Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 118 of 297
Found at i:42164146 original size:2 final size:2
Alignment explanation
Indices: 42164141--42164228 Score: 176
Period size: 2 Copynumber: 44.0 Consensus size: 2
42164131 TATATATATA
42164141 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
42164183 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
42164225 TG TG
1 TG TG
42164229 ATTTAGAGTG
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 86 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:42166029 original size:31 final size:31
Alignment explanation
Indices: 42165991--42166050 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
42165981 AAATATGAAA
42165991 TCATATTTTATTGAATGAACAGAGCATATTT
1 TCATATTTTATTGAATGAACAGAGCATATTT
42166022 TCATATTTTATTGAATGAACAGAGCATAT
1 TCATATTTTATTGAATGAACAGAGCATAT
42166051 AGCTAAACAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.40
Consensus pattern (31 bp):
TCATATTTTATTGAATGAACAGAGCATATTT
Found at i:42168810 original size:21 final size:21
Alignment explanation
Indices: 42168786--42168836 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
42168776 AATAAATAAA
*
42168786 AAAATATAATTAT-TAAATATT
1 AAAATATAATCATATAAAT-TT
42168807 AAAATA-ATATCATATAAATTT
1 AAAATATA-ATCATATAAATTT
42168828 AAAA-ATAAT
1 AAAATATAAT
42168837 ATGATCGGGC
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
20 4 0.15
21 17 0.65
22 5 0.19
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (21 bp):
AAAATATAATCATATAAATTT
Found at i:42189066 original size:145 final size:146
Alignment explanation
Indices: 42188702--42189068 Score: 610
Period size: 148 Copynumber: 2.5 Consensus size: 146
42188692 CTAAAAATCT
* *
42188702 TGCGGTGAACGTGGATCGAACACGTGACCTTCAGATCTTCAGTCTGACGCTCTCCCAACTGAGCT
1 TGCGGTGAGCGTGGATCGAACACGCGACCTTCAGATCTTCAGTCTGACGCTCTCCCAACTGAGCT
* *
42188767 ATCCCCGCAAGTACTCTACTTTGGGAAGAAAATATAATTACTATTTCAATATTAAATCTTTCAAA
66 ATCCCCGCAAGTACTATACTTTGGGAAGAAAATATAATTAATATTTCAATATTAAATCTTT--AA
**
42188832 AATTAAAGAAAACTAAAA
129 AAGGAAAGAAAACTAAAA
*
42188850 TGCGGTGAGAGTGGATCGAACACGCGACCTTCAGATCTTCAGTCTGACGCTCTCCCAACTGAGCT
1 TGCGGTGAGCGTGGATCGAACACGCGACCTTCAGATCTTCAGTCTGACGCTCTCCCAACTGAGCT
* * * *
42188915 ATCCCCGCAAGTGCTATTCTTTTGGAAGAAAATATATTTAATATTTCAATATTAAATCTTT-AAA
66 ATCCCCGCAAGTACTATACTTTGGGAAGAAAATATAATTAATATTTCAATATTAAATCTTTAAAA
42188979 GGAAAGAAAACTAAAA
131 GGAAAGAAAACTAAAA
42188995 TGCGGTGAGCGTGGATCGAACACGCGACCTTCAGATCTTCAGTCTGACGCTCTCCCAACTGAGCT
1 TGCGGTGAGCGTGGATCGAACACGCGACCTTCAGATCTTCAGTCTGACGCTCTCCCAACTGAGCT
42189060 ATCCCCGCA
66 ATCCCCGCA
42189069 CTTGATTGGA
Statistics
Matches: 207, Mismatches: 12, Indels: 3
0.93 0.05 0.01
Matches are distributed among these distances:
145 90 0.43
148 117 0.57
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (146 bp):
TGCGGTGAGCGTGGATCGAACACGCGACCTTCAGATCTTCAGTCTGACGCTCTCCCAACTGAGCT
ATCCCCGCAAGTACTATACTTTGGGAAGAAAATATAATTAATATTTCAATATTAAATCTTTAAAA
GGAAAGAAAACTAAAA
Found at i:42189219 original size:18 final size:17
Alignment explanation
Indices: 42189191--42189238 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
42189181 TTTGTTGAAG
*
42189191 TTTTCTAAATTTTCA-A
1 TTTTTTAAATTTTCACA
*
42189207 TTATTTTTAAATTTTTACA
1 -T-TTTTTAAATTTTCACA
42189226 TTTTTTAAATTTT
1 TTTTTTAAATTTT
42189239 TTGATTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 13 0.48
18 13 0.48
19 1 0.04
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTTTAAATTTTCACA
Found at i:42189222 original size:9 final size:9
Alignment explanation
Indices: 42189210--42189255 Score: 51
Period size: 8 Copynumber: 5.2 Consensus size: 9
42189200 TTTTCAATTA
42189210 TTTTTAAA-
1 TTTTTAAAT
*
42189218 TTTTTACAT
1 TTTTTAAAT
42189227 TTTTTAAAT
1 TTTTTAAAT
*
42189236 TTTTT-GAT
1 TTTTTAAAT
42189244 TTTTTAGAAT
1 TTTTTA-AAT
42189254 TT
1 TT
42189256 ATATATTTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
8 14 0.45
9 13 0.42
10 4 0.13
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.67
Consensus pattern (9 bp):
TTTTTAAAT
Found at i:42189232 original size:17 final size:17
Alignment explanation
Indices: 42189210--42189273 Score: 67
Period size: 17 Copynumber: 3.8 Consensus size: 17
42189200 TTTTCAATTA
42189210 TTTTTAAATTTTTACAT
1 TTTTTAAATTTTTACAT
**
42189227 TTTTTAAATTTTTTGAT
1 TTTTTAAATTTTTACAT
* *
42189244 TTTTTAGAATTTATATAT
1 TTTTTA-AATTTTTACAT
*
42189262 TTTAT-AATTTTT
1 TTTTTAAATTTTT
42189274 CAGAATTTAT
