Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008162.1 Hibiscus syriacus cultivar Beakdansim tig00110733_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: 3688897
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 16
Found at i:1973596 original size:29 final size:28
Alignment explanation
Indices: 1973539--1973596 Score: 64
Period size: 29 Copynumber: 2.0 Consensus size: 28
1973529 TTTTTAGTAA
**
1973539 TTTATTTAATTATTTTAATTTTTTAATAT
1 TTTATTTAATTATTTT-ATTTTGCAATAT
1973568 TTTATTTAATTAATTTT-TTTTGCAGATAT
1 TTTATTTAATT-ATTTTATTTTGCA-ATAT
1973597 AAAATGGAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
28 5 0.20
29 15 0.60
30 5 0.20
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.66
Consensus pattern (28 bp):
TTTATTTAATTATTTTATTTTGCAATAT
Found at i:1975560 original size:281 final size:281
Alignment explanation
Indices: 1975057--1975618 Score: 1124
Period size: 281 Copynumber: 2.0 Consensus size: 281
1975047 TTATTACGAG
1975057 TGGTTCAACAGTAACGGGAAATCGTTTATGCTTCTCGAGGATGCACGAGGGCATGCCTTTCCGTG
1 TGGTTCAACAGTAACGGGAAATCGTTTATGCTTCTCGAGGATGCACGAGGGCATGCCTTTCCGTG
1975122 ACGTCGACAGAGACGTTCACCGACACAGCACCATCGTCCCCCGACTCATGGATGGAGAGCAGGTG
66 ACGTCGACAGAGACGTTCACCGACACAGCACCATCGTCCCCCGACTCATGGATGGAGAGCAGGTG
1975187 CTTCCGGTCCATCCTCAGCTGCACCAGCAGGACCTTCATATCAGCCACCGTATCCAGCGACTTAT
131 CTTCCGGTCCATCCTCAGCTGCACCAGCAGGACCTTCATATCAGCCACCGTATCCAGCGACTTAT
1975252 ATATCGCAGCCATTTATGATGCTGCCACTGCCTTTCCATTACCAGATGCCGTCGCCGTCTCCTTC
196 ATATCGCAGCCATTTATGATGCTGCCACTGCCTTTCCATTACCAGATGCCGTCGCCGTCTCCTTC
1975317 ACCTTGTTTTATGACCCCCGC
261 ACCTTGTTTTATGACCCCCGC
1975338 TGGTTCAACAGTAACGGGAAATCGTTTATGCTTCTCGAGGATGCACGAGGGCATGCCTTTCCGTG
1 TGGTTCAACAGTAACGGGAAATCGTTTATGCTTCTCGAGGATGCACGAGGGCATGCCTTTCCGTG
1975403 ACGTCGACAGAGACGTTCACCGACACAGCACCATCGTCCCCCGACTCATGGATGGAGAGCAGGTG
66 ACGTCGACAGAGACGTTCACCGACACAGCACCATCGTCCCCCGACTCATGGATGGAGAGCAGGTG
1975468 CTTCCGGTCCATCCTCAGCTGCACCAGCAGGACCTTCATATCAGCCACCGTATCCAGCGACTTAT
131 CTTCCGGTCCATCCTCAGCTGCACCAGCAGGACCTTCATATCAGCCACCGTATCCAGCGACTTAT
1975533 ATATCGCAGCCATTTATGATGCTGCCACTGCCTTTCCATTACCAGATGCCGTCGCCGTCTCCTTC
196 ATATCGCAGCCATTTATGATGCTGCCACTGCCTTTCCATTACCAGATGCCGTCGCCGTCTCCTTC
1975598 ACCTTGTTTTATGACCCCCGC
261 ACCTTGTTTTATGACCCCCGC
1975619 CACCGTCACA
Statistics
Matches: 281, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
281 281 1.00
ACGTcount: A:0.21, C:0.32, G:0.22, T:0.25
Consensus pattern (281 bp):
TGGTTCAACAGTAACGGGAAATCGTTTATGCTTCTCGAGGATGCACGAGGGCATGCCTTTCCGTG
ACGTCGACAGAGACGTTCACCGACACAGCACCATCGTCCCCCGACTCATGGATGGAGAGCAGGTG
CTTCCGGTCCATCCTCAGCTGCACCAGCAGGACCTTCATATCAGCCACCGTATCCAGCGACTTAT
ATATCGCAGCCATTTATGATGCTGCCACTGCCTTTCCATTACCAGATGCCGTCGCCGTCTCCTTC
ACCTTGTTTTATGACCCCCGC
Found at i:1976121 original size:13 final size:13
Alignment explanation
Indices: 1976080--1976123 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
1976070 TATTTAGTAC
*
1976080 TTTTTATTGTAGT
1 TTTTTATTGTAAT
* * *
1976093 TGTTTATTGGACT
1 TTTTTATTGTAAT
1976106 TTTTTATTGTAAT
1 TTTTTATTGTAAT
1976119 TTTTT
1 TTTTT
1976124 TATTATTTAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.16, C:0.02, G:0.14, T:0.68
Consensus pattern (13 bp):
TTTTTATTGTAAT
Found at i:1983788 original size:221 final size:220
Alignment explanation
Indices: 1983385--1983824 Score: 871
Period size: 221 Copynumber: 2.0 Consensus size: 220
1983375 GAAGGTAGCT
1983385 CTCAAGTCACGCCCAAGGCTGCTGCCATGTTTGGCCTTCATCCTATGCATAAGGATGCACCACAA
1 CTCAAGTCACGCCCAAGGCTGCTGCCATGTTTGGCCTTCATCCTATGCATAAGGATGCACCACAA
1983450 GCATCCTAGAGAGCCATGTGCATCCCTGTGACCAGCCAAGACATGTGCTAGGCGTGTGACTCCAT
66 GCATCCTAGAGAGCCATGTGCATCCCTGTGACCAGCCAAGACATGTGCTAGGCGTGTGACTCCAT
1983515 TTAGGCGCCAAGATGAATGGCCACCTATCCATTCGGCCAAGCATCATTTCCTCTCCAATTTGGCA
131 TTAGGCGCCAAGATGAATGGCCACCTATCCATTCGGCCAAGCATCATTTCCTCTCCAATTTGGCA
1983580 CCAACTTGAAAGGCTTCAAGTGTTG
196 CCAACTTGAAAGGCTTCAAGTGTTG
1983605 CTCAAGTCACGCCCAAGGCTGCTGCCATGTTTGGCCTTCATCCTATGCATAAGGATGCACCACAA
1 CTCAAGTCACGCCCAAGGCTGCTGCCATGTTTGGCCTTCATCCTATGCATAAGGATGCACCACAA
1983670 GCATCCTAGAGAGCCATGTGCATCCCTTGTGACCAGCCAAGACATGTGCTAGGCGTGTGACTCCA
66 GCATCCTAGAGAGCCATGTGCATCCC-TGTGACCAGCCAAGACATGTGCTAGGCGTGTGACTCCA
1983735 TTTAGGCGCCAAGATGAATGGCCACCTATCCATTCGGCCAAGCATCATTTCCTCTCCAATTTGGC
130 TTTAGGCGCCAAGATGAATGGCCACCTATCCATTCGGCCAAGCATCATTTCCTCTCCAATTTGGC
1983800 ACCAACTTGAAAGGCTTCAAGTGTT
195 ACCAACTTGAAAGGCTTCAAGTGTT
1983825 ATTCGGCCAT
Statistics
Matches: 219, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
220 91 0.42
221 128 0.58
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.24
Consensus pattern (220 bp):
CTCAAGTCACGCCCAAGGCTGCTGCCATGTTTGGCCTTCATCCTATGCATAAGGATGCACCACAA
GCATCCTAGAGAGCCATGTGCATCCCTGTGACCAGCCAAGACATGTGCTAGGCGTGTGACTCCAT
TTAGGCGCCAAGATGAATGGCCACCTATCCATTCGGCCAAGCATCATTTCCTCTCCAATTTGGCA
CCAACTTGAAAGGCTTCAAGTGTTG
Found at i:1990914 original size:40 final size:39
Alignment explanation
Indices: 1990863--1990945 Score: 141
Period size: 40 Copynumber: 2.1 Consensus size: 39
1990853 CTTCCAACCA
*
1990863 AACA-CCATAATGTAGGTTTCCCAGAACCATACACCCACC
1 AACACCCATAATGTAGGTTCCCCAGAACCATACA-CCACC
1990902 AACACCCATAATGTAGGTTCCCCAGAACCATACACCACC
1 AACACCCATAATGTAGGTTCCCCAGAACCATACACCACC
1990941 AACAC
1 AACAC
1990946 ACCAGTAAGG
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
39 14 0.33
40 28 0.67
ACGTcount: A:0.37, C:0.37, G:0.10, T:0.16
Consensus pattern (39 bp):
AACACCCATAATGTAGGTTCCCCAGAACCATACACCACC
Found at i:1991092 original size:24 final size:24
Alignment explanation
Indices: 1991062--1991176 Score: 151
Period size: 24 Copynumber: 4.8 Consensus size: 24
1991052 AAACATAATT
*
1991062 CATGTCAAGTATCATATCAAAATC
1 CATGTCAAGTATCATATCAGAATC
* *
1991086 CAGGTCAAGTAACATATCAGAATC
1 CATGTCAAGTATCATATCAGAATC
* *
1991110 CAAGTCAAGTATCAGATCAGAATC
1 CATGTCAAGTATCATATCAGAATC
1991134 CATGTC-AGATATCATATCAGAATC
1 CATGTCAAG-TATCATATCAGAATC
* *
1991158 CATATCAAGTATCAGATCA
1 CATGTCAAGTATCATATCA
1991177 AAATTCAAAT
Statistics
Matches: 79, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
23 2 0.03
24 75 0.95
25 2 0.03
ACGTcount: A:0.41, C:0.21, G:0.13, T:0.25
Consensus pattern (24 bp):
CATGTCAAGTATCATATCAGAATC
Found at i:1993714 original size:13 final size:13
Alignment explanation
Indices: 1993696--1993725 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1993686 GCCGGTCAAC
1993696 GGTCAACAGGTCG
1 GGTCAACAGGTCG
*
1993709 GGTCAACGGGTCG
1 GGTCAACAGGTCG
1993722 GGTC
1 GGTC
1993726 GGGTTGTGAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.23, G:0.43, T:0.17
Consensus pattern (13 bp):
GGTCAACAGGTCG
Found at i:1998836 original size:54 final size:54
Alignment explanation
Indices: 1998754--1999263 Score: 749
Period size: 54 Copynumber: 9.5 Consensus size: 54
1998744 TTATGAATTG
* * * * * *
1998754 TGAATTACGTAGGGTGCATACATAGTGCCAACACGAAAATTCATAAACTAATTA
1 TGAATTTCTTAGGTTGCACACATAGTGCCAATACGAAAATTCATAAACTTATTA
1998808 TGAATTTCTTAGGTTGCACACATAGTGCCAATACGAAAATTCATAAACTTATTA
1 TGAATTTCTTAGGTTGCACACATAGTGCCAATACGAAAATTCATAAACTTATTA
* *
1998862 TGAATTTCTTAGGTTGCACACATAATGCCAATACGGAAATTCAT--ACTTATTA
1 TGAATTTCTTAGGTTGCACACATAGTGCCAATACGAAAATTCATAAACTTATTA
* *
1998914 TGAACTTCTTAGGTTGCACACATAGTTCCAATACGAAAATTCATAAACTTATTA
1 TGAATTTCTTAGGTTGCACACATAGTGCCAATACGAAAATTCATAAACTTATTA
* *
1998968 TGAATTTCTTAGGTTGCACACATAGTGCCAATACGGAAATTTATAAACTTATTA
1 TGAATTTCTTAGGTTGCACACATAGTGCCAATACGAAAATTCATAAACTTATTA
* * * * *
1999022 TGAATTTCTTAGGTTGCACGCATAGTACCAATACGGAAATTTATAAGCTTATTA
1 TGAATTTCTTAGGTTGCACACATAGTGCCAATACGAAAATTCATAAACTTATTA
*
1999076 TGAATTTCTTAGGTTGTACACATAGTGCCAATACGAAAATTCATAAACTTATTA
1 TGAATTTCTTAGGTTGCACACATAGTGCCAATACGAAAATTCATAAACTTATTA
* *
1999130 TGAATTTCTTAGGTTACACACATAGTGCCAATACGGAAATTCATAAACTTATTA
1 TGAATTTCTTAGGTTGCACACATAGTGCCAATACGAAAATTCATAAACTTATTA
*
1999184 TGAATTTCTTAGGTTGCACACA-AGTGTCAATAC-AGAAATTCATAAACTTATTA
1 TGAATTTCTTAGGTTGCACACATAGTGCCAATACGA-AAATTCATAAACTTATTA
* * ** *
1999237 TAAATTTCGTAAATTACACACATAGTG
1 TGAATTTCTTAGGTTGCACACATAGTG
1999264 GCCATTCGGT
Statistics
Matches: 416, Mismatches: 36, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
52 48 0.12
53 45 0.11
54 323 0.78
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (54 bp):
TGAATTTCTTAGGTTGCACACATAGTGCCAATACGAAAATTCATAAACTTATTA
Found at i:1999156 original size:162 final size:161
Alignment explanation
Indices: 1998708--1999263 Score: 783
Period size: 160 Copynumber: 3.4 Consensus size: 161
1998698 AGTGGTTTTC
* * * * * *
1998708 GCACACATAGTGCCGATACGGTAATTCACTAACTCATTATGAATTGTGAATTACGTAGGGTGCAT
1 GCACACATAGTGCCAATACGGAAATTCA-TAACTTATTATGAA---T---TT-CTTAGGTTGCAC
* *
1998773 ACATAGTGCCAACACGAAAATTCATAAACTAATTATGAATTTCTTAGGTTGCACACATAGTGCCA
58 ACATAGTGCCAATACGAAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTGCCA
*
1998838 ATACGAAAATTCATAAACTTATTATGAATTTCTTAGGTT
123 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGGTT
* * *
1998877 GCACACATAATGCCAATACGGAAATTCAT-ACTTATTATGAACTTCTTAGGTTGCACACATAGTT
1 GCACACATAGTGCCAATACGGAAATTCATAACTTATTATGAATTTCTTAGGTTGCACACATAGTG
1998941 CCAATACGAAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTGCCAATACGGAA
66 CCAATACGAAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTGCCAATACGGAA
*
1999006 ATTTATAAACTTATTATGAATTTCTTAGGTT
131 ATTCATAAACTTATTATGAATTTCTTAGGTT
* * * *
1999037 GCACGCATAGTACCAATACGGAAATTTATAAGCTTATTATGAATTTCTTAGGTTGTACACATAGT
1 GCACACATAGTGCCAATACGGAAATTCATAA-CTTATTATGAATTTCTTAGGTTGCACACATAGT
*
1999102 GCCAATACGAAAATTCATAAACTTATTATGAATTTCTTAGGTTACACACATAGTGCCAATACGGA
65 GCCAATACGAAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTGCCAATACGGA
1999167 AATTCATAAACTTATTATGAATTTCTTAGGTT
130 AATTCATAAACTTATTATGAATTTCTTAGGTT
* * * * ** *
1999199 GCACACA-AGTGTCAATACAGAAATTCATAAACTTATTATAAATTTCGTAAATTACACACATAGT
1 GCACACATAGTGCCAATACGGAAATTCAT-AACTTATTATGAATTTCTTAGGTTGCACACATAGT
1999263 G
65 G
1999264 GCCATTCGGT
Statistics
Matches: 351, Mismatches: 33, Indels: 14
0.88 0.08 0.04
Matches are distributed among these distances:
160 133 0.38
161 48 0.14
162 133 0.38
167 11 0.03
168 1 0.00
169 25 0.07
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.33
Consensus pattern (161 bp):
GCACACATAGTGCCAATACGGAAATTCATAACTTATTATGAATTTCTTAGGTTGCACACATAGTG
CCAATACGAAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTGCCAATACGGAA
ATTCATAAACTTATTATGAATTTCTTAGGTT
Found at i:2005647 original size:54 final size:53
Alignment explanation
Indices: 2005637--2006083 Score: 531
Period size: 54 Copynumber: 8.3 Consensus size: 53
2005627 TTATGTGGGG
*
2005637 TGCACACATAGTGCCAATACGGAAATTCATAAACTAATTATGAATTTCTTAGGT
1 TGCACACATAGTGCCAATACGAAAATTCATAAACTAATTATGAATTT-TTAGGT
* *
2005691 TGCACACATAGTGCCAATACAAAAATTCATAAACTTATTATGAATTTTTTAGGT
1 TGCACACATAGTGCCAATACGAAAATTCATAAACTAATTATGAA-TTTTTAGGT
*
2005745 TGCACACATAGTGCCAATGCGAAAATTCATAAACCT-ATTATGAATTTCTTAGGT
1 TGCACACATAGTGCCAATACGAAAATTCATAAA-CTAATTATGAATTT-TTAGGT
* * * * *
2005799 TTCACACATAGTGCTAATACGGAAATTCATAAACTTATTATGAACTTCTTAGGT
1 TGCACACATAGTGCCAATACGAAAATTCATAAACTAATTATGAA-TTTTTAGGT
* * **
2005853 TGCACACATAGTGCCAATACGGAAATTCATAAACTTATTATGAACTTCCTAGGT
1 TGCACACATAGTGCCAATACGAAAATTCATAAACTAATTATGAA-TTTTTAGGT
* * * *
2005907 TGTACACATAGTGTCAATATGAAAATTCATAAACTTATTATGAATTTCTTAGGT
1 TGCACACATAGTGCCAATACGAAAATTCATAAACTAATTATGAATTT-TTAGGT
* * * * *
2005961 TGCACACATACTACCAATAC-AGAAATTGATAAACTTATTATGAATTTCTTAGAT
1 TGCACACATAGTGCCAATACGA-AAATTCATAAACTAATTATGAATTT-TTAGGT
* ** *
2006015 TGCACACATAGTGCCAATAC-AGAAATTCATAAACTTATTAAAAAATTCTTAGGT
1 TGCACACATAGTGCCAATACGA-AAATTCATAAACTAATT-ATGAATTTTTAGGT
*
2006069 TGAACACATAGTGCC
1 TGCACACATAGTGCC
2006084 CATTCGGTAT
Statistics
Matches: 351, Mismatches: 34, Indels: 16
0.88 0.08 0.04
Matches are distributed among these distances:
53 8 0.02
54 331 0.94
55 12 0.03
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.33
Consensus pattern (53 bp):
TGCACACATAGTGCCAATACGAAAATTCATAAACTAATTATGAATTTTTAGGT
Found at i:2005773 original size:108 final size:108
Alignment explanation
Indices: 2005606--2006083 Score: 645
Period size: 108 Copynumber: 4.4 Consensus size: 108
2005596 TCGATACGCT
* * * * * *
2005606 AATTCACAAACTCATTATGAATTAT-GTGGGGTGCACACATAGTGCCAATACGGAAATTCATAAA
1 AATTCATAAACTTATTATGAATT-TCTTAGGTTGCACACATAGTGCCAATACGAAAATTCATAAA
*
2005670 CTAATTATGAATTTCTTAGGTTGCACACATAGTGCCAATACAAA
65 CTTATTATGAATTTCTTAGGTTGCACACATAGTGCCAATACAAA
* *
2005714 AATTCATAAACTTATTATGAATTTTTTAGGTTGCACACATAGTGCCAATGCGAAAATTCATAAAC
1 AATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTGCCAATACGAAAATTCATAAAC
* * * **
2005779 CTATTATGAATTTCTTAGGTTTCACACATAGTGCTAATACGGA
66 TTATTATGAATTTCTTAGGTTGCACACATAGTGCCAATACAAA
* *
2005822 AATTCATAAACTTATTATGAACTTCTTAGGTTGCACACATAGTGCCAATACGGAAATTCATAAAC
1 AATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTGCCAATACGAAAATTCATAAAC
* * * * **
2005887 TTATTATGAACTTCCTAGGTTGTACACATAGTGTCAATATGAA
66 TTATTATGAATTTCTTAGGTTGCACACATAGTGCCAATACAAA
* * *
2005930 AATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATACTACCAATAC-AGAAATTGATAAA
1 AATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTGCCAATACGA-AAATTCATAAA
* *
2005994 CTTATTATGAATTTCTTAGATTGCACACATAGTGCCAATACAGA
65 CTTATTATGAATTTCTTAGGTTGCACACATAGTGCCAATACAAA
** * *
2006038 AATTCATAAACTTATTAAAAAATTCTTAGGTTGAACACATAGTGCC
1 AATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTGCC
2006084 CATTCGGTAT
Statistics
Matches: 323, Mismatches: 45, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
107 1 0.00
108 322 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (108 bp):
AATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTGCCAATACGAAAATTCATAAAC
TTATTATGAATTTCTTAGGTTGCACACATAGTGCCAATACAAA
Found at i:2005851 original size:162 final size:162
Alignment explanation
Indices: 2005637--2006083 Score: 687
Period size: 162 Copynumber: 2.8 Consensus size: 162
2005627 TTATGTGGGG
*
2005637 TGCACACATAGTGCCAATACGGAAATTCATAAACTAATTATGAATTTCTTAGGTTGCACACATAG
1 TGCACACATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAG
* * * * *
2005702 TGCCAATACAAAAATTCATAAACTTATTATGAATTTTTTAGGTTGCACACATAGTGCCAATGCGA
66 TGCCAATACAGAAATTCATAAACTTATTATGAAATTCTTAGGTTGAACACATAGTGCCAATACGA
2005767 AAATTCATAAACCTATTATGAATTTCTTAGGT
