Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008032.1 Hibiscus syriacus cultivar Beakdansim tig00110514_pilon, whole genome shotgun sequence
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: 1200719
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 5
Found at i:763191 original size:2 final size:2
Alignment explanation
Indices: 763184--763215 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
763174 TCTTTATTTA
763184 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
763216 TTGTAAATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:763533 original size:2 final size:2
Alignment explanation
Indices: 763526--763555 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
763516 TATAAAACCC
763526 TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
763556 TTACTTTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:769751 original size:1 final size:1
Alignment explanation
Indices: 769745--769965 Score: 145
Period size: 1 Copynumber: 221.0 Consensus size: 1
769735 TCCATCAGAG
* * * * * ** * * * *
769745 AAAAAAAGAAAAGAAGAAAAAAAAGAAAATAAGGAAAAAAGAAAGAAAAAAAGAAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * * * * *
769810 AGAAAAAAGAAAAAAAAAAAGAAAAAGAAAAAAGAAAAAAGAAAAAAGAAAAAAGAAAAAAGAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * * * *
769875 AAAAAAAAAAGAAAAAAGAAAAAAGAAAAAAGAAAAAAGAAAAAAGAAAAAAGAAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * *
769940 AGAAAAAGAAGAAAAAGAAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
769966 GAAATTGAAT
Statistics
Matches: 156, Mismatches: 64, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
1 156 1.00
ACGTcount: A:0.85, C:0.00, G:0.14, T:0.00
Consensus pattern (1 bp):
A
Found at i:769773 original size:7 final size:7
Alignment explanation
Indices: 769746--769969 Score: 314
Period size: 7 Copynumber: 31.4 Consensus size: 7
769736 CCATCAGAGA
769746 AAAAAAG
1 AAAAAAG
769753 AAAAGAAG
1 AAAA-AAG
769761 AAAAAAAAG
1 --AAAAAAG
769770 AAAATAAGG
1 AAAA-AA-G
769779 AAAAAAG
1 AAAAAAG
*
769786 -AAAGA-
1 AAAAAAG
769791 AAAAAAG
1 AAAAAAG
769798 AAAAAAG
1 AAAAAAG
769805 AAAAAAG
1 AAAAAAG
769812 AAAAAAG
1 AAAAAAG
769819 -AAAAA-
1 AAAAAAG
769824 AAAAAAG
1 AAAAAAG
769831 -AAAAAG
1 AAAAAAG
769837 AAAAAAG
1 AAAAAAG
769844 AAAAAAG
1 AAAAAAG
769851 AAAAAAG
1 AAAAAAG
769858 AAAAAAG
1 AAAAAAG
769865 AAAAAAG
1 AAAAAAG
*
769872 AAAAAAA
1 AAAAAAG
769879 AAAAAAG
1 AAAAAAG
769886 AAAAAAG
1 AAAAAAG
769893 AAAAAAG
1 AAAAAAG
769900 AAAAAAG
1 AAAAAAG
769907 AAAAAAG
1 AAAAAAG
769914 AAAAAAG
1 AAAAAAG
769921 AAAAAAG
1 AAAAAAG
769928 AAAAAAG
1 AAAAAAG
769935 AAAAAAG
1 AAAAAAG
769942 AAAAAGAAG
1 -AAAA-AAG
769951 AAAAAGAAG
1 -AAAA-AAG
769960 AAAAAAG
1 AAAAAAG
769967 AAA
1 AAA
769970 TTGAATCAAG
Statistics
Matches: 201, Mismatches: 4, Indels: 24
0.88 0.02 0.10
Matches are distributed among these distances:
6 24 0.12
7 138 0.69
8 15 0.07
9 20 0.10
10 4 0.02
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:769784 original size:11 final size:11
Alignment explanation
Indices: 769746--769969 Score: 185
Period size: 10 Copynumber: 20.9 Consensus size: 11
769736 CCATCAGAGA
769746 AAAAAAGAAAAG
1 AAAAAAG-AAAG
*
769758 AAGAAAAAAAAG
1 AA-AAAAGAAAG
769770 AAAATAAG---G
1 AAAA-AAGAAAG
769779 AAAAAAGAAAG
1 AAAAAAGAAAG
769790 AAAAAAAGAAA-
1 -AAAAAAGAAAG
769801 AAAGAAA-AAAG
1 AAA-AAAGAAAG
*
769812 AAAAAAGAAAAA
1 AAAAAAG-AAAG
769824 AAAAAAGAAA-
1 AAAAAAGAAAG
*
769834 AAGAAA-AAAG
1 AAAAAAGAAAG
769844 AAAAAAGAAA-
1 AAAAAAGAAAG
769854 AAAGAAA-AAAG
1 AAA-AAAGAAAG
769865 AAAAAAGAAA-
1 AAAAAAGAAAG
*
769875 AAAAAAAAAAG
1 AAAAAAGAAAG
769886 AAAAAAGAAA-
1 AAAAAAGAAAG
769896 AAAGAAA-AAAG
1 AAA-AAAGAAAG
769907 AAAAAAGAAA-
1 AAAAAAGAAAG
769917 AAAGAAA-AAAG
1 AAA-AAAGAAAG
769928 AAAAAAGAAA-
1 AAAAAAGAAAG
*
769938 AAAGAA-AAAG
1 AAAAAAGAAAG
769948 AAGAAAA-AGAAG
1 AA-AAAAGA-AAG
769960 AAAAAAGAAA
1 AAAAAAGAAA
769970 TTGAATCAAG
Statistics
Matches: 177, Mismatches: 9, Indels: 53
0.74 0.04 0.22
Matches are distributed among these distances:
8 3 0.02
9 11 0.06
10 62 0.35
11 61 0.34
12 36 0.20
13 4 0.02
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (11 bp):
AAAAAAGAAAG
Found at i:772103 original size:54 final size:54
Alignment explanation
Indices: 772024--772128 Score: 192
Period size: 54 Copynumber: 1.9 Consensus size: 54
772014 TACTAACAAG
* *
772024 AAATCTGGGCAGAAGCCACATGAAAGGATGAATGTGTTGTCAAATGTTTTACGA
1 AAATCTGGGCAAAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGA
772078 AAATCTGGGCAAAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTA
1 AAATCTGGGCAAAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTA
772129 TGAACCAGTG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.36, C:0.12, G:0.26, T:0.26
Consensus pattern (54 bp):
AAATCTGGGCAAAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGA
Found at i:786152 original size:59 final size:59
Alignment explanation
Indices: 786070--786193 Score: 176
Period size: 59 Copynumber: 2.1 Consensus size: 59
786060 TGCTAACTCG
* *
786070 AATATGACACGTAAGGTCATGCCCACCATCTACACTAGTTATACTTTAGTGCAGTCCCA
1 AATATGACACATAAGGTCATGCCCACCATATACACTAGTTATACTTTAGTGCAGTCCCA
* * ** * *
786129 GATATGACACATAAGTTTGTGCCCACCATATGCCCTAGTTATACTTTAGTGCAGTCCCA
1 AATATGACACATAAGGTCATGCCCACCATATACACTAGTTATACTTTAGTGCAGTCCCA
786188 AATATG
1 AATATG
786194 CATCATGTTG
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
59 56 1.00
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (59 bp):
AATATGACACATAAGGTCATGCCCACCATATACACTAGTTATACTTTAGTGCAGTCCCA
Found at i:786712 original size:34 final size:34
Alignment explanation
Indices: 786674--786750 Score: 127
Period size: 34 Copynumber: 2.3 Consensus size: 34
786664 AGTTTTCACT
786674 ACCTTTAAAGAAATATTATTATGTATTAATATAA
1 ACCTTTAAAGAAATATTATTATGTATTAATATAA
* * *
786708 ACCTTTAAATAAATATTATTTTTTATTAATATAA
1 ACCTTTAAAGAAATATTATTATGTATTAATATAA
786742 ACCTTTAAA
1 ACCTTTAAA
786751 AATAAACCTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.45, C:0.08, G:0.03, T:0.44
Consensus pattern (34 bp):
ACCTTTAAAGAAATATTATTATGTATTAATATAA
Found at i:796209 original size:24 final size:24
Alignment explanation
Indices: 796177--796248 Score: 126
Period size: 24 Copynumber: 3.0 Consensus size: 24
796167 ATAGGCAGAG
*
796177 TGATAGCCAAATAGTACAGGGACC
1 TGATCGCCAAATAGTACAGGGACC
796201 TGATCGCCAAATAGTACAGGGACC
1 TGATCGCCAAATAGTACAGGGACC
*
796225 TGATCGCCAAATAGTACATGGACC
1 TGATCGCCAAATAGTACAGGGACC
796249 AAGATTACCA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 46 1.00
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.18
Consensus pattern (24 bp):
TGATCGCCAAATAGTACAGGGACC
Found at i:813408 original size:13 final size:13
Alignment explanation
Indices: 813390--813424 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
813380 CAATCAACGC
*
813390 CATAAATGTGTGT
1 CATAAATGCGTGT
813403 CATAAATGCGTGT
1 CATAAATGCGTGT
813416 CATAAATGC
1 CATAAATGC
813425 ACATCATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.31
Consensus pattern (13 bp):
CATAAATGCGTGT
Found at i:822646 original size:30 final size:31
Alignment explanation
Indices: 822587--822656 Score: 90
Period size: 29 Copynumber: 2.3 Consensus size: 31
822577 TTTTTTGTAT
**
822587 TTTAGTCCCTTACTATTTTTTTATTGTTTTAGA
1 TTTAG-CCCTTACTATTTTAATATTGTTTTA-A
822620 TTTAGCCCTTAC-ATTTTAAT-TTGTTTTAA
1 TTTAGCCCTTACTATTTTAATATTGTTTTAA
822649 TTTAGCCC
1 TTTAGCCC
822657 CTATTGTATG
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 9 0.26
30 8 0.23
31 6 0.17
32 7 0.20
33 5 0.14
ACGTcount: A:0.20, C:0.16, G:0.09, T:0.56
Consensus pattern (31 bp):
TTTAGCCCTTACTATTTTAATATTGTTTTAA
Found at i:827799 original size:36 final size:36
Alignment explanation
Indices: 827756--827948 Score: 143
Period size: 36 Copynumber: 5.2 Consensus size: 36
827746 TTTTATCTCA
827756 CTTGAGATTGTTTTTCTTAAAACAAACTTTGTCTTG
1 CTTGAGATTGTTTTTCTTAAAACAAACTTTGTCTTG
* ** * * ** **
827792 CTTGAGATAGTTTTCACTCGAAAAAGAAATTTTACCTCA
1 CTTGAGATTGTTTT---TCTTAAAACAAACTTTGTCTTG
** * *
827831 CTTGAGATTCATTTTCTTAAAACAAACTTCGTCTCG
1 CTTGAGATTGTTTTTCTTAAAACAAACTTTGTCTTG
* * * * * * *
827867 CTTGAGACTGTTTTCACTGGAAACATAAATTTTATCTTA
1 CTTGAGATTGTTTT-TCT-TAAA-ACAAACTTTGTCTTG
*
827906 CTTGAGATTGTTTTTCTTAAAACAAACCTTGTCTTG
1 CTTGAGATTGTTTTTCTTAAAACAAACTTTGTCTTG
827942 CTTGAGA
1 CTTGAGA
827949 GAGTTTTCAC
Statistics
Matches: 112, Mismatches: 39, Indels: 12
0.69 0.24 0.07
Matches are distributed among these distances:
36 55 0.49
37 5 0.04
38 5 0.04
39 47 0.42
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.40
Consensus pattern (36 bp):
CTTGAGATTGTTTTTCTTAAAACAAACTTTGTCTTG
Found at i:827825 original size:75 final size:75
Alignment explanation
Indices: 827670--828029 Score: 410
Period size: 75 Copynumber: 4.8 Consensus size: 75
827660 TTTAATACAG
* * * *
827670 AATTTTATCTCACTTGAGATTTTTTTTCTCAAAAC-AAGTTTCATCTTGCTTGAGATAG-TTTCA
1 AATTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTTT-GTCTTGCTTGAGATAGTTTTCA
827733 -TCCGAAAAAGA
65 CT-CGAAAAAGA
827744 AATTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTTTGTCTTGCTTGAGATAGTTTTCAC
1 AATTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTTTGTCTTGCTTGAGATAGTTTTCAC
827809 TCGAAAAAGA
66 TCGAAAAAGA
* ** * *
827819 AATTTTACCTCACTTGAGATTCATTTTCTTAAAACAAACTTCGTCTCGCTTGAGACT-GTTTTCA
1 AATTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTTTGTCTTGCTTGAGA-TAGTTTTCA
* * *
827883 CTGGAAACATA
65 CTCGAAAAAGA
* * *
827894 AATTTTATCTTACTTGAGATTGTTTTTCTTAAAACAAACCTTGTCTTGCTTGAGAGAGTTTTCAC
1 AATTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTTTGTCTTGCTTGAGATAGTTTTCAC
*
827959 TCGAAATAATA
66 TCGAAA-AAGA
* * * * * * *
827970 ACTTTTGTTTCA-TTCGAGGTT-TTTTTCTTAAAACAAA-TTTCATCTCGCTTGAGAAAGTTT
1 AATTTTATCTCACTT-GAGATTGTTTTTCTTAAAACAAACTTT-GTCTTGCTTGAGATAGTTT
828030 CCCTTAAAAT
Statistics
Matches: 247, Mismatches: 31, Indels: 15
0.84 0.11 0.05
Matches are distributed among these distances:
74 50 0.20
75 179 0.72
76 18 0.07
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.41
Consensus pattern (75 bp):
AATTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTTTGTCTTGCTTGAGATAGTTTTCAC
TCGAAAAAGA
Found at i:827940 original size:150 final size:149
Alignment explanation
Indices: 827670--828030 Score: 469
Period size: 150 Copynumber: 2.4 Consensus size: 149
827660 TTTAATACAG
* * *
827670 AATTTTATCTCACTTGAGATTTTTTTTCTCAAAACAAGTTTCATCTTGCTTGAGATAGTTTCATC
1 AATTTTATCTCACTTGAGA-TTTTTTTCTTAAAACAAATTTCATCTCGCTTGAGATAGTTTCATC
* *
827735 CGAAAAAGAAATTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTTTGTCTTGCTTGAGAT
65 CGAAAAAGAAATTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACCTTGTCTTGCTTGAGAG
827800 AGTTTTCACTCGAAA-AAGA
130 AGTTTTCACTCGAAATAAGA
* * * *
827819 AATTTTACCTCACTTGAGATTCATTTTCTTAAAACAAACTTCGTCTCGCTTGAGACT-GTTTTCA
1 AATTTTATCTCACTTGAGATT-TTTTTCTTAAAACAAATTTCATCTCGCTTGAGA-TAG-TTTCA
* * * *
827883 -CTGGAAACATAAATTTTATCTTACTTGAGATTGTTTTTCTTAAAACAAACCTTGTCTTGCTTGA
63 TC-CGAAAAAGAAATTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACCTTGTCTTGCTTGA
*
827947 GAGAGTTTTCACTCGAAATAATA
127 GAGAGTTTTCACTCGAAATAAGA
* * * * *
827970 ACTTTTGTTTCA-TTCGAGGTTTTTTTCTTAAAACAAATTTCATCTCGCTTGAGAAAGTTTC
1 AATTTTATCTCACTT-GAGATTTTTTTCTTAAAACAAATTTCATCTCGCTTGAGATAGTTTC
828031 CCTTAAAATA
Statistics
Matches: 182, Mismatches: 23, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
148 2 0.01
149 51 0.28
150 113 0.62
151 16 0.09
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.41
Consensus pattern (149 bp):
AATTTTATCTCACTTGAGATTTTTTTCTTAAAACAAATTTCATCTCGCTTGAGATAGTTTCATCC
GAAAAAGAAATTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACCTTGTCTTGCTTGAGAGA
GTTTTCACTCGAAATAAGA
Found at i:828830 original size:95 final size:95
Alignment explanation
