Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008236.1 Hibiscus syriacus cultivar Beakdansim tig00110882_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: 1100419
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 6
Found at i:835395 original size:121 final size:121
Alignment explanation
Indices: 835247--835467 Score: 352
Period size: 121 Copynumber: 1.8 Consensus size: 121
835237 TGCAACTTAA
* * * *
835247 CTTGGATTTCAACTTCTCGACGAAGGATATCCAATTCAAGGTTCAACTTCACGACGAAGGGGTCA
1 CTTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGAGTCA
*
835312 TCCACGATTTCAACTTCACGACGAAGGATATCGTGTCCACCAGCATCAATGCAACC
66 TCCACGATTTCAACTTCACAACGAAGGATATCGTGTCCACCAGCATCAATGCAACC
* * * *
835368 CTTGGATTTCAACTTCACGATGAAGGATATCCAATTCGAGGCTCAACTTCACAATGAATGAGTCA
1 CTTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGAGTCA
*
835433 TTCACGATTTCAACTTCACAACGAAGGATATCGTG
66 TCCACGATTTCAACTTCACAACGAAGGATATCGTG
835468 CTCATTTGCA
Statistics
Matches: 90, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
121 90 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.26
Consensus pattern (121 bp):
CTTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGAGTCA
TCCACGATTTCAACTTCACAACGAAGGATATCGTGTCCACCAGCATCAATGCAACC
Found at i:835624 original size:84 final size:84
Alignment explanation
Indices: 835469--835952 Score: 438
Period size: 84 Copynumber: 5.8 Consensus size: 84
835459 GATATCGTGC
* * * * *
835469 TCATTTGCAGCT-TAGCTCAAGGCAAGAAGGGTTATCTGCTAACAAAAGACCTTCGAGTTCGATT
1 TCATTTGCAG-TATAACTCAAGGCGAGAAGGGCTATCTGCCAACAAAAGACCTTCAAGTTCGATT
835533 ATACTCAGCTCAAAGGCACA
65 ATACTCAGCTCAAAGGCACA
* * * * * * *
835553 TCATTTGTAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTTCAAGTTTGACTA
1 TCATTTGCAGTATAACTCAAGGCGAGAAGGGCTATCTGCCAACAAAAGACCTTCAAGTTCGATTA
** * * *
835618 CGCTCAGCTCCAAGGTACG
66 TACTCAGCTCAAAGGCACA
* * * *
835637 TCATTTGCAGTATAACTCAAGGCTAGAAGGGTTATCTGTCAATAAAAGACCTTCAAGTTCGATTA
1 TCATTTGCAGTATAACTCAAGGCGAGAAGGGCTATCTGCCAACAAAAGACCTTCAAGTTCGATTA
*
835702 TATTCAGCTCAAAGGCACA
66 TACTCAGCTCAAAGGCACA
* * * * * *
835721 TCATTTGCAGTATAACTCAAGGCGATAAGAGCTATCTGTCATC-AAATACCTTCGAGATTCGATT
1 TCATTTGCAGTATAACTCAAGGCGAGAAGGGCTATCTGCCAACAAAAGACCTTCAAG-TTCGATT
* * *
835785 -TCATTCAGCTCCAAGGCACG
65 AT-ACTCAGCTCAAAGGCACA
* * * * * **
835805 TCATTTGCAGCAAAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAAGACCTTTTGAGTTC--TT
1 TCATTTGCAGTATAACTCAAGGCGAGAAGGGCTATCTGCCAACAAAAGACC-TTCAAGTTCGATT
* * *
835868 ACACTCAGCTTAAAGACACA
65 ATACTCAGCTCAAAGGCACA
* * * * * * * * *
835888 TCTTTTACAGCATAACTCAAGGCTAGAAGGGTTATCTACCAACATTAAGACTTTCGAGTTCGATT
1 TCATTTGCAGTATAACTCAAGGCGAGAAGGGCTATCTGCCAACA-AAAGACCTTCAAGTTCGATT
835953 TCATTCATCT
Statistics
Matches: 326, Mismatches: 65, Indels: 17
0.80 0.16 0.04
Matches are distributed among these distances:
83 75 0.23
84 235 0.72
85 11 0.03
86 5 0.02
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.28
Consensus pattern (84 bp):
TCATTTGCAGTATAACTCAAGGCGAGAAGGGCTATCTGCCAACAAAAGACCTTCAAGTTCGATTA
TACTCAGCTCAAAGGCACA
Found at i:835952 original size:168 final size:166
Alignment explanation
Indices: 835469--835959 Score: 581
Period size: 168 Copynumber: 2.9 Consensus size: 166
835459 GATATCGTGC
* * *
835469 TCATTTGCAGCTTAGCTCAAGGCAAGAAGGGTTATCTG-CTAACAAAAGACCTTCGAGTTCGATT
1 TCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGTC-AACAAAAGACCTTCGAGTTC-ATT
* * * *
835533 ATACTCAGCTCAAAGGCACATCATTTGTAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCA
64 ATACTCAGCTCAAAGGCACATCATTTGCAGTATAACTCAAGGCGAGAAGGGCTATCTGCCAA-CA
* * * * ** *
835598 AAGACCTTCAAGTTTGACTACGCTCAGCTCCAAGGTACG
128 AAGACCTTCGAGTTCGATTTCATTCAGCTCCAAGGCACG
* * *
835637 TCATTTGCAGTATAACTCAAGGCTAGAAGGGTTATCTGTCAATAAAAGACCTTCAAGTTCGATTA
1 TCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAAGACCTTCGAGTTC-ATTA
* * * * *
835702 TATTCAGCTCAAAGGCACATCATTTGCAGTATAACTCAAGGCGATAAGAGCTATCTGTCATCAAA
65 TACTCAGCTCAAAGGCACATCATTTGCAGTATAACTCAAGGCGAGAAGGGCTATCTGCCAACAAA
*
835767 TACCTTCGAGATTCGATTTCATTCAGCTCCAAGGCACG
130 GACCTTCGAG-TTCGATTTCATTCAGCTCCAAGGCACG
* *
835805 TCATTTGCAGCAAAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAAGACCTTTTGAGTTC-TTA
1 TCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAAGACC-TTCGAGTTCATTA
* * * * * * * * *
835869 CACTCAGCTTAAAGACACATCTTTTACAGCATAACTCAAGGCTAGAAGGGTTATCTACCAACATT
65 TACTCAGCTCAAAGGCACATCATTTGCAGTATAACTCAAGGCGAGAAGGGCTATCTGCCAACA--
*
835934 AAGACTTTCGAGTTCGATTTCATTCA
128 AAGACCTTCGAGTTCGATTTCATTCA
835960 TCTCAGAGGC
Statistics
Matches: 274, Mismatches: 44, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
167 64 0.23
168 192 0.70
169 18 0.07
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (166 bp):
TCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAAGACCTTCGAGTTCATTAT
ACTCAGCTCAAAGGCACATCATTTGCAGTATAACTCAAGGCGAGAAGGGCTATCTGCCAACAAAG
ACCTTCGAGTTCGATTTCATTCAGCTCCAAGGCACG
Found at i:841960 original size:16 final size:16
Alignment explanation
Indices: 841939--841976 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
841929 AATAATAATT
841939 TAATAAAGTAAAATAA
1 TAATAAAGTAAAATAA
* *
841955 TAATAATGTAATATAA
1 TAATAAAGTAAAATAA
841971 T-ATAAA
1 TAATAAA
841977 TACATGAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (16 bp):
TAATAAAGTAAAATAA
Found at i:841961 original size:24 final size:22
Alignment explanation
Indices: 841907--841967 Score: 68
Period size: 24 Copynumber: 2.6 Consensus size: 22
841897 ATATATATAT
*
841907 ATAATAAATATAATAACGAAAAA
1 ATAAT-AATATAATAAAGAAAAA
*
841930 ATAATAATTTAATAAAGTAAAATA
1 ATAATAATATAATAAAG-AAAA-A
*
841954 ATAATAATGTAATA
1 ATAATAATATAATA
841968 TAATATAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
22 10 0.30
23 9 0.27
24 14 0.42
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.30
Consensus pattern (22 bp):
ATAATAATATAATAAAGAAAAA
Found at i:842721 original size:35 final size:36
Alignment explanation
Indices: 842651--842750 Score: 130
Period size: 35 Copynumber: 2.8 Consensus size: 36
842641 GTGCTTGTGG
* * *
842651 ATCCTATCTTTAGGAGTTTAAAACATAGCAAAATTCT
1 ATCCTAT-TTTAGGAGTTTGAATCCTAGCAAAATTCT
*
842688 ATCCTATTTTAGGAG-TTGAATCCTAGCAGAATTCT
1 ATCCTATTTTAGGAGTTTGAATCCTAGCAAAATTCT
*
842723 ATCCTATTTTTGAGAGTTTGAATCCTAG
1 ATCCTATTTTAG-GAGTTTGAATCCTAG
842751 TAGGACGAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
35 27 0.48
36 11 0.20
37 18 0.32
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (36 bp):
ATCCTATTTTAGGAGTTTGAATCCTAGCAAAATTCT
Found at i:843603 original size:109 final size:107
Alignment explanation
Indices: 843260--844067 Score: 538
Period size: 98 Copynumber: 7.9 Consensus size: 107
843250 TGGAACCGGG
** * * * *
843260 AAATTGTTTGTTGACAGTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTCGAGT-CT
1 AAATTGTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTGC-
* * * * * *
843324 A--ATATCCTTCGTTGTGAAGTTGAAATTGACTCTG-AA-CG-
65 ACGATATCCTCCGTCGTGGAGTTGAAATCGGCTCTGAAATTGA
* * * *
843362 AAA-T-CTTGTTGACAATCAGTCGTCCCTTCGTTATGAAGTTGAACTTGTGTTGTCTCGAGT-C-
1 AAATTGTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTGCA
* * *
843423 CAATATCCTTCG-C-TGCGAAGTTGAAATTGGCTCTGAAATTTGA
66 CGATATCCTCCGTCGTG-G-AGTTGAAATCGGCTCTGAAA-TTGA
* *
843466 AAAATGTTTGTTGACAACCAGCCATCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTGGC
1 AAATTGTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGT-GC
** *
843531 ACGATATCCTCCGTCGTGGAGTTGAAATC-GCGGATGAAACTGA
65 ACGATATCCTCCGTCGTGGAGTTGAAATCGGC-TCTGAAATTGA
* *
843574 AAAGTTGTTCGTTGACAACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC-AGGTA
1 AAA-TTGTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGA-GT-
* *
843638 GCACGATATCCTCCGTCGTGGAGTTGAAATCGGCTCTGGAATTGGG
63 GCACGATATCCTCCGTCGTGGAGTTGAAATCGGCTCTGAAATT-GA
* *
843684 AAATTGTTTGTTGACAACCAGCCGTCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCTCGAAT-C-
1 AAATTGTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTGCA
* * * * * * *
843747 CAATATCTTTCG-CTGTGAAGTTGAGATTGGCTC------CG-
66 CGATATCCTCCGTC-GTGGAGTTGAAATCGGCTCTGAAATTGA
* * ** * * * * * *
843782 AAATTGCTTGTCGACAGTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTTGGGT-C-
1 AAATTGTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTGCA
* * * * * *
843845 CAATATCCTTCG-CTGTGAAGTTGAGATTGGCTC------CG-
66 CGATATCCTCCGTC-GTGGAGTTGAAATCGGCTCTGAAATTGA
* ** * * * * * *
843880 AAATTGTTTGTCGACAGTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTTGGGT-C-
1 AAATTGTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTGCA
* * * * * *
843943 CAATATCCTTCGCCGTGAAGTTGAAATTGGC-C-----CTGA
66 CGATATCCTCCGTCGTGGAGTTGAAATCGGCTCTGAAATTGA
*
843979 AAATT-ATTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTGCA
1 AAATTGTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTGCA
* *
844043 --ATATCCTTCG-CTGTGAAGTTGAAAT
66 CGATATCCTCCGTC-GTGGAGTTGAAAT
844068 TGACTCTAGC
Statistics
Matches: 610, Mismatches: 68, Indels: 60
0.83 0.09 0.08
Matches are distributed among these distances:
97 2 0.00
98 249 0.41
99 8 0.01
100 75 0.12
101 3 0.00
102 3 0.00
103 1 0.00
104 3 0.00
105 2 0.00
106 76 0.12
107 1 0.00
108 10 0.02
109 166 0.27
110 9 0.01
111 2 0.00
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.33
Consensus pattern (107 bp):
AAATTGTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTGCA
CGATATCCTCCGTCGTGGAGTTGAAATCGGCTCTGAAATTGA
Found at i:843817 original size:55 final size:54
Alignment explanation
Indices: 843755--843924 Score: 175
Period size: 55 Copynumber: 3.3 Consensus size: 54
843745 TCCAATATCT
843755 TTCGCTGTGAAGTTGAGATTGGCTCCGAAATTGCTTGTCGACAGTCAGCCGCCCC
1 TTCGCTGTGAAGTTGAGATTGGCTCCGAAATTG-TTGTCGACAGTCAGCCGCCCC
* ** * * *
843810 TTCGCTGTGAAGTTGAGCTTGTGCT--G-TCTTG-GGTC--CAAT-A-----TCC
1 TTCGCTGTGAAGTTGAGATTG-GCTCCGAAATTGTTGTCGACAGTCAGCCGCCCC
843853 TTCGCTGTGAAGTTGAGATTGGCTCCGAAATTGTTTGTCGACAGTCAGCCGCCCC
1 TTCGCTGTGAAGTTGAGATTGGCTCCGAAATTG-TTGTCGACAGTCAGCCGCCCC
843908 TTCGCTGTGAAGTTGAG
1 TTCGCTGTGAAGTTGAG
843925 CTTGTGCTGT
Statistics
Matches: 89, Mismatches: 12, Indels: 28
0.69 0.09 0.22
Matches are distributed among these distances:
42 3 0.03
43 22 0.25
44 1 0.01
45 3 0.03
47 3 0.03
48 1 0.01
49 6 0.07
50 1 0.01
51 3 0.03
53 3 0.03
54 1 0.01
55 39 0.44
56 3 0.03
ACGTcount: A:0.17, C:0.24, G:0.28, T:0.31
Consensus pattern (54 bp):
TTCGCTGTGAAGTTGAGATTGGCTCCGAAATTGTTGTCGACAGTCAGCCGCCCC
Found at i:843856 original size:43 final size:43
Alignment explanation
Indices: 843808--843966 Score: 131
Period size: 43 Copynumber: 3.4 Consensus size: 43
843798 GTCAGCCGCC
843808 CCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTTGGGTCCAATAT
1 CCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTTGGGTCCAATAT
* ** * * *
843851 CCTTCGCTGTGAAGTTGAGATTG-GCTCCGAAATTGTTTGTCGACAGTCAGCCGCC
1 CCTTCGCTGTGAAGTTGAGCTTGTGCT--G-TCTTG--GGTC--CAAT-A-----T