131 AAATTCATAAACCTATTATGAATTTCTTAGGT
* * *
2005799 TTCACACATAGTGCTAATACGGAAATTCATAAACTTATTATGAACTTCTTAGGTTGCACACATAG
1 TGCACACATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAG
* * * * * *
2005864 TGCCAATACGGAAATTCATAAACTTATTATGAACTTCCTAGGTTGTACACATAGTGTCAATATGA
66 TGCCAATACAGAAATTCATAAACTTATTATGAAATTCTTAGGTTGAACACATAGTGCCAATACGA
*
2005929 AAATTCATAAACTTATTATGAATTTCTTAGGT
131 AAATTCATAAACCTATTATGAATTTCTTAGGT
* * * * *
2005961 TGCACACATACTACCAATACAGAAATTGATAAACTTATTATGAATTTCTTAGATTGCACACATAG
1 TGCACACATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAG
**
2006026 TGCCAATACAGAAATTCATAAACTTATTAAAAAATTCTTAGGTTGAACACATAGTGCC
66 TGCCAATACAGAAATTCATAAACTTATTATGAAATTCTTAGGTTGAACACATAGTGCC
2006084 CATTCGGTAT
Statistics
Matches: 256, Mismatches: 29, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
162 256 1.00
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.33
Consensus pattern (162 bp):
TGCACACATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAG
TGCCAATACAGAAATTCATAAACTTATTATGAAATTCTTAGGTTGAACACATAGTGCCAATACGA
AAATTCATAAACCTATTATGAATTTCTTAGGT
Found at i:2009630 original size:23 final size:23
Alignment explanation
Indices: 2009600--2009653 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
2009590 TATGTAAAAA
2009600 AACATAAACAAACACAATAAATG
1 AACATAAACAAACACAATAAATG
* *
2009623 AACGTAAACAAACACAATCAATG
1 AACATAAACAAACACAATAAATG
2009646 AACATAAA
1 AACATAAA
2009654 TGAACGTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.63, C:0.19, G:0.06, T:0.13
Consensus pattern (23 bp):
AACATAAACAAACACAATAAATG
Found at i:2009636 original size:33 final size:32
Alignment explanation
Indices: 2009593--2009697 Score: 104
Period size: 33 Copynumber: 3.2 Consensus size: 32
2009583 ACGAACATAT
* *
2009593 GTAAAAAAACATAAACAA-ACACAATAAATGAAC
1 GTAAACAAACACAAACAAGA-AC-ATAAATGAAC
*
2009626 GTAAACAAACACAATCAATGAACATAAATGAAC
1 GTAAACAAACACAAACAA-GAACATAAATGAAC
* * *
2009659 GTAAACAAACACAATCAATTAACATAAACGAAC
1 GTAAACAAACACAAACAA-GAACATAAATGAAC
*
2009692 ATAAAC
1 GTAAAC
2009698 CACAACAACA
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
33 61 0.95
34 2 0.03
35 1 0.02
ACGTcount: A:0.61, C:0.18, G:0.07, T:0.14
Consensus pattern (32 bp):
GTAAACAAACACAAACAAGAACATAAATGAAC
Found at i:2009890 original size:14 final size:14
Alignment explanation
Indices: 2009873--2009974 Score: 85
Period size: 14 Copynumber: 7.9 Consensus size: 14
2009863 GATTGGGCTA
*
2009873 AACATAAACGAACG
1 AACATAAACGAATG
2009887 AACAT--A--AATG
1 AACATAAACGAATG
*
2009897 AACATAAACGGATG
1 AACATAAACGAATG
*
2009911 AACATAAATGAATG
1 AACATAAACGAATG
2009925 AACATAAAC--A--
1 AACATAAACGAATG
* *
2009935 AACATAAATGAACG
1 AACATAAACGAATG
* *
2009949 AACATAAACAAATA
1 AACATAAACGAATG
2009963 AACATAAACGAA
1 AACATAAACGAA
2009975 CATATTATCG
Statistics
Matches: 69, Mismatches: 11, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
10 16 0.23
12 4 0.06
14 49 0.71
ACGTcount: A:0.61, C:0.15, G:0.11, T:0.14
Consensus pattern (14 bp):
AACATAAACGAATG
Found at i:2009905 original size:24 final size:24
Alignment explanation
Indices: 2009873--2009922 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
2009863 GATTGGGCTA
2009873 AACATAAACGAACGAACATAAATG
1 AACATAAACGAACGAACATAAATG
* *
2009897 AACATAAACGGATGAACATAAATG
1 AACATAAACGAACGAACATAAATG
2009921 AA
1 AA
2009923 TGAACATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.58, C:0.14, G:0.14, T:0.14
Consensus pattern (24 bp):
AACATAAACGAACGAACATAAATG
Found at i:2009928 original size:38 final size:38
Alignment explanation
Indices: 2009873--2009978 Score: 131
Period size: 38 Copynumber: 2.8 Consensus size: 38
2009863 GATTGGGCTA
* * * *
2009873 AACATAAACGAACGAACATAAATGAACATAAACGGATG
1 AACATAAACGAATGAACATAAACGAACATAAACGAACG
* * *
2009911 AACATAAATGAATGAACATAAACAAACATAAATGAACG
1 AACATAAACGAATGAACATAAACGAACATAAACGAACG
* *
2009949 AACATAAACAAATAAACATAAACGAACATA
1 AACATAAACGAATGAACATAAACGAACATA
2009979 TTATCGAACG
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
38 57 1.00
ACGTcount: A:0.60, C:0.15, G:0.10, T:0.14
Consensus pattern (38 bp):
AACATAAACGAATGAACATAAACGAACATAAACGAACG
Found at i:2009938 original size:24 final size:24
Alignment explanation
Indices: 2009893--2009960 Score: 91
Period size: 24 Copynumber: 2.7 Consensus size: 24
2009883 AACGAACATA
2009893 AATGAACATAAACGGATGAACATAAATG
1 AATGAACATAAAC--A--AACATAAATG
2009921 AATGAACATAAACAAACATAAATG
1 AATGAACATAAACAAACATAAATG
*
2009945 AACGAACATAAACAAA
1 AATGAACATAAACAAA
2009961 TAAACATAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
24 25 0.64
26 1 0.03
28 13 0.33
ACGTcount: A:0.60, C:0.13, G:0.12, T:0.15
Consensus pattern (24 bp):
AATGAACATAAACAAACATAAATG
Found at i:2009972 original size:24 final size:24
Alignment explanation
Indices: 2009911--2009978 Score: 84
Period size: 24 Copynumber: 2.8 Consensus size: 24
2009901 TAAACGGATG
* *
2009911 AACATAAATGAATGAACATAAACA
1 AACATAAATAAACGAACATAAACA
*
2009935 AACATAAATGAACGAACATAAACA
1 AACATAAATAAACGAACATAAACA
*
2009959 AATA-AACATAAACGAACATA
1 AACATAA-ATAAACGAACATA
2009979 TTATCGAACG
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
23 2 0.05
24 38 0.95
ACGTcount: A:0.63, C:0.15, G:0.07, T:0.15
Consensus pattern (24 bp):
AACATAAATAAACGAACATAAACA
Found at i:2011435 original size:20 final size:20
Alignment explanation
Indices: 2011410--2011457 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
2011400 ACAATAACAA
*
2011410 TATCGATAATGTTTGTGCAG
1 TATCGATAATGTTCGTGCAG
2011430 TATCGATAATGTTCGTGCAG
1 TATCGATAATGTTCGTGCAG
2011450 TATCGATA
1 TATCGATA
2011458 CTGTAAGGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.27, C:0.12, G:0.23, T:0.38
Consensus pattern (20 bp):
TATCGATAATGTTCGTGCAG
Found at i:2013758 original size:12 final size:12
Alignment explanation
Indices: 2013733--2013802 Score: 56
Period size: 12 Copynumber: 5.8 Consensus size: 12
2013723 ATGGAGATAT
* *
2013733 CAGAAATCAAAA
1 CAGAATTCAGAA
2013745 CAGAATTCAGAA
1 CAGAATTCAGAA
*
2013757 CAG-ATATCATAA
1 CAGAAT-TCAGAA
*
2013769 CAGAATCCA-AA
1 CAGAATTCAGAA
2013780 TCAGAAATT-AGAA
1 -CAG-AATTCAGAA
2013793 CAGAATTCAG
1 CAGAATTCAG
2013803 GTCATATATC
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
11 8 0.17
12 32 0.68
13 7 0.15
ACGTcount: A:0.53, C:0.17, G:0.13, T:0.17
Consensus pattern (12 bp):
CAGAATTCAGAA
Found at i:2013837 original size:24 final size:24
Alignment explanation
Indices: 2013732--2013839 Score: 92
Period size: 24 Copynumber: 4.5 Consensus size: 24
2013722 AATGGAGATA
*
2013732 TCAGAAATCAAAACAGAATTC-AG
1 TCAGAAATCAGAACAGAATTCAAG
* * * * *
2013755 AACAGATATCATAACAGAATCCAAA
1 -TCAGAAATCAGAACAGAATTCAAG
* *
2013780 TCAGAAATTAGAACAGAATTCAGG
1 TCAGAAATCAGAACAGAATTCAAG
* * *
2013804 TCATATATCAGAACATAATTCAAG
1 TCAGAAATCAGAACAGAATTCAAG
*
2013828 TCGGAAATCAGA
1 TCAGAAATCAGA
2013840 TAAAATATTT
Statistics
Matches: 63, Mismatches: 20, Indels: 2
0.74 0.24 0.02
Matches are distributed among these distances:
24 62 0.98
25 1 0.02
ACGTcount: A:0.49, C:0.17, G:0.14, T:0.20
Consensus pattern (24 bp):
TCAGAAATCAGAACAGAATTCAAG
Found at i:2020087 original size:23 final size:23
Alignment explanation
Indices: 2020040--2020089 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
2020030 AATAACATAT
**
2020040 TAGGTAGAACTTATATAATGTAA
1 TAGGTAGAACTTATATAATAAAA
**
2020063 TAGGTAGCGCTTATATAATAAAA
1 TAGGTAGAACTTATATAATAAAA
2020086 TAGG
1 TAGG
2020090 CATTTAACCG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.42, C:0.06, G:0.20, T:0.32
Consensus pattern (23 bp):
TAGGTAGAACTTATATAATAAAA
Found at i:2020149 original size:87 final size:87
Alignment explanation
Indices: 2020003--2020165 Score: 299
Period size: 87 Copynumber: 1.9 Consensus size: 87
2019993 AATGTTATGT
2020003 CATTTAACCAGAAATATTATCAAGTACAATAACATATTAGGTAGAACTTATATAATGTAATAGGT
1 CATTTAACCAGAAATATTATCAAGTACAATAACATATTAGGTAGAACTTATATAATGTAATAGGT
2020068 AGCGCTTATATAATAAAATAGG
66 AGCGCTTATATAATAAAATAGG
* **
2020090 CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCTCTTATATAATGTAATAGGT
1 CATTTAACCAGAAATATTATCAAGTACAATAACATATTAGGTAGAACTTATATAATGTAATAGGT
2020155 AGCGCTTATAT
66 AGCGCTTATAT
2020166 TGACCTATTT
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 73 1.00
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.33
Consensus pattern (87 bp):
CATTTAACCAGAAATATTATCAAGTACAATAACATATTAGGTAGAACTTATATAATGTAATAGGT
AGCGCTTATATAATAAAATAGG
Found at i:2020797 original size:200 final size:198
Alignment explanation
Indices: 2020160--2020890 Score: 732
Period size: 200 Copynumber: 3.6 Consensus size: 198
2020150 TAGGTAGCGC
* * * * *
2020160 TTATATTGACCTATTTTCAAAGT-AAACCGGTATATTTATACCGGTAACATTGCAAATTTACCTA
1 TTATGTTGACCTATTTTCTAA-TAAAACCGGTATATTTATACCAGTTACATTGTAAATTTACCTA
* * * * *
2020224 TTATATTATTATTATCGGTTTCGATGTTTTTTAGATCGATACAATTT--TAAATGTATCGACACT
65 TTACATTATAATTATCGGTTTTGATGTTTTTGAGATCGATAC-TTTTAATAAATGTATCGACACT
* * * *
2020287 TTATGCTTGCACCTCG-TTGGGCATTCATATTTCATTCTGGAAAAAAGTATCGACACAAACTAAC
129 TTATGCGTGCACCTCGTTTGTGCATTC--A--TC---CTGGACAAAAGTATCGACACAAATTAAC
2020351 AAAGTGTAGATACA
187 -AAGTGTA-ATACA
* * * ** * *
2020365 TGAT-TTAGACCTATTCTCTCATAAAACTAGTATATTTATACCGGTTACATTGAAAATTTACCTA
1 TTATGTT-GACCTATTTTCTAATAAAACCGGTATATTTATACCAGTTACATTGTAAATTTACCTA
* * * * *
2020429 TTACATTATACTTAT-GGGTTTGATGTTTTCGAGATTGATACTTTTTATAAATGTATCGACACTT
65 TTACATTATAATTATCGGTTTTGATGTTTTTGAGATCGATACTTTTAATAAATGTATCGACACTT
* * *
2020493 TATG-GTTGCACC-C-TTTTTGGCATTCATTCTGGACCAAAAGTATCAACACAAATTTAACAAGT
130 TATGCG-TGCACCTCGTTTGT-GCATTCATCCTGGA-CAAAAGTATCGACACAAA-TTAACAAGT
* *
2020555 GTTGATACT
191 G-TAATACA
* * * * * * *
2020564 TTATGATGACATATTTTATCATAAAATCGGTATATTTATATCAGTTACATTGTAAATTTACCTAA
1 TTATGTTGACCTATTTTCTAATAAAACCGGTATATTTATACCAGTTACATTGTAAATTTACCTAT
*
2020629 TACATTATAATTATCGGTTTTGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTT
66 TACATTATAATTATCGGTTTTGATGTTTTTGAGATCGATACTTTTAATAAATGTATCGACACTTT
* *
2020694 ATGCGTGCACCTCGTTTGTGCATTCATCCTGGACAATAAGTATCGGCACAAATTCCACAAGTGTC
131 ATGCGTGCACCTCGTTTGTGCATTCATCCTGGACAA-AAGTATCGACACAAATT-AACAAGTGT-
2020759 AATACA
193 AATACA
* * *
2020765 TTATGTTGACCTATTTTCTAAT-TAACCGGTATATTTATA-TAGGTTACATTGTTAATTTACCTA
1 TTATGTTGACCTATTTTCTAATAAAACCGGTATATTTATACCA-GTTACATTGTAAATTTACCTA
* * * *
2020828 TTACATTATAATTATTGGTTTTGATGTTTTTTG-GGTTGATACTTGTAGA-AAATGTATCGACAC
65 TTACATTATAATTATCGGTTTTGATG-TTTTTGAGATCGATACTTTTA-ATAAATGTATCGACAC
2020891 ATATTTAGGT
Statistics
Matches: 441, Mismatches: 64, Indels: 47
0.80 0.12 0.09
Matches are distributed among these distances:
198 5 0.01
199 90 0.20
200 150 0.34
201 65 0.15
202 4 0.01
203 4 0.01
204 27 0.06
205 96 0.22
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.40
Consensus pattern (198 bp):
TTATGTTGACCTATTTTCTAATAAAACCGGTATATTTATACCAGTTACATTGTAAATTTACCTAT
TACATTATAATTATCGGTTTTGATGTTTTTGAGATCGATACTTTTAATAAATGTATCGACACTTT
ATGCGTGCACCTCGTTTGTGCATTCATCCTGGACAAAAGTATCGACACAAATTAACAAGTGTAAT
ACA
Found at i:2023350 original size:17 final size:17
Alignment explanation
Indices: 2023325--2023358 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2023315 TAACTTTTCT
* *
2023325 CATCTCATACATAATTA
1 CATCACATACAAAATTA
2023342 CATCACATACAAAATTA
1 CATCACATACAAAATTA
2023359 TAAATCGTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (17 bp):
CATCACATACAAAATTA
Found at i:2025244 original size:199 final size:199
Alignment explanation
Indices: 2024891--2025254 Score: 563
Period size: 199 Copynumber: 1.8 Consensus size: 199
2024881 GCGTTATTTA
** *
2024891 AAAGTATTGACACAAAATAAAAAAGTGTCGCTACATGTTGTAGACCTATTCTCATATAAAACCGA
1 AAAGTATCAACACAAAATAAAAAAGTGTCGATACATGTTGTAGACCTATTCTCATATAAAACCGA
2024956 TATATCTATACCGTTTATATTAAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTT
66 TATATCTATACCGTTTATATTAAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTT
* *
2025021 GGGATCGACATTTTTTGAAAATGTATCGACACTTTGTGTGTTCACCCTTTTTGGCATCCATTTGG
131 GGGATCGACATCTTTTAAAAATGTATCGACACTTTGTGTGTTCACCCTTTTTGGCATCCATTTGG
2025086 ACAT
196 ACAT
* * * *
2025090 AAAGTATCAACACAATATTAAAATGTGTCGATACATGTTGTAGACCTATTCTC-TCATAAAACTG
1 AAAGTATCAACACAAAATAAAAAAGTGTCGATACATGTTGTAGACCTATTCTCAT-ATAAAACCG
* * * *
2025154 GTATATTTATACCAG-TTATATTACAAAATTACCTATTACATTATAATTATGGGTTTTGATGTTT
65 ATATATCTATACC-GTTTATATTAAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTT
2025218 TTGGGATCGACA-CTTTTAATAAATGTATCGACACTTT
129 TTGGGATCGACATCTTTTAA-AAATGTATCGACACTTT
2025255 TAATAAATCT
Statistics
Matches: 149, Mismatches: 13, Indels: 6
0.89 0.08 0.04
Matches are distributed among these distances:
198 6 0.04
199 142 0.95
200 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (199 bp):
AAAGTATCAACACAAAATAAAAAAGTGTCGATACATGTTGTAGACCTATTCTCATATAAAACCGA
TATATCTATACCGTTTATATTAAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTT
GGGATCGACATCTTTTAAAAATGTATCGACACTTTGTGTGTTCACCCTTTTTGGCATCCATTTGG
ACAT
Found at i:2025247 original size:21 final size:21
Alignment explanation
Indices: 2025223--2025262 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
2025213 TGTTTTTGGG
2025223 ATCGACACTTTTAATAAATGT
1 ATCGACACTTTTAATAAATGT
2025244 ATCGACACTTTTAATAAAT
1 ATCGACACTTTTAATAAAT
2025263 CTATATAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.15, G:0.07, T:0.38
Consensus pattern (21 bp):
ATCGACACTTTTAATAAATGT
Found at i:2025984 original size:3 final size:3
Alignment explanation
Indices: 2025976--2026011 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
2025966 ACTTGTTTGG
2025976 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
2026012 TCGTCGTCGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
ATC
Found at i:2026039 original size:12 final size:12
Alignment explanation
Indices: 2025980--2026049 Score: 70
Period size: 12 Copynumber: 5.9 Consensus size: 12
2025970 GTTTGGATCA
*
2025980 TCATCATCATCA
1 TCATCATCATCG
*
2025992 TCATCATCATCA
1 TCATCATCATCG
2026004 TCATCATC-TCG
1 TCATCATCATCG
* * *
2026015 TCGTCGTCGTCG
1 TCATCATCATCG
*
2026027 TCATCTTCATCG
1 TCATCATCATCG
*
2026039 TCATCTTCATC
1 TCATCATCATC
2026050 TTTATTGACC
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
11 8 0.16
12 43 0.84
ACGTcount: A:0.20, C:0.34, G:0.09, T:0.37
Consensus pattern (12 bp):
TCATCATCATCG
Found at i:2027767 original size:200 final size:200
