (288 bp):
TCATTGCATGTTGAATTTTAGGGATTTAGGGGTCCTATTTTGTGTTTAGAGGAAGATGAAAAATT
TGTGAAAGTTTGACAACTATACAGTGGTATCACGACACCTAAGGCTGGATATCGCAATACCCTGG
ATAGTTTCGAAAGAAGGCCAAAAATCTTATGGATATCGCAAAATCGAACCATTGGTATCACGATA
GCGAACCCTTAGTATGGCGATACCAAACCCCTAGTATGGAGATACCAGACCCTAGCATCGCAATA
CCAAGCCCCTAGCATCGCGATACTAGAC
Found at i:38219995 original size:43 final size:44
Alignment explanation
Indices: 38219945--38220040 Score: 131
Period size: 43 Copynumber: 2.2 Consensus size: 44
38219935 ACCTAGTATG
* *
38219945 GTGATACCAAACCCCTAGTATGGCGATACCAGACC-CTGGCATC
1 GTGATACCAAACCCCTAGCATCGCGATACCAGACCTCTGGCATC
* * *
38219988 GTGATACCAAGCCCCTAGCATCGCGATACCGGACCTCTGGTATC
1 GTGATACCAAACCCCTAGCATCGCGATACCAGACCTCTGGCATC
*
38220032 GCGATACCA
1 GTGATACCA
38220041 GACCTCTGGT
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
43 31 0.67
44 15 0.33
ACGTcount: A:0.26, C:0.33, G:0.22, T:0.19
Consensus pattern (44 bp):
GTGATACCAAACCCCTAGCATCGCGATACCAGACCTCTGGCATC
Found at i:38220045 original size:22 final size:22
Alignment explanation
Indices: 38219897--38220052 Score: 104
Period size: 22 Copynumber: 7.1 Consensus size: 22
38219887 CTCTTATGGA
** *
38219897 TATCGCGATACGGGACCTTTGG
1 TATCGCGATACCAGACCTCTGG
* *
38219919 TATCGCGATAGC-GAACAC-CTAG
1 TATCGCGATACCAG-AC-CTCTGG
* * * * *
38219941 TATGGTGATACCAAACCCCTAG
1 TATCGCGATACCAGACCTCTGG
*
38219963 TATGGCGATACCAGACC-CTGG
1 TATCGCGATACCAGACCTCTGG
* * * *
38219984 CATCGTGATACCA-AGCCCCTAG
1 TATCGCGATACCAGA-CCTCTGG
* *
38220006 CATCGCGATACCGGACCTCTGG
1 TATCGCGATACCAGACCTCTGG
38220028 TATCGCGATACCAGACCTCTGG
1 TATCGCGATACCAGACCTCTGG
38220050 TAT
1 TAT
38220053 GCAATATCCC
Statistics
Matches: 106, Mismatches: 21, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
20 1 0.01
21 17 0.16
22 86 0.81
23 2 0.02
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.22
Consensus pattern (22 bp):
TATCGCGATACCAGACCTCTGG
Found at i:38229343 original size:13 final size:13
Alignment explanation
Indices: 38229327--38229351 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38229317 TTATACTCTT
38229327 TTTTTTCTTTTTC
1 TTTTTTCTTTTTC
38229340 TTTTTTCTTTTT
1 TTTTTTCTTTTT
38229352 TTGAGAACAA
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:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTCTTTTTC
Found at i:38230326 original size:6 final size:6
Alignment explanation
Indices: 38230317--38230349 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
38230307 AAAGTCTAAC
*
38230317 AAAATA AAAATA AACATA AAAATA AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAA
38230350 CAAATAGACT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:38232114 original size:21 final size:20
Alignment explanation
Indices: 38232061--38232142 Score: 67
Period size: 21 Copynumber: 4.0 Consensus size: 20
38232051 AGAAATAGAT
* * *
38232061 AATAAACAACTAAAATAAAAA
1 AATAAATAAATAAAA-AATAA
** *
38232082 AATAAAGGAATAAAATAATAG
1 AATAAATAAATAAAA-AATAA
38232103 AATAAATAAATAAAGAAGATAA
1 AATAAATAAATAAA-AA-ATAA
38232125 AATAAAT-AATAAAAAATA
1 AATAAATAAATAAAAAATA
38232143 GGAAAATGGG
Statistics
Matches: 51, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
19 3 0.06
20 2 0.04
21 35 0.69
22 11 0.22
ACGTcount: A:0.73, C:0.02, G:0.06, T:0.18
Consensus pattern (20 bp):
AATAAATAAATAAAAAATAA
Found at i:38232135 original size:29 final size:28
Alignment explanation
Indices: 38232078--38232142 Score: 87
Period size: 29 Copynumber: 2.3 Consensus size: 28
38232068 AACTAAAATA
*
38232078 AAAAAATAAAGGAATAAAATAATAGAAT
1 AAAAAATAAAGAAATAAAATAATAGAAT
*
38232106 AAATAAATAAAGAAGATAAAATAA-ATAAT
1 AAA-AAATAAAGAA-ATAAAATAATAGAAT
38232135 AAAAAATA
1 AAAAAATA
38232143 GGAAAATGGG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
28 8 0.24
29 16 0.48
30 9 0.27
ACGTcount: A:0.74, C:0.00, G:0.08, T:0.18
Consensus pattern (28 bp):
AAAAAATAAAGAAATAAAATAATAGAAT
Found at i:38235387 original size:14 final size:14
Alignment explanation
Indices: 38235368--38235394 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
38235358 AGAAGTAAAT
38235368 AAAACAAAAATTAG
1 AAAACAAAAATTAG
38235382 AAAACAAAAATTA
1 AAAACAAAAATTA
38235395 AACTAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.07, G:0.04, T:0.15
Consensus pattern (14 bp):
AAAACAAAAATTAG
Found at i:38235668 original size:14 final size:14
Alignment explanation
Indices: 38235649--38235678 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
38235639 TGGTTGTTTT
38235649 TAATCTAAATTAAC
1 TAATCTAAATTAAC
*
38235663 TAATCTAATTTAAC
1 TAATCTAAATTAAC
38235677 TA
1 TA
38235679 TGAACACAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (14 bp):
TAATCTAAATTAAC
Found at i:38236540 original size:17 final size:17
Alignment explanation
Indices: 38236518--38236576 Score: 118
Period size: 17 Copynumber: 3.5 Consensus size: 17
38236508 TGGCCAGCCT
38236518 GTGTGGCTCACACGGAC
1 GTGTGGCTCACACGGAC
38236535 GTGTGGCTCACACGGAC
1 GTGTGGCTCACACGGAC
38236552 GTGTGGCTCACACGGAC
1 GTGTGGCTCACACGGAC
38236569 GTGTGGCT
1 GTGTGGCT
38236577 AGCTCGTGTG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 42 1.00
ACGTcount: A:0.15, C:0.27, G:0.37, T:0.20
Consensus pattern (17 bp):
GTGTGGCTCACACGGAC