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
16 6 0.15
17 21 0.54
18 12 0.31
ACGTcount: A:0.28, C:0.02, G:0.03, T:0.67
Consensus pattern (17 bp):
TTTTTAAATTTTTACAT
Found at i:42189351 original size:20 final size:20
Alignment explanation
Indices: 42189328--42189367 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
42189318 TTTAATTTCG
*
42189328 TTTTATTTCAACTTTTTATA
1 TTTTATATCAACTTTTTATA
**
42189348 TTTTATATCATGTTTTTATA
1 TTTTATATCAACTTTTTATA
42189368 ATATATAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.25, C:0.07, G:0.03, T:0.65
Consensus pattern (20 bp):
TTTTATATCAACTTTTTATA
Found at i:42189799 original size:37 final size:36
Alignment explanation
Indices: 42189734--42189875 Score: 108
Period size: 37 Copynumber: 3.9 Consensus size: 36
42189724 ATACGCCCAT
* *
42189734 GCAAAACAAAATATAAACAGGAGAGATTCCCTACAAA
1 GCAAAACAAAA-ATGAACAAGAGAGATTCCCTACAAA
* * *
42189771 GCAAAGACAAAAATGAACAAGAGTGATTCCATGCCAAAA
1 GCAAA-ACAAAAATGAACAAGAGAGATTCCCT-AC-AAA
* * * * * *
42189810 GC-AACCAAGAATGAA-TAGTGAGATTCCCTGCAGA
1 GCAAAACAAAAATGAACAAGAGAGATTCCCTACAAA
* *
42189844 GCAAAAACAGAAATGAACAAGAGTGATTCCCT
1 GC-AAAACAAAAATGAACAAGAGAGATTCCCT
42189876 GCCAAAAACA
Statistics
Matches: 80, Mismatches: 19, Indels: 12
0.72 0.17 0.11
Matches are distributed among these distances:
34 4 0.05
35 1 0.01
36 20 0.25
37 41 0.51
38 9 0.11
39 5 0.06
ACGTcount: A:0.48, C:0.19, G:0.18, T:0.15
Consensus pattern (36 bp):
GCAAAACAAAAATGAACAAGAGAGATTCCCTACAAA
Found at i:42189847 original size:73 final size:73
Alignment explanation
Indices: 42189756--42189970 Score: 322
Period size: 73 Copynumber: 2.9 Consensus size: 73
42189746 ATAAACAGGA
* * *
42189756 GAGATTCCCTACAAAGCAAAGACAAAAATGAACAAGAGTGATTCCATGCCAAAAGCAACCAAGAA
1 GAGATTCCCTGCAGAGCAAAGACAGAAATGAACAAGAGTGATTCCATGCCAAAAGCAACCAAGAA
*
42189821 TGAATAGT
66 TGAATAAT
* * *
42189829 GAGATTCCCTGCAGAGCAAAAACAGAAATGAACAAGAGTGATTCCCTGCCAAAAACAACCAAGAA
1 GAGATTCCCTGCAGAGCAAAGACAGAAATGAACAAGAGTGATTCCATGCCAAAAGCAACCAAGAA
42189894 TGAATAAT
66 TGAATAAT
* * * * *
42189902 GAGATTCCCTGCGGAGCAAAGACAGAAATGAACGAGAATGATTCCTTGCCAAAAGAAACCAAGAA
1 GAGATTCCCTGCAGAGCAAAGACAGAAATGAACAAGAGTGATTCCATGCCAAAAGCAACCAAGAA
42189967 TGAA
66 TGAA
42189971 CAGTAAAGTT
Statistics
Matches: 128, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
73 128 1.00
ACGTcount: A:0.46, C:0.20, G:0.20, T:0.15
Consensus pattern (73 bp):
GAGATTCCCTGCAGAGCAAAGACAGAAATGAACAAGAGTGATTCCATGCCAAAAGCAACCAAGAA
TGAATAAT
Found at i:42189859 original size:36 final size:36
Alignment explanation
Indices: 42189819--42189933 Score: 103
Period size: 36 Copynumber: 3.2 Consensus size: 36
42189809 AGCAACCAAG
42189819 AATGAATAGTGAGATTCCCTGCAGAGCAAAAACAGA
1 AATGAATAGTGAGATTCCCTGCAGAGCAAAAACAGA
* * *
42189855 AATGAACAAGAGTGATTCCCTGCCA-A--AAACAACCA-A
1 AATGAA-TAGTGAGATTCCCTG-CAGAGCAAA-AA-CAGA
* * *
42189891 GAATGAATAATGAGATTCCCTGCGGAGCAAAGACAGA
1 -AATGAATAGTGAGATTCCCTGCAGAGCAAAAACAGA
42189928 AATGAA
1 AATGAA
42189934 CGAGAATGAT
Statistics
Matches: 61, Mismatches: 9, Indels: 18
0.69 0.10 0.20
Matches are distributed among these distances:
35 4 0.07
36 29 0.48
37 23 0.38
38 5 0.08
ACGTcount: A:0.45, C:0.18, G:0.21, T:0.16
Consensus pattern (36 bp):
AATGAATAGTGAGATTCCCTGCAGAGCAAAAACAGA
Found at i:42189876 original size:37 final size:37
Alignment explanation
Indices: 42189749--42189946 Score: 115
Period size: 37 Copynumber: 5.4 Consensus size: 37
42189739 ACAAAATATA
* * * * *
42189749 AACAGGAGAGATTCCCTACAAAGCAAAGACAAAAATG
1 AACAAGAGTGATTCCCTGCAAAGCAAAAACAGAAATG
* **
42189786 AACAAGAGTGATTCCATGCCAAAAGCAACCA-AG-AATG
1 AACAAGAGTGATTCCCTG-C-AAAGCAAAAACAGAAATG
* * * *
42189823 AA-TAGTGAGATTCCCTGCAGAGCAAAAACAGAAATG
1 AACAAGAGTGATTCCCTGCAAAGCAAAAACAGAAATG
*
42189859 AACAAGAGTGATTCCCTGCCAAA--AACAACCA-AGAATG
1 AACAAGAGTGATTCCCTG-CAAAGCAA-AAACAGA-AATG
* ** *
42189896 AATAATGA--GATTCCCTGCGGAGCAAAGACAGAAATG
1 AACAA-GAGTGATTCCCTGCAAAGCAAAAACAGAAATG
* *
42189932 AACGAGAATGATTCC
1 AACAAGAGTGATTCC
42189947 TTGCCAAAAG
Statistics
Matches: 121, Mismatches: 26, Indels: 28
0.69 0.15 0.16
Matches are distributed among these distances:
34 7 0.06
35 7 0.06
36 39 0.32
37 53 0.44
38 7 0.06
39 8 0.07
ACGTcount: A:0.45, C:0.20, G:0.20, T:0.15
Consensus pattern (37 bp):
AACAAGAGTGATTCCCTGCAAAGCAAAAACAGAAATG
Found at i:42189997 original size:34 final size:36
Alignment explanation
Indices: 42189952--42190025 Score: 100