843906 CCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTTGGGTCCAATAT
1 CCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTTGGGTCCAATAT
*
843949 CCTTCGCCGTGAAGTTGA
1 CCTTCGCTGTGAAGTTGA
843967 AATTGGCCCT
Statistics
Matches: 89, Mismatches: 13, Indels: 28
0.68 0.10 0.22
Matches are distributed among these distances:
42 3 0.03
43 39 0.44
44 1 0.01
45 3 0.03
47 3 0.03
48 1 0.01
49 6 0.07
50 1 0.01
51 3 0.03
53 3 0.03
54 1 0.01
55 22 0.25
56 3 0.03
ACGTcount: A:0.16, C:0.23, G:0.28, T:0.33
Consensus pattern (43 bp):
CCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTTGGGTCCAATAT
Found at i:844641 original size:36 final size:37
Alignment explanation
Indices: 844564--844648 Score: 109
Period size: 37 Copynumber: 2.3 Consensus size: 37
844554 AAGATGATGC
* **
844564 TTCAAGAGAAAACTGTCTCAAGGGAGACAAAAATTTGT
1 TTCAAGAG-AAACTGTCTCAAGAGAGACAAAAATTCAT
*
844602 TTCAAGAGAAACTGTCTCAAGAGAGAC-GAAATTCAT
1 TTCAAGAGAAACTGTCTCAAGAGAGACAAAAATTCAT
*
844638 TTCAAGGGAAA
1 TTCAAGAGAAA
844649 TGTTTTCAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
36 16 0.38
37 18 0.43
38 8 0.19
ACGTcount: A:0.42, C:0.14, G:0.21, T:0.22
Consensus pattern (37 bp):
TTCAAGAGAAACTGTCTCAAGAGAGACAAAAATTCAT
Found at i:844703 original size:65 final size:65
Alignment explanation
Indices: 844599--844764 Score: 289
Period size: 65 Copynumber: 2.6 Consensus size: 65
844589 GACAAAAATT
844599 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
*
844664 TGTTTCAAGAGAAACTATCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
* *
844729 TGTTTCAAGAGAAATTGTCTCAATG-GAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAA-GAGAGACGAAATT
844765 TTGTTTCGAG
Statistics
Matches: 96, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
65 95 0.99
66 1 0.01
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.32
Consensus pattern (65 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
Found at i:844770 original size:102 final size:102
Alignment explanation
Indices: 844664--845102 Score: 711
Period size: 102 Copynumber: 4.3 Consensus size: 102
844654 TCAATGTTTA
* *
844664 TGTTTCAAGAGAAACTATCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
*
844729 TGTTTCAAGAGAAATTGTCTCAATGGAGACAAAATTT
66 TGTTTCAAGAGAAACTGTCTCAATGGAGACAAAATTT
*
844766 TGTTTCGAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
*
844831 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
66 TGTTTCAAGAGAAACTGTCTCAATGGAGACAAAATTT
* *
844868 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATATTTCCAATGTTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
**
844933 TGTTTCAAGAGAAACTGTCTCAATGGAGACGGAATTT
66 TGTTTCAAGAGAAACTGTCTCAATGGAGACAAAATTT
*
844970 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAACTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
* * * *
845035 TGTTTCATGAAAAACTGTCTCAA-GG-GAGAAATTTT
66 TGTTTCAAGAGAAACTGTCTCAATGGAGACAAAATTT
* * *
845070 TTTTTAAAGGGAAACTGTCTCAAGAGAGACAAA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAA
845103 GTTTGTTTCA
Statistics
Matches: 314, Mismatches: 23, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
100 36 0.11
101 2 0.01
102 276 0.88
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.31
Consensus pattern (102 bp):
TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
TGTTTCAAGAGAAACTGTCTCAATGGAGACAAAATTT
Found at i:844787 original size:37 final size:36
Alignment explanation
Indices: 844729--845003 Score: 156
Period size: 37 Copynumber: 7.9 Consensus size: 36
844719 TCAATGTTTA
* * *
844729 TGTTTCAAGAGAAATTGTCTCAATGGAGACAAAATTT
1 TGTTTCAAGGGAAACTATCTCAA-GGAGACAAAATTT
*
844766 TGTTTCGAGGGAAACTATCTCAAGAGAGACAAAA-TT
1 TGTTTCAAGGGAAACTATCTCAAG-GAGACAAAATTT
** * * *
844802 CATTTCAAGGGAAA-TGTTTTCAA--TG------TTT
1 TGTTTCAAGGGAAACT-ATCTCAAGGAGACAAAATTT
* *
844830 ATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 -TGTTTCAAGGGAAACTATCTCAA-GGAGACAAAATTT
844868 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA-TT
1 TGTTTCAAGGGAAACTATCTCAAG-GAGACAAAATTT
** * **
844904 CATTTCAAGGGAAA-TATTTC-------CAATGTTT
1 TGTTTCAAGGGAAACTATCTCAAGGAGACAAAATTT
* * **
844932 ATGTTTCAAGAGAAACTGTCTCAATGGAGACGGAATTT
1 -TGTTTCAAGGGAAACTATCTCAA-GGAGACAAAATTT
844970 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA
1 TGTTTCAAGGGAAACTATCTCAAG-GAGACAAAA
845004 CTCATTTCAA
Statistics
Matches: 175, Mismatches: 36, Indels: 54
0.66 0.14 0.20
Matches are distributed among these distances:
27 3 0.02
28 4 0.02
29 27 0.15
30 5 0.03
32 1 0.01
33 1 0.01
35 6 0.03
36 35 0.20
37 86 0.49
38 7 0.04
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.29
Consensus pattern (36 bp):
TGTTTCAAGGGAAACTATCTCAAGGAGACAAAATTT
Found at i:844854 original size:167 final size:169
Alignment explanation
Indices: 844564--844881 Score: 514
Period size: 167 Copynumber: 1.9 Consensus size: 169
844554 AAGATGATGC
*
844564 TTCAAGAGAAAACTGTCTCAAGGGAGACAAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGAC
1 TTCAAGAGAAAACTGTCTCAAGGGAGACAAAAATTTGTTTCAAGAGAAACTATCTCAAGAGAGAC
*
844629 GAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGAC
66 AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGAC
*
844694 GAAA-TTCATTTCAAGGGAAATGTTTTCAATGTTTATGT
131 AAAATTTCATTTCAAGGGAAATGTTTTCAATGTTTATGT
* * * * *
844732 TTCAAGAG-AAATTGTCTCAATGGAGACAAAATTTTGTTTCGAGGGAAACTATCTCAAGAGAGAC
1 TTCAAGAGAAAACTGTCTCAAGGGAGACAAAAATTTGTTTCAAGAGAAACTATCTCAAGAGAGAC
* *
844796 AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGAC
66 AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGAC
**
844861 AAAATTTTGTTTCAAGGGAAA
131 AAAATTTCATTTCAAGGGAAA
844882 CTATCTCAAG
Statistics
Matches: 137, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
167 115 0.84
168 22 0.16
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.30
Consensus pattern (169 bp):
TTCAAGAGAAAACTGTCTCAAGGGAGACAAAAATTTGTTTCAAGAGAAACTATCTCAAGAGAGAC
AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGAC
AAAATTTCATTTCAAGGGAAATGTTTTCAATGTTTATGT
Found at i:845128 original size:36 final size:36
Alignment explanation
Indices: 845035--845137 Score: 127
Period size: 36 Copynumber: 2.9 Consensus size: 36
845025 TCAATGTTTA
* * * **
845035 TGTTTCATGAAAAACTGTCTCAAGGGAGA-AATTTT
1 TGTTTCAAGGAAAACTGTCTCAAGAGAGACAAAGTT
* * *
845070 TTTTTAAAGGGAAACTGTCTCAAGAGAGACAAAGTT
1 TGTTTCAAGGAAAACTGTCTCAAGAGAGACAAAGTT
845106 TGTTTCAAGGAAAACTGTCTCAAGAGAGACAA
1 TGTTTCAAGGAAAACTGTCTCAAGAGAGACAA
845138 TGGTGAGCAC
Statistics
Matches: 56, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
35 23 0.41
36 33 0.59
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.28
Consensus pattern (36 bp):
TGTTTCAAGGAAAACTGTCTCAAGAGAGACAAAGTT
Found at i:846021 original size:22 final size:22
Alignment explanation
Indices: 845996--846051 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
845986 TTGTGTTTGG
845996 TCAAAGGTTTGACATTTGATGC
1 TCAAAGGTTTGACATTTGATGC
**
846018 TCAAAGGTTTGGTATTTGATGC
1 TCAAAGGTTTGACATTTGATGC
*
846040 TCAAAGGATTGA
1 TCAAAGGTTTGA
846052 TGGGGTAGCT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.29, C:0.11, G:0.25, T:0.36
Consensus pattern (22 bp):
TCAAAGGTTTGACATTTGATGC
Found at i:846689 original size:20 final size:21
Alignment explanation
Indices: 846666--846714 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
846656 TTTTTTAATT
*
846666 TTGTTCTTTCTTTTTTG-TTC
1 TTGTTCTTTCCTTTTTGCTTC
*
846686 TTGTTTTTTCCTTTTTGCTTC
1 TTGTTCTTTCCTTTTTGCTTC
846707 TT-TTCTTT
1 TTGTTCTTT
846715 TTTCTTTTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 20 0.80
21 5 0.20
ACGTcount: A:0.00, C:0.16, G:0.08, T:0.76
Consensus pattern (21 bp):
TTGTTCTTTCCTTTTTGCTTC
Found at i:846732 original size:22 final size:23
Alignment explanation
Indices: 846689--846731 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
846679 TTTGTTCTTG
*
846689 TTTTTTCCTTTTTGCTTCTTTTC
1 TTTTTTCCTTTTTGCCTCTTTTC
846712 TTTTTT-CTTTTTGCC-CTTTT
1 TTTTTTCCTTTTTGCCTCTTTT
846732 TGTTCTGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 5 0.26
22 8 0.42
23 6 0.32
ACGTcount: A:0.00, C:0.21, G:0.05, T:0.74
Consensus pattern (23 bp):
TTTTTTCCTTTTTGCCTCTTTTC
Found at i:851329 original size:2 final size:2
Alignment explanation
Indices: 851324--851367 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
851314 AAACATTATG
*
851324 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AA AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
851365 AT A
1 AT A
851368 ATAACGAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:851406 original size:15 final size:16
Alignment explanation
Indices: 851386--851422 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
851376 AAAAAAAATT
851386 TAATAAAGTAA-ATAA
1 TAATAAAGTAATATAA
*
851401 TAATAATGTAATATAA
1 TAATAAAGTAATATAA
851417 T-ATAAA
1 TAATAAA
851423 TACATGAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.32
Consensus pattern (16 bp):
TAATAAAGTAATATAA
Found at i:851659 original size:11 final size:11
Alignment explanation
Indices: 851581--851667 Score: 50
Period size: 11 Copynumber: 7.3 Consensus size: 11
851571 ATTTATACGT
*
851581 TAATAGTAAAA
1 TAATATTAAAA
*
851592 TAATAATAAATA
1 TAATATTAAA-A
851604 TAATAGTTATAAA
1 TAATA-TTA-AAA
*
851617 TATATATATATAA
1 TA-ATAT-TAAAA
851630 TAACT-TTAAAAA
1 TAA-TATT-AAAA
*
851642 AATATATTAAAA
1 TA-ATATTAAAA
*
851654 TAATATTAGAA
1 TAATATTAAAA
851665 TAA
1 TAA
851668 AAATAATTAA
Statistics
Matches: 60, Mismatches: 7, Indels: 18
0.71 0.08 0.21
Matches are distributed among these distances:
11 21 0.35
12 18 0.30
13 14 0.23
14 7 0.12
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (11 bp):
TAATATTAAAA
Found at i:852174 original size:37 final size:35
Alignment explanation
Indices: 852111--852179 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 35
852101 AACATAGTAA
* *
852111 AATTCTATCTTATTTTAGGAGTTGAATCCTAGCAG
1 AATTATATCCTATTTTAGGAGTTGAATCCTAGCAG
*
852146 AATTATATCCTATTTTTGAGAGTTTGAATCCTAG
1 AATTATATCCTATTTTAG-GAG-TTGAATCCTAG
852180 TAGGACGAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 15 0.52
36 3 0.10
37 11 0.38
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.42
Consensus pattern (35 bp):
AATTATATCCTATTTTAGGAGTTGAATCCTAGCAG
Found at i:858991 original size:12 final size:12
Alignment explanation
Indices: 858970--858998 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
858960 TATGAGAATA
858970 TGTT-TTATTGT
1 TGTTGTTATTGT
858981 TGTTGTTATTGT
1 TGTTGTTATTGT
858993 TGTTGT
1 TGTTGT
858999 ATTAAAGGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 4 0.24
12 13 0.76
ACGTcount: A:0.07, C:0.00, G:0.24, T:0.69
Consensus pattern (12 bp):
TGTTGTTATTGT
Found at i:863641 original size:29 final size:29
Alignment explanation
Indices: 863598--863680 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
863588 CTCACCTAAC