Alignment explanation
Indices: 2026881--2028039 Score: 1935
Period size: 200 Copynumber: 5.8 Consensus size: 200
2026871 TATTTAAATT
* *
2026881 AGTATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAAACCTATTCTCTCATAAAACCGTTA
1 AGTATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGTA
* * * * *
2026946 TATTTATACCGATTACATTGAAAATTTACCTATAACATTATACTTATGGCTTTCGATGTTTCTGG
66 AATTTATACCGGTTACATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTGG
*
2027011 GATCGATACTTTTTATAAATGTATCGACACTTTATGGTTGCACCCTTTTTGGCATTCATTCTTGA
131 GATCGATACTTTTTATAAATGTATCGACACTTTATGGTTGCACCCTTTTTGGCATTCATTCTGGA
2027076 CCAAA
196 CCAAA
* *
2027081 AGTATCGACACAAAATAAAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCGTAAAACCGGT
1 AGTATCGACACAAAAT-TAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGT
* *
2027146 AAATTTATACCAGTTACATTGAAAAATTACCTATTACATTATACATATGGGTTTCGATGTTTCTG
65 AAATTTATACCGGTTACATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTG
* * * *
2027211 GGATCGATACTTTTTATAAATATATCGACACTTTATGGTTGCACCCTTTCTGGCAATCATTCTAG
130 GGATCGATACTTTTTATAAATGTATCGACACTTTATGGTTGCACCCTTTTTGGCATTCATTCTGG
2027276 ACCAAA
195 ACCAAA
2027282 AGTATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACCTATT-TCTCATAAAACCGGTA
1 AGTATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGTA
* *
2027346 TATTTATACCGGTTACATTGAAAATTTACCTATTACATTATACTTATGGGTTTCGATGTTTCTGG
66 AATTTATACCGGTTACATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTGG
*
2027411 GATTGATACTTTTTATAAATGTATCGACACTTTATGGTTGCACCCTTTTT-GCATTCATTCTGGA
131 GATCGATACTTTTTATAAATGTATCGACACTTTATGGTTGCACCCTTTTTGGCATTCATTCTGGA
2027475 CCAAA
196 CCAAA
* *
2027480 AGTATCGACACAAAATTAACAAGTGTCGATATATGTTGTAGACCTATTCTCTCATAAAACCGGTA
1 AGTATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGTA
*
2027545 AATTTATACCGGTTACATTGAAAAATTACCTATTACATTATATTTATGGGTTTCGATGTTTCTGG
66 AATTTATACCGGTTACATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTGG
* * *
2027610 GATCGATACTTTTTATAAATGGATCGTCACTTTATGGTTGCACCCTTTTTGGGATTCATTCTGGA
131 GATCGATACTTTTTATAAATGTATCGACACTTTATGGTTGCACCCTTTTTGGCATTCATTCTGGA
2027675 CCAAA
196 CCAAA
*
2027680 AGTAACGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGTA
1 AGTATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGTA
* *
2027745 AATTTATACCGGTTACATTGAAAAACTATCTATTACATTATACTTATGGGTTTCGATGTTTCTGG
66 AATTTATACCGGTTACATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTGG
2027810 GATCGATACTTTTTATAAATGTATCGACACTTTATGGTTGCACCCTTTTTGGCATTCATTCTGGA
131 GATCGATACTTTTTATAAATGTATCGACACTTTATGGTTGCACCCTTTTTGGCATTCATTCTGGA
2027875 CCAAA
196 CCAAA
* * * * *
2027880 AGTATCGAGACAAAATTAAAAAGTGTTGATACATGTTGTAGATCTATTCTCTTATAAAACCGATA
1 AGTATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGTA
* * * *
2027945 TATTTATACCGGTTACATTGAAAAGTTACCTATTACAATATACTTATGGGTTTCGATGTTACTGG
66 AATTTATACCGGTTACATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTGG
* * *
2028010 GATCGATAATTTTTATATATGGATCGACAC
131 GATCGATACTTTTTATAAATGTATCGACAC
2028040 ATATGCTTAC
Statistics
Matches: 897, Mismatches: 59, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
198 63 0.07
199 248 0.28
200 401 0.45
201 185 0.21
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (200 bp):
AGTATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGTA
AATTTATACCGGTTACATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTGG
GATCGATACTTTTTATAAATGTATCGACACTTTATGGTTGCACCCTTTTTGGCATTCATTCTGGA
CCAAA
Found at i:2028025 original size:599 final size:599
Alignment explanation
Indices: 2026881--2028039 Score: 1969
Period size: 599 Copynumber: 1.9 Consensus size: 599
2026871 TATTTAAATT
*
2026881 AGTATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAAACCTATTCTCTCATAAAACCGTTA
1 AGTATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAAACCTATTCTCTCATAAAACCGGTA
* *
2026946 TATTTATACCGATTACATTGAAAATTTACCTATAACATTATACTTATGGCTTTCGATGTTTCTGG
66 AATTTATACCGATTACATTGAAAAATTACCTATAACATTATACTTATGGCTTTCGATGTTTCTGG
* *
2027011 GATCGATACTTTTTATAAATGTATCGACACTTTATGGTTGCACCCTTTTTGGCATTCATTCTTGA
131 GATCGATACTTTTTATAAATGGATCGACACTTTATGGTTGCACCCTTTTTGGCATTCATTCTGGA
* *
2027076 CCAAAAGTATCGACACAAAATAAAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCGTAAAA
196 CCAAAAGTAACGACACAAAATAAAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAA
*
2027141 CCGGTAAATTTATACCAGTTACATTGAAAAATTACCTATTACATTATACATATGGGTTTCGATGT
261 CCGGTAAATTTATACCAGTTACATTGAAAAACTACCTATTACATTATACATATGGGTTTCGATGT
2027206 TTCTGGGATCGATACTTTTTATAAATATATCGACACTTTATGGTTGCACCCTTTCTGGCAATCAT
326 TTCTGGGATCGATACTTTTTATAAATATATCGACACTTTATGGTTGCACCCTTTCTGGCAATCAT
2027271 TCTAGACCAAAAGTATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACCTATTTCTCAT
391 TCTAGACCAAAAGTATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACCTATTTCTCAT
* * *
2027336 AAAACCGGTATATTTATACCGGTTACATTGAAAATTTACCTATTACATTATACTTATGGGTTTCG
456 AAAACCGATATATTTATACCGGTTACATTGAAAAGTTACCTATTACAATATACTTATGGGTTTCG
* * * *
2027401 ATGTTTCTGGGATTGATACTTTTTATAAATGTATCGACACTTTATGGTTGCACCCTTTTTGCATT
521 ATGTTACTGGGATCGATAATTTTTATAAATGGATCGACACTTTATGGTTGCACCCTTTTTGCATT
2027466 CATTCTGGACCAAA
586 CATTCTGGACCAAA
* * *
2027480 AGTATCGACACAAAATTAACAAGTGTCGATATATGTTGTAGACCTATTCTCTCATAAAACCGGTA
1 AGTATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAAACCTATTCTCTCATAAAACCGGTA
* * * *
2027545 AATTTATACCGGTTACATTGAAAAATTACCTATTACATTATATTTATGGGTTTCGATGTTTCTGG
66 AATTTATACCGATTACATTGAAAAATTACCTATAACATTATACTTATGGCTTTCGATGTTTCTGG
* *
2027610 GATCGATACTTTTTATAAATGGATCGTCACTTTATGGTTGCACCCTTTTTGGGATTCATTCTGGA
131 GATCGATACTTTTTATAAATGGATCGACACTTTATGGTTGCACCCTTTTTGGCATTCATTCTGGA
*
2027675 CCAAAAGTAACGACACAAAAT-TAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAA
196 CCAAAAGTAACGACACAAAATAAAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAA
* * *
2027739 CCGGTAAATTTATACCGGTTACATTGAAAAACTATCTATTACATTATACTTATGGGTTTCGATGT
261 CCGGTAAATTTATACCAGTTACATTGAAAAACTACCTATTACATTATACATATGGGTTTCGATGT
* * *
2027804 TTCTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGGTTGCACCCTTTTTGGCATTCAT
326 TTCTGGGATCGATACTTTTTATAAATATATCGACACTTTATGGTTGCACCCTTTCTGGCAATCAT
* * * * *
2027869 TCTGGACCAAAAGTATCGAGACAAAATTAAAAAGTGTTGATACATGTTGTAGATCTATTCTCTTA
391 TCTAGACCAAAAGTATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACCTATT-TCTCA
2027934 TAAAACCGATATATTTATACCGGTTACATTGAAAAGTTACCTATTACAATATACTTATGGGTTTC
455 TAAAACCGATATATTTATACCGGTTACATTGAAAAGTTACCTATTACAATATACTTATGGGTTTC
*
2027999 GATGTTACTGGGATCGATAATTTTTATATATGGATCGACAC
520 GATGTTACTGGGATCGATAATTTTTATAAATGGATCGACAC
2028040 ATATGCTTAC
Statistics
Matches: 522, Mismatches: 37, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
598 219 0.42
599 303 0.58
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (599 bp):
AGTATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAAACCTATTCTCTCATAAAACCGGTA
AATTTATACCGATTACATTGAAAAATTACCTATAACATTATACTTATGGCTTTCGATGTTTCTGG
GATCGATACTTTTTATAAATGGATCGACACTTTATGGTTGCACCCTTTTTGGCATTCATTCTGGA
CCAAAAGTAACGACACAAAATAAAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAA
CCGGTAAATTTATACCAGTTACATTGAAAAACTACCTATTACATTATACATATGGGTTTCGATGT
TTCTGGGATCGATACTTTTTATAAATATATCGACACTTTATGGTTGCACCCTTTCTGGCAATCAT
TCTAGACCAAAAGTATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACCTATTTCTCAT
AAAACCGATATATTTATACCGGTTACATTGAAAAGTTACCTATTACAATATACTTATGGGTTTCG
ATGTTACTGGGATCGATAATTTTTATAAATGGATCGACACTTTATGGTTGCACCCTTTTTGCATT
CATTCTGGACCAAA
Found at i:2028305 original size:19 final size:19
Alignment explanation
Indices: 2028281--2028329 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
2028271 TTACATTCAC
2028281 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
2028300 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
*
2028319 ATACAACATTA
1 ATACAAAATTA
2028330 ACCATACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.53, C:0.12, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:2028916 original size:4 final size:4
Alignment explanation
Indices: 2028907--2029019 Score: 226
Period size: 4 Copynumber: 28.2 Consensus size: 4
2028897 AATGTCCTTT
2028907 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
2028955 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
2029003 CATA CATA CATA CATA C
1 CATA CATA CATA CATA C
2029020 CAATCTCTTA
Statistics
Matches: 109, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 109 1.00
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:2029643 original size:33 final size:33
Alignment explanation
Indices: 2029606--2029671 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
2029596 CATCTTAATA
* * *
2029606 TCACCCTTTAACACCTCAACTTCTTTCACCACT
1 TCACCCCTCAACACATCAACTTCTTTCACCACT
*
2029639 TCACCCCTCAACACATCTACTTCTTTCACCACT
1 TCACCCCTCAACACATCAACTTCTTTCACCACT
2029672 CCATCTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.24, C:0.44, G:0.00, T:0.32
Consensus pattern (33 bp):
TCACCCCTCAACACATCAACTTCTTTCACCACT
Found at i:2029730 original size:21 final size:21
Alignment explanation
Indices: 2029705--2029748 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
2029695 CCCCTTATGC
2029705 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
* * *
2029726 CTCTCAAGTTTCTCTTTGACT
1 CTCTCAAGTGTATCTTCGACT
2029747 CT
1 CT
2029749 TTATTGTCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.30, G:0.11, T:0.43
Consensus pattern (21 bp):
CTCTCAAGTGTATCTTCGACT
Found at i:2029851 original size:15 final size:15
Alignment explanation
Indices: 2029831--2029863 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
2029821 ACTCTGTTTT
2029831 CCCTCACCGTCATCC
1 CCCTCACCGTCATCC
2029846 CCCTCACCGTCATCC
1 CCCTCACCGTCATCC
2029861 CCC
1 CCC
2029864 AATACAACCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.12, C:0.64, G:0.06, T:0.18
Consensus pattern (15 bp):
CCCTCACCGTCATCC
Found at i:2032263 original size:182 final size:181
Alignment explanation
Indices: 2031956--2032430 Score: 702
Period size: 182 Copynumber: 2.6 Consensus size: 181
2031946 TGTACTTATG
2031956 AAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTATCATTTCGATACC-AGTT
1 AAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTATCATTTCGATACCGA-TT
* * *
2032020 TTATCATATTTTTACATGTTATATCATTGTGGATCGATAAATTTTTATAAAGTATCGACACTTTA
65 TTATCATATTTTTAC-TGTTATATCGTTGTGGATCGATACATTTTTATAAAATATCGACACTTTA
*
2032085 TAGGCGTTAAAACTACTTCTCTTTTAAATTCACAAAGTGTCGATACTTATATT
129 TAGGCGCTAAAACTACTTCTCTTTTAAATTCACAAAGTGTCGATACTTATATT
* *
2032138 AAAGTATCGACACTTTAAATATATCCGGTAGCGCTTTATCGGTTTTATCATTTCGATACCGATTT
1 AAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTATCATTTCGATACCGATTT
*
2032203 TGTCATATTTTTATCTGTTATATCGTTGTGGATCGATACATTTTTATAAAATATCGACACTTTAT
66 TATCATATTTTTA-CTGTTATATCGTTGTGGATCGATACATTTTTATAAAATATCGACACTTTAT
* *
2032268 AGGTGCTAAAACTACTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
130 AGGCGCTAAAACTACTTCTCTTTTAAATTCACAAAGTGTCGATACTTATATT
* * * * * * *
2032320 AAAGTATCGACACGTTCAATATATCCGGTAGGGCTTTACCGATATTGTCTTTTCG-TGACCGGTT
1 AAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTATCATTTCGAT-ACCGATT
* * * **
2032384 TTATCATATTTTTACCTGTTATATTGATATAAATCGATACATTTTTA
65 TTATCATATTTTTA-CTGTTATATCGTTGTGGATCGATACATTTTTA
2032431 ATTTGGATCG
Statistics
Matches: 265, Mismatches: 25, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
181 1 0.00
182 262 0.99
183 2 0.01
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.41
Consensus pattern (181 bp):
AAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTATCATTTCGATACCGATTT
TATCATATTTTTACTGTTATATCGTTGTGGATCGATACATTTTTATAAAATATCGACACTTTATA
GGCGCTAAAACTACTTCTCTTTTAAATTCACAAAGTGTCGATACTTATATT
Found at i:2036814 original size:14 final size:13
Alignment explanation
Indices: 2036795--2036876 Score: 67
Period size: 14 Copynumber: 6.0 Consensus size: 13
2036785 CTCGAGTACA
2036795 TATTTAATAATAAT
1 TATTTAAT-ATAAT
*
2036809 TATTTAAATTTAAT
1 TATTT-AATATAAT
*
2036823 TATTTAACTTTAAT
1 TATTTAA-TATAAT
*
2036837 GATTTAATATAAT
1 TATTTAATATAAT
*
2036850 TA-TTAACTTTAAT
1 TATTTAA-TATAAT
*
2036863 GATTTAATAATAAT
1 TATTTAAT-ATAAT
2036877 ACTTTAATGA
Statistics
Matches: 56, Mismatches: 7, Indels: 10
0.77 0.10 0.14
Matches are distributed among these distances:
12 4 0.07
13 15 0.27
14 34 0.61
15 3 0.05
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (13 bp):
TATTTAATATAAT
Found at i:2036875 original size:27 final size:27
Alignment explanation
Indices: 2036805--2037967 Score: 322
Period size: 23 Copynumber: 43.9 Consensus size: 27
2036795 TATTTAATAA
* *
2036805 TAATTATTTAAATTTAATTATTTAACTT
1 TAATGATTT-AATATAATTATTTAACTT
2036833 TAATGATTTAATATAATTA-TTAACTT
1 TAATGATTTAATATAATTATTTAACTT
*
2036859 TAATGATTT-A-ATAA-TA-AT-ACTT
1 TAATGATTTAATATAATTATTTAACTT
*
2036881 TAATGATTTAACT-TAATGATTTAA---
1 TAATGATTTAA-TATAATTATTTAACTT
* * * *
2036905 TAAT-AATTACTTTAATGATTTAACTT
1 TAATGATTTAATATAATTATTTAACTT
*
2036931 TAATGATTTAATAATAATTACTTTAATGATT
1 TAATGATTTAAT-ATAATTA-TTTAA--CTT
* * *
2036962 TAATGATTTAACTTTAATGATTTAA-TAA
1 TAATGATTTAA-TATAATTATTTAACT-T
* *
2036990 TAATGA--T--T-TAATGATTCAACTT
1 TAATGATTTAATATAATTATTTAACTT
*
2037012 TAATGATTT-A-ATAA-TAATT-ACTT
1 TAATGATTTAATATAATTATTTAACTT
* *
2037035 TAATGATTTAACTTTAATGATTTAA---
1 TAATGATTTAA-TATAATTATTTAACTT
* * * *
2037060 TAAT-AATTACTTTAATGATTTAACTT
1 TAATGATTTAATATAATTATTTAACTT
*
2037086 TAATGATTTAATAATAATTACTTTAATGATT
1 TAATGATTTAAT-ATAATTA-TTTAA--CTT
* *
2037117 TAATGATTTAACTTTAATGATTTAA-TAAT
1 TAATGATTTAA-TATAATTATTTAACT--T
*
2037146 ATAATGATTT-A-ATAA-TAATT-ACTT
1 -TAATGATTTAATATAATTATTTAACTT
* *
2037170 TAATGATTTAACTTTAATGATTTAA---
1 TAATGATTTAA-TATAATTATTTAACTT
* * * *
2037195 TAAT-A-ATACTTTAATGATTTAACTT
1 TAATGATTTAATATAATTATTTAACTT
*
2037220 TAATGATTTAATAATAATTACTTTAATGATT
1 TAATGATTTAAT-ATAATTA-TTTAA--CTT
* * *
2037251 TAATGATTTAACTTTAATGATTTAA-TAA
1 TAATGATTTAA-TATAATTATTTAACT-T
*
2037279 TAATGA--T--T-TAATGATTTAACTT
1 TAATGATTTAATATAATTATTTAACTT
*
2037301 TAATGATTT-A-ATAA-TAATT-ACTT
1 TAATGATTTAATATAATTATTTAACTT
* *
2037324 TAATGATTTAACTTTAATGATTTAA---
1 TAATGATTTAA-TATAATTATTTAACTT
* * * *
2037349 TAAT-AATTACTTTAATGATTTAACTT
1 TAATGATTTAATATAATTATTTAACTT
*
2037375 TAATGATTTAATAATAATTACTTTAATGATT
1 TAATGATTTAAT-ATAATTA-TTTAA--CTT