Found at i:38237155 original size:18 final size:17
Alignment explanation
Indices: 38237132--38237165 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
38237122 TCTTATAAAG
38237132 TTTGAAATAGAAAAAAAA
1 TTTGAAA-AGAAAAAAAA
*
38237150 TTTGAAACGAAAAAAA
1 TTTGAAAAGAAAAAAA
38237166 TTGCGACCCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.65, C:0.03, G:0.12, T:0.21
Consensus pattern (17 bp):
TTTGAAAAGAAAAAAAA
Found at i:38243570 original size:14 final size:14
Alignment explanation
Indices: 38243547--38243581 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
38243537 CACACTTACG
*
38243547 ATATTAATAAAAAA
1 ATATTTATAAAAAA
38243561 ATATTTATAAAAAA
1 ATATTTATAAAAAA
38243575 ATATTTA
1 ATATTTA
38243582 ATATTTAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
ATATTTATAAAAAA
Found at i:38244104 original size:14 final size:14
Alignment explanation
Indices: 38244085--38244135 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
38244075 TAAAATCTCA
38244085 TTTTTTTACATTAT
1 TTTTTTTACATTAT
*
38244099 TTTTTTCTA-AATAT
1 TTTTTT-TACATTAT
* * *
38244113 ATTTATTACATAAT
1 TTTTTTTACATTAT
38244127 TTTTTTTAC
1 TTTTTTTAC
38244136 TATATGGTGC
Statistics
Matches: 28, Mismatches: 7, Indels: 4
0.72 0.18 0.10
Matches are distributed among these distances:
13 2 0.07
14 24 0.86
15 2 0.07
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (14 bp):
TTTTTTTACATTAT
Found at i:38257179 original size:3 final size:3
Alignment explanation
Indices: 38257171--38257208 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
38257161 ATTTTAAACC
38257171 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
38257209 GGTTCTCTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:38262315 original size:19 final size:21
Alignment explanation
Indices: 38262272--38262317 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
38262262 TATTACTTGT
*
38262272 TTATTATTACTATTATTGCATA
1 TTATTATTAATATTATTGCA-A
38262294 TTATTATTAATATTATT-C-A
1 TTATTATTAATATTATTGCAA
38262313 TTATT
1 TTATT
38262318 TTCATGTACA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 6 0.26
21 1 0.04
22 16 0.70
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.59
Consensus pattern (21 bp):
TTATTATTAATATTATTGCAA
Found at i:38264789 original size:2 final size:2
Alignment explanation
Indices: 38264782--38264812 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
38264772 GGGTGTAGTA
38264782 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
38264813 AACAAATGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:38264930 original size:79 final size:79
Alignment explanation
Indices: 38264799--38264959 Score: 304
Period size: 79 Copynumber: 2.0 Consensus size: 79
38264789 TATATATATA
*
38264799 TATATATATATATAAACAAATGTGACACTTGTTATGGCATCAACCCGCTTTTGGAGTCTAAAAAA
1 TATATATATATATAAACAAATGTGACACTTGTTATGGCATCAACCCACTTTTGGAGTCTAAAAAA
38264864 TTCTACTAGTGGTG
66 TTCTACTAGTGGTG
*
38264878 TATATATATATATAAACAAATGTGACACTTGTTATGGCCTCAACCCACTTTTGGAGTCTAAAAAA
1 TATATATATATATAAACAAATGTGACACTTGTTATGGCATCAACCCACTTTTGGAGTCTAAAAAA
38264943 TTCTACTAGTGGTG
66 TTCTACTAGTGGTG
38264957 TAT
1 TAT
38264960 TAAATAGTTA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
79 80 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.35
Consensus pattern (79 bp):
TATATATATATATAAACAAATGTGACACTTGTTATGGCATCAACCCACTTTTGGAGTCTAAAAAA
TTCTACTAGTGGTG
Found at i:38265285 original size:14 final size:15
Alignment explanation
Indices: 38265266--38265295 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
38265256 AGTCATTGAT
38265266 TTAA-TTTTTTAAAA
1 TTAATTTTTTTAAAA
38265280 TTAATTTTTTTAAAA
1 TTAATTTTTTTAAAA
38265295 T
1 T
38265296 ACCAAAGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TTAATTTTTTTAAAA
Found at i:38268120 original size:15 final size:14
Alignment explanation
Indices: 38268100--38268143 Score: 56
Period size: 12 Copynumber: 3.2 Consensus size: 14
38268090 GATGCCATAC
38268100 ATTATAATTATATTT
1 ATTATAATT-TATTT
*
38268115 ATTATATTTTATTT
1 ATTATAATTTATTT
38268129 A--ATAATTTATTT
1 ATTATAATTTATTT
38268141 ATT
1 ATT
38268144 TATATATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
12 11 0.44
14 6 0.24
15 8 0.32
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
ATTATAATTTATTT
Found at i:38271194 original size:14 final size:14
Alignment explanation
Indices: 38271175--38271205 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
38271165 GAGACAAACA
38271175 TTAAGGTTCATAGC
1 TTAAGGTTCATAGC
38271189 TTAAGGTTCATAGC
1 TTAAGGTTCATAGC
38271203 TTA
1 TTA
38271206 CTGGATATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.39
Consensus pattern (14 bp):
TTAAGGTTCATAGC
Found at i:38274726 original size:13 final size:13
Alignment explanation
Indices: 38274701--38274733 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
38274691 CTAAATGAAT
38274701 TCATTTCTCATTTC
1 TCATTT-TCATTTC
38274715 TCATTTTCATTTC
1 TCATTTTCATTTC
38274728 T-ATTTT
1 TCATTTT
38274734 GGAGAAAACC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 5 0.26
13 8 0.42
14 6 0.32
ACGTcount: A:0.15, C:0.21, G:0.00, T:0.64
Consensus pattern (13 bp):
TCATTTTCATTTC
Found at i:38274732 original size:6 final size:7
Alignment explanation