Period size: 35 Copynumber: 2.1 Consensus size: 36
42189942 ATTCCTTGCC
*
42189952 AAAAGAAACC-AAGAATGAACAGTAA-AGTTCCCTGT
1 AAAAGAAACCAAAGAATAAACAGTAAGA-TTCCCTGT
*
42189987 AAAA-AAACCAAAGAATAAACAGTGAGATTCCCTGT
1 AAAAGAAACCAAAGAATAAACAGTAAGATTCCCTGT
42190022 AAAA
1 AAAA
42190026 CGTTGTAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
34 5 0.14
35 29 0.83
36 1 0.03
ACGTcount: A:0.53, C:0.16, G:0.15, T:0.16
Consensus pattern (36 bp):
AAAAGAAACCAAAGAATAAACAGTAAGATTCCCTGT
Found at i:42190387 original size:16 final size:16
Alignment explanation
Indices: 42190362--42190392 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
42190352 AAGTTTTCAA
*
42190362 AATTTTTATATTATAT
1 AATTTATATATTATAT
42190378 AATTTATATATTATA
1 AATTTATATATTATA
42190393 AAAACAAACT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
AATTTATATATTATAT
Found at i:42197676 original size:16 final size:16
Alignment explanation
Indices: 42197654--42197722 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
42197644 TTTGGTTCGC
42197654 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
42197670 CGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
42197686 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
42197703 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
42197719 TGTA
1 TGTA
42197723 ATAGCTAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:42197700 original size:33 final size:32
Alignment explanation
Indices: 42197654--42197722 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
42197644 TTTGGTTCGC
42197654 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
*
42197686 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGCGTATTGGATTAGAGG
42197719 TGTA
1 TGTA
42197723 ATAGCTAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 6 0.17
33 29 0.83
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (32 bp):
TGTATTGGATTAGAGGCGTATTGGATTAGAGG
Found at i:42197787 original size:44 final size:45
Alignment explanation
Indices: 42197703--42197793 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
42197693 GGATTAGAGG
* * *
42197703 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
42197748 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
42197792 TG
1 TG
42197794 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:42197979 original size:18 final size:17
Alignment explanation
Indices: 42197958--42197992 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
42197948 TTATTATTAA
*
42197958 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
42197976 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
42197993 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:42198099 original size:18 final size:17
Alignment explanation
Indices: 42198078--42198112 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
42198068 TTATTATTAA
*
42198078 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
42198096 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
42198113 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:42198154 original size:120 final size:120
Alignment explanation
Indices: 42197941--42198683 Score: 1432
Period size: 120 Copynumber: 6.2 Consensus size: 120
42197931 ATCATATTTA
*
42197941 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
*
42198006 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
*
42198061 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
*
42198126 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
42198181 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
42198246 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
42198301 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
42198366 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
*
42198421 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
42198486 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
*
42198541 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
42198606 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
42198661 AACATAATTATTATTAAATATAT
1 AACATAATTATTATTAAATATAT
42198684 AACTTGAAAA
Statistics
Matches: 620, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
120 620 1.00
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:42201754 original size:33 final size:33
Alignment explanation
Indices: 42201715--42201824 Score: 136
Period size: 33 Copynumber: 3.3 Consensus size: 33
42201705 ATTATAAAGC
42201715 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