Indices: 828643--828840 Score: 222
Period size: 95 Copynumber: 2.1 Consensus size: 95
828633 AGTTTGTAAT
* ** * * *
828643 GAAGAACTTGTTCAAACTTTGTTTGATTCACGATATTTCGAATGAGCAATGCCTCACTCGAGGGA
1 GAAGAACTTGTTCAAACTTTGCTCAATTCACGATATTTCGAATCAGCAACGCCTCACTCGAAGGA
* *
828708 CCAACATTTCCAGTAAAGAATTTATAATGA
66 CCAACATTTCCAGTAAAGAATTCATAATAA
* * * *
828738 GAAGAACTTGTTTAACCTTTGCTCAATTCACGGA-ATTTTGAATCAGCAACGCCTTACTCGAAGG
1 GAAGAACTTGTTCAAACTTTGCTCAATTCAC-GATATTTCGAATCAGCAACGCCTCACTCGAAGG
*
828802 ACCAACATTTCCTGT--AGAATGATCATAATAA
65 ACCAACATTTCCAGTAAAGAAT--TCATAATAA
*
828833 TAAGAACT
1 GAAGAACT
828841 CGTAGCTTTA
Statistics
Matches: 86, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
93 5 0.06
95 79 0.92
96 2 0.02
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (95 bp):
GAAGAACTTGTTCAAACTTTGCTCAATTCACGATATTTCGAATCAGCAACGCCTCACTCGAAGGA
CCAACATTTCCAGTAAAGAATTCATAATAA
Found at i:834064 original size:154 final size:154
Alignment explanation
Indices: 833841--834148 Score: 616
Period size: 154 Copynumber: 2.0 Consensus size: 154
833831 CCATATTTTT
833841 AAAACTAGAAAGGTATAATGCCTTCCCAACCATAGTTATAATACAACTAGCTGATCGATCTTATG
1 AAAACTAGAAAGGTATAATGCCTTCCCAACCATAGTTATAATACAACTAGCTGATCGATCTTATG
833906 TGCGTCCTGAGGGTAGAATAGAAGATGTCATAATGAAGGTGGACAAATTTGTATTTCCAATTGAT
66 TGCGTCCTGAGGGTAGAATAGAAGATGTCATAATGAAGGTGGACAAATTTGTATTTCCAATTGAT
833971 TTCCTCATCTTGGATTGCGAAGCC
131 TTCCTCATCTTGGATTGCGAAGCC
833995 AAAACTAGAAAGGTATAATGCCTTCCCAACCATAGTTATAATACAACTAGCTGATCGATCTTATG
1 AAAACTAGAAAGGTATAATGCCTTCCCAACCATAGTTATAATACAACTAGCTGATCGATCTTATG
834060 TGCGTCCTGAGGGTAGAATAGAAGATGTCATAATGAAGGTGGACAAATTTGTATTTCCAATTGAT
66 TGCGTCCTGAGGGTAGAATAGAAGATGTCATAATGAAGGTGGACAAATTTGTATTTCCAATTGAT
834125 TTCCTCATCTTGGATTGCGAAGCC
131 TTCCTCATCTTGGATTGCGAAGCC
834149 GATGAAAATG
Statistics
Matches: 154, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
154 154 1.00
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (154 bp):
AAAACTAGAAAGGTATAATGCCTTCCCAACCATAGTTATAATACAACTAGCTGATCGATCTTATG
TGCGTCCTGAGGGTAGAATAGAAGATGTCATAATGAAGGTGGACAAATTTGTATTTCCAATTGAT
TTCCTCATCTTGGATTGCGAAGCC
Found at i:840920 original size:99 final size:99
Alignment explanation
Indices: 840740--840949 Score: 307
Period size: 99 Copynumber: 2.1 Consensus size: 99
840730 CCTATACCCA
* *
840740 GATTGTAATATTTATACAATAAAGCTTGAGCTGTCCCTCTAAAGCAATTGGTTAAATGCCCTGAC
1 GATTATAATATTTATACAATAAAGCTTGAGCTGTCCCTCTAAAGCAATTGGTTAAACGCCCTGAC
* **
840805 TTTATGGATAAGATTCA-CTTAGTCTGATAAACGT
66 TTTATGGATAACATTCAGC-TACCCTGATAAACGT
* * *
840839 GATTATAATATTTATACAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACG-CATCGG
1 GATTATAATATTTATACAATAAAGCTTGAGCTGTCCCTCTAAAGCAATTGGTTAAACGCCCT-GA
*
840903 CTTTATGGATAACATTCAGCTACCCTGATAAAGGT
65 CTTTATGGATAACATTCAGCTACCCTGATAAACGT
840938 GATTATAATATT
1 GATTATAATATT
840950 GAGCCGTACC
Statistics
Matches: 100, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
98 2 0.02
99 97 0.97
100 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (99 bp):
GATTATAATATTTATACAATAAAGCTTGAGCTGTCCCTCTAAAGCAATTGGTTAAACGCCCTGAC
TTTATGGATAACATTCAGCTACCCTGATAAACGT
Found at i:848784 original size:35 final size:33
Alignment explanation
Indices: 848741--848812 Score: 92
Period size: 35 Copynumber: 2.1 Consensus size: 33
848731 CAGCGCCCTG
*
848741 TTTGAACTTTGTCTTTT-ACTTTCTCATATTTGTT
1 TTTGAAC-TTG-CTTTTAACTTTCTCATATTTCTT
848775 TTTGTAACTTGCTTTTACACTTTCTCATATTTCTT
1 TTTG-AACTTGCTTTTA-ACTTTCTCATATTTCTT
848810 TTT
1 TTT
848813 ATAAGGATAT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
33 5 0.15
34 7 0.21
35 22 0.65
ACGTcount: A:0.15, C:0.17, G:0.07, T:0.61
Consensus pattern (33 bp):
TTTGAACTTGCTTTTAACTTTCTCATATTTCTT
Found at i:851187 original size:85 final size:85
Alignment explanation
Indices: 851070--851244 Score: 210
Period size: 85 Copynumber: 2.1 Consensus size: 85
851060 ATATTTAAAA
** *
851070 AAAAACCTTT-GAGTTTGATTACATTCAACTC-AAGGACATATCAAATTTACAGCATAACTCAAG
1 AAAAA-CTTTGGAGTTCAATTACATTCAACTCAAAGG-CATATAAAATTTACAGCATAACTCAAG
* * *
851133 GCGATAAGGGTTATCTGTCAAC
64 GCGAGAAGAGCTATCTGTCAAC
* * * * *
851155 CAAAACTTTGGAGTTCAATTACATTCAGCTCAAAGGGATATAAAATTTATAGCATAGCTCAAGGC
1 AAAAACTTTGGAGTTCAATTACATTCAACTCAAAGGCATATAAAATTTACAGCATAACTCAAGGC
*
851220 GAGAAGAGCTATCTGTTAAC
66 GAGAAGAGCTATCTGTCAAC
851240 AAAAA
1 AAAAA
851245 AATTATCGAG
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
84 4 0.05
85 67 0.89
86 4 0.05
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (85 bp):
AAAAACTTTGGAGTTCAATTACATTCAACTCAAAGGCATATAAAATTTACAGCATAACTCAAGGC
GAGAAGAGCTATCTGTCAAC
Found at i:852267 original size:20 final size:21
Alignment explanation
Indices: 852189--852290 Score: 79
Period size: 20 Copynumber: 5.0 Consensus size: 21
852179 TGCACATACA
* *
852189 TTATATTATATAGTGTATATGT
1 TTATACTATATAGT-TATATAT
*
852211 TTATACTATATA-TTAGA-A-
1 TTATACTATATAGTTATATAT
*
852229 ATATACTATAT-GTTCATATAT
1 TTATACTATATAGTT-ATATAT
* *
852250 TT-TATTATATAGTTATATGT
1 TTATACTATATAGTTATATAT
*
852270 TTATACTACATAGTATATATA
1 TTATACTATATAGT-TATATA
852291 CATACTTATT
Statistics
Matches: 62, Mismatches: 11, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
18 12 0.19
19 2 0.03
20 18 0.29
21 14 0.23
22 16 0.26
ACGTcount: A:0.37, C:0.05, G:0.08, T:0.50
Consensus pattern (21 bp):
TTATACTATATAGTTATATAT
Found at i:852306 original size:59 final size:60
Alignment explanation
Indices: 852182--852317 Score: 154
Period size: 59 Copynumber: 2.3 Consensus size: 60
852172 GGTATAGTGC
* * *
852182 ACATACATTATATTATATAGTGTATATGTTTATACTATATATTAGAAATATACTATATGT
1 ACATATATTATATTATATAGTGTATATGTTTATACTACATATTAGAAACATACTATATGT
* * * *
852242 TCATATATTTTATTATATAGT-TATATGTTTATACTACATAGTATATATACATACT-TAT-T
1 ACATATATTATATTATATAGTGTATATGTTTATACTACATA-T-TAGAAACATACTATATGT
*
852301 ACATATTTTAT-TTATAT
1 ACATATATTATATTATAT
852318 TTTATAATAC
Statistics
Matches: 64, Mismatches: 10, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
58 6 0.09
59 27 0.42
60 22 0.34
61 9 0.14
ACGTcount: A:0.38, C:0.07, G:0.06, T:0.49
Consensus pattern (60 bp):
ACATATATTATATTATATAGTGTATATGTTTATACTACATATTAGAAACATACTATATGT
Found at i:852343 original size:25 final size:26
Alignment explanation
Indices: 852300--852348 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
852290 ACATACTTAT
*
852300 TACATATTTTATTTATATT-TTATAA
1 TACATATATTATTTATATTGTTATAA
852325 TACATATATTA-TTATTATTGTTAT
1 TACATATATTATTTA-TATTGTTAT
852349 TCTTATTTTA
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:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (26 bp):
TACATATATTATTTATATTGTTATAA
Found at i:860717 original size:55 final size:54
Alignment explanation
Indices: 860641--860984 Score: 351
Period size: 55 Copynumber: 6.3 Consensus size: 54
860631 TTTAATAGAA
* *
860641 TGCACA-AGTAGTGCCTA-TACGGTAATTCATCAACTCATGATGAGTTTCGTGGTTT
1 TGCACACA-TAGTGCC-AGTACGGT-ATTCATCAACTCATGATGAATTTCGTGGATT
* *
860696 TGCACACATAGTGCCAGTACGGCTATTCATCAACTCATGATGAATTCCATGGATT
1 TGCACACATAGTGCCAGTACGG-TATTCATCAACTCATGATGAATTTCGTGGATT
* * *
860751 TGCACACATAGTG-CATGTACTGTTATTCATCAACTTATGATGAATTTCGTGAATT
1 TGCACACATAGTGCCA-GTAC-GGTATTCATCAACTCATGATGAATTTCGTGGATT
* * * * *
860806 TGCACACATAGTGTCGGTATGGGTATTCATGAACTCATGATGAATTCCGTGGATT
1 TGCACACATAGTGCCAGTA-CGGTATTCATCAACTCATGATGAATTTCGTGGATT
* *
860861 TGCACACATAGTGCCTA-TATGGCTATTCATCAACTCATGATGAA-TTCTGTGAATT
1 TGCACACATAGTGCC-AGTACGG-TATTCATCAACTCATGATGAATTTC-GTGGATT
* * * *
860916 TGCACACATAGT-CCATGTACGATTATTCATCAACTTATAATGAATTAT-GTGAATT
1 TGCACACATAGTGCCA-GTACG-GTATTCATCAACTCATGATGAATT-TCGTGGATT
*
860971 TGTACACATAGTGC
1 TGCACACATAGTGC
860985 GTGTAGTACA
Statistics
Matches: 246, Mismatches: 27, Indels: 31
0.81 0.09 0.10
Matches are distributed among these distances:
53 1 0.00
54 9 0.04
55 229 0.93
56 6 0.02
57 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.34
Consensus pattern (54 bp):
TGCACACATAGTGCCAGTACGGTATTCATCAACTCATGATGAATTTCGTGGATT
Found at i:860791 original size:110 final size:109
Alignment explanation
Indices: 860665--860989 Score: 388
Period size: 110 Copynumber: 3.0 Consensus size: 109
860655 CTATACGGTA
**
860665 ATTCATCAACTCATGATGAGTTTCGTGGTTTTGCACACATAGTGCCAGTACGGCTATTCATCAAC
1 ATTCATCAACTCATGATGA-TTTCGTGAATTTGCACACATAGTGCCAGTACGGCTATTCATCAAC
*
860730 TCATGATGAATTCCATGGATTTGCACACATAGTGCATGTACT-GTT
65 TCATGATGAATTCCATGGATTTGCACACATAGTGCATGTA-TGGCT
* * * * * *
860775 ATTCATCAACTTATGATGAATTTCGTGAATTTGCACACATAGTGTCGGTATGGGTATTCATGAAC
1 ATTCATCAACTCATGATG-ATTTCGTGAATTTGCACACATAGTGCCAGTACGGCTATTCATCAAC
* * *
860840 TCATGATGAATTCCGTGGATTTGCACACATAGTGCCTATATGGCT
65 TCATGATGAATTCCATGGATTTGCACACATAGTGCATGTATGGCT
* **
860885 ATTCATCAACTCATGATGAATTCTGTGAATTTGCACACATAGT-CCATGTACGATTATTCATCAA
1 ATTCATCAACTCATGATGATTTC-GTGAATTTGCACACATAGTGCCA-GTACGGCTATTCATCAA
* * * *
860949 CTTATAATGAATT--ATGTGAATTTGTACACATAGTGCGTGTA
64 CTCATGATGAATTCCATG-G-ATTTGCACACATAGTGCATGTA
860990 GTACAATTAG
Statistics
Matches: 183, Mismatches: 26, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
108 2 0.01
109 7 0.04
110 173 0.95
111 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (109 bp):
ATTCATCAACTCATGATGATTTCGTGAATTTGCACACATAGTGCCAGTACGGCTATTCATCAACT
CATGATGAATTCCATGGATTTGCACACATAGTGCATGTATGGCT
Found at i:860944 original size:165 final size:165
Alignment explanation
Indices: 860665--860983 Score: 491
Period size: 165 Copynumber: 1.9 Consensus size: 165
860655 CTATACGGTA
* * *
860665 ATTCATCAACTCATGATGAGTTTCGTGGTTTTGCACACATAGTGCCAGTACGGCTATTCATCAAC
1 ATTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCCAGTACGGCTATTCATCAAC
* * *
860730 TCATGATGAATTCCATGGATTTGCACACATAGTGCATGTACTGTTATTCATCAACTTATGATGAA
66 TCATGATGAATTCCATGAATTTGCACACATAGTCCATGTACTGTTATTCATCAACTTATAATGAA
860795 TT-TCGTGAATTTGCACACATAGTGTCGGTATGGGT
131 TTAT-GTGAATTTGCACACATAGTGTCGGTATGGGT
* *
860830 ATTCATGAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCCTA-TATGGCTATTCATCAA
1 ATTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCC-AGTACGGCTATTCATCAA
**
860894 CTCATGATGAATTCTGTGAATTTGCACACATAGTCCATGTAC-GATTATTCATCAACTTATAATG
65 CTCATGATGAATTCCATGAATTTGCACACATAGTCCATGTACTG-TTATTCATCAACTTATAATG
*
860958 AATTATGTGAATTTGTACACATAGTG
129 AATTATGTGAATTTGCACACATAGTG
860984 CGTGTAGTAC
Statistics
Matches: 140, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
164 1 0.01
165 137 0.98
166 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (165 bp):
ATTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCCAGTACGGCTATTCATCAAC
TCATGATGAATTCCATGAATTTGCACACATAGTCCATGTACTGTTATTCATCAACTTATAATGAA
TTATGTGAATTTGCACACATAGTGTCGGTATGGGT
Found at i:861438 original size:20 final size:21
Alignment explanation
Indices: 861409--861459 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
861399 GTTTCGAAAT
*
861409 GGTATTGATACCT-TCCCTTC
1 GGTATCGATACCTCTCCCTTC
*
861429 GGTATCGATA-CTCTCTCTTC
1 GGTATCGATACCTCTCCCTTC
861449 GGTATCGATAC
1 GGTATCGATAC
861460 TGATTGAATC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 2 0.07
20 25 0.93
ACGTcount: A:0.18, C:0.27, G:0.18, T:0.37
Consensus pattern (21 bp):
GGTATCGATACCTCTCCCTTC
Found at i:864053 original size:21 final size:20
Alignment explanation
Indices: 864012--864053 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
864002 AGCATATTTG
*
864012 AAAACAAAACTCTAAATAAA
1 AAAACAAAACTCTAAAGAAA
864032 AAAACAAAAACT-TGAAAGAAA
1 AAAAC-AAAACTCT-AAAGAAA
864053 A
1 A
864054 TAAAAGAGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.71, C:0.12, G:0.05, T:0.12
Consensus pattern (20 bp):
AAAACAAAACTCTAAAGAAA
Found at i:867542 original size:20 final size:20
Alignment explanation
Indices: 867517--867562 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
867507 AAACGATTGG
*
867517 TTTTTCCTTCTTCTTTTTCT
1 TTTTTCCTTCTTATTTTTCT
*