Indices: 38274701--38274732 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
38274691 CTAAATGAAT
38274701 TCATTTC
1 TCATTTC
38274708 TCATTTC
1 TCATTTC
38274715 TCATTT-
1 TCATTTC
38274721 TCATTTC
1 TCATTTC
38274728 T-ATTT
1 TCATTT
38274733 TGGAGAAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
6 10 0.42
7 14 0.58
ACGTcount: A:0.16, C:0.22, G:0.00, T:0.62
Consensus pattern (7 bp):
TCATTTC
Found at i:38274837 original size:57 final size:57
Alignment explanation
Indices: 38274708--38274835 Score: 167
Period size: 57 Copynumber: 2.2 Consensus size: 57
38274698 AATTCATTTC
38274708 TCATTTCT-CATTTTCATTTCTATTTTGGAGAAAACCACATCTATTTCCAAATGATT
1 TCATTTCTCCATTTTCATTTCTATTTTGGAGAAAACCACATCTATTTCCAAATGATT
*
38274764 TCATTCCTCCATTTTCATTT-TCATTTTGGAGAAAACCTTA-ATC-ATTTCCAAAT-ATT
1 TCATTTCTCCATTTTCATTTCT-ATTTTGGAGAAAACC--ACATCTATTTCCAAATGATT
38274820 TCCTATTTCTCCATTT
1 T-C-ATTTCTCCATTT
38274836 CACCATTTCT
Statistics
Matches: 64, Mismatches: 2, Indels: 10
0.84 0.03 0.13
Matches are distributed among these distances:
56 12 0.19
57 37 0.58
58 14 0.22
59 1 0.02
ACGTcount: A:0.27, C:0.22, G:0.05, T:0.46
Consensus pattern (57 bp):
TCATTTCTCCATTTTCATTTCTATTTTGGAGAAAACCACATCTATTTCCAAATGATT
Found at i:38283577 original size:69 final size:68
Alignment explanation
Indices: 38283448--38283577 Score: 161
Period size: 69 Copynumber: 1.9 Consensus size: 68
38283438 AATTATAGTG
* * * * * *
38283448 TTTCTTGTCGTTAGTTACCTGCATTGTTTTTGCATTTATGCTATCCAAAGTGGGATAAATTTAAT
1 TTTCTTGTCGTTAATTACCTGCATTATTGTCGCATTTATGCTATCCAAAGTAGGACAAATTTAAT
38283513 GTT
66 GTT
* * * *
38283516 TTTCTTGTCGGTTAATTATCTGCATTATTGTCGCATTTCTGCTTTCCAAATTAGGACAAATT
1 TTTCTTGTC-GTTAATTACCTGCATTATTGTCGCATTTATGCTATCCAAAGTAGGACAAATT
38283578 AATTATACTT
Statistics
Matches: 51, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
68 9 0.18
69 42 0.82
ACGTcount: A:0.22, C:0.15, G:0.16, T:0.46
Consensus pattern (68 bp):
TTTCTTGTCGTTAATTACCTGCATTATTGTCGCATTTATGCTATCCAAAGTAGGACAAATTTAAT
GTT
Found at i:38287934 original size:19 final size:19
Alignment explanation
Indices: 38287912--38287950 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
38287902 ATATAACATG
* *
38287912 ATTCCACTATTTAGACACA
1 ATTCCACTAATCAGACACA
*
38287931 ATTCCATTAATCAGACACA
1 ATTCCACTAATCAGACACA
38287950 A
1 A
38287951 CCATTAAGGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.41, C:0.26, G:0.05, T:0.28
Consensus pattern (19 bp):
ATTCCACTAATCAGACACA
Found at i:38289808 original size:20 final size:21
Alignment explanation
Indices: 38289783--38289829 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
38289773 CAGGGATCAA
38289783 TTTGAAACAAAACA-GAAAAT
1 TTTGAAACAAAACATGAAAAT
*
38289803 TTTG-AAGAAAACATGAAAAT
1 TTTGAAACAAAACATGAAAAT
*
38289823 TTGGAAA
1 TTTGAAA
38289830 ATAAAGGTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 8 0.35
20 13 0.57
21 2 0.09
ACGTcount: A:0.55, C:0.06, G:0.15, T:0.23
Consensus pattern (21 bp):
TTTGAAACAAAACATGAAAAT
Found at i:38289825 original size:19 final size:19
Alignment explanation
Indices: 38289781--38289825 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 19
38289771 ATCAGGGATC
38289781 AATTTGAAACAAAACAGAA
1 AATTTGAAACAAAACAGAA
*
38289800 AATTTTG-AAGAAAACATGAA
1 AA-TTTGAAACAAAACA-GAA
38289820 AATTTG
1 AATTTG
38289826 GAAAATAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 14 0.61
20 9 0.39
ACGTcount: A:0.56, C:0.07, G:0.13, T:0.24
Consensus pattern (19 bp):
AATTTGAAACAAAACAGAA
Found at i:38306603 original size:24 final size:24
Alignment explanation
Indices: 38306556--38306603 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
38306546 TCATTCTGTA
**
38306556 GCAAAGGATGAATTGAAGGTAAAT
1 GCAAAGGATGAATTGAAGAAAAAT
38306580 GCAAAGGATGAATTGACA-AAAAAT
1 GCAAAGGATGAATTGA-AGAAAAAT
38306604 TACCCAAGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 20 0.95
25 1 0.05
ACGTcount: A:0.50, C:0.06, G:0.25, T:0.19
Consensus pattern (24 bp):
GCAAAGGATGAATTGAAGAAAAAT
Found at i:38306680 original size:21 final size:21
Alignment explanation
Indices: 38306654--38306702 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
38306644 CGTGTTTATT
*
38306654 TTCCGTTTAGCTCTTACGAGC
1 TTCCGTTTAGCTCTTACAAGC
38306675 TTCCGTTTAGCTCTTACAAGC
1 TTCCGTTTAGCTCTTACAAGC
38306696 TTCCGTT
1 TTCCGTT
38306703 CAACCCTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.14, C:0.29, G:0.16, T:0.41
Consensus pattern (21 bp):
TTCCGTTTAGCTCTTACAAGC
Found at i:38306729 original size:42 final size:42
Alignment explanation
Indices: 38306673--38306830 Score: 145
Period size: 42 Copynumber: 3.8 Consensus size: 42
38306663 GCTCTTACGA
* *
38306673 GCTTCCGTTTAGCTCTTACAAGCTTCCGTTCAACCCTTATGG
1 GCTTTCGTTTAGCTCTTACGAGCTTCCGTTCAACCCTTATGG
* ** ** * *
38306715 GCTTTCGTTAAGCTCTTTTGAGCTTTAGTTTAACCCTTATGA
1 GCTTTCGTTTAGCTCTTACGAGCTTCCGTTCAACCCTTATGG
* * * * * *
38306757 GTTTTTGTTCAGCTCTTACGAGTTTCCGTTCAACTCTAATGG
1 GCTTTCGTTTAGCTCTTACGAGCTTCCGTTCAACCCTTATGG
* * * *
38306799 GTTTTCGTTTAGCTCTCATGAGCTTCTGTTCA
1 GCTTTCGTTTAGCTCTTACGAGCTTCCGTTCA
38306831 GTCTTCAGGC
Statistics
Matches: 89, Mismatches: 27, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
42 89 1.00