* *
42201748 ATGTATAATTGACCTAAAATTACTTGTTGGTTT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
* *
42201781 AATGT-T-ATTGTCCCTAAAA-AACATTGTTGGTGT
1 -ATGTATAATTG-ACCTAAAATTA-ATTGTTGGTGT
42201814 ATGTATAATTG
1 ATGTATAATTG
42201825 TTGGTTTAAT
Statistics
Matches: 66, Mismatches: 6, Indels: 9
0.81 0.07 0.11
Matches are distributed among these distances:
32 9 0.14
33 49 0.74
34 8 0.12
ACGTcount: A:0.32, C:0.08, G:0.17, T:0.43
Consensus pattern (33 bp):
ATGTATAATTGACCTAAAATTAATTGTTGGTGT
Found at i:42201831 original size:51 final size:51
Alignment explanation
Indices: 42201771--42201975 Score: 387
Period size: 51 Copynumber: 4.0 Consensus size: 51
42201761 CTAAAATTAC
42201771 TTGTTGGTTTAATGTTATTGT-CCCTAAAAAACATTGTTGGTGTATGTATAA
1 TTGTTGGTTTAATGTTATT-TACCCTAAAAAACATTGTTGGTGTATGTATAA
42201822 TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAA
1 TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAA
42201873 TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAA
1 TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAA
42201924 TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATG-ATAA
1 TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAA
42201974 TT
1 TT
42201976 TTTACGTATA
Statistics
Matches: 153, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
50 7 0.05
51 146 0.95
ACGTcount: A:0.29, C:0.08, G:0.18, T:0.45
Consensus pattern (51 bp):
TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAA
Found at i:42202149 original size:86 final size:86
Alignment explanation
Indices: 42202042--42202222 Score: 355
Period size: 86 Copynumber: 2.1 Consensus size: 86
42202032 TTCTCTCCAC
42202042 ATAA-AATTATATCAACATTAATACTTAACAAACAGGTTTCATGTTTATTATTAATTTCAAATTA
1 ATAATAATTATATCAACATTAATACTTAACAAACAGGTTTCATGTTTATTATTAATTTCAAATTA
42202106 TTAATATTAAAGATAAAAATT
66 TTAATATTAAAGATAAAAATT
42202127 ATAATAATTATATCAACATTAATACTTAACAAACAGGTTTCATGTTTATTATTAATTTCAAATTA
1 ATAATAATTATATCAACATTAATACTTAACAAACAGGTTTCATGTTTATTATTAATTTCAAATTA
42202192 TTAATATTAAAGATAAAAATT
66 TTAATATTAAAGATAAAAATT
42202213 ATAATAATTA
1 ATAATAATTA
42202223 CAATTATATT
Statistics
Matches: 95, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
85 4 0.04
86 91 0.96
ACGTcount: A:0.48, C:0.08, G:0.04, T:0.40
Consensus pattern (86 bp):
ATAATAATTATATCAACATTAATACTTAACAAACAGGTTTCATGTTTATTATTAATTTCAAATTA
TTAATATTAAAGATAAAAATT
Found at i:42214326 original size:98 final size:99
Alignment explanation
Indices: 42214145--42214336 Score: 269
Period size: 98 Copynumber: 1.9 Consensus size: 99
42214135 AGTTTTTTGC
* * *** * *
42214145 TAGAACTTAAAGTCTGGTAAACCATGTGGCCTTAGGTGATTTCTTTGCTTCAAATCCACCTAAGT
1 TAGAACTTAAAGTCTGGCAAACCACGCAACCTTAGGTGATTTCTTTACTTCAAATCCACCTAAAT
* * *
42214210 CAGCCTTACTCTCGAAAATGGGAATTCACGGGAT
66 CAACCTTACTCTCAAAAATGAGAATTCACGGGAT
* *
42214244 TAGAACTT-AAGTCTGGCAAACCACGCAACCTTAGGTTATTTCTTTATTTCAAATCCACCTAAAT
1 TAGAACTTAAAGTCTGGCAAACCACGCAACCTTAGGTGATTTCTTTACTTCAAATCCACCTAAAT
42214308 CAACCTTACTCTCAAAAATGAGAATTCAC
66 CAACCTTACTCTCAAAAATGAGAATTCAC
42214337 AAAGGAATTT
Statistics
Matches: 81, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
98 73 0.90
99 8 0.10
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (99 bp):
TAGAACTTAAAGTCTGGCAAACCACGCAACCTTAGGTGATTTCTTTACTTCAAATCCACCTAAAT
CAACCTTACTCTCAAAAATGAGAATTCACGGGAT
Found at i:42221365 original size:18 final size:17
Alignment explanation
Indices: 42221339--42221372 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
42221329 TAAGTACACC
42221339 TAAAAACAAAAATAAAGT
1 TAAAAACAAAAA-AAAGT
*
42221357 TAAAGACAAAAAAAAG
1 TAAAAACAAAAAAAAG
42221373 AACAGTAGAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.74, C:0.06, G:0.09, T:0.12
Consensus pattern (17 bp):
TAAAAACAAAAAAAAGT
Found at i:42222433 original size:21 final size:22
Alignment explanation
Indices: 42222400--42222447 Score: 53
Period size: 23 Copynumber: 2.2 Consensus size: 22
42222390 TTTCGTTTTA
*
42222400 TTATTTCAAC-TTTATAATATT
1 TTATATCAACTTTTATAATATT
* *
42222421 TTATATCATCTTTTTATAATTTT
1 TTATATCAAC-TTTTATAATATT
42222444 TTAT
1 TTAT
42222448 GTTATATTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 8 0.36
23 14 0.64
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.62
Consensus pattern (22 bp):
TTATATCAACTTTTATAATATT
Found at i:42223338 original size:8 final size:8
Alignment explanation
Indices: 42223325--42223398 Score: 76
Period size: 8 Copynumber: 8.8 Consensus size: 8