* * *
2037406 TAATGATTTAACTTTAATGATTTAA-TAA
1 TAATGATTTAA-TATAATTATTTAACT-T
* * *
2037434 TAATTATTTAACTTTAATGATTTAA---
1 TAATGATTTAA-TATAATTATTTAACTT
* * * *
2037459 TAAT-AATTACTTTAATGATTTAACTT
1 TAATGATTTAATATAATTATTTAACTT
*
2037485 TAATGATTTAATAATAATTACTTTAATGATT
1 TAATGATTTAAT-ATAATTA-TTTAA--CTT
* * *
2037516 TAATGATTTAACTTTAATGATTTAA-TAA
1 TAATGATTTAA-TATAATTATTTAACT-T
* *
2037544 TAACGA--T--T-TAATGATTTAACTT
1 TAATGATTTAATATAATTATTTAACTT
*
2037566 TAATGATTT-A-ATAA-TAATT-ACTT
1 TAATGATTTAATATAATTATTTAACTT
* *
2037589 TAATGATTTAACTTTAATGATTTAA---
1 TAATGATTTAA-TATAATTATTTAACTT
* * * *
2037614 TAAT-AATTACTTTAATGATTTAA-TT
1 TAATGATTTAATATAATTATTTAACTT
*
2037639 TAATGATTTAATAATAATTACTTTAATGATT
1 TAATGATTTAAT-ATAATTA-TTTAA--CTT
* * *
2037670 TAATGATTTAACTTTAATGATTTAA-TAA
1 TAATGATTTAA-TATAATTATTTAACT-T
*
2037698 TAATGA-TTAATGATTTAATAATAATT-ACTT
1 TAATGATTTAAT-A--TAAT--TATTTAACTT
* *
2037728 TAATGATTTAACTTTAATGATTTAA---
1 TAATGATTTAA-TATAATTATTTAACTT
* * * *
2037753 TAAT-AATTACTTTAATGATTTAACTT
1 TAATGATTTAATATAATTATTTAACTT
*
2037779 TAATGATTTAATAATAATTACTTTAATGATT
1 TAATGATTTAAT-ATAATTA-TTTAA--CTT
* * *
2037810 TAATGATTTAACTTTAATGATTTAA-TAA
1 TAATGATTTAA-TATAATTATTTAACT-T
*
2037838 TAATGA--T--T-TAATGATTTAACTT
1 TAATGATTTAATATAATTATTTAACTT
*
2037860 TAATGATTT-A-ATAA-TAATT-ACTT
1 TAATGATTTAATATAATTATTTAACTT
* * *
2037883 TAATGATTTAACTTTAATGATTTAA-TAA
1 TAATGATTTAA-TATAATTATTTAACT-T
* * *
2037911 TAATTACTTTAATGATTTGATGATTTAACTT
1 TAATGA-TTTAAT-A--TAATTATTTAACTT
2037942 TAATGATTTAATAATAATTACTTTAA
1 TAATGATTTAAT-ATAATTA-TTTAA
2037968 TGATTTAACT
Statistics
Matches: 869, Mismatches: 124, Indels: 283
0.68 0.10 0.22
Matches are distributed among these distances:
22 93 0.11
23 155 0.18
24 53 0.06
25 47 0.05
26 67 0.08
27 76 0.09
28 112 0.13
29 50 0.06
30 58 0.07
31 149 0.17
32 9 0.01
ACGTcount: A:0.41, C:0.05, G:0.06, T:0.48
Consensus pattern (27 bp):
TAATGATTTAATATAATTATTTAACTT
Found at i:2036943 original size:37 final size:37
Alignment explanation
Indices: 2036852--2038001 Score: 941
Period size: 37 Copynumber: 30.8 Consensus size: 37
2036842 AATATAATTA
2036852 TTAACTTTAATGATTTAATAATAA-TACTTTAATGAT
1 TTAACTTTAATGATTTAATAATAATTACTTTAATGAT
2036888 TTAAC-TTAATGATTTAATAATAATTACTTTAATGAT
1 TTAACTTTAATGATTTAATAATAATTACTTTAATGAT
2036924 TTAACTTTAATGATTTAATAATAATTACTTTAATGATTTAATGAT
1 TTAACTTTAATGATTTAATAATAATTAC--------TTTAATGAT
*
2036969 TTAACTTTAATGATTTAATAATAATGA-TTTAATGAT
1 TTAACTTTAATGATTTAATAATAATTACTTTAATGAT
*
2037005 TCAACTTTAATGATTTAATAATAATTACTTTAATGAT
1 TTAACTTTAATGATTTAATAATAATTACTTTAATGAT
2037042 TTAACTTTAATGATTTAATAATAATTACTTTAATGAT
1 TTAACTTTAATGATTTAATAATAATTACTTTAATGAT
2037079 TTAACTTTAATGATTTAATAATAATTACTTTAATGATTTAATGAT
1 TTAACTTTAATGATTTAATAATAATTAC--------TTTAATGAT
* *
2037124 TTAACTTTAATGATTTAATAATATAATGA-TTTAATAAT
1 TTAACTTTAATGATTTAAT-A-ATAATTACTTTAATGAT
* * *
2037162 AATT-ACTTTAATGATTTAACT-TTAATGA-TTTAAT-AA
1 --TTAACTTTAATGATTTAA-TAATAATTACTTTAATGAT
* * * *
2037198 TAATACTTTAATGATTTAACT-TTAATGA-TTTAATAAT
1 TTA-ACTTTAATGATTTAA-TAATAATTACTTTAATGAT
*
2037235 AATT-ACTTTAATGATTTAATGAT--TTAACTTTAATGAT
1 --TTAACTTTAATGATTTAATAATAATT-ACTTTAATGAT
* *
2037272 TTAA-TAATAATGATTTAATGAT--TTAACTTTAATGAT
1 TTAACT-TTAATGATTTAATAATAATT-ACTTTAATGAT
* * *
2037308 TTAA-TAATAATTACTTTAATGAT--TTAACTTTAATGAT
1 TTAACT-TTAATGA-TTTAATAATAATT-ACTTTAATGAT
* * *
2037345 TTAA-TAATAATTACTTTAATGAT--TTAACTTTAATGAT
1 TTAACT-TTAATGA-TTTAATAATAATT-ACTTTAATGAT
* * * *
2037382 TTAA---TAAT-AATTACT-TTAATGA-TTTAATGAT
1 TTAACTTTAATGATTTAATAATAATTACTTTAATGAT
2037413 TTAACTTTAATGATTTAATAATAATTATTTAACTTTAATGAT
1 TTAACTTTAATGATTTAATAAT-A--A-TT-ACTTTAATGAT
* * *
2037455 TTAA-TAATAATTACTTTAATGAT--TTAACTTTAATGAT
1 TTAACT-TTAATGA-TTTAATAATAATT-ACTTTAATGAT
* * * *
2037492 TTAA---TAAT-AATTACT-TTAATGA-TTTAATGAT
1 TTAACTTTAATGATTTAATAATAATTACTTTAATGAT
**
2037523 TTAACTTTAATGATTTAATAATAACGA-TTTAATGAT
1 TTAACTTTAATGATTTAATAATAATTACTTTAATGAT
2037559 TTAACTTTAATGATTTAATAATAATTACTTTAATGAT
1 TTAACTTTAATGATTTAATAATAATTACTTTAATGAT
2037596 TTAACTTTAATGATTTAATAATAATTACTTTAATGAT
1 TTAACTTTAATGATTTAATAATAATTACTTTAATGAT
2037633 TTAA-TTTAATGATTTAATAATAATTACTTTAATGATTTAATGAT
1 TTAACTTTAATGATTTAATAATAATTAC--------TTTAATGAT
*
2037677 TTAACTTTAATGATTTAATAATAATGA--TTAATGAT
1 TTAACTTTAATGATTTAATAATAATTACTTTAATGAT
* * *
2037712 TTAA-TAATAATTACTTTAATGAT--TTAACTTTAATGAT
1 TTAACT-TTAATGA-TTTAATAATAATT-ACTTTAATGAT
* * *
2037749 TTAA-TAATAATTACTTTAATGAT--TTAACTTTAATGAT
1 TTAACT-TTAATGA-TTTAATAATAATT-ACTTTAATGAT
* * * *
2037786 TTAA---TAAT-AATTACT-TTAATGA-TTTAATGAT
1 TTAACTTTAATGATTTAATAATAATTACTTTAATGAT
*
2037817 TTAACTTTAATGATTTAATAATAATGA-TTTAATGAT
1 TTAACTTTAATGATTTAATAATAATTACTTTAATGAT
2037853 TTAACTTTAATGATTTAATAATAATTACTTTAATGAT
1 TTAACTTTAATGATTTAATAATAATTACTTTAATGAT
2037890 TTAACTTTAATGATTTAATAATAATTACTTTAATGATTTGATGAT
1 TTAACTTTAATGATTTAATAATAATTAC-TT--T-A----ATGAT
2037935 TTAACTTTAATGATTTAATAATAATTACTTTAATGAT
1 TTAACTTTAATGATTTAATAATAATTACTTTAATGAT
2037972 TTAACTTTAATGATTTAATAATAATTACTT
1 TTAACTTTAATGATTTAATAATAATTACTT
2038002 GACTTTAATG
Statistics
Matches: 976, Mismatches: 50, Indels: 175
0.81 0.04 0.15
Matches are distributed among these distances:
31 42 0.04
32 15 0.02
33 6 0.01
34 27 0.03
35 55 0.06
36 243 0.25
37 386 0.40
38 10 0.01
39 17 0.02
40 5 0.01
41 4 0.00
42 19 0.02
43 8 0.01
44 15 0.02
45 117 0.12
46 1 0.00
47 6 0.01
ACGTcount: A:0.41, C:0.05, G:0.06, T:0.48
Consensus pattern (37 bp):
TTAACTTTAATGATTTAATAATAATTACTTTAATGAT
Found at i:2037045 original size:118 final size:118
Alignment explanation
Indices: 2036829--2038001 Score: 1248
Period size: 118 Copynumber: 9.7 Consensus size: 118
2036819 TAATTATTTA
*
2036829 ACTTTAATGATTTAATATAATTATTAACTTTAATGATTTAATAATAAT-ACTTTAATGATTTAAC
1 ACTTTAATGATTT-A-ATGA-T-TTAACTTTAATGATTTAATAATAATGA-TTTAATGATTTAAC
2036893 -TTAATGATTTAATAATAATTACTTTAATGATTTAACTTTAATGATTTAATAATAATT
61 TTTAATGATTTAATAATAATTACTTTAATGATTTAACTTTAATGATTTAATAATAATT
*
2036950 ACTTTAATGATTTAATGATTTAACTTTAATGATTTAATAATAATGATTTAATGATTCAACTTTAA
1 ACTTTAATGATTTAATGATTTAACTTTAATGATTTAATAATAATGATTTAATGATTTAACTTTAA
2037015 TGATTTAATAATAATTACTTTAATGATTTAACTTTAATGATTTAATAATAATT
66 TGATTTAATAATAATTACTTTAATGATTTAACTTTAATGATTTAATAATAATT
* * * * *
2037068 ACTTTAATGATTTAA--CTTTAATGATTTAATAATAATTACT-TTAATGATTTAATGATTTAACT
1 ACTTTAATGATTTAATGATTTAA--CTTTAATGAT--TTAATAATAATGATTTAATGATTTAACT
* * *
2037130 TTAATGATTTAATAATATAATGA-TTTAATAATAATT-ACTTTAATGATTTAACTTTAATGATTT
62 TTAATGATTTAAT-A-ATAATTACTTTAATGAT--TTAACTTTAATGATTTAA---TAAT-AATT
* *
2037193 AATAATAAT-ACTTTAATGATTTAACTTTAATGATTTAATAATAATTACTTTAATGATTTAATGA
1 ACT-TTAATGA-TTTAATGATTTAACTTTAATGA-TT--TAAT-A--A---TAATGATTTAATGA
*
2037257 TTTAACTTTAATGATTTAATAATAATGA-TTTAATGATTTAACTTTAATGATTTAATAATAATT
55 TTTAACTTTAATGATTTAATAATAATTACTTTAATGATTTAACTTTAATGATTTAATAATAATT
*
2037320 AC--------TTTAATGATTTAACTTTAATGATTTAATAATAATTACTTTAATGATTTAACTTTA
1 ACTTTAATGATTTAATGATTTAACTTTAATGATTTAATAATAATGA-TTTAATGATTTAACTTTA
2037377 ATGATTTAATAATAATTACTTTAATGATTTAATGATTTAACTTTAATGATTTAATAATAATTATT
65 ATGATTTAATAATAATTAC--------TTTAATGATTTAACTTTAATGATTTAATAAT-A--A-T
2037442 T
118 T
* * *
2037443 AACTTTAATGATTTAATAATAATT-ACTTTAATGATTTAACT-TTAATGATTTAATAATAATT-A
1 -ACTTTAATGATTTAATGAT--TTAACTTTAATGATTTAA-TAATAATGATTTAATGAT--TTAA
* * * *
2037505 CTTTAATGATTTAATGAT--TTAACTTTAATGATTTAA-TAATAACGATTTAATGAT--TT
60 CTTTAATGATTTAATAATAATT-ACTTTAATGATTTAACT-TTAATGATTTAATAATAATT
* * *
2037561 AACTTTAATGATTTAATAATAATT-ACTTTAATGATTTAACT-TTAATGATTTAATAATAATT-A
1 -ACTTTAATGATTTAATGAT--TTAACTTTAATGATTTAA-TAATAATGATTTAATGAT--TTAA
* * * *
2037623 CTTTAATGATTTAAT-TTAATGA-TTTAATAATAATT-ACTTTAATGATTTAATGAT--TT
60 CTTTAATGATTTAATAATAATTACTTTAATGAT--TTAACTTTAATGATTTAATAATAATT
* *
2037679 AACTTTAATGATTTAAT-A-ATAA-TGATTAATGATTTAATAATAATTACTTTAATGATTTAACT
1 -ACTTTAATGATTTAATGATTTAACT--TTAATGATTTAATAATAATGA-TTTAATGATTTAACT
2037741 TTAATGATTTAATAATAATTACTTTAATGATTTAACTTTAATGATTTAATAATAATT
62 TTAATGATTTAATAATAATTACTTTAATGATTTAACTTTAATGATTTAATAATAATT
2037798 ACTTTAATGATTTAATGATTTAACTTTAATGATTTAATAATAATGATTTAATGATTTAACTTTAA
1 ACTTTAATGATTTAATGATTTAACTTTAATGATTTAATAATAATGATTTAATGATTTAACTTTAA
2037863 TGATTTAATAATAATTACTTTAATGATTTAACTTTAATGATTTAATAATAATT
66 TGATTTAATAATAATTACTTTAATGATTTAACTTTAATGATTTAATAATAATT
* *
2037916 ACTTTAATGATTTGATGATTTAACTTTAATGATTTAATAATAATTACTTTAATGATTTAACTTTA
1 ACTTTAATGATTTAATGATTTAACTTTAATGATTTAATAATAATGA-TTTAATGATTTAACTTTA
2037981 ATGATTTAATAATAATTACTT
65 ATGATTTAATAATAATTACTT
2038002 GACTTTAATG
Statistics
Matches: 925, Mismatches: 48, Indels: 160
0.82 0.04 0.14
Matches are distributed among these distances:
109 5 0.01
110 35 0.04
112 1 0.00
114 3 0.00
115 8 0.01
116 40 0.04
117 81 0.09
118 358 0.39
119 133 0.14
120 18 0.02
121 35 0.04
122 3 0.00
123 3 0.00
124 32 0.03
125 7 0.01
126 16 0.02
127 8 0.01
128 9 0.01
130 2 0.00
131 17 0.02
132 33 0.04
133 39 0.04
134 39 0.04
ACGTcount: A:0.41, C:0.05, G:0.06, T:0.48
Consensus pattern (118 bp):
ACTTTAATGATTTAATGATTTAACTTTAATGATTTAATAATAATGATTTAATGATTTAACTTTAA
TGATTTAATAATAATTACTTTAATGATTTAACTTTAATGATTTAATAATAATT
Found at i:2038022 original size:14 final size:13
Alignment explanation
Indices: 2036805--2038032 Score: 652
Period size: 14 Copynumber: 92.9 Consensus size: 13
2036795 TATTTAATAA
*
2036805 TAATTATTTAAATT
1 TAATGATTT-AATT
*
2036819 TAATTATTTAACTT
1 TAATGATTTAA-TT
*
2036833 TAATGATTTAATA
1 TAATGATTTAATT
*
2036846 TAATTA-TTAACTT
1 TAATGATTTAA-TT
2036859 TAATGATTTAA--
1 TAATGATTTAATT
* *
2036870 TAAT-A-ATACTT
1 TAATGATTTAATT
*
2036881 TAATGATTTAACT
1 TAATGATTTAATT
2036894 TAATGATTTAA--
1 TAATGATTTAATT
* *
2036905 TAAT-AATTACTT
1 TAATGATTTAATT
2036917 TAATGATTTAACTT
1 TAATGATTTAA-TT
*
2036931 TAATGATTTAATAA
1 TAATGATTTAAT-T
*
2036945 TAATTACTTTAATGATT
1 TAATGA-TTT-A--ATT
2036962 TAATGATTTAACTT
1 TAATGATTTAA-TT
2036976 TAATGATTTAA--
1 TAATGATTTAATT
* *
2036987 TAAT-A-ATGATT
1 TAATGATTTAATT
*
2036998 TAATGATTCAACTT
1 TAATGATTTAA-TT
2037012 TAATGATTTAA--
1 TAATGATTTAATT
* *
2037023 TAAT-AATTACTT
1 TAATGATTTAATT
2037035 TAATGATTTAACTT
1 TAATGATTTAA-TT
2037049 TAATGATTTAA--
1 TAATGATTTAATT
* *
2037060 TAAT-AATTACTT
1 TAATGATTTAATT
2037072 TAATGATTTAACTT
1 TAATGATTTAA-TT
*
2037086 TAATGATTTAATAA
1 TAATGATTTAAT-T
*
2037100 TAATTACTTTAATGATT
1 TAATGA-TTT-A--ATT
2037117 TAATGATTTAACTT
1 TAATGATTTAA-TT
2037131 TAATGATTTAATAAT
1 TAATGATTTAAT--T
2037146 ATAATGATTTAA--
1 -TAATGATTTAATT
* *
2037158 TAAT-AATTACTT
1 TAATGATTTAATT
2037170 TAATGATTTAACTT
1 TAATGATTTAA-TT
2037184 TAATGATTTAA--
1 TAATGATTTAATT
* *
2037195 TAAT-A-ATACTT
1 TAATGATTTAATT
2037206 TAATGATTTAACTT
1 TAATGATTTAA-TT
*
2037220 TAATGATTTAATAA
1 TAATGATTTAAT-T
*
2037234 TAATTACTTTAATGATT
1 TAATGA-TTT-A--ATT
2037251 TAATGATTTAACTT
1 TAATGATTTAA-TT
2037265 TAATGATTTAA--
1 TAATGATTTAATT
* *
2037276 TAAT-A-ATGATT
1 TAATGATTTAATT
2037287 TAATGATTTAACTT
1 TAATGATTTAA-TT
2037301 TAATGATTTAA--
1 TAATGATTTAATT
* *
2037312 TAAT-AATTACTT
1 TAATGATTTAATT
2037324 TAATGATTTAACTT
1 TAATGATTTAA-TT
2037338 TAATGATTTAA--
1 TAATGATTTAATT
* *
2037349 TAAT-AATTACTT
1 TAATGATTTAATT
2037361 TAATGATTTAACTT
1 TAATGATTTAA-TT
*
2037375 TAATGATTTAATAA
1 TAATGATTTAAT-T
*
2037389 TAATTACTTTAATGATT
1 TAATGA-TTT-A--ATT
2037406 TAATGATTTAACTT
1 TAATGATTTAA-TT
*
2037420 TAATGATTTAATAA
1 TAATGATTTAAT-T
*
2037434 TAATTATTTAACTT
1 TAATGATTTAA-TT
2037448 TAATGATTTAA--
1 TAATGATTTAATT
* *
2037459 TAAT-AATTACTT
1 TAATGATTTAATT
2037471 TAATGATTTAACTT
1 TAATGATTTAA-TT
*
2037485 TAATGATTTAATAA
1 TAATGATTTAAT-T
*
2037499 TAATTACTTTAATGATT
1 TAATGA-TTT-A--ATT
2037516 TAATGATTTAACTT
1 TAATGATTTAA-TT
2037530 TAATGATTTAA--
1 TAATGATTTAATT
***
2037541 TAAT-A-ACGATT
1 TAATGATTTAATT
2037552 TAATGATTTAACTT
1 TAATGATTTAA-TT
2037566 TAATGATTTAA--
1 TAATGATTTAATT
* *
2037577 TAAT-AATTACTT
1 TAATGATTTAATT
2037589 TAATGATTTAACTT
1 TAATGATTTAA-TT
2037603 TAATGATTTAA--
1 TAATGATTTAATT
* *
2037614 TAAT-AATTACTT
1 TAATGATTTAATT
2037626 TAATGATTTAATT
1 TAATGATTTAATT
*
2037639 TAATGATTTAATAA
1 TAATGATTTAAT-T
*
2037653 TAATTACTTTAATGATT
1 TAATGA-TTT-A--ATT
2037670 TAATGATTTAACTT
1 TAATGATTTAA-TT
*
2037684 TAATGATTTAATAA
1 TAATGATTTAAT-T
*
2037698 TAATGATTAATGATT
1 TAATGATT--TAATT
* *
2037713 TAATAATAATTACTT
1 TAATGAT--TTAATT
2037728 TAATGATTTAACTT
1 TAATGATTTAA-TT
2037742 TAATGATTTAA--
1 TAATGATTTAATT
* *
2037753 TAAT-AATTACTT
1 TAATGATTTAATT
2037765 TAATGATTTAACTT
1 TAATGATTTAA-TT
*
2037779 TAATGATTTAATAA
1 TAATGATTTAAT-T
*
2037793 TAATTACTTTAATGATT
1 TAATGA-TTT-A--ATT
2037810 TAATGATTTAACTT
1 TAATGATTTAA-TT
2037824 TAATGATTTAA--
1 TAATGATTTAATT
* *
2037835 TAAT-A-ATGATT
1 TAATGATTTAATT
2037846 TAATGATTTAACTT
1 TAATGATTTAA-TT
2037860 TAATGATTTAA--
1 TAATGATTTAATT
* *
2037871 TAAT-AATTACTT
1 TAATGATTTAATT
2037883 TAATGATTTAACTT
1 TAATGATTTAA-TT
*
2037897 TAATGATTTAATAA
1 TAATGATTTAAT-T
*
2037911 TAATTACTTTAATGATT
1 TAATGA-TTT-A--ATT
*
2037928 TGATGATTTAACTT
1 TAATGATTTAA-TT
2037942 TAATGATTTAA--
1 TAATGATTTAATT
* *
2037953 TAAT-AATTACTT
1 TAATGATTTAATT
2037965 TAATGATTTAACTT
1 TAATGATTTAA-TT
*
2037979 TAATGATTTAATAA
1 TAATGATTTAAT-T
* * *
2037993 TAATTACTTGACTT
1 TAATGA-TTTAATT
2038007 TAATGATTTATATT
1 TAATGATTTA-ATT
* *
2038021 TACTGATATAAT
1 TAATGATTTAAT
2038033 AATAAATATA
Statistics
Matches: 935, Mismatches: 138, Indels: 283
0.69 0.10 0.21
Matches are distributed among these distances:
9 11 0.01
10 54 0.06
11 96 0.10
12 58 0.06
13 125 0.13
14 436 0.47
15 53 0.06
16 46 0.05
17 40 0.04
18 16 0.02
ACGTcount: A:0.41, C:0.05, G:0.06, T:0.48
Consensus pattern (13 bp):
TAATGATTTAATT
Found at i:2040500 original size:171 final size:169
Alignment explanation
Indices: 2040215--2040563 Score: 499
Period size: 171 Copynumber: 2.1 Consensus size: 169
2040205 AAATATAAAT
*
2040215 GATCCCTAATTACTATTTGCTTCTCAACATTTTCAAACTTTGCAATTAATCACTAAATTTATAAA
1 GATCCCTAATTACTATTTGCTTCTCAACATTTTCAAACTTAGCAATTAATCACTAAATTTATAAA
*
2040280 TTCTTTCAAATTTAACCAATTAAGCATATAATACTAAATTCAAGCATAGTATACCAACTTTTTAT
66 TTCTTTCAAATTTAACCAATTAAGCATATAATACTAAATTCAAGCATAGTATACCAACTTTTAAT
* *
2040345 AATTTACTCTAATTTCTTAAATTCCTCAAATTTTTCAAAAC
131 AA-TTACTCTAATTCCTT-AATTCCTCAAATTTTACAAAAC
* *
2040386 GATCCCTAATTACTATTTGGTTCTCAACATTTTCAAAGTTAGCAATTTAATC-CATAAATTT-T-
1 GATCCCTAATTACTATTTGCTTCTCAACATTTTCAAACTTAGCAA-TTAATCAC-TAAATTTATA
* * *
2040448 AATTC-TTCTAATTTAAACCAATTAAGCATACTAATACTAAATTCCAGCATAGTATAGCAACTTT
64 AATTCTTTCAAATTT-AACCAATTAAGCATA-TAATACTAAATTCAAGCATAGTATACCAACTTT
* * *
2040512 TAATAATTACTCTTATTCCTTAATTCCTTAAATTTTACAAAAT
127 TAATAATTACTCTAATTCCTTAATTCCTCAAATTTTACAAAAC
*
2040555 GGTCCCTAA
1 GATCCCTAA
2040564 AACTTTACAA
Statistics
Matches: 161, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
169 35 0.22
170 33 0.20
171 80 0.50
172 13 0.08
ACGTcount: A:0.37, C:0.19, G:0.05, T:0.40
Consensus pattern (169 bp):
GATCCCTAATTACTATTTGCTTCTCAACATTTTCAAACTTAGCAATTAATCACTAAATTTATAAA
TTCTTTCAAATTTAACCAATTAAGCATATAATACTAAATTCAAGCATAGTATACCAACTTTTAAT
AATTACTCTAATTCCTTAATTCCTCAAATTTTACAAAAC
Found at i:2041034 original size:23 final size:23
Alignment explanation
Indices: 2041008--2041051 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
2040998 AGTTGCATGC
2041008 CCCCCACATGCAGACGTGCAGGA
1 CCCCCACATGCAGACGTGCAGGA
2041031 CCCCCACATGCAGACGTGCAG
1 CCCCCACATGCAGACGTGCAG
2041052 CCTTGCAGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.25, C:0.41, G:0.25, T:0.09
Consensus pattern (23 bp):
CCCCCACATGCAGACGTGCAGGA
Found at i:2041096 original size:22 final size:22
Alignment explanation
Indices: 2041068--2041121 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
2041058 AGGACCCACG
2041068 ACCCGTGATTTCTCCTTGCAGA
1 ACCCGTGATTTCTCCTTGCAGA
* *
2041090 ACCCGTGCTCTCTCCTTGCAGA
1 ACCCGTGATTTCTCCTTGCAGA
2041112 ACCCGTGATT
1 ACCCGTGATT
2041122 CTCACGTCCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.17, C:0.35, G:0.19, T:0.30
Consensus pattern (22 bp):
ACCCGTGATTTCTCCTTGCAGA
Found at i:2041528 original size:19 final size:19
Alignment explanation
Indices: 2041504--2041566 Score: 92
Period size: 19 Copynumber: 3.3 Consensus size: 19
2041494 TTTTTATTAT
2041504 TTTTATATTAAAATTATAA
1 TTTTATATTAAAATTATAA
*
2041523 TTTTATATTAAAATTTTAA
1 TTTTATATTAAAATTATAA
*
2041542 TTTTA-ATCAAAATTATAAA
1 TTTTATATTAAAATTAT-AA
2041561 TTTTAT
1 TTTTAT
2041567 CATTTTCAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
18 9 0.23
19 30 0.77
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (19 bp):
TTTTATATTAAAATTATAA
Found at i:2041568 original size:18 final size:18
Alignment explanation
Indices: 2041513--2041568 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
2041503 TTTTTATATT
* *
2041513 AAAATTATAATTTTATATT
1 AAAATTATAAATTT-TATC
*
2041532 AAAATT-TTAATTTTAATC
1 AAAATTATAAATTTT-ATC
2041550 AAAATTATAAATTTTATC
1 AAAATTATAAATTTTATC
2041568 A
1 A
2041569 TTTTCAAAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
17 1 0.03
18 17 0.55
19 13 0.42
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (18 bp):
AAAATTATAAATTTTATC
Found at i:2043990 original size:2 final size:2
Alignment explanation
Indices: 2043983--2044016 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
2043973 TAAAATGCCA
2043983 AT 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 AT
2044017 TAGTTGTAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2051772 original size:36 final size:36
Alignment explanation
Indices: 2051732--2051814 Score: 130
Period size: 36 Copynumber: 2.3 Consensus size: 36
2051722 ACTGAATTAA
*
2051732 ACGGGGACGGGGGAAAACCGTTTATGCTAAACGGGG
1 ACGGGGACGGGGAAAAACCGTTTATGCTAAACGGGG
* * *
2051768 ACGGGGATGGAGAAAAACCGTTTATGTTAAACGGGG
1 ACGGGGACGGGGAAAAACCGTTTATGCTAAACGGGG
2051804 ACGGGGACGGG
1 ACGGGGACGGG
2051815 TTTAGTAATC
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.29, C:0.14, G:0.42, T:0.14
Consensus pattern (36 bp):
ACGGGGACGGGGAAAAACCGTTTATGCTAAACGGGG
Found at i:2059827 original size:53 final size:51
Alignment explanation
Indices: 2059682--2059827 Score: 170
Period size: 53 Copynumber: 2.7 Consensus size: 51
2059672 AATGATTATG
*
2059682 AAATTACGATGAATGAAGAAATTTGAAACTGATTGAAGAACAATTCATGAAGAA
1 AAATT-CGATGAATGAAGAAATCT-AAACTGATTGAAG-ACAATTCATGAAGAA
* *
2059736 AAATTCGATGATTGAAGAAATCTTAAACAGATTGAAGACAGA-TC-TGAAGAA
1 AAATTCGATGAATGAAGAAATC-TAAACTGATTGAAGACA-ATTCATGAAGAA
*
2059787 AGATATCTGATGAATGAAGAAATCTAAAGCTGATTGAAGAC
1 AAAT-TC-GATGAATGAAGAAATCTAAA-CTGATTGAAGAC
2059828 TTCCTTTAAA
Statistics
Matches: 81, Mismatches: 6, Indels: 11
0.83 0.06 0.11
Matches are distributed among these distances:
51 10 0.12
52 11 0.14
53 54 0.67
54 6 0.07
ACGTcount: A:0.47, C:0.09, G:0.20, T:0.24
Consensus pattern (51 bp):
AAATTCGATGAATGAAGAAATCTAAACTGATTGAAGACAATTCATGAAGAA
Found at i:2062609 original size:8 final size:8
Alignment explanation
Indices: 2062596--2062672 Score: 54
Period size: 9 Copynumber: 9.5 Consensus size: 8
2062586 TCCATTAGAA
2062596 AAAAAAGG
1 AAAAAAGG
2062604 -AAAAA--
1 AAAAAAGG
*
2062609 AAAAAGGG
1 AAAAAAGG
*
2062617 AAAAAAAAAG
1 -AA-AAAAGG
2062627 AAAAAAAGG
1 AA-AAAAGG
*
2062636 AAAAAAAGTA
1 -AAAAAAG-G
2062646 AAAAAAGG
1 AAAAAAGG
2062654 AAAAAAGG
1 AAAAAAGG
2062662 AAAAAA-G
1 AAAAAAGG
2062669 AAAA
1 AAAA
2062673 TAAAGAAAAT
Statistics
Matches: 56, Mismatches: 6, Indels: 15
0.73 0.08 0.19
Matches are distributed among these distances:
6 4 0.07
7 10 0.18
8 14 0.25
9 22 0.39
10 6 0.11
ACGTcount: A:0.81, C:0.00, G:0.18, T:0.01
Consensus pattern (8 bp):
AAAAAAGG
Found at i:2062609 original size:9 final size:9
Alignment explanation
Indices: 2062607--2062711 Score: 81
Period size: 9 Copynumber: 11.4 Consensus size: 9
2062597 AAAAAGGAAA
2062607 AAAAAAAGGG
1 AAAAAAA-GG
*
2062617 AAAAAAAAAG
1 -AAAAAAAGG
2062627 AAAAAAAGG
1 AAAAAAAGG
*
2062636 AAAAAAAGT
1 AAAAAAAGG
2062645 AAAAAAAGG
1 AAAAAAAGG
2062654 -AAAAAAGG
1 AAAAAAAGG
2062662 -AAAAAA-G
1 AAAAAAAGG
*
2062669 AAAATAAAGA
1 AAAA-AAAGG
*
2062679 AAATAAAAGA
1 AAA-AAAAGG
*
2062689 AAGAAAAAAG
1 AA-AAAAAGG
* *
2062699 AAATAAATG
1 AAAAAAAGG
2062708 AAAA
1 AAAA
2062712 TGAAATGAAT
Statistics
Matches: 79, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
7 1 0.01
8 17 0.22
9 35 0.44
10 17 0.22
11 9 0.11
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.05
Consensus pattern (9 bp):
AAAAAAAGG
Found at i:2062612 original size:13 final size:13
Alignment explanation
Indices: 2062594--2062625 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
2062584 CATCCATTAG
2062594 AAAAAAAAGGAAA
1 AAAAAAAAGGAAA
*
2062607 AAAAAAAGGGAAA
1 AAAAAAAAGGAAA
2062620 AAAAAA
1 AAAAAA
2062626 GAAAAAAAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (13 bp):
AAAAAAAAGGAAA
Found at i:2062630 original size:18 final size:16
Alignment explanation
Indices: 2062594--2062697 Score: 70
Period size: 16 Copynumber: 6.2 Consensus size: 16
2062584 CATCCATTAG
2062594 AAAAAAAAGGAAAAAA
1 AAAAAAAAGGAAAAAA
*
2062610 AAAAGGGAAA--AAAAAA
1 AAAA--AAAAGGAAAAAA
*
2062626 GAAAAAAAGGAAAAAA
1 AAAAAAAAGGAAAAAA
2062642 AGTAAAAAAAGGAAAAAA
1 A--AAAAAAAGGAAAAAA
**
2062660 GGAAAAAA-GAAAATAA
1 AAAAAAAAGGAAAA-AA
*
2062676 AGAAAATAAAAGAAAGAAA
1 A-AAAA-AAAGGAAA-AAA
2062695 AAA
1 AAA
2062698 GAAATAAATG
Statistics
Matches: 69, Mismatches: 8, Indels: 20
0.71 0.08 0.21
Matches are distributed among these distances:
14 3 0.04
15 5 0.07
16 27 0.39
17 3 0.04
18 23 0.33
19 7 0.10
20 1 0.01
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.03
Consensus pattern (16 bp):
AAAAAAAAGGAAAAAA
Found at i:2062651 original size:12 final size:12
Alignment explanation
Indices: 2062594--2062633 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
2062584 CATCCATTAG
2062594 AAAAAAAAGGAA
1 AAAAAAAAGGAA
*
2062606 AAAAAAAAGGGA
1 AAAAAAAAGGAA
2062618 AAAAAAAA-GAA
1 AAAAAAAAGGAA
2062629 AAAAA
1 AAAAA
2062634 GGAAAAAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
11 7 0.27
12 19 0.73
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (12 bp):
AAAAAAAAGGAA
Found at i:2062658 original size:34 final size:36
Alignment explanation
Indices: 2062620--2062712 Score: 102
Period size: 34 Copynumber: 2.6 Consensus size: 36
2062610 AAAAGGGAAA
*
2062620 AAAAAAGAAAAAAAGGAAAA-AAAGTAAA-AAAAG-G
1 AAAAAAGAAAAAAA-GAAAATAAAGAAAATAAAAGAG
*
2062654 AAAAAAGGAAAAAAGAAAATAAAGAAAATAAAAGAAAG
1 AAAAAAGAAAAAAAGAAAATAAAGAAAATAAAAG--AG
*
2062692 AAAAAAGAAATAAATGAAAAT
1 AAAAAAGAAA-AAAAGAAAAT
2062713 GAAATGAATC
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
33 5 0.10
34 20 0.41
35 5 0.10
38 10 0.20
39 9 0.18
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.06
Consensus pattern (36 bp):
AAAAAAGAAAAAAAGAAAATAAAGAAAATAAAAGAG
Found at i:2062690 original size:26 final size:25
Alignment explanation
Indices: 2062619--2062690 Score: 92
Period size: 26 Copynumber: 2.8 Consensus size: 25
2062609 AAAAAGGGAA
2062619 AAAAAAAGAAAAAAAGGAAAAAAAGT
1 AAAAAAAGAAAAAAAGG-AAAAAAGT
*
2062645 AAAAAAAGGAAAAAAGGAAAAAAG-
1 AAAAAAAGAAAAAAAGGAAAAAAGT
*
2062669 AAAATAAAGAAAATAAAAGAAA
1 AAAA-AAAGAAAA-AAAGGAAA
2062691 GAAAAAAGAA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
24 4 0.10
25 14 0.34
26 23 0.56
ACGTcount: A:0.81, C:0.00, G:0.15, T:0.04
Consensus pattern (25 bp):
AAAAAAAGAAAAAAAGGAAAAAAGT
Found at i:2062717 original size:15 final size:14
Alignment explanation
Indices: 2062670--2062717 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
2062660 GGAAAAAAGA
*
2062670 AAATAAAGAAAATA
1 AAATAAAGAAAATG
* *
2062684 AAAGAAAGAAAAAAG
1 AAATAAAG-AAAATG
2062699 AAATAAATGAAAATG
1 AAATAAA-GAAAATG
2062714 AAAT
1 AAAT
2062718 GAATCAGATG
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
14 7 0.26
15 19 0.70
16 1 0.04
ACGTcount: A:0.75, C:0.00, G:0.12, T:0.12
Consensus pattern (14 bp):
AAATAAAGAAAATG
Found at i:2065668 original size:40 final size:40
Alignment explanation
Indices: 2065516--2065873 Score: 514
Period size: 40 Copynumber: 9.1 Consensus size: 40
2065506 CAGAGGATTC
*
2065516 ATCTCACTCAAGATTGTTTTTCCTTG-AA-A-TAGATTTT
1 ATCTCACTCAAGATTGTTTTTCCTTGAAACAGAAGATTTT
** *
2065553 ATCTCGTTCAAGATTG-TTTTCCTTGAAATAGAAGATTTT
1 ATCTCACTCAAGATTGTTTTTCCTTGAAACAGAAGATTTT
* *
2065592 ATCTCGCTCAAGATTGTTTTT-CTTGAAACATAAGATTTT
1 ATCTCACTCAAGATTGTTTTTCCTTGAAACAGAAGATTTT
*
2065631 ATCTCACTCAAGATTGTTTTTCCTTGAAATAGAAGATTTT
1 ATCTCACTCAAGATTGTTTTTCCTTGAAACAGAAGATTTT
*
2065671 ATCTCATTCAAGATTG-TTTTCCTTGAAACAGAAGATTTT
1 ATCTCACTCAAGATTGTTTTTCCTTGAAACAGAAGATTTT
*
2065710 ATCTCATTCAAGATTGTTTTTCCTTGAAACAGAAGATTTT
1 ATCTCACTCAAGATTGTTTTTCCTTGAAACAGAAGATTTT
*
2065750 ATCTCATTCAAGATTGTTTTTCCTTGAAACAGAAGATTTT
1 ATCTCACTCAAGATTGTTTTTCCTTGAAACAGAAGATTTT
2065790 ATCTCACTCAAGATTGTTTTTCCTTGAAACAGAAGATTTT
1 ATCTCACTCAAGATTGTTTTTCCTTGAAACAGAAGATTTT
* ** * * * *
2065830 ATCTCGCTTTAGATAG-TTTCCCTCGAAACAAAAGATTTT
1 ATCTCACTCAAGATTGTTTTTCCTTGAAACAGAAGATTTT
2065869 ATCTC
1 ATCTC
2065874 GCTTGAGATA
Statistics
Matches: 296, Mismatches: 19, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
36 9 0.03
37 16 0.05
38 1 0.00
39 121 0.41
40 149 0.50
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.42
Consensus pattern (40 bp):
ATCTCACTCAAGATTGTTTTTCCTTGAAACAGAAGATTTT
Found at i:2065672 original size:79 final size:79
Alignment explanation
Indices: 2065516--2065873 Score: 499
Period size: 79 Copynumber: 4.6 Consensus size: 79
2065506 CAGAGGATTC
* **
2065516 ATCTCACTCAAGATTGTTTTTCCTTG-AA-A-TAGATTTTATCTCGTTCAAGATTG-TTTTCCTT
1 ATCTCACTCAAGATTGTTTTT-CTTGAAACAGAAGATTTTATCTCACTCAAGATTGTTTTTCCTT
*
2065577 GAAATAGAAGATTTT
65 GAAACAGAAGATTTT
* *
2065592 ATCTCGCTCAAGATTGTTTTTCTTGAAACATAAGATTTTATCTCACTCAAGATTGTTTTTCCTTG
1 ATCTCACTCAAGATTGTTTTTCTTGAAACAGAAGATTTTATCTCACTCAAGATTGTTTTTCCTTG
*
2065657 AAATAGAAGATTTT
66 AAACAGAAGATTTT
* * *
2065671 ATCTCATTCAAGATTGTTTTCCTTGAAACAGAAGATTTTATCTCATTCAAGATTGTTTTTCCTTG
1 ATCTCACTCAAGATTGTTTTTCTTGAAACAGAAGATTTTATCTCACTCAAGATTGTTTTTCCTTG
2065736 AAACAGAAGATTTT
66 AAACAGAAGATTTT
*
2065750 ATCTCATTCAAGATTGTTTTTCCTTGAAACAGAAGATTTTATCTCACTCAAGATTGTTTTTCCTT
1 ATCTCACTCAAGATTGTTTTT-CTTGAAACAGAAGATTTTATCTCACTCAAGATTGTTTTTCCTT
2065815 GAAACAGAAGATTTT
65 GAAACAGAAGATTTT
* ** * ** * *
2065830 ATCTCGCTTTAGATAGTTTCCCTCGAAACAAAAGATTTTATCTC
1 ATCTCACTCAAGATTGTTTTTCTTGAAACAGAAGATTTTATCTC
2065874 GCTTGAGATA
Statistics
Matches: 256, Mismatches: 21, Indels: 7
0.90 0.07 0.02
Matches are distributed among these distances:
75 4 0.02
76 22 0.09
77 1 0.00
78 21 0.08
79 137 0.54
80 71 0.28
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.42
Consensus pattern (79 bp):
ATCTCACTCAAGATTGTTTTTCTTGAAACAGAAGATTTTATCTCACTCAAGATTGTTTTTCCTTG
AAACAGAAGATTTT
Found at i:2065915 original size:36 final size:36
Alignment explanation
Indices: 2065811--2065981 Score: 173
Period size: 36 Copynumber: 4.6 Consensus size: 36
2065801 GATTGTTTTT
* *
2065811 CCTTGAAACAGAAGATTTTATCTCGCTTTAGATAGTTTC
1 CCTTGAAAC--AA-ATTTTGTCTCGCTTGAGATAGTTTC
* *
2065850 CCTCGAAACAAAAGATTTTATCTCGCTTGAGATAGTTTC
1 CCTTGAAAC--AA-ATTTTGTCTCGCTTGAGATAGTTTC
* *
2065889 CCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTC
1 CCTTGAAACAAATTTTGTCTCGCTTGAGATAGTTTC
* * *
2065925 CCTTGAAACAAATTTTGTCTCCCTTGAGATGGTTTT
1 CCTTGAAACAAATTTTGTCTCGCTTGAGATAGTTTC
* *
2065961 TCTTAAAACCAAA-TTTGTCTC
1 CCTTGAAA-CAAATTTTGTCTC
2065982 ACTTAAGACA
Statistics
Matches: 118, Mismatches: 13, Indels: 5
0.87 0.10 0.04
Matches are distributed among these distances:
36 68 0.58
37 6 0.05
39 44 0.37
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.38
Consensus pattern (36 bp):
CCTTGAAACAAATTTTGTCTCGCTTGAGATAGTTTC
Found at i:2065949 original size:21 final size:21
Alignment explanation
Indices: 2065887--2065951 Score: 61
Period size: 21 Copynumber: 3.4 Consensus size: 21
2065877 TGAGATAGTT
2065887 TCCCTTGAAACAAATTTTGTC
1 TCCCTTGAAACAAATTTTGTC
* * *
2065908 TCTCTTGAGAC--A----GTT
1 TCCCTTGAAACAAATTTTGTC
2065923 TCCCTTGAAACAAATTTTGTC
1 TCCCTTGAAACAAATTTTGTC
2065944 TCCCTTGA
1 TCCCTTGA
2065952 GATGGTTTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 12
0.64 0.12 0.24
Matches are distributed among these distances:
15 11 0.34
17 1 0.03
19 1 0.03
21 19 0.59
ACGTcount: A:0.25, C:0.25, G:0.12, T:0.38
Consensus pattern (21 bp):
TCCCTTGAAACAAATTTTGTC
Found at i:2065979 original size:72 final size:74
Alignment explanation
Indices: 2065775--2065991 Score: 179
Period size: 72 Copynumber: 2.9 Consensus size: 74
2065765 GTTTTTCCTT
* ** * * * * * *
2065775 GAAACAGAAGATTTTATCTCACTCAAGATTGTTTTTCCTTGAAACAGAAGATTTTATCTCGCTTT