ACGTcount: A:0.16, C:0.23, G:0.18, T:0.42
Consensus pattern (42 bp):
GCTTTCGTTTAGCTCTTACGAGCTTCCGTTCAACCCTTATGG
Found at i:38306774 original size:21 final size:21
Alignment explanation
Indices: 38306653--38306835 Score: 84
Period size: 21 Copynumber: 8.8 Consensus size: 21
38306643 TCGTGTTTAT
* *
38306653 TTTCCGTTTAGCTCTTACGAG
1 TTTCCGTTCAGCTCTTATGAG
* * **
38306674 CTTCCGTTTAGCTCTTACAAG
1 TTTCCGTTCAGCTCTTATGAG
* * * *
38306695 CTTCCGTTCAACCCTTATGGG
1 TTTCCGTTCAGCTCTTATGAG
* *
38306716 CTTT-CGTTAAGCTCTTTTGAG
1 -TTTCCGTTCAGCTCTTATGAG
* * * *
38306737 CTTT-AGTTTAACCCTTATGAG
1 -TTTCCGTTCAGCTCTTATGAG
** *
38306758 TTTTTGTTCAGCTCTTACGAG
1 TTTCCGTTCAGCTCTTATGAG
* * *
38306779 TTTCCGTTCAACTCTAATGGG
1 TTTCCGTTCAGCTCTTATGAG
* * *
38306800 TTTTCGTTTAGCTCTCATGAG
1 TTTCCGTTCAGCTCTTATGAG
* *
38306821 CTTCTGTTCAG-TCTT
1 TTTCCGTTCAGCTCTT
38306836 CAGGCTTTTG
Statistics
Matches: 120, Mismatches: 40, Indels: 5
0.73 0.24 0.03
Matches are distributed among these distances:
20 6 0.05
21 112 0.93
22 2 0.02
ACGTcount: A:0.16, C:0.23, G:0.17, T:0.43
Consensus pattern (21 bp):
TTTCCGTTCAGCTCTTATGAG
Found at i:38320578 original size:18 final size:18
Alignment explanation
Indices: 38320557--38320591 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
38320547 TTTTTCTTTT
38320557 TCAATTT-TTTTCTCAATC
1 TCAATTTCTTTT-TCAATC
38320575 TCAATTTCTTTTTCAAT
1 TCAATTTCTTTTTCAAT
38320592 TTTCTTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.23, C:0.20, G:0.00, T:0.57
Consensus pattern (18 bp):
TCAATTTCTTTTTCAATC
Found at i:38325083 original size:18 final size:18
Alignment explanation
Indices: 38325062--38325096 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
38325052 TTTTTCTTTT
38325062 TCAATTT-TTTTCTCAATC
1 TCAATTTCTTTT-TCAATC
38325080 TCAATTTCTTTTTCAAT
1 TCAATTTCTTTTTCAAT
38325097 TTTCTTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.23, C:0.20, G:0.00, T:0.57
Consensus pattern (18 bp):
TCAATTTCTTTTTCAATC
Found at i:38328029 original size:37 final size:37
Alignment explanation
Indices: 38327978--38328048 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
38327968 CATTTTTGTA
38327978 AAGAGAAAACAAAGAAAA-GAAAAGAAAAAGAAAAAGC
1 AAGAGAAAACAAAGAAAATG-AAAGAAAAAGAAAAAGC
*
38328015 AAGAGAAGAA-AAAGAAAATGAAATAAAAAGAAAA
1 AAGAGAA-AACAAAGAAAATGAAAGAAAAAGAAAA
38328049 GAGAGGCAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
37 28 0.90
38 3 0.10
ACGTcount: A:0.76, C:0.03, G:0.18, T:0.03
Consensus pattern (37 bp):
AAGAGAAAACAAAGAAAATGAAAGAAAAAGAAAAAGC
Found at i:38328048 original size:6 final size:6
Alignment explanation
Indices: 38327988--38328037 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
38327978 AAGAGAAAAC
*
38327988 AAAG-A AAAG-A AAAGAA AAAGAA AAAGCAA GAGAAGAA AAAGAA AATGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAG-AA -A-AAGAA AAAGAA AAAGAA
38328037 A
1 A
38328038 TAAAAAGAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
5 9 0.22
6 22 0.55
7 3 0.08
8 3 0.08
9 3 0.08
ACGTcount: A:0.76, C:0.02, G:0.20, T:0.02
Consensus pattern (6 bp):
AAAGAA
Found at i:38328129 original size:11 final size:12
Alignment explanation
Indices: 38328097--38328127 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
38328087 TTGAGAGAAC
38328097 TTGAAAAAGCCT
1 TTGAAAAAGCCT
38328109 TTGAAAAAGCCT
1 TTGAAAAAGCCT
38328121 TTGAAAA
1 TTGAAAA
38328128 GCAAAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:38328145 original size:11 final size:11
Alignment explanation
Indices: 38328131--38328160 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
38328121 TTGAAAAGCA
38328131 AAAAGAAAATG
1 AAAAGAAAATG
*
38328142 AAAAGGAAATG
1 AAAAGAAAATG
38328153 AAAAGAAA
1 AAAAGAAA
38328161 TTTGAGAGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.73, C:0.00, G:0.20, T:0.07
Consensus pattern (11 bp):
AAAAGAAAATG
Found at i:38330340 original size:30 final size:30
Alignment explanation
Indices: 38330306--38330402 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
38330296 AGCTCACTCC
38330306 TAGCTCATA-TTTAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTTAGCTCACGAGCTAAACCT
* * * * * *
38330336 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
* *
38330366 CAGCTCAACTTTAGCTCACGAGCTAAAACT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
38330396 TAGCTCA
1 TAGCTCA
38330403 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:38332471 original size:10 final size:10
Alignment explanation
Indices: 38332455--38332512 Score: 64
Period size: 10 Copynumber: 5.7 Consensus size: 10
38332445 CAACTCCGAC
38332455 CAGCTCAATT
1 CAGCTCAATT
* *
38332465 GAGCTCATTT
1 CAGCTCAATT
38332475 CAGCTCAA-T
1 CAGCTCAATT
38332484 CGAGCTCAATT
1 C-AGCTCAATT
*
38332495 TAGCTACAATT
1 CAGCT-CAATT
38332506 CAGCTCA
1 CAGCTCA
38332513 TTTATTTTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 2 0.05
10 27 0.69
11 10 0.26
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (10 bp):
CAGCTCAATT
Found at i:38332478 original size:20 final size:20
Alignment explanation
Indices: 38332455--38332515 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
38332445 CAACTCCGAC
38332455 CAGCTCAATTGAGCTCATTT
1 CAGCTCAATTGAGCTCATTT
*