42223315 AATTTCAATT
42223325 ATTTTTAA
1 ATTTTTAA
42223333 ATTTTTACA
1 ATTTTTA-A
*
42223342 TTTTTTAA
1 ATTTTTAA
42223350 ATTTTTAA
1 ATTTTTAA
*
42223358 TTTTTTAGA
1 ATTTTTA-A
* *
42223367 ATTTATAT
1 ATTTTTAA
42223375 ATTTTTAA
1 ATTTTTAA
42223383 ATTTTTTATA
1 A-TTTTTA-A
42223393 ATTTTT
1 ATTTTT
42223399 CAGAATTTAT
Statistics
Matches: 54, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
8 28 0.52
9 24 0.44
10 2 0.04
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.66
Consensus pattern (8 bp):
ATTTTTAA
Found at i:42223346 original size:17 final size:16
Alignment explanation
Indices: 42223326--42223388 Score: 83
Period size: 17 Copynumber: 3.8 Consensus size: 16
42223316 ATTTCAATTA
42223326 TTTTTAAATTTTTACAT
1 TTTTTAAATTTTTA-AT
42223343 TTTTTAAATTTTTAAT
1 TTTTTAAATTTTTAAT
*
42223359 TTTTTAGAATTTAT-AT
1 TTTTTA-AATTTTTAAT
42223375 ATTTTTAAATTTTT
1 -TTTTTAAATTTTT
42223389 TATAATTTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
16 16 0.38
17 26 0.62
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (16 bp):
TTTTTAAATTTTTAAT
Found at i:42223353 original size:25 final size:25
Alignment explanation
Indices: 42223325--42223388 Score: 83
Period size: 25 Copynumber: 2.6 Consensus size: 25
42223315 AATTTCAATT
* *
42223325 ATTTTTAAATTTTTACATTTTTTAA
1 ATTTTTAAATTTTTACAATTTATAA
* * *
42223350 ATTTTTAATTTTTTAGAATTTATAT
1 ATTTTTAAATTTTTACAATTTATAA
42223375 ATTTTTAAATTTTT
1 ATTTTTAAATTTTT
42223389 TATAATTTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (25 bp):
ATTTTTAAATTTTTACAATTTATAA
Found at i:42223389 original size:34 final size:36
Alignment explanation
Indices: 42223326--42223411 Score: 108
Period size: 36 Copynumber: 2.5 Consensus size: 36
42223316 ATTTCAATTA
* *
42223326 TTTTTA-AATTTTTACATTTTTTAAA-TTTT-TAAT
1 TTTTTAGAATTTATATATTTTTTAAATTTTTATAAT
42223359 TTTTTAGAATTTATATA-TTTTTAAATTTTTTATAAT
1 TTTTTAGAATTTATATATTTTTTAAA-TTTTTATAAT
*
42223395 TTTTCAGAATTTATATA
1 TTTTTAGAATTTATATA
42223412 CTGTTGGAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
33 14 0.30
34 8 0.17
35 4 0.09
36 20 0.43
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (36 bp):
TTTTTAGAATTTATATATTTTTTAAATTTTTATAAT
Found at i:42223392 original size:17 final size:16
Alignment explanation
Indices: 42223324--42223398 Score: 80
Period size: 17 Copynumber: 4.4 Consensus size: 16
42223314 AAATTTCAAT
42223324 TATTTTTAAATTTTTA
1 TATTTTTAAATTTTTA
*
42223340 CATTTTTTAAATTTTTA
1 TA-TTTTTAAATTTTTA
*
42223357 -ATTTTTTAGAATTTATA
1 TA-TTTTTA-AATTTTTA
42223374 TATTTTTAAATTTTTTA
1 TATTTTTAAA-TTTTTA
42223391 TAATTTTT
1 T-ATTTTT
42223399 CAGAATTTAT
Statistics
Matches: 51, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
16 11 0.22
17 33 0.65
18 7 0.14
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.67
Consensus pattern (16 bp):
TATTTTTAAATTTTTA
Found at i:42223407 original size:17 final size:16
Alignment explanation
Indices: 42223325--42223409 Score: 59
Period size: 17 Copynumber: 5.0 Consensus size: 16
42223315 AATTTCAATT
*
42223325 ATTTTTA-AATTTTTA
1 ATTTTTAGAATTTATA
*
42223340 CATTTTTTA-AATTTTTA
1 -A-TTTTTAGAATTTATA
42223357 ATTTTTTAGAATTTATA
1 A-TTTTTAGAATTTATA
42223374 TATTTTTA-AATTTTTTATA
1 -ATTTTTAGAA---TTTATA
42223393 ATTTTTCAGAATTTATA
1 ATTTTT-AGAATTTATA
42223410 TACTGTTGGA
Statistics
Matches: 60, Mismatches: 1, Indels: 15
0.79 0.01 0.20
Matches are distributed among these distances:
16 11 0.18
17 33 0.55
18 7 0.12
19 7 0.12
20 2 0.03
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (16 bp):
ATTTTTAGAATTTATA
Found at i:42223476 original size:20 final size:20
Alignment explanation
Indices: 42223453--42223492 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
42223443 TTTAATTTCG
*
42223453 TTTTATTTCAACTTTTTATA
1 TTTTATATCAACTTTTTATA
**
42223473 TTTTATATCATGTTTTTATA
1 TTTTATATCAACTTTTTATA
42223493 ATATGTAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.25, C:0.07, G:0.03, T:0.65
Consensus pattern (20 bp):
TTTTATATCAACTTTTTATA
Found at i:42223948 original size:37 final size:36
Alignment explanation
Indices: 42223905--42224021 Score: 105
Period size: 37 Copynumber: 3.2 Consensus size: 36
42223895 GCAAAGACAG
*
42223905 AAATGAACAAGAGTGATTCCTTGTCAAAAGCAACCAA
1 AAATGAACAAGAGTGATTCCCTG-CAAAAGCAACCAA
* * **
42223942 AAATGAATAATGA--GATTCCCTGCAGAA-CAAAAATA
1 AAATGAACAA-GAGTGATTCCCTGCAAAAGCAACCA-A
*
42223977 GAAATGAACAAGAGTGATTCCCTACCAAAAGCAACCAA