863598 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
863628 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
863657 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
863681 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:868399 original size:29 final size:29
Alignment explanation
Indices: 868356--868438 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
868346 CTCACCTAAC
868356 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
868386 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
868415 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
868439 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:870481 original size:15 final size:15
Alignment explanation
Indices: 870457--870486 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
870447 CATACATACA
870457 TATATATATGTATAT
1 TATATATATGTATAT
*
870472 TATATGTATGTATAT
1 TATATATATGTATAT
870487 CTCAACAGCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (15 bp):
TATATATATGTATAT
Found at i:876101 original size:2 final size:2
Alignment explanation
Indices: 876094--876121 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
876084 TTCTTCATCA
876094 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
876122 TACAAAAGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:878497 original size:3 final size:3
Alignment explanation
Indices: 878449--878485 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
878439 TATTTTTAAA
878449 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
878486 AATATATTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:879277 original size:16 final size:16
Alignment explanation
Indices: 879256--879286 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
879246 TCTCTCAGTT
879256 AGAGAGAAAAGAGAAA
1 AGAGAGAAAAGAGAAA
*
879272 AGAGAGAAATGAGAA
1 AGAGAGAAAAGAGAA
879287 GATGGCCCTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.65, C:0.00, G:0.32, T:0.03
Consensus pattern (16 bp):
AGAGAGAAAAGAGAAA
Found at i:882188 original size:6 final size:7
Alignment explanation
Indices: 882169--882194 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
882159 TGCATCCTTG
882169 CATTTTT
1 CATTTTT
882176 CATTTTT
1 CATTTTT
882183 CATTTTT
1 CATTTTT
882190 CATTT
1 CATTT
882195 ATACTTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.69
Consensus pattern (7 bp):
CATTTTT
Found at i:885149 original size:11 final size:11
Alignment explanation
Indices: 885135--885184 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
885125 GAAGAAGGAA
885135 AAAGAAAAAAG
1 AAAGAAAAAAG
*
885146 AAAGAAAAGA-
1 AAAGAAAAAAG
885156 AAAG-AAAAAG
1 AAAGAAAAAAG
*
885166 AAAAGAAAAATG
1 -AAAGAAAAAAG
885178 AAA-AAAA
1 AAAGAAAA
885185 TGAGAAATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
9 4 0.12
10 8 0.24
11 16 0.48
12 5 0.15
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (11 bp):
AAAGAAAAAAG
Found at i:885154 original size:5 final size:5
Alignment explanation
Indices: 885134--885174 Score: 55
Period size: 5 Copynumber: 7.8 Consensus size: 5
885124 AGAAGAAGGA
*
885134 AAAAG AAAAA AGAAAG AAAAG AAAAG AAAAAG AAAAG AAAA
1 AAAAG AAAAG A-AAAG AAAAG AAAAG -AAAAG AAAAG AAAA
885175 ATGAAAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 23 0.72
6 9 0.28
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:885155 original size:16 final size:16
Alignment explanation
Indices: 885118--885184 Score: 75
Period size: 16 Copynumber: 4.2 Consensus size: 16
885108 CTCATCCAGC
* *
885118 AAAGAAAGAAGAAGGAA
1 AAAGAAAAAAGAAAG-A
885135 AAAGAAAAAAGAAAGA
1 AAAGAAAAAAGAAAGA
885151 AAAGAAAAGAA-AAAGA
1 AAAGAAAA-AAGAAAGA
*
885167 AAAGAAAAATGAAA-A
1 AAAGAAAAAAGAAAGA
885182 AAA
1 AAA
885185 TGAGAAATTA
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
15 5 0.11
16 25 0.56
17 15 0.33
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.01
Consensus pattern (16 bp):
AAAGAAAAAAGAAAGA
Found at i:885158 original size:21 final size:22
Alignment explanation
Indices: 885118--885174 Score: 73
Period size: 21 Copynumber: 2.5 Consensus size: 22
885108 CTCATCCAGC
885118 AAAGAAAGAAGAAGGAAAAAGAAA
1 AAAGAAAGAA-AAGGAAAAAG-AA
885142 AAAGAAAGAAAA-G-AAAAGAA
1 AAAGAAAGAAAAGGAAAAAGAA
885162 AAAGAAAAGAAAA
1 AAAG-AAAGAAAA
885175 ATGAAAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.19
21 13 0.41
22 1 0.03
23 2 0.06
24 10 0.31
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (22 bp):
AAAGAAAGAAAAGGAAAAAGAA
Found at i:887553 original size:114 final size:114
Alignment explanation
Indices: 887341--887560 Score: 332
Period size: 114 Copynumber: 1.9 Consensus size: 114
887331 CACGTTCTCG
* ** * * *
887341 TAGTAGAAATAAGGAGACCCTGTAGCATCTTTTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
1 TAGTAGAAAGAAGGAGACCCAATAGCATCTTCTGGAAATGTTCTTTGAGTTATCTGATCTGGTTC
* * *
887406 GGTATGAACCCCAAAACCAAACATTATATTTGAAAGATGAATTTGCTCA
66 GGTAGGAACCCCAAAACCAAACATTAGAATTGAAAGATGAATTTGCTCA
887455 TAGTAGAAAGAAGGAGACCCAATAGCATCTTCTGGAAATGTTCTTTGAGTTATCTGATCTGGTTC
1 TAGTAGAAAGAAGGAGACCCAATAGCATCTTCTGGAAATGTTCTTTGAGTTATCTGATCTGGTTC
* * *
887520 GGTAGGAACCCCAGAACCAATCATTGGAATTGAAAGATGAA
66 GGTAGGAACCCCAAAACCAAACATTAGAATTGAAAGATGAA
887561 CTGCATGATC
Statistics
Matches: 94, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
114 94 1.00
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (114 bp):
TAGTAGAAAGAAGGAGACCCAATAGCATCTTCTGGAAATGTTCTTTGAGTTATCTGATCTGGTTC
GGTAGGAACCCCAAAACCAAACATTAGAATTGAAAGATGAATTTGCTCA
Found at i:890052 original size:22 final size:22
Alignment explanation
Indices: 889999--890052 Score: 92
Period size: 21 Copynumber: 2.5 Consensus size: 22
889989 ATCTACACTC
889999 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
890021 TT-TAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
890042 TTCAAAGATGA
1 TTCAAAGATGA
890053 AAGCTTTATG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 20 0.69
22 9 0.31
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.41
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:890860 original size:76 final size:76
Alignment explanation
Indices: 890734--891093 Score: 684
Period size: 76 Copynumber: 4.7 Consensus size: 76
890724 TTCCCACATA
890734 TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
1 TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
*
890799 TCAGGGTCATC
66 TTAGGGTCATC
890810 TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
1 TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
890875 TTAGGGTCATC
66 TTAGGGTCATC
* * *
890886 TGTAATTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATATTTTTAAAGCC
1 TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
890951 TTAGGGTCATC
66 TTAGGGTCATC
890962 TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
1 TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
891027 TTAGGGTCATC
66 TTAGGGTCATC
891038 TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTT
1 TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTT
891094 GTTATTTTGA
Statistics
Matches: 277, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
76 277 1.00
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (76 bp):
TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
TTAGGGTCATC
Found at i:891317 original size:76 final size:76
Alignment explanation
Indices: 891218--891581 Score: 665
Period size: 76 Copynumber: 4.8 Consensus size: 76
891208 CTATTTCCCA
* * *
891218 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGAAGTTTTTTGATGTTTTTAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
891283 AGCCTTAGGGT
66 AGCCTTAGGGT
891294 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
891359 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
891370 CATCTGTAAGTCTTACAGTGCATGACGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
891435 AGCCTTAGGGT
66 AGCCTTAGGGT
*
891446 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGTCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
891511 AGCCTTAGGGT
66 AGCCTTAGGGT
*
891522 CATCTGTAAGTCCTATAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTT
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTT
891582 ATTTTGAAAA
Statistics
Matches: 278, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 278 1.00
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:891521 original size:488 final size:485
Alignment explanation
Indices: 890604--891963 Score: 2425
Period size: 488 Copynumber: 2.8 Consensus size: 485
890594 CCCAATCAAC
**
890604 ATGTTATTTTGAAAAATAATGAGAAAACGATTTCCATAGTTTCTCATTCAATCTTTTCTAAAAAT
1 ATGTTATTTTGAAAAATAATGAGAAAACGATTTCCATAGTTTCTCATTTTATCTTTTCT-AAAAT
* * * *
890669 GAAATTGTTGAAAAGTAAGAAAACGATTTTCATAG-TTTCTTACTTAGTAAACTATTTCCCACAT
65 GAAATTGTTAAAAAGTAAGAAAACGATTTCCTTAGTTTTTTTACTTAGTAAACTATTTCCCACAT
* *
890733 ATGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGC
130 CTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGTTTTTTGATGTTTTCAAAGC
*
890798 CTCAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGAT
195 CTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGAT
*
890863 GTTTTCAAAGCCTTAGGGTCATCTGTAATTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGG
260 GTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGG
* *
890928 AGCTTTTTGATATTTTTAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAA
325 AGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAA
890993 AAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATG
390 AAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATG
891058 ATGTTTCCAAAAAGCCTTCGGGAGCTTTTTG
455 ATGTTTCCAAAAAGCCTTCGGGAGCTTTTTG
*
891089 ATGTTGTTATTTTGAAAAATAATGAGAAAACGATTTACATAGTTTCTCATTTTATCTTTTCTAAA
1 A---TGTTATTTTGAAAAATAATGAGAAAACGATTTCCATAGTTTCTCATTTTATCTTTTCTAAA
*
891154 ATGAAATTGTTAAAAAGTAAGAAAACAATTTCCTTAGTTTTTTTACTTAGTAAACTATTTCCCAC
63 ATGAAATTGTTAAAAAGTAAGAAAACGATTTCCTTAGTTTTTTTACTTAGTAAACTATTTCCCAC
* *
891219 ATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGAAGTTTTTTGATGTTTTTAAA
128 ATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGTTTTTTGATGTTTTCAAA
891284 GCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTG
193 GCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTG
* *
891349 ATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCTTACAGTGCATGACGTTTCCAAAAAGCCTTCG
258 ATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCG
891414 GGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCA
323 GGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCA
* *
891479 AAAAGTCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTATAGTGCA
388 AAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCA
891544 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTG
453 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTG
891577 ATGTTATTTTGAAAAATAATGAGAAAACGATTTCCATAGTTTCTCATTTTATCTTTTCTAAAATG
1 ATGTTATTTTGAAAAATAATGAGAAAACGATTTCCATAGTTTCTCATTTTATCTTTTCTAAAATG