38332475 CAGCTCAATCGAGCTCAATTT
1 CAGCTCAATTGAGCTC-ATTT
*
38332496 -AGCTACAATTCAGCTCATTT
1 CAGCT-CAATTGAGCTCATTT
38332516 ATTTTATTGG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (20 bp):
CAGCTCAATTGAGCTCATTT
Found at i:38333972 original size:13 final size:14
Alignment explanation
Indices: 38333946--38333988 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
38333936 TCTATTGAGC
38333946 GAGAAAAAGAAAAA
1 GAGAAAAAGAAAAA
*
38333960 GAGAAAAA-CAAAA
1 GAGAAAAAGAAAAA
*
38333973 GAGTGAAAAGAAAAA
1 GAG-AAAAAGAAAAA
38333988 G
1 G
38333989 GAAGAAAAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
13 7 0.29
14 12 0.50
15 5 0.21
ACGTcount: A:0.72, C:0.02, G:0.23, T:0.02
Consensus pattern (14 bp):
GAGAAAAAGAAAAA
Found at i:38344800 original size:27 final size:27
Alignment explanation
Indices: 38344770--38344947 Score: 137
Period size: 27 Copynumber: 6.6 Consensus size: 27
38344760 ATATTGAGCC
* *
38344770 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
38344797 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
38344824 CGCACACTTAGTGCTACATAGTCAAACC
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
38344852 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
38344879 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
38344906 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
38344933 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
38344948 GTACAATTTA
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 96 0.79
28 23 0.19
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:38344882 original size:55 final size:54
Alignment explanation
Indices: 38344770--38344947 Score: 164
Period size: 54 Copynumber: 3.3 Consensus size: 54
38344760 ATATTGAGCC
* * * * *
38344770 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
* * ** *
38344824 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACCCGCACACTTAGTGCCACATAATCAAAT
* *** *
38344879 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACCCGCACACTTAGTGCCACATAA-TCA-AAT
38344933 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
38344948 GTACAATTTA
Statistics
Matches: 100, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
53 1 0.01
54 55 0.55
55 44 0.44
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
Found at i:38350936 original size:14 final size:14
Alignment explanation
Indices: 38350917--38350985 Score: 50
Period size: 14 Copynumber: 4.6 Consensus size: 14
38350907 CAAAAATGTA
38350917 AAAATAAATTTAAG
1 AAAATAAATTTAAG
* *
38350931 AAAATAAAATAAATGG
1 AAAATAAATTTAA--G
*
38350947 ATAAATAAAATATTTTA-
1 A-AAAT--AA-ATTTAAG
38350964 AAAATAAATTTAAG
1 AAAATAAATTTAAG
38350978 AAAATAAA
1 AAAATAAA
38350986 ATAAATGGAT
Statistics
Matches: 42, Mismatches: 6, Indels: 14
0.68 0.10 0.23
Matches are distributed among these distances:
13 5 0.12
14 21 0.50
16 6 0.14
17 5 0.12
19 2 0.05
20 3 0.07
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.28
Consensus pattern (14 bp):
AAAATAAATTTAAG
Found at i:38350938 original size:20 final size:19
Alignment explanation
Indices: 38350891--38350944 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 19
38350881 TATGAAAAAT
*
38350891 AAAATAAAAATAGATTCAA
1 AAAATAAAAATAAATTCAA
* *
38350910 AAATGTAAAAATAAATTTAA
1 AAA-ATAAAAATAAATTCAA
38350930 GAAAAT-AAAATAAAT
1 -AAAATAAAAATAAAT
38350945 GGATAAATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 12 0.41
20 14 0.48
21 3 0.10
ACGTcount: A:0.69, C:0.02, G:0.06, T:0.24
Consensus pattern (19 bp):
AAAATAAAAATAAATTCAA
Found at i:38350974 original size:47 final size:47
Alignment explanation
Indices: 38350915--38351009 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
38350905 TTCAAAAATG
38350915 TAAAAATAAATTTAAGAAAATAAAATAAATGGATAAATAAAATATTT
1 TAAAAATAAATTTAAGAAAATAAAATAAATGGATAAATAAAATATTT
38350962 TAAAAATAAATTTAAGAAAATAAAATAAATGGATAAATAAAATATTT
1 TAAAAATAAATTTAAGAAAATAAAATAAATGGATAAATAAAATATTT
38351009 T
1 T
38351010 TTAGCTTAGC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (47 bp):
TAAAAATAAATTTAAGAAAATAAAATAAATGGATAAATAAAATATTT
Found at i:38357139 original size:12 final size:13
Alignment explanation
Indices: 38357112--38357136 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38357102 AAAAAATGCA
38357112 AAATTTTTATTTT
1 AAATTTTTATTTT
38357125 AAATTTTTATTT
1 AAATTTTTATTT
38357137 AAAAAACATT
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
AAATTTTTATTTT
Found at i:38357530 original size:24 final size:25
Alignment explanation
Indices: 38357503--38357549 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
38357493 ACCTTCTTAT
* *
38357503 TCCCTACGTTTTATTCT-TTTTGAG
1 TCCCTACATTTCATTCTATTTTGAG
38357527 TCCCTACATTTCATTCTATTTTG
1 TCCCTACATTTCATTCTATTTTG
38357550 GCGCCAACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.15, C:0.23, G:0.09, T:0.53
Consensus pattern (25 bp):
TCCCTACATTTCATTCTATTTTGAG
Found at i:38362603 original size:10 final size:11
Alignment explanation
Indices: 38362583--38362607 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
38362573 GTATTTGGTC
38362583 AAAAACAAAAA
1 AAAAACAAAAA
38362594 AAAAACAAAAA
1 AAAAACAAAAA
38362605 AAA
1 AAA
38362608 GAAAGAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAACAAAAA
Found at i:38363957 original size:14 final size:14
Alignment explanation
Indices: 38363934--38364029 Score: 50
Period size: 13 Copynumber: 7.4 Consensus size: 14
38363924 TAATGATAAT
38363934 AAATATTTAATATTA
1 AAATA-TTAATATTA
38363949 AAATATTAATATT-
1 AAATATTAATATTA
*
38363962 GAATATT--T-TT-
1 AAATATTAATATTA
*
38363972 -AATAAT-ATATTA
1 AAATATTAATATTA
38363984 AGAATATT-AT-TTA
1 A-AATATTAATATTA
* *
38363997 AAATTATTATTTTTA
1 AAA-TATTAATATTA
*
38364012 AAAT-TTATTATTA
1 AAATATTAATATTA
38364025 AAATA
1 AAATA
38364030 AATTGAAATA
Statistics
Matches: 67, Mismatches: 5, Indels: 19
0.74 0.05 0.21
Matches are distributed among these distances:
9 5 0.07
10 3 0.04
11 3 0.04
12 2 0.03
13 26 0.39
14 17 0.25
15 11 0.16
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (14 bp):
AAATATTAATATTA
Found at i:38363989 original size:23 final size:22
Alignment explanation
Indices: 38363962--38364005 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
38363952 TATTAATATT
38363962 GAATATT-TTTAATAATATATTAA
1 GAATATTATTTAA-AAT-TATTAA
38363985 GAATATTATTTAAAATTATTA
1 GAATATTATTTAAAATTATTA
38364006 TTTTTAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 5 0.25
23 10 0.50
24 5 0.25
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (22 bp):
GAATATTATTTAAAATTATTAA
Found at i:38364019 original size:16 final size:16
Alignment explanation
Indices: 38363988--38364024 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
38363978 ATATTAAGAA
38363988 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
38364004 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
38364020 TATTA
1 TATTA
38364025 AAATAAATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:38364060 original size:20 final size:20
Alignment explanation
Indices: 38364035--38364074 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
38364025 AAATAAATTG
38364035 AAATAATAAATAATTTATTA
1 AAATAATAAATAATTTATTA
38364055 AAATAATAAATAATTTATTA
1 AAATAATAAATAATTTATTA
38364075 TTATATGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
AAATAATAAATAATTTATTA
Found at i:38366772 original size:24 final size:24
Alignment explanation
Indices: 38366740--38366787 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
38366730 ATGAAGAATC
38366740 AATTGTATTTCAAAATTGAGCAGT
1 AATTGTATTTCAAAATTGAGCAGT
38366764 AATTGTATTTCAAAATTGAGCAGT
1 AATTGTATTTCAAAATTGAGCAGT
38366788 TCTTACTTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.38
Consensus pattern (24 bp):
AATTGTATTTCAAAATTGAGCAGT
Found at i:38367735 original size:31 final size:26
Alignment explanation
Indices: 38367699--38367766 Score: 66
Period size: 26 Copynumber: 2.4 Consensus size: 26
38367689 ATATTTAAAT
*
38367699 ATTTAAAATATAGCTTATATATTCTAATTAA
1 ATTTAAAATATA-ATTA-ATA-T-TAATT-A
38367730 ATTTAATAA-ATAATTAATATTAATTA
1 ATTTAA-AATATAATTAATATTAATTA
38367756 ATTTAAAATAT
1 ATTTAAAATAT
38367767 TTTAAAATTA
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
25 2 0.06
26 9 0.26
27 5 0.15
28 1 0.03
29 3 0.09
30 3 0.09
31 9 0.26
32 2 0.06
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.46
Consensus pattern (26 bp):
ATTTAAAATATAATTAATATTAATTA
Found at i:38370736 original size:24 final size:24
Alignment explanation
Indices: 38370709--38370771 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 24
38370699 TTATTAACAT
*
38370709 TGTTCGTGAACATGTTCAATTATA
1 TGTTCATGAACATGTTCAATTATA
*
38370733 TGTTCATGAACATGTTCGATTA-A
1 TGTTCATGAACATGTTCAATTATA
*
38370756 -GTTAAATGAACATGTT
1 TGTT-CATGAACATGTT
38370772 TGTGAATATT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
22 3 0.09
23 12 0.34
24 20 0.57
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.40
Consensus pattern (24 bp):
TGTTCATGAACATGTTCAATTATA
Found at i:38373841 original size:16 final size:16
Alignment explanation
Indices: 38373820--38373850 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
38373810 AATTAATTTA
*
38373820 AATTAATTAATTTTCC
1 AATTAAATAATTTTCC
38373836 AATTAAATAATTTTC
1 AATTAAATAATTTTC
38373851 TCAGCCCAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.48
Consensus pattern (16 bp):
AATTAAATAATTTTCC
Found at i:38381935 original size:28 final size:28
Alignment explanation
Indices: 38381877--38381969 Score: 82
Period size: 28 Copynumber: 3.3 Consensus size: 28
38381867 TTAGATGGCA
** * *
38381877 CCACAAAGGCATTCATT-TTTAGAAATAG
1 CCACAAAGGC-TTCATTAACTAGAGATTG
* *
38381905 CCATAAAGGCTTTC-TTATCTAGAGATTG
1 CCACAAAGGC-TTCATTAACTAGAGATTG
* *
38381933 CCACAAATGCTTCATTAACTAGAGATTA
1 CCACAAAGGCTTCATTAACTAGAGATTG
38381961 CCACAAAGG
1 CCACAAAGG
38381970 TGTCCTTTTC
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
27 5 0.09
28 48 0.91
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.28
Consensus pattern (28 bp):
CCACAAAGGCTTCATTAACTAGAGATTG
Found at i:38382091 original size:56 final size:56
Alignment explanation
Indices: 38382024--38382139 Score: 135
Period size: 56 Copynumber: 2.1 Consensus size: 56
38382014 GTCTCGCCAC
* * * * *
38382024 AAGGTTTCCTTTAAAAGGTTGGCCACGAGGGCTTACC-CTCTACAGTTTTACCATA
1 AAGGTTTCCTTTAAAAGGTTCGCCACAAAGGCTTACCTCTCCAAAGTTTTACCATA
* * * *
38382079 AAGGTTGTCCTTTAACATGTTCGCCACAAAGGCTTACCTTTCCAAAGTTTTCCCATA
1 AAGGTT-TCCTTTAAAAGGTTCGCCACAAAGGCTTACCTCTCCAAAGTTTTACCATA
38382136 AAGG
1 AAGG
38382140 CATTTCTTTC
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
55 6 0.12
56 26 0.52
57 18 0.36
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (56 bp):
AAGGTTTCCTTTAAAAGGTTCGCCACAAAGGCTTACCTCTCCAAAGTTTTACCATA
Found at i:38382271 original size:26 final size:26
Alignment explanation
Indices: 38382235--38382292 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
38382225 ATAATTGGGA
*
38382235 TTTGCCTAGACTCACATTTCATGAGG
1 TTTGCCTAGACTCACATTTCATAAGG
38382261 TTTGCCTAGACTCACATTTCATAAGG
1 TTTGCCTAGACTCACATTTCATAAGG
38382287 TTTGCC
1 TTTGCC
38382293 CTTCATTGTC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.36
Consensus pattern (26 bp):
TTTGCCTAGACTCACATTTCATAAGG
Found at i:38390659 original size:210 final size:210
Alignment explanation
Indices: 38390288--38390667 Score: 535
Period size: 210 Copynumber: 1.8 Consensus size: 210
38390278 CTTTTTTTCT
* * * *
38390288 CTTAGGATATCCCACAAACATGCACAATTCTATTCGTGAATTCAACTTCCTCGCATATTTATCCA
1 CTTAGGATATCCCACAAACATGCACAATTCTATCCGTAAATCCAACTTCCTCACATATTTATCCA
* * * ** * * * *
38390353 ATATGTGGGTTGGTTATCTACCATAGCTGATCATGATATTTGTATCCCTTTTCGCATAATTTTAT
66 ATACGTGAGTTGGTCATCTACCATAGCCAATCATGATATCTGTATCCCTTTTCACATAAATTTAG
* *
38390418 CTTGTTTAATAGTAAAATCAAGTCCTTTTAATAATAATTTCTGTTTCTAAATTTTAACTACTCAA
131 CTTGTTTAATAGTAAAATAAAGTCATTTTAATAATAATTTCTGTTTCTAAATTTTAACTACTCAA
38390483 AACGTACTTTGTTCC
196 AACGTACTTTGTTCC
* * * *
38390498 CTTAGGATATCCCACAAACATGCACAATTTTATCCGTAAATCCAACTTTCTCACATCTTTCTCCA
1 CTTAGGATATCCCACAAACATGCACAATTCTATCCGTAAATCCAACTTCCTCACATATTTATCCA
* * *
38390563 ATACGTGAGTTGGTCATCTGCCATAGCCAATCATGTTATCTGTATCCCTTTTCATATAAATTTAG
66 ATACGTGAGTTGGTCATCTACCATAGCCAATCATGATATCTGTATCCCTTTTCACATAAATTTAG
* * *
38390628 CTTGTTTAATATTAAAATAAAGTTATTTTAATGATAATTT
131 CTTGTTTAATAGTAAAATAAAGTCATTTTAATAATAATTT
38390668 ATGTATTTAC
Statistics
Matches: 145, Mismatches: 25, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
210 145 1.00
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.40
Consensus pattern (210 bp):
CTTAGGATATCCCACAAACATGCACAATTCTATCCGTAAATCCAACTTCCTCACATATTTATCCA
ATACGTGAGTTGGTCATCTACCATAGCCAATCATGATATCTGTATCCCTTTTCACATAAATTTAG
CTTGTTTAATAGTAAAATAAAGTCATTTTAATAATAATTTCTGTTTCTAAATTTTAACTACTCAA
AACGTACTTTGTTCC
Found at i:38390922 original size:20 final size:20
Alignment explanation
Indices: 38390897--38390997 Score: 69
Period size: 21 Copynumber: 5.0 Consensus size: 20
38390887 CAATATTAGA
38390897 ATTGAATGTCGCGACATTGG
1 ATTGAATGTCGCGACATTGG
* * *
38390917 ATTGAATGTTGC-AAATTAGA
1 ATTGAATGTCGCGACATT-GG
*
38390937 ATTGAATGTAGCGACATTGGG
1 ATTGAATGTCGCGACATT-GG
** * * *
38390958 GCTAAATGTTGCAACATTGG
1 ATTGAATGTCGCGACATTGG
**
38390978 ATTTTTATGTCGCGACATTG
1 A-TTGAATGTCGCGACATTG
38390998 ACTTTGTGCA
Statistics
Matches: 60, Mismatches: 18, Indels: 5
0.72 0.22 0.06
Matches are distributed among these distances:
19 4 0.07
20 25 0.42
21 31 0.52
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.34
Consensus pattern (20 bp):
ATTGAATGTCGCGACATTGG
Found at i:38391882 original size:40 final size:41
Alignment explanation
Indices: 38391823--38391902 Score: 126
Period size: 40 Copynumber: 2.0 Consensus size: 41
38391813 TAATTTTAAT
* *
38391823 TTAGAATTGAATGTCGCGACATT-GGATTGAATGTTGCAAA
1 TTAGAATTGAATGTAGCGACATTGGGACTGAATGTTGCAAA
*
38391863 TTAGAATTGAATGTAGCGACATTGGGGCTGAATGTTGCAA
1 TTAGAATTGAATGTAGCGACATTGGGACTGAATGTTGCAA
38391903 CATTGGATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
40 22 0.61
41 14 0.39
ACGTcount: A:0.31, C:0.10, G:0.28, T:0.31
Consensus pattern (41 bp):
TTAGAATTGAATGTAGCGACATTGGGACTGAATGTTGCAAA
Found at i:38392694 original size:932 final size:931
Alignment explanation
Indices: 38390892--38392757 Score: 3543
Period size: 932 Copynumber: 2.0 Consensus size: 931
38390882 TGCCGCAATA
38390892 TTAGAATTGAATGTCGCGACATTGGATTGAATGTTGCAAATTAGAATTGAATGTAGCGACATTGG
1 TTAGAATTGAATGTCGCGACATTGGATTGAATGTTGCAAATTAGAATTGAATGTAGCGACATTGG
38390957 GGCTAAATGTTGCAACATTGGATTTTTATGTCGCGACATTGACTTTGTGCAACGATGATTTCCTT
66 GGCTAAATGTTGCAACATTGGATTTTTATGTCGCGACATTGACTTTGTGCAACGATGATTTCCTT
*
38391022 CATGCATCGATTCTGATTTTAAGGGCAATTAGAGGTCTTTTTCCAACTTAAAACCTTAATTGAAA
131 CATGCATCGATTCTGATTTTAAGGGCAATTAGAGGTCATTTTCCAACTTAAAACCTTAATTGAAA
*
38391087 TTATAAATGAAGGGGCAATTTATTCTTTTGACTTTTATCTATATAAACAACATTATAATCAAATT
196 TTATAAATGAAGGGGCAATTTATCCTTTTGACTTTTATCTATATAAACAACATTATAATCAAATT
*
38391152 TGAGGGGACTTTTACACAAATTGCACTTAATCTTTCAGAAAATTAGGTTTTTACTTAAATGTTCT
261 TGAGGGGACTTTTACACAAATTACACTTAATCTTTCAGAAAATTAGGTTTTTACTTAAATGTTCT
38391217 CTTAATAGGAGATTCTATTTAGAAGTTTATTCATTACGAGTGGAGAATGTTCTAGACGCGTGCAT
326 CTTAATAGGAGATTCTATTTAGAAGTTTATTCATTACGAGTGGAGAATGTTCTAGACGCGTGCAT
*
38391282 TCGCGTTACTTATCAATGAGCATTCTATTCTTTATTCTCTTTATTTATATCTCCTCATTAATGTA
391 TCGCGTTACTAATCAATGAGCATTCTATTCTTTATTCTCTTTATTTATATCTCCTCATTAATGTA
* * *
38391347 ATTAACTGAATGTTTGTATGAATAAGAGAATAAAACCTATGTTTTCAGAAATATCTTGCGTGATT
456 ATTAACTAAATGTTTGTATGAATAAGAGAATAAAAACTATGCTTTCAGAAATATCTTGCGTGATT
*
38391412 GTTTGAGTAACTAATTATTTCATTCAGTGCTTGTTTATCTAAAATTGGGTATTTATTTGAGTTTG
521 GTTTGAGTAACTAATTATTTCATTCAGTGCTTGTTTATCTAAAATTGGGGATTTATTTGAGTTTG
38391477 CTAAAGTTCTCAATATACTAGGATAGACAACCCTAGTAGAATATCTAGATAGATGAGACCGAAAG
586 CTAAAGTTCTCAATATACTAGGATAGACAACCCTAGTAGAATATCTAGATAGATGAGACCGAAAG
38391542 GGTACTCTATTATGTAAGCCTTTAGTAAGCTTGTGCTGAGCGGTGAGACCGAAAGAGTATGCATA
651 GGTACTCTATTATGTAAGCCTTTAGTAAGCTTGTGCTGAGCGGTGAGACCGAAAGAGTATGCATA
*
38391607 TGCTTAGTGGAGACCAAAAGGGTATCTTAGGTAGTAACTCTTAGAGAGGATGACACCGAGAGGGC
716 TGCTTAGTGGAGACCAAAAGGGTATCTTAGATAGTAACTCTTAGAGAGGATGACACCGAGAGGGC
38391672 ATTCTTAGTTACGGGTGGTAAATAATTCAATTGAAGTAAATATTGGTTTCATTGATAATTAGCAA
781 ATTCTTAGTTACGGGTGGTAAATAATTCAATTGAAGTAAATATTGGTTTCATTGATAATTAGCAA
38391737 TTCAACCAACTTTAGGCTAAGTAGCTCACTCGTTTAAACAAGGAATAGGAAGTTTCAATAGTCTT
846 TTCAACCAACTTTAGGCTAAGTAGCTCACTCGTTTAAACAAGGAATAGGAAGTTTCAATAGTCTT
38391802 AACCTTCAGTTTAATTTTAAT
911 AACCTTCAGTTTAATTTTAAT
38391823 TTAGAATTGAATGTCGCGACATTGGATTGAATGTTGCAAATTAGAATTGAATGTAGCGACATTGG
1 TTAGAATTGAATGTCGCGACATTGGATTGAATGTTGCAAATTAGAATTGAATGTAGCGACATTGG
*
38391888 GGCTGAATGTTGCAACATTGGATTTTTATGTCGCGACATTGACTTTGTGCAACGATGATTTCCTT
66 GGCTAAATGTTGCAACATTGGATTTTTATGTCGCGACATTGACTTTGTGCAACGATGATTTCCTT
38391953 CATGCATCGATTCTGATTTTAAGGGCAATTAGAGGTCATTTTCCAACTTAAAACCTTAATTGAAA
131 CATGCATCGATTCTGATTTTAAGGGCAATTAGAGGTCATTTTCCAACTTAAAACCTTAATTGAAA
38392018 TTATAAATGAAGGGGCAATTTATCCTTTTGACTTTTATCTATATAAACAACATTATAATCAAATT
196 TTATAAATGAAGGGGCAATTTATCCTTTTGACTTTTATCTATATAAACAACATTATAATCAAATT
* *
38392083 TGAGGGGACTTTTACACAAATTACACTTAATCTTTCAGAAAATTAGGTTTTTACTTAGATGTTTT
261 TGAGGGGACTTTTACACAAATTACACTTAATCTTTCAGAAAATTAGGTTTTTACTTAAATGTTCT
* * *
38392148 CTTAATAGGAGATTCTATTTAGAAGTTTATTCATTGCGAGTGGAGAATGTTCTAGATGTGTGCAT
326 CTTAATAGGAGATTCTATTTAGAAGTTTATTCATTACGAGTGGAGAATGTTCTAGACGCGTGCAT
*
38392213 TCGTCGTTACTAATCAATGAGCATTCTATTCTTTATTCTCTTTATTTATATCTCCTTATTAATGT
391 TCG-CGTTACTAATCAATGAGCATTCTATTCTTTATTCTCTTTATTTATATCTCCTCATTAATGT
* *
38392278 AATTAACTAAATGTTTGTATGAATAGGAGAATAAAAACTATGCTTTCATAAATATCTTGCGTGAT
455 AATTAACTAAATGTTTGTATGAATAAGAGAATAAAAACTATGCTTTCAGAAATATCTTGCGTGAT
38392343 TGTTTGAGTAACTAATTATTTCATTCAGTGCTTGTTTATCTAAAATTGGGGATTTATTTGAGTTT
520 TGTTTGAGTAACTAATTATTTCATTCAGTGCTTGTTTATCTAAAATTGGGGATTTATTTGAGTTT
38392408 GCTAAAGTTCTCAATATACTAGGATAGACAACCCTAGTAGAATATCTAGATAGATGAGACCGAAA
585 GCTAAAGTTCTCAATATACTAGGATAGACAACCCTAGTAGAATATCTAGATAGATGAGACCGAAA
*
38392473 GGGTACTCTATTATGTAAGCCTTTAGTAAGCTTGTGCTGAGCGGTGAGACCGAAAGAGTATGCTT
650 GGGTACTCTATTATGTAAGCCTTTAGTAAGCTTGTGCTGAGCGGTGAGACCGAAAGAGTATGCAT
*
38392538 ATGCTTAGTGGAGACCAAAAGGGTATCTTAGATAGTAATTCTTAGAGAGGATGACACCGAGAGGG
715 ATGCTTAGTGGAGACCAAAAGGGTATCTTAGATAGTAACTCTTAGAGAGGATGACACCGAGAGGG
38392603 CATTCTTAGTTACGGGTGGTAAATAATTCAATTGAAGTAAATATTGGTTTCATTGATAATTAGCA
780 CATTCTTAGTTACGGGTGGTAAATAATTCAATTGAAGTAAATATTGGTTTCATTGATAATTAGCA
38392668 ATTCAACCAACTTTAGGCTAAGTAGCTCACTCGTTTAAACAAGGAATAGGAAGTTTCAATAGTCT
845 ATTCAACCAACTTTAGGCTAAGTAGCTCACTCGTTTAAACAAGGAATAGGAAGTTTCAATAGTCT
38392733 TAACCTTCAGTTTAATTTTAAT
910 TAACCTTCAGTTTAATTTTAAT
38392755 TTA
1 TTA
38392758 ATTAGTTTTA
Statistics
Matches: 914, Mismatches: 20, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
931 384 0.42
932 530 0.58
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.36
Consensus pattern (931 bp):
TTAGAATTGAATGTCGCGACATTGGATTGAATGTTGCAAATTAGAATTGAATGTAGCGACATTGG
GGCTAAATGTTGCAACATTGGATTTTTATGTCGCGACATTGACTTTGTGCAACGATGATTTCCTT
CATGCATCGATTCTGATTTTAAGGGCAATTAGAGGTCATTTTCCAACTTAAAACCTTAATTGAAA
TTATAAATGAAGGGGCAATTTATCCTTTTGACTTTTATCTATATAAACAACATTATAATCAAATT
TGAGGGGACTTTTACACAAATTACACTTAATCTTTCAGAAAATTAGGTTTTTACTTAAATGTTCT
CTTAATAGGAGATTCTATTTAGAAGTTTATTCATTACGAGTGGAGAATGTTCTAGACGCGTGCAT
TCGCGTTACTAATCAATGAGCATTCTATTCTTTATTCTCTTTATTTATATCTCCTCATTAATGTA
ATTAACTAAATGTTTGTATGAATAAGAGAATAAAAACTATGCTTTCAGAAATATCTTGCGTGATT
GTTTGAGTAACTAATTATTTCATTCAGTGCTTGTTTATCTAAAATTGGGGATTTATTTGAGTTTG
CTAAAGTTCTCAATATACTAGGATAGACAACCCTAGTAGAATATCTAGATAGATGAGACCGAAAG
GGTACTCTATTATGTAAGCCTTTAGTAAGCTTGTGCTGAGCGGTGAGACCGAAAGAGTATGCATA
TGCTTAGTGGAGACCAAAAGGGTATCTTAGATAGTAACTCTTAGAGAGGATGACACCGAGAGGGC
ATTCTTAGTTACGGGTGGTAAATAATTCAATTGAAGTAAATATTGGTTTCATTGATAATTAGCAA
TTCAACCAACTTTAGGCTAAGTAGCTCACTCGTTTAAACAAGGAATAGGAAGTTTCAATAGTCTT
AACCTTCAGTTTAATTTTAAT
Found at i:38392779 original size:21 final size:20
Alignment explanation
Indices: 38392741--38392781 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
38392731 CTTAACCTTC
*
38392741 AGTTTAATTTTAATTTAATT
1 AGTTTAATTTCAATTTAATT
*
38392761 AGTTTTATTTCAATCTTAATT
1 AGTTTAATTTCAAT-TTAATT
38392782 TGGAATTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.59
Consensus pattern (20 bp):
AGTTTAATTTCAATTTAATT
Found at i:38394553 original size:37 final size:37
Alignment explanation
Indices: 38394511--38394583 Score: 146
Period size: 37 Copynumber: 2.0 Consensus size: 37
38394501 GTCATACATA
38394511 GTATGAATAAGTCCAATTCCAACATTGTCATATTATG
1 GTATGAATAAGTCCAATTCCAACATTGTCATATTATG
38394548 GTATGAATAAGTCCAATTCCAACATTGTCATATTAT
1 GTATGAATAAGTCCAATTCCAACATTGTCATATTAT
38394584 CACAGTGAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (37 bp):
GTATGAATAAGTCCAATTCCAACATTGTCATATTATG
Done.