1 GAAACA-AAGATTTTATCTCCCTTGAGATAG-TTTCCCTT-AAA-ACAA-ATTTTGTCTCACTTA
*
2065840 AGATAGTTTCCCTC
61 AGACAGTTTCCCTC
* * * *
2065854 GAAACAAAAGATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGAC
1 GAAAC-AAAGATTTTATCTCCCTTGAGATAGTTTCCCTTAAAACAAATTTTGTCTCACTTAAGAC
*
2065919 AGTTTCCCTT
65 AGTTTCCCTC
* * **
2065929 GAAAC-AA-ATTTTGTCTCCCTTGAGATGGTTTTTCTTAAAACCAAA-TTTGTCTCACTTAAGAC
1 GAAACAAAGATTTTATCTCCCTTGAGATAGTTTCCCTTAAAA-CAAATTTTGTCTCACTTAAGAC
2065991 A
65 A
2065992 AGCTTCTCTT
Statistics
Matches: 116, Mismatches: 20, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
72 43 0.37
73 6 0.05
75 29 0.25
76 3 0.03
77 2 0.02
78 7 0.06
79 25 0.22
80 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.37
Consensus pattern (74 bp):
GAAACAAAGATTTTATCTCCCTTGAGATAGTTTCCCTTAAAACAAATTTTGTCTCACTTAAGACA
GTTTCCCTC
Found at i:2066500 original size:135 final size:136
Alignment explanation
Indices: 2066268--2066737 Score: 686
Period size: 135 Copynumber: 3.5 Consensus size: 136
2066258 TTTCCAGTAC
* *
2066268 AGAGTTCATAATGAGAAGAATTCATCCGACAGAGGGAGAAGGAGTTCATAATGAGAAGAGCTTGT
1 AGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATGAGAAGAGCTTGT
* *
2066333 TCGACCTATCACTTGATTCACGGCATTTCGAATCAGTGACACCTCACTTGAGGGATTAATATTTC
66 TCGACCTATCACTCGATTCACGGCATTTCGAATCAGTGACACCTCACTTGAGGGATTAACATTTC
2066398 CAATTG
131 CAATTG
*
2066404 AGAGTTCACAATGAGAAGAACTCATCCGACAGA-GGAGAAGAAGTTCATAATGAGAAGAGCTTGT
1 AGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATGAGAAGAGCTTGT
*
2066468 TCGACCTATCACTCGATTCACGGCATTTCGAATCAGTGACACCTCACTTGAGGGATTGACATTTC
66 TCGACCTATCACTCGATTCACGGCATTTCGAATCAGTGACACCTCACTTGAGGGATTAACATTTC
2066533 CAATTG
131 CAATTG
* * *
2066539 AGAGTTCATAATGAGAAGAACTCATCTGATAGAGGGAGAAGAAGTTCATAATGATAAGAGCTTGT
1 AGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATGAGAAGAGCTTGT
* * * * *
2066604 TTGACCTATCACTCGATTCACGGTATTTCGAAACCAGTGA-AGCCTCGCTTGAGGGATCAACATT
66 TCGACCTATCACTCGATTCACGGCATTTCG-AATCAGTGACA-CCTCACTTGAGGGATTAACATT
2066668 TCCAA-TG
129 TCCAATTG
* * * * *
2066675 AAAAGTTCATAATGAGAAGAACTCGTCCTA-A-A-GGAG-A-ATGTTCATAATGAGAAGAACTTG
1 -AGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATGAGAAGAGCTTG
2066735 TTC
65 TTC
2066738 CTTTCAAATT
Statistics
Matches: 306, Mismatches: 24, Indels: 12
0.89 0.07 0.04
Matches are distributed among these distances:
132 22 0.07
133 1 0.00
134 4 0.01
135 129 0.42
136 93 0.30
137 57 0.19
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (136 bp):
AGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATGAGAAGAGCTTGT
TCGACCTATCACTCGATTCACGGCATTTCGAATCAGTGACACCTCACTTGAGGGATTAACATTTC
CAATTG
Found at i:2066893 original size:105 final size:105
Alignment explanation
Indices: 2066661--2066902 Score: 312
Period size: 105 Copynumber: 2.3 Consensus size: 105
2066651 CTTGAGGGAT
* * *
2066661 CAACATTTCCAATGAAAAGTTCATAATGAGAAGAACTCGTCCTAAAGGAGAATGTTCATAATGAG
1 CAACATTTCC-A-GAAGAGTTCATAATGAGAAGAACTCGTCCTAAAAGAGAAAGTTCATAATGAG
* *
2066726 AAGAACTTGTTCCTTTCAAATTCACCACAGAAGGAGGTGAAC
64 AAGAACGTGTTCCTTTCAAAGTCACCACAGAAGGAGGTGAAC
2066768 CAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGTCCTAAAAGAGAAAGTTCATAATGAGAA
1 CAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGTCCTAAAAGAGAAAGTTCATAATGAGAA
* * *
2066833 GAACGTGTTCC-TTCCAAGTC-CCGCAGAATGAGGTG-AC
66 GAACGTGTTCCTTTCAAAGTCACCACAGAAGGAGGTGAAC
* *
2066870 TCAAGATTTTCA-ATAGAGGGTTCATAATGAGAA
1 -CAACATTTCCAGA-AGA--GTTCATAATGAGAA
2066903 TGACTTGTCC
Statistics
Matches: 121, Mismatches: 10, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
102 3 0.02
103 25 0.21
104 7 0.06
105 75 0.62
106 1 0.01
107 10 0.08
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.24
Consensus pattern (105 bp):
CAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGTCCTAAAAGAGAAAGTTCATAATGAGAA
GAACGTGTTCCTTTCAAAGTCACCACAGAAGGAGGTGAAC
Found at i:2072861 original size:2 final size:2
Alignment explanation
Indices: 2072856--2072897 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
2072846 TGAAACATGC
* *
2072856 AT AT AT AT CT AT CT 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 AT AT AT AT AT
2072898 TCATGGGACT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2074576 original size:119 final size:118
Alignment explanation
Indices: 2074446--2074667 Score: 329
Period size: 119 Copynumber: 1.9 Consensus size: 118
2074436 GCAAATGACT
*
2074446 GAACAAATTCTTCTCATTATGAACTTCTTCTCCATTTTCGGATGAATTATTCTCATTATGAAC-C
1 GAACAAATTCTTCTCATTATGAACTTATTCTCCATTTTCGGATGAATTATTCTCATTATGAACTC
* *
2074510 ATTCCATTGGAAATGTTGATCCACCTCCTCCTGTGATGGATTTGAGCAAAAGGTC
66 --TCCACTAGAAATGTTGATCCACCTCCTCCTGTGATGGATTTGAGCAAAAGGTC
* * * * *
2074565 GAACAAGTTCTTCTCATTATGAACTTATTTTCCCTTTTCGGATGAGTTTTTCTCATTATGAACTC
1 GAACAAATTCTTCTCATTATGAACTTATTCTCCATTTTCGGATGAATTATTCTCATTATGAACTC
* *
2074630 TCCACTAGAAATGTTGATCCATCTCCTTCTGTGATGGA
66 TCCACTAGAAATGTTGATCCACCTCCTCCTGTGATGGA
2074668 ATCGTCGAGT
Statistics
Matches: 92, Mismatches: 10, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
118 34 0.37
119 57 0.62
120 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.38
Consensus pattern (118 bp):
GAACAAATTCTTCTCATTATGAACTTATTCTCCATTTTCGGATGAATTATTCTCATTATGAACTC
TCCACTAGAAATGTTGATCCACCTCCTCCTGTGATGGATTTGAGCAAAAGGTC
Found at i:2075444 original size:154 final size:155
Alignment explanation
Indices: 2075163--2075458 Score: 452
Period size: 154 Copynumber: 1.9 Consensus size: 155
2075153 TACTAATGGC
* **
2075163 CTAAGTAAGAAACTTTGGAAATCGTTTTCTTACTTTTCAAAAATCAATTTTCATAAAAGATTTAA
1 CTAAGTAAGAAACTTTGGAAATCATTTTCTTACTTTAAAAAAATCAATTTTCATAAAAGATTTAA
* * * *
2075228 ATGAGAAACTTTGGAAATCATTTTCTTATTTTTTGAAAATCATGTGAAAACATCATGCCCGAAGG
66 ATGAGAAACTTTGGAAATCACTTTCTCATTTTTCGAAAATCATGTGAAAACATCATACCCGAAGG
*
2075293 TCTTATGTATGGGTCGAACGACTTA
131 TCTTATGGATGGGTCGAACGACTTA
* *
2075318 CTAAGTAAGAAACTTTGGAAATTATTATTTTTA-TTTAAAAAAATCAATTTTCA-AAAAGATTTA
1 CTAAGTAAGAAACTTTGGAAATCATT-TTCTTACTTTAAAAAAATCAATTTTCATAAAAGATTTA
* * *
2075381 AATGAGAAGCTTTGGAAATCGCTTTCTCATTTTTCGAAAATCATGTGAAAACATCCTACCCGAAG
65 AATGAGAAACTTTGGAAATCACTTTCTCATTTTTCGAAAATCATGTGAAAACATCATACCCGAAG
2075446 GTCTTATGGATGG
130 GTCTTATGGATGG
2075459 CCCGGAGGAC
Statistics
Matches: 127, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
154 80 0.63
155 42 0.33
156 5 0.04
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.35
Consensus pattern (155 bp):
CTAAGTAAGAAACTTTGGAAATCATTTTCTTACTTTAAAAAAATCAATTTTCATAAAAGATTTAA
ATGAGAAACTTTGGAAATCACTTTCTCATTTTTCGAAAATCATGTGAAAACATCATACCCGAAGG
TCTTATGGATGGGTCGAACGACTTA
Found at i:2075989 original size:54 final size:53
Alignment explanation
Indices: 2075864--2076007 Score: 161
Period size: 49 Copynumber: 2.8 Consensus size: 53
2075854 TACAATTATC
* * * * *
2075864 ATCAAGAAACCCCTAAAAATTAAGCTTATCTTCTTTAAAAATTCATTTGAAGA
1 ATCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTTAAAAATCCATCTGAAAA
* * *
2075917 AT-AAG---CCCTTTAAAATTAGGCTTAGCTTCTTTCAAAATCCATCTGAATAA
1 ATCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTTAAAAATCCATCTGAA-AA
* *
2075967 ATCAAGAAACCCCTAAAAATTAGGCTTAGCTTATTTGAAAA
1 ATCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTTAAAAA
2076008 CTCATTTATA
Statistics
Matches: 74, Mismatches: 12, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
49 35 0.47
50 3 0.04
51 3 0.04
52 3 0.04
53 2 0.03
54 28 0.38
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.31
Consensus pattern (53 bp):
ATCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTTAAAAATCCATCTGAAAA
Found at i:2076147 original size:55 final size:55
Alignment explanation
Indices: 2075967--2076150 Score: 167
Period size: 55 Copynumber: 3.4 Consensus size: 55
2075957 ATCTGAATAA
** * * * *
2075967 ATCAAGAAACCCCTAAAAATTAGGCTTAGCTTATTTGAAAACTCATTTATAAATC
1 ATCAAGAAACTTCTGAAAATCAGGTTTAGCTTATTTGAAAACTCATTTAAAAATC
* * * * * * * *
2076022 ATCAAGAGACTTCTAAAAATCAGACTTT-GTTTCTTTTAAAATTC-TTTGGAAAA-C
1 ATCAAGAAACTTCTGAAAATCAG-GTTTAGCTTATTTGAAAACTCATTT-AAAAATC
** *
2076076 ATCAAGAAACCCCTGAAAATCAGGTTTAACTTATTTGAAAACTCATTTAAAAATC
1 ATCAAGAAACTTCTGAAAATCAGGTTTAGCTTATTTGAAAACTCATTTAAAAATC
*
2076131 ACCAAGAAACTTCTGAAAAT
1 ATCAAGAAACTTCTGAAAAT
2076151 TTGTTTCTTT
Statistics
Matches: 98, Mismatches: 26, Indels: 10
0.73 0.19 0.07
Matches are distributed among these distances:
53 3 0.03
54 38 0.39
55 55 0.56
56 2 0.02
ACGTcount: A:0.42, C:0.17, G:0.10, T:0.31
Consensus pattern (55 bp):
ATCAAGAAACTTCTGAAAATCAGGTTTAGCTTATTTGAAAACTCATTTAAAAATC
Found at i:2076214 original size:205 final size:206
Alignment explanation
Indices: 2075967--2076349 Score: 509
Period size: 205 Copynumber: 1.9 Consensus size: 206
2075957 ATCTGAATAA
* * * * *
2075967 ATCAAGAAACCCCTAAAAATTAGGCTTAGCTTATTTGAAAACTCATTTATAAATCATCAAGAGAC
1 ATCAAGAAACCCCTAAAAATCAGGCTTAGCTTATTTGAAAACTAATTTAAAAACCATCAAGAAAC
* * * * **
2076032 TTCTAAAAATCAGACTTTGTTTCTTTTAAAATTC-TTT-GGAAAACATCAAGAAACCCCTGAAAA
66 TTATAAAAATCAGACTTAGTTTCTTTGAAAACTCATTTAAAAAAACATCAAGAAACCCCTGAAAA
* *
2076095 TCAGGTTTAACTTATTTGAAAACTCATTTAAAAATCACCAAGAAACTTCTGAAAATTTGTTTCTT
131 TCA-GCTTAACTTATTTCAAAACTCATTTAAAAATCACCAAGAAACTTCTGAAAATTTGTTTCTT
2076160 TGAATTAAAAAC
195 TGAATTAAAAAC
* * * *
2076172 ATCAAGAAACCTCTGAAAATCAGGCTTATCTTTTTTGAAAACTAATTTAAAAACCATCAAGAAAC
1 ATCAAGAAACCCCTAAAAATCAGGCTTAGCTTATTTGAAAACTAATTTAAAAACCATCAAGAAAC
* **
2076237 TTATGAAAATCAGACTTAGTTTCTTTGAAAACTCATTTAAAAAAACATCAAGAAACTTCTGAAAA
66 TTATAAAAATCAGACTTAGTTTCTTTGAAAACTCATTTAAAAAAACATCAAGAAACCCCTGAAAA
** * * * *
2076302 TCAGCTTAGTTTCTTTCAAAATTTATTTAAAAATCATCAAGAAACTTC
131 TCAGCTTAACTTATTTCAAAACTCATTTAAAAATCACCAAGAAACTTC
2076350 CAAACTTCTT
Statistics
Matches: 150, Mismatches: 26, Indels: 3
0.84 0.15 0.02
Matches are distributed among these distances:
205 85 0.57
206 40 0.27
207 25 0.17
ACGTcount: A:0.42, C:0.16, G:0.09, T:0.32
Consensus pattern (206 bp):
ATCAAGAAACCCCTAAAAATCAGGCTTAGCTTATTTGAAAACTAATTTAAAAACCATCAAGAAAC
TTATAAAAATCAGACTTAGTTTCTTTGAAAACTCATTTAAAAAAACATCAAGAAACCCCTGAAAA
TCAGCTTAACTTATTTCAAAACTCATTTAAAAATCACCAAGAAACTTCTGAAAATTTGTTTCTTT
GAATTAAAAAC
Found at i:2076235 original size:96 final size:96
Alignment explanation
Indices: 2076071--2076246 Score: 280
Period size: 96 Copynumber: 1.8 Consensus size: 96
2076061 AATTCTTTGG
* * *
2076071 AAAACATCAAGAAACCCCTGAAAATCAGGTTTAACTTATTTGAAAACTCATTTAAAAATCACCAA
1 AAAACATCAAGAAACCCCTGAAAATCAGGCTTAACTTATTTGAAAACTAATTTAAAAACCACCAA
*
2076136 GAAACTTCTGAAAATTTGTTTCTTTGAATTA
66 GAAACTTATGAAAATTTGTTTCTTTGAATTA
* * * *
2076167 AAAACATCAAGAAACCTCTGAAAATCAGGCTTATCTTTTTTGAAAACTAATTTAAAAACCATCAA
1 AAAACATCAAGAAACCCCTGAAAATCAGGCTTAACTTATTTGAAAACTAATTTAAAAACCACCAA
2076232 GAAACTTATGAAAAT
66 GAAACTTATGAAAAT
2076247 CAGACTTAGT
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
96 72 1.00
ACGTcount: A:0.45, C:0.16, G:0.09, T:0.30
Consensus pattern (96 bp):
AAAACATCAAGAAACCCCTGAAAATCAGGCTTAACTTATTTGAAAACTAATTTAAAAACCACCAA
GAAACTTATGAAAATTTGTTTCTTTGAATTA
Found at i:2076304 original size:56 final size:54
Alignment explanation
Indices: 2076166--2076349 Score: 244
Period size: 55 Copynumber: 3.4 Consensus size: 54
2076156 TCTTTGAATT
* *
2076166 AAAAACATCAAGAAACCTCTGAAAATCAGGCTTA-TCTTTTTTGAAAACTAATTTA
1 AAAAACATCAAGAAACTTCTGAAAATCA-GCTTAGT-TTCTTTGAAAACTAATTTA
* * *
2076221 AAAACCATCAAGAAACTTATGAAAATCAGACTTAGTTTCTTTGAAAACTCATTTAA
1 AAAAACATCAAGAAACTTCTGAAAATCAG-CTTAGTTTCTTTGAAAACTAATTT-A
* * *
2076277 AAAAACATCAAGAAACTTCTGAAAATCAGCTTAGTTTCTTTCAAAATTTATTTA
1 AAAAACATCAAGAAACTTCTGAAAATCAGCTTAGTTTCTTTGAAAACTAATTTA
*
2076331 AAAATCATCAAGAAACTTC
1 AAAAACATCAAGAAACTTC
2076350 CAAACTTCTT
Statistics
Matches: 115, Mismatches: 11, Indels: 7
0.86 0.08 0.05
Matches are distributed among these distances:
54 20 0.17
55 66 0.57
56 29 0.25
ACGTcount: A:0.45, C:0.16, G:0.08, T:0.31
Consensus pattern (54 bp):
AAAAACATCAAGAAACTTCTGAAAATCAGCTTAGTTTCTTTGAAAACTAATTTA
Found at i:2079925 original size:21 final size:21
Alignment explanation
Indices: 2079895--2079959 Score: 103
Period size: 21 Copynumber: 3.0 Consensus size: 21
2079885 CTGTAGAGTA
*
2079895 CTGTAACAGGGTATCGGTTCC
1 CTGTAGCAGGGTATCGGTTCC
2079916 CTGTAGCAGGGTATCGGTTCC
1 CTGTAGCAGGGTATCGGTTCC
*
2079937 CTGTAGCAGGGGAATCGGTTCC
1 CTGTAGCA-GGGTATCGGTTCC
2079959 C
1 C
2079960 CTATGACAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
21 28 0.68
22 13 0.32
ACGTcount: A:0.17, C:0.25, G:0.32, T:0.26
Consensus pattern (21 bp):
CTGTAGCAGGGTATCGGTTCC
Found at i:2088912 original size:14 final size:14
Alignment explanation
Indices: 2088890--2088923 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
2088880 CAAATTAACG
2088890 GTTAATGGTTAGAC
1 GTTAATGGTTAGAC
* *
2088904 GTTAGTGGTTAGAT
1 GTTAATGGTTAGAC
2088918 GTTAAT
1 GTTAAT
2088924 AGAATGCAGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.26, C:0.03, G:0.29, T:0.41
Consensus pattern (14 bp):
GTTAATGGTTAGAC
Found at i:2090354 original size:32 final size:32
Alignment explanation
Indices: 2090318--2090378 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
2090308 GGACATAATT
2090318 AATAAAATAAATAAATAAACT-AAAAAATTCAA
1 AATAAAATAAATAAATAAA-TGAAAAAATTCAA
*
2090350 AATAAAATAAATAATTAAATGAAAAAATT
1 AATAAAATAAATAAATAAATGAAAAAATT
2090379 TGAAATTCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 1 0.04
32 26 0.96
ACGTcount: A:0.70, C:0.03, G:0.02, T:0.25
Consensus pattern (32 bp):
AATAAAATAAATAAATAAATGAAAAAATTCAA
Found at i:2090702 original size:21 final size:21
Alignment explanation
Indices: 2090676--2090715 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
2090666 TTCACAATCC
*
2090676 TGACGTGATAATCCACGATGT
1 TGACGTAATAATCCACGATGT
2090697 TGACGTAATAATCCACGAT
1 TGACGTAATAATCCACGAT
2090716 AACTAATGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.28
Consensus pattern (21 bp):
TGACGTAATAATCCACGATGT
Found at i:2090863 original size:23 final size:24
Alignment explanation
Indices: 2090819--2090878 Score: 77
Period size: 23 Copynumber: 2.5 Consensus size: 24
2090809 TATTTAATTT
* *
2090819 ATTTAAAATATAAAAATCATTTTAA
1 ATTTTAAATATAAAAA-CATTTCAA
2090844 ATTTTAAATATAAAAA-ATTTCAA
1 ATTTTAAATATAAAAACATTTCAA
*
2090867 AATTTAAATATA
1 ATTTTAAATATA
2090879 TATTAAAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
23 17 0.53
25 15 0.47
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (24 bp):
ATTTTAAATATAAAAACATTTCAA
Found at i:2090879 original size:25 final size:24
Alignment explanation
Indices: 2090819--2090880 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
2090809 TATTTAATTT
*
2090819 ATTTAAAATATAAAAATCATTTTAA
1 ATTTAAAATATAAAAA-CATTTAAA
*
2090844 ATTTTAAATATAAAAA-ATTTCAAA
1 ATTTAAAATATAAAAACATTT-AAA
2090868 ATTTAAATATATA
1 ATTTAAA-ATATA
2090881 TTAAAAATGG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
23 4 0.12
24 8 0.25
25 20 0.62
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.40
Consensus pattern (24 bp):
ATTTAAAATATAAAAACATTTAAA
Found at i:2101000 original size:12 final size:13
Alignment explanation
Indices: 2100985--2101027 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
2100975 TTGAATTTAT
2100985 ATTTTCA-TTTGC
1 ATTTTCATTTTGC
*
2100997 ATTTTCATTTTAC
1 ATTTTCATTTTGC
*
2101010 ATTTGCATTTTTGC
1 ATTTTCA-TTTTGC
2101024 ATTT
1 ATTT
2101028 GTATTTGCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
12 7 0.27
13 10 0.38
14 9 0.35
ACGTcount: A:0.19, C:0.14, G:0.07, T:0.60
Consensus pattern (13 bp):
ATTTTCATTTTGC
Found at i:2101014 original size:19 final size:18
Alignment explanation
Indices: 2100985--2101020 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
2100975 TTGAATTTAT
2100985 ATTTTCATTTGCATTTTC
1 ATTTTCATTTGCATTTTC
2101003 ATTTTACATTTGCATTTT
1 ATTTT-CATTTGCATTTT
2101021 TGCATTTGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.19, C:0.14, G:0.06, T:0.61
Consensus pattern (18 bp):
ATTTTCATTTGCATTTTC
Found at i:2105711 original size:73 final size:73
Alignment explanation
Indices: 2105620--2106207 Score: 828
Period size: 73 Copynumber: 8.1 Consensus size: 73
2105610 TTTCAAAGCA
* * *
2105620 AAGATTTGTCTCGCTTGAGACAATTTCACTCGAAACAAAAATTTATCTCACTAGAGATAGGTTTT
1 AAGATTTGTCTCGCTTGAGACAGTTTCACTCGAAACAAAAATTTATCTCACTCGAGATAGTTTTT
2105685 CTTAAAAC
66 CTTAAAAC
* * *
2105693 AAGATTTGTCTCGCTTGAGACAGTTTCACTTGAAACAAAAATTTATCTCACTTGAGATCGTTTTT
1 AAGATTTGTCTCGCTTGAGACAGTTTCACTCGAAACAAAAATTTATCTCACTCGAGATAGTTTTT
2105758 CTTAAAAC
66 CTTAAAAC
* * * * *
2105766 AATATTTGTCTCGCTTGAGACAGTTTCACTCAAAATAGAAATTTAACTCACTCGAGATAGTTTTT
1 AAGATTTGTCTCGCTTGAGACAGTTTCACTCGAAACAAAAATTTATCTCACTCGAGATAGTTTTT
2105831 CTTAAAAC
66 CTTAAAAC
* *
2105839 AAGATTCGTCTCGCCTGAGACAGTTTCACTCGAAACAAAAATTTATCTCACTCGAGATAGTTTTT
1 AAGATTTGTCTCGCTTGAGACAGTTTCACTCGAAACAAAAATTTATCTCACTCGAGATAGTTTTT
2105904 CTTAAAAC
66 CTTAAAAC
* * *
2105912 AAGATTTGTCTCACTTGAGA-ATGTTTCACTCGAAATAGAAATTTATCTCACTCGAGATAG-TTT
1 AAGATTTGTCTCGCTTGAGACA-GTTTCACTCGAAACAAAAATTTATCTCACTCGAGATAGTTTT
2105975 TCTTAAAAC
65 TCTTAAAAC
* * * * *
2105984 AAGATTCGTCTCGCCTAAGACAGTTTCACTTGAAAC-AAAATTTATCTCACTCGAAATAGTTTTT
1 AAGATTTGTCTCGCTTGAGACAGTTTCACTCGAAACAAAAATTTATCTCACTCGAGATAGTTTTT
2106048 CTTAAAAC
66 CTTAAAAC
* *
2106056 AA-ACTTTGTCTCGCTTGAGACAGCTTCACTCGAAACAGAAATTTATC-CACTCGAGATAGTTTT
1 AAGA-TTTGTCTCGCTTGAGACAGTTTCACTCGAAACAAAAATTTATCTCACTCGAGATAGTTTT
2106119 TCTTAAAAC
65 TCTTAAAAC
** * * * * * *
2106128 AAGATTCATATCGCTTGAGACAGTTTTTACTCGAAATAAAATTTTATCTCATTTGAGATAGTTTT
1 AAGATTTGTCTCGCTTGAGACAG-TTTCACTCGAAACAAAAATTTATCTCACTCGAGATAGTTTT
2106193 TCTTAAAAC
65 TCTTAAAAC
2106202 AA-ATTT
1 AAGATTT
2106208 CATTTCGCTC
Statistics
Matches: 456, Mismatches: 51, Indels: 16
0.87 0.10 0.03
Matches are distributed among these distances:
71 22 0.05
72 124 0.27
73 285 0.62
74 25 0.05
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.35
Consensus pattern (73 bp):
AAGATTTGTCTCGCTTGAGACAGTTTCACTCGAAACAAAAATTTATCTCACTCGAGATAGTTTTT
CTTAAAAC
Found at i:2105730 original size:36 final size:36
Alignment explanation
Indices: 2105618--2106204 Score: 338
Period size: 36 Copynumber: 16.1 Consensus size: 36
2105608 ATTTTCAAAG
* * * **
2105618 CAAAGATTTGTCTCGCTTGAGACAATTTCACTCGAAA
1 CAAA-ATTTATCTCACTTGAGACAGTTTCACTTAAAA
* * *
2105655 CAAAAATTTATCTCACTAGAGATAGGTTT-TCTTAAAA
1 C-AAAATTTATCTCACTTGAGACA-GTTTCACTTAAAA
* * * *
2105692 CAAGATTTGTCTCGCTTGAGACAGTTTCACTTGAAA
1 CAAAATTTATCTCACTTGAGACAGTTTCACTTAAAA
**
2105728 CAAAAATTTATCTCACTTGAGATC-GTTTTTCTTAAAA
1 C-AAAATTTATCTCACTTGAGA-CAGTTTCACTTAAAA
* * * *
2105765 CAATATTTGTCTCGCTTGAGACAGTTTCACTCAAAA
1 CAAAATTTATCTCACTTGAGACAGTTTCACTTAAAA
* * * * **
2105801 TAGAAATTTAACTCACTCGAGATAGTTTTTCTTAAAA
1 CA-AAATTTATCTCACTTGAGACAGTTTCACTTAAAA
* ** * * **
2105838 CAAGATTCGTCTCGCCTGAGACAGTTTCACTCGAAA
1 CAAAATTTATCTCACTTGAGACAGTTTCACTTAAAA
* * **
2105874 CAAAAATTTATCTCACTCGAGATAGTTTTTCTTAAAA
1 C-AAAATTTATCTCACTTGAGACAGTTTCACTTAAAA
* * **
2105911 CAAGATTTGTCTCACTTGAGA-ATGTTTCACTCGAAA
1 CAAAATTTATCTCACTTGAGACA-GTTTCACTTAAAA
* * * *
2105947 TAGAAATTTATCTCACTCGAGATAGTTT-TCTTAAAA
1 CA-AAATTTATCTCACTTGAGACAGTTTCACTTAAAA
* ** * * * *
2105983 CAAGATTCGTCTCGCCTAAGACAGTTTCACTTGAAA
1 CAAAATTTATCTCACTTGAGACAGTTTCACTTAAAA
* * * **
2106019 CAAAATTTATCTCACTCGAAATAGTTTTTCTTAAAA
1 CAAAATTTATCTCACTTGAGACAGTTTCACTTAAAA
* * * * **
2106055 CAAACTTTGTCTCGCTTGAGACAGCTTCACTCGAAA
1 CAAAATTTATCTCACTTGAGACAGTTTCACTTAAAA
* * **
2106091 CAGAAATTTATC-CACTCGAGATAGTTTTTCTTAAAA
1 CA-AAATTTATCTCACTTGAGACAGTTTCACTTAAAA
* * * * * **
2106127 CAAGATTCATATCGCTTGAGACAGTTTTTACTCGAAA
1 CAAAATTTATCTCACTTGAGACAG-TTTCACTTAAAA
* * * **
2106164 TAAAATTTTATCTCATTTGAGATAGTTTTTCTTAAAA
1 CAAAA-TTTATCTCACTTGAGACAGTTTCACTTAAAA
2106201 CAAA
1 CAAA
2106205 TTTCATTTCG
Statistics
Matches: 395, Mismatches: 139, Indels: 32
0.70 0.25 0.06
Matches are distributed among these distances:
35 29 0.07
36 192 0.49
37 152 0.38
38 22 0.06
ACGTcount: A:0.34, C:0.19, G:0.13, T:0.35
Consensus pattern (36 bp):
CAAAATTTATCTCACTTGAGACAGTTTCACTTAAAA
Found at i:2106358 original size:38 final size:38
Alignment explanation
Indices: 2106281--2106380 Score: 121
Period size: 38 Copynumber: 2.6 Consensus size: 38
2106271 TTTTTATTGG
* * * *
2106281 AGAGTTCTTAATGTGAAGAGCTCATCTGATGAGACAGA
1 AGAGTTCATAATGAGAAGAACTTATCTGATGAGACAGA
**
2106319 AGAGTTCATAATGAGAAGAACTTATCTG-TAGAGGGAGA
1 AGAGTTCATAATGAGAAGAACTTATCTGAT-GAGACAGA
2106357 AGAAGTTCATAATGAGAAGAACTT
1 AG-AGTTCATAATGAGAAGAACTT
2106381 GTTCAACCTT
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
37 1 0.02
38 32 0.59
39 21 0.39
ACGTcount: A:0.39, C:0.10, G:0.26, T:0.25
Consensus pattern (38 bp):
AGAGTTCATAATGAGAAGAACTTATCTGATGAGACAGA
Found at i:2106620 original size:18 final size:18
Alignment explanation
Indices: 2106564--2106620 Score: 62
Period size: 18 Copynumber: 3.1 Consensus size: 18
2106554 CCAGTAGAAG
2106564 AGTTCATAATGAGAAAAA
1 AGTTCATAATGAGAAAAA
**
2106582 CTAGTTCA-AAGTGAGCGAAA
1 --AGTTCATAA-TGAGAAAAA
2106602 AGTTCATAATGAGAAAAA
1 AGTTCATAATGAGAAAAA
2106620 A
1 A
2106621 TTTTAGCTCA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
18 14 0.45
19 4 0.13
20 13 0.42
ACGTcount: A:0.51, C:0.09, G:0.19, T:0.21
Consensus pattern (18 bp):
AGTTCATAATGAGAAAAA
Found at i:2109368 original size:18 final size:18
Alignment explanation
Indices: 2109332--2109365 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
2109322 TTATAGATGA
*
2109332 AAAGAAAGAAAATAGAAG
1 AAAGAAAGAAAATAAAAG
2109350 AAAGAAA-AAAATAAAA
1 AAAGAAAGAAAATAAAA
2109366 AGATTTCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.79, C:0.00, G:0.15, T:0.06
Consensus pattern (18 bp):
AAAGAAAGAAAATAAAAG
Found at i:2112021 original size:34 final size:35
Alignment explanation
Indices: 2111983--2112096 Score: 135
Period size: 34 Copynumber: 3.3 Consensus size: 35
2111973 TCCTTTTTTC
* *
2111983 TCACTATTCGAACCAAAATTGTACTTTTG-TTTGT
1 TCACTGTTCGAACCAAAATTGTACTGTTGTTTTGT
* *
2112017 TCACTGTTCAAATCAAAATTGTACTGTTGTTTTGT
1 TCACTGTTCGAACCAAAATTGTACTGTTGTTTTGT
* * *
2112052 T-ACTGTTAGAACCAAAATTGTACTGCTATTTT-T
1 TCACTGTTCGAACCAAAATTGTACTGTTGTTTTGT
*
2112085 TTACTGTTCGAA
1 TCACTGTTCGAA
2112097 TATTGCACTA
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
33 2 0.03
34 60 0.88
35 6 0.09
ACGTcount: A:0.27, C:0.16, G:0.13, T:0.44
Consensus pattern (35 bp):
TCACTGTTCGAACCAAAATTGTACTGTTGTTTTGT
Found at i:2113436 original size:10 final size:11
Alignment explanation
Indices: 2113421--2113457 Score: 51
Period size: 10 Copynumber: 3.5 Consensus size: 11
2113411 CCTTGGCTTG
*
2113421 AAAGAAAAT-T
1 AAAGAAAATGA
2113431 AAAGAAAATGA
1 AAAGAAAATGA
2113442 AAAGAAAA-GA
1 AAAGAAAATGA
2113452 AAAGAA
1 AAAGAA
2113458 TTTTATTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 17 0.68
11 8 0.32
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (11 bp):
AAAGAAAATGA
Found at i:2116124 original size:112 final size:112
Alignment explanation
Indices: 2115988--2116202 Score: 385
Period size: 112 Copynumber: 1.9 Consensus size: 112
2115978 AAAATCGGTA
* * *
2115988 AATTATATAATTTGGTAGGATAAAAAGGCTAAAATAAACTTTTTTATATAAAAGAAGAGCTTCTA
1 AATTATATAATTTGATAGAATAAAAAGACTAAAATAAACTTTTTTATATAAAAGAAGAGCTTCTA
2116053 CTCTACTTTAACCTCGAAAAGGGTAAATTACACGTTTTTTTTTACCT
66 CTCTACTTTAACCTCGAAAAGGGTAAATTACACGTTTTTTTTTACCT
*
2116100 AATTATATAATTTGATATAATAAAAAGACTAAAATAAACTTTTTTATATAAAAGAAGAGCTTCTA
1 AATTATATAATTTGATAGAATAAAAAGACTAAAATAAACTTTTTTATATAAAAGAAGAGCTTCTA
*
2116165 CTCTACTTTAACCTCGAAAAGTGTAAATTACACGTTTT
66 CTCTACTTTAACCTCGAAAAGGGTAAATTACACGTTTT
2116203 GTACCTAATT
Statistics
Matches: 98, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
112 98 1.00
ACGTcount: A:0.41, C:0.12, G:0.11, T:0.36
Consensus pattern (112 bp):
AATTATATAATTTGATAGAATAAAAAGACTAAAATAAACTTTTTTATATAAAAGAAGAGCTTCTA
CTCTACTTTAACCTCGAAAAGGGTAAATTACACGTTTTTTTTTACCT
Found at i:2116710 original size:24 final size:23
Alignment explanation
Indices: 2116662--2116722 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 23
2116652 TTATATATTT
2116662 TTATAAAAATTATA-TGAAATAA
1 TTATAAAAATTATATTGAAATAA
*
2116684 TTATATAAAATTATATTTATAAT-A
1 TTATA-AAAATTATATTGA-AATAA
2116708 TTATAAAAATT-TATT
1 TTATAAAAATTATATT
2116723 ATTTAGTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
22 9 0.26
23 15 0.43
24 8 0.23
25 3 0.09
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (23 bp):
TTATAAAAATTATATTGAAATAA
Found at i:2116925 original size:23 final size:24
Alignment explanation
Indices: 2116895--2116959 Score: 89
Period size: 23 Copynumber: 2.7 Consensus size: 24
2116885 AAAAATATTT
2116895 TTATTTAAAATAAATAAT-TAATA
1 TTATTTAAAATAAATAATATAATA
*
2116918 TTATTTAAATTAAAT-ATATAATA
1 TTATTTAAAATAAATAATATAATA
2116941 TTATTTTAAAAATAAATAA
1 TTA-TTT-AAAATAAATAA
2116960 ATATTTAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
22 2 0.06
23 22 0.61
24 3 0.08
25 8 0.22
26 1 0.03
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (24 bp):
TTATTTAAAATAAATAATATAATA
Found at i:2116943 original size:29 final size:29
Alignment explanation
Indices: 2116856--2116943 Score: 83
Period size: 29 Copynumber: 3.0 Consensus size: 29
2116846 GGTATCTTAC
*
2116856 AATATTATTTAAAATTAAATAGATAAT-TT
1 AATATTATTT-AAATTAAATATATAATATT
* * * *
2116885 AAAAATATTTTTATTTAAA-ATA-AATAATT
1 AATATTA-TTTAAATTAAATATATAAT-ATT
2116914 AATATTATTTAAATTAAATATATAATATT
1 AATATTATTTAAATTAAATATATAATATT
2116943 A
1 A
2116944 TTTTAAAAAT
Statistics
Matches: 45, Mismatches: 9, Indels: 10
0.70 0.14 0.16
Matches are distributed among these distances:
27 3 0.07
28 11 0.24
29 25 0.56
30 6 0.13
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.45
Consensus pattern (29 bp):
AATATTATTTAAATTAAATATATAATATT
Found at i:2116960 original size:29 final size:30
Alignment explanation
Indices: 2116923--2116983 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 30
2116913 TAATATTATT
* * *
2116923 TAAATTAAATATATAATATTATTTTAAAAA
1 TAAATTAAATATATAAAAATAATTTAAAAA
*
2116953 TAAA-TAAATATTTAAAAATAATTTAAAAA
1 TAAATTAAATATATAAAAATAATTTAAAAA
2116982 TA
1 TA
2116984 TTATAAAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
29 23 0.85
30 4 0.15
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (30 bp):
TAAATTAAATATATAAAAATAATTTAAAAA
Found at i:2116978 original size:11 final size:10
Alignment explanation
Indices: 2116958--2116991 Score: 50
Period size: 11 Copynumber: 3.2 Consensus size: 10
2116948 AAAAATAAAT
2116958 AAATATTTAA
1 AAATATTTAA
2116968 AAATAATTTAA
1 AAAT-ATTTAA
2116979 AAATATTATAA
1 AAATATT-TAA
2116990 AA
1 AA
2116992 TAATTAATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 7 0.32
11 15 0.68
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
AAATATTTAA
Found at i:2117768 original size:34 final size:33
Alignment explanation
Indices: 2117723--2117805 Score: 139
Period size: 34 Copynumber: 2.5 Consensus size: 33
2117713 AAAGGACAAT
*
2117723 AATATAAAAAAATTGTAATAATAAAGTGGTGAA
1 AATATTAAAAAATTGTAATAATAAAGTGGTGAA
*
2117756 AATATTTTAAAAATTGTAATAATAAAGTGGTGAA
1 AATA-TTAAAAAATTGTAATAATAAAGTGGTGAA
2117790 AATATTAAAAAATTGT
1 AATATTAAAAAATTGT
2117806 TGACTTGTTG
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
33 15 0.33
34 31 0.67
ACGTcount: A:0.54, C:0.00, G:0.13, T:0.33
Consensus pattern (33 bp):
AATATTAAAAAATTGTAATAATAAAGTGGTGAA
Found at i:2119202 original size:17 final size:18
Alignment explanation
Indices: 2119176--2119214 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
2119166 AACCCGAAAT
2119176 AATATATTTATT-AAAAA
1 AATATATTTATTCAAAAA
*
2119193 AATATTTTTATTCAAAAA
1 AATATATTTATTCAAAAA
2119211 AATA
1 AATA
2119215 GGGATTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (18 bp):
AATATATTTATTCAAAAA
Found at i:2124855 original size:11 final size:11
Alignment explanation
Indices: 2124839--2124865 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
2124829 ATATGCAACT
2124839 AATGCAACAAA
1 AATGCAACAAA
2124850 AATGCAACAAA
1 AATGCAACAAA
2124861 AATGC
1 AATGC
2124866 TGCGCATACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.59, C:0.19, G:0.11, T:0.11
Consensus pattern (11 bp):
AATGCAACAAA
Found at i:2135617 original size:14 final size:14
Alignment explanation
Indices: 2135598--2135634 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
2135588 ACACTTGCTT
*
2135598 AAACATTTCTAAGA
1 AAACATTTATAAGA
*
2135612 AAACATTTATGAGA
1 AAACATTTATAAGA
2135626 AAACATTTA
1 AAACATTTA
2135635 ATACGGAAAA
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:0.51, C:0.11, G:0.08, T:0.30
Consensus pattern (14 bp):
AAACATTTATAAGA
Found at i:2142137 original size:24 final size:24
Alignment explanation
Indices: 2142109--2142154 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
2142099 GAAACTGTCG
*
2142109 CGTAGAATTTGCACCAAAGTGCCA
1 CGTAGAATATGCACCAAAGTGCCA
*
2142133 CGTAGAATATGCACCGAAGTGC
1 CGTAGAATATGCACCAAAGTGC
2142155 AACATAGATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.33, C:0.24, G:0.24, T:0.20
Consensus pattern (24 bp):
CGTAGAATATGCACCAAAGTGCCA
Found at i:2142162 original size:24 final size:24
Alignment explanation
Indices: 2142111--2142162 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
2142101 AACTGTCGCG
* * *
2142111 TAGAATTTGCACCAAAGTGCCACG
1 TAGAATATGCACCAAAGTGCAACA
*
2142135 TAGAATATGCACCGAAGTGCAACA
1 TAGAATATGCACCAAAGTGCAACA
2142159 TAGA
1 TAGA
2142163 TTTTTCCCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.19
Consensus pattern (24 bp):
TAGAATATGCACCAAAGTGCAACA
Found at i:2151083 original size:2 final size:2
Alignment explanation
Indices: 2151076--2151105 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2151066 GTGGTTTCTT
2151076 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2151106 AACTGAAACG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2152313 original size:28 final size:28
Alignment explanation
Indices: 2152264--2152348 Score: 86
Period size: 28 Copynumber: 3.1 Consensus size: 28
2152254 ATGCATATGC
* *
2152264 ATATAA-TATATATGTATGTATATAAGT
1 ATATAAGTATATATATAAGTATATAAGT
*
2152291 ATA-AAGTATAATATATAAGTATATGTA-T
1 ATATAAGTAT-ATATATAAGTATAT-AAGT
* *
2152319 ATATAAGTATATATATAAGAATATATGT
1 ATATAAGTATATATATAAGTATATAAGT
2152347 AT
1 AT
2152349 GATGTATGTA
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
26 2 0.04
27 6 0.13
28 32 0.68
29 7 0.15
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (28 bp):
ATATAAGTATATATATAAGTATATAAGT
Found at i:2152322 original size:16 final size:16
Alignment explanation
Indices: 2152301--2152348 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
2152291 ATAAAGTATA
2152301 ATATATAAGTATATGT
1 ATATATAAGTATATGT
*
2152317 ATATATAAGTATATAT
1 ATATATAAGTATATGT
*
2152333 ATA-AGAA-TATATGT
1 ATATATAAGTATATGT
2152347 AT
1 AT
2152349 GATGTATGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
14 8 0.28
15 3 0.10
16 18 0.62
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.42
Consensus pattern (16 bp):
ATATATAAGTATATGT
Found at i:2152342 original size:10 final size:12
Alignment explanation
Indices: 2152269--2152344 Score: 59
Period size: 12 Copynumber: 6.3 Consensus size: 12
2152259 TATGCATATA
*
2152269 ATATATATGTAT
1 ATATATAAGTAT
*
2152281 GTATATAAGTAT
1 ATATATAAGTAT
*
2152293 AAAGTATAA-TAT
1 ATA-TATAAGTAT
*
2152305 ATA-AGTATA-TGT
1 ATATA-TA-AGTAT
2152317 ATATATAAGTAT
1 ATATATAAGTAT
*
2152329 ATATATAAGAAT
1 ATATATAAGTAT
2152341 ATAT
1 ATAT
2152345 GTATGATGTA
Statistics
Matches: 51, Mismatches: 8, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
10 1 0.02
11 3 0.06
12 41 0.80
13 6 0.12
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.41
Consensus pattern (12 bp):
ATATATAAGTAT
Found at i:2152343 original size:20 final size:19
Alignment explanation
Indices: 2152264--2152336 Score: 64
Period size: 20 Copynumber: 3.9 Consensus size: 19
2152254 ATGCATATGC
* *
2152264 ATATAA-TATATATGTATGT
1 ATATAAGTATATATATA-AT
*
2152283 ATATAAGTATAAAGTATAAT
1 ATATAAGTATATA-TATAAT
*
2152303 ATATAAG--TATATGT-AT
1 ATATAAGTATATATATAAT
2152319 ATATAAGTATATATATAA
1 ATATAAGTATATATATAA
2152337 GAATATATGT
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
16 9 0.21
17 2 0.05
18 9 0.21
19 7 0.16
20 13 0.30
21 3 0.07
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (19 bp):
ATATAAGTATATATATAAT
Found at i:2152736 original size:18 final size:18
Alignment explanation
Indices: 2152708--2152745 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
2152698 CTATTCTAAA
2152708 TTCCCC-AAAAATCAATT
1 TTCCCCAAAAAATCAATT
2152725 TTCCCTCAAAAAATCAATT
1 TTCCC-CAAAAAATCAATT
2152744 TT
1 TT
2152746 TTTTATTTCG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 5 0.26
18 1 0.05
19 13 0.68
ACGTcount: A:0.39, C:0.26, G:0.00, T:0.34
Consensus pattern (18 bp):
TTCCCCAAAAAATCAATT
Found at i:2159446 original size:20 final size:22
Alignment explanation
Indices: 2159421--2159460 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
2159411 AAAAAATAAA
2159421 GAAAAC-AAA-TAACTAAAATT
1 GAAAACAAAACTAACTAAAATT
2159441 GAAAACAAAACTAACTAAAA
1 GAAAACAAAACTAACTAAAA
2159461 ACTTTTGCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.33
21 3 0.17
22 9 0.50
ACGTcount: A:0.68, C:0.12, G:0.05, T:0.15
Consensus pattern (22 bp):
GAAAACAAAACTAACTAAAATT
Found at i:2161526 original size:35 final size:35
Alignment explanation
Indices: 2161487--2161603 Score: 171
Period size: 35 Copynumber: 3.3 Consensus size: 35
2161477 TTGGACTACG
* * * *
2161487 TTGGATTACTTTTAATTTGTTATGGGTATGCCACT
1 TTGGATTATTTTTATTTTGTTGTGGCTATGCCACT
*
2161522 TTGGATTATTTTTATTTTGTTGTGGCTATGCAACT
1 TTGGATTATTTTTATTTTGTTGTGGCTATGCCACT
*
2161557 TTGGATTATTTTTATTTTGTTGTGGCTATTCCACT
1 TTGGATTATTTTTATTTTGTTGTGGCTATGCCACT
*
2161592 TTAGATTATTTT
1 TTGGATTATTTT
2161604 GGATTGAATA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 74 1.00
ACGTcount: A:0.18, C:0.09, G:0.18, T:0.55
Consensus pattern (35 bp):
TTGGATTATTTTTATTTTGTTGTGGCTATGCCACT
Found at i:2165349 original size:12 final size:12
Alignment explanation
Indices: 2165322--2165367 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 12
2165312 GAACAAAAAC
*
2165322 AAAAACTTAAAG
1 AAAAACTTAATG
2165334 -AAAACTTAATG
1 AAAAACTTAATG
*
2165345 AAAAACTTGATG
1 AAAAACTTAATG
*
2165357 TAAAAC-TAATG
1 AAAAACTTAATG
2165368 TCCTAGCTCC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
11 14 0.48
12 15 0.52
ACGTcount: A:0.57, C:0.09, G:0.11, T:0.24
Consensus pattern (12 bp):
AAAAACTTAATG
Found at i:2166448 original size:8 final size:8
Alignment explanation
Indices: 2166435--2166496 Score: 56
Period size: 8 Copynumber: 7.9 Consensus size: 8
2166425 TATGCACGAT
2166435 TTTTTTTC
1 TTTTTTTC
2166443 TTTTTTTC
1 TTTTTTTC
*
2166451 TTTTTTTG
1 TTTTTTTC
2166459 TTTTTTT-
1 TTTTTTTC
*
2166466 TCCTTTTTC
1 T-TTTTTTC
**
2166475 TTTTCAT-
1 TTTTTTTC
*
2166482 TTTTTTTG
1 TTTTTTTC
2166490 TTTTTTT
1 TTTTTTT
2166497 TCAATGAGTG
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
7 6 0.14
8 37 0.84
9 1 0.02
ACGTcount: A:0.02, C:0.10, G:0.03, T:0.85
Consensus pattern (8 bp):
TTTTTTTC
Found at i:2166489 original size:31 final size:32
Alignment explanation
Indices: 2166437--2166498 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 32
2166427 TGCACGATTT
**
2166437 TTTTTCTTTTTTTCTTTTTTTGTTTTTTTTCC
1 TTTTTCTTTTCATCTTTTTTTGTTTTTTTTCC
2166469 TTTTTCTTTTCAT-TTTTTTTGTTTTTTTTC
1 TTTTTCTTTTCATCTTTTTTTGTTTTTTTTC
2166499 AATGAGTGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
31 17 0.61
32 11 0.39
ACGTcount: A:0.02, C:0.11, G:0.03, T:0.84
Consensus pattern (32 bp):
TTTTTCTTTTCATCTTTTTTTGTTTTTTTTCC
Found at i:2169617 original size:35 final size:35
Alignment explanation
Indices: 2169578--2169651 Score: 139
Period size: 35 Copynumber: 2.1 Consensus size: 35
2169568 CAATAAAAAG
*
2169578 TTTGCTAAAAGTTAGAATAGTAAAATATATATACA
1 TTTGCTAAAAGTTAGAATAGAAAAATATATATACA
2169613 TTTGCTAAAAGTTAGAATAGAAAAATATATATACA
1 TTTGCTAAAAGTTAGAATAGAAAAATATATATACA
2169648 TTTG
1 TTTG
2169652 AACACATAAG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.47, C:0.05, G:0.12, T:0.35
Consensus pattern (35 bp):
TTTGCTAAAAGTTAGAATAGAAAAATATATATACA
Found at i:2173155 original size:135 final size:135
Alignment explanation
Indices: 2172789--2173257 Score: 664
Period size: 136 Copynumber: 3.5 Consensus size: 135
2172779 AATTTGAAAG
* * * * *
2172789 GAACAAGTTCTTCTCATTATGAAC--ATTCTCCT-T-TAGGACGAGTTTTTCTCATTATGAACTT
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCTCTGTCGGATGAGTTCTTCTCATTATGAAC-T
* * * ** *
2172850 TTC-ATTGGAAATGTCGATCCCTCAAGCGAGGCT-TCACTGGTTCGAAATACCGTGAATCGAGTG
65 CTCAATTGGAAATGTCAATCCCTCAAGTGAGG-TGTCACTTATTCGAAATGCCGTGAATCGAGTG
2172913 ATAGGTC
129 ATAGGTC
* *
2172920 GAACAAGCTCTTATCATTATGAACTTCTTCTCTCTCTGTCAGATGAGTTCTTCTCATTATGAACT
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTC-CTCTGTCGGATGAGTTCTTCTCATTATGAACT
2172985 CTCAATTGGAAATGTCAATCCCTCAAGTGAGGTGTCACTTATTCGAAATGCCGTGAATCGAGTGA
65 CTCAATTGGAAATGTCAATCCCTCAAGTGAGGTGTCACTTATTCGAAATGCCGTGAATCGAGTGA
2173050 TAGGTC
130 TAGGTC
*
2173056 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCTCTGTCGGATGAGTTCTTCTCATTGTGAACTC
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCTCTGTCGGATGAGTTCTTCTCATTATGAACTC
* * * *
2173121 TCAATTGGAAATATCAATCCCTCAAGTGAGGTGTCA-TTGATTCGAACTGTCGTGAATCAAGTGA
66 TCAATTGGAAATGTCAATCCCTCAAGTGAGGTGTCACTT-ATTCGAAATGCCGTGAATCGAGTGA
2173185 TAGGTC
130 TAGGTC
* *
2173191 AAACAAGCTCTTCTCATTATGAACTCCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACT
1 GAACAAGCTCTTCTCATTATGAACTTCTTCT-CCTCTGTCGGATGAGTTCTTCTCATTATGAACT
2173256 CT
65 CT
2173258 GTACTGGAAA
Statistics
Matches: 306, Mismatches: 23, Indels: 13
0.89 0.07 0.04
Matches are distributed among these distances:
131 22 0.07
133 5 0.02
134 4 0.01
135 128 0.42
136 147 0.48
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.34
Consensus pattern (135 bp):
GAACAAGCTCTTCTCATTATGAACTTCTTCTCCTCTGTCGGATGAGTTCTTCTCATTATGAACTC
TCAATTGGAAATGTCAATCCCTCAAGTGAGGTGTCACTTATTCGAAATGCCGTGAATCGAGTGAT
AGGTC
Found at i:2173587 original size:37 final size:37
Alignment explanation
Indices: 2173541--2173722 Score: 120
Period size: 36 Copynumber: 4.9 Consensus size: 37
2173531 TGTCTTAAGT
* *
2173541 GAGAC-AAATTTGGTTTTAAGAAAAAAC-ATCTCAAGG
1 GAGACAAAATTTGGTTTCAAG-AAAAACTATCTCAAGA
** *
2173577 GAGACAAAATTT-GTTTCAAGGGAAACTGTCTCAAGA
1 GAGACAAAATTTGGTTTCAAGAAAAACTATCTCAAGA
** *
2173613 GAGACAAAATTT-GTTTCAAGGGAAACTATCTCAAGC
1 GAGACAAAATTTGGTTTCAAGAAAAACTATCTCAAGA
* * * ** * *
2173649 GAGATAAAATCTTTTGTTTCGAGGGAAACTATCTAAAGC
1 GAGACAAAA--TTTGGTTTCAAGAAAAACTATCTCAAGA
* * *
2173688 GAGATAAAATCTTTTGTTTCAAGGAAAAACAATCT
1 GAGACAAAA--TTTGGTTTCAA-GAAAAACTATCT
2173723 TGAGTGAGAT
Statistics
Matches: 126, Mismatches: 14, Indels: 8
0.85 0.09 0.05
Matches are distributed among these distances:
35 4 0.03
36 61 0.48
37 6 0.05
38 3 0.02
39 43 0.34
40 9 0.07
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.27
Consensus pattern (37 bp):
GAGACAAAATTTGGTTTCAAGAAAAACTATCTCAAGA
Found at i:2173595 original size:21 final size:21
Alignment explanation
Indices: 2173571--2173635 Score: 61
Period size: 21 Copynumber: 3.4 Consensus size: 21
2173561 AAAAAACATC
2173571 TCAAGGGAGACAAAATTTGTT
1 TCAAGGGAGACAAAATTTGTT
* *
2173592 TCAA-GG-G---AAA-CTGTC
1 TCAAGGGAGACAAAATTTGTT
*
2173607 TCAAGAGAGACAAAATTTGTT
1 TCAAGGGAGACAAAATTTGTT
2173628 TCAAGGGA
1 TCAAGGGA
2173636 AACTATCTCA
Statistics
Matches: 32, Mismatches: 6, Indels: 12
0.64 0.12 0.24
Matches are distributed among these distances:
15 7 0.22
16 4 0.12
17 1 0.03
19 1 0.03
20 5 0.16
21 14 0.44
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.25
Consensus pattern (21 bp):
TCAAGGGAGACAAAATTTGTT
Found at i:2173609 original size:36 final size:37
Alignment explanation
Indices: 2173564--2173711 Score: 176
Period size: 36 Copynumber: 4.0 Consensus size: 37
2173554 TTTTAAGAAA
*
2173564 AAAC-ATCTCAAGGGAGACAAAA-TTTGTTTCAAGGG
1 AAACTATCTCAAGCGAGACAAAATTTTGTTTCAAGGG
* *
2173599 AAACTGTCTCAAGAGAGACAAAA-TTTGTTTCAAGGG
1 AAACTATCTCAAGCGAGACAAAATTTTGTTTCAAGGG
* *
2173635 AAACTATCTCAAGCGAGATAAAATCTTTTGTTTCGAGGG
1 AAACTATCTCAAGCGAGACAAAA--TTTTGTTTCAAGGG
* *
2173674 AAACTATCTAAAGCGAGATAAAATCTTTTGTTTCAAGG
1 AAACTATCTCAAGCGAGACAAAA--TTTTGTTTCAAGG
2173712 AAAAACAATC
Statistics
Matches: 101, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
35 4 0.04
36 49 0.49
39 48 0.48
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (37 bp):
AAACTATCTCAAGCGAGACAAAATTTTGTTTCAAGGG
Found at i:2173746 original size:40 final size:40
Alignment explanation
Indices: 2173649--2174012 Score: 534
Period size: 40 Copynumber: 9.1 Consensus size: 40
2173639 TATCTCAAGC
* * * * ** *
2173649 GAGATAAAATCTTTTGTTTCGAGG-GAAACTATCTAAAGC
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
*
2173688 GAGATAAAATCTTTTGTTTCAAGGAAAAACAATCTTGAGT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
* *
2173728 GAGATAAAATCTTATGTTTCAAGGAAAAACAATCTTGAAT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
*
2173768 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
* *
2173808 GAGATAAAATCTTGTGTTTCAAGGAAAAACAATCTTGAAT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
*
2173848 GAGATAAAATCTTCTGTTTCAAGGAAAAATAATCTTGAGT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
*
2173888 GAGATAAAATCTTATGTTTCAAGGAAAAACAATC-TGATGT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGA-GT
* **
2173928 GAGATAAAATCTTCTATTTCAAGGAAAAACAATCTTGAAC
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
*
2173968 GAGATAAAATCTTCTATTTCAAGGAAAAACAATCTTGAGT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
2174008 GAGAT
1 GAGAT
2174013 GAATCCTCTG
Statistics
Matches: 301, Mismatches: 21, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
39 26 0.09
40 272 0.90
41 3 0.01
ACGTcount: A:0.42, C:0.11, G:0.17, T:0.30
Consensus pattern (40 bp):
GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
Found at i:2173961 original size:23 final size:23
Alignment explanation
Indices: 2173935--2174003 Score: 60
Period size: 23 Copynumber: 3.3 Consensus size: 23
2173925 TGTGAGATAA
2173935 AATCTTCTATTTCAAGGAAAAAC
1 AATCTTCTATTTCAAGGAAAAAC
* * * *
2173958 AATCTT-GA--ACGA-G-ATAA-
1 AATCTTCTATTTCAAGGAAAAAC
2173975 AATCTTCTATTTCAAGGAAAAAC
1 AATCTTCTATTTCAAGGAAAAAC
2173998 AATCTT
1 AATCTT
2174004 GAGTGAGATG
Statistics
Matches: 32, Mismatches: 8, Indels: 12
0.62 0.15 0.23
Matches are distributed among these distances:
17 6 0.19
18 4 0.12
19 1 0.03
20 4 0.12
21 1 0.03
22 4 0.12
23 12 0.38
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.30
Consensus pattern (23 bp):
AATCTTCTATTTCAAGGAAAAAC
Found at i:2176832 original size:5 final size:5
Alignment explanation
Indices: 2176822--2176846 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
2176812 TCTTGATTCA
2176822 ATTTC ATTTC ATTTC ATTTC ATTTC
1 ATTTC ATTTC ATTTC ATTTC ATTTC
2176847 TTTATTTTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTTC
Done.