1 -AAATGAACAAGAGTGATTCCCT-GCAAAAGCAACCAA
*
42224015 GAATGAA
1 AAATGAA
42224022 TAGTGAGATT
Statistics
Matches: 62, Mismatches: 11, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
34 4 0.06
35 7 0.11
36 17 0.27
37 23 0.37
38 7 0.11
39 4 0.06
ACGTcount: A:0.49, C:0.18, G:0.16, T:0.17
Consensus pattern (36 bp):
AAATGAACAAGAGTGATTCCCTGCAAAAGCAACCAA
Found at i:42223959 original size:36 final size:35
Alignment explanation
Indices: 42223919--42224033 Score: 90
Period size: 36 Copynumber: 3.2 Consensus size: 35
42223909 GAACAAGAGT
*
42223919 GATTCCTTGTCAAAAGCAACCAAAAATGAATAATGA
1 GATTCCCTG-CAAAAGCAACCAAAAATGAATAATGA
* ** *
42223955 GATTCCCTGCAGAA-CAAAAATAGAAATGAACAA-GA
1 GATTCCCTGCAAAAGCAACCA-A-AAATGAATAATGA
* * *
42223990 GTGATTCCCTACCAAAAGCAACCAAGAATGAATAGTGA
1 --GATTCCCT-GCAAAAGCAACCAAAAATGAATAATGA
42224028 GATTCC
1 GATTCC
42224034 TTACAGAGCA
Statistics
Matches: 60, Mismatches: 12, Indels: 14
0.70 0.14 0.16
Matches are distributed among these distances:
34 4 0.07
35 7 0.12
36 23 0.38
37 15 0.25
38 7 0.12
39 4 0.07
ACGTcount: A:0.45, C:0.19, G:0.17, T:0.19
Consensus pattern (35 bp):
GATTCCCTGCAAAAGCAACCAAAAATGAATAATGA
Found at i:42223980 original size:73 final size:73
Alignment explanation
Indices: 42223896--42224110 Score: 268
Period size: 73 Copynumber: 2.9 Consensus size: 73
42223886 TCCTACAAAG
* * *
42223896 CAAAGACAGAAATGAACAAGAGTGATTCCTTGTCAAAAGCAACCAAAAATGAATAATGAGATTCC
1 CAAAAACAGAAATGAACAAGAGTGATTCCTTGCCAAAAGCAACCAAGAATGAATAATGAGATTCC
42223961 CTGCAGAA
66 CTGCAGAA
* * * *
42223969 CAAAAATAGAAATGAACAAGAGTGATTCCCTACCAAAAGCAACCAAGAATGAATAGTGAGATTCC
1 CAAAAACAGAAATGAACAAGAGTGATTCCTTGCCAAAAGCAACCAAGAATGAATAATGAGATTCC
* * *
42224034 TTACAGAG
66 CTGCAGAA
* * ** * * * *
42224042 CAAAGACAGAAGTGAATGAGAGTAATTCCTTGCCAAAAGCAACCAAGAATGAACAATAAGGTTCC
1 CAAAAACAGAAATGAACAAGAGTGATTCCTTGCCAAAAGCAACCAAGAATGAATAATGAGATTCC
42224107 CTGC
66 CTGC
42224111 TAAGAATAGA
Statistics
Matches: 118, Mismatches: 24, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
73 118 1.00
ACGTcount: A:0.45, C:0.19, G:0.19, T:0.18
Consensus pattern (73 bp):
CAAAAACAGAAATGAACAAGAGTGATTCCTTGCCAAAAGCAACCAAGAATGAATAATGAGATTCC
CTGCAGAA
Found at i:42224494 original size:14 final size:14
Alignment explanation
Indices: 42224454--42224503 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
42224444 ATAAGACAAA
*
42224454 TCAAA-TTTATATT
1 TCAAATTTTATTTT
* *
42224467 TC-AATTTAAGTTT
1 TCAAATTTTATTTT
42224480 TCAAATTTTATTTT
1 TCAAATTTTATTTT
42224494 TCAAAATTTT
1 TC-AAATTTT
42224504 TATATATAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
12 2 0.07
13 9 0.31
14 11 0.38
15 7 0.24
ACGTcount: A:0.34, C:0.08, G:0.02, T:0.56
Consensus pattern (14 bp):
TCAAATTTTATTTT
Found at i:42227337 original size:39 final size:39
Alignment explanation
Indices: 42227283--42227360 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
42227273 ATTTCCATCT
* *
42227283 ATTGGAGGCAGAAGCAAAAAAGAACAATTGACTATGGAA
1 ATTGGAGGCACAAGCAAAAAAGAACAATTGACTAAGGAA
42227322 ATTGGAGGCACAAGCAAAAAAGAACAATTGACTAAGGAA
1 ATTGGAGGCACAAGCAAAAAAGAACAATTGACTAAGGAA
42227361 CAATTTTGAG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.50, C:0.12, G:0.24, T:0.14
Consensus pattern (39 bp):
ATTGGAGGCACAAGCAAAAAAGAACAATTGACTAAGGAA
Found at i:42235632 original size:11 final size:11
Alignment explanation
Indices: 42235616--42235691 Score: 52
Period size: 11 Copynumber: 6.8 Consensus size: 11
42235606 GACAATCACT
42235616 TTAATATTAAA
1 TTAATATTAAA
42235627 TTAATA--AAA
1 TTAATATTAAA
*
42235636 -TATTATTAAGA
1 TTAATATTAA-A
*
42235647 TAAATATTAAA
1 TTAATATTAAA
42235658 TTAA-ATTTAATA
1 TTAATA-TTAA-A
42235670 TTAAACTATTAAA
1 TT-AA-TATTAAA
*
42235683 ATAATATTA
1 TTAATATTA
42235692 TTTTTGAAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 18
0.69 0.07 0.24
Matches are distributed among these distances:
8 4 0.08
9 3 0.06
10 3 0.06
11 20 0.39
12 12 0.24
13 4 0.08
14 4 0.08
15 1 0.02
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (11 bp):
TTAATATTAAA
Found at i:42235653 original size:51 final size:51
Alignment explanation
Indices: 42235558--42235656 Score: 146
Period size: 51 Copynumber: 1.9 Consensus size: 51
42235548 GATTAAACTT
** * *
42235558 AATCACTTTAATATTAAATTAATATTATATTTTTAAATTTAATATTAAGAC
1 AATCACTTTAATATTAAATTAATAAAATATTATTAAATTAAATATTAAGAC
42235609 AATCACTTTAATATTAAATTAATAAAATATTATTAAGA-TAAATATTAA
1 AATCACTTTAATATTAAATTAATAAAATATTATTAA-ATTAAATATTAA