891642 AAATTGTTAAAAAGTAAGAAAACGATTTCCTTAGTTTTTTTACTTAGTAAACTATTTCCCACATC
66 AAATTGTTAAAAAGTAAGAAAACGATTTCCTTAGTTTTTTTACTTAGTAAACTATTTCCCACATC
891707 TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGGAGTTTTTTGATGTTTTCAAAGC
131 TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTC-GGGAGTTTTTTGATGTTTTCAAAGC
* *
891772 CTTAGGTTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAATAGCCTTCGGGAGCTTTTTGAT
195 CTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGAT
*
891837 GTTTTCAAAACCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGG
260 GTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGG
* * *
891902 AGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATATGTAAGCCCTTCAGTGCATGATGATTTC
325 AGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATG-TTTC
891964 AATATTTCAT
Statistics
Matches: 837, Mismatches: 32, Indels: 10
0.95 0.04 0.01
Matches are distributed among these distances:
485 167 0.20
486 202 0.24
487 40 0.05
488 428 0.51
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (485 bp):
ATGTTATTTTGAAAAATAATGAGAAAACGATTTCCATAGTTTCTCATTTTATCTTTTCTAAAATG
AAATTGTTAAAAAGTAAGAAAACGATTTCCTTAGTTTTTTTACTTAGTAAACTATTTCCCACATC
TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGTTTTTTGATGTTTTCAAAGCC
TTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATG
TTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGA
GCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAA
AGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGA
TGTTTCCAAAAAGCCTTCGGGAGCTTTTTG
Found at i:891873 original size:76 final size:76
Alignment explanation
Indices: 891703--891963 Score: 441
Period size: 76 Copynumber: 3.4 Consensus size: 76
891693 CTATTTCCCA
*
891703 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGGAGTTTTTTGATGTTTTCA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTC-GGGAGCTTTTTGATGTTTTCA
*
891768 AAGCCTTAGGTT
65 AAGCCTTAGGGT
*
891780 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAATAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
891845 AACCTTAGGGT
66 AGCCTTAGGGT
891856 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
891921 AGCCTTAGGGT
66 AGCCTTAGGGT
* * *
891932 CATATGTAAGCCCTTCAGTGCATGATGATTTC
1 CATCTGTAAGTCCTACAGTGCATGATG-TTTC
891964 AATATTTCAT
Statistics
Matches: 174, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
76 128 0.74
77 46 0.26
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:892146 original size:3 final size:3
Alignment explanation
Indices: 892098--892134 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
892088 TATTTTTAAA
892098 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
892135 AATATATTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:893070 original size:16 final size:16
Alignment explanation
Indices: 893038--893096 Score: 57
Period size: 16 Copynumber: 3.6 Consensus size: 16
893028 TCCGCAGCCA
893038 TTATAATTTTAGAACT
1 TTATAATTTTAGAACT
*
893054 TTAT-ATTTTAGTCACT
1 TTATAATTTTAG-AACT
* *
893070 TAATCCAATTTTAGATCT
1 TTAT--AATTTTAGAACT
893088 TTATAATTT
1 TTATAATTT
893097 GGTTCTTTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 7 0.21
16 15 0.44
18 5 0.15
19 7 0.21
ACGTcount: A:0.32, C:0.10, G:0.05, T:0.53
Consensus pattern (16 bp):
TTATAATTTTAGAACT
Found at i:894273 original size:19 final size:20
Alignment explanation
Indices: 894236--894273 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
894226 CTTTAGTGCT
* *
894236 AAAAAGACATGTCATAAAAG
1 AAAAAGAAATGTCAAAAAAG
894256 AAAAAGAAAT-TCAAAAAA
1 AAAAAGAAATGTCAAAAAA
894274 TATATATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.68, C:0.08, G:0.11, T:0.13
Consensus pattern (20 bp):
AAAAAGAAATGTCAAAAAAG
Found at i:901887 original size:31 final size:31
Alignment explanation
Indices: 901851--901914 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
901841 TTCAAAAATA
901851 ATAAAATAATAATTAAATTGATTAAATTATT
1 ATAAAATAATAATTAAATTGATTAAATTATT
* * *
901882 ATAAAATAATCATTTAATTTATTAAATTATT
1 ATAAAATAATAATTAAATTGATTAAATTATT
901913 AT
1 AT
901915 TATTTTATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (31 bp):
ATAAAATAATAATTAAATTGATTAAATTATT
Found at i:901923 original size:39 final size:38
Alignment explanation
Indices: 901862--901984 Score: 96
Period size: 39 Copynumber: 3.2 Consensus size: 38
901852 TAAAATAATA
*
901862 ATTAAATTGATTAAATTATTATAAAATAATCATTTAATTT
1 ATTAAATT-ATTATATT-TTATAAAATAATCATTTAATTT
*
901902 ATTAAATTATTATTATTTTATATTAA-AAT-ATTT--TTGT
1 ATTAAATTATTA-TATTTTATA-AAATAATCATTTAATT-T
*
901939 CATTAAATTTATTGA-ATAGTTATAAAATAATCA-TTAATTT
1 -ATTAAA-TTATT-ATAT-TTTATAAAATAATCATTTAATTT
901979 ATTAAA
1 ATTAAA
901985 CTTTATGATC
Statistics
Matches: 68, Mismatches: 4, Indels: 23
0.72 0.04 0.24
Matches are distributed among these distances:
36 2 0.03
37 1 0.01
38 14 0.21
39 33 0.49
40 16 0.24
41 2 0.03
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (38 bp):
ATTAAATTATTATATTTTATAAAATAATCATTTAATTT
Found at i:905539 original size:21 final size:22
Alignment explanation
Indices: 905501--905543 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
905491 ATAAAAAAAT
905501 TAAATAATTTATCTAATTTTTA
1 TAAATAATTTATCTAATTTTTA
*
905523 TAAATAA-TTAT-TAAATTTTA
1 TAAATAATTTATCTAATTTTTA
905543 T
1 T
905544 CGAACTTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 9 0.45
21 4 0.20
22 7 0.35
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (22 bp):
TAAATAATTTATCTAATTTTTA
Found at i:905674 original size:18 final size:20
Alignment explanation
Indices: 905653--905695 Score: 54
Period size: 18 Copynumber: 2.2 Consensus size: 20
905643 AAAATGATTA
905653 TTTTATAATAA-A-TTAATT
1 TTTTATAATAACATTTAATT
*
905671 TTTTTTAATAACTATTTAATT
1 TTTTATAATAAC-ATTTAATT
905692 TTTT
1 TTTT
905696 TTTAAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 10 0.48
20 1 0.05
21 10 0.48
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTTATAATAACATTTAATT
Found at i:909612 original size:27 final size:26
Alignment explanation
Indices: 909585--909637 Score: 65
Period size: 27 Copynumber: 2.1 Consensus size: 26
909575 ATCTAATAAT
*
909585 AATAT-AT-AAACTTAAACTAAAATA
1 AATATGATAAAACTTAAAATAAAATA
*
909609 AATATGGATAAAATTTAAAATAAAATA
1 AATAT-GATAAAACTTAAAATAAAATA
909636 AA
1 AA
909638 ATTTAAGTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 5 0.21
26 2 0.08
27 17 0.71
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.28
Consensus pattern (26 bp):
AATATGATAAAACTTAAAATAAAATA
Found at i:911874 original size:20 final size:21
Alignment explanation
Indices: 911837--911876 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
911827 AGTCGTTGGG
*
911837 GCCTGATGGTAGCGATACTAT
1 GCCTGATGGTAGCAATACTAT
*
911858 GCCT-ATGGTATCAATACTA
1 GCCTGATGGTAGCAATACTA
911877 CTATACAGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.30
Consensus pattern (21 bp):
GCCTGATGGTAGCAATACTAT
Found at i:913210 original size:124 final size:124
Alignment explanation
Indices: 912990--913479 Score: 637
Period size: 124 Copynumber: 3.9 Consensus size: 124
912980 TGGTAAACTG
* * * * * * * * * * *
912990 TGAAAGCAATCTAAGACTATGGTATGATCTATTATGACTACTGTATTGTGTTCATCGGCTCGAA-
1 TGAAATCAATCCAAGACTGTGGCATGATCTGTTATAACTACTATATCGTGTTAATTGGTTCGAAT
* * * *
913054 TCTGAATGTA-CTTCAGCAAGAATTACATTACTTGTAATACAAGCATGAAACAAAAAACAA
66 TC-GAATGTACCTTGA-CGAGAACTGCATTACTTGTAATACAAGCATGAAACAAAAAACAA
*
913114 TGAAATCAATCCAAGACTGTGGTATGATCTGTTATAACTACTATATCGTGTTAATTGGTTCGAAT
1 TGAAATCAATCCAAGACTGTGGCATGATCTGTTATAACTACTATATCGTGTTAATTGGTTCGAAT
*
913179 TCGAATGTACCTTGACGAGATCTGCATTACTTGTAATACAAGCATGAAACAAAAAACAA
66 TCGAATGTACCTTGACGAGAACTGCATTACTTGTAATACAAGCATGAAACAAAAAACAA
* * *
913238 TGAAATCAATCCATGACTGGGGTGTGGCATGATCTGTTATAACTACTATATCATGTTAATTTGTT
1 TGAAATCAATCCAAGAC-----TGTGGCATGATCTGTTATAACTACTATATCGTGTTAATTGGTT
* * * *
913303 -GAATACGAATGTACTTTGACGAGAACTGCATTGCTTGTAATACAAGCATG-AACCAAAAACAA
61 CGAATTCGAATGTACCTTGACGAGAACTGCATTACTTGTAATACAAGCATGAAACAAAAAACAA
*
913365 TGAAATCAATCCAAGACTGTGGCATGATCTGTTATAACTACTATATCGTGTTAATTGGTTTGAAT
1 TGAAATCAATCCAAGACTGTGGCATGATCTGTTATAACTACTATATCGTGTTAATTGGTTCGAAT
* * *
913430 TCGAATGTTCTTTGAAGAGAACTGCATTACTTGTAATACAAGCATGAAAC
66 TCGAATGTACCTTGACGAGAACTGCATTACTTGTAATACAAGCATGAAAC
913480 TGGAAGAAAA
Statistics
Matches: 326, Mismatches: 31, Indels: 18
0.87 0.08 0.05
Matches are distributed among these distances:
122 41 0.13
123 46 0.14
124 120 0.37
125 6 0.02
127 27 0.08
128 46 0.14
129 40 0.12
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.31
Consensus pattern (124 bp):
TGAAATCAATCCAAGACTGTGGCATGATCTGTTATAACTACTATATCGTGTTAATTGGTTCGAAT
TCGAATGTACCTTGACGAGAACTGCATTACTTGTAATACAAGCATGAAACAAAAAACAA
Found at i:914775 original size:16 final size:16
Alignment explanation
Indices: 914754--914794 Score: 82
Period size: 16 Copynumber: 2.6 Consensus size: 16
914744 TATCTGCAGG
914754 ATTTTCTGATGTCGTA
1 ATTTTCTGATGTCGTA
914770 ATTTTCTGATGTCGTA
1 ATTTTCTGATGTCGTA
914786 ATTTTCTGA
1 ATTTTCTGA
914795 AGTATAATCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.20, C:0.12, G:0.17, T:0.51
Consensus pattern (16 bp):
ATTTTCTGATGTCGTA
Found at i:922233 original size:27 final size:27
Alignment explanation
Indices: 922203--922257 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
922193 TCAAACTATT
*
922203 TCAATAATATATTTATTACAGTAGACG
1 TCAATAATATATTTATTACAGTACACG
922230 TCAATAATATATTTATTACAGTACACG
1 TCAATAATATATTTATTACAGTACACG
922257 T
1 T
922258 TTTATCAAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (27 bp):
TCAATAATATATTTATTACAGTACACG
Found at i:929069 original size:64 final size:63
Alignment explanation
Indices: 928935--929075 Score: 151
Period size: 64 Copynumber: 2.2 Consensus size: 63
928925 CACATTCAAG
* * *
928935 GTGCATCGATGCACTCTTTAAAGAAGAAACATCGAATGCAATTGGTGCATCGATGCATAAGGA
1 GTGCATCGATGCACCCCTTAAAGAAGAAACATCGAAGGCAATTGGTGCATCGATGCATAAGGA
* * * * * * *
928998 TTACATCGATGCATCCCCTTAAA-ATGAAAACATCGAAGGTAATTTGTGTATCGATGCAT-GGGT
1 GTGCATCGATGCA-CCCCTTAAAGAAG-AAACATCGAAGGCAATTGGTGCATCGATGCATAAGG-
929061 A
63 A
929062 GTGCATCGATGCAC
1 GTGCATCGATGCAC
929076 ATGTTAAAGA
Statistics
Matches: 63, Mismatches: 12, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
63 16 0.25
64 47 0.75
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (63 bp):
GTGCATCGATGCACCCCTTAAAGAAGAAACATCGAAGGCAATTGGTGCATCGATGCATAAGGA
Found at i:929108 original size:20 final size:22
Alignment explanation
Indices: 929063--929120 Score: 84
Period size: 20 Copynumber: 2.6 Consensus size: 22
929053 GCATGGGTAG
929063 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCAC-TGTT-AAGAA
929087 TGCATCGATGCACTG-T-AGAA
1 TGCATCGATGCACTGTTAAGAA
929107 TGCATCGATGCACT
1 TGCATCGATGCACT
929121 TCAAGGGGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 18 0.53
22 1 0.03
23 2 0.06
24 13 0.38
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (22 bp):
TGCATCGATGCACTGTTAAGAA
Found at i:933158 original size:44 final size:44
Alignment explanation
Indices: 933101--933204 Score: 111
Period size: 45 Copynumber: 2.3 Consensus size: 44
933091 GCACATTCAA
* * * *
933101 GGTGCATCAATGCACTCTTTAAAGAAG-AAACATCGAATGCAATT
1 GGTGCATCGATGCACCCCTTAAA-AAGAAAACATCGAAGGCAATT
* *
933145 GGTGCATCGATGCATCCCCTTAAAATGAAAACATCGAAGGTAATT
1 GGTGCATCGATGCA-CCCCTTAAAAAGAAAACATCGAAGGCAATT
* *
933190 TGTGTATCGATGCAC
1 GGTGCATCGATGCAC
933205 ATGTTAAAGA
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
44 16 0.32
45 34 0.68
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (44 bp):
GGTGCATCGATGCACCCCTTAAAAAGAAAACATCGAAGGCAATT
Found at i:933227 original size:24 final size:24
Alignment explanation
Indices: 933195--933252 Score: 116
Period size: 24 Copynumber: 2.4 Consensus size: 24
933185 TAATTTGTGT
933195 ATCGATGCACATGTTAAAGAATGC
1 ATCGATGCACATGTTAAAGAATGC
933219 ATCGATGCACATGTTAAAGAATGC
1 ATCGATGCACATGTTAAAGAATGC
933243 ATCGATGCAC
1 ATCGATGCAC
933253 TTCAAGGGGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (24 bp):
ATCGATGCACATGTTAAAGAATGC
Found at i:939655 original size:18 final size:19
Alignment explanation
Indices: 939613--939655 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
939603 CTGAAGTGCT
939613 TATAGGAACTAAAAATGCA
1 TATAGGAACTAAAAATGCA
939632 TATAGGAACTAAAAATGCA
1 TATAGGAACTAAAAATGCA
939651 T-TAGG
1 TATAGG
939656 CCTCAAGCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 4 0.17
19 20 0.83
ACGTcount: A:0.49, C:0.09, G:0.19, T:0.23
Consensus pattern (19 bp):
TATAGGAACTAAAAATGCA
Found at i:939859 original size:20 final size:21
Alignment explanation
Indices: 939829--939868 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
939819 CATAATGCCA
939829 TTTGAGGACTGCATGGCGACC
1 TTTGAGGACTGCATGGCGACC
939850 TTTG-GGACTGCATGGCGAC
1 TTTGAGGACTGCATGGCGAC
939869 TGGTAGATCG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.17, C:0.23, G:0.35, T:0.25
Consensus pattern (21 bp):
TTTGAGGACTGCATGGCGACC
Found at i:941216 original size:2 final size:2
Alignment explanation
Indices: 941177--941201 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
941167 TGACACAAAC
941177 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
941202 AGAGATTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:941283 original size:25 final size:25
Alignment explanation
Indices: 941249--941298 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
941239 AAATCTTTTT
941249 CTTCTAGATTTTATTACTGCTCACA
1 CTTCTAGATTTTATTACTGCTCACA
941274 CTTCTAGATTTTATTACTGCTCACA
1 CTTCTAGATTTTATTACTGCTCACA
941299 ATTTTCTCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.24, G:0.08, T:0.44
Consensus pattern (25 bp):
CTTCTAGATTTTATTACTGCTCACA
Found at i:945972 original size:108 final size:108
Alignment explanation
Indices: 945772--945976 Score: 277
Period size: 108 Copynumber: 1.9 Consensus size: 108
945762 GGACGACTAC
* ** *
945772 TTTTTTTATGTAAGCCTATTTTTATGCTTATTCCTAGTTTAACACTTAAACTATATCTTATTCTT
1 TTTTTTTATGTAAGCCTACTTTTATGCTTATTAATAGTTTAACACTTAAACTATAACTTATTCTT
*
945837 AATTTGATCCTCCATCTGTCCCCCATTGATTGATTTGAAAGGG
66 AATTTGATCCTCCATCTGTCACCCATTGATTGATTTGAAAGGG
* * **
945880 TTTTTTTATGTAAGCCTACTTTTA-GATTTATTAATAGTTTGATTCTTAAACTATAACTTATTCT
1 TTTTTTTATGTAAGCCTACTTTTATG-CTTATTAATAGTTTAACACTTAAACTATAACTTATTCT
* * * *
945944 TAATTTGATCCTTCATGTTTCACTCATTGATTG
65 TAATTTGATCCTCCATCTGTCACCCATTGATTG
945977 GTTAAAAGGA
Statistics
Matches: 83, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
107 1 0.01
108 82 0.99
ACGTcount: A:0.25, C:0.16, G:0.10, T:0.49
Consensus pattern (108 bp):
TTTTTTTATGTAAGCCTACTTTTATGCTTATTAATAGTTTAACACTTAAACTATAACTTATTCTT
AATTTGATCCTCCATCTGTCACCCATTGATTGATTTGAAAGGG
Found at i:953569 original size:23 final size:21
Alignment explanation
Indices: 953537--953601 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 21
953527 CATGAGGCTT
*
953537 TTAAAAATATATATATTTAAATA
1 TTAAAAATAT-TATAATTAAA-A
* *
953560 TTAAATATATTTTAATTAAAA
1 TTAAAAATATTATAATTAAAA
*
953581 TTAAAACAT-TTAAAATTAAAA
1 TTAAAA-ATATTATAATTAAAA
953602 AGAAAATAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 16 0.46
22 10 0.29
23 9 0.26
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (21 bp):
TTAAAAATATTATAATTAAAA
Found at i:960444 original size:17 final size:17
Alignment explanation
Indices: 960422--960454 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
960412 AAAGAGAACT
960422 CAAAGAATC-CATTAAAA
1 CAAAGAA-CGCATTAAAA
960439 CAAAGAACGCATTAAA
1 CAAAGAACGCATTAAA
960455 TATGGAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 1 0.07
17 14 0.93
ACGTcount: A:0.58, C:0.18, G:0.09, T:0.15
Consensus pattern (17 bp):
CAAAGAACGCATTAAAA
Found at i:968875 original size:5 final size:5
Alignment explanation
Indices: 968860--968892 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
968850 AAACCGGTTT
968860 GACCC GA-CC GACCC GACCC GACCC GACCC GACC
1 GACCC GACCC GACCC GACCC GACCC GACCC GACC
968893 GTTGACCGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.21, C:0.58, G:0.21, T:0.00
Consensus pattern (5 bp):
GACCC
Found at i:975174 original size:53 final size:54
Alignment explanation
Indices: 975116--975223 Score: 209
Period size: 54 Copynumber: 2.0 Consensus size: 54
975106 TGAAAGATTT
975116 TAAAACTTTGAG-TTGTTTTAGAATTAAAGAAAATTCAGGGACGAAACCCTGAA
1 TAAAACTTTGAGCTTGTTTTAGAATTAAAGAAAATTCAGGGACGAAACCCTGAA
975169 TAAAACTTTGAGCTTGTTTTAGAATTAAAGAAAATTCAGGGACGAAACCCTGAA
1 TAAAACTTTGAGCTTGTTTTAGAATTAAAGAAAATTCAGGGACGAAACCCTGAA
975223 T
1 T
975224 TTACCCAATA
Statistics
Matches: 54, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
53 12 0.22
54 42 0.78
ACGTcount: A:0.41, C:0.12, G:0.19, T:0.29
Consensus pattern (54 bp):
TAAAACTTTGAGCTTGTTTTAGAATTAAAGAAAATTCAGGGACGAAACCCTGAA
Found at i:975659 original size:26 final size:26
Alignment explanation
Indices: 975623--975675 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
975613 GTCAAAGATT
975623 CGGCCGAGTTGAAATCGAGCTCTCCG
1 CGGCCGAGTTGAAATCGAGCTCTCCG
975649 CGGCCGAGTTGAAATCGAGCTCTCCG
1 CGGCCGAGTTGAAATCGAGCTCTCCG
975675 C
1 C
975676 CGTTCAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.19, C:0.32, G:0.30, T:0.19
Consensus pattern (26 bp):
CGGCCGAGTTGAAATCGAGCTCTCCG
Found at i:980398 original size:45 final size:45
Alignment explanation
Indices: 980334--980423 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
980324 GAAAGAAACG
980334 GTGGATTAAATTGTAAAATTTCAAAGTTGGCAGACCATTTTAAGA
1 GTGGATTAAATTGTAAAATTTCAAAGTTGGCAGACCATTTTAAGA
*
980379 GTGGATTAAATTGTAAAATTTCAAAGTTGGTAGACCATTTTAAGA
1 GTGGATTAAATTGTAAAATTTCAAAGTTGGCAGACCATTTTAAGA
980424 AGTGCAGGAA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.38, C:0.08, G:0.20, T:0.34
Consensus pattern (45 bp):
GTGGATTAAATTGTAAAATTTCAAAGTTGGCAGACCATTTTAAGA
Found at i:981035 original size:9 final size:9
Alignment explanation
Indices: 981021--981068 Score: 51
Period size: 9 Copynumber: 5.0 Consensus size: 9
981011 ATGGTCCAAA
981021 TGACCGGTT
1 TGACCGGTT
981030 TGACCGGTTT
1 TGACCGG-TT
* *
981040 TGGAGCAGATT
1 T-GA-CCGGTT
981051 TGACCGGTT
1 TGACCGGTT
981060 TGACCGGTT
1 TGACCGGTT
981069 ACAACCCGAC
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
9 20 0.62
10 5 0.16
11 5 0.16
12 2 0.06
ACGTcount: A:0.15, C:0.19, G:0.33, T:0.33
Consensus pattern (9 bp):
TGACCGGTT
Found at i:983595 original size:12 final size:12
Alignment explanation
Indices: 983580--983644 Score: 60
Period size: 12 Copynumber: 5.4 Consensus size: 12
983570 ATTACCTGAA
983580 TTCTGTTATGAT
1 TTCTGTTATGAT
*
983592 TTCTGATATGGA-
1 TTCTGTTAT-GAT
983604 TTCTGTTATGAT
1 TTCTGTTATGAT
* * * *
983616 ATCTGATCTGAA
1 TTCTGTTATGAT
*
983628 TTCTGTTTTGAT
1 TTCTGTTATGAT
983640 TTCTG
1 TTCTG
983645 ATATCTCTGT
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
11 2 0.05
12 37 0.90
13 2 0.05
ACGTcount: A:0.18, C:0.11, G:0.18, T:0.52
Consensus pattern (12 bp):
TTCTGTTATGAT
Found at i:983606 original size:24 final size:24
Alignment explanation
Indices: 983576--983648 Score: 110
Period size: 24 Copynumber: 3.0 Consensus size: 24
983566 ATACATTACC
983576 TGAATTCTGTTATGATTTCTGATA
1 TGAATTCTGTTATGATTTCTGATA
* * *
983600 TGGATTCTGTTATGATATCTGATC
1 TGAATTCTGTTATGATTTCTGATA
*
983624 TGAATTCTGTTTTGATTTCTGATA
1 TGAATTCTGTTATGATTTCTGATA
983648 T
1 T
983649 CTCTGTTTAC
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.22, C:0.10, G:0.18, T:0.51
Consensus pattern (24 bp):
TGAATTCTGTTATGATTTCTGATA
Found at i:985087 original size:45 final size:45
Alignment explanation
Indices: 985023--985113 Score: 164
Period size: 45 Copynumber: 2.0 Consensus size: 45
985013 TAAAAGAAAC
985023 AGTGGATTAAATTGTAAAATTTCAAAGTTGGCAAACCATTTTAAG
1 AGTGGATTAAATTGTAAAATTTCAAAGTTGGCAAACCATTTTAAG
* *
985068 AGTGGATTAAATTGTAAAATTTCAAAGTTGGTAGACCATTTTAAG
1 AGTGGATTAAATTGTAAAATTTCAAAGTTGGCAAACCATTTTAAG
985113 A
1 A
985114 AGTGCAGGAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.40, C:0.08, G:0.19, T:0.34
Consensus pattern (45 bp):
AGTGGATTAAATTGTAAAATTTCAAAGTTGGCAAACCATTTTAAG
Found at i:985793 original size:18 final size:20
Alignment explanation
Indices: 985770--985820 Score: 79
Period size: 18 Copynumber: 2.6 Consensus size: 20
985760 ACCCCAACCC
985770 GACCCGTTGACCCGA-CCA-
1 GACCCGTTGACCCGACCCAT
985788 GACCCGTTGACCCGACCCATT
1 GACCCGTTGACCCGACCCA-T
985809 GACCCGTTGACC
1 GACCCGTTGACC
985821 GTTGACCGCC
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
18 15 0.50
19 3 0.10
21 12 0.40
ACGTcount: A:0.20, C:0.43, G:0.22, T:0.16
Consensus pattern (20 bp):
GACCCGTTGACCCGACCCAT
Found at i:987174 original size:18 final size:18
Alignment explanation
Indices: 987153--987196 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
987143 AAATAAATGA
*
987153 TAAGATTGAATTTAATAG
1 TAAGATCGAATTTAATAG
987171 TAAGATCGAATTTAATAG
1 TAAGATCGAATTTAATAG
987189 TAAGATCG
1 TAAGATCG
987197 GACGGAAGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.43, C:0.05, G:0.18, T:0.34
Consensus pattern (18 bp):
TAAGATCGAATTTAATAG
Found at i:988214 original size:12 final size:12
Alignment explanation
Indices: 988199--988267 Score: 52
Period size: 12 Copynumber: 5.8 Consensus size: 12
988189 GATACATTAC
988199 CTGAATTCTGTT
1 CTGAATTCTGTT
* *
988211 CTGATTTCTGAT
1 CTGAATTCTGTT
*
988223 CTGGATTCTGTT
1 CTGAATTCTGTT
* *
988235 ATG-ATATCTGAT
1 CTGAAT-TCTGTT
988247 CTG-ATTCTGTT
1 CTGAATTCTGTT
* *
988258 TTGATTTCTG
1 CTGAATTCTG
988268 ATATCTCTGT
Statistics
Matches: 44, Mismatches: 11, Indels: 4
0.75 0.19 0.07
Matches are distributed among these distances:
11 9 0.20
12 35 0.80
ACGTcount: A:0.16, C:0.14, G:0.19, T:0.51
Consensus pattern (12 bp):
CTGAATTCTGTT
Found at i:988230 original size:24 final size:23
Alignment explanation
Indices: 988203--988269 Score: 98
Period size: 24 Copynumber: 2.9 Consensus size: 23
988193 CATTACCTGA
*
988203 ATTCTGTTCTGATTTCTGATCTGG
1 ATTCTGTTATGATTTCTGATCT-G
*
988227 ATTCTGTTATGATATCTGATCTG
1 ATTCTGTTATGATTTCTGATCTG
*
988250 ATTCTGTTTTGATTTCTGAT
1 ATTCTGTTATGATTTCTGAT
988270 ATCTCTGTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
23 19 0.49
24 20 0.51
ACGTcount: A:0.16, C:0.13, G:0.18, T:0.52
Consensus pattern (23 bp):
ATTCTGTTATGATTTCTGATCTG
Found at i:989493 original size:45 final size:45
Alignment explanation
Indices: 989429--989518 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
989419 TAAAGAAACG
989429 GTGGATTAAATTGTAAAATTTCAAAGTTGGCAGACCATTTTAAGA
1 GTGGATTAAATTGTAAAATTTCAAAGTTGGCAGACCATTTTAAGA
*
989474 GTGGATTAAATTGTAAAATTTCAAAGTTGGTAGACCATTTTAAGA
1 GTGGATTAAATTGTAAAATTTCAAAGTTGGCAGACCATTTTAAGA
989519 AGTGCAGGAA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.38, C:0.08, G:0.20, T:0.34
Consensus pattern (45 bp):
GTGGATTAAATTGTAAAATTTCAAAGTTGGCAGACCATTTTAAGA
Found at i:992626 original size:43 final size:47
Alignment explanation
Indices: 992578--992683 Score: 132
Period size: 48 Copynumber: 2.3 Consensus size: 47
992568 AAATATTTTA
992578 TCTGATTTCTGACT-TGAATTCTGTTAT-A-A-T-ACCTGAATTCTGT
1 TCTGATTTCTGA-TATGAATTCTGTTATGATACTGACCTGAATTCTGT
* *
992621 TCTGATTTCTGATATGGATTCTGTTATGATATCTGATCTGAATTCTGT
1 TCTGATTTCTGATATGAATTCTGTTATGATA-CTGACCTGAATTCTGT
*
992669 TTTGATTTCTGATAT
1 TCTGATTTCTGATAT
992684 CTCTGTTTAC
Statistics
Matches: 54, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
42 1 0.02
43 24 0.44
44 1 0.02
45 1 0.02
47 1 0.02
48 26 0.48
ACGTcount: A:0.22, C:0.13, G:0.16, T:0.49
Consensus pattern (47 bp):
TCTGATTTCTGATATGAATTCTGTTATGATACTGACCTGAATTCTGT
Found at i:992630 original size:12 final size:12
Alignment explanation
Indices: 992610--992679 Score: 52
Period size: 12 Copynumber: 5.8 Consensus size: 12
992600 GTTATAATAC
*
992610 CTGAATTCTGTT
1 CTGATTTCTGTT
*
992622 CTGATTTCTGAT
1 CTGATTTCTGTT
*
992634 ATGGA-TTCTGTT
1 CT-GATTTCTGTT
* * *
992646 ATGATATCTGAT
1 CTGATTTCTGTT
*
992658 CTGAATTCTGTT
1 CTGATTTCTGTT
*
992670 TTGATTTCTG
1 CTGATTTCTG
992680 ATATCTCTGT
Statistics
Matches: 44, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
11 2 0.05
12 40 0.91
13 2 0.05
ACGTcount: A:0.19, C:0.13, G:0.19, T:0.50
Consensus pattern (12 bp):
CTGATTTCTGTT
Found at i:992641 original size:24 final size:24
Alignment explanation
Indices: 992611--992683 Score: 101
Period size: 24 Copynumber: 3.0 Consensus size: 24
992601 TTATAATACC
*
992611 TGAATTCTGTTCTGATTTCTGATA
1 TGAATTCTGTTATGATTTCTGATA
* * *
992635 TGGATTCTGTTATGATATCTGATC
1 TGAATTCTGTTATGATTTCTGATA
*
992659 TGAATTCTGTTTTGATTTCTGATA
1 TGAATTCTGTTATGATTTCTGATA
992683 T
1 T
992684 CTCTGTTTAC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.21, C:0.11, G:0.18, T:0.51
Consensus pattern (24 bp):
TGAATTCTGTTATGATTTCTGATA
Found at i:993812 original size:254 final size:252
Alignment explanation
Indices: 993328--993833 Score: 978
Period size: 255 Copynumber: 2.0 Consensus size: 252
993318 TATTTTTATA
993328 GTGGGTCGCTCGGTGACCCTAATGTGACAACCTAGATCGGATCGGGTTACCCGTATCGGTCTGGG
1 GTGGGTCGCTCGGTGACCCTAATGTGACAACCTAGATCGGATCGGGTTACCCGTATCGGTCTGGG
993393 GGGTTACAGATCTAATGGGATGAGCCATTAAGTTCCTTAGCAAGGTCAGGGGTTCGAATCCTGAC
66 GGGTTACAGATCTAATGGGATGAGCCATTAAGTTCCTTAGCAAGGTCAGGGGTTCGAATCCTGAC
993458 ATTTGCGAATGGATCAAACTGGGTTTGGAGGATCGCCCTCACTTCTACAGTACATGATTTAGATT
131 ATTTGCGAATGGATCAAACTGGGTTTGGAGGATCGCCCTCACTTCTACAGTACATGATTTAGATT
993523 AGTCGGTCAATAGATCAGATACCAATGATTAATTCAAAATAAAATAACAATGTTATCT
196 AGTCGGTCAATAGATCAGATACCAATGATTAATTC-AAATAAAATAACAATGTTATCT
993581 GTGGGTCGCTCCGGTGACCCTAATGTGACAACCTAGATCGGATCGGGTTACCCGTATCGGTCTGG
1 GTGGGTCGCT-CGGTGACCCTAATGTGACAACCTAGATCGGATCGGGTTACCCGTATCGGTCTGG
993646 GGGGTTACAGATCTAATGGGATGAGCCATTAAGTTCCTTTAGCAAGGTCAGGGGTTCGAATCCTG
65 GGGGTTACAGATCTAATGGGATGAGCCATTAAGTTCC-TTAGCAAGGTCAGGGGTTCGAATCCTG
993711 ACATTTGCGAATGGATCAAACTGGGTTTGGAGGATCGCCCTCACTTCTACAGTACATGATTTAGA
129 ACATTTGCGAATGGATCAAACTGGGTTTGGAGGATCGCCCTCACTTCTACAGTACATGATTTAGA
993776 TTAGTCGGTCAATAGATCAGATACCAATGA-TAATTCAAATAAAATAACAATGTTATCT
194 TTAGTCGGTCAATAGATCAGATACCAATGATTAATTCAAATAAAATAACAATGTTATCT
993834 AGTTGTGCTG
Statistics
Matches: 251, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
253 32 0.13
254 97 0.39
255 122 0.49
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (252 bp):
GTGGGTCGCTCGGTGACCCTAATGTGACAACCTAGATCGGATCGGGTTACCCGTATCGGTCTGGG
GGGTTACAGATCTAATGGGATGAGCCATTAAGTTCCTTAGCAAGGTCAGGGGTTCGAATCCTGAC
ATTTGCGAATGGATCAAACTGGGTTTGGAGGATCGCCCTCACTTCTACAGTACATGATTTAGATT
AGTCGGTCAATAGATCAGATACCAATGATTAATTCAAATAAAATAACAATGTTATCT
Found at i:994458 original size:26 final size:26
Alignment explanation
Indices: 994429--994482 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
994419 TTTTTATTAT
994429 TTCGAATCGGGTTTTTAAGTCATATA
1 TTCGAATCGGGTTTTTAAGTCATATA
**
994455 TTCGGGTCGGGTTTTTAAGTCATATA
1 TTCGAATCGGGTTTTTAAGTCATATA
994481 TT
1 TT
994483 TAAGTCGAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.22, C:0.11, G:0.22, T:0.44
Consensus pattern (26 bp):
TTCGAATCGGGTTTTTAAGTCATATA
Found at i:994489 original size:26 final size:26
Alignment explanation
Indices: 994435--994489 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
994425 TTATTTCGAA
**
994435 TCGGGTTTTTAAGTCATATATTCGGG
1 TCGGGTTTTTAAGTCATATATTCAAG
*
994461 TCGGGTTTTTAAGTCATATATTTAAG
1 TCGGGTTTTTAAGTCATATATTCAAG
994487 TCG
1 TCG
994490 AGTCGAATCT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.22, C:0.11, G:0.24, T:0.44
Consensus pattern (26 bp):
TCGGGTTTTTAAGTCATATATTCAAG
Found at i:994832 original size:60 final size:59
Alignment explanation
Indices: 994767--994941 Score: 172
Period size: 60 Copynumber: 2.9 Consensus size: 59
994757 ATATGTCCCA
* * * * *
994767 AAACTATAATCCTTATTTTAAATTAGTATTTAAAATTTTGAATATTCCAATTTCCCCCTT
1 AAACTATGA-CCTTATTTTAAATTAGTCTTTAAACTTTTGAACATTCCAATTTCACCCTT
* * * * * * *
994827 AAACTACGACTCTCATTCTAAATTAGTCCTTAAACTTTTGAACATTCTAATTTAATCCTT
1 AAACTATGAC-CTTATTTTAAATTAGTCTTTAAACTTTTGAACATTCCAATTTCACCCTT
* **
994887 AAACTATGACCCTCT-TTTTAAATTGGTCTCCAAACTTTTGAACATTCCAATTTCA
1 AAACTATGA-CCT-TATTTTAAATTAGTCTTTAAACTTTTGAACATTCCAATTTCA
994942 TCCCCCAAAT
Statistics
Matches: 91, Mismatches: 21, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
59 1 0.01
60 89 0.98
61 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.05, T:0.41
Consensus pattern (59 bp):
AAACTATGACCTTATTTTAAATTAGTCTTTAAACTTTTGAACATTCCAATTTCACCCTT
Found at i:1002838 original size:53 final size:53
Alignment explanation
Indices: 1002762--1002942 Score: 289
Period size: 51 Copynumber: 3.5 Consensus size: 53
1002752 GTATATGTAA
*
1002762 ATATAGACATGCAGGTTCATACGCATATATCATACATGTAATCTATTGGATAT
1 ATATAGACATGCAGGTTCATACGCATACATCATACATGTAATCTATTGGATAT
* *
1002815 ATATAGACATGTAGGTTCATACGCATACATCATAAATGTAATCTATTGGATAT
1 ATATAGACATGCAGGTTCATACGCATACATCATACATGTAATCTATTGGATAT
*
1002868 -T-TAGACAGGCAGGTTCATACGCATACATCATACATGTAATCTATTGG--AT
1 ATATAGACATGCAGGTTCATACGCATACATCATACATGTAATCTATTGGATAT
*
1002917 ATATAGACATGCAGGTTCATATGCAT
1 ATATAGACATGCAGGTTCATACGCAT
1002943 CATGAAAATT
Statistics
Matches: 118, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
49 2 0.02
50 1 0.01
51 64 0.54
52 1 0.01
53 50 0.42
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (53 bp):
ATATAGACATGCAGGTTCATACGCATACATCATACATGTAATCTATTGGATAT
Found at i:1004963 original size:13 final size:13
Alignment explanation
Indices: 1004945--1004969 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1004935 TTCTATTTGA
1004945 AAAAAAATTAATT
1 AAAAAAATTAATT
1004958 AAAAAAATTAAT
1 AAAAAAATTAAT
1004970 AATTTATTCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
AAAAAAATTAATT
Found at i:1005840 original size:14 final size:14
Alignment explanation
Indices: 1005794--1005842 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
1005784 GAAAAAAATT
*
1005794 TATATTTTTAAAAA
1 TATATTATTAAAAA
*
1005808 TTACATTA-TAAAAA
1 -TATATTATTAAAAA
1005822 -A-ATTATTAAAAA
1 TATATTATTAAAAA
1005834 TATATTATT
1 TATATTATT
1005843 GATATTAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
11 4 0.14
12 7 0.24
13 1 0.03
14 12 0.41
15 5 0.17
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (14 bp):
TATATTATTAAAAA
Found at i:1005990 original size:7 final size:7
Alignment explanation
Indices: 1005972--1006064 Score: 55
Period size: 7 Copynumber: 13.4 Consensus size: 7
1005962 CACATGTTAT
1005972 CCTAAA-
1 CCTAAAC
1005978 CCTAAAC
1 CCTAAAC
1005985 CCTAAAC
1 CCTAAAC
1005992 CCTAAAC
1 CCTAAAC
* *
1005999 CTTAATC
1 CCTAAAC
*
1006006 TCTAAA-
1 CCTAAAC
*
1006012 TCTCAAAC
1 CCT-AAAC
1006020 CCTAAAC
1 CCTAAAC
* *
1006027 CATAAAT
1 CCTAAAC
**
1006034 ATTAAAC
1 CCTAAAC
**
1006041 CCTAAGT
1 CCTAAAC
*
1006048 CCTAAAA
1 CCTAAAC
*
1006055 CCTAAGC
1 CCTAAAC
1006062 CCT
1 CCT
1006065 TAATATAATT
Statistics
Matches: 65, Mismatches: 19, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
6 9 0.14
7 54 0.83
8 2 0.03
ACGTcount: A:0.42, C:0.33, G:0.02, T:0.23
Consensus pattern (7 bp):
CCTAAAC
Found at i:1006280 original size:164 final size:162
Alignment explanation
Indices: 1005928--1006366 Score: 523
Period size: 164 Copynumber: 2.7 Consensus size: 162
1005918 CATTGTATAT
* *
1005928 TACTAAAAGAAAATTAAAAGCTCATTTAATTAAGCAC--A-T-G-TT--ATCCTAAACCTAAACC
1 TACTAAAAGAAAAATAAAAGCTCATTTAATTAAGCACATATTAGATTACACCCTAAACCTAAACC
** * * * *
1005986 CTAAACCCTAAACCTTAATCTCTAAATCTCAAACCCTAAACCATAAATATTAAACCCTAAGTCCT
66 CTAAA-TTTAAACC-TAATCTATAAACCT-AAACCCTAAACCATAAACACTAAACCCTAAGTCCT
* *
1006051 AAAACCTAAGCCCTTAATATAATTATGTGATAGGG
128 AAAACCTAAACCCTTAATATAATTATGTGACAGGG
**
1006086 TTTTAAAAGAAAAATAAAAGCTCATTTAATTAAGCACATATTAGATTACACCCTAAACCTAAACC
1 TACTAAAAGAAAAATAAAAGCTCATTTAATTAAGCACATATTAGATTACACCCTAAACCTAAACC
* * * * *
1006151 CTAAAGTTTAAACTCTAATCTTTAAACCTAAACCCCAAACCATAAACACTAAGCCCTGAGTCTTA
66 CTAAA-TTTAAAC-CTAATCTATAAACCTAAACCCTAAACCATAAACACTAAACCCTAAGTCCTA
* * *
1006216 AACCCTAAACTCTTAATCTAATTATGTGACAGGG
129 AAACCTAAACCCTTAATATAATTATGTGACAGGG
*
1006250 TACTAAAAGAAAAATAAAAGCTCATTTAATTAAGCACATGTTAGATTACACCCTAAACTCTAAAC
1 TACTAAAAGAAAAATAAAAGCTCATTTAATTAAGCACATATTAGATTACACCCTAAAC-CTAAAC
* * * *
1006315 TCTAAATTATAAACCCTAAACTATAAACCATAAGCCCTAAACCTTAAACACT
65 CCTAAATT-TAAA-CCTAATCTATAAACC-TAAACCCTAAACCATAAACACT
1006367 TAATCTGATT
Statistics
Matches: 240, Mismatches: 29, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
158 34 0.14
160 1 0.00
161 1 0.00
162 1 0.00
163 2 0.01
164 116 0.48
165 64 0.27
166 21 0.09
ACGTcount: A:0.44, C:0.23, G:0.07, T:0.27
Consensus pattern (162 bp):
TACTAAAAGAAAAATAAAAGCTCATTTAATTAAGCACATATTAGATTACACCCTAAACCTAAACC
CTAAATTTAAACCTAATCTATAAACCTAAACCCTAAACCATAAACACTAAACCCTAAGTCCTAAA
ACCTAAACCCTTAATATAATTATGTGACAGGG
Found at i:1006327 original size:14 final size:14
Alignment explanation
Indices: 1006299--1006343 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
1006289 GTTAGATTAC
*
1006299 ACCCTAAACTCTAA
1 ACCCTAAACTATAA
* *
1006313 ACTCTAAATTATAA
1 ACCCTAAACTATAA
1006327 ACCCTAAACTATAA
1 ACCCTAAACTATAA
1006341 ACC
1 ACC
1006344 ATAAGCCCTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.47, C:0.29, G:0.00, T:0.24
Consensus pattern (14 bp):
ACCCTAAACTATAA
Found at i:1006363 original size:21 final size:21
Alignment explanation
Indices: 1006303--1006356 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
1006293 GATTACACCC
* * **
1006303 TAAACTCTAAACTCTAAATTA
1 TAAACCCTAAACTATAAACCA
1006324 TAAACCCTAAACTATAAACCA
1 TAAACCCTAAACTATAAACCA
*
1006345 TAAGCCCTAAAC
1 TAAACCCTAAAC
1006357 CTTAAACACT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.48, C:0.26, G:0.02, T:0.24
Consensus pattern (21 bp):
TAAACCCTAAACTATAAACCA
Found at i:1007278 original size:17 final size:17
Alignment explanation
Indices: 1007256--1007288 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1007246 AAATTTCTCA
*
1007256 GTGCATCGGTGCATGGT
1 GTGCATCGATGCATGGT
1007273 GTGCATCGATGCATGG
1 GTGCATCGATGCATGG
1007289 AATGCATTCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.18, G:0.39, T:0.27
Consensus pattern (17 bp):
GTGCATCGATGCATGGT
Found at i:1007294 original size:17 final size:17
Alignment explanation
Indices: 1007257--1007301 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
1007247 AATTTCTCAG
* **
1007257 TGCATCGGTGCATGGTG
1 TGCATCGATGCATGGAA
1007274 TGCATCGATGCATGGAA
1 TGCATCGATGCATGGAA
1007291 TGCATTCGATG
1 TGCA-TCGATG
1007302 TTCAATTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 18 0.75
18 6 0.25
ACGTcount: A:0.20, C:0.18, G:0.33, T:0.29
Consensus pattern (17 bp):
TGCATCGATGCATGGAA
Found at i:1008425 original size:21 final size:21
Alignment explanation
Indices: 1008401--1008444 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
1008391 GAGGTGGAGG
* *
1008401 AGGAGGAGCACGAGAGGAGCT
1 AGGAGCAGCACGAGAGGAACT
* *
1008422 AGGAGCAGCTCGTGAGGAACT
1 AGGAGCAGCACGAGAGGAACT
1008443 AG
1 AG
1008445 CTCCCGGAGT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.43, T:0.09
Consensus pattern (21 bp):
AGGAGCAGCACGAGAGGAACT
Found at i:1015312 original size:18 final size:17
Alignment explanation
Indices: 1015258--1015306 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
1015248 TTGGAACCTT
* *
1015258 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TCA
1015276 GAGTGCATCGATGCATCA
1 -AGTGCATCGATGCATCA
1015294 AGTGCATTCGATG
1 AGTGCA-TCGATG
1015307 TTTCAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATCA
Found at i:1015410 original size:64 final size:63
Alignment explanation
Indices: 1015258--1015437 Score: 186
Period size: 64 Copynumber: 2.8 Consensus size: 63
1015248 TTGGAACCTT
* * *
1015258 AGTGCATCGGTGCACTAAGAGTGCATCGATGCATCAAGTGCATTCGATG-T-TTCAAAATAGCCA
1 AGTGCATCGGTGCA-T-GGTGTGCATCGATGCATCAAATGCATTCGATGTTCTTCAAAATAGCCA
* * * **
1015321 TAGTGCATCGATGCATGGCTGGTGCATCGATGAATCAAATGCATTCGATGTTCTTTATAAATTTC
1 -AGTGCATCGGTGCATGG-T-GTGCATCGATGCATCAAATGCATTCGATGTTCTTCA-AAATAGC
1015386 TC-
62 -CA
**
1015388 AGTGCATCGGTGCATGGTGTGCATCGATGCATGGAATGCATTCGATGTTC
1 AGTGCATCGGTGCATGGTGTGCATCGATGCATCAAATGCATTCGATGTTC
1015438 AATTTAATTC
Statistics
Matches: 98, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
62 1 0.01
63 1 0.01
64 69 0.70
65 2 0.02
66 19 0.19
67 5 0.05
68 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.31
Consensus pattern (63 bp):
AGTGCATCGGTGCATGGTGTGCATCGATGCATCAAATGCATTCGATGTTCTTCAAAATAGCCA
Found at i:1015411 original size:17 final size:17
Alignment explanation
Indices: 1015389--1015421 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1015379 AAATTTCTCA
*
1015389 GTGCATCGGTGCATGGT
1 GTGCATCGATGCATGGT
1015406 GTGCATCGATGCATGG
1 GTGCATCGATGCATGG
1015422 AATGCATTCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.18, G:0.39, T:0.27
Consensus pattern (17 bp):
GTGCATCGATGCATGGT
Found at i:1015427 original size:17 final size:17
Alignment explanation
Indices: 1015390--1015434 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
1015380 AATTTCTCAG
* **
1015390 TGCATCGGTGCATGGTG
1 TGCATCGATGCATGGAA
1015407 TGCATCGATGCATGGAA
1 TGCATCGATGCATGGAA
1015424 TGCATTCGATG
1 TGCA-TCGATG
1015435 TTCAATTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 18 0.75
18 6 0.25
ACGTcount: A:0.20, C:0.18, G:0.33, T:0.29
Consensus pattern (17 bp):
TGCATCGATGCATGGAA
Found at i:1018033 original size:17 final size:17
Alignment explanation
Indices: 1018011--1018110 Score: 79
Period size: 17 Copynumber: 6.2 Consensus size: 17
1018001 ATTCGAGTTT
1018011 GAGTTCGAGCTTGAATC
1 GAGTTCGAGCTTGAATC
1018028 GAGTTCGAGCTTGAAT-
1 GAGTTCGAGCTTGAATC
1018044 -A----GAGCTTGAATC
1 GAGTTCGAGCTTGAATC
* * ** * *
1018056 AAGCTC-AAATTCGAGTTT
1 GAGTTCGAGCTT-GA-ATC
1018074 GAGTTCGAGCTTGAATC
1 GAGTTCGAGCTTGAATC
1018091 GAGTTCGAGCTTGAATC
1 GAGTTCGAGCTTGAATC
1018108 GAG
1 GAG
1018111 CTCAAAATCA
Statistics
Matches: 64, Mismatches: 10, Indels: 18
0.70 0.11 0.20
Matches are distributed among these distances:
11 10 0.16
13 1 0.02
15 1 0.02
16 3 0.05
17 39 0.61
18 7 0.11
19 3 0.05
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (17 bp):
GAGTTCGAGCTTGAATC
Found at i:1018109 original size:11 final size:11
Alignment explanation
Indices: 1018032--1018135 Score: 56
Period size: 11 Copynumber: 9.6 Consensus size: 11
1018022 TGAATCGAGT
1018032 TCGAGCTTGAA
1 TCGAGCTTGAA
*
1018043 TAGAGCTTGAA
1 TCGAGCTTGAA
* **
1018054 TCAAGCTCAAA
1 TCGAGCTTGAA
* *
1018065 TTCGAGTTTGAGT
1 -TCGAGCTTGA-A
1018078 TCGAGCTTGAA
1 TCGAGCTTGAA
1018089 TCGAG--T---
1 TCGAGCTTGAA
1018095 TCGAGCTTGAA
1 TCGAGCTTGAA
**
1018106 TCGAGCTCAAAA
1 TCGAGCT-TGAA
* *
1018118 TCAAGCTTCAA
1 TCGAGCTTGAA
1018129 TCGAGCT
1 TCGAGCT
1018136 CTTGAATTTT
Statistics
Matches: 67, Mismatches: 18, Indels: 16
0.66 0.18 0.16
Matches are distributed among these distances:
6 5 0.07
8 1 0.01
9 1 0.01
11 37 0.55
12 23 0.34
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (11 bp):
TCGAGCTTGAA
Found at i:1018133 original size:63 final size:63
Alignment explanation
Indices: 1017997--1018124 Score: 220
Period size: 63 Copynumber: 2.0 Consensus size: 63
1017987 TTTTGTAGGT
**
1017997 TCAAATTCGAGTTTGAGTTCGAGCTTGAATCGAGTTCGAGCTTGAATAGAGCTTGAATCAAGC
1 TCAAATTCGAGTTTGAGTTCGAGCTTGAATCGAGTTCGAGCTTGAATAGAGCTAAAATCAAGC
*
1018060 TCAAATTCGAGTTTGAGTTCGAGCTTGAATCGAGTTCGAGCTTGAATCGAGCTCAAAATCAAGC
1 TCAAATTCGAGTTTGAGTTCGAGCTTGAATCGAGTTCGAGCTTGAATAGAGCT-AAAATCAAGC
1018124 T
1 T
1018125 TCAATCGAGC
Statistics
Matches: 61, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
63 52 0.85
64 9 0.15
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (63 bp):
TCAAATTCGAGTTTGAGTTCGAGCTTGAATCGAGTTCGAGCTTGAATAGAGCTAAAATCAAGC
Found at i:1018199 original size:31 final size:31
Alignment explanation
Indices: 1018161--1018221 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
1018151 GTTCGAGCAT
*
1018161 TTTCGAGTTCGAGTCGAGTTTCAATATTTTC
1 TTTCGAGTTCGAGTCGAGTTTCAAAATTTTC
*
1018192 TTTCGAGTTCGAGTCGAGTTTGAAAATTTT
1 TTTCGAGTTCGAGTCGAGTTTCAAAATTTT
1018222 AGGCTCACGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.21, C:0.13, G:0.21, T:0.44
Consensus pattern (31 bp):
TTTCGAGTTCGAGTCGAGTTTCAAAATTTTC
Found at i:1018330 original size:2 final size:2
Alignment explanation
Indices: 1018323--1018363 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
1018313 TTTACACCCC
1018323 TA TA TA TA TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1018364 AACTATAAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:1028523 original size:20 final size:21
Alignment explanation
Indices: 1028498--1028537 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1028488 AAAAAATTAT
1028498 TTAAAA-ATT-ATTATTTTTAC
1 TTAAAATATTAATT-TTTTTAC
1028518 TTAAAATATTAATTTTTTTA
1 TTAAAATATTAATTTTTTTA
1028538 ATATTTTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
21 9 0.50
22 3 0.17
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (21 bp):
TTAAAATATTAATTTTTTTAC
Found at i:1028576 original size:27 final size:27
Alignment explanation
Indices: 1028544--1028599 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
1028534 TTTAATATTT
*
1028544 TCAATAAAATGT-TCAACAATAACAAAA
1 TCAATAAAACGTCT-AACAATAACAAAA
1028571 TCAATAAAACGTCTAACAATAACAAAA
1 TCAATAAAACGTCTAACAATAACAAAA
1028598 TC
1 TC
1028600 GATTGAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 26 0.96
28 1 0.04
ACGTcount: A:0.57, C:0.18, G:0.04, T:0.21
Consensus pattern (27 bp):
TCAATAAAACGTCTAACAATAACAAAA
Found at i:1029724 original size:24 final size:24
Alignment explanation
Indices: 1029697--1029742 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
1029687 CTTTAAAAGT
1029697 AAGCTCAA-CTCAACTCAAACTCAC
1 AAGCT-AAGCTCAACTCAAACTCAC
*
1029721 AAGCTAAGTTCAACTCAAACTC
1 AAGCTAAGCTCAACTCAAACTC
1029743 GAAATATCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 2 0.10
24 18 0.90
ACGTcount: A:0.41, C:0.33, G:0.07, T:0.20
Consensus pattern (24 bp):
AAGCTAAGCTCAACTCAAACTCAC
Found at i:1042219 original size:19 final size:20
Alignment explanation
Indices: 1042197--1042240 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
1042187 TCTCTAATTT
*
1042197 TTTAACAGAA-AATGAAGAA
1 TTTAACAAAATAATGAAGAA
*
1042216 TTTAA-AAAATAATGAATAA
1 TTTAACAAAATAATGAAGAA
1042235 TTTAAC
1 TTTAAC
1042241 GATCATTATG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.57, C:0.05, G:0.09, T:0.30
Consensus pattern (20 bp):
TTTAACAAAATAATGAAGAA
Found at i:1042660 original size:111 final size:111
Alignment explanation
Indices: 1042525--1042835 Score: 559
Period size: 111 Copynumber: 2.8 Consensus size: 111
1042515 TATTTTACTG
* *
1042525 ATACGGTAACATTTTTACGTTTTAATTTAATTTAAATTATTAGTAATATTTAGTTGATTTATTTA
1 ATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAATAATTAGTTGATTTATTTA
*
1042590 ATGCATGATTATTAGATTAAGAATTAAATATCTCGACACTTTGCTA
66 ATGCATGATTATTAGATTAAGAATTAAATATATCGACACTTTGCTA
*
1042636 ATACGGTAACATTTTCACGTTTTAATTTAATTTAAATTATTAGTAATAATTAGTTGATTTATTTA
1 ATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAATAATTAGTTGATTTATTTA
*
1042701 ATGCATGATTATTAGATTAAGAATTAAATATATCGACACTTTGCTG
66 ATGCATGATTATTAGATTAAGAATTAAATATATCGACACTTTGCTA
*
1042747 ATACGATAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAATAATTAGTTGATTTATTTA
1 ATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAATAATTAGTTGATTTATTTA
*
1042812 ATGCATGATTATTAGAGTAAGAAT
66 ATGCATGATTATTAGATTAAGAAT
1042836 CAATTTTTGT
Statistics
Matches: 193, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
111 193 1.00
ACGTcount: A:0.37, C:0.07, G:0.11, T:0.45
Consensus pattern (111 bp):
ATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAATAATTAGTTGATTTATTTA
ATGCATGATTATTAGATTAAGAATTAAATATATCGACACTTTGCTA
Found at i:1044432 original size:33 final size:33
Alignment explanation
Indices: 1044395--1044459 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
1044385 CCAGATATCA
*
1044395 CCGTCGCCGCCTTCACATGGTTTTATGACCCCG
1 CCGTCGCCGCCTTCACATAGTTTTATGACCCCG
1044428 CCGTCGCCGCCTTCACATAGTTTTATGACCCC
1 CCGTCGCCGCCTTCACATAGTTTTATGACCCC
1044460 CGCCACCGTC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.14, C:0.40, G:0.18, T:0.28
Consensus pattern (33 bp):
CCGTCGCCGCCTTCACATAGTTTTATGACCCCG
Found at i:1044773 original size:21 final size:21
Alignment explanation
Indices: 1044747--1044797 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
1044737 TGCTCAGGAC
* *
1044747 GATGATGACGACGATGACGCT
1 GATGATGACGACGACGACGAT
*
1044768 GGTGATGACGACGACGACGAT
1 GATGATGACGACGACGACGAT
1044789 GATGATGAC
1 GATGATGAC
1044798 AGCGAGAAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.29, C:0.18, G:0.35, T:0.18
Consensus pattern (21 bp):
GATGATGACGACGACGACGAT
Found at i:1045049 original size:35 final size:33
Alignment explanation
Indices: 1045010--1045094 Score: 82
Period size: 35 Copynumber: 2.5 Consensus size: 33
1045000 ATATTTCAGT
*
1045010 TAATTTTGTT-TATTACCATTTAATATCAGTTATTG
1 TAATTTTGTTATATTACCATATAAT-TC--TTATTG
*
1045045 TAATTTGGTTATCATTTACCATATAATTCTTATTG
1 TAATTTTGTTAT-A-TTACCATATAATTCTTATTG
* *
1045080 TAAGTTTGTTGTATT
1 TAATTTTGTTATATT
1045095 TAAATACCAA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
33 2 0.05
34 1 0.02
35 24 0.57
36 1 0.02
37 3 0.07
38 11 0.26
ACGTcount: A:0.27, C:0.08, G:0.11, T:0.54
Consensus pattern (33 bp):
TAATTTTGTTATATTACCATATAATTCTTATTG
Found at i:1055476 original size:25 final size:26
Alignment explanation
Indices: 1055444--1055492 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
1055434 TTTTAAATTA
1055444 TTAAATA-TATTTATATACATTATTT
1 TTAAATATTATTTATATACATTATTT
* *
1055469 TTAAATATTATTTTTATACTTTAT
1 TTAAATATTATTTATATACATTAT
1055493 AAGTAGAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (26 bp):
TTAAATATTATTTATATACATTATTT
Found at i:1059342 original size:29 final size:29
Alignment explanation
Indices: 1059294--1059366 Score: 83
Period size: 29 Copynumber: 2.5 Consensus size: 29
1059284 CCCCCTAGAT
* * * ***
1059294 CATTCTAAAGTTTGGGGATGAAATTGGAA
1 CATTCAAAAGTTTAGCGATGAAATCAAAA
1059323 CATTCAAAAGTTTAGCGATGAAATCAAAA
1 CATTCAAAAGTTTAGCGATGAAATCAAAA
*
1059352 TATTCAAAAGTTTAG
1 CATTCAAAAGTTTAG
1059367 GGACTAGTAT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.41, C:0.10, G:0.19, T:0.30
Consensus pattern (29 bp):
CATTCAAAAGTTTAGCGATGAAATCAAAA
Found at i:1064029 original size:20 final size:18
Alignment explanation
Indices: 1063987--1064030 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 18
1063977 CTAAAATTCC
1063987 ATTATTTTAATTAAAAAT
1 ATTATTTTAATTAAAAAT
1064005 ATTATTATTAA-TAATAAACT
1 ATTATT-TTAATTAA-AAA-T
1064025 ATTATT
1 ATTATT
1064031 CGAACGTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 9 0.39
19 7 0.30
20 7 0.30
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (18 bp):
ATTATTTTAATTAAAAAT
Found at i:1076199 original size:19 final size:19
Alignment explanation
Indices: 1076175--1076218 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
1076165 ATTTCATTTT
1076175 TGACACTATACCTTTTGAC
1 TGACACTATACCTTTTGAC
*
1076194 TGACACTGTACCTTTTGAC
1 TGACACTATACCTTTTGAC
1076213 TGACAC
1 TGACAC
1076219 CAATAGTCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.25, C:0.27, G:0.14, T:0.34
Consensus pattern (19 bp):
TGACACTATACCTTTTGAC
Found at i:1080170 original size:10 final size:10
Alignment explanation
Indices: 1080155--1080188 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
1080145 TTCATTTACC
1080155 ATTTATTTTT
1 ATTTATTTTT
1080165 ATTTATTTTT
1 ATTTATTTTT
* *
1080175 ATCTATTTCT
1 ATTTATTTTT
1080185 ATTT
1 ATTT
1080189 TACTAACGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.74
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:1090586 original size:105 final size:105
Alignment explanation
Indices: 1090404--1090862 Score: 706
Period size: 105 Copynumber: 4.4 Consensus size: 105
1090394 AGGTTTTACC
1090404 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* * * *
1090469 ACGAAGGGACCGCTGGTTGTCTACAAGCGTTTCTCAAATT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
* *
1090509 CAGAGCCAATTTCAACTTCACAATGAAGGATATTGGATTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* *
1090574 ACGAAGGGACCGCTGGTTGTCAATAAACATTTCCCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
* *
1090614 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCGACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1090679 ACGAAGGGACCGCTGGTTGTCAACAAACA--TCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
* * *
1090717 CAGAGCCAATTTCAACTTCACAATGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACA
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* * * *
1090782 ACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAGTTC
66 ACGAAGGGACCGCTGGTTGTCAACAAAC-ATTTCTCAATTT
* ** *
1090823 CAGAACCAATTTCAACTTCACGGCGGAGGATATTGGACTC
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
1090863 GGAACAATAC
Statistics
Matches: 323, Mismatches: 28, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
103 95 0.29
104 1 0.00
105 186 0.58
106 41 0.13
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (105 bp):
CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
Found at i:1090802 original size:208 final size:210
Alignment explanation
Indices: 1090403--1090862 Score: 753
Period size: 208 Copynumber: 2.2 Consensus size: 210
1090393 CAGGTTTTAC
*
1090403 CCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
1 CCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
* * *
1090468 GACGAAGGGACCGCTGGTTGTCTACAAGCGTTTCTCAAATTCAGAGCCAATTTCAACTTCACAAT
66 GACGAAGGGACCGCTGGTTGTCAACAAACG-ATCTCAAATTCAGAGCCAATTTCAACTTCACAAT
* * * *
1090533 GAAGGATATTGGATTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAT
130 GAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAAC
1090598 AAAC-ATTTCCCAATT
195 AAACAATTTCCCAATT
* *
1090613 TCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCGACTTCAC
1 CCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
*
1090678 GACGAAGGGACCGCTGGTTGTCAACAAAC-ATCTCAATTTCAGAGCCAATTTCAACTTCACAATG
66 GACGAAGGGACCGCTGGTTGTCAACAAACGATCTCAAATTCAGAGCCAATTTCAACTTCACAATG
*
1090742 AAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACA
131 AAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACA
*
1090807 AACAATTTCCCAGTT
196 AACAATTTCCCAATT
* * *
1090822 CCAGAACCAATTTCAACTTCACGGCGGAGGATATTGGACTC
1 CCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTC
1090863 GGAACAATAC
Statistics
Matches: 232, Mismatches: 17, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
208 96 0.41
209 47 0.20
210 89 0.38
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (210 bp):
CCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
GACGAAGGGACCGCTGGTTGTCAACAAACGATCTCAAATTCAGAGCCAATTTCAACTTCACAATG
AAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACA
AACAATTTCCCAATT
Found at i:1093536 original size:37 final size:37
Alignment explanation
Indices: 1093481--1093863 Score: 260
Period size: 37 Copynumber: 10.1 Consensus size: 37
1093471 TTACAAATGG
* *
1093481 TTTTTGAAAATATGTATATAATATATAATTTTTAAAATA
1 TTTTTGAAAA-A-ATATATAATATATAGTTTTTAAAATA
*
1093520 TTTTTGAAAAAATATATATTATATAGTTTTTAAAAATA
1 TTTTTGAAAAAATATATAATATATAGTTTTT-AAAATA
* * * *
1093558 TTTTTG-AAAATTATATATTGTATAGTTTTTAAAACA
1 TTTTTGAAAAAATATATAATATATAGTTTTTAAAATA
* *
1093594 TTTTAGAATATATATAATATATATATATATATATAGTTTTTAAAATC
1 TTTT----T-GA-A-AA-A-ATATATA-ATATATAGTTTTTAAAATA
* * *
1093641 ATTTTG-AAAAATATATAATACATAGTTTTTTGAAATCA
1 TTTTTGAAAAAATATATAATATATAG-TTTTTAAAAT-A
* *
1093679 TTTTTGAAAACATATAT--TATATAGTTTTGAAAATA
1 TTTTTGAAAAAATATATAATATATAGTTTTTAAAATA
* * *
1093714 TTTTTTAAAATATATATAATATATAGTTTTTGAAAACA
1 TTTTTGAAAAAATATATAATATATAGTTTTT-AAAATA
** * *
1093752 TTTTTGAAAACTTATAT-AT-TATAGTTTTGAAAACA
1 TTTTTGAAAAAATATATAATATATAGTTTTTAAAATA
* * * * * *
1093787 TTTTCGAAAACATTTATATATTTTATAATTTTT-AAATG
1 TTTTTGAAAA-A-ATATATAATATATAGTTTTTAAAATA
** * *
1093825 TTTTTGAAAACTTATAT-ATAATATAGTTTATATAATA
1 TTTTTGAAAAAATATATAAT-ATATAGTTTTTAAAATA
1093862 TT
1 TT
1093864 ATTTTTATTT
Statistics
Matches: 275, Mismatches: 45, Indels: 50
0.74 0.12 0.14
Matches are distributed among these distances:
35 32 0.12
36 47 0.17
37 85 0.31
38 51 0.19
39 29 0.11
40 2 0.01
43 2 0.01
44 2 0.01
45 1 0.00
46 6 0.02
47 18 0.07
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (37 bp):
TTTTTGAAAAAATATATAATATATAGTTTTTAAAATA
Found at i:1093613 original size:120 final size:111
Alignment explanation
Indices: 1093481--1093822 Score: 327
Period size: 120 Copynumber: 3.0 Consensus size: 111
1093471 TTACAAATGG
* *
1093481 TTTTTGAAAATATGTATATAATATATAATTTTTAAAATATTTTTGAAAAAATATATATTATATAG
1 TTTTTTAAAATAT-TATATAATATATAGTTTTTAAAATATTTTTGAAAAAATATATA-TATATAG
*
1093546 TTTTTAAAAATATTTTTGAAAATTATATATTGTATAGTTTTTAAAACA
64 TTTTTAAAAATATTTTTGAAAATTATATATTATATAGTTTTTAAAACA
1093594 TTTTAGAATATATATAATATATATATATATATATAGTTTTTAAAATCA-TTTTG-AAAAATATAT
1 TTTT----T-TA-A-AATAT-TATATA-ATATATAGTTTTTAAAAT-ATTTTTGAAAAAATATAT
* ** * * *
1093657 AATACATAGTTTTTTGAAATCATTTTTGAAAA-CATATATTATATAGTTTTGAAAATA
56 -ATATATAGTTTTTAAAAAT-ATTTTTGAAAATTATATATTATATAGTTTTTAAAACA
* **
1093714 TTTTTTAAAATA-TATATAATATATAGTTTTTGAAAACATTTTTGAAAACTTATATAT-TATAG-
1 TTTTTTAAAATATTATATAATATATAGTTTTT-AAAATATTTTTGAAAAAATATATATATATAGT
* * * * *
1093776 TTTTGAAAACATTTTCGAAAACATTTATATATTTTATAATTTTTAAA
65 TTTTAAAAATATTTTTG-AAA-A-TTATATATTATATAGTTTTTAAA
1093823 TGTTTTTGAA
Statistics
Matches: 189, Mismatches: 22, Indels: 37
0.76 0.09 0.15
Matches are distributed among these distances:
108 6 0.03
109 10 0.05
110 19 0.10
111 17 0.09
112 26 0.14
113 8 0.04
114 1 0.01
115 2 0.01
116 1 0.01
117 1 0.01
118 1 0.01
119 1 0.01
120 61 0.32
121 34 0.18
122 1 0.01
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (111 bp):
TTTTTTAAAATATTATATAATATATAGTTTTTAAAATATTTTTGAAAAAATATATATATATAGTT
TTTAAAAATATTTTTGAAAATTATATATTATATAGTTTTTAAAACA
Found at i:1093619 original size:46 final size:48
Alignment explanation
Indices: 1093569--1093660 Score: 136
Period size: 48 Copynumber: 2.0 Consensus size: 48
1093559 TTTTGAAAAT
* *
1093569 TATATAT-TGTATAGTTTTTAAAA-CATTTT-AGAATATATATAATATA
1 TATATATATATATAGTTTTTAAAATCATTTTGA-AAAATATATAATATA
1093615 TATATATATATATAGTTTTTAAAATCATTTTGAAAAATATATAATA
1 TATATATATATATAGTTTTTAAAATCATTTTGAAAAATATATAATA
1093661 CATAGTTTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
46 7 0.17
47 15 0.37
48 18 0.44
49 1 0.02
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.47
Consensus pattern (48 bp):
TATATATATATATAGTTTTTAAAATCATTTTGAAAAATATATAATATA
Done.