867537 TTTTTCCTTTTTATTTTTCT
1 TTTTTCCTTCTTATTTTTCT
867557 TCTTTT
1 T-TTTT
867563 TTTCTGTTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 19 0.83
21 4 0.17
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (20 bp):
TTTTTCCTTCTTATTTTTCT
Found at i:867726 original size:4 final size:4
Alignment explanation
Indices: 867717--867743 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
867707 ATAAGGTATA
867717 AAAG AAAG AAAG AAAG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAA
867744 AATAGGCTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:871487 original size:20 final size:19
Alignment explanation
Indices: 871470--871541 Score: 56
Period size: 23 Copynumber: 3.5 Consensus size: 19
871460 CCAGGGGGTT
871470 ATCGATTCCCCTAGGGGGA
1 ATCGATTCCCCTAGGGGGA
*
871489 ATCGGTTCCCCTTCAAAGGGGGA
1 ATCGATTCCCC-T---AGGGGGA
* *
871512 ATCGGTT-CCCTCATGGGGGT
1 ATCGATTCCCCT-A-GGGGGA
871532 ATCGATTCCC
1 ATCGATTCCC
871542 TATGCACCAA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
19 11 0.26
20 12 0.28
21 3 0.07
22 3 0.07
23 14 0.33
ACGTcount: A:0.18, C:0.28, G:0.29, T:0.25
Consensus pattern (19 bp):
ATCGATTCCCCTAGGGGGA
Found at i:889202 original size:20 final size:20
Alignment explanation
Indices: 889173--889224 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
889163 CGATTCAATC
889173 AGTATCGATACCGAAGGGGG
1 AGTATCGATACCGAAGGGGG
* *
889193 AGTATTGATACCGAA-GGGA
1 AGTATCGATACCGAAGGGGG
889212 AGGTATCGATACC
1 A-GTATCGATACC
889225 TTTTTGAAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 4 0.14
20 24 0.86
ACGTcount: A:0.33, C:0.15, G:0.33, T:0.19
Consensus pattern (20 bp):
AGTATCGATACCGAAGGGGG
Found at i:889267 original size:18 final size:19
Alignment explanation
Indices: 889244--889281 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
889234 CATAATGCAA
889244 AAAT-GGTATC-GATACCAT
1 AAATGGGTATCAG-TACCAT
889262 AAATGGGTATCAGTACCAT
1 AAATGGGTATCAGTACCAT
889281 A
1 A
889282 GTATGGTAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.22
19 13 0.72
20 1 0.06
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.26
Consensus pattern (19 bp):
AAATGGGTATCAGTACCAT
Found at i:889788 original size:57 final size:57
Alignment explanation
Indices: 889727--890006 Score: 420
Period size: 57 Copynumber: 4.9 Consensus size: 57
889717 ATTACCAAAT
*
889727 GGCACTTCGTGTGCAAAAGTTAAGAAATTCATACTATGTGTATGAATTTCCGTATTG
1 GGCACTTCGTGTGCAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTG
* * *
889784 GGCACTTCGTGTGCAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCTGTACTG
1 GGCACTTCGTGTGCAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTG
*
889841 GGCACTTCGTGTGCAAAAGCTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTG
1 GGCACTTCGTGTGCAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTG
* *
889898 GGCACTTCGTGTGCAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTTCGTATTA
1 GGCACTTCGTGTGCAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTG
* ***
889955 GACACTGT-GTGTGCAAATCATAA-AATGATTCATACTAAGTGTATGAATTTCC
1 GGCACT-TCGTGTGCAAAAGTTAAGAA--ATTCATACTAAGTGTATGAATTTCC
890007 ATATGGTAAA
Statistics
Matches: 204, Mismatches: 16, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
56 2 0.01
57 177 0.87
58 25 0.12
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.34
Consensus pattern (57 bp):
GGCACTTCGTGTGCAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTG
Found at i:892651 original size:22 final size:22
Alignment explanation
Indices: 892623--892669 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
892613 GCTTCATATC
892623 GGATGGCTCCAACGGAGTTAAG
1 GGATGGCTCCAACGGAGTTAAG
*
892645 GGATGGCTCTAACGGAGTTAAG
1 GGATGGCTCCAACGGAGTTAAG
892667 GGA
1 GGA
892670 ATTAAAGGCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.28, C:0.15, G:0.38, T:0.19
Consensus pattern (22 bp):
GGATGGCTCCAACGGAGTTAAG
Found at i:901079 original size:20 final size:20
Alignment explanation
Indices: 901054--901096 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
901044 CACAAATGAA
901054 ATGAAATGAATTAATGAATG
1 ATGAAATGAATTAATGAATG
901074 ATGAAATGAATTAATGAATG
1 ATGAAATGAATTAATGAATG
901094 ATG
1 ATG
901097 GATGAATTCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.49, C:0.00, G:0.21, T:0.30
Consensus pattern (20 bp):
ATGAAATGAATTAATGAATG
Found at i:904710 original size:22 final size:22
Alignment explanation
Indices: 904684--904726 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
904674 TTTATTATAT
*
904684 ATTTTAAATAATTTATCATTAA
1 ATTTTAAATAATTTATAATTAA
*
904706 ATTTTAATTAATTTATAATTA
1 ATTTTAAATAATTTATAATTA
904727 TATGTCGAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (22 bp):
ATTTTAAATAATTTATAATTAA
Found at i:907976 original size:20 final size:22
Alignment explanation
Indices: 907947--907994 Score: 64
Period size: 20 Copynumber: 2.2 Consensus size: 22
907937 CTCAAATTAA
*
907947 AATAATCATAAA-GA-TAAAAT
1 AATAAGCATAAAGGACTAAAAT
907967 AATAAGCATAAAGGGACTAAAAT
1 AATAAGCATAAA-GGACTAAAAT
907990 AATAA
1 AATAA
907995 AACTAGAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 11 0.46
22 2 0.08
23 11 0.46
ACGTcount: A:0.62, C:0.06, G:0.10, T:0.21
Consensus pattern (22 bp):
AATAAGCATAAAGGACTAAAAT
Found at i:909179 original size:3 final size:3
Alignment explanation
Indices: 909173--909222 Score: 55
Period size: 3 Copynumber: 15.7 Consensus size: 3
909163 AAAAGAAAAA
* *
909173 AAT AAT AAT AATT ATT AAT AATT AAT AAT AAT AAT AAAT ATT AAT AAT
1 AAT AAT AAT AA-T AAT AAT AA-T AAT AAT AAT AAT -AAT AAT AAT AAT
909221 AA
1 AA
909223 CCAATACAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
3 32 0.80
4 8 0.20
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
AAT
Found at i:909191 original size:7 final size:7
Alignment explanation
Indices: 909175--909220 Score: 53
Period size: 7 Copynumber: 7.0 Consensus size: 7
909165 AAGAAAAAAA
909175 TAATAA-
1 TAATAAT
*
909181 TAATTAT
1 TAATAAT
909188 TAATAAT
1 TAATAAT
909195 TAATAA-
1 TAATAAT
909201 TAATAAT
1 TAATAAT
*
909208 AAAT-AT
1 TAATAAT
909214 TAATAAT
1 TAATAAT
909221 AACCAATACA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
6 16 0.48
7 17 0.52
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
TAATAAT
Found at i:909191 original size:10 final size:10
Alignment explanation
Indices: 909175--909222 Score: 64
Period size: 10 Copynumber: 4.9 Consensus size: 10
909165 AAGAAAAAAA
909175 TAATAATAAT
1 TAATAATAAT
*
909185 TATTAATAAT
1 TAATAATAAT
909195 TAATAATAA-
1 TAATAATAAT
909204 TAATAA-ATAT
1 TAATAATA-AT
909214 TAATAATAA
1 TAATAATAA
909223 CCAATACAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
8 1 0.03
9 7 0.21
10 24 0.73
11 1 0.03
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (10 bp):
TAATAATAAT
Found at i:909193 original size:13 final size:12
Alignment explanation
Indices: 909175--909222 Score: 60
Period size: 13 Copynumber: 3.8 Consensus size: 12
909165 AAGAAAAAAA
909175 TAATAATAATTAT
1 TAATAATAA-TAT
*
909188 TAATAATTAATAA
1 TAATAA-TAATAT
909201 TAATAATAAATAT
1 TAATAAT-AATAT
909214 TAATAATAA
1 TAATAATAA
909223 CCAATACAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
12 3 0.10
13 25 0.81
14 3 0.10
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
TAATAATAATAT
Found at i:909194 original size:16 final size:16
Alignment explanation
Indices: 909176--909222 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
909166 AGAAAAAAAT
*
909176 AATAATAATTATTAATA
1 AATAATAA-TAATAATA
*
909193 ATTAATAATAATAATA
1 AATAATAATAATAATA
*
909209 AATATTAATAATAA
1 AATAATAATAATAA
909223 CCAATACAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
16 19 0.73
17 7 0.27
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AATAATAATAATAATA
Found at i:909228 original size:26 final size:26
Alignment explanation
Indices: 909173--909228 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
909163 AAAAGAAAAA
* *
909173 AATAATAATAATTATTAATAATTAAT
1 AATAATAATAAATATTAATAATTAAC
909199 AATAATAATAAATATTAATAA-TAACC
1 AATAATAATAAATATTAATAATTAA-C
909225 AATA
1 AATA
909229 CAAAAATGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 3 0.11
26 24 0.89
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.36
Consensus pattern (26 bp):
AATAATAATAAATATTAATAATTAAC
Found at i:910941 original size:33 final size:33
Alignment explanation
Indices: 910899--910967 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
910889 GTTGATGAAT
*
910899 GAAGGATGAT-TTAATGGTGATGAAATGGTAATG
1 GAAGGATGATGTTAATGGCG-TGAAATGGTAATG
* * *
910932 GAAGGATGATGTTATTGGCGTGATATGGTGATG
1 GAAGGATGATGTTAATGGCGTGAAATGGTAATG
910965 GAA
1 GAA
910968 TATGGTGATG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 24 0.77
34 7 0.23
ACGTcount: A:0.32, C:0.01, G:0.36, T:0.30
Consensus pattern (33 bp):
GAAGGATGATGTTAATGGCGTGAAATGGTAATG
Found at i:913669 original size:57 final size:56
Alignment explanation
Indices: 913599--913708 Score: 184
Period size: 57 Copynumber: 1.9 Consensus size: 56
913589 ACCCTTGCTC
913599 GAGATCTGATTAGATATGGAGACATGAAAGAAATTAGGATAAAATCCTTCTTGTGAA
1 GAGATCTGATTAGATATGGAGACATGAAAGAAATTAGGAT-AAATCCTTCTTGTGAA
* * *
913656 GAGATCTGATTAGATGTGGAGACATGAAAGGAATTAGGATAAATCTTTCTTGT
1 GAGATCTGATTAGATATGGAGACATGAAAGAAATTAGGATAAATCCTTCTTGT
913709 AATGTGTGTC
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
56 12 0.24
57 38 0.76
ACGTcount: A:0.37, C:0.08, G:0.25, T:0.30
Consensus pattern (56 bp):
GAGATCTGATTAGATATGGAGACATGAAAGAAATTAGGATAAATCCTTCTTGTGAA
Found at i:913823 original size:22 final size:22
Alignment explanation
Indices: 913795--913893 Score: 171
Period size: 22 Copynumber: 4.5 Consensus size: 22
913785 ATCTACATTC
* *
913795 TTCAAAGTTGATAGATTATATT
1 TTCAAAGATGATAGATTCTATT
913817 TTCAAAGATGATAGATTCTATT
1 TTCAAAGATGATAGATTCTATT
913839 TTCAAAGATGATAGATTCTATT
1 TTCAAAGATGATAGATTCTATT
*
913861 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTATT
913883 TTCAAAGATGA
1 TTCAAAGATGA
913894 AAACTTTATC
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 74 1.00
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.40
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTATT
Found at i:914478 original size:20 final size:21
Alignment explanation
Indices: 914448--914510 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
914438 CACGAATTTG
914448 TAAATCCTTCGGGTCATCTGT
1 TAAATCCTTCGGGTCATCTGT
* * *
914469 TAAA-CCTTCGAG-CATGATATT
1 TAAATCCTTCGGGTCAT-CT-GT
914490 TAAATCCTTCGGGTCATCTGT
1 TAAATCCTTCGGGTCATCTGT
914511 AAAGCCTCAG
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
19 3 0.09
20 8 0.25
21 10 0.31
22 8 0.25
23 3 0.09
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.37
Consensus pattern (21 bp):
TAAATCCTTCGGGTCATCTGT
Found at i:914624 original size:20 final size:20
Alignment explanation
Indices: 914601--914643 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
914591 AAAGTCTTCT
914601 GGTAATTTATAAAGCCTTTG
1 GGTAATTTATAAAGCCTTTG
* *
914621 GGTAATTTGTAAATCCTTTG
1 GGTAATTTATAAAGCCTTTG
914641 GGT
1 GGT
914644 CATCCGTCAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.26, C:0.09, G:0.23, T:0.42
Consensus pattern (20 bp):
GGTAATTTATAAAGCCTTTG
Found at i:915302 original size:20 final size:19
Alignment explanation
Indices: 915279--915316 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
915269 ATATATATAT
915279 ATATATTATTATATGTATTA
1 ATATATTATTATAT-TATTA
915299 ATATATTATTATATTATT
1 ATATATTATTATATTATT
915317 TATGATTACA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (19 bp):
ATATATTATTATATTATTA
Found at i:928565 original size:16 final size:17
Alignment explanation
Indices: 928540--928573 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
928530 TCGAGGTGTC
928540 ACATTGACTTTT-CAAA
1 ACATTGACTTTTACAAA
*
928556 ACATTTACTTTTACAAA
1 ACATTGACTTTTACAAA