42235657 ATTAAATTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 42 0.98
52 1 0.02
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.43
Consensus pattern (51 bp):
AATCACTTTAATATTAAATTAATAAAATATTATTAAATTAAATATTAAGAC
Found at i:42236536 original size:285 final size:278
Alignment explanation
Indices: 42236026--42236581 Score: 767
Period size: 285 Copynumber: 2.0 Consensus size: 278
42236016 CGAACACGTG
* * * * * *
42236026 ACCTTTTGATCTTCAGTTTGAGGCTCTCCCAACTGAGCTATACTCGCAACTGTGAGTAAAAAAAA
1 ACCTTTAGATCTTCAGTCTGACGCTCTCCCAACTGAACTATACTCGCAACTATAAGTAAAAAAAA
* *
42236091 TAATTACATTGAGTATGAATTGCATCGAATTTCCCTTACTTGATCAAACAACAAAATTCAAGTTC
66 TAATTACATTGAGTATGAATTGCATCGAATTCCCCTTACTTGATCAAACAACAAAATTCAAGTGC
* * *
42236156 AGTAAATGATAAAAAGCTATGAATATTTTAAAATTTTTATTTCAACTACATTAAATGAACACTAA
131 AGTAAATGATAAAAAGCTAGGAATATTTTAAAATTGTTATTTCAACTACATTAAATGAAAACTAA
* * *
42236221 GGTATGGATATTTAAAAAATGTTGTGAAAGTTG-ATCGACCAAGTGACCCTTCAAGTATTTAGTC
196 GGTATGGATATTTAAAAAATATAGTGAAAG-TGAATCGACCAAGTGACCCTTCAAGTATTTACTC
42236285 TAACACTCTCCTTTTTGGA
260 TAACACTCTCCTTTTTGGA
* *
42236304 ACCTTTAGATCTTCAGTCTGACGCTCTCCCAACTGAACTATCCTCGCAATTATAAGTAAAAAATA
1 ACCTTTAGATCTTCAGTCTGACGCTCTCCCAACTGAACTATACTCGCAACTATAAGTAAAAAA-A
* * *
42236369 ATTATTATTATATTGAGTATGAATTGCATCGAATTCCCCTTATTTGATCCAACAACACAAAATTC
65 A-TA--ATTACATTGAGTATGAATTGCATCGAATTCCCCTTACTTGATCAAAC-A-ACAAAATTC
* * *
42236434 AAGTGCATTAAATGATAACTAAGCTAGGCATATTTTAAGAA-TGTTATTTCAACTACATTAAATG
125 AAGTGCAGTAAATGATAA-AAAGCTAGGAATATTTTAA-AATTGTTATTTCAACTACATTAAATG
* * * *
42236498 AAAATTGAGGTATGGATATTCT-AAAAATATAGTGAAAGTGAATTGACCAAGTGATCCTTCAAGT
188 AAAACTAAGGTATGGATATT-TAAAAAATATAGTGAAAGTGAATCGACCAAGTGACCCTTCAAGT
42236562 ATTTACTCTAACACTCTCCT
252 ATTTACTCTAACACTCTCCT
42236582 CTATGGATAA
Statistics
Matches: 242, Mismatches: 26, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
278 55 0.23
279 2 0.01
280 2 0.01
282 43 0.18
283 1 0.00
284 27 0.11
285 109 0.45
286 3 0.01
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.33
Consensus pattern (278 bp):
ACCTTTAGATCTTCAGTCTGACGCTCTCCCAACTGAACTATACTCGCAACTATAAGTAAAAAAAA
TAATTACATTGAGTATGAATTGCATCGAATTCCCCTTACTTGATCAAACAACAAAATTCAAGTGC
AGTAAATGATAAAAAGCTAGGAATATTTTAAAATTGTTATTTCAACTACATTAAATGAAAACTAA
GGTATGGATATTTAAAAAATATAGTGAAAGTGAATCGACCAAGTGACCCTTCAAGTATTTACTCT
AACACTCTCCTTTTTGGA
Found at i:42239209 original size:21 final size:21
Alignment explanation
Indices: 42239184--42239247 Score: 66
Period size: 21 Copynumber: 3.3 Consensus size: 21
42239174 CATATTTAAA
42239184 AAATGATATTTCAACTACATT
1 AAATGATATTTCAACTACATT
* * *
42239205 AAATG--A---CAAGTGCACT
1 AAATGATATTTCAACTACATT
42239221 AAATGATATTTCAACTACATT
1 AAATGATATTTCAACTACATT
42239242 AAATGA
1 AAATGA
42239248 CAAGTGCACT
Statistics
Matches: 32, Mismatches: 6, Indels: 10
0.67 0.12 0.21
Matches are distributed among these distances:
16 12 0.38
18 1 0.03
19 1 0.03
21 18 0.56
ACGTcount: A:0.45, C:0.14, G:0.09, T:0.31
Consensus pattern (21 bp):
AAATGATATTTCAACTACATT
Found at i:42239225 original size:37 final size:37
Alignment explanation
Indices: 42239184--42239258 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
42239174 CATATTTAAA
42239184 AAATGATATTTCAACTACATTAAATGACAAGTGCACT
1 AAATGATATTTCAACTACATTAAATGACAAGTGCACT
42239221 AAATGATATTTCAACTACATTAAATGACAAGTGCACT
1 AAATGATATTTCAACTACATTAAATGACAAGTGCACT
42239258 A
1 A
42239259 TGTATATTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.44, C:0.16, G:0.11, T:0.29
Consensus pattern (37 bp):
AAATGATATTTCAACTACATTAAATGACAAGTGCACT
Found at i:42240984 original size:33 final size:33
Alignment explanation
Indices: 42240941--42241006 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
42240931 AATAATAATT
42240941 ACATTAAGTATGAATTGTATTGATTTTCTCTTA
1 ACATTAAGTATGAATTGTATTGATTTTCTCTTA
*
42240974 ACATTGAGTATGAATTGTATTGATTTTCTCTTA
1 ACATTAAGTATGAATTGTATTGATTTTCTCTTA
42241007 CTTGATCAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.29, C:0.09, G:0.14, T:0.48
Consensus pattern (33 bp):
ACATTAAGTATGAATTGTATTGATTTTCTCTTA
Found at i:42243248 original size:12 final size:12
Alignment explanation
Indices: 42243219--42243261 Score: 70
Period size: 12 Copynumber: 3.7 Consensus size: 12
42243209 TTATATGCAC
42243219 AAAATATAT-AT
1 AAAATATATAAT
42243230 AAAATATATAAT
1 AAAATATATAAT
*
42243242 GAAATATATAAT
1 AAAATATATAAT
42243254 AAAATATA
1 AAAATATA
42243262 ATTTATAGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
11 9 0.31
12 20 0.69
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (12 bp):
AAAATATATAAT
Found at i:42243321 original size:26 final size:26
Alignment explanation
Indices: 42243300--42243349 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
42243290 ATATAATGGA
42243300 TAATATATATAAATAA-AAATAATAAC
1 TAATATATATAAA-AATAAATAATAAC
*
42243326 TAATATTTATAAAAATAAATAATA
1 TAATATATATAAAAATAAATAATA
42243350 TAAAAATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 2 0.09
26 20 0.91
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (26 bp):
TAATATATATAAAAATAAATAATAAC
Found at i:42243324 original size:22 final size:23
Alignment explanation
Indices: 42243299--42243351 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 23
42243289 AATATAATGG
42243299 ATAATATATATAAATAAAAAT-A
1 ATAATATATATAAATAAAAATAA
**
42243321 ATAACTA-ATATTTATAAAAATAA
1 ATAA-TATATATAAATAAAAATAA
42243344 ATAATATA
1 ATAATATA
42243352 AAAATTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 18 0.69
23 8 0.31
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (23 bp):
ATAATATATATAAATAAAAATAA
Found at i:42244055 original size:25 final size:25
Alignment explanation
Indices: 42244027--42244075 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
42244017 GCTGTATCAA
42244027 AAAAATATATAATGAAAAGAAGATT
1 AAAAATATATAATGAAAAGAAGATT
42244052 AAAAATATATAATGAAAAGAAGAT
1 AAAAATATATAATGAAAAGAAGAT
42244076 AAAGAGTATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.65, C:0.00, G:0.12, T:0.22
Consensus pattern (25 bp):
AAAAATATATAATGAAAAGAAGATT
Found at i:42247916 original size:21 final size:21
Alignment explanation
Indices: 42247892--42247938 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
42247882 AATGTGCTAC
42247892 ATTAATAAAAAAATGTTAAAT
1 ATTAATAAAAAAATGTTAAAT
* *
42247913 ATT-ATAAAAGAATGTTTAAT
1 ATTAATAAAAAAATGTTAAAT
*
42247933 ACTAAT
1 ATTAAT
42247939 TAAATGAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.55, C:0.02, G:0.06, T:0.36
Consensus pattern (21 bp):
ATTAATAAAAAAATGTTAAAT
Found at i:42258761 original size:7 final size:7
Alignment explanation
Indices: 42258749--42258779 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
42258739 AGTAGGATTA
42258749 AAATTTT
1 AAATTTT
42258756 AAATTTT
1 AAATTTT
42258763 AAATTTT
1 AAATTTT
42258770 AAATTTT
1 AAATTTT
42258777 AAA
1 AAA
42258780 GTACATGTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (7 bp):
AAATTTT
Found at i:42262208 original size:20 final size:20
Alignment explanation
Indices: 42262179--42262253 Score: 71
Period size: 20 Copynumber: 3.8 Consensus size: 20
42262169 TGAAGAACAA
42262179 AAGAAGGAGAAGGAATGAAG
1 AAGAAGGAGAAGGAATGAAG
* * * *
42262199 AAGAATGAGATGGACTGATG
1 AAGAAGGAGAAGGAATGAAG
* *
42262219 AAGAAGGAGGAGGACTGATA-
1 AAGAAGGAGAAGGAATGA-AG
*
42262239 AAGAAGGAGATGGAA
1 AAGAAGGAGAAGGAA
42262254 AATGACTTCA
Statistics
Matches: 43, Mismatches: 11, Indels: 2
0.77 0.20 0.04
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.48, C:0.03, G:0.39, T:0.11
Consensus pattern (20 bp):
AAGAAGGAGAAGGAATGAAG
Found at i:42264645 original size:133 final size:133
Alignment explanation
Indices: 42264460--42264784 Score: 369
Period size: 133 Copynumber: 2.4 Consensus size: 133
42264450 TGCCCCCTTA
* * **
42264460 CTACCTCA-GGAAGATAAAACTACAATCTTCAGCCTGCTCCTTTGCTACCTCA-GAGAGATGAGG
1 CTACCTCATGG-AGATAAATCTACAATCTTCAGCCTGCTCCTCTGCTACCTCAGGA-AGACAAGG
* * *
42264523 CT-GATGGCTTAGATCTGCTCCCTTGCTACTTC-AGGAAGATAAGATTCACCGTCTTCGATCTGC
64 CTAG-TGGCTTAAATCTGCTCCCTTGCTACCTCAAGG-AGATAAGATTCACCATCTTCGATCTGC
42264586 TAC-ATTG
127 T-CTATTG
* *
42264593 CTACCTCATGGAGATAATATCTACAATCTTCAGCTTGCT-CTACTGCT-GCTCAGGAAGACAAGG
1 CTACCTCATGGAGATAA-ATCTACAATCTTCAGCCTGCTCCT-CTGCTACCTCAGGAAGACAAGG
* *
42264656 CTAGTGGCTTAAATCTGCTCCCTTGCTACCTCAAGGAGATAAGATTCGCCATCTTCGATTTGCTC
64 CTAGTGGCTTAAATCTGCTCCCTTGCTACCTCAAGGAGATAAGATTCACCATCTTCGATCTGCTC
42264721 TATTG
129 TATTG
* * * * *
42264726 CTACCTAATGGAGATAAGATCTACAATATTCAGTCTGCTTCCT-TACTATCTCAGGAAGA
1 CTACCTCATGGAGATAA-ATCTACAATCTTCAGCCTGC-TCCTCTGCTACCTCAGGAAGA
42264785 TAAGACTACA
Statistics
Matches: 164, Mismatches: 18, Indels: 19
0.82 0.09 0.09
Matches are distributed among these distances:
132 1 0.01
133 119 0.73
134 42 0.26
135 2 0.01
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.30
Consensus pattern (133 bp):
CTACCTCATGGAGATAAATCTACAATCTTCAGCCTGCTCCTCTGCTACCTCAGGAAGACAAGGCT
AGTGGCTTAAATCTGCTCCