Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D03
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: 50986338
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 218898 characters in sequence are not A, C, G, or T
File 104 of 170
Found at i:32369644 original size:18 final size:19
Alignment explanation
Indices: 32369621--32369668 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
32369611 TGTTTTTTTA
32369621 TATTATTGTTTA-TACCGT
1 TATTATTGTTTAGTACCGT
**
32369639 TATTATTCATTAGTACCGT
1 TATTATTGTTTAGTACCGT
*
32369658 TGATTTTTGTT
1 T-ATTATTGTT
32369669 GTTTTTTTTA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
18 10 0.43
19 7 0.30
20 6 0.26
ACGTcount: A:0.21, C:0.10, G:0.12, T:0.56
Consensus pattern (19 bp):
TATTATTGTTTAGTACCGT
Found at i:32377199 original size:6 final size:6
Alignment explanation
Indices: 32377185--32377254 Score: 95
Period size: 6 Copynumber: 11.7 Consensus size: 6
32377175 CCGGACTGAT
* * * * *
32377185 TCCGCC TCGGCC TCGGCC TCGGCC TCGGCC TCTGCC TCCGCC TCCGCC
1 TCCGCC TCCGCC TCCGCC TCCGCC TCCGCC TCCGCC TCCGCC TCCGCC
32377233 TCCGCC TCCGCC TCCGCC TCCG
1 TCCGCC TCCGCC TCCGCC TCCG
32377255 GTCCTATTAC
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 61 1.00
ACGTcount: A:0.00, C:0.59, G:0.23, T:0.19
Consensus pattern (6 bp):
TCCGCC
Found at i:32381972 original size:47 final size:47
Alignment explanation
Indices: 32381896--32382107 Score: 309
Period size: 47 Copynumber: 4.5 Consensus size: 47
32381886 CTTCGGGACT
* * * * * *
32381896 TATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
32381943 TGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGG-CC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
* *
32381989 TCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCT
1 T-ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
32382037 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
32382084 TATCACATATATACACATTCACAT
1 TATCACATATATACACTTTCACAT
32382108 CACAATTATC
Statistics
Matches: 151, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
46 3 0.02
47 146 0.97
48 2 0.01
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
Found at i:32387989 original size:33 final size:33
Alignment explanation
Indices: 32387938--32388000 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
32387928 ATTACAAATA
*
32387938 TTTAATAGTTATATTTAAATATTTA-AAATATAG
1 TTTAATAGTTATAATTAAAT-TTTATAAATATAG
32387971 TTTATATA-TTATAATTAAATTTTATAAATA
1 TTTA-ATAGTTATAATTAAATTTTATAAATA
32388001 ATTAATATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
32 4 0.15
33 20 0.74
34 3 0.11
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (33 bp):
TTTAATAGTTATAATTAAATTTTATAAATATAG
Found at i:32394427 original size:21 final size:19
Alignment explanation
Indices: 32394390--32394464 Score: 96
Period size: 19 Copynumber: 3.8 Consensus size: 19
32394380 AATCATATCT
32394390 TCCAAGATTGCATATCATA
1 TCCAAGATTGCATATCATA
32394409 TCCAAGATTGCATATATCATA
1 TCCAAGATTGC--ATATCATA
** *
32394430 TTTAAGATTTCATATCATA
1 TCCAAGATTGCATATCATA
*
32394449 TCTAAGATTGCATATC
1 TCCAAGATTGCATATC
32394465 CTTGAAGATT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
19 33 0.67
21 16 0.33
ACGTcount: A:0.36, C:0.17, G:0.09, T:0.37
Consensus pattern (19 bp):
TCCAAGATTGCATATCATA
Found at i:32394913 original size:43 final size:43
Alignment explanation
Indices: 32394860--32395001 Score: 99
Period size: 43 Copynumber: 3.3 Consensus size: 43
32394850 TGTCTTCGAT
*
32394860 CTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTAAC
1 CTGCTCCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTAAC
**** * * * * * *
32394903 CTGCTCCGCTG-CAACCCAGGGAGGTAAG-GCTGGTGTTTTCAAT
1 CTGCTCCGCTGTCGGTGCAGGAAGGCAAGATCTGCT-ATTT-AAC
* * * *
32394946 CTGCTTCACTGTTGGTGCAGGAAGGCATGATCTGCTATTTTTAAC
1 CTGCTCCGCTGTCGGTGCAGGAAGGCAAGATCTGCTA--TTTAAC
32394991 CTGCTCCGCTG
1 CTGCTCCGCTG
32395002 CAACCCAGGG
Statistics
Matches: 66, Mismatches: 27, Indels: 10
0.64 0.26 0.10
Matches are distributed among these distances:
41 4 0.06
42 14 0.21
43 21 0.32
44 9 0.14
45 15 0.23
46 3 0.05
ACGTcount: A:0.18, C:0.25, G:0.27, T:0.30
Consensus pattern (43 bp):
CTGCTCCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTAAC
Found at i:32395032 original size:88 final size:88
Alignment explanation
Indices: 32394826--32396302 Score: 1652
Period size: 88 Copynumber: 16.9 Consensus size: 88
32394816 CTTGATCTAT
* * * *
32394826 TGCAACTC-AGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGA
1 TGCAAC-CGAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCACTGTCAGTACAGGAAGGCAAGA
32394890 TCTGCTA--TTTAACCTGCTCCGC
65 TCTGCTATCTTTAACCTGCTCCGC
* * * * * ** * *
32394912 TGCAACCCAGGGAGGTAAGGCTGGTGTTTTCAATCTGCTTCACTGTTGGTGCAGGAAGGCATGAT
1 TGCAACCGAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCACTGTCAGTACAGGAAGGCAAGAT
*
32394977 CTGCTATTTTTAACCTGCTCCGC
66 CTGCTATCTTTAACCTGCTCCGC
* *
32395000 TGCAACCCAGGGAGGCAAGGCTAGTGTCTTCAATCTGCTTCACTGTCAGTACAGGAAGGCAAGAT
1 TGCAACCGAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCACTGTCAGTACAGGAAGGCAAGAT
*
32395065 CTGCTATCTTTAACCTGCTCTGC
66 CTGCTATCTTTAACCTGCTCCGC
* * * * *
32395088 TGCCACTGAGGGAGGCAAGGCTAGTGTCTTCAATATGCTTCACTGTTAGTACAGGAAGGCAAGAT
1 TGCAACCGAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCACTGTCAGTACAGGAAGGCAAGAT
32395153 CTGCTATCTTTAACCTGCTCCGC
66 CTGCTATCTTTAACCTGCTCCGC
* *
32395176 TGCCACCGAGGGAGGCAAGGCTAGTGTCTTCAATCTGCTTCACTGTCAGTACAGGAAGGCAAGAT
1 TGCAACCGAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCACTGTCAGTACAGGAAGGCAAGAT
*
32395241 CCGCTATCTTTAACCTGCTCCGC
66 CTGCTATCTTTAACCTGCTCCGC
* *
32395264 TGCCACCGAGGGAGGCAAGGCTAGTGTCTTCAATCTGCTTCACTGTCAGTACAGGAAGGCAAGAT
1 TGCAACCGAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCACTGTCAGTACAGGAAGGCAAGAT
*
32395329 CTGCTATCTTTAACCTGCTCTGC
66 CTGCTATCTTTAACCTGCTCCGC
* * * * * * * * **
32395352 TGCCACCGAGGGAGGTAAGGCTAGTGTCTTCGATCTACTCCACT-CCTGCT-TAGGGAGATAAGA
1 TGCAACCGAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCACTGTCAG-TACAGGAAGGCAAGA
* *
32395415 TCTGCAAT-TTTCAACCTGCTCTGC
65 TCTGCTATCTTT-AACCTGCTCCGC
* * * * * * *
32395439 TGTAACCTAGGGAGGCAAGGCTGGTGTCTTTGATCTGCTTCGCTG-CCGATACAGGAAGACAAGA
1 TGCAACCGAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCACTGTCAG-TACAGGAAGGCAAGA
* *
32395503 TCTGCTATTTTTAACCTGCTCCAC
65 TCTGCTATCTTTAACCTGCTCCGC
* * ** * *
32395527 TGCAACCCAGAGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGTTGTTAGTACAAGAAGGCAAGAT
1 TGCAACCGAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCACTGTCAGTACAGGAAGGCAAGAT
*
32395592 CTGCTATCTTTAACCTACTCCGC
66 CTGCTATCTTTAACCTGCTCCGC
* * * * * * *
32395615 TGCCACCGAGGGAGGCCAGGCTAGTGTCTTCAATCTGCTTCACTATTAGTATAAGAAGGCAAGAT
1 TGCAACCGAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCACTGTCAGTACAGGAAGGCAAGAT
*
32395680 CTGCTATCCTTAACCTGCTCCGC
66 CTGCTATCTTTAACCTGCTCCGC
* ** *
32395703 TGCCACCGAGGGAGGCAAGGCTAGTGTCTTTAATCTGCTTCACTGTCAGTACAGGAAGACAAGAT
1 TGCAACCGAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCACTGTCAGTACAGGAAGGCAAGAT
* * *
32395768 CTGTTATCTTTAACCCGCTCCAC
66 CTGCTATCTTTAACCTGCTCCGC
* * * * * *
32395791 TGCCACCGAGGGAGGTAAGGCTAGTGTCTTCAATCTGCTTCACTATCAGTACAGGAAGACAATAT
1 TGCAACCGAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCACTGTCAGTACAGGAAGGCAAGAT
* *
32395856 CTGTTATCTTTAACCTGCTCTGC
66 CTGCTATCTTTAACCTGCTCCGC
* * * * * * * * **
32395879 TGCCACCGAGGGAGGCAAGGTTAGTGTCTTCGATCTACTCCACT-ACTGCT-TAGGGAGATAAGA
1 TGCAACCGAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCACTGTCAG-TACAGGAAGGCAAGA
* *
32395942 TCTG-TAAT-TTTCAACC-GCACTGC
65 TCTGCT-ATCTTT-AACCTGCTCCGC
* * * * * *
32395965 TGCAACCTAGGGAGGCAAGGCTGGTGTCTTTGATCTGCTTCGCTG-CCGATATAGGAAGGCAAGA
1 TGCAACCGAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCACTGTCAG-TACAGGAAGGCAAGA
* * *
32396029 TTTGCTATTTTTAACCTGCTCCAC
65 TCTGCTATCTTTAACCTGCTCCGC
* ** *
32396053 TGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGTTGTTAG-ACAGGAAGGCAAGAT
1 TGCAACCGAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCACTGTCAGTACAGGAAGGCAAGAT
* *
32396117 CTGCTATTTTTAACTTGCTCCGC
66 CTGCTATCTTTAACCTGCTCCGC
* * * * * * * *
32396140 TGCAACCCAGGGAGGCAAGGTTGGTGTCTTCGATCTACTTCGCTGTCGGTGCAGGAAGACAAGAT
1 TGCAACCGAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCACTGTCAGTACAGGAAGGCAAGAT
* *
32396205 CTGCTATTTTTAACCTGCTCCAC
66 CTGCTATCTTTAACCTGCTCCGC
* * * * * * *
32396228 TACAACTC-AGGGAGGCAAGGTTGGTGCCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGA
1 TGCAAC-CGAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCACTGTCAGTACAGGAAGGCAAGA
*
32396292 TCTGTTATCTT
65 TCTGCTATCTT
32396303 CACTGATCTG
Statistics
Matches: 1219, Mismatches: 152, Indels: 38
0.87 0.11 0.03
Matches are distributed among these distances:
85 1 0.00
86 115 0.09
87 185 0.15
88 912 0.75
89 6 0.00
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.27
Consensus pattern (88 bp):
TGCAACCGAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCACTGTCAGTACAGGAAGGCAAGAT
CTGCTATCTTTAACCTGCTCCGC
Found at i:32395780 original size:45 final size:45
Alignment explanation
Indices: 32395729--32395874 Score: 120
Period size: 45 Copynumber: 3.3 Consensus size: 45
32395719 AAGGCTAGTG
*
32395729 TCTTTAATCTGCTTCACTGTCAGTACAGGAAGACAAGATCTGTTA
1 TCTTTAACCTGCTTCACTGTCAGTACAGGAAGACAAGATCTGTTA
* * * * * ** * *
32395774 TCTTTAACCCGCTCCACTGCCA--CCGAGGGAGGTAAG-GCTAG-TG
1 TCTTTAACCTGCTTCACTGTCAGTAC-AGGAAGACAAGATCT-GTTA
* * * *
32395817 TCTTCAATCTGCTTCACTATCAGTACAGGAAGACAATATCTGTTA
1 TCTTTAACCTGCTTCACTGTCAGTACAGGAAGACAAGATCTGTTA
32395862 TCTTTAACCTGCT
1 TCTTTAACCTGCT
32395875 CTGCTGCCAC
Statistics
Matches: 70, Mismatches: 25, Indels: 12
0.65 0.23 0.11
Matches are distributed among these distances:
43 20 0.29
44 17 0.24
45 33 0.47
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (45 bp):
TCTTTAACCTGCTTCACTGTCAGTACAGGAAGACAAGATCTGTTA
Found at i:32395893 original size:527 final size:527
Alignment explanation
Indices: 32394886--32396302 Score: 2135
Period size: 527 Copynumber: 2.7 Consensus size: 527
32394876 GCAGGAAGGC
* * * * *
32394886 AAGATCTGCTA-TTT-AACCTGCTCCGCTGCAACCCAGGGAGGTAAGGCTGGTGT-TTTCAATCT
1 AAGATCTGCAATTTTCAACCTGCTCTGCTGCAACCTAGGGAGGCAAGGCTGGTGTCTTT-GATCT
* ** * * * *
32394948 GCTTCACTGTTGGTGCAGGAAGGCATGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGGA
65 GCTTCGCTGCCGATACAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTGCAACCCAGGGA
* ** *
32395013 GGCAAGGCTAGTGTCTTCAATCTGCTTCACTGTCAGTACAGGAAGGCAAGATCTGCTATCTTTAA
130 GGCAAGGCTAGTGTCTTCGATCTGCTTCGTTGTTAGTACAGGAAGGCAAGATCTGCTATCTTTAA
* * *
32395078 CCTGCTCTGCTGCCACTGAGGGAGGCAAGGCTAGTGTCTTCAATATGCTTCACTGTTAGTACAGG
195 CCTGCTCCGCTGCCACCGAGGGAGGCAAGGCTAGTGTCTTCAATCTGCTTCACTGTTAGTACAGG
32395143 AAGGCAAGATCTGCTATCTTTAACCTGCTCCGCTGCCACCGAGGGAGGCAAGGCTAGTGTCTTCA
260 AAGGCAAGATCTGCTATCTTTAACCTGCTCCGCTGCCACCGAGGGAGGCAAGGCTAGTGTCTTCA
* * * *
32395208 ATCTGCTTCACTGTCAGTACAGGAAGGCAAGATCCGCTATCTTTAACCTGCTCCGCTGCCACCGA
325 ATCTGCTTCACTGTCAGTACAGGAAGGCAAGATCTGTTATCTTTAACCCGCTCCACTGCCACCGA
* *
32395273 GGGAGGCAAGGCTAGTGTCTTCAATCTGCTTCACTGTCAGTACAGGAAGGCAAGATCTGCTATCT
390 GGGAGGCAAGGCTAGTGTCTTCAATCTGCTTCACTATCAGTACAGGAAGACAAGATCTGCTATCT
* *
32395338 TTAACCTGCTCTGCTGCCACCGAGGGAGGTAAGGCTAGTGTCTTCGATCTACTCCACTCCTGCTT
455 TTAACCTGCTCTGCTGCCACCGAGGGAGGCAAGGCTAGTGTCTTCGATCTACTCCACTACTGCTT
32395403 AGGGAGAT
520 AGGGAGAT
*
32395411 AAGATCTGCAATTTTCAACCTGCTCTGCTGTAACCTAGGGAGGCAAGGCTGGTGTCTTTGATCTG
1 AAGATCTGCAATTTTCAACCTGCTCTGCTGCAACCTAGGGAGGCAAGGCTGGTGTCTTTGATCTG
* *
32395476 CTTCGCTGCCGATACAGGAAGACAAGATCTGCTATTTTTAACCTGCTCCACTGCAACCCAGAGAG
66 CTTCGCTGCCGATACAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTGCAACCCAGGGAG
*
32395541 GCAAGGCTAGTGTCTTCGATCTGCTTCGTTGTTAGTACAAGAAGGCAAGATCTGCTATCTTTAAC
131 GCAAGGCTAGTGTCTTCGATCTGCTTCGTTGTTAGTACAGGAAGGCAAGATCTGCTATCTTTAAC
* * * * *
32395606 CTACTCCGCTGCCACCGAGGGAGGCCAGGCTAGTGTCTTCAATCTGCTTCACTATTAGTATAAGA
196 CTGCTCCGCTGCCACCGAGGGAGGCAAGGCTAGTGTCTTCAATCTGCTTCACTGTTAGTACAGGA
* *
32395671 AGGCAAGATCTGCTATCCTTAACCTGCTCCGCTGCCACCGAGGGAGGCAAGGCTAGTGTCTTTAA
261 AGGCAAGATCTGCTATCTTTAACCTGCTCCGCTGCCACCGAGGGAGGCAAGGCTAGTGTCTTCAA
*
32395736 TCTGCTTCACTGTCAGTACAGGAAGACAAGATCTGTTATCTTTAACCCGCTCCACTGCCACCGAG
326 TCTGCTTCACTGTCAGTACAGGAAGGCAAGATCTGTTATCTTTAACCCGCTCCACTGCCACCGAG
* * *
32395801 GGAGGTAAGGCTAGTGTCTTCAATCTGCTTCACTATCAGTACAGGAAGACAATATCTGTTATCTT
391 GGAGGCAAGGCTAGTGTCTTCAATCTGCTTCACTATCAGTACAGGAAGACAAGATCTGCTATCTT
*
32395866 TAACCTGCTCTGCTGCCACCGAGGGAGGCAAGGTTAGTGTCTTCGATCTACTCCACTACTGCTTA
456 TAACCTGCTCTGCTGCCACCGAGGGAGGCAAGGCTAGTGTCTTCGATCTACTCCACTACTGCTTA
32395931 GGGAGAT
521 GGGAGAT
* *
32395938 AAGATCTGTAATTTTCAACC-GCACTGCTGCAACCTAGGGAGGCAAGGCTGGTGTCTTTGATCTG
1 AAGATCTGCAATTTTCAACCTGCTCTGCTGCAACCTAGGGAGGCAAGGCTGGTGTCTTTGATCTG
* *
32396002 CTTCGCTGCCGATATAGGAAGGCAAGATTTGCTATTTTTAACCTGCTCCACTGCAACCCAGGGAG
66 CTTCGCTGCCGATACAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTGCAACCCAGGGAG
*
32396067 GCAAGGCTAGTGTCTTCGATCTGCTTCGTTGTTAG-ACAGGAAGGCAAGATCTGCTATTTTTAAC
131 GCAAGGCTAGTGTCTTCGATCTGCTTCGTTGTTAGTACAGGAAGGCAAGATCTGCTATCTTTAAC
* * * * * * * * ** *
32396131 TTGCTCCGCTGCAACCCAGGGAGGCAAGGTTGGTGTCTTCGATCTACTTCGCTGTCGGTGCAGGA
196 CTGCTCCGCTGCCACCGAGGGAGGCAAGGCTAGTGTCTTCAATCTGCTTCACTGTTAGTACAGGA
* * * * * * * * *
32396196 AGACAAGATCTGCTATTTTTAACCTGCTCCACTACAACTC-AGGGAGGCAAGGTTGGTGCCTTCG
261 AGGCAAGATCTGCTATCTTTAACCTGCTCCGCTGCCAC-CGAGGGAGGCAAGGCTAGTGTCTTCA
* * *
32396260 ATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGTTATCTT
325 ATCTGCTTCACTGTCAGTACAGGAAGGCAAGATCTGTTATCTT
32396303 CACTGATCTG
Statistics
Matches: 805, Mismatches: 83, Indels: 8
0.90 0.09 0.01
Matches are distributed among these distances:
525 176 0.22
526 142 0.18
527 484 0.60
528 3 0.00
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.28
Consensus pattern (527 bp):
AAGATCTGCAATTTTCAACCTGCTCTGCTGCAACCTAGGGAGGCAAGGCTGGTGTCTTTGATCTG
CTTCGCTGCCGATACAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTGCAACCCAGGGAG
GCAAGGCTAGTGTCTTCGATCTGCTTCGTTGTTAGTACAGGAAGGCAAGATCTGCTATCTTTAAC
CTGCTCCGCTGCCACCGAGGGAGGCAAGGCTAGTGTCTTCAATCTGCTTCACTGTTAGTACAGGA
AGGCAAGATCTGCTATCTTTAACCTGCTCCGCTGCCACCGAGGGAGGCAAGGCTAGTGTCTTCAA
TCTGCTTCACTGTCAGTACAGGAAGGCAAGATCTGTTATCTTTAACCCGCTCCACTGCCACCGAG
GGAGGCAAGGCTAGTGTCTTCAATCTGCTTCACTATCAGTACAGGAAGACAAGATCTGCTATCTT
TAACCTGCTCTGCTGCCACCGAGGGAGGCAAGGCTAGTGTCTTCGATCTACTCCACTACTGCTTA
GGGAGAT
Found at i:32403202 original size:19 final size:19
Alignment explanation
Indices: 32403178--32403227 Score: 82
Period size: 21 Copynumber: 2.5 Consensus size: 19
32403168 ATCTTCCAAT
32403178 ATTGCATATCATATCTAAG
1 ATTGCATATCATATCTAAG
32403197 ATTGCATATATCATATCTAAG
1 ATTGC--ATATCATATCTAAG
32403218 ATTGCATATC
1 ATTGCATATC
32403228 CTTGAAGATT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
19 10 0.34
21 19 0.66
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (19 bp):
ATTGCATATCATATCTAAG
Found at i:32403209 original size:21 final size:21
Alignment explanation
Indices: 32403183--32403226 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
32403173 CCAATATTGC
32403183 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
32403204 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
32403225 AT
1 AT
32403227 CCTTGAAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.39
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:32403738 original size:88 final size:88
Alignment explanation
Indices: 32403589--32404418 Score: 930
Period size: 88 Copynumber: 9.4 Consensus size: 88
32403579 CTTGATCTGT
* * * * * * * *
32403589 TGCAACTCAAGGAGGCAAGGCTGGTGTATTCGATCTGCTTCACAGTTTGTGCAGGAAGGCAAGAT
1 TGCAACCCAGGGAGGCAAGGCTAGTGTCTTCAATCTGCTTCACTGTTAGTACAGGAAGGCAAGAT
*
32403654 CTGCTATTTTTAACCTGCTCCGC
66 CTGCTATCTTTAACCTGCTCCGC
* * * * * * *
32403677 TGCAACCCAGGGAGGTATGGCTGGTGTCTTCAATCTACTTCGCTGTTGGTGCAGGAAGGCAAGAT
1 TGCAACCCAGGGAGGCAAGGCTAGTGTCTTCAATCTGCTTCACTGTTAGTACAGGAAGGCAAGAT
*
32403742 CTGCTATTTTTAACCTGCTCCGC
66 CTGCTATCTTTAACCTGCTCCGC
* ** * * *
32403765 TGCAACCCAGGGAGGCAAGGCT-GATGTCTTCAATCTACTTCGTTGTTGGTGCAGGAAGACAAGA
1 TGCAACCCAGGGAGGCAAGGCTAG-TGTCTTCAATCTGCTTCACTGTTAGTACAGGAAGGCAAGA
* * *
32403829 TCTGCTATGTTTAACCTACTCTGC
65 TCTGCTATCTTTAACCTGCTCCGC
** *
32403853 TGCAACCCAATGAGGCAAGGCTAGTGTCTTCAATCTGTTTCACTGTTAGTACAGGAAGGCAAGAT
1 TGCAACCCAGGGAGGCAAGGCTAGTGTCTTCAATCTGCTTCACTGTTAGTACAGGAAGGCAAGAT
*
32403918 CTGCTATCTTTAACCTGCTCCAC
66 CTGCTATCTTTAACCTGCTCCGC
* * * * * *
32403941 TGCCACCGAGGGAGGCAAGGCTAGTGTCTTCAATCTGCTTCAGTGTCAGTACATGAAGGTAAGAT
1 TGCAACCCAGGGAGGCAAGGCTAGTGTCTTCAATCTGCTTCACTGTTAGTACAGGAAGGCAAGAT
32404006 CTGCTATCTTTAACCTGCTCCGC
66 CTGCTATCTTTAACCTGCTCCGC
* * * * *
32404029 TTCCACCGAGGGAGGCAAGGCTAGTGTCTTCAATCTGCTTCACTGTCAGTACAGGAATGCAAGAT
1 TGCAACCCAGGGAGGCAAGGCTAGTGTCTTCAATCTGCTTCACTGTTAGTACAGGAAGGCAAGAT
*
32404094 ATGCTATCTTTAACCTGCTCCGC
66 CTGCTATCTTTAACCTGCTCCGC
* * * * *
32404117 TGCCACCGAGGGAGGCAAGGCTAGTGTCTTCAATCTGGTTCACTGTCAGTGCAGGAAGGCAAGAT
1 TGCAACCCAGGGAGGCAAGGCTAGTGTCTTCAATCTGCTTCACTGTTAGTACAGGAAGGCAAGAT
* *
32404182 CTGCTATCTTTAACTTGCTTCGC
66 CTGCTATCTTTAACCTGCTCCGC
* * * * * ** * * **
32404205 TGCCACCGAGGGAGGCAAGGCTAGTGTCTTCGATCTACTCCACTACT-GCT-TAGGGAGATAAGA
1 TGCAACCCAGGGAGGCAAGGCTAGTGTCTTCAATCTGCTTCACTGTTAG-TACAGGAAGGCAAGA
* * *
32404268 TATGCAAT-TTTCAACCTGCTCTGC
65 TCTGCTATCTTT-AACCTGCTCCGC
* * ** * * ** * *
32404292 TGTAACCCAGGGAGGCAAGGCTGGTGTCTTTGATCTGTTTCGCTGTCGGTACAAGAAGGCAAAAT
1 TGCAACCCAGGGAGGCAAGGCTAGTGTCTTCAATCTGCTTCACTGTTAGTACAGGAAGGCAAGAT
*
32404357 CTGCTATTTTTAACCTGCTCCGC
66 CTGCTATCTTTAACCTGCTCCGC
*
32404380 TGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCT
1 TGCAACCCAGGGAGGCAAGGCTAGTGTCTTCAATCTGCT
32404419 AATTTTTAAC
Statistics
Matches: 641, Mismatches: 94, Indels: 14
0.86 0.13 0.02
Matches are distributed among these distances:
86 3 0.00
87 62 0.10
88 572 0.89
89 4 0.01
ACGTcount: A:0.23, C:0.24, G:0.25, T:0.28
Consensus pattern (88 bp):
TGCAACCCAGGGAGGCAAGGCTAGTGTCTTCAATCTGCTTCACTGTTAGTACAGGAAGGCAAGAT
CTGCTATCTTTAACCTGCTCCGC
Found at i:32403783 original size:44 final size:44
Alignment explanation
Indices: 32403640--32403783 Score: 119
Period size: 44 Copynumber: 3.3 Consensus size: 44
32403630 ACAGTTTGTG
32403640 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACC
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACC
* * * * * * * * * * * *****
32403684 CAGGGAGGTATG-GCTGGTGTCTTCAATCTACTTCGCTGTTGGTG
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTG-CAACC
32403728 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACC
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACC
*
32403772 CAGGGAGGCAAG
1 CAGGAAGGCAAG
32403784 GCTGATGTCT
Statistics
Matches: 65, Mismatches: 33, Indels: 4
0.64 0.32 0.04
Matches are distributed among these distances:
43 18 0.28
44 29 0.45
45 18 0.28
ACGTcount: A:0.22, C:0.25, G:0.27, T:0.26
Consensus pattern (44 bp):
CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACC
Found at i:32406033 original size:21 final size:21
Alignment explanation
Indices: 32405996--32406052 Score: 91
Period size: 21 Copynumber: 2.8 Consensus size: 21
32405986 AATCATATCT
32405996 TCCAAGATTGC--ATATCATA
1 TCCAAGATTGCATATATCATA
32406015 TCCAAGATTGCATATATCATA
1 TCCAAGATTGCATATATCATA
*
32406036 TCTAAGATTGCATATAT
1 TCCAAGATTGCATATAT
32406053 TTGAAGATTA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
19 11 0.31
21 24 0.69
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.35
Consensus pattern (21 bp):
TCCAAGATTGCATATATCATA
Found at i:32410126 original size:22 final size:22
Alignment explanation
Indices: 32410091--32410139 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
32410081 TTTTCAATCA
*
32410091 CTTCCTCGCCCATTAGTATGAT
1 CTTCCTCGCCCATTAGTATGAC
* *
32410113 CTTCCTTGCTCATTAGTATGAC
1 CTTCCTCGCCCATTAGTATGAC
32410135 CTTCC
1 CTTCC
32410140 ATGTCCATGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.16, C:0.33, G:0.12, T:0.39
Consensus pattern (22 bp):
CTTCCTCGCCCATTAGTATGAC
Found at i:32412216 original size:9 final size:9
Alignment explanation
Indices: 32412193--32412426 Score: 69
Period size: 9 Copynumber: 24.6 Consensus size: 9
32412183 ATTTTTCTCA
*
32412193 TAAAATTAT
1 TAAAAATAT
32412202 TAAAAAATAT
1 T-AAAAATAT
32412212 T-AAAA-AT
1 TAAAAATAT
32412219 TAGAAAACT-T
1 TA-AAAA-TAT
32412229 ATAAATAATAT
1 -TAAA-AATAT
32412240 TAAAAATAT
1 TAAAAATAT
32412249 TAAAATTGATAT
1 TAAAA---ATAT
**
32412261 T-AACTTAT
1 TAAAAATAT
*
32412269 TAAAATTA-
1 TAAAAATAT
*
32412277 TAAAAAAACT
1 TAAAAATA-T
32412287 TATAAAA-AT
1 TA-AAAATAT
32412296 CTAATAAAT-T
1 -TAA-AAATAT
32412306 ATAATAAATTAT
1 -TAA-AAA-TAT
32412318 AATAAAAATA-
1 --TAAAAATAT
*
32412328 TAAAATTAT
1 TAAAAATAT
*
32412337 TTAAAATAT
1 TAAAAATAT
32412346 T--AAA-AT
1 TAAAAATAT
32412352 TAAAAATGTAT
1 TAAAAA--TAT
* *
32412363 TAGAATTAT
1 TAAAAATAT
32412372 TAAAAAATAAT
1 T-AAAAAT-AT
32412383 TATAAAAT-T
1 TA-AAAATAT
32412392 GTAAATAATTAT
1 -TAAA-AA-TAT
*
32412404 AAAAAATAT
1 TAAAAATAT
32412413 TAAAAATAT
1 TAAAAATAT
32412422 TAAAA
1 TAAAA
32412427 TTGATATAAA
Statistics
Matches: 175, Mismatches: 16, Indels: 68
0.68 0.06 0.26
Matches are distributed among these distances:
6 3 0.02
7 6 0.03
8 24 0.14
9 53 0.30
10 43 0.25
11 32 0.18
12 10 0.06
13 4 0.02
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (9 bp):
TAAAAATAT
Found at i:32412253 original size:28 final size:28
Alignment explanation
Indices: 32412192--32412428 Score: 106
Period size: 28 Copynumber: 8.3 Consensus size: 28
32412182 TATTTTTCTC
32412192 ATAAAATTATTAAAAAATATTAAAAATT
1 ATAAAATTATTAAAAAATATTAAAAATT
* *
32412220 AGAAAACTTA-TAAATAATATTAAAAA-T
1 ATAAAA-TTATTAAAAAATATTAAAAATT
* **
32412247 ATTAAAATTGA-TATTAACTTATT-AAAATT
1 A-TAAAATT-ATTA-AAAAATATTAAAAATT
** *
32412276 ATAAAAAAACTTATAAAAAT-CTAATAAATT
1 ATAAAATTA-TTA-AAAAATATTAA-AAATT
*
32412306 ATAATAAATTATAATAAAAATA-T-AAAATT
1 AT-A-AAATTATTA-AAAAATATTAAAAATT
32412335 ATTTAAAA-TATT---AAA-ATTAAAAATGT
1 A--TAAAATTATTAAAAAATATTAAAAAT-T
*
32412361 ATTAGAATTATTAAAAAATAATTATAAAATT
1 A-TAAAATTATTAAAAAAT-ATTA-AAAATT
*
32412392 GTAAATAATTA-TAAAAAATATTAAAAA-T
1 AT-AA-AATTATTAAAAAATATTAAAAATT
32412420 ATTAAAATT
1 A-TAAAATT
32412429 GATATAAACT
Statistics
Matches: 161, Mismatches: 21, Indels: 55
0.68 0.09 0.23
Matches are distributed among these distances:
23 1 0.01
24 4 0.02
25 10 0.06
26 6 0.04
27 9 0.06
28 43 0.27
29 34 0.21
30 14 0.09
31 26 0.16
32 14 0.09
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (28 bp):
ATAAAATTATTAAAAAATATTAAAAATT
Found at i:32412310 original size:10 final size:10
Alignment explanation
Indices: 32412271--32412323 Score: 56
Period size: 10 Copynumber: 5.3 Consensus size: 10
32412261 TAACTTATTA
*
32412271 AAATTATAAAA
1 AAATTAT-AAT
32412282 AAACTTATAA-
1 AAA-TTATAAT
*
32412292 AAA-TCTAAT
1 AAATTATAAT
32412301 AAATTATAAT
1 AAATTATAAT
32412311 AAATTATAAT
1 AAATTATAAT
32412321 AAA
1 AAA
32412324 AATATAAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
8 4 0.11
9 3 0.08
10 21 0.57
11 5 0.14
12 4 0.11
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (10 bp):
AAATTATAAT
Found at i:32412357 original size:25 final size:27
Alignment explanation
Indices: 32412320--32412381 Score: 69
Period size: 26 Copynumber: 2.4 Consensus size: 27
32412310 TAAATTATAA
32412320 TAAAAATATAAAAT-TATTTA-AAATAT
1 TAAAAATATAAAATGTA-TTAGAAATAT
* *
32412346 TAAAATTA-AAAATGTATTAGAATTAT
1 TAAAAATATAAAATGTATTAGAAATAT
32412372 TAAAAA-ATAA
1 TAAAAATATAA
32412382 TTATAAAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
25 9 0.30
26 21 0.70
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.35
Consensus pattern (27 bp):
TAAAAATATAAAATGTATTAGAAATAT
Found at i:32412416 original size:10 final size:10
Alignment explanation
Indices: 32412369--32412426 Score: 50
Period size: 10 Copynumber: 5.8 Consensus size: 10
32412359 GTATTAGAAT
32412369 TATTAAAAAA
1 TATTAAAAAA
*
32412379 TAATTATAAAA
1 T-ATTAAAAAA
*
32412390 T-TGTAAATAA
1 TAT-TAAAAAA
32412400 T-TATAAAAAA
1 TAT-TAAAAAA
32412410 TATT-AAAAA
1 TATTAAAAAA
32412419 TATTAAAA
1 TATTAAAA
32412427 TTGATATAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
9 10 0.26
10 19 0.49
11 10 0.26
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (10 bp):
TATTAAAAAA
Found at i:32412740 original size:19 final size:19
Alignment explanation
Indices: 32412718--32412765 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 19
32412708 CTTTTAGTAA
*
32412718 TTTTATAATTTT-TTATGAT
1 TTTTATAATTTTAATATG-T
32412737 TTTTATAGAATTTTAATATGT
1 TTTTAT--AATTTTAATATGT
32412758 TTTTATAA
1 TTTTATAA
32412766 AATTTTAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
19 8 0.32
21 13 0.52
22 4 0.16
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.62
Consensus pattern (19 bp):
TTTTATAATTTTAATATGT
Found at i:32412777 original size:22 final size:22
Alignment explanation
Indices: 32412731--32412773 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
32412721 TATAATTTTT
*
32412731 TATGATTTTTATAGAATTTTAA
1 TATGATTTTTATAAAATTTTAA
32412753 TATG-TTTTTATAAAATTTTAA
1 TATGATTTTTATAAAATTTTAA
32412774 ATATTATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (22 bp):
TATGATTTTTATAAAATTTTAA
Found at i:32415313 original size:20 final size:20
Alignment explanation
Indices: 32415285--32415334 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
32415275 TATCAATCCA
32415285 GTATCGATACT-TTTCTTAAG
1 GTATCGATA-TATTTCTTAAG
*
32415305 GTATTGATATATTTCTTAAG
1 GTATCGATATATTTCTTAAG
*
32415325 GTATCAATAT
1 GTATCGATAT
32415335 TCCTTCTCCA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 1 0.04
20 25 0.96
ACGTcount: A:0.30, C:0.10, G:0.14, T:0.46
Consensus pattern (20 bp):
GTATCGATATATTTCTTAAG
Found at i:32424521 original size:19 final size:20
Alignment explanation
Indices: 32424480--32424532 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
32424470 TCATACATTA
* *
32424480 AATTTTAAAAAATAACTCTT
1 AATTTTAAAAAATAACGCGT
32424500 AATTTTAAAAAATAA-GCGT
1 AATTTTAAAAAATAACGCGT
32424519 AATTATCTAAAAAA
1 AATT-T-TAAAAAA
32424533 ATTAACCCAG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 6 0.21
20 16 0.55
21 7 0.24
ACGTcount: A:0.55, C:0.08, G:0.04, T:0.34
Consensus pattern (20 bp):
AATTTTAAAAAATAACGCGT
Found at i:32436739 original size:11 final size:11
Alignment explanation
Indices: 32436712--32436748 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
32436702 ACAAAGAACA
*
32436712 AACTAACAGATT
1 AACTAACAG-CT
32436724 AACTAACAGCT
1 AACTAACAGCT
32436735 AACTAACAGCT
1 AACTAACAGCT
32436746 AAC
1 AAC
32436749 AGATTAACTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 15 0.62
12 9 0.38
ACGTcount: A:0.49, C:0.24, G:0.08, T:0.19
Consensus pattern (11 bp):
AACTAACAGCT
Found at i:32439032 original size:15 final size:15
Alignment explanation
Indices: 32439012--32439042 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
32439002 CACATCTATC
32439012 AGCCATAGGGAAGAT
1 AGCCATAGGGAAGAT
*
32439027 AGCCATAGGGAGGAT
1 AGCCATAGGGAAGAT
32439042 A
1 A
32439043 CCGAGATCCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.13, G:0.35, T:0.13
Consensus pattern (15 bp):
AGCCATAGGGAAGAT
Found at i:32445308 original size:18 final size:18
Alignment explanation
Indices: 32445270--32445305 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
32445260 TTATTATTTT
*
32445270 TAAAATTTACTATTAAAA
1 TAAAATTTAATATTAAAA
32445288 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
32445306 TAATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:32447669 original size:24 final size:24
Alignment explanation
Indices: 32447642--32447698 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
32447632 GAGCCATACT
*
32447642 CGGGAAGCTTATG-CGAGCCAATAA
1 CGGGAAGCTT-TGAAGAGCCAATAA
* *
32447666 CGGGTAGCTTTGAAGAGCCATTAA
1 CGGGAAGCTTTGAAGAGCCAATAA
32447690 CGGGAAGCT
1 CGGGAAGCT
32447699 CTAGATAGGC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 2 0.07
24 26 0.93
ACGTcount: A:0.30, C:0.19, G:0.32, T:0.19
Consensus pattern (24 bp):
CGGGAAGCTTTGAAGAGCCAATAA
Found at i:32456457 original size:26 final size:28
Alignment explanation
Indices: 32456421--32456489 Score: 79
Period size: 31 Copynumber: 2.4 Consensus size: 28
32456411 TCAAATTTTG
*
32456421 AAATAACATATAAAA-A-AATTTAAACT
1 AAATAATATATAAAAGATAATTTAAACT
32456447 AAATAATATATATTAAAAGATAATTTAAACT
1 AAAT-A-ATATA-TAAAAGATAATTTAAACT
*
32456478 AAATAATGTATA
1 AAATAATATATA
32456490 TATATATTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
26 4 0.11
27 1 0.03
28 6 0.17
29 9 0.25
30 2 0.06
31 14 0.39
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.32
Consensus pattern (28 bp):
AAATAATATATAAAAGATAATTTAAACT
Found at i:32458215 original size:25 final size:25
Alignment explanation
Indices: 32458187--32458289 Score: 88
Period size: 25 Copynumber: 4.2 Consensus size: 25
32458177 ATATAATAGA
32458187 AAGCTCATGTGAGCCATATAACGGG
1 AAGCTCATGTGAGCCATATAACGGG
* * **
32458212 AAGCTTAT-TCGGGCTGTATAACGGG
1 AAGCTCATGT-GAGCCATATAACGGG
**
32458237 AAGCTCATAAGAGCCATCAT--CGGG
1 AAGCTCATGTGAGCCAT-ATAACGGG
*
32458261 AAGCTCATGCGAGCCA-ATAACGGG
1 AAGCTCATGTGAGCCATATAACGGG
*
32458285 TAGCT
1 AAGCT
32458290 TCGAAGAGCC
Statistics
Matches: 61, Mismatches: 12, Indels: 11
0.73 0.14 0.13
Matches are distributed among these distances:
22 2 0.03
24 27 0.44
25 30 0.49
26 2 0.03
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.20
Consensus pattern (25 bp):
AAGCTCATGTGAGCCATATAACGGG
Found at i:32461313 original size:16 final size:18
Alignment explanation
Indices: 32461278--32461314 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
32461268 AATGAGAGTG
32461278 TGAGGGATGAGATGTGAA
1 TGAGGGATGAGATGTGAA
32461296 TGAGGGATGAG-T-TGAA
1 TGAGGGATGAGATGTGAA
32461312 TGA
1 TGA
32461315 TCAGCAAGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.37
17 1 0.05
18 11 0.58
ACGTcount: A:0.32, C:0.00, G:0.43, T:0.24
Consensus pattern (18 bp):
TGAGGGATGAGATGTGAA
Found at i:32475227 original size:12 final size:12
Alignment explanation
Indices: 32475210--32475239 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
32475200 TCGTGGGCAC
32475210 GACTTTTGCCAT
1 GACTTTTGCCAT
*
32475222 GACTTTTTCCAT
1 GACTTTTGCCAT
32475234 GACTTT
1 GACTTT
32475240 CGACACGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.17, C:0.23, G:0.13, T:0.47
Consensus pattern (12 bp):
GACTTTTGCCAT
Found at i:32483748 original size:4 final size:4
Alignment explanation
Indices: 32483741--32483781 Score: 57
Period size: 4 Copynumber: 10.2 Consensus size: 4
32483731 TTGTTTGTAC
*
32483741 ATAA ATAA ATAA ATAAA ATGA A-AA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA AT-AA ATAA ATAA ATAA ATAA ATAA ATAA A
32483782 GGCTCAAGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
3 2 0.06
4 27 0.82
5 4 0.12
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (4 bp):
ATAA
Found at i:32490178 original size:93 final size:89
Alignment explanation
Indices: 32489998--32490206 Score: 253
Period size: 93 Copynumber: 2.3 Consensus size: 89
32489988 AAAATTCTCA
* *
32489998 AAACTTTTTA-AAAAAACAATTAAG--TCTCTTTTTTTTTTGCACTCATTTGGGTACTTGAACTT
1 AAACTTTTTAGAAAAAACAATTAAGCCTCTCTTTTTTTTTTGCACTCAATTGGATACTTGAACTT
* * *
32490060 TCAAAATGCATGAAAAAGGCCCTC
66 TCAAAATACATCAAAAAGACCCTC
* *
32490084 AATGCTTTTTAGAAAAAAGCAATTAAGCCTCTGCTTTTTTTTTTTGCACTCAATTGGATGCTTGA
1 AA-ACTTTTTAGAAAAAA-CAATTAAGCCTCT-C-TTTTTTTTTTGCACTCAATTGGATACTTGA
* *
32490149 ACTTTCAAAATACATCAAAAATACTCTC
62 ACTTTCAAAATACATCAAAAAGACCCTC
32490177 AAACTTTTTCAAAGAAAAAACAATTAAGCC
1 AAACTTTTT---AGAAAAAACAATTAAGCC
32490207 CATGTTTTTA
Statistics
Matches: 103, Mismatches: 10, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
86 2 0.02
87 7 0.07
88 6 0.06
89 8 0.08
91 3 0.03
92 7 0.07
93 52 0.50
94 10 0.10
95 8 0.08
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.35
Consensus pattern (89 bp):
AAACTTTTTAGAAAAAACAATTAAGCCTCTCTTTTTTTTTTGCACTCAATTGGATACTTGAACTT
TCAAAATACATCAAAAAGACCCTC
Found at i:32490434 original size:20 final size:20
Alignment explanation
Indices: 32490378--32490437 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
32490368 TTTTATTAAG
*
32490378 TCGTAATAAAATTATACAAAA
1 TCGTAAAAAAATTATA-AAAA
* **
32490399 T-GTAAAGAAA-TATAAATT
1 TCGTAAAAAAATTATAAAAA
32490417 TCGTAAAAAAATTATAAAAA
1 TCGTAAAAAAATTATAAAAA
32490437 T
1 T
32490438 TATCGTACCA
Statistics
Matches: 30, Mismatches: 7, Indels: 5
0.71 0.17 0.12
Matches are distributed among these distances:
18 3 0.10
19 12 0.40
20 14 0.47
21 1 0.03
ACGTcount: A:0.58, C:0.05, G:0.07, T:0.30
Consensus pattern (20 bp):
TCGTAAAAAAATTATAAAAA
Found at i:32490636 original size:37 final size:37
Alignment explanation
Indices: 32490567--32490641 Score: 98
Period size: 37 Copynumber: 2.0 Consensus size: 37
32490557 GGGGTTGTTA
* **
32490567 ATTTTTTTAATATTTTTATAAAATTTTACAAATTTTT
1 ATTTTTTTAAGATTTTTATAAAAAATTACAAATTTTT
*
32490604 ATTTTTTTACGATTTTTATAAAAAAATT-CAAATTTTT
1 ATTTTTTTAAGATTTTTAT-AAAAAATTACAAATTTTT
32490641 A
1 A
32490642 AAAATTTAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 27 0.82
38 6 0.18
ACGTcount: A:0.37, C:0.04, G:0.01, T:0.57
Consensus pattern (37 bp):
ATTTTTTTAAGATTTTTATAAAAAATTACAAATTTTT
Found at i:32490829 original size:85 final size:87
Alignment explanation
Indices: 32490731--32490903 Score: 201
Period size: 86 Copynumber: 2.0 Consensus size: 87
32490721 TTTTAATAAG
** * *
32490731 AGCAGGGGCGTAATT-ATATATT-TAAAAAAT-TTTGAGGGTCTTTTTGTTACATTTTGAAAGTT
1 AGCAGGGGCGTAATTGAT-T-TTCTAAAAAATGTTTGAAAGCCTTTTTGATACATTTTGAAAGTT
32490793 CAAGTACCCAATTGAGTG-AAAAA
64 CAAGTACCCAATTGAGTGCAAAAA
* * ** *
32490816 AGCAGGTGCGTAATTGCTTTTCTTGAAAATGTTTGAAAGCCTTTTTGATGCATTTTGAAAGTTCA
1 AGCAGGGGCGTAATTGATTTTCTAAAAAATGTTTGAAAGCCTTTTTGATACATTTTGAAAGTTCA
* *
32490881 AGTGCTCAATTGAGTGCAAAAA
66 AGTACCCAATTGAGTGCAAAAA
32490903 A
1 A
32490904 AAAAAAGCTT
Statistics
Matches: 73, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
84 2 0.03
85 21 0.29
86 44 0.60
87 6 0.08
ACGTcount: A:0.33, C:0.11, G:0.21, T:0.35
Consensus pattern (87 bp):
AGCAGGGGCGTAATTGATTTTCTAAAAAATGTTTGAAAGCCTTTTTGATACATTTTGAAAGTTCA
AGTACCCAATTGAGTGCAAAAA
Found at i:32496224 original size:21 final size:21
Alignment explanation
Indices: 32496198--32496238 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
32496188 AGACGAGCAA
* *
32496198 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
32496219 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
32496239 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:32499669 original size:26 final size:26
Alignment explanation
Indices: 32499640--32499692 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
32499630 GGGATTACGG
32499640 GACCCGGACCTTTGGTACATGATGAT
1 GACCCGGACCTTTGGTACATGATGAT
32499666 GACCCGGACCTTTGGTACATGATGAT
1 GACCCGGACCTTTGGTACATGATGAT
32499692 G
1 G
32499693 GAGGTGAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (26 bp):
GACCCGGACCTTTGGTACATGATGAT
Found at i:32501236 original size:27 final size:29
Alignment explanation
Indices: 32501201--32501255 Score: 87
Period size: 27 Copynumber: 1.9 Consensus size: 29
32501191 TCCTGTGTTA
32501201 GGGTCAGGGTTTTGGA-TTTTGGGTTTAG
1 GGGTCAGGGTTTTGGAGTTTTGGGTTTAG
32501229 GGGT-AGGGTTTTGGAGTTTTTGGGTTT
1 GGGTCAGGGTTTTGGAG-TTTTGGGTTT
32501256 TTGGGTTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
27 11 0.44
28 4 0.16
29 10 0.40
ACGTcount: A:0.09, C:0.02, G:0.44, T:0.45
Consensus pattern (29 bp):
GGGTCAGGGTTTTGGAGTTTTGGGTTTAG
Found at i:32501395 original size:103 final size:102
Alignment explanation
Indices: 32501261--32501613 Score: 319
Period size: 96 Copynumber: 3.6 Consensus size: 102
32501251 GGTTTTTGGG
* * * * * *
32501261 TTTAAAGAAAAAATTAAAAAAATAAGGGTTTAGGGTTTAGGGCTT-CTTAATTAAATTAATTATA
1 TTTAAGGAAAAAATCAAATAAATTAGAGTTTAGGGTTTAGGG-TTACTTAAGTAAATTAATTATA
* *
32501325 AATTTTTCAAAATTAGATTAGGGTTTCGTGTTTATGGTT
65 AATTTTTAAAAATTAGATTAGGGTTTAGTGTTTA-GGTT
* * *
32501364 TTTAAGGAAAAAATCAATTAAATTAGAGTTTA------A-GGTTACTTGAGTAATTTAATTATAA
1 TTTAAGGAAAAAATCAAATAAATTAGAGTTTAGGGTTTAGGGTTACTTAAGTAAATTAATTATAA
* * *
32501422 ATTTTTAAAAAATCATATTAGGGTTTAGTGTTAAGGGTT
66 ATTTTT-AAAAATTAGATTAGGGTTTAGTGTTTA-GGTT
* *
32501461 TTTAAGG-AAAAAT---A-AAA-TA-A-ATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAA
1 TTTAAGGAAAAAATCAAATAAATTAGAGTTTAGGGTTTAGGGTTACTTAAGTAAATTAATTATAA
* *
32501518 ATTTTAAAAAAATTAGATTAGGGTTTAGGGTTTAGAG--
66 ATTTT-TAAAAATTAGATTAGGGTTTAGTGTTTAG-GTT
* * * *
32501555 TTTAAGGAAAAAATTCAAATAAATTAGGGTTTGGGGTTTAGGGTTGCTTAATTAAATTA
1 TTTAAGGAAAAAA-TCAAATAAATTAGAGTTTAGGGTTTAGGGTTACTTAAGTAAATTA
32501614 TTTGTTAATT
Statistics
Matches: 201, Mismatches: 29, Indels: 40
0.74 0.11 0.15
Matches are distributed among these distances:
89 3 0.01
90 1 0.00
91 2 0.01
92 3 0.01
94 7 0.03
95 9 0.04
96 85 0.42
97 34 0.17
99 1 0.00
100 3 0.01
101 2 0.01
103 51 0.25
ACGTcount: A:0.40, C:0.03, G:0.19, T:0.39
Consensus pattern (102 bp):
TTTAAGGAAAAAATCAAATAAATTAGAGTTTAGGGTTTAGGGTTACTTAAGTAAATTAATTATAA
ATTTTTAAAAATTAGATTAGGGTTTAGTGTTTAGGTT
Found at i:32501462 original size:97 final size:97
Alignment explanation
Indices: 32501290--32501586 Score: 388
Period size: 96 Copynumber: 3.1 Consensus size: 97
32501280 AAATAAGGGT
* * * * *
32501290 TTAGGGTTTAGGGCTT-CTTAATTAAATTAATTATAAATTTTT-CAAAATTAGATTAGGGTTTCG
1 TTAGGGTTTAAGG-TTACTTGAGTAAATTAATTATAAATTTTTAAAAAATTAGATTAGGGTTTAG
* *
32501353 TGTTTATGGTTTTTAAGGAAAAAATCAATTAAA
65 TGTTTAGGGTTTTTAAGGAAAAAATCAAATAAA
* * * *
32501386 TTAGAGTTTAAGGTTACTTGAGTAATTTAATTATAAATTTTTAAAAAATCATATTAGGGTTTAGT
1 TTAGGGTTTAAGGTTACTTGAGTAAATTAATTATAAATTTTTAAAAAATTAGATTAGGGTTTAGT
* *
32501451 GTTAAGGGTTTTTAAGG-AAAAATAAAATAAA
66 GTTTAGGGTTTTTAAGGAAAAAATCAAATAAA
* * *
32501482 TTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTAAAAAAATTAGATTAGGGTTTAGG
1 TTAGGGTTTAAGGTTACTTGAGTAAATTAATTATAAATTTTTAAAAAATTAGATTAGGGTTTAGT
*
32501547 GTTTAGAG--TTTAAGGAAAAAATTCAAATAAA
66 GTTTAGGGTTTTTAAGGAAAAAA-TCAAATAAA
32501578 TTAGGGTTT
1 TTAGGGTTT
32501587 GGGGTTTAGG
Statistics
Matches: 174, Mismatches: 23, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
94 7 0.04
95 7 0.04
96 127 0.73
97 33 0.19
ACGTcount: A:0.39, C:0.03, G:0.18, T:0.40
Consensus pattern (97 bp):
TTAGGGTTTAAGGTTACTTGAGTAAATTAATTATAAATTTTTAAAAAATTAGATTAGGGTTTAGT
GTTTAGGGTTTTTAAGGAAAAAATCAAATAAA
Found at i:32501857 original size:126 final size:126
Alignment explanation
Indices: 32501625--32501916 Score: 462
Period size: 126 Copynumber: 2.3 Consensus size: 126
32501615 TTGTTAATTT
*
32501625 AAAAAAGCTCTCACGTGGACT-CTCTTTTGCTACAGTAGTTCCTGAAAAAATAATTTCGAGAAGA
1 AAAAAAGCTCCCACGTGGA-TGCTCTTTTGCTACAGTAGTTCCTGAAAAAATAATTTCGAGAAGA
* * *
32501689 CGTTTCTGAGCAAATAGTTTCAAAAATGCTTTAAGCAAGATGCTTTGTCAGCAAAAGTACTA
65 CGTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAAGATGCTTTGTCAACAAAAGTACTA
* *
32501751 AAAAAAGCTCCCACGTAGATGCTCTTTTGCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGAC
1 AAAAAAGCTCCCACGTGGATGCTCTTTTGCTACAGTAGTTCCTGAAAAAATAATTTCGAGAAGAC
* *
32501816 GTTTCTGAGGAAATAGTGTCAAAAACGCTTTAAG-AAGGATGCTTTGTCAACAAAAGTACTG
66 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAA-GATGCTTTGTCAACAAAAGTACTA
* *
32501877 AAAGAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTT
1 AAAAAAGCTCCCACGTGGATGCTCTTTTGCTACAGTAGTT
32501917 GCTATTTGGC
Statistics
Matches: 153, Mismatches: 11, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
125 3 0.02
126 150 0.98
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (126 bp):
AAAAAAGCTCCCACGTGGATGCTCTTTTGCTACAGTAGTTCCTGAAAAAATAATTTCGAGAAGAC
GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAAGATGCTTTGTCAACAAAAGTACTA
Found at i:32505484 original size:50 final size:50
Alignment explanation
Indices: 32505356--32505642 Score: 344
Period size: 50 Copynumber: 5.8 Consensus size: 50
32505346 GATAATAACA
* ** * *
32505356 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCATGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-CGG
* * * * ** *
32505405 TACCAATGCCATATCCAAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* **
32505455 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
32505505 TGCCAATGTCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
32505555 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGTACCTCTTATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
** *
32505605 TGCCAACACCATGTCCCAGACATAGTCTTACATGGGAC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAC
32505643 TTCTTTACCC
Statistics
Matches: 204, Mismatches: 32, Indels: 3
0.85 0.13 0.01
Matches are distributed among these distances:
48 1 0.00
49 38 0.19
50 165 0.81
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:32506018 original size:30 final size:30
Alignment explanation
Indices: 32505984--32506041 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
32505974 CCTCGACTCT
*
32505984 AACTTTTGCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* * *
32506014 AACTTTTACATAATTACACTTTTTCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
32506042 AAAGCTCGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.26, G:0.03, T:0.40
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:32512547 original size:20 final size:19
Alignment explanation
Indices: 32512506--32512548 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
32512496 ATACGATTAT
*
32512506 ATTTTAAATCTACTTAATA
1 ATTTTAAATCTAATTAATA
32512525 ATTTTAAAATCTAATATAA-A
1 ATTTT-AAATCTAAT-TAATA
32512545 ATTT
1 ATTT
32512549 ACCTCATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 5 0.24
20 13 0.62
21 3 0.14
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (19 bp):
ATTTTAAATCTAATTAATA
Found at i:32513543 original size:21 final size:21
Alignment explanation
Indices: 32513514--32513577 Score: 83
Period size: 23 Copynumber: 2.9 Consensus size: 21
32513504 ATAGGAATTA
*
32513514 GAGAGGAATTTGAGGGAAATAT
1 GAGA-GAATTTGAGAGAAATAT
*
32513536 GAGAGAATATTGGAGAAAAATAT
1 GAGAGAAT-TT-GAGAGAAATAT
32513559 GAGAGAATTTGAGAGAAAT
1 GAGAGAATTTGAGAGAAAT
32513578 GATTTAAGTG
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
21 12 0.32
22 8 0.22
23 17 0.46
ACGTcount: A:0.47, C:0.00, G:0.31, T:0.22
Consensus pattern (21 bp):
GAGAGAATTTGAGAGAAATAT
Found at i:32515161 original size:37 final size:37
Alignment explanation
Indices: 32515116--32515226 Score: 123
Period size: 37 Copynumber: 3.0 Consensus size: 37
32515106 TATGTAAAGT
* *
32515116 AATAACAAACAATTTCACATGTCAATCAATTCAATAC
1 AATAACAAACAATTTCGCATATCAATCAATTCAATAC
* * ** * * *
32515153 AATGACAAACAATTTTGCATATCAATTTATTTAACAT
1 AATAACAAACAATTTCGCATATCAATCAATTCAATAC
**
32515190 AATAACAAACGGTTTCGCATATCAATCAATTCAATAC
1 AATAACAAACAATTTCGCATATCAATCAATTCAATAC
32515227 GGTCAAATGG
Statistics
Matches: 56, Mismatches: 18, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.45, C:0.19, G:0.05, T:0.31
Consensus pattern (37 bp):
AATAACAAACAATTTCGCATATCAATCAATTCAATAC
Found at i:32516281 original size:29 final size:29
Alignment explanation
Indices: 32516249--32516383 Score: 153
Period size: 29 Copynumber: 4.6 Consensus size: 29
32516239 GAAAATTTTG
*
32516249 GGCAAAATTGTAAAATTTTGAAAAATAGT
1 GGCAAAATTGTAAAATTTGGAAAAATAGT
* *
32516278 GGCAGAATTGTAAAATCTGGAAAAATAGT
1 GGCAAAATTGTAAAATTTGGAAAAATAGT
* * **
32516307 GGCAAAACTATAAAATTTGGAAAACCAGT
1 GGCAAAATTGTAAAATTTGGAAAAATAGT
* **
32516336 GGCAAAATTGTAAAATCTAAAAAAATCAGT
1 GGCAAAATTGTAAAATTTGGAAAAAT-AGT
* *
32516366 GGCAAAACTATAAAATTT
1 GGCAAAATTGTAAAATTT
32516384 TTAAAAGGGT
Statistics
Matches: 86, Mismatches: 19, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
29 68 0.79
30 18 0.21
ACGTcount: A:0.49, C:0.09, G:0.17, T:0.25
Consensus pattern (29 bp):
GGCAAAATTGTAAAATTTGGAAAAATAGT
Found at i:32516311 original size:58 final size:59
Alignment explanation
Indices: 32516249--32516389 Score: 194
Period size: 58 Copynumber: 2.4 Consensus size: 59
32516239 GAAAATTTTG
* * * * **
32516249 GGCAAAATTGTAAAATTTTGAAAAATAGTGGCAGAATTGTAAAATCTGGAAAAAT-AGT
1 GGCAAAACTATAAAATTTTGAAAAACAGTGGCAAAATTGTAAAATCTAAAAAAATCAGT
* *
32516307 GGCAAAACTATAAAATTTGGAAAACCAGTGGCAAAATTGTAAAATCTAAAAAAATCAGT
1 GGCAAAACTATAAAATTTTGAAAAACAGTGGCAAAATTGTAAAATCTAAAAAAATCAGT
*
32516366 GGCAAAACTATAAAATTTTTAAAA
1 GGCAAAACTATAAAATTTTGAAAA
32516390 GGGTGGTGCA
Statistics
Matches: 72, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
58 47 0.65
59 25 0.35
ACGTcount: A:0.50, C:0.09, G:0.16, T:0.26
Consensus pattern (59 bp):
GGCAAAACTATAAAATTTTGAAAAACAGTGGCAAAATTGTAAAATCTAAAAAAATCAGT
Found at i:32522767 original size:57 final size:59
Alignment explanation
Indices: 32522685--32522796 Score: 174
Period size: 57 Copynumber: 1.9 Consensus size: 59
32522675 TGGTGAAATA
*
32522685 GAGAAATAGAAAACATTTGGAAATGATTAAGGTTTTCTCCAAAATG-AAAATGAACATG
1 GAGAAATAGAAAACATTTGGAAATGAATAAGGTTTTCTCCAAAATGAAAAATGAACATG
* **
32522743 GAGAAAT-GAAATCATTTGGAAATGAATGTGGTTTTCTCCAAAATGAAAAATGAA
1 GAGAAATAGAAAACATTTGGAAATGAATAAGGTTTTCTCCAAAATGAAAAATGAA
32522797 AATGACCTGA
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
57 34 0.69
58 15 0.31
ACGTcount: A:0.46, C:0.08, G:0.20, T:0.27
Consensus pattern (59 bp):
GAGAAATAGAAAACATTTGGAAATGAATAAGGTTTTCTCCAAAATGAAAAATGAACATG
Found at i:32525583 original size:41 final size:41
Alignment explanation
Indices: 32525523--32525870 Score: 461
Period size: 41 Copynumber: 8.5 Consensus size: 41
32525513 AGTAAGATGA
32525523 TTCAGACTTTACGTCTAGCAGGCTTGATG-CAGGTGAAATGT
1 TTCAGACTTTACGTCTAGCAGGCTTGATGCCA-GTGAAATGT
* * *
32525564 TAT-AGACTTTACATCTAGCAGGCTTGATGCCAATGAAATAT
1 T-TCAGACTTTACGTCTAGCAGGCTTGATGCCAGTGAAATGT
* *
32525605 TTC-GAACTTTATGTCTAGCAGGCTTGATGCTAGTGAAATGT
1 TTCAG-ACTTTACGTCTAGCAGGCTTGATGCCAGTGAAATGT
* * *
32525646 TTCAGACTTTACGTCTAGCAGGCTTGATGTCGGTGAAATAT
1 TTCAGACTTTACGTCTAGCAGGCTTGATGCCAGTGAAATGT
* * ** *
32525687 TT-TGAACTTTATGTCTAGCAGGCTTGATGCTGGAGAAATGT
1 TTCAG-ACTTTACGTCTAGCAGGCTTGATGCCAGTGAAATGT
32525728 TTCAGACTTTACGTCTAGCAGGCTTGATGCCAGTGAAATGT
1 TTCAGACTTTACGTCTAGCAGGCTTGATGCCAGTGAAATGT
*
32525769 TTCAGACTTTACATCTAGCAGGCTTGATGCCAGTGAAATGT
1 TTCAGACTTTACGTCTAGCAGGCTTGATGCCAGTGAAATGT
* * *
32525810 TTCAGACTTTACGTCTAGCAGGCTTGATGTCGGTGAAATAT
1 TTCAGACTTTACGTCTAGCAGGCTTGATGCCAGTGAAATGT
* *
32525851 TTCGGACTTTAAGTCTAGCA
1 TTCAGACTTTACGTCTAGCA
32525871 AGCCACAAGC
Statistics
Matches: 269, Mismatches: 31, Indels: 14
0.86 0.10 0.04
Matches are distributed among these distances:
40 3 0.01
41 261 0.97
42 5 0.02
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.34
Consensus pattern (41 bp):
TTCAGACTTTACGTCTAGCAGGCTTGATGCCAGTGAAATGT
Found at i:32532097 original size:38 final size:38
Alignment explanation
Indices: 32532050--32532126 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
32532040 GCGTGGTGGA
*
32532050 GGAGTGTTGGAGTGATTTTAGGAGGAAAATATGGGATT
1 GGAGTGTTGGAGTGACTTTAGGAGGAAAATATGGGATT
32532088 GGAGTGTTGGAGTGACTTTAGGAGGAAAATATGGGATT
1 GGAGTGTTGGAGTGACTTTAGGAGGAAAATATGGGATT
32532126 G
1 G
32532127 TGGAGTTATC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.29, C:0.01, G:0.40, T:0.30
Consensus pattern (38 bp):
GGAGTGTTGGAGTGACTTTAGGAGGAAAATATGGGATT
Found at i:32539248 original size:44 final size:44
Alignment explanation
Indices: 32539200--32539287 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 44
32539190 TTTTGAAAGG
* *
32539200 AAATTCTAATTATTTTTAAATGTGCAATTATCACAACTTCTATT
1 AAATTATAATTATTTTTAAATGTACAATTATCACAACTTCTATT
* *
32539244 AAATTATAATTATTTTTAGATGTATAATTATCACAACTTCTATT
1 AAATTATAATTATTTTTAAATGTACAATTATCACAACTTCTATT
32539288 TTTTAAAATT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.38, C:0.11, G:0.05, T:0.47
Consensus pattern (44 bp):
AAATTATAATTATTTTTAAATGTACAATTATCACAACTTCTATT
Found at i:32540458 original size:19 final size:18
Alignment explanation
Indices: 32540422--32540465 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
32540412 TCAATAAGTA
* *
32540422 TATTGTTTTCATTTTTAATT
1 TATT-TTTTAATTATTAA-T
32540442 TATTTTTTAATTATTAAT
1 TATTTTTTAATTATTAAT
32540460 TATTTT
1 TATTTT
32540466 ATTTATATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 7 0.32
19 11 0.50
20 4 0.18
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.70
Consensus pattern (18 bp):
TATTTTTTAATTATTAAT
Found at i:32540520 original size:20 final size:22
Alignment explanation
Indices: 32540480--32540522 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
32540470 ATATAAATAA
*
32540480 AATAATAAATATGTAATTATAT
1 AATAATAAATATATAATTATAT
32540502 AATAA-AAATATAT-ATTATAT
1 AATAATAAATATATAATTATAT
32540522 A
1 A
32540523 CGATTATGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 8 0.40
21 7 0.35
22 5 0.25
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (22 bp):
AATAATAAATATATAATTATAT
Found at i:32540780 original size:23 final size:22
Alignment explanation
Indices: 32540727--32540780 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 22
32540717 GAAGATATAA
*
32540727 AATTTTTATTCATGTGATGTGG
1 AATTTTTATTCATGTGAAGTGG
* * *
32540749 TATTATTTATTGATGTTAAGTGAG
1 AATT-TTTATTCATGTGAAGTG-G
32540773 AATTTTTA
1 AATTTTTA
32540781 AAATGAGAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
22 3 0.12
23 18 0.72
24 4 0.16
ACGTcount: A:0.28, C:0.02, G:0.19, T:0.52
Consensus pattern (22 bp):
AATTTTTATTCATGTGAAGTGG
Found at i:32543393 original size:20 final size:20
Alignment explanation
Indices: 32543368--32543455 Score: 70
Period size: 20 Copynumber: 4.3 Consensus size: 20
32543358 AAAATATTTT
*
32543368 AAAATTGTAAA-AATTTATTA
1 AAAATTATAAACAA-TTATTA
*
32543388 AAAATTATAAACCATTATTTA
1 AAAATTATAAACAATTA-TTA
* ** *
32543409 AAAACTGCAAATAATTATTA
1 AAAATTATAAACAATTATTA
* *
32543429 AAAATTATAAACCACTATTTA
1 AAAATTATAAACAATTA-TTA
32543450 AAAATT
1 AAAATT
32543456 GTGAACTAGT
Statistics
Matches: 52, Mismatches: 13, Indels: 5
0.74 0.19 0.07
Matches are distributed among these distances:
20 27 0.52
21 25 0.48
ACGTcount: A:0.55, C:0.08, G:0.02, T:0.35
Consensus pattern (20 bp):
AAAATTATAAACAATTATTA
Found at i:32543411 original size:21 final size:21
Alignment explanation
Indices: 32543385--32543455 Score: 81
Period size: 21 Copynumber: 3.4 Consensus size: 21
32543375 TAAAAATTTA
32543385 TTAAAAATTATAAACCATTAT
1 TTAAAAATTATAAACCATTAT
* ** **
32543406 TTAAAAACTGCAAATAATTA-
1 TTAAAAATTATAAACCATTAT
*
32543426 TTAAAAATTATAAACCACTAT
1 TTAAAAATTATAAACCATTAT
32543447 TTAAAAATT
1 TTAAAAATT
32543456 GTGAACTAGT
Statistics
Matches: 38, Mismatches: 11, Indels: 2
0.75 0.22 0.04
Matches are distributed among these distances:
20 14 0.37
21 24 0.63
ACGTcount: A:0.54, C:0.10, G:0.01, T:0.35
Consensus pattern (21 bp):
TTAAAAATTATAAACCATTAT
Found at i:32543678 original size:10 final size:10
Alignment explanation
Indices: 32543663--32543700 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
32543653 GAAGAACTCG
32543663 AATTTTTAAT
1 AATTTTTAAT
*
32543673 AATTTTTTAT
1 AATTTTTAAT
*
32543683 -AGTTTTAAT
1 AATTTTTAAT
32543692 AATTTTTAA
1 AATTTTTAA
32543701 AAAAATTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
9 7 0.30
10 16 0.70
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (10 bp):
AATTTTTAAT
Found at i:32548572 original size:18 final size:18
Alignment explanation
Indices: 32548549--32548623 Score: 50
Period size: 18 Copynumber: 4.3 Consensus size: 18
32548539 ATGGTAATCG
32548549 ATTTTATAATTTTATATT
1 ATTTTATAATTTTATATT
*
32548567 ATTTTAATAA-ATTATA--
1 ATTTT-ATAATTTTATATT
* * *
32548583 ATATTATAATATTTTTCTT
1 ATTTTATAAT-TTTATATT
* *
32548602 -TTTTATAATTTTTTAAT
1 ATTTTATAATTTTATATT
32548619 ATTTT
1 ATTTT
32548624 TCATTTTAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 12
0.68 0.13 0.19
Matches are distributed among these distances:
15 4 0.09
16 4 0.09
17 9 0.21
18 22 0.51
19 4 0.09
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (18 bp):
ATTTTATAATTTTATATT
Found at i:32548607 original size:26 final size:26
Alignment explanation
Indices: 32548578--32548630 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
32548568 TTTTAATAAA
*
32548578 TTATAATATTATAATATTTTTCTTTT
1 TTATAATATTATAATATTTTTCATTT
* *
32548604 TTATAATTTTTTAATATTTTTCATTT
1 TTATAATATTATAATATTTTTCATTT
32548630 T
1 T
32548631 AAAAAATTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (26 bp):
TTATAATATTATAATATTTTTCATTT
Found at i:32549913 original size:23 final size:23
Alignment explanation
Indices: 32549870--32549914 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
32549860 TAATTTAATA
* *
32549870 TTTTCTCATAAAATTATAAATTT
1 TTTTATCATAAAATTAAAAATTT
32549893 TTTTATCAT-AAATATAAAAATT
1 TTTTATCATAAAAT-TAAAAATT
32549915 ATTAAATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (23 bp):
TTTTATCATAAAATTAAAAATTT
Found at i:32550058 original size:22 final size:22
Alignment explanation
Indices: 32550029--32550073 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 22
32550019 AAATTATTTT
*
32550029 TAAAAAAAAGTA-TAAATTTGA
1 TAAAAAAAAGTATTAAAATTGA
32550050 TAAAAAAAAGTATTAAAATTGA
1 TAAAAAAAAGTATTAAAATTGA
32550072 TA
1 TA
32550074 TAAAGTTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.62, C:0.00, G:0.09, T:0.29
Consensus pattern (22 bp):
TAAAAAAAAGTATTAAAATTGA
Found at i:32550512 original size:9 final size:9
Alignment explanation
Indices: 32550495--32550702 Score: 50
Period size: 10 Copynumber: 21.4 Consensus size: 9
32550485 TTTATGATTT
32550495 TTTTATATAA
1 TTTT-TATAA
32550505 TTTTTATAA
1 TTTTTATAA
*
32550514 GTTTATATCAA
1 -TTTTTAT-AA
*
32550525 TTTTAAT-A
1 TTTTTATAA
*
32550533 TTTTTAATACT
1 TTTTT-ATA-A
32550544 TTTTTATAAA
1 TTTTTAT-AA
32550554 TTTTTTTATAA
1 --TTTTTATAA
*
32550565 TATTTTAAGAA
1 T-TTTT-ATAA
* *
32550576 TTCTAATAA
1 TTTTTATAA
*
32550585 GTTTTTTTAAA
1 -TTTTTAT-AA
* *
32550596 ATTTTAAAGA
1 TTTTTATA-A
*
32550606 TTTTAAATAA
1 TTTT-TATAA
*
32550616 GTTTTATTAA
1 TTTTTA-TAA
32550626 --TTTAT-A
1 TTTTTATAA
32550632 TTTTTATAA
1 TTTTTATAA
**
32550641 TTTATTGGAA
1 TTT-TTATAA
32550651 TTTATTAT-A
1 TTT-TTATAA
32550660 -TTTTATAA
1 TTTTTATAA
*
32550668 TATTTATAA
1 TTTTTATAA
32550677 GTTTTTTTTATAA
1 ----TTTTTATAA
*
32550690 TTTTAATAA
1 TTTTTATAA
32550699 TTTT
1 TTTT
32550703 ACATCAATTA
Statistics
Matches: 145, Mismatches: 28, Indels: 51
0.65 0.12 0.23
Matches are distributed among these distances:
6 1 0.01
7 5 0.03
8 17 0.12
9 37 0.26
10 52 0.36
11 18 0.12
12 7 0.05
13 8 0.06
ACGTcount: A:0.36, C:0.01, G:0.04, T:0.59
Consensus pattern (9 bp):
TTTTTATAA
Found at i:32550562 original size:12 final size:13
Alignment explanation
Indices: 32550533--32550570 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 13
32550523 AATTTTAATA
*
32550533 TTTT-TAATACTT
1 TTTTATAATATTT
32550545 TTTTATAA-ATTT
1 TTTTATAATATTT
32550557 TTTTATAATATTT
1 TTTTATAATATTT
32550570 T
1 T
32550571 AAGAATTCTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 15 0.65
13 8 0.35
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTTATAATATTT
Found at i:32550600 original size:30 final size:32
Alignment explanation
Indices: 32550549--32550625 Score: 88
Period size: 31 Copynumber: 2.4 Consensus size: 32
32550539 ATACTTTTTT
*
32550549 ATAAATTTTTTTATAATATTTT-AAGAATTCT-A
1 ATAAGTTTTTTTA-AATATTTTAAAG-ATTCTAA
*
32550581 ATAAGTTTTTTTAAA-ATTTTAAAGATTTTAA
1 ATAAGTTTTTTTAAATATTTTAAAGATTCTAA
*
32550612 ATAAGTTTTATTAA
1 ATAAGTTTTTTTAA
32550626 TTTATATTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
30 9 0.22
31 19 0.47
32 12 0.30
ACGTcount: A:0.42, C:0.01, G:0.05, T:0.52
Consensus pattern (32 bp):
ATAAGTTTTTTTAAATATTTTAAAGATTCTAA
Found at i:32550688 original size:22 final size:21
Alignment explanation
Indices: 32550660--32550702 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
32550650 ATTTATTATA
32550660 TTTTATAATATTT-ATAAGTTTT
1 TTTTATAAT-TTTAATAA-TTTT
32550682 TTTTATAATTTTAATAATTTT
1 TTTTATAATTTTAATAATTTT
32550703 ACATCAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (21 bp):
TTTTATAATTTTAATAATTTT
Found at i:32551569 original size:11 final size:11
Alignment explanation
Indices: 32551548--32551584 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
32551538 TAATAACAAT
32551548 AAAATAGTAGC
1 AAAATAGTAGC
* *
32551559 AATATATTAGC
1 AAAATAGTAGC
32551570 AAAATAGTAGC
1 AAAATAGTAGC
32551581 AAAA
1 AAAA
32551585 CAACATTAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.57, C:0.08, G:0.14, T:0.22
Consensus pattern (11 bp):
AAAATAGTAGC
Found at i:32551613 original size:18 final size:18
Alignment explanation
Indices: 32551592--32551629 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
32551582 AAACAACATT
*
32551592 AAAACAATAGCAAACAAC
1 AAAACAACAGCAAACAAC
*
32551610 AAAACAACAGTAAACAAC
1 AAAACAACAGCAAACAAC
32551628 AA
1 AA
32551630 TGAAAAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.68, C:0.21, G:0.05, T:0.05
Consensus pattern (18 bp):
AAAACAACAGCAAACAAC
Found at i:32555378 original size:406 final size:406
Alignment explanation
Indices: 32554600--32555820 Score: 2072
Period size: 406 Copynumber: 3.0 Consensus size: 406
32554590 TGGCCTATCA
32554600 GAACTA-AACCTTCTAGAACTAGAACTTACATAAGGGGACTGTGTGGAGTATCAACACTGAGCAC
1 GAACTAGAA-CTTCTAGAACTAGAACTTACATAAGGGGACTGTGTGGAGTATCAACACTGAGCAC
*
32554664 -ATGAACCTCATTCAATAAATTAACACTAGTAACCATTGGAACATTAACTACTGGAGTACCCTGA
65 AAT-AACCTCATTCAATGAATTAACACTAGTAACCATTGGAACATTAACTACTGGAGTACCCTGA
*
32554728 GCTGTATGAACTGGTGTCATAACAAGAAGTTTAGAACTAGACTGCGAAGTAGAAGGTAT-AGAGG
129 GCTGTATGAACTGGTGTCATAACAAGAAGTTTAGAACTAGACTGCGAAGTAGAAGGTATGA-AAG
* *
32554792 TTGCAGACTTGGGGCGGAGAGTTTTAAATGGAAATTCATTTTCATGAAATGTAACATGACGGAAA
193 CTGCAGACTTGGGGCGGAGAGTTTTAAATGGAAATTCATTTTCATGAAATGTAACATGACGGGAA
*
32554857 ATATAGACCCTTCCATCAGCAGCCTGAAAATGATACCCTTTATGACATGGTGAATACCCTAAAAA
258 ATATAGACCCTTCCATCAGCAGCCTGACAATGATACCCTTTATGACATGGTGAATACCCTAAAAA
* *
32554922 TGTGCATGGAGTTGACCTATACTGTAGTTTTAAAGTATTGTATAGTCGAAGGTTCGGAAAGCATA
323 TGTGCATGGAGTTGACCTATACTGTAGTTTTCAAGTATTGTATGGTCGAAGGTTCGGAAAGCATA
32554987 AGCAGCCAAATACTCTAAG
388 AGCAGCCAAATACTCTAAG
* * *
32555006 GAACTAGAACTTCTAAAACTGGAACTTACATAAGGGGACTGTGTGGAGTATCAACACTGAGTACA
1 GAACTAGAACTTCTAGAACTAGAACTTACATAAGGGGACTGTGTGGAGTATCAACACTGAGCACA
* *
32555071 ATAACCTCATTCAATGAATTAATACTAGTAACCATCGGAACATTAACTACTGGAGTACCCTGAGC
66 ATAACCTCATTCAATGAATTAACACTAGTAACCATTGGAACATTAACTACTGGAGTACCCTGAGC
*
32555136 TGTATGAACTGGTGTCATAACAAGAAGTTTAGAACTAGAGTGCGAAGTAGAAGGTATGAAAGCTG
131 TGTATGAACTGGTGTCATAACAAGAAGTTTAGAACTAGACTGCGAAGTAGAAGGTATGAAAGCTG
* *
32555201 CAGATTTGGGGCGGAGAAGTGTTAAATGGAAATTCATTTTCATG-AATGTAACATGACGGGAAAT
196 CAGACTTGGGGCGGAG-AGTTTTAAATGGAAATTCATTTTCATGAAATGTAACATGACGGGAAAT
* *
32555265 ATAGACCCTTCCATCAGCAGCCTGACAATGATACCCTTTATAACATGGTGAATACCCCAAAAATG
260 ATAGACCCTTCCATCAGCAGCCTGACAATGATACCCTTTATGACATGGTGAATACCCTAAAAATG
32555330 TGCATGGAGTTGACCTATACTGTAGTTTTCAAGTATTGTATGGTCGAAGGTTCGGAAAGCATAAG
325 TGCATGGAGTTGACCTATACTGTAGTTTTCAAGTATTGTATGGTCGAAGGTTCGGAAAGCATAAG
*
32555395 CAGCTAAATACTCTAAG
390 CAGCCAAATACTCTAAG
*
32555412 GAACTAGAACTTCTAGAACTAGAACTTACATAAGGGGACTGTGTAGAGTATCAACACTGAGCACA
1 GAACTAGAACTTCTAGAACTAGAACTTACATAAGGGGACTGTGTGGAGTATCAACACTGAGCACA
* * *
32555477 AGAACCTCATTCAATGAATTAACACTAGTAACCATTGGAACATTAACTATTGGAGTACCCTGAGT
66 ATAACCTCATTCAATGAATTAACACTAGTAACCATTGGAACATTAACTACTGGAGTACCCTGAGC
* *
32555542 TGTATGAACTGATGTCATAATAAGAAGTTTAGAACTAGACTGCGAAGTAGAAGGTATGAAAGCTG
131 TGTATGAACTGGTGTCATAACAAGAAGTTTAGAACTAGACTGCGAAGTAGAAGGTATGAAAGCTG
* * *
32555607 CAGACTTAGGGTGGAGAGTTTTAAATGGAAATTCATTTTCATGAAATGTAACATGACAGGAAATA
196 CAGACTTGGGGCGGAGAGTTTTAAATGGAAATTCATTTTCATGAAATGTAACATGACGGGAAATA
* * *
32555672 TAGACCCTTCCATCAGCAACCTAACAACGATACCCTTTATGACATGGTGAATACCCTAAAAATGT
261 TAGACCCTTCCATCAGCAGCCTGACAATGATACCCTTTATGACATGGTGAATACCCTAAAAATGT
* * *
32555737 GCATAGAGTTGACCTATACTGTAGTTTTCAAGTATTGTATGGTCGAAGGTTCAGAAAGCATAAAC
326 GCATGGAGTTGACCTATACTGTAGTTTTCAAGTATTGTATGGTCGAAGGTTCGGAAAGCATAAGC
*
32555802 AGCCAAATACTCTATG
391 AGCCAAATACTCTAAG
32555818 GAA
1 GAA
32555821 TGAATAAGTT
Statistics
Matches: 765, Mismatches: 45, Indels: 10
0.93 0.05 0.01
Matches are distributed among these distances:
405 26 0.03
406 708 0.93
407 31 0.04
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (406 bp):
GAACTAGAACTTCTAGAACTAGAACTTACATAAGGGGACTGTGTGGAGTATCAACACTGAGCACA
ATAACCTCATTCAATGAATTAACACTAGTAACCATTGGAACATTAACTACTGGAGTACCCTGAGC
TGTATGAACTGGTGTCATAACAAGAAGTTTAGAACTAGACTGCGAAGTAGAAGGTATGAAAGCTG
CAGACTTGGGGCGGAGAGTTTTAAATGGAAATTCATTTTCATGAAATGTAACATGACGGGAAATA
TAGACCCTTCCATCAGCAGCCTGACAATGATACCCTTTATGACATGGTGAATACCCTAAAAATGT
GCATGGAGTTGACCTATACTGTAGTTTTCAAGTATTGTATGGTCGAAGGTTCGGAAAGCATAAGC
AGCCAAATACTCTAAG
Found at i:32572221 original size:20 final size:18
Alignment explanation
Indices: 32572174--32572223 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
32572164 TAATATAAAC
32572174 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
32572191 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
32572211 ATTAAATTAATAT
1 ATTAAATTAATAT
32572224 AATACTATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
17 8 0.29
18 2 0.07
19 3 0.11
20 15 0.54
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:32572225 original size:25 final size:26
Alignment explanation
Indices: 32572186--32572234 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
32572176 TAAATTAAAT
32572186 TTAATATTAAGATAATCACT-TTAATA
1 TTAATATTAAGATAAT-ACTATTAATA
*
32572212 TTAA-ATTAATATAATACTATTAA
1 TTAATATTAAGATAATACTATTAA
32572235 GATAAGCATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 3 0.14
25 14 0.67
26 4 0.19
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (26 bp):
TTAATATTAAGATAATACTATTAATA
Found at i:32572268 original size:37 final size:38
Alignment explanation
Indices: 32572174--32572268 Score: 108
Period size: 37 Copynumber: 2.6 Consensus size: 38
32572164 TAATATAAAC
** *
32572174 ATTAAATTAA-ATTTAA-TATTAAGATAATCACTTTAAT
1 ATTAAATTAATATAAAACTATTAAGATAAGCAC-TTAAT
*
32572211 ATTAAATTAATATAATACTATTAAGATAAGCA-TTAA-
1 ATTAAATTAATATAAAACTATTAAGATAAGCACTTAAT
32572247 ATTAAATTTAATATAAAACTAT
1 ATTAAA-TTAATATAAAACTAT
32572269 AAAAATAATA
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
36 6 0.12
37 28 0.56
38 3 0.06
39 13 0.26
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.40
Consensus pattern (38 bp):
ATTAAATTAATATAAAACTATTAAGATAAGCACTTAAT
Found at i:32581024 original size:30 final size:29
Alignment explanation
Indices: 32580990--32581053 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
32580980 TTGACACATT
*
32580990 CCTTTCCATGATTCAATAGCCAAAGTTATC
1 CCTTT-CATGATTCAATAGCCAAAGCTATC
* * **
32581020 CCTTTCGTGATTCGATAGCTGAAGCTATC
1 CCTTTCATGATTCAATAGCCAAAGCTATC
32581049 CCTTT
1 CCTTT
32581054 TCATAATTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 24 0.83
30 5 0.17
ACGTcount: A:0.23, C:0.27, G:0.14, T:0.36
Consensus pattern (29 bp):
CCTTTCATGATTCAATAGCCAAAGCTATC
Found at i:32581030 original size:29 final size:29
Alignment explanation
Indices: 32580998--32581053 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
32580988 TTCCTTTCCA
*
32580998 TGATTCAATAGCCAAAGTTATCCCTTTCG
1 TGATTCAATAGCCAAAGCTATCCCTTTCG
* **
32581027 TGATTCGATAGCTGAAGCTATCCCTTT
1 TGATTCAATAGCCAAAGCTATCCCTTT
32581054 TCATAATTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (29 bp):
TGATTCAATAGCCAAAGCTATCCCTTTCG
Found at i:32581227 original size:30 final size:30
Alignment explanation
Indices: 32581046--32581241 Score: 186
Period size: 30 Copynumber: 6.5 Consensus size: 30
32581036 AGCTGAAGCT
32581046 ATCCCTTTTCATAATTTTGATGGTCGTCACC
1 ATCCCTTTTCATAA-TTTGATGGTCGTCACC
*
32581077 ATCCCTTTTCAT--TCTTGATGGTCGTCGCC
1 ATCCCTTTTCATAAT-TTGATGGTCGTCACC
* *** *
32581106 AT-CCTTTTACATAATTTGATAGTCAAAACT
1 ATCCCTTTT-CATAATTTGATGGTCGTCACC
* * * *
32581136 ATCCCTTTGCATGATTTGATAG-C-TGAAGCC
1 ATCCCTTTTCATAATTTGATGGTCGT-CA-CC
*
32581166 ATCCCTTTTCATAATTTTGATGGTTGTCACC
1 ATCCCTTTTCATAA-TTTGATGGTCGTCACC
* *
32581197 ATCCCTTTTCATAATTCGGTGGTCGTCACC
1 ATCCCTTTTCATAATTTGATGGTCGTCACC
32581227 ATCCCTTTTCATAAT
1 ATCCCTTTTCATAAT
32581242 CGATAGCCGA
Statistics
Matches: 136, Mismatches: 19, Indels: 21
0.77 0.11 0.12
Matches are distributed among these distances:
28 7 0.05
29 22 0.16
30 64 0.47
31 41 0.30
32 1 0.01
33 1 0.01
ACGTcount: A:0.21, C:0.25, G:0.13, T:0.40
Consensus pattern (30 bp):
ATCCCTTTTCATAATTTGATGGTCGTCACC
Found at i:32581231 original size:91 final size:88
Alignment explanation
Indices: 32581075--32581265 Score: 195
Period size: 91 Copynumber: 2.1 Consensus size: 88
32581065 ATGGTCGTCA
* * *
32581075 CCATCCCTTTTCATTCTTGATGGTCGTCGCCATCCTTTTACATAATTTGATAGTCAAAACTATCC
1 CCATCCCTTTTCATTCTTGATGGTCGTCACCATCCTTTTACATAATTCGATAGTCAAAACCATCC
* * *
32581140 CTTTGCATGATTTGATAGCTGAAG
66 CTTTGCAT-AATCGATAGCCGAAG
* * * * ***
32581164 CCATCCCTTTTCATAATTTTGATGGTTGTCACCATCCCTTTT-CATAATTCGGTGGTCGTCACCA
1 CCATCCCTTTTCAT--TCTTGATGGTCGTCACCAT-CCTTTTACATAATTCGATAGTCAAAACCA
*
32581228 TCCCTTTTCATAATCGATAGCCGAAG
63 TCCCTTTGCATAATCGATAGCCGAAG
* *
32581254 CTATCTCTTTTC
1 CCATCCCTTTTC
32581266 GTATTCGATA
Statistics
Matches: 83, Mismatches: 16, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
89 14 0.17
90 22 0.27
91 41 0.49
92 6 0.07
ACGTcount: A:0.21, C:0.26, G:0.14, T:0.39
Consensus pattern (88 bp):
CCATCCCTTTTCATTCTTGATGGTCGTCACCATCCTTTTACATAATTCGATAGTCAAAACCATCC
CTTTGCATAATCGATAGCCGAAG
Found at i:32581247 original size:120 final size:119
Alignment explanation
Indices: 32581000--32581296 Score: 384
Period size: 120 Copynumber: 2.5 Consensus size: 119
32580990 CCTTTCCATG
* **
32581000 ATTCAATAGCCAAAGTTATCCCTTTCGTGATTCGATAGCTGAAGCTATCCCTTTTCATAATTTTG
1 ATTCGATAGCCAAAACTATCCCTTTCGTGATTCGATAGCTGAAGCTATCCCTTTTCATAATTTTG
** *
32581065 ATGGTCGTCACCATCCCTTTTCATTCTTGATGGTCGTCGCCATCCTTTTACATA
66 ATGGTCGTCACCATCCCTTTTCATAATTGATGGTCGTCACCATCCTTTTACATA
* * * * *
32581119 ATTTGATAGTCAAAACTATCCCTTTGCATGATTTGATAGCTGAAGCCATCCCTTTTCATAATTTT
1 ATTCGATAGCCAAAACTATCCCTTT-CGTGATTCGATAGCTGAAGCTATCCCTTTTCATAATTTT
* *
32581184 GATGGTTGTCACCATCCCTTTTCATAATTCGGTGGTCGTCACCATCCCTTTT-CATA
65 GATGGTCGTCACCATCCCTTTTCATAATT-GATGGTCGTCACCAT-CCTTTTACATA
* * * *
32581240 A-TCGATAGCCGAAGCTATCTCTTTTCGT-ATTCGATAGCCGAAGCTATCCCTTTTCAT
1 ATTCGATAGCCAAAACTATC-CCTTTCGTGATTCGATAGCTGAAGCTATCCCTTTTCAT
32581297 TCGTTGATGA
Statistics
Matches: 152, Mismatches: 22, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
119 46 0.30
120 78 0.51
121 22 0.14
122 6 0.04
ACGTcount: A:0.23, C:0.25, G:0.14, T:0.38
Consensus pattern (119 bp):
ATTCGATAGCCAAAACTATCCCTTTCGTGATTCGATAGCTGAAGCTATCCCTTTTCATAATTTTG
ATGGTCGTCACCATCCCTTTTCATAATTGATGGTCGTCACCATCCTTTTACATA
Found at i:32581273 original size:29 final size:29
Alignment explanation
Indices: 32581227--32581296 Score: 113
Period size: 29 Copynumber: 2.4 Consensus size: 29
32581217 GGTCGTCACC
32581227 ATCCCTTTTCATAATCGATAGCCGAAGCT
1 ATCCCTTTTCATAATCGATAGCCGAAGCT
* * *
32581256 ATCTCTTTTCGTATTCGATAGCCGAAGCT
1 ATCCCTTTTCATAATCGATAGCCGAAGCT
32581285 ATCCCTTTTCAT
1 ATCCCTTTTCAT
32581297 TCGTTGATGA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.23, C:0.27, G:0.13, T:0.37
Consensus pattern (29 bp):
ATCCCTTTTCATAATCGATAGCCGAAGCT
Found at i:32587247 original size:86 final size:86
Alignment explanation
Indices: 32587102--32587286 Score: 298
Period size: 86 Copynumber: 2.2 Consensus size: 86
32587092 CTGCAGGGGT
* * *
32587102 CACACGATCGTGTGGCCAAGTCATGTGACTCACTTGACCAAGATACACATCCGTGTCACAGGCCG
1 CACACGACCGTGTGGCCAAGCCATGTGACTCACTCGACCAAGATACACATCCGTGTCACAGGCCG
32587167 TATGGGCATTCGAAGTAGGGA
66 TATGGGCATTCGAAGTAGGGA
* *
32587188 CACACGACCGTGTGGCCAAGCCATGTGACTCACTCGACCAAGATACACGTCCGTGTCACAGGCCT
1 CACACGACCGTGTGGCCAAGCCATGTGACTCACTCGACCAAGATACACATCCGTGTCACAGGCCG
* *
32587253 TGTGGGTATTCGAAGTAGGGA
66 TATGGGCATTCGAAGTAGGGA
*
32587274 CACATGACCGTGT
1 CACACGACCGTGT
32587287 CCGTGCCCAT
Statistics
Matches: 91, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
86 91 1.00
ACGTcount: A:0.25, C:0.27, G:0.27, T:0.21
Consensus pattern (86 bp):
CACACGACCGTGTGGCCAAGCCATGTGACTCACTCGACCAAGATACACATCCGTGTCACAGGCCG
TATGGGCATTCGAAGTAGGGA
Found at i:32587395 original size:12 final size:12
Alignment explanation
Indices: 32587378--32587407 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
32587368 CCATACATGC
32587378 CCGTGTGCGAGG
1 CCGTGTGCGAGG
*
32587390 CCGTGTGCTAGG
1 CCGTGTGCGAGG
32587402 CCGTGT
1 CCGTGT
32587408 AACTGCCTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.27, G:0.43, T:0.23
Consensus pattern (12 bp):
CCGTGTGCGAGG
Found at i:32588534 original size:30 final size:30
Alignment explanation
Indices: 32588500--32588558 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
32588490 TTCTTTTCCA
* *
32588500 TGATTTGATAGCCAAAGCTATCCTTTTTCG
1 TGATTCGATAGCCAAAGCTATCCCTTTTCG
***
32588530 TGATTCGATAGTTGAAGCTATCCCTTTTC
1 TGATTCGATAGCCAAAGCTATCCCTTTTC
32588559 ATAAATTTGA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.22, C:0.20, G:0.17, T:0.41
Consensus pattern (30 bp):
TGATTCGATAGCCAAAGCTATCCCTTTTCG
Found at i:32588584 original size:31 final size:30
Alignment explanation
Indices: 32588549--32588714 Score: 137
Period size: 30 Copynumber: 5.5 Consensus size: 30
32588539 AGTTGAAGCT
*
32588549 ATCCCTTTTCATAAATTTGATGGTCGTCACC
1 ATCCCTTTTCAT-AATTTGATAGTCGTCACC
*
32588580 ATCCCTTTTCAT--TGTTGATGGTCGTCACC
1 ATCCCTTTTCATAAT-TTGATAGTCGTCACC
* * * *
32588609 ATCCCTCTACATAATTTGATAG-C-TGAAGCT
1 ATCCCTTTTCATAATTTGATAGTCGT-CA-CC
* * *
32588639 ATCCCTTTGCATGATTTGATAG-C-TAAAGCC
1 ATCCCTTTTCATAATTTGATAGTCGT-CA-CC
*
32588669 ATCCCTTTTCATAATTTTGACAGTCGTCACC
1 ATCCCTTTTCATAA-TTTGATAGTCGTCACC
32588700 ATCCCTTTTCATAAT
1 ATCCCTTTTCATAAT
32588715 CGATTGCCGA
Statistics
Matches: 113, Mismatches: 14, Indels: 17
0.78 0.10 0.12
Matches are distributed among these distances:
28 2 0.02
29 27 0.24
30 45 0.40
31 36 0.32
32 2 0.02
33 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.13, T:0.38
Consensus pattern (30 bp):
ATCCCTTTTCATAATTTGATAGTCGTCACC
Found at i:32588643 original size:90 final size:89
Alignment explanation
Indices: 32588534--32588740 Score: 231
Period size: 90 Copynumber: 2.3 Consensus size: 89
32588524 TTTTCGTGAT
* * *
32588534 TCGATAGTTGAAGCTATCCCTTTTCATAAATTTGATGGTCGT-CA-CCATCCCTTTTCAT-TGTT
1 TCGATAGCTGAAGCTATCCCTTTTCAT-AATTTGATAG-C-TAAAGCCATCCCTTTTCATATGTT
**
32588596 GATGGTCGTCACCATCCCTCTACATAA
63 GACAGTCGTCACCATCCCTCTACATAA
* * * *
32588623 TTTGATAGCTGAAGCTATCCCTTTGCATGATTTGATAGCTAAAGCCATCCCTTTTCATAATTTTG
1 -TCGATAGCTGAAGCTATCCCTTTTCATAATTTGATAGCTAAAGCCATCCCTTTTCAT-ATGTTG
* *
32588688 ACAGTCGTCACCATCCCTTTTCATAA
64 ACAGTCGTCACCATCCCTCTACATAA
* *
32588714 TCGATTGCCGAAGCTATCCCTTTTCAT
1 TCGATAGCTGAAGCTATCCCTTTTCAT
32588741 TCGTTGATGA
Statistics
Matches: 98, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
87 1 0.01
88 2 0.02
89 22 0.22
90 47 0.48
91 26 0.27
ACGTcount: A:0.23, C:0.26, G:0.14, T:0.37
Consensus pattern (89 bp):
TCGATAGCTGAAGCTATCCCTTTTCATAATTTGATAGCTAAAGCCATCCCTTTTCATATGTTGAC
AGTCGTCACCATCCCTCTACATAA
Found at i:32588734 original size:120 final size:120
Alignment explanation
Indices: 32588502--32588723 Score: 282
Period size: 120 Copynumber: 1.9 Consensus size: 120
32588492 CTTTTCCATG
* * * * * *
32588502 ATTTGATAGCCAAAGCTATCCTTTTTCGTGATTCGATAGTTGAAGCTATCCCTTTTCATAAATTT
1 ATTTGATAGCCAAAGCTATCCCTTTGCATGATTCGATAGCTAAAGCCATCCCTTTTCATAAATTT
** ** * * *
32588567 GATGGTCGTCACCATCCCTTTTCATTGTTGATGGTCGTCACCATCCCTCTACATA
66 GACAGTCGTCACCATCCCTTTTCATAATCGATGGCCGTAACCATCCCTCTACATA
** * *
32588622 ATTTGATAGCTGAAGCTATCCCTTTGCATGATTTGATAGCTAAAGCCATCCCTTTTCATAATTTT
1 ATTTGATAGCCAAAGCTATCCCTTTGCATGATTCGATAGCTAAAGCCATCCCTTTTCATAAATTT
*
32588687 GACAGTCGTCACCATCCCTTTTCATAATCGATTGCCG
66 GACAGTCGTCACCATCCCTTTTCATAATCGATGGCCG
32588724 AAGCTATCCC
Statistics
Matches: 85, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
120 85 1.00
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.37
Consensus pattern (120 bp):
ATTTGATAGCCAAAGCTATCCCTTTGCATGATTCGATAGCTAAAGCCATCCCTTTTCATAAATTT
GACAGTCGTCACCATCCCTTTTCATAATCGATGGCCGTAACCATCCCTCTACATA
Found at i:32590786 original size:21 final size:21
Alignment explanation
Indices: 32590738--32590779 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
32590728 GAAGACAACC
*
32590738 ATCCTTTAACTTAACCTAAGT
1 ATCCTTTAACTTAACCCAAGT
*
32590759 ATCCTTTAACTTCACCCAAGT
1 ATCCTTTAACTTAACCCAAGT
32590780 CTTCTTTGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.31, C:0.29, G:0.05, T:0.36
Consensus pattern (21 bp):
ATCCTTTAACTTAACCCAAGT
Found at i:32594210 original size:21 final size:20
Alignment explanation
Indices: 32594178--32594230 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
32594168 AAGATTCGTC
*
32594178 AAAACTATAAAAGA-TATAAA
1 AAAATTATAAAA-ATTATAAA
*
32594198 AAAATTCATAAAAATTTTAAA
1 AAAATT-ATAAAAATTATAAA
32594219 AAAATTATAAAA
1 AAAATTATAAAA
32594231 TATACATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 12 0.41
21 17 0.59
ACGTcount: A:0.68, C:0.04, G:0.02, T:0.26
Consensus pattern (20 bp):
AAAATTATAAAAATTATAAA
Found at i:32597556 original size:28 final size:27
Alignment explanation
Indices: 32597523--32597621 Score: 119
Period size: 28 Copynumber: 3.6 Consensus size: 27
32597513 TAATGAGATT
32597523 AGCACTAAGTGTGCGAGTTTAATTGAA
1 AGCACTAAGTGTGCGAGTTTAATTGAA
* **
32597550 ATGCACTAAGTGTGCGAGTATAAGGGTAA
1 A-GCACTAAGTGTGCGAGTTTAATTG-AA
*
32597579 AGCACTAAGTGTGCGAGTTTGATT-ATTA
1 AGCACTAAGTGTGCGAGTTTAATTGA--A
32597607 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
32597622 TACTTATTAA
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
26 1 0.02
27 1 0.02
28 56 0.92
29 3 0.05
ACGTcount: A:0.31, C:0.12, G:0.28, T:0.28
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTTAATTGAA
Found at i:32598593 original size:25 final size:25
Alignment explanation
Indices: 32598564--32598687 Score: 174
Period size: 25 Copynumber: 5.2 Consensus size: 25
32598554 TAAATTTTGA
32598564 GTATATTGATGCTGTCCATTTTAAT
1 GTATATTGATGCTGTCCATTTTAAT
32598589 GTATA---ATGCTGTCCAATTTTAA-
1 GTATATTGATGCTGTCC-ATTTTAAT
32598611 GTATATTGATGCTGTCCATTTTAAT
1 GTATATTGATGCTGTCCATTTTAAT
32598636 GTATA---ATGCTGTCCAATTTTAA-
1 GTATATTGATGCTGTCC-ATTTTAAT
32598658 GTATATTGATGCTGTCCATTTTAAT
1 GTATATTGATGCTGTCCATTTTAAT
32598683 GTATA
1 GTATA
32598688 ATGCTGTCTA
Statistics
Matches: 89, Mismatches: 0, Indels: 20
0.82 0.00 0.18
Matches are distributed among these distances:
22 28 0.31
23 14 0.16
24 14 0.16
25 33 0.37
ACGTcount: A:0.27, C:0.12, G:0.15, T:0.45
Consensus pattern (25 bp):
GTATATTGATGCTGTCCATTTTAAT
Found at i:32598598 original size:22 final size:22
Alignment explanation
Indices: 32598572--32598695 Score: 162
Period size: 22 Copynumber: 5.4 Consensus size: 22
32598562 GAGTATATTG
32598572 ATGCTGTCCATTTTAATGTATA
1 ATGCTGTCCATTTTAATGTATA
32598594 ATGCTGTCCAATTTTAA-GTATA
1 ATGCTGTCC-ATTTTAATGTATA
32598616 TTGATGCTGTCCATTTTAATGTATA
1 ---ATGCTGTCCATTTTAATGTATA
32598641 ATGCTGTCCAATTTTAA-GTATA
1 ATGCTGTCC-ATTTTAATGTATA
32598663 TTGATGCTGTCCATTTTAATGTATA
1 ---ATGCTGTCCATTTTAATGTATA
32598688 ATGCTGTC
1 ATGCTGTC
32598696 TAATTTTGAG
Statistics
Matches: 92, Mismatches: 0, Indels: 20
0.82 0.00 0.18
Matches are distributed among these distances:
22 36 0.39
23 14 0.15
24 14 0.15
25 28 0.30
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (22 bp):
ATGCTGTCCATTTTAATGTATA
Found at i:32598625 original size:47 final size:47
Alignment explanation
Indices: 32598556--32598792 Score: 291
Period size: 47 Copynumber: 5.0 Consensus size: 47
32598546 TTGTGTTATA
*
32598556 AATTTTGAGTATATTGATGCTGTCCATTTTAATGTATAATGCTGTCC
1 AATTTTAAGTATATTGATGCTGTCCATTTTAATGTATAATGCTGTCC
32598603 AATTTTAAGTATATTGATGCTGTCCATTTTAATGTATAATGCTGTCC
1 AATTTTAAGTATATTGATGCTGTCCATTTTAATGTATAATGCTGTCC
*
32598650 AATTTTAAGTATATTGATGCTGTCCATTTTAATGTATAATGCTGTCT
1 AATTTTAAGTATATTGATGCTGTCCATTTTAATGTATAATGCTGTCC
* * * * * * * *
32598697 AATTTTGAGTAGATTTAAGCTTTCTAATTTGATGTATAATGCTG-CC
1 AATTTTAAGTATATTGATGCTGTCCATTTTAATGTATAATGCTGTCC
* * * * *
32598743 CA-TTTAGAGCATATT-ATTGCTGTCCAATTTGATGAATAATTGCTGTCC
1 AATTTTA-AGTATATTGA-TGCTGTCCATTTTAATGTATAA-TGCTGTCC
32598791 AA
1 AA
32598793 AACAGGGTTG
Statistics
Matches: 166, Mismatches: 20, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
45 4 0.02
46 26 0.16
47 133 0.80
48 3 0.02
ACGTcount: A:0.28, C:0.13, G:0.16, T:0.43
Consensus pattern (47 bp):
AATTTTAAGTATATTGATGCTGTCCATTTTAATGTATAATGCTGTCC
Found at i:32602333 original size:71 final size:71
Alignment explanation
Indices: 32602249--32602392 Score: 288
Period size: 71 Copynumber: 2.0 Consensus size: 71
32602239 GGGTTAGGGT
32602249 GCACCCGCACGACATGGGCGGGACAAAATGTTTGGATTGTTTGGACCCAAAATGGGCTTACAGAT
1 GCACCCGCACGACATGGGCGGGACAAAATGTTTGGATTGTTTGGACCCAAAATGGGCTTACAGAT
32602314 ATTTTA
66 ATTTTA
32602320 GCACCCGCACGACATGGGCGGGACAAAATGTTTGGATTGTTTGGACCCAAAATGGGCTTACAGAT
1 GCACCCGCACGACATGGGCGGGACAAAATGTTTGGATTGTTTGGACCCAAAATGGGCTTACAGAT
32602385 ATTTTA
66 ATTTTA
32602391 GC
1 GC
32602393 CCAACACAAA
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 73 1.00
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (71 bp):
GCACCCGCACGACATGGGCGGGACAAAATGTTTGGATTGTTTGGACCCAAAATGGGCTTACAGAT
ATTTTA
Found at i:32603812 original size:16 final size:16
Alignment explanation
Indices: 32603788--32603822 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
32603778 TTCGGGATTC
*
32603788 TATTAAAATTTTTGAA
1 TATTAAAATATTTGAA
*
32603804 TATTTAAATATTTGAA
1 TATTAAAATATTTGAA
32603820 TAT
1 TAT
32603823 CAACTATAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (16 bp):
TATTAAAATATTTGAA
Found at i:32606164 original size:25 final size:25
Alignment explanation
Indices: 32606136--32606184 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
32606126 AGCTCACACA
* * *
32606136 AAGTGTGCTCACATGAGCTGTGAAT
1 AAGTATGCTCACACGAGCTATGAAT
32606161 AAGTATGCTCACACGAGCTATGAA
1 AAGTATGCTCACACGAGCTATGAA
32606185 AATGGGCTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.24
Consensus pattern (25 bp):
AAGTATGCTCACACGAGCTATGAAT
Found at i:32613801 original size:3 final size:3
Alignment explanation
Indices: 32613793--32613824 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
32613783 GTTTAAGCTA
*
32613793 ATT ATT ATT ACT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
32613825 AAAACCATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:32614623 original size:3 final size:3
Alignment explanation
Indices: 32614615--32614645 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
32614605 GTACAAAGAT
32614615 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
32614646 TACTCCACCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:32621574 original size:49 final size:49
Alignment explanation
Indices: 32621502--32621662 Score: 225
Period size: 49 Copynumber: 3.3 Consensus size: 49
32621492 GGCACACCAG
* * *
32621502 AGCTCGTATGAGCTTATCGATTTCAGCTCATGAAAGCTTATCGATTCTA
1 AGCTCGTATGAGCTTACCGATTTCAGCTCATGAGAGCTTACCGATTCTA
* *
32621551 AGCTCGTATGAGCTTACCGATTTCAGCTCGTGAGAGCTTACCGATTCTC
1 AGCTCGTATGAGCTTACCGATTTCAGCTCATGAGAGCTTACCGATTCTA
* * *
32621600 AGCTCGTATGCGCTTACTGATTTCTAGCTCATGAGAGCATACCGATTC-A
1 AGCTCGTATGAGCTTACCGATTTC-AGCTCATGAGAGCTTACCGATTCTA
32621649 TAGCTCGTATGAGC
1 -AGCTCGTATGAGC
32621663 ATACATGTAC
Statistics
Matches: 99, Mismatches: 11, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
49 66 0.67
50 33 0.33
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.32
Consensus pattern (49 bp):
AGCTCGTATGAGCTTACCGATTTCAGCTCATGAGAGCTTACCGATTCTA
Found at i:32621666 original size:25 final size:25
Alignment explanation
Indices: 32621502--32621662 Score: 149
Period size: 25 Copynumber: 6.5 Consensus size: 25
32621492 GGCACACCAG
*
32621502 AGCTCGTATGAGCTTATCGATT-TC
1 AGCTCGTATGAGCTTACCGATTCTC
* *
32621526 AGCTC--ATGAAAGCTTATCGATTCTA
1 AGCTCGTATG--AGCTTACCGATTCTC
32621551 AGCTCGTATGAGCTTACCGATT-TC
1 AGCTCGTATGAGCTTACCGATTCTC
32621575 AGCTCGTGA-GAGCTTACCGATTCTC
1 AGCTCGT-ATGAGCTTACCGATTCTC
* *
32621600 AGCTCGTATGCGCTTACTGATT-TC
1 AGCTCGTATGAGCTTACCGATTCTC
* *
32621624 TAGCTCATGA-GAGCATACCGATTCAT-
1 -AGCTCGT-ATGAGCTTACCGATTC-TC
32621650 AGCTCGTATGAGC
1 AGCTCGTATGAGC
32621663 ATACATGTAC
Statistics
Matches: 114, Mismatches: 10, Indels: 25
0.77 0.07 0.17
Matches are distributed among these distances:
22 3 0.03
24 42 0.37
25 64 0.56
26 1 0.01
27 4 0.04
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.32
Consensus pattern (25 bp):
AGCTCGTATGAGCTTACCGATTCTC
Found at i:32624724 original size:16 final size:17
Alignment explanation
Indices: 32624703--32624745 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
32624693 AATTATGAAT
32624703 ATTAATTTATAA-TATA
1 ATTAATTTATAATTATA
*
32624719 ATTAATTT-TAATTTTA
1 ATTAATTTATAATTATA
32624735 ATTCAATTTAT
1 ATT-AATTTAT
32624746 TTTGGGTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 3 0.13
16 14 0.61
17 5 0.22
18 1 0.04
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTAATTTATAATTATA
Found at i:32633375 original size:59 final size:59
Alignment explanation
Indices: 32633283--32633403 Score: 215
Period size: 59 Copynumber: 2.1 Consensus size: 59
32633273 AACGAGTTAT
*
32633283 AAAGAACTTCTATTTTATTAAATGAAACAATATAAAAATAATTTGTACAAAAATATTCA
1 AAAGAAATTCTATTTTATTAAATGAAACAATATAAAAATAATTTGTACAAAAATATTCA
* *
32633342 AAAGAAATTTTATTTTATTAAATGAAACAATATAAAAATAATTTTTACAAAAATATTCA
1 AAAGAAATTCTATTTTATTAAATGAAACAATATAAAAATAATTTGTACAAAAATATTCA
32633401 AAA
1 AAA
32633404 ATAAATCAAT
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.55, C:0.07, G:0.04, T:0.35
Consensus pattern (59 bp):
AAAGAAATTCTATTTTATTAAATGAAACAATATAAAAATAATTTGTACAAAAATATTCA
Found at i:32635353 original size:30 final size:31
Alignment explanation
Indices: 32635319--32635381 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 31
32635309 TAATAAATTT
*
32635319 ATAAAAATATTAATTAA-ATTAAAAAATGAA
1 ATAAAAATATTAAATAATATTAAAAAATGAA
32635349 ATAAAAATATTAAATAATATTAAAAAATGAA
1 ATAAAAATATTAAATAATATTAAAAAATGAA
32635380 AT
1 AT
32635382 TAACCCTTAC
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 16 0.52
31 15 0.48
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (31 bp):
ATAAAAATATTAAATAATATTAAAAAATGAA
Found at i:32637740 original size:26 final size:24
Alignment explanation
Indices: 32637711--32637766 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 24
32637701 AATAAGATTT
32637711 TAATATCTACAAATATAATTAAGAAA
1 TAATATCTACAAATATAA-TAA-AAA
* *
32637737 TAATATCTATAATTATAATAAAAA
1 TAATATCTACAAATATAATAAAAA
32637761 TAATAT
1 TAATAT
32637767 TTTAAATACA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 9 0.32
25 3 0.11
26 16 0.57
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (24 bp):
TAATATCTACAAATATAATAAAAA
Found at i:32637848 original size:27 final size:27
Alignment explanation
Indices: 32637828--32637879 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
32637818 ATTTAATATT
*
32637828 AAAGAATAATATTTTCTATTTCTATAA
1 AAAGAATAATATTTTCTATTTATATAA
* *
32637855 AAAGAATAATATTTTATTTTTATAT
1 AAAGAATAATATTTTCTATTTATAT
32637880 TTTCTGAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (27 bp):
AAAGAATAATATTTTCTATTTATATAA
Found at i:32638573 original size:31 final size:31
Alignment explanation
Indices: 32638518--32638579 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
32638508 GTAACGGTTA
* *
32638518 ATTTTATTTTTTAATATTATTTAATATTTTT
1 ATTTCATTTTTTAATATTAATTAATATTTTT
32638549 ATTTCATTTTTGTAAT-TTAATTAATATTTTT
1 ATTTCATTTTT-TAATATTAATTAATATTTTT
32638580 TTATAATTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 24 0.86
32 4 0.14
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.68
Consensus pattern (31 bp):
ATTTCATTTTTTAATATTAATTAATATTTTT
Found at i:32640762 original size:59 final size:59
Alignment explanation
Indices: 32640465--32640758 Score: 482
Period size: 59 Copynumber: 5.0 Consensus size: 59
32640455 ATTGATTTAT
*
32640465 TTTTGAATATTTTTGTACAAATTATTTTTATATTGTTTCATTTAATAAAATAGAAGTTC
1 TTTTGAATATTTTTGTACAATTTATTTTTATATTGTTTCATTTAATAAAATAGAAGTTC
*
32640524 TTTTGAATATTTTTGTACAAATTATTTTTATATTGTTTCATTTAATAAAATAGAAGTTC
1 TTTTGAATATTTTTGTACAATTTATTTTTATATTGTTTCATTTAATAAAATAGAAGTTC
* *
32640583 TTTTAAATATTTTTGTGCAATTTATTTTTATATTGTTTCATTTAATAAAATAGAAGTTC
1 TTTTGAATATTTTTGTACAATTTATTTTTATATTGTTTCATTTAATAAAATAGAAGTTC
* * *
32640642 TTTTGAATATGTTTGTACAATTTATTTTTATATTGTTTCGTTTAATAAAATA-ATAGTTA
1 TTTTGAATATTTTTGTACAATTTATTTTTATATTGTTTCATTTAATAAAATAGA-AGTTC
* * *
32640701 TTTTGAATATGTTTGTACAATTTATTTTTATATTGTTTCATTTAATAAATTAGGAGTT
1 TTTTGAATATTTTTGTACAATTTATTTTTATATTGTTTCATTTAATAAAATAGAAGTT
32640759 ATTTCGATGT
Statistics
Matches: 222, Mismatches: 11, Indels: 4
0.94 0.05 0.02
Matches are distributed among these distances:
58 1 0.00
59 221 1.00
ACGTcount: A:0.32, C:0.04, G:0.10, T:0.54
Consensus pattern (59 bp):
TTTTGAATATTTTTGTACAATTTATTTTTATATTGTTTCATTTAATAAAATAGAAGTTC
Found at i:32643524 original size:79 final size:81
Alignment explanation
Indices: 32643388--32643572 Score: 209
Period size: 79 Copynumber: 2.3 Consensus size: 81
32643378 TTGAATGATG
*
32643388 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGAACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGAACTAAGATCCGAAGGCATT
32643452 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * *** *
32643467 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCC
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGAACTAAGAT-CCGAAGGCA
*
32643529 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* * *
32643547 ACCGGGATATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
32643573 AACGAGTAGC
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
78 1 0.01
79 55 0.62
80 33 0.37
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGAACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:32643579 original size:40 final size:40
Alignment explanation
Indices: 32643388--32643572 Score: 191
Period size: 40 Copynumber: 4.7 Consensus size: 40
32643378 TTGAATGATG
* * * * *
32643388 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGATAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
32643428 TCC-GAACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGA-TAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
32643468 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGATAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
32643507 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGTTACTATAA
1 TCCGGGATAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
32643548 -CCGGGATATGTCCCGAAGGCATTTG
1 TCCGGGATAAGTCCCGAAGGCATTTG
32643573 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 17, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
39 36 0.30
40 74 0.61
41 11 0.09
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGATAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:32643594 original size:79 final size:79
Alignment explanation
Indices: 32643441--32643605 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
32643431 GAACTAAGAT
* * **
32643441 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGATAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
32643506 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
32643520 CCGAAGGCCTTTGTGCGAGTTACT-ATAACCGGGATATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGATAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
32643583 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
32643599 CCGAAGG
1 CCGAAGG
32643606 TACGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 46 0.63
80 25 0.34
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGATAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:32647436 original size:40 final size:40
Alignment explanation
Indices: 32647396--32647486 Score: 130
Period size: 40 Copynumber: 2.3 Consensus size: 40
32647386 AAAATTAAAC
32647396 CCTAAACCCTAATTTA-TTTTTTCTTAAACCCTAAACAAA
1 CCTAAACCCTAATTTATTTTTTTCTTAAACCCTAAACAAA
* ** *
32647435 CCTAAACCTTAATTTATTTTTTTCTTAAACTTTAAACTAA
1 CCTAAACCCTAATTTATTTTTTTCTTAAACCCTAAACAAA
*
32647475 CCTTAACCCTAA
1 CCTAAACCCTAA
32647487 ACCTAAACCC
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
39 15 0.33
40 30 0.67
ACGTcount: A:0.36, C:0.24, G:0.00, T:0.40
Consensus pattern (40 bp):
CCTAAACCCTAATTTATTTTTTTCTTAAACCCTAAACAAA
Found at i:32649632 original size:23 final size:23
Alignment explanation
Indices: 32649606--32649687 Score: 58
Period size: 25 Copynumber: 3.4 Consensus size: 23
32649596 ATACAGTGAG
32649606 CAATAGAAATTGTCTGCTGTTTT
1 CAATAGAAATTGTCTGCTGTTTT
* * * * *
32649629 CAATTCAGACAGTTTTTTGATATTGTT
1 CAA-T-AGA-AATTGTCTGCTGTT-TT
*
32649656 GCAATGGAAATTGTCTGCTGTTTT
1 -CAATAGAAATTGTCTGCTGTTTT
32649680 CAAT-GAAA
1 CAATAGAAA
32649688 CTGGAAATTG
Statistics
Matches: 43, Mismatches: 11, Indels: 11
0.66 0.17 0.17
Matches are distributed among these distances:
22 4 0.09
23 7 0.16
24 3 0.07
25 12 0.28
26 11 0.26
27 3 0.07
28 3 0.07
ACGTcount: A:0.28, C:0.12, G:0.18, T:0.41
Consensus pattern (23 bp):
CAATAGAAATTGTCTGCTGTTTT
Found at i:32650446 original size:13 final size:13
Alignment explanation
Indices: 32650428--32650452 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32650418 TTTATTAGTG
32650428 AAAGAGTACATAT
1 AAAGAGTACATAT
32650441 AAAGAGTACATA
1 AAAGAGTACATA
32650453 CAAATTTGAT
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:0.56, C:0.08, G:0.16, T:0.20
Consensus pattern (13 bp):
AAAGAGTACATAT
Found at i:32651245 original size:6 final size:6
Alignment explanation
Indices: 32651234--32651263 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
32651224 TTATACGAAA
32651234 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
32651264 GTTCAAACTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
TTAAAT
Found at i:32654513 original size:101 final size:95
Alignment explanation
Indices: 32654367--32654741 Score: 454
Period size: 91 Copynumber: 4.0 Consensus size: 95
32654357 ATGATTTTAG
* * *
32654367 TAAATTCATATAAGAACATTTATTATTAAGAATTTTATGAA-AT-TA-TATAT-CATTATTAAAT
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAATATATATTATATATATTATTAAAT
32654428 TATATTTAATATTAATTATTTTAAATTATA
66 TATATTTAATATTAATTATTTTAAATTATA
*
32654458 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAA-AT-TA-TATAT-CATTATTAAAT
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAATATATATTATATATATTATTAAAT
32654519 TATATTTAATATTAATTATTTTAAATTATA
66 TATATTTAATATTAATTATTTTAAATTATA
*
32654549 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAA-AT-TA-TATAT-TTTTATTAAAT
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAATATATATTATATATATTATTAAAT
*
32654610 TATATTTAATAATAATTATTTTAAATTATA
66 TATATTTAATATTAATTATTTTAAATTATA
* * * * * *
32654640 CAAATTCATATAAGAAAATTTATTAGT-TATAATTATTTTAAAT-TTTATTAAATCATATATTTT
1 TAAATTCATATAAGAAAATTTATTA-TCAAGAATT-TTATGAATATATATT--AT-ATATA--TT
* *
32654703 AATTAAAATATATTTAATATTAATTATTTCAAATTATA
59 -ATTAAATTATATTTAATATTAATTATTTTAAATTATA
32654741 T
1 T
32654742 TTTATAGTAT
Statistics
Matches: 257, Mismatches: 15, Indels: 14
0.90 0.05 0.05
Matches are distributed among these distances:
91 206 0.80
92 7 0.03
93 2 0.01
94 1 0.00
96 2 0.01
97 2 0.01
98 1 0.00
100 2 0.01
101 34 0.13
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (95 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAATATATATTATATATATTATTAAAT
TATATTTAATATTAATTATTTTAAATTATA
Found at i:32654674 original size:47 final size:46
Alignment explanation
Indices: 32654367--32654698 Score: 214
Period size: 47 Copynumber: 7.3 Consensus size: 46
32654357 ATGATTTTAG
* * *
32654367 TAAATTCATATAAGAACATTTATTATTAAGAATT-TTATGAAATTATA
1 TAAATTCATATAAGAAAATTTATTA-TAATAATTATT-TTAAATTATA
** *
32654414 T--A-TCAT-T-ATTAAATTATATTTAATATTAATTATTTTAAATTATA
1 TAAATTCATATAAGAAAATT-TA-TT-ATAATAATTATTTTAAATTATA
* *
32654458 TAAATTCATATAAGAAAATTTATTATCAAGAATT-TTATGAAATTATA
1 TAAATTCATATAAGAAAATTTATTAT-AATAATTATT-TTAAATTATA
** *
32654505 T--A-TCAT-T-ATTAAATTATATTTAATATTAATTATTTTAAATTATA
1 TAAATTCATATAAGAAAATT-TA-TT-ATAATAATTATTTTAAATTATA
* *
32654549 TAAATTCATATAAGAAAATTTATTATCAAGAATT-TTATGAAATTATA
1 TAAATTCATATAAGAAAATTTATTAT-AATAATTATT-TTAAATTATA
** * *
32654596 TATTTTTAT-TAA-ATTATATTTA--ATAATAATTATTTTAAATTATA
1 TAAATTCATATAAGA--AAATTTATTATAATAATTATTTTAAATTATA
* * *
32654640 CAAATTCATATAAGAAAATTTATTAGTTATAATTATTTTAAATTTTA
1 TAAATTCATATAAGAAAATTTATTA-TAATAATTATTTTAAATTATA
32654687 TTAAA-TCATATA
1 -TAAATTCATATA
32654699 TTTTAATTAA
Statistics
Matches: 219, Mismatches: 35, Indels: 62
0.69 0.11 0.20
Matches are distributed among these distances:
42 11 0.05
43 6 0.03
44 69 0.32
45 17 0.08
46 15 0.07
47 80 0.37
48 9 0.04
49 12 0.05
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (46 bp):
TAAATTCATATAAGAAAATTTATTATAATAATTATTTTAAATTATA
Found at i:32654683 original size:91 final size:91
Alignment explanation
Indices: 32654367--32654664 Score: 542
Period size: 91 Copynumber: 3.3 Consensus size: 91
32654357 ATGATTTTAG
* *
32654367 TAAATTCATATAAGAACATTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
32654432 TTTAATATTAATTATTTTAAATTATA
66 TTTAATATTAATTATTTTAAATTATA
32654458 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
32654523 TTTAATATTAATTATTTTAAATTATA
66 TTTAATATTAATTATTTTAAATTATA
**
32654549 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTTTTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
*
32654614 TTTAATAATAATTATTTTAAATTATA
66 TTTAATATTAATTATTTTAAATTATA
*
32654640 CAAATTCATATAAGAAAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
32654665 GTTATAATTA
Statistics
Matches: 201, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
91 201 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TTTAATATTAATTATTTTAAATTATA
Found at i:32654756 original size:59 final size:58
Alignment explanation
Indices: 32654691--32654879 Score: 154
Period size: 59 Copynumber: 3.2 Consensus size: 58
32654681 ATTTTATTAA
32654691 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTT-AAATTATATTTTATAGT
* * ** * *
32654750 ATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTA-TT-AA-GA-ATTTTATTA-
1 ATCATATATT-TTA-ATTA--AAA-T-ATAT-TTAATATTAATTATTTAAATTATATTTTA-TAG
*
32654810 A
58 T
* * * *
32654811 ATTATATTTTTTCATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTAAATTATATTTTATAGT
32654870 ATCATATATT
1 ATCATATATT
32654880 ATGATTTGAG
Statistics
Matches: 96, Mismatches: 20, Indels: 28
0.67 0.14 0.19
Matches are distributed among these distances:
54 9 0.09
55 4 0.04
56 3 0.03
57 5 0.05
58 3 0.03
59 27 0.28
60 3 0.03
61 17 0.18
62 3 0.03
63 5 0.05
64 1 0.01
65 6 0.06
66 10 0.10
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (58 bp):
ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTAAATTATATTTTATAGT
Found at i:32654810 original size:120 final size:120
Alignment explanation
Indices: 32654680--32654975 Score: 513
Period size: 120 Copynumber: 2.5 Consensus size: 120
32654670 AATTATTTTA
* *
32654680 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATATTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATATTT
* *
32654744 TATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGAATATTAAG
* *
32654800 AATTTTATTAAATTATATTTTTTCATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
32654865 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGAATATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGAATATTAAG
*
32654920 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAA
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
32654976 AGATGATTAA
Statistics
Matches: 166, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
120 164 0.99
121 2 0.01
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.49
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGAATATTAAG
Found at i:32654821 original size:16 final size:18
Alignment explanation
Indices: 32654802--32654837 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
32654792 TTATTAAGAA
*
32654802 TTTT-ATTAAATTATATT
1 TTTTCATTAAAATATATT
32654819 TTTTCATTAAAATATATT
1 TTTTCATTAAAATATATT
32654837 T
1 T
32654838 AATAATAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTTCATTAAAATATATT
Found at i:32654960 original size:15 final size:15
Alignment explanation
Indices: 32654925--32654966 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
32654915 TTAAGAATTT
*
32654925 TATTAAATTAT-ATA
1 TATTTAATTATAATA
32654939 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
32654953 TATTTAATAATAAT
1 TATTTAATTATAAT
32654967 TATGTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Done.