928573 A
1 A
928574 GAATTAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.41, C:0.18, G:0.03, T:0.38
Consensus pattern (17 bp):
ACATTGACTTTTACAAA
Found at i:929254 original size:21 final size:21
Alignment explanation
Indices: 929220--929361 Score: 135
Period size: 21 Copynumber: 6.8 Consensus size: 21
929210 ACATAGAATT
* *
929220 TGTCCCGAAGGACCACATATT
1 TGTCCTGAAGGACCACATATA
* *
929241 TTTCCTGAATGACCACATATA
1 TGTCCTGAAGGACCACATATA
*
929262 TGT-CTCGAAGGACCACATAGA
1 TGTCCT-GAAGGACCACATATA
* *
929283 TGTCCCGAAGGACCACATATT
1 TGTCCTGAAGGACCACATATA
** **
929304 TGTCCTGAATTAATACATATA
1 TGTCCTGAAGGACCACATATA
*
929325 TGTCCCT-AAGGACCACATAGA
1 TGT-CCTGAAGGACCACATATA
*
929346 TGTCCCGAAGGACCAC
1 TGTCCTGAAGGACCAC
929362 TCCTTAAGGA
Statistics
Matches: 95, Mismatches: 22, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
20 4 0.04
21 87 0.92
22 4 0.04
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.25
Consensus pattern (21 bp):
TGTCCTGAAGGACCACATATA
Found at i:929272 original size:42 final size:42
Alignment explanation
Indices: 929220--929361 Score: 149
Period size: 42 Copynumber: 3.4 Consensus size: 42
929210 ACATAGAATT
** * * *
929220 TGTCCCGAAGGACCACATATTTTTCCTGAATGACCACATATA
1 TGTCCCGAAGGACCACATAGATGTCCCGAAGGACCACATATA
* *
929262 TGTCTCGAAGGACCACATAGATGTCCCGAAGGACCACATATT
1 TGTCCCGAAGGACCACATAGATGTCCCGAAGGACCACATATA
* ** ** * * *
929304 TGTCCTGAATTAATACATATATGTCCCTAAGGACCACATAGA
1 TGTCCCGAAGGACCACATAGATGTCCCGAAGGACCACATATA
929346 TGTCCCGAAGGACCAC
1 TGTCCCGAAGGACCAC
929362 TCCTTAAGGA
Statistics
Matches: 78, Mismatches: 22, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
42 78 1.00
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.25
Consensus pattern (42 bp):
TGTCCCGAAGGACCACATAGATGTCCCGAAGGACCACATATA
Found at i:929290 original size:63 final size:63
Alignment explanation
Indices: 929220--929361 Score: 230
Period size: 63 Copynumber: 2.3 Consensus size: 63
929210 ACATAGAATT
* * *
929220 TGTCCCGAAGGACCACATATTTTTCCTGAATGACCACATATATGTCTCGAAGGACCACATAGA
1 TGTCCCGAAGGACCACATATTTGTCCTGAATGAACACATATATGTCCCGAAGGACCACATAGA
* * *
929283 TGTCCCGAAGGACCACATATTTGTCCTGAATTAATACATATATGTCCCTAAGGACCACATAGA
1 TGTCCCGAAGGACCACATATTTGTCCTGAATGAACACATATATGTCCCGAAGGACCACATAGA
929346 TGTCCCGAAGGACCAC
1 TGTCCCGAAGGACCAC
929362 TCCTTAAGGA
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
63 73 1.00
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.25
Consensus pattern (63 bp):
TGTCCCGAAGGACCACATATTTGTCCTGAATGAACACATATATGTCCCGAAGGACCACATAGA
Found at i:929400 original size:21 final size:21
Alignment explanation
Indices: 929374--929462 Score: 88
Period size: 21 Copynumber: 4.2 Consensus size: 21
929364 CTTAAGGATA
929374 ACATATATATTCCAAAGGACC
1 ACATATATATTCCAAAGGACC
* * * * *
929395 AAATATGTGTTCCAATGAACC
1 ACATATATATTCCAAAGGACC
* **
929416 ACATATATGTTCCAAAGGATT
1 ACATATATATTCCAAAGGACC
* *
929437 ACATATATATCCCGAAGGACC
1 ACATATATATTCCAAAGGACC
929458 ACATA
1 ACATA
929463 GAACCCTCGA
Statistics
Matches: 52, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 52 1.00
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.26
Consensus pattern (21 bp):
ACATATATATTCCAAAGGACC
Found at i:930322 original size:95 final size:95
Alignment explanation
Indices: 930204--930402 Score: 256
Period size: 95 Copynumber: 2.1 Consensus size: 95
930194 TACCGACAAG
* * * * * * * *
930204 GTAGTATCGATACCATGGTAAGGGTATTGATACCAGTA-AACATTGAATATAATTTTGGTATCGA
1 GTAGTATCGATACCATGGTAAGGGTATCGATACCA-AACAACATCGAAGATAAATTCGATATCAA
*
930268 TACCAGAAGGGGGTATCAGTACCATAGTATA
65 TACCAGAAGGGGGTATCAGTAACATAGTATA
* * *
930299 GTAGTATCGATACCATGTTAAGGGTCTCGATACCAAACAACATCGAAGCTAAATTCGATATCAAT
1 GTAGTATCGATACCATGGTAAGGGTATCGATACCAAACAACATCGAAGATAAATTCGATATCAAT
*
930364 ACCTGAAGGGGGTATCAGTAACATAGTATA
66 ACCAGAAGGGGGTATCAGTAACATAGTATA
*
930394 GAAGTATCG
1 GTAGTATCG
930403 GTACTAGGGT
Statistics
Matches: 89, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
94 1 0.01
95 88 0.99
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.27
Consensus pattern (95 bp):
GTAGTATCGATACCATGGTAAGGGTATCGATACCAAACAACATCGAAGATAAATTCGATATCAAT
ACCAGAAGGGGGTATCAGTAACATAGTATA
Found at i:930883 original size:47 final size:47
Alignment explanation
Indices: 930814--931361 Score: 772
Period size: 47 Copynumber: 11.6 Consensus size: 47
930804 TAAATCGAAT
* * *
930814 CCATAATTGAAAATGCATGAAAGAATGCATTACGACATGAAAGGATG
1 CCATAATTGAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
* * * * *
930861 CCATAATTGAAAATACGTGAAAGAATGCATTAAGGTATGAAATGATG
1 CCATAATTGAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
* *
930908 CCATAATTGAAATATGCATGAAATGATGCATTAAGTCATGAAAGGATG
1 CCATAATTGAAA-ATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
* *
930956 CCATAATTGAAAATGCTTGAAAGGATGCATTAAGGCATGAAATGATG
1 CCATAATTGAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
* *
931003 CCATAATTGAAAATGAATGAAAGAATGCATTAAGGCATGAAAGGATG
1 CCATAATTGAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
* * *
931050 CCCTAATTGAAAGATGCATCAAAGGATGCATTAAGGCATGAATGGATG
1 CCATAATTGAAA-ATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
* * * *
931098 TCATAATTGAAAATGCATGAAATGAGGCATTAAGGCATGAAATGATG
1 CCATAATTGAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
* * *
931145 CCATAATTGAAAATTTCATGAAATGATGCATGAAGGCATGAAAGGATG
1 CCATAATTGAAAA-TGCATGAAAGGATGCATTAAGGCATGAAAGGATG
*
931193 CCATAATTGAAAAATGCATGAAAGGATGCATTAAGGCATTAAAGGATG
1 CCATAATTG-AAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
* * *
931241 CCATAACTGAAAATGCATGAAAGGATGTATTAAGGCATGAAGGGATG
1 CCATAATTGAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
* * *
931288 CCACAATTGAAAATGCATAAAAGGATACATTAAGGCATGAAAGGATG
1 CCATAATTGAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
*
931335 CCATAATTGAAAATGCATTAAAGGATG
1 CCATAATTGAAAATGCATGAAAGGATG
931362 TCATATTTGA
Statistics
Matches: 442, Mismatches: 55, Indels: 8
0.88 0.11 0.02
Matches are distributed among these distances:
47 280 0.63
48 158 0.36
49 4 0.01
ACGTcount: A:0.43, C:0.11, G:0.23, T:0.24
Consensus pattern (47 bp):
CCATAATTGAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
Found at i:930977 original size:95 final size:93
Alignment explanation
Indices: 930814--931361 Score: 747
Period size: 95 Copynumber: 5.8 Consensus size: 93
930804 TAAATCGAAT
* * * *
930814 CCATAATTGAAAATGCATGAAAGAATGCATTACGACATGAAAGGATGCCATAATTGAAAATACGT
1 CCATAATTGAAAATGCATGAAAG-ATGCATTAAGGCATGAAAGGATGCCATAATTGAAAATGCAT
* *
930879 GAAAGAATGCATTAAGGTATGAAATGATG
65 GAAAGGATGCATTAAGGCATGAAATGATG
* *
930908 CCATAATTGAAATATGCATGAAATGATGCATTAAGTCATGAAAGGATGCCATAATTGAAAATGCT
1 CCATAATTGAAA-ATGCATGAAA-GATGCATTAAGGCATGAAAGGATGCCATAATTGAAAATGCA
930973 TGAAAGGATGCATTAAGGCATGAAATGATG
64 TGAAAGGATGCATTAAGGCATGAAATGATG
* *
931003 CCATAATTGAAAATGAATGAAAGAATGCATTAAGGCATGAAAGGATGCCCTAATTGAAAGATGCA
1 CCATAATTGAAAATGCATGAAAG-ATGCATTAAGGCATGAAAGGATGCCATAATTGAAA-ATGCA
*
931068 TCAAAGGATGCATTAAGGCATG-AATGGATG
64 TGAAAGGATGCATTAAGGCATGAAAT-GATG
* * * *
931098 TCATAATTGAAAATGCATGAAATGAGGCATTAAGGCATGAAATGATGCCATAATTGAAAATTTCA
1 CCATAATTGAAAATGCATGAAA-GATGCATTAAGGCATGAAAGGATGCCATAATTGAAAA-TGCA
* * *
931163 TGAAATGATGCATGAAGGCATGAAAGGATG
64 TGAAAGGATGCATTAAGGCATGAAATGATG
* *
931193 CCATAATTGAAAAATGCATGAAAGGATGCATTAAGGCATTAAAGGATGCCATAACTGAAAATGCA
1 CCATAATTG-AAAATGCATGAAA-GATGCATTAAGGCATGAAAGGATGCCATAATTGAAAATGCA
* **
931258 TGAAAGGATGTATTAAGGCATGAAGGGATG
64 TGAAAGGATGCATTAAGGCATGAAATGATG
* * *
931288 CCACAATTGAAAATGCATAAAAGGATACATTAAGGCATGAAAGGATGCCATAATTGAAAATGCAT
1 CCATAATTGAAAATGCATGAAA-GATGCATTAAGGCATGAAAGGATGCCATAATTGAAAATGCAT
*
931353 TAAAGGATG
65 GAAAGGATG
931362 TCATATTTGA
Statistics
Matches: 407, Mismatches: 38, Indels: 18
0.88 0.08 0.04
Matches are distributed among these distances:
93 1 0.00
94 118 0.29
95 238 0.58
96 50 0.12
ACGTcount: A:0.43, C:0.11, G:0.23, T:0.24
Consensus pattern (93 bp):
CCATAATTGAAAATGCATGAAAGATGCATTAAGGCATGAAAGGATGCCATAATTGAAAATGCATG
AAAGGATGCATTAAGGCATGAAATGATG
Found at i:931002 original size:20 final size:20
Alignment explanation
Indices: 930923--931097 Score: 62
Period size: 20 Copynumber: 7.7 Consensus size: 20
930913 ATTGAAATAT
*
930923 GCATGAAATGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
* *
930943 TCATGAAAGGATGCCATAATTGAAAAT
1 GCATGAAAGGATG-C---ATT---AAG
*
930970 GCTTGAAAGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
* *
930990 GCATGAAATGATGCCATAATTGAAAAT
1 GCATGAAAGGATG-C---ATT---AAG
* *
931017 GAATGAAAGAATGCATTAAG
1 GCATGAAAGGATGCATTAAG
931037 GCATGAAAGGATGCCCTAATTGAAAG
1 GCATGAAAGGATG--C--ATT--AAG
*
931063 ATGCATCAAAGGATGCATTAAG
1 --GCATGAAAGGATGCATTAAG
*
931085 GCATGAATGGATG
1 GCATGAAAGGATG
931098 TCATAATTGA
Statistics
Matches: 115, Mismatches: 18, Indels: 44
0.65 0.10 0.25
Matches are distributed among these distances:
20 48 0.42
21 2 0.02
22 4 0.03
23 6 0.05
24 12 0.10
26 6 0.05
27 25 0.22
28 12 0.10
ACGTcount: A:0.41, C:0.11, G:0.25, T:0.23
Consensus pattern (20 bp):
GCATGAAAGGATGCATTAAG
Found at i:931078 original size:142 final size:141
Alignment explanation
Indices: 930814--931361 Score: 758
Period size: 142 Copynumber: 3.9 Consensus size: 141
930804 TAAATCGAAT
* * * *
930814 CCATAATTGAAAATGCATGAAAGAATGCATTACGACATGAAAGGATGCCATAATTGAAAAT-ACG
1 CCATAATTGAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAATTGAAAATGA-A
* * *
930878 TGAAAGAATGCATTAAGGTATGAAATGATGCCATAATTGAAATATGCATGAAATGATGCATTAAG
65 TGAAAGAATGCATTAAGGCATGAAAGGATGCCATAATTGAAA-ATGCATGAAAGGATGCATTAAG
*
930943 TCATGAAAGGATG
129 GCATGAAAGGATG
* *
930956 CCATAATTGAAAATGCTTGAAAGGATGCATTAAGGCATGAAATGATGCCATAATTGAAAATGAAT
1 CCATAATTGAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAATTGAAAATGAAT
* *
931021 GAAAGAATGCATTAAGGCATGAAAGGATGCCCTAATTGAAAGATGCATCAAAGGATGCATTAAGG
66 GAAAGAATGCATTAAGGCATGAAAGGATGCCATAATTGAAA-ATGCATGAAAGGATGCATTAAGG
*
931086 CATGAATGGATG
130 CATGAAAGGATG
* * * * **
931098 TCATAATTGAAAATGCATGAAATGAGGCATTAAGGCATGAAATGATGCCATAATTGAAAATTTCA
1 CCATAATTGAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAATTGAAAA-TGAA
*
931163 TGAAATG-ATGCATGAAGGCATGAAAGGATGCCATAATTGAAAAATGCATGAAAGGATGCATTAA
65 TGAAA-GAATGCATTAAGGCATGAAAGGATGCCATAATTG-AAAATGCATGAAAGGATGCATTAA
*
931227 GGCATTAAAGGATG
128 GGCATGAAAGGATG
* * * * *
931241 CCATAACTGAAAATGCATGAAAGGATGTATTAAGGCATGAAGGGATGCCACAATTGAAAATGCAT
1 CCATAATTGAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAATTGAAAATGAAT
* * * *
931306 AAAAGGATACATTAAGGCATGAAAGGATGCCATAATTGAAAATGCATTAAAGGATG
66 GAAAGAATGCATTAAGGCATGAAAGGATGCCATAATTGAAAATGCATGAAAGGATG
931362 TCATATTTGA
Statistics
Matches: 363, Mismatches: 38, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
141 18 0.05
142 219 0.60
143 122 0.34
144 4 0.01
ACGTcount: A:0.43, C:0.11, G:0.23, T:0.24
Consensus pattern (141 bp):
CCATAATTGAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAATTGAAAATGAAT
GAAAGAATGCATTAAGGCATGAAAGGATGCCATAATTGAAAATGCATGAAAGGATGCATTAAGGC
ATGAAAGGATG
Found at i:931212 original size:28 final size:27
Alignment explanation
Indices: 931180--931313 Score: 98
Period size: 20 Copynumber: 5.4 Consensus size: 27
931170 ATGCATGAAG
931180 GCATGAAAGGATGCCATAATTGAAAAAT
1 GCATGAAAGGATGCCATAATTG-AAAAT
*
931208 GCATGAAAGGATG-C---ATT---AAG
1 GCATGAAAGGATGCCATAATTGAAAAT
* *
931228 GCATTAAAGGATGCCATAACTGAAAAT
1 GCATGAAAGGATGCCATAATTGAAAAT
*
931255 GCATGAAAGGATG---T-ATT---AAG
1 GCATGAAAGGATGCCATAATTGAAAAT
* *
931275 GCATGAAGGGATGCCACAATTGAAAAT
1 GCATGAAAGGATGCCATAATTGAAAAT
*
931302 GCATAAAAGGAT
1 GCATGAAAGGAT
931314 ACATTAAGGC
Statistics
Matches: 80, Mismatches: 12, Indels: 29
0.66 0.10 0.24
Matches are distributed among these distances:
20 28 0.35
21 1 0.01
23 2 0.03
24 9 0.11
27 27 0.34
28 13 0.16
ACGTcount: A:0.43, C:0.11, G:0.25, T:0.21
Consensus pattern (27 bp):
GCATGAAAGGATGCCATAATTGAAAAT
Found at i:931313 original size:27 final size:27
Alignment explanation
Indices: 931275--931390 Score: 93
Period size: 27 Copynumber: 4.5 Consensus size: 27
931265 ATGTATTAAG
*
931275 GCATGAAGGGATGCCACAATTGAAAAT
1 GCATGAAAGGATGCCACAATTGAAAAT
* *
931302 GCATAAAAGGAT---AC-ATT---AAG
1 GCATGAAAGGATGCCACAATTGAAAAT
*
931322 GCATGAAAGGATGCCATAATTGAAAAT
1 GCATGAAAGGATGCCACAATTGAAAAT
* * * *
931349 GCATTAAAGGATGTCATATTTGAAAAAT
1 GCATGAAAGGATGCCACAATTG-AAAAT
*
931377 GCATGAAATGATGC
1 GCATGAAAGGATGC
931391 ATTAAGGCAT
Statistics
Matches: 69, Mismatches: 12, Indels: 15
0.72 0.12 0.16
Matches are distributed among these distances:
20 13 0.19
23 4 0.06
24 5 0.07
27 31 0.45
28 16 0.23
ACGTcount: A:0.43, C:0.11, G:0.22, T:0.23
Consensus pattern (27 bp):
GCATGAAAGGATGCCACAATTGAAAAT
Found at i:931394 original size:75 final size:77
Alignment explanation
Indices: 931297--931439 Score: 220
Period size: 75 Copynumber: 1.9 Consensus size: 77
931287 GCCACAATTG
931297 AAAATGCATAAAAGGATACATTAAGGCATGAAAGGATGCCATA-AT-TGAAAATGCATTAAA-GG
1 AAAATGCATAAAAGGATACATTAAGGCATGAAAGGATGCCATATATATGAAAATGCA-TAAATGG
931359 ATGTCATATTTGA
65 ATGTCATATTTGA
* * * *
931372 AAAATGCATGAAATGATGCATTAAGGCATGAAAGGATGCCATATATATTAAAATGCATAAATGGA
1 AAAATGCATAAAAGGATACATTAAGGCATGAAAGGATGCCATATATATGAAAATGCATAAATGGA
931437 TGT
66 TGT
931440 GTTAATATGT
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
75 40 0.66
76 6 0.10
77 15 0.25
ACGTcount: A:0.45, C:0.09, G:0.20, T:0.26
Consensus pattern (77 bp):
AAAATGCATAAAAGGATACATTAAGGCATGAAAGGATGCCATATATATGAAAATGCATAAATGGA
TGTCATATTTGA
Found at i:932355 original size:25 final size:25
Alignment explanation
Indices: 932336--932385 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
932326 ATATACATAT
932336 CACATAACATATAAT-ATATATCATG
1 CACAT-ACATATAATCATATATCATG
*
932361 CACATTCATATAATCATATAGTCAT
1 CACATACATATAATCATATA-TCAT
932386 AACTATACTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 8 0.36
25 10 0.45
26 4 0.18
ACGTcount: A:0.44, C:0.18, G:0.04, T:0.34
Consensus pattern (25 bp):
CACATACATATAATCATATATCATG
Found at i:936033 original size:21 final size:21
Alignment explanation
Indices: 936007--936064 Score: 98
Period size: 21 Copynumber: 2.8 Consensus size: 21
935997 ACATAGAATT
*
936007 TGTCCCAAAGGACCACATATA
1 TGTCCCAAAGGACCACATAGA
936028 TGTCCCAAAGGACCACATAGA
1 TGTCCCAAAGGACCACATAGA
*
936049 TGTCCCGAAGGACCAC
1 TGTCCCAAAGGACCAC
936065 TCCTTAAGGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.34, C:0.31, G:0.19, T:0.16
Consensus pattern (21 bp):
TGTCCCAAAGGACCACATAGA
Found at i:938333 original size:210 final size:215
Alignment explanation
Indices: 937971--938395 Score: 815
Period size: 210 Copynumber: 2.0 Consensus size: 215
937961 TACTTAATGT
937971 TTCCTGTTTTCCGCTAATAAACTTACCTTTTCCCTTACTCAACTCTTCATCTACACTCGACCTTT
1 TTCCTGTTTTCCGCTAATAAACTTACCTTTTCCCTTACTCAACTCTTCATCTACACTCGACCTTT
938036 ATAAATCCATATAATGTCATCCATTACATAAACAAAAATCCCAATGCTTACCATCTACGAACATG
66 ATAAATCCATATAATGTCATCCATTACATAAACAAAAATCCCAATGCTTACCATCTACGAACATG
938101 AGTCAATTGATTTCCTTCATCAATCTCTAATTGCCTTGCAATAACAACCAAA-CTTTAATCC-TT
131 AGTCAATTGATTTCCTTCATCAATCTCTAATTGCCTTGCAATAACAACCAAACCTTTAATCCATT
938164 TTCA-TTC-AAATT-ACATA
196 TTCATTTCAAAATTAACATA
938181 TTCCTGTTTTCCGCTAATAAACTTACCTTTTCCCTTACTCAACTCTTCATCTACACTCGACCTTT
1 TTCCTGTTTTCCGCTAATAAACTTACCTTTTCCCTTACTCAACTCTTCATCTACACTCGACCTTT
938246 ATAAATCCATATAATGTCATCCATTACATAAACAAAAATCCCAATGCTTACCATCTACGAACATG
66 ATAAATCCATATAATGTCATCCATTACATAAACAAAAATCCCAATGCTTACCATCTACGAACATG
938311 AGTCAATTGATTTCCTTCATCAATCTCTAATTGCCTTGCAATAACAACCAAACCTTTAATCCATT
131 AGTCAATTGATTTCCTTCATCAATCTCTAATTGCCTTGCAATAACAACCAAACCTTTAATCCATT
938376 TTCATTTCAAAATTAACATA
196 TTCATTTCAAAATTAACATA
938396 CATTTCCTTA
Statistics
Matches: 210, Mismatches: 0, Indels: 5
0.98 0.00 0.02
Matches are distributed among these distances:
210 182 0.87
211 9 0.04
212 6 0.03
213 3 0.01
214 5 0.02
215 5 0.02
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (215 bp):
TTCCTGTTTTCCGCTAATAAACTTACCTTTTCCCTTACTCAACTCTTCATCTACACTCGACCTTT
ATAAATCCATATAATGTCATCCATTACATAAACAAAAATCCCAATGCTTACCATCTACGAACATG
AGTCAATTGATTTCCTTCATCAATCTCTAATTGCCTTGCAATAACAACCAAACCTTTAATCCATT
TTCATTTCAAAATTAACATA
Found at i:940435 original size:21 final size:21
Alignment explanation
Indices: 940410--940467 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
940400 ACATAGAATT
* *
940410 TATCCCGAAGGACCACATATA
1 TATCCTGAAGGACCACATAGA
940431 TATCCTGAAGGACCACATAGA
1 TATCCTGAAGGACCACATAGA
* *
940452 TTTCCTGAAAGACCAC
1 TATCCTGAAGGACCAC
940468 TTCTTAAAGA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.36, C:0.28, G:0.16, T:0.21
Consensus pattern (21 bp):
TATCCTGAAGGACCACATAGA
Found at i:940902 original size:25 final size:26
Alignment explanation
Indices: 940874--940923 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
940864 ATATACATAT
940874 CACATAACATATAA-TACATA-TCATG
1 CACAT-ACATATAATTACATAGTCATG
*
940899 CACATTCATATAATTACATAGTCAT
1 CACATACATATAATTACATAGTCAT
940924 AACTCTACTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 7 0.32
25 11 0.50
26 4 0.18
ACGTcount: A:0.44, C:0.20, G:0.04, T:0.32
Consensus pattern (26 bp):
CACATACATATAATTACATAGTCATG
Found at i:941358 original size:29 final size:29
Alignment explanation
Indices: 941323--941391 Score: 88
Period size: 30 Copynumber: 2.4 Consensus size: 29
941313 TTTAGTGACA
* *
941323 AAATTTATAAA-TTT-GGTGACCAAAGTAT
1 AAATTTAAAAAGTTTAGG-GACCAAAATAT
941351 AAACTTTAAAAAGTTTAGGGACCAAAATAT
1 AAA-TTTAAAAAGTTTAGGGACCAAAATAT
941381 AAATTTAAAAA
1 AAATTTAAAAA
941392 AAATTACAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
28 3 0.08
29 15 0.42
30 16 0.44
31 2 0.06
ACGTcount: A:0.51, C:0.07, G:0.12, T:0.30
Consensus pattern (29 bp):
AAATTTAAAAAGTTTAGGGACCAAAATAT
Found at i:943465 original size:18 final size:18
Alignment explanation
Indices: 943444--943479 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
943434 GTAGAGCACA
943444 TATGTCCCGTAGGACCAC
1 TATGTCCCGTAGGACCAC
*
943462 TATGTCTCGTAGGACCAC
1 TATGTCCCGTAGGACCAC
943480 GTAGAACCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.31, G:0.22, T:0.25
Consensus pattern (18 bp):
TATGTCCCGTAGGACCAC
Found at i:950210 original size:11 final size:11
Alignment explanation
Indices: 950194--950218 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
950184 ACCCTTCAAT
950194 TTTTTCCAAAA
1 TTTTTCCAAAA
950205 TTTTTCCAAAA
1 TTTTTCCAAAA
950216 TTT
1 TTT
950219 CTATTCAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (11 bp):
TTTTTCCAAAA
Found at i:950427 original size:29 final size:29
Alignment explanation
Indices: 950383--950444 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
950373 TTAGTCCCTA
* * *
950383 AACTTTCTAAAGTTTATACTTTGGTCACTT
1 AACTTTCTAAAATTTACAATTTGGTCAC-T
950413 AACTTTC-AAAATTTACAATTTGGTCACT
1 AACTTTCTAAAATTTACAATTTGGTCACT
950441 AACT
1 AACT
950445 AAATCCATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 5 0.17
29 17 0.59
30 7 0.24
ACGTcount: A:0.32, C:0.18, G:0.08, T:0.42
Consensus pattern (29 bp):
AACTTTCTAAAATTTACAATTTGGTCACT
Found at i:954926 original size:2 final size:2
Alignment explanation
Indices: 954919--954947 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
954909 TATTATCAAC
954919 TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
954948 GGGGAGTCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:956578 original size:148 final size:146
Alignment explanation
Indices: 956312--956602 Score: 564
Period size: 148 Copynumber: 2.0 Consensus size: 146
956302 GTCATCGAAA
956312 TCATTAGCTCGAGTACCTTTTTCTTGGTGACACCTCCTTAGATTTAATAAAATCCTCAAGGGTTC
1 TCATTAGCTCGAGTACCTTTTTCTTGGTGACACCTCCTTAGATTTAATAAAATCCTCAAGGGTTC
956377 CTCGGGGACCTTCTTTTTCCTACACAGTGCGGTTATCAAGTTGGGAAACAATAGATTGCCCCGAT
66 CTCGGGGACCTTCTTTTTCCTACACAGTGCGGTTATCAAGTTGGGAAACAATAGATTGCCCCGAT
956442 TCCTTTTGGCACAAAC
131 TCCTTTTGGCACAAAC
956458 TCATTAGCTCGAGTACCTTTTTCTTGGTGACACCCTCCTTAGATTTAATAAAATCCTCAAAGGGT
1 TCATTAGCTCGAGTACCTTTTTCTTGGTGACA-CCTCCTTAGATTTAATAAAATCCTC-AAGGGT
956523 TCCTCGGGGACCTTCTTTTTCCTACACAGTGCGGTTATCAAGTTGGGAAACAATAGATTGCCCCG
64 TCCTCGGGGACCTTCTTTTTCCTACACAGTGCGGTTATCAAGTTGGGAAACAATAGATTGCCCCG
956588 ATTCCTTTTGGCACA
129 ATTCCTTTTGGCACA
956603 CTCGTGGATT
Statistics
Matches: 143, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
146 32 0.22
147 25 0.17
148 86 0.60
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.33
Consensus pattern (146 bp):
TCATTAGCTCGAGTACCTTTTTCTTGGTGACACCTCCTTAGATTTAATAAAATCCTCAAGGGTTC
CTCGGGGACCTTCTTTTTCCTACACAGTGCGGTTATCAAGTTGGGAAACAATAGATTGCCCCGAT
TCCTTTTGGCACAAAC
Found at i:961959 original size:21 final size:20
Alignment explanation
Indices: 961929--961967 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
961919 CATTAAGATC
*
961929 TTTGTGGATGCCATGAAATCT
1 TTTGTCGATGCCAT-AAATCT
961950 TTTGTCGATGCCATAAAT
1 TTTGTCGATGCCATAAAT
961968 TCCTGCAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (20 bp):
TTTGTCGATGCCATAAATCT
Found at i:978653 original size:25 final size:25
Alignment explanation
Indices: 978619--978670 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
978609 CTACTTTCAG
978619 CTAGTCACTTAGTCAAGTTTATCAA
1 CTAGTCACTTAGTCAAGTTTATCAA
*
978644 CTAGTCACTTGGTCAAGTTTATCAA
1 CTAGTCACTTAGTCAAGTTTATCAA
978669 CT
1 CT
978671 TAGCTTAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.37
Consensus pattern (25 bp):
CTAGTCACTTAGTCAAGTTTATCAA
Found at i:982367 original size:80 final size:80
Alignment explanation
Indices: 982204--982533 Score: 464
Period size: 81 Copynumber: 4.1 Consensus size: 80
982194 ATTCCTTTAG
* * * * *
982204 TCTTTTACCCAAAGACATTTAGCCTTTCATCTAACTTGCATGATTGACACATTTCTACCAAATGC
1 TCTTTTACTCAAAG-TATTTAACCTTTCATCTAACTTGCATAATTGACACATTTCTGCCAAATGC
982269 ACAGCTAGGCCATTAA
65 ACAGCTAGGCCATTAA
*
982285 TCTTTTACTCAAATGTATTTAACCTTTCATCTAACTTGCATAATTG-CACATTTCTGCCGAATGC
1 TCTTTTACTCAAA-GTATTTAACCTTTCATCTAACTTGCATAATTGACACATTTCTGCCAAATGC
*
982349 ACAACTAGGCCATTAA
65 ACAGCTAGGCCATTAA
* *
982365 TCTTTTACTCAAAGTTATTTAACCTTTCATCTAACTCGCATAATTGACACCTTTCTGCCAAATGC
1 TCTTTTACTCAAAG-TATTTAACCTTTCATCTAACTTGCATAATTGACACATTTCTGCCAAATGC
* *
982430 ATAGCTAGGCCGTTAA
65 ACAGCTAGGCCATTAA
* * * * *
982446 TCTTTTACTCAAAGGTATTTAACCTTTTATCTAACTAGCATAATTGACATATTTATGTCAAATGC
1 TCTTTTACTCAAA-GTATTTAACCTTTCATCTAACTTGCATAATTGACACATTTCTGCCAAATGC
*
982511 ATAGCTAGGCCATTAA
65 ACAGCTAGGCCATTAA
982527 TCTTTTA
1 TCTTTTA
982534 TTTTAGAACA
Statistics
Matches: 225, Mismatches: 20, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
79 1 0.00
80 74 0.33
81 148 0.66
82 2 0.01
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.36
Consensus pattern (80 bp):
TCTTTTACTCAAAGTATTTAACCTTTCATCTAACTTGCATAATTGACACATTTCTGCCAAATGCA
CAGCTAGGCCATTAA
Found at i:982469 original size:161 final size:162
Alignment explanation
Indices: 982204--982533 Score: 482
Period size: 161 Copynumber: 2.0 Consensus size: 162
982194 ATTCCTTTAG
* * *
982204 TCTTTTACCCAAAGACATTTAGCCTTTCATCTAACTTGCATGATTGACACATTTCTACCAAATGC
1 TCTTTTACCCAAAGACATTTAACCTTTCATCTAACTCGCATAATTGACACATTTCTACCAAATGC
* *
982269 ACAGCTAGGCCATTAATCTTTTACTCAAATGTATTTAACCTTTCATCTAACTTGCATAATTG-CA
66 ACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTAGCATAATTGACA
* *
982333 CATTTCTGCCGAATGCACAACTAGGCCATTAA
131 CATTTATGCCAAATGCACAACTAGGCCATTAA
* ** * *
982365 TCTTTTACTCAAAGTTATTTAACCTTTCATCTAACTCGCATAATTGACACCTTTCTGCCAAATGC
1 TCTTTTACCCAAAGACATTTAACCTTTCATCTAACTCGCATAATTGACACATTTCTACCAAATGC
* * *
982430 ATAGCTAGGCCGTTAATCTTTTACTCAAAGGTATTTAACCTTTTATCTAACTAGCATAATTGACA
66 ACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTAGCATAATTGACA
* * * *
982495 TATTTATGTCAAATGCATAGCTAGGCCATTAA
131 CATTTATGCCAAATGCACAACTAGGCCATTAA
982527 TCTTTTA
1 TCTTTTA
982534 TTTTAGAACA
Statistics
Matches: 149, Mismatches: 19, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
161 114 0.77
162 35 0.23
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.36
Consensus pattern (162 bp):
TCTTTTACCCAAAGACATTTAACCTTTCATCTAACTCGCATAATTGACACATTTCTACCAAATGC
ACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTAGCATAATTGACA
CATTTATGCCAAATGCACAACTAGGCCATTAA
Found at i:983031 original size:20 final size:20
Alignment explanation
Indices: 982886--983031 Score: 94
Period size: 20 Copynumber: 6.7 Consensus size: 20
982876 TTCATTTATG
* *
982886 GCATTCTTTCATGTCTTAAT
1 GCATCCTTTCATGCCTTAAT
**
982906 GCATCCTTTCATAACTTAAT
1 GCATCCTTTCATGCCTTAAT
* * *
982926 GCATCATTTCATGAATTTCATTTAT
1 GCATCCTTTCATG-----CCTTAAT
982951 AGCATCCTTTCATGCCTTAAT
1 -GCATCCTTTCATGCCTTAAT
* *
982972 GTATCCTTTCATGCATTTCATTTAT
1 GCATCCTTTCATGC----C-TTAAT
982997 GGCATCCTTTCATGCCTTAAT
1 -GCATCCTTTCATGCCTTAAT
*
983018 GCATCATTTCATGC
1 GCATCCTTTCATGC
983032 ATTTCATTTA
Statistics
Matches: 98, Mismatches: 16, Indels: 24
0.71 0.12 0.17
Matches are distributed among these distances:
20 54 0.55
21 9 0.09
22 1 0.01
24 1 0.01
25 8 0.08
26 25 0.26
ACGTcount: A:0.23, C:0.23, G:0.10, T:0.44
Consensus pattern (20 bp):
GCATCCTTTCATGCCTTAAT
Found at i:983043 original size:46 final size:46
Alignment explanation
Indices: 982906--983044 Score: 224
Period size: 46 Copynumber: 3.0 Consensus size: 46
982896 ATGTCTTAAT
** * *
982906 GCATCCTTTCATAACTTAATGCATCATTTCATGAATTTCATTTATA
1 GCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTCATTTATG
* *
982952 GCATCCTTTCATGCCTTAATGTATCCTTTCATGCATTTCATTTATG
1 GCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTCATTTATG
982998 GCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTCATTTATG
1 GCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTCATTTATG
983044 G
1 G
983045 ATTCACTTTA
Statistics
Matches: 85, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 85 1.00
ACGTcount: A:0.24, C:0.22, G:0.10, T:0.44
Consensus pattern (46 bp):
GCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTCATTTATG
Found at i:983515 original size:19 final size:19
Alignment explanation
Indices: 983491--983534 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
983481 TATTATAGTA
983491 TGATACTCCGTCACGGTAC
1 TGATACTCCGTCACGGTAC
* *
983510 TGATACTCTGTCATGGTAC
1 TGATACTCCGTCACGGTAC
983529 TGATAC
1 TGATAC
983535 CATTTCTGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (19 bp):
TGATACTCCGTCACGGTAC
Found at i:983601 original size:19 final size:20
Alignment explanation
Indices: 983556--983607 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
983546 TCTGTTAGCA
*
983556 ATGGTATCGATACCATCCTC
1 ATGGTATCGATACCACCCTC
*
983576 ATAGTATCGATACC-CCCTC
1 ATGGTATCGATACCACCCTC
*
983595 TTGGTATCGATAC
1 ATGGTATCGATAC
983608 TTCTTGTATC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.25, C:0.29, G:0.15, T:0.31
Consensus pattern (20 bp):
ATGGTATCGATACCACCCTC
Found at i:983680 original size:14 final size:14
Alignment explanation
Indices: 983663--983699 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
983653 AAGCCTATAG
983663 TATCAGTACTATTC
1 TATCAGTACTATTC
*
983677 TATCAGTATTATTC
1 TATCAGTACTATTC
983691 TATCAGTAC
1 TATCAGTAC
983700 CGATACCCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.30, C:0.19, G:0.08, T:0.43
Consensus pattern (14 bp):
TATCAGTACTATTC
Found at i:986446 original size:80 final size:81
Alignment explanation
Indices: 986323--986483 Score: 297
Period size: 80 Copynumber: 2.0 Consensus size: 81
986313 AGTAACTTTG
986323 ACAATCTTAATGGCATGTAATCCTTTTTCTCAATTAAATTAAACTCAATTTTGGCCGAGAATCAG
1 ACAATCTTAATGGCATGTAATCCTTTTTCTCAATTAAATTAAACTCAATTTTGGCCGAGAATCAG
986388 CTAAACTTGTAGCTCT
66 CTAAACTTGTAGCTCT
* *
986404 ACAATCTTAATGGCATGTAAT-CTTTTTCTCAATTAAATTAAACTTAATTTTGGCTGAGAATCAG
1 ACAATCTTAATGGCATGTAATCCTTTTTCTCAATTAAATTAAACTCAATTTTGGCCGAGAATCAG
986468 CTAAACTTGTAGCTCT
66 CTAAACTTGTAGCTCT
986484 GATACCAATA
Statistics
Matches: 78, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
80 57 0.73
81 21 0.27
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.37
Consensus pattern (81 bp):
ACAATCTTAATGGCATGTAATCCTTTTTCTCAATTAAATTAAACTCAATTTTGGCCGAGAATCAG
CTAAACTTGTAGCTCT
Found at i:987239 original size:45 final size:46
Alignment explanation
Indices: 987183--987289 Score: 126
Period size: 47 Copynumber: 2.3 Consensus size: 46
987173 CTTTCATGCC
* * *
987183 ATTATGTATTGTTTACATTTT-CCTTTATGACATCCATTCATACAA
1 ATTATGCATTGTTTACATTTTACATATATGACATCCATTCATACAA
** *
987228 ATTATGCATTGTTGTACATTTTACATATATGGTATCCTTTCATACAA
1 ATTATGCATTGTT-TACATTTTACATATATGACATCCATTCATACAA
* *
987275 CTTATGCACTGTTTA
1 ATTATGCATTGTTTA
987290 TATCAAAATG
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
45 12 0.23
46 10 0.19
47 30 0.58
ACGTcount: A:0.28, C:0.17, G:0.09, T:0.46
Consensus pattern (46 bp):
ATTATGCATTGTTTACATTTTACATATATGACATCCATTCATACAA
Found at i:987280 original size:47 final size:44
Alignment explanation
Indices: 987170--987289 Score: 123
Period size: 47 Copynumber: 2.6 Consensus size: 44
987160 CATTTGGGGA
* * * * *
987170 ATCCTTTCATGCCATTATGTATTGTTTACATTTTCCTTTATGAC
1 ATCCTTTCATACAATTATGCATTGTTTACATTTTCATATATGAC
* **
987214 ATCCATTCATACAAATTATGCATTGTTGTACATTTTACATATATGGT
1 ATCCTTTCATAC-AATTATGCATTGTT-TACATTTT-CATATATGAC
*
987261 ATCCTTTCATACAACTTATGCACTGTTTA
1 ATCCTTTCATACAA-TTATGCATTGTTTA
987290 TATCAAAATG
Statistics
Matches: 62, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
44 10 0.16
45 12 0.19
46 12 0.19
47 28 0.45
ACGTcount: A:0.27, C:0.19, G:0.09, T:0.45
Consensus pattern (44 bp):
ATCCTTTCATACAATTATGCATTGTTTACATTTTCATATATGAC
Found at i:987491 original size:87 final size:87
Alignment explanation
Indices: 987319--987534 Score: 282
Period size: 87 Copynumber: 2.6 Consensus size: 87
987309 TCCTTTAGTC
* * * * * *
987319 TTTTACCCAAAGACATTTAGCCTTTCATCTAACTTGAATGATTGACA-C-----TTTTCTGCCAA
1 TTTTACTCAAAGATATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTTTTTTTCTGCCAA
*
987378 ATACACAGCTATGCCATTAATA
66 ATACACAGCTAGGCCATTAATA
* * *
987400 TTTTACTCAAGGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTTTTTTTTTGCCAA
1 TTTTACTCAAAGATATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTTTTTTTCTGCCAA
* *
987465 ATCCACAGCTAGGCCATTAATC
66 ATACACAGCTAGGCCATTAATA
987487 TTTTACTCAAAGATATTTAACCTTTCATCTAACTGGCATAATTGACAC
1 TTTTACTCAAAGATATTTAACCTTTCATCTAACTGGCATAATTGACAC
987535 ATTTCTGCCA
Statistics
Matches: 115, Mismatches: 14, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
81 39 0.34
82 1 0.01
87 75 0.65
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.37
Consensus pattern (87 bp):
TTTTACTCAAAGATATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTTTTTTTCTGCCAA
ATACACAGCTAGGCCATTAATA
Found at i:987887 original size:13 final size:12
Alignment explanation
Indices: 987869--987902 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
987859 CATACTCTTC
987869 TTTCTTATACATT
1 TTTCTT-TACATT
*
987882 TTTCTTTTCATT
1 TTTCTTTACATT
987894 TTTCTTTAC
1 TTTCTTTAC
987903 TAATTATTCG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 13 0.68
13 6 0.32
ACGTcount: A:0.15, C:0.18, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTCTTTACATT
Found at i:987978 original size:26 final size:24
Alignment explanation
Indices: 987947--988077 Score: 80
Period size: 26 Copynumber: 5.5 Consensus size: 24
987937 ATGCCTTAAT
987947 GCATCCTTTCATGAATTTCATTTATG
1 GCATCCTTTCATG-A-TTCATTTATG
* *
987973 GCATCCTTTCATG---CCTTAAT-
1 GCATCCTTTCATGATTCATTTATG
*
987993 GCATCCTTCCATGCAATTCATTTATG
1 GCATCCTTTCATG--ATTCATTTATG
** *
988019 AAATCCTTTCATG--TC-TTAAT-
1 GCATCCTTTCATGATTCATTTATG
*
988039 GCATCCTTTCAAGCATTTCATTTATG
1 GCATCCTTTCATG-A-TTCATTTATG
*
988065 TCATCCTTTCATG
1 GCATCCTTTCATG
988078 CCTTGATGTA
Statistics
Matches: 78, Mismatches: 15, Indels: 24
0.67 0.13 0.21
Matches are distributed among these distances:
20 22 0.28
21 9 0.12
22 2 0.03
24 2 0.03
25 9 0.12
26 34 0.44
ACGTcount: A:0.23, C:0.24, G:0.10, T:0.43
Consensus pattern (24 bp):
GCATCCTTTCATGATTCATTTATG
Found at i:987982 original size:46 final size:46
Alignment explanation
Indices: 987915--988151 Score: 291
Period size: 46 Copynumber: 5.2 Consensus size: 46
987905 ATTATTCGTT
*
987915 AATTTCATTTATAACA-CCTTTCATGCCTTAATGCATCCTTTCATG
1 AATTTCATTTATGACATCCTTTCATGCCTTAATGCATCCTTTCATG
* *
987960 AATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTCCATG
1 AATTTCATTTATGACATCCTTTCATGCCTTAATGCATCCTTTCATG
* * *
988006 CAA-TTCATTTATGAAATCCTTTCATGTCTTAATGCATCCTTTCAAG
1 -AATTTCATTTATGACATCCTTTCATGCCTTAATGCATCCTTTCATG
* * * * *
988052 CATTTCATTTATGTCATCCTTTCATGCCTTGATGTATCATTTCATG
1 AATTTCATTTATGACATCCTTTCATGCCTTAATGCATCCTTTCATG
* * * *
988098 CATTTCATTTATGGA-TTCCTTTCATTCCTTAATGCATCATTTCATG
1 AATTTCATTTAT-GACATCCTTTCATGCCTTAATGCATCCTTTCATG
*
988144 CATTTCAT
1 AATTTCAT
988152 GCCTTAATGC
Statistics
Matches: 167, Mismatches: 21, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
45 15 0.09
46 149 0.89
47 3 0.02
ACGTcount: A:0.24, C:0.23, G:0.09, T:0.44
Consensus pattern (46 bp):
AATTTCATTTATGACATCCTTTCATGCCTTAATGCATCCTTTCATG
Found at i:988044 original size:92 final size:92
Alignment explanation
Indices: 987918--988151 Score: 321
Period size: 92 Copynumber: 2.6 Consensus size: 92
987908 ATTCGTTAAT
* *
987918 TTCATTTAT-AACA-CCTTTCATGCCTTAATGCATCCTTTCATGAATTTCATTTATGGCATCCTT
1 TTCATTTATGAA-ATCCTTTCATGTCTTAATGCATCCTTTCATGCATTTCATTTATGGCATCCTT
*
987981 TCATGCCTTAATGCATCCTTCCATGCAA
65 TCATGCCTTAATGCATCATTCCATGCAA
* *
988009 TTCATTTATGAAATCCTTTCATGTCTTAATGCATCCTTTCAAGCATTTCATTTATGTCATCCTTT
1 TTCATTTATGAAATCCTTTCATGTCTTAATGCATCCTTTCATGCATTTCATTTATGGCATCCTTT
* * * *
988074 CATGCCTTGATGTATCATTTCATGCAT
66 CATGCCTTAATGCATCATTCCATGCAA
* * *
988101 TTCATTTATGGATTCCTTTCAT-TCCTTAATGCATCATTTCATGCATTTCAT
1 TTCATTTATGAAATCCTTTCATGT-CTTAATGCATCCTTTCATGCATTTCAT
988152 GCCTTAATGC
Statistics
Matches: 127, Mismatches: 13, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
91 11 0.09
92 116 0.91
ACGTcount: A:0.23, C:0.24, G:0.09, T:0.44
Consensus pattern (92 bp):
TTCATTTATGAAATCCTTTCATGTCTTAATGCATCCTTTCATGCATTTCATTTATGGCATCCTTT
CATGCCTTAATGCATCATTCCATGCAA
Found at i:988151 original size:29 final size:29
Alignment explanation
Indices: 988117--988177 Score: 104
Period size: 29 Copynumber: 2.1 Consensus size: 29
988107 TATGGATTCC
*
988117 TTTCATTCCTTAATGCATCATTTCATGCA
1 TTTCATGCCTTAATGCATCATTTCATGCA
*
988146 TTTCATGCCTTAATGCATCTTTTCATGCA
1 TTTCATGCCTTAATGCATCATTTCATGCA
988175 TTT
1 TTT
988178 TATTTATGGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.21, C:0.23, G:0.08, T:0.48
Consensus pattern (29 bp):
TTTCATGCCTTAATGCATCATTTCATGCA
Found at i:991586 original size:14 final size:14
Alignment explanation
Indices: 991567--991594 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
991557 CGTGTTATTT
991567 ATAATAATATAATA
1 ATAATAATATAATA
991581 ATAATAATATAATA
1 ATAATAATATAATA
991595 TCACAATTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
ATAATAATATAATA
Found at i:993665 original size:21 final size:21
Alignment explanation
Indices: 993641--993729 Score: 142
Period size: 21 Copynumber: 4.2 Consensus size: 21
993631 GAGTAATATT
*
993641 GATACTGTTTTAATTAGTATC
1 GATACTGTTTGAATTAGTATC
* *
993662 GATACTATTTGAATTAGTGTC
1 GATACTGTTTGAATTAGTATC
*
993683 GATACTGTTTGAATTAGTATA
1 GATACTGTTTGAATTAGTATC
993704 GATACTGTTTGAATTAGTATC
1 GATACTGTTTGAATTAGTATC
993725 GATAC
1 GATAC
993730 CGACAAGGTA
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 61 1.00
ACGTcount: A:0.30, C:0.09, G:0.18, T:0.43
Consensus pattern (21 bp):
GATACTGTTTGAATTAGTATC
Found at i:993983 original size:97 final size:96
Alignment explanation
Indices: 993737--993960 Score: 235
Period size: 96 Copynumber: 2.3 Consensus size: 96
993727 TACCGACAAG
* * * ** * *
993737 GTAGTATCGATACCATGGTAAGGGTATCGACA-CTAGTTTACATCGAATCT--AAAATGGGTATT
1 GTAGTATCGATACCATAGTAAGGGTATCGATACCAAG-AAACA-CGAAT-TAAAAAATTGGTATC
*** *
993799 GATATTGGAAGGGGTATCGGTATCATAATATATA
63 GATACCAGAAGGGGTATCGGTACCATAATATATA
993833 GTAGTATCGATACCATAGTAAGGGTATCGATACCAAGAAACATCGAATTAAAAAATTGGTATCGA
1 GTAGTATCGATACCATAGTAAGGGTATCGATACCAAGAAACA-CGAATTAAAAAATTGGTATCGA
*
993898 TACCAGAAGGGGTATCGGTACCAT-A-CTATA
65 TACCAGAAGGGGTATCGGTACCATAATATATA
* *
993928 GTAGTATTGATACCAT-GATAGGGGTATCGATAC
1 GTAGTATCGATACCATAG-TAAGGGTATCGATAC
993961 TATAGAGCCA
Statistics
Matches: 110, Mismatches: 14, Indels: 9
0.83 0.11 0.07
Matches are distributed among these distances:
94 1 0.01
95 34 0.31
96 40 0.36
97 35 0.32
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.28
Consensus pattern (96 bp):
GTAGTATCGATACCATAGTAAGGGTATCGATACCAAGAAACACGAATTAAAAAATTGGTATCGAT
ACCAGAAGGGGTATCGGTACCATAATATATA
Found at i:994390 original size:57 final size:57
Alignment explanation
Indices: 994302--994672 Score: 553
Period size: 57 Copynumber: 6.5 Consensus size: 57
994292 GTGCAAAATA
* *
994302 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGTGTTTCGTACGTTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGATAAAATGT
* * * *
994359 TAAGAAATCATACTAACTGTATGAATTTCAGATAAGGTGTTTCGTTCGATAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGATAAAATGT
* * *
994416 TAAGAAATCAAACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTATGATAGAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGATAAAATGT
* *
994473 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCATTTCGTACGCTAAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGAT-AAAATGT
* * * * * *
994531 TAAGAAATTATACTAAATGTATAAATTTCAGATATGGCATTTCGTACGCTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGATAAAATGT
* * *
994588 TAAGAAAACATACTAAGTGTATGAATTTCATATAGGGCGTTTCGTACGCTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGATAAAATGT
994645 TAAGAAATCATACTAAGTGTATGAATTT
1 TAAGAAATCATACTAAGTGTATGAATTT
994673 TTGTATTGGA
Statistics
Matches: 285, Mismatches: 28, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
57 233 0.82
58 52 0.18
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.33
Consensus pattern (57 bp):
TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGATAAAATGT
Found at i:994592 original size:172 final size:171
Alignment explanation
Indices: 994302--994672 Score: 580
Period size: 172 Copynumber: 2.2 Consensus size: 171
994292 GTGCAAAATA
** *
994302 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGTGTTTCGTACGTTAAAATGTTAAGAAAT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCATTTCGTACGTAAAAATGTTAAGAAAT
* * ** * *
994367 CATACTAACTGTATGAATTTCAGATAAGGTGTTTCGTTCGATAAAATGTTAAGAAATCAAACTAA
66 CATACTAAATGTATAAATTTCAGATAAGGCATTTCGTACGATAAAATGTTAAGAAAACAAACTAA
* *
994432 GTGTATGAATTTCAGATAGGGCGTTTCGTATGATAGAATGT
131 GTGTATGAATTTCAGATAGGGCGTTTCGTACGATAAAATGT
994473 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCATTTCGTACGCTAAAAATGTTAAGAAA
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCATTTCGTACG-TAAAAATGTTAAGAAA
* * * *
994538 TTATACTAAATGTATAAATTTCAGATATGGCATTTCGTACGCTAAAATGTTAAGAAAACATACTA
65 TCATACTAAATGTATAAATTTCAGATAAGGCATTTCGTACGATAAAATGTTAAGAAAACAAACTA
* *
994603 AGTGTATGAATTTCATATAGGGCGTTTCGTACGCTAAAATGT
130 AGTGTATGAATTTCAGATAGGGCGTTTCGTACGATAAAATGT
994645 TAAGAAATCATACTAAGTGTATGAATTT
1 TAAGAAATCATACTAAGTGTATGAATTT
994673 TTGTATTGGA
Statistics
Matches: 182, Mismatches: 17, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
171 46 0.25
172 136 0.75
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.33
Consensus pattern (171 bp):
TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCATTTCGTACGTAAAAATGTTAAGAAAT
CATACTAAATGTATAAATTTCAGATAAGGCATTTCGTACGATAAAATGTTAAGAAAACAAACTAA
GTGTATGAATTTCAGATAGGGCGTTTCGTACGATAAAATGT
Found at i:994715 original size:115 final size:112
Alignment explanation
Indices: 994302--994731 Score: 491
Period size: 114 Copynumber: 3.8 Consensus size: 112
994292 GTGCAAAATA
* ** * *
994302 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGTGTTTCGTACGTTAAAATGTTAAGAAAT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGAT-TGGCATTTCGTATGCT-AAATGTTAAGAAAT
* * * * *
994367 CATACTAACTGTATGAATTTCAGATAAGGTGTTTCGTTCGATAAAATGT
64 CATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
* * * *
994416 TAAGAAATCAAACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTATGATAGAATGTTAAGAAAT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGAT-TGGCATTTCGTATGCTA-AATGTTAAGAAAT
*
994481 CATACTAAGTGTATGAATTTCAGATAGGGCATTTCGTACGCTAAAAATGT
64 CATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCT-AAAATGT
* * * * *
994531 TAAGAAATTATACTAAATGTATAAATTTCAGATATGGCATTTCGTACGCTAAAATGTTAAGAAAA
1 TAAGAAATCATACTAAGTGTATGAATTTCAGAT-TGGCATTTCGTATGCT-AAATGTTAAGAAAT
*
994596 CATACTAAGTGTATGAATTTCATATAGGGCGTTTCGTACGCTAAAATGT
64 CATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
** * ** * ** *
994645 TAAGAAATCATACTAAGTGTATGAATTTTTGTATTGGACATTTTGGGTGCTAAAGGACAATAAAT
1 TAAGAAATCATACTAAGTGTATGAATTTCAG-ATTGG-CATTTCGTATGCTAAATGTTAAGAAAT
*
994710 GCATACTATGTGTATGAATTTC
64 -CATACTAAGTGTATGAATTTC
994732 CGTATGGGAA
Statistics
Matches: 274, Mismatches: 36, Indels: 11
0.85 0.11 0.03
Matches are distributed among these distances:
113 1 0.00
114 140 0.51
115 132 0.48
116 1 0.00
ACGTcount: A:0.37, C:0.10, G:0.19, T:0.34
Consensus pattern (112 bp):
TAAGAAATCATACTAAGTGTATGAATTTCAGATTGGCATTTCGTATGCTAAATGTTAAGAAATCA
TACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
Found at i:995433 original size:45 final size:46
Alignment explanation
Indices: 995348--995445 Score: 126
Period size: 45 Copynumber: 2.2 Consensus size: 46
995338 AAGGAATTTT
* * * * *
995348 AATGAAATGTATGATAGTTGTATCAAAGGCATGAAAGGATGCCATA
1 AATGAAAGGTATAATAGTTGTATAAAAGACATGAAAGGATGACATA
*
995394 AATGAAAGGTATAATAG-TGTATAAAAGACATGTAAGGATGACATA
1 AATGAAAGGTATAATAGTTGTATAAAAGACATGAAAGGATGACATA
*
995439 ATTGAAA
1 AATGAAA
995446 TGCATATAGG
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
45 30 0.67
46 15 0.33
ACGTcount: A:0.46, C:0.06, G:0.22, T:0.26
Consensus pattern (46 bp):
AATGAAAGGTATAATAGTTGTATAAAAGACATGAAAGGATGACATA
Found at i:998266 original size:116 final size:116
Alignment explanation
Indices: 998140--998372 Score: 466
Period size: 116 Copynumber: 2.0 Consensus size: 116
998130 TATCGATACC
998140 AGTTTACATCAAATCTAAAATGGGTATCAATACCGGAAAGGGTGTCGGTACCATAATATATAGTA
1 AGTTTACATCAAATCTAAAATGGGTATCAATACCGGAAAGGGTGTCGGTACCATAATATATAGTA
998205 GTATCGATAGCATTGTAAGGGTATCGATACCAAGAAACATCGAATCAAAAA
66 GTATCGATAGCATTGTAAGGGTATCGATACCAAGAAACATCGAATCAAAAA
998256 AGTTTACATCAAATCTAAAATGGGTATCAATACCGGAAAGGGTGTCGGTACCATAATATATAGTA
1 AGTTTACATCAAATCTAAAATGGGTATCAATACCGGAAAGGGTGTCGGTACCATAATATATAGTA
998321 GTATCGATAGCATTGTAAGGGTATCGATACCAAGAAACATCGAATCAAAAA
66 GTATCGATAGCATTGTAAGGGTATCGATACCAAGAAACATCGAATCAAAAA
998372 A
1 A
998373 TTGGTATCCA
Statistics
Matches: 117, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
116 117 1.00
ACGTcount: A:0.41, C:0.15, G:0.20, T:0.25
Consensus pattern (116 bp):
AGTTTACATCAAATCTAAAATGGGTATCAATACCGGAAAGGGTGTCGGTACCATAATATATAGTA
GTATCGATAGCATTGTAAGGGTATCGATACCAAGAAACATCGAATCAAAAA
Found at i:998393 original size:96 final size:96
Alignment explanation
Indices: 998272--998446 Score: 228
Period size: 96 Copynumber: 1.8 Consensus size: 96
998262 CATCAAATCT
* * * *
998272 AAAATGGGTATCAATACCGGAAA-GGGTGTCGGTACCATAATATATAGTAGTATCGATAGCATTG
1 AAAATGGGTATCAATACCAGAAAGGGGTATCGGTACCAT-A-ATATAGTAATATCGATACCA-TG
998336 -TAAGGGTATCGATACCAAGAAACATCGAATCAA
63 ATAAGGGTATCGATACCAAGAAACATCGAATCAA
* * * *
998369 AAAATTGGTATCCATACCAGAAGGGGGTATCGGTACCATAGTATAGTAATATCGATACCATGATA
1 AAAATGGGTATCAATACCAGAAAGGGGTATCGGTACCATAATATAGTAATATCGATACCATGATA
*
998434 GGGGTATCGATAC
66 AGGGTATCGATAC
998447 TATAGCAGAA
Statistics
Matches: 67, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
95 2 0.03
96 31 0.46
97 20 0.30
98 14 0.21
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.25
Consensus pattern (96 bp):
AAAATGGGTATCAATACCAGAAAGGGGTATCGGTACCATAATATAGTAATATCGATACCATGATA
AGGGTATCGATACCAAGAAACATCGAATCAA
Found at i:998795 original size:57 final size:57
Alignment explanation
Indices: 998731--999324 Score: 859
Period size: 57 Copynumber: 10.4 Consensus size: 57
998721 CAAAATATAG
** *
998731 GAAATCATACTAAGTGTATGAATTTTGGATAGGGCGTTTCGTATGCTAAAATGTTAA
1 GAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGTTAA
* * *
998788 GAAATCATACTAAGTGTATGAATTTCAGATAGGGCTTTTCATACGATAAAATGTTAA
1 GAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGTTAA
* *
998845 GAAATTATACTAAGTGTATGAATTTCA-AGTAGGGCGTTTCGTATGCTAAAATGTTAA
1 GAAATCATACTAAGTGTATGAATTTCAGA-TAGGGCGTTTCGTACGCTAAAATGTTAA
*
998902 GAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTTGTACGCTAAAATGTTAA
1 GAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGTTAA
* *** * *
998959 GAAATCTTA-TAAGTGTATGAATTTCAGATAGGATATTTCGTATGATAAAATGTTAA
1 GAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGTTAA
* * * *
999015 GAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCATACACTAAAATATTCA
1 GAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGTTAA
** **
999072 GAAATCATACTAAGTGTATGAATTTCAGATAGGGCAATTCGTATTCTAAAATGTTAA
1 GAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGTTAA
* ** *
999129 GAAATCATACTAAGTGTATGAATTTCAAATAGGGCGTTTCGTATTCTAAAATATTAA
1 GAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGTTAA
* * * *
999186 GAAATCATTCTAAGTGTATGAATTTCAGATAGGGTGTTTCGTACACTAAAATATTAA
1 GAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGTTAA
***
999243 GAAATCATACTAAGTGTATGAATTTCAGATAGGATATTTCGTACGCTAAAATGTTAA
1 GAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGTTAA
999300 GAAATCATACTAAGTGTATGAATTT
1 GAAATCATACTAAGTGTATGAATTT
999325 TTGTATTGGA
Statistics
Matches: 482, Mismatches: 52, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
56 50 0.10
57 431 0.89
58 1 0.00
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.34
Consensus pattern (57 bp):
GAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGTTAA
Found at i:1000082 original size:45 final size:45
Alignment explanation
Indices: 999992--1000088 Score: 122
Period size: 45 Copynumber: 2.2 Consensus size: 45
999982 AAGGAATTTT
* * * **
999992 AATGAAATGTATAATAGTGTATCAAAGGCATGAAAAGATGCCATA
1 AATGAAAGGTATAATAGTGTATAAAAGACATGAAAAGATAACATA
* *
1000037 AATGAAAGGTATAATAGTGTATAAAAGACATGTAAGGATAACATA
1 AATGAAAGGTATAATAGTGTATAAAAGACATGAAAAGATAACATA
*
1000082 ATTGAAA
1 AATGAAA
1000089 TGCATATAGG
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.49, C:0.06, G:0.20, T:0.25
Consensus pattern (45 bp):
AATGAAAGGTATAATAGTGTATAAAAGACATGAAAAGATAACATA
Found at i:1001287 original size:16 final size:16
Alignment explanation
Indices: 1001266--1001296 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1001256 TTTTTACATG
1001266 AACCAAAATAATATTA
1 AACCAAAATAATATTA
*
1001282 AACCAAAATTATATT
1 AACCAAAATAATATT
1001297 TAATAAATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.29
Consensus pattern (16 bp):
AACCAAAATAATATTA
Found at i:1004791 original size:24 final size:26
Alignment explanation
Indices: 1004721--1004793 Score: 107
Period size: 26 Copynumber: 2.9 Consensus size: 26
1004711 AAGTGCTAAG
*
1004721 ACACA-AAGGTCGTGTCCACCATAAT
1 ACACATAAGGTCGTGCCCACCATAAT
*
1004746 ACACATAAGGTCATGCCCACCATAAT
1 ACACATAAGGTCGTGCCCACCATAAT
1004772 ACACATAA-G-CGTGCCCACCATA
1 ACACATAAGGTCGTGCCCACCATA
1004794 TGCACTTAGT
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
24 12 0.27
25 6 0.14
26 26 0.59
ACGTcount: A:0.37, C:0.32, G:0.14, T:0.18
Consensus pattern (26 bp):
ACACATAAGGTCGTGCCCACCATAAT
Found at i:1008014 original size:3 final size:3
Alignment explanation
Indices: 1007999--1008101 Score: 83
Period size: 3 Copynumber: 35.7 Consensus size: 3
1007989 TCCGAGTTGG
* * * *
1007999 TAT TAT TAA TAT TAT TAT TAT TAT TGT TA- TAT TAT TAC TA- TAT TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
1008045 TA- TAT TAT TAT TAT TA- TAT TAA TAT CAT TA- TATT TAT ATAT TAA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT -TAT TAT
1008089 TAT TAT TA- TAT TA
1 TAT TAT TAT TAT TA
1008102 CAAATATTAC
Statistics
Matches: 80, Mismatches: 12, Indels: 16
0.74 0.11 0.15
Matches are distributed among these distances:
2 12 0.15
3 63 0.79
4 5 0.06
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:1008033 original size:11 final size:11
Alignment explanation
Indices: 1007999--1008101 Score: 81
Period size: 11 Copynumber: 9.2 Consensus size: 11
1007989 TCCGAGTTGG
1007999 TATTATTA-A-
1 TATTATTATAT
1008008 TATTATTATTAT
1 TATTATTA-TAT
*
1008020 TATTGTTATAT
1 TATTATTATAT
*
1008031 TATTACTATAT
1 TATTATTATAT
*
1008042 TACTA-TATTAT
1 TATTATTA-TAT
1008053 TATTATTATAT
1 TATTATTATAT
1008064 TAATATCATTATATT
1 T-AT-T-ATTATA-T
1008079 TATATATTA-A-
1 TAT-TATTATAT
1008089 TATTATTATAT
1 TATTATTATAT
1008100 TA
1 TA
1008102 CAAATATTAC
Statistics
Matches: 78, Mismatches: 5, Indels: 20
0.76 0.05 0.19
Matches are distributed among these distances:
9 13 0.17
10 6 0.08
11 30 0.38
12 12 0.15
13 5 0.06
14 10 0.13
15 2 0.03
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.58
Consensus pattern (11 bp):
TATTATTATAT
Found at i:1008077 original size:36 final size:33
Alignment explanation
Indices: 1008007--1008101 Score: 113
Period size: 36 Copynumber: 2.8 Consensus size: 33
1007997 GGTATTATTA
*
1008007 ATATTAT-TATTATTATTGTTATATT-ATTACT
1 ATATTATATATTATTATTATTATATTAATTACT
*
1008038 ATATTACTATATTATTATTATTATATTAATATCATT
1 ATATTA-TATATTATTATTATTATATTAAT-T-ACT
*
1008074 ATATTTATATATTAATATTATTATATTA
1 ATA-TTATATATTATTATTATTATATTA
1008102 CAAATATTAC
Statistics
Matches: 55, Mismatches: 3, Indels: 7
0.85 0.05 0.11
Matches are distributed among these distances:
31 6 0.11
32 1 0.02
33 17 0.31
34 2 0.04
35 1 0.02
36 25 0.45
37 3 0.05
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.58
Consensus pattern (33 bp):
ATATTATATATTATTATTATTATATTAATTACT
Found at i:1015884 original size:20 final size:20
Alignment explanation
Indices: 1015859--1015919 Score: 86
Period size: 20 Copynumber: 3.0 Consensus size: 20
1015849 CTGTATTCTG
1015859 CAAGGATGATAGATTCTCTA
1 CAAGGATGATAGATTCTCTA
*
1015879 CAAGGATGATAGATTCTTTCTT
1 CAAGGATGATAGATTC--TCTA
*
1015901 CAAAGATGATAGATTCTCT
1 CAAGGATGATAGATTCTCT
1015920 TTTCAAAGAC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
20 19 0.51
22 18 0.49
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Consensus pattern (20 bp):
CAAGGATGATAGATTCTCTA
Found at i:1015911 original size:22 final size:22
Alignment explanation
Indices: 1015854--1015928 Score: 84
Period size: 22 Copynumber: 3.5 Consensus size: 22
1015844 TATATCTGTA
* *
1015854 TTCTGCAAGGATGATAGATTC-
1 TTCTTCAAAGATGATAGATTCT
* *
1015875 -TCTACAAGGATGATAGATTCT
1 TTCTTCAAAGATGATAGATTCT
1015896 TTCTTCAAAGATGATAGATTCT
1 TTCTTCAAAGATGATAGATTCT
1015918 CTT-TTCAAAGA
1 -TTCTTCAAAGA
1015929 CGAAAGCTTT
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
20 19 0.40
22 27 0.56
23 2 0.04
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (22 bp):
TTCTTCAAAGATGATAGATTCT
Found at i:1016745 original size:118 final size:119
Alignment explanation
Indices: 1016526--1016759 Score: 353
Period size: 118 Copynumber: 2.0 Consensus size: 119
1016516 AAGTCGTTGG
* * * ** * * *
1016526 GTCATCTGTAAAACCTCAGGGTAGGATTTTTTTGCATGAAAATGAGAAAGTGATTTTCTAAGTTT
1 GTCATATGTAAAACCTCAGGGTAAGATGTTTTCACATGAAAATAAGAAAGTCATTTTCAAAGTTT
* * *
1016591 CTCATTTAATGTTCTAGAAAATTAAATCCTCTGGGTGATTTGTAAAGCCTCCGA
66 CTCATTTAATATTCTAGAAAATTAAATCCTCCGGGTGATTTGTAAAACCTCCGA
*
1016645 GTCATATGTAAAACCTTAGGGTAAGATGTTTTCACATGAAAATAAGAAAG-CATTTTCAAAGTTT
1 GTCATATGTAAAACCTCAGGGTAAGATGTTTTCACATGAAAATAAGAAAGTCATTTTCAAAGTTT
1016709 CTCATTTAATATTCTAGAAAATTAAATCCTCCGGGTGATTTGTAAAACCTC
66 CTCATTTAATATTCTAGAAAATTAAATCCTCCGGGTGATTTGTAAAACCTC
1016760 AGGGTAGAAT
Statistics
Matches: 103, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
118 60 0.58
119 43 0.42
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (119 bp):
GTCATATGTAAAACCTCAGGGTAAGATGTTTTCACATGAAAATAAGAAAGTCATTTTCAAAGTTT
CTCATTTAATATTCTAGAAAATTAAATCCTCCGGGTGATTTGTAAAACCTCCGA
Found at i:1016924 original size:3 final size:3
Alignment explanation
Indices: 1016909--1017007 Score: 64
Period size: 3 Copynumber: 33.7 Consensus size: 3
1016899 TCCGAGTTGG
* * * * *
1016909 TAT TAT TAA TAT TAT TAC AAT TAT TA- TAT TAT TAC TA- TAT TAC TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
1016954 TAT TAT TAT TAT ATAT TAA TAT CAT TA- TATT TAT ATAT TAA TAT TAT
1 TAT TAT TAT TAT -TAT TAT TAT TAT TAT TA-T TAT -TAT TAT TAT TAT
1017001 TA- TAT TA
1 TAT TAT TA
1017008 CAAATATTAC
Statistics
Matches: 74, Mismatches: 14, Indels: 16
0.71 0.13 0.15
Matches are distributed among these distances:
2 10 0.14
3 56 0.76
4 8 0.11
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (3 bp):
TAT
Found at i:1016941 original size:8 final size:8
Alignment explanation
Indices: 1016909--1017007 Score: 70
Period size: 8 Copynumber: 12.6 Consensus size: 8
1016899 TCCGAGTTGG
1016909 TATTATTAA
1 TATTATT-A
1016918 TATTATTA
1 TATTATTA
*
1016926 CAATTATTA
1 -TATTATTA
1016935 TATTATTA
1 TATTATTA
1016943 CTA-TATTA
1 -TATTATTA
1016951 CTA-TA-T-
1 -TATTATTA
1016957 TATTATTA
1 TATTATTA
1016965 TA-TATTAA
1 TATTATT-A
*
1016973 TATCATTA
1 TATTATTA
1016981 TA-T-TTA
1 TATTATTA
1016987 TA-TATTAA
1 TATTATT-A
1016995 TATTATTA
1 TATTATTA
1017003 TATTA
1 TATTA
1017008 CAAATATTAC
Statistics
Matches: 76, Mismatches: 4, Indels: 21
0.75 0.04 0.21
Matches are distributed among these distances:
5 2 0.03
6 8 0.11
7 8 0.11
8 35 0.46
9 23 0.30
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (8 bp):
TATTATTA
Found at i:1016947 original size:11 final size:10
Alignment explanation
Indices: 1016909--1017005 Score: 75
Period size: 9 Copynumber: 10.1 Consensus size: 10
1016899 TCCGAGTTGG
1016909 TATTATTA-A
1 TATTATTATA
*
1016918 TATTATTACA
1 TATTATTATA
1016928 -ATTA-T-TA
1 TATTATTATA
1016935 TATTATTACTA
1 TATTATTA-TA
*
1016946 TATTACTATA
1 TATTATTATA
1016956 TTATTATTATA
1 -TATTATTATA
1016967 TATTA--ATA
1 TATTATTATA
*
1016975 TCATTA-TATT
1 T-ATTATTATA
1016985 TATATATTA-A
1 TAT-TATTATA
1016995 TATTATTATA
1 TATTATTATA
1017005 T
1 T
1017006 TACAAATATT
Statistics
Matches: 72, Mismatches: 5, Indels: 21
0.73 0.05 0.21
Matches are distributed among these distances:
7 1 0.01
8 9 0.12
9 24 0.33
10 18 0.25
11 20 0.28
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (10 bp):
TATTATTATA
Found at i:1016957 original size:16 final size:14
Alignment explanation
Indices: 1016930--1017007 Score: 81
Period size: 14 Copynumber: 5.4 Consensus size: 14
1016920 TTATTACAAT
1016930 TATTATATTATTACTA
1 TATTATA-TATTA-TA
1016946 TATTACTATATTAT-
1 TATTA-TATATTATA
1016960 TATTATATATTAATA
1 TATTATATATT-ATA
1016975 TCATTATAT-TTATA
1 T-ATTATATATTATA
1016989 TATTA-ATATTATTA
1 TATTATATATTA-TA
1017003 TATTA
1 TATTA
1017008 CAAATATTAC
Statistics
Matches: 56, Mismatches: 0, Indels: 14
0.80 0.00 0.20
Matches are distributed among these distances:
12 2 0.04
13 13 0.23
14 18 0.32
15 4 0.07
16 17 0.30
17 2 0.04
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (14 bp):
TATTATATATTATA
Found at i:1016963 original size:22 final size:20
Alignment explanation
Indices: 1016909--1017003 Score: 85
Period size: 22 Copynumber: 4.8 Consensus size: 20
1016899 TCCGAGTTGG
* *
1016909 TATTAT-TAATATTATTACA
1 TATTATATATTATTATTATA
1016928 -ATTAT-TA-TATTATTACTA
1 TATTATATATTATTATTA-TA
1016946 TATTACTATATTATTATTATA
1 TATTA-TATATTATTATTATA
1016967 TATTAATATCATTA-TATTTATA
1 TATT-ATAT-ATTATTA-TTATA
1016989 TATTA-ATATTATTAT
1 TATTATATATTATTAT
1017004 ATTACAAATA
Statistics
Matches: 66, Mismatches: 1, Indels: 18
0.78 0.01 0.21
Matches are distributed among these distances:
17 8 0.12
18 8 0.12
19 9 0.14
20 5 0.08
21 14 0.21
22 22 0.33
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (20 bp):
TATTATATATTATTATTATA
Found at i:1017004 original size:22 final size:23
Alignment explanation
Indices: 1016928--1017005 Score: 99
Period size: 22 Copynumber: 3.4 Consensus size: 23
1016918 TATTATTACA
*
1016928 ATTATTATATTATTACTATATTACT
1 ATTATTATA-TATTA-TATATTAAT
1016953 A-TATTAT-TATTATATATTAAT
1 ATTATTATATATTATATATTAAT
*
1016974 ATCATTATAT-TTATATATTAAT
1 ATTATTATATATTATATATTAAT
1016996 ATTATTATAT
1 ATTATTATAT
1017006 TACAAATATT
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
21 9 0.19
22 31 0.65
23 1 0.02
24 6 0.12
25 1 0.02
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (23 bp):
ATTATTATATATTATATATTAAT
Found at i:1033842 original size:21 final size:20
Alignment explanation
Indices: 1033790--1033886 Score: 68
Period size: 21 Copynumber: 4.7 Consensus size: 20
1033780 GATTATGACT
*
1033790 ATCGCAATGCGATTTTCTAAT
1 ATCGCAATGCGATTTTC-AAA
* ** *
1033811 TTCGCGTTGCGATTTTCCCAA
1 ATCGCAATGCGATTTT-CAAA
**
1033832 ATCGCAATGCGAATTTGGAAA
1 ATCGCAATGCG-ATTTTCAAA
**
1033853 ATCGCAATGCGAATTTAGAAA
1 ATCGCAATGCG-ATTTTCAAA
*
1033874 ATCGCAACGCGAT
1 ATCGCAATGCGAT
1033887 ACTGACTATC
Statistics
Matches: 61, Mismatches: 13, Indels: 5
0.77 0.16 0.06
Matches are distributed among these distances:
20 2 0.03
21 54 0.89
22 5 0.08
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.29
Consensus pattern (20 bp):
ATCGCAATGCGATTTTCAAA
Found at i:1033902 original size:20 final size:20
Alignment explanation
Indices: 1033874--1033981 Score: 92
Period size: 20 Copynumber: 5.3 Consensus size: 20
1033864 AATTTAGAAA
1033874 ATCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * *
1033894 ATCGTAACGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
1033915 ATCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * *
1033935 TTCGCAACTCGATACTTAAT
1 ATCGCAACGCGATACTGACT
* **
1033955 TTCGCAACGTAATACTGACT
1 ATCGCAACGCGATACTGACT
*
1033975 TTCGCAA
1 ATCGCAA
1033982 AAAGATAATA
Statistics
Matches: 70, Mismatches: 15, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
19 2 0.03
20 52 0.74
21 14 0.20
22 2 0.03
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:1033920 original size:41 final size:41
Alignment explanation
Indices: 1033871--1034008 Score: 134
Period size: 41 Copynumber: 3.4 Consensus size: 41
1033861 GCGAATTTAG
*
1033871 AAAATCGCAACGCGATACTGACTATCGTAACGCGATAATAC
1 AAAATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* * * *
1033912 AAAATCGCAACGCGATACTGACTTTCGCAACTCGATACT-T
1 AAAATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
** ** * ***
1033952 AATTTCGCAACGTAATACTGACTTTCGCAAAAAGATAATAC
1 AAAATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* *
1033993 ATAATCGCAATGCGAT
1 AAAATCGCAACGCGAT
1034009 TTTCAAAGCG
Statistics
Matches: 76, Mismatches: 20, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
40 31 0.41
41 45 0.59
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.24
Consensus pattern (41 bp):
AAAATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
Found at i:1034697 original size:25 final size:24
Alignment explanation
Indices: 1034643--1034697 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
1034633 TGTTTATTAT
* *
1034643 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
1034667 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
1034693 TGTTT
1 TGTTT
1034698 ATTGTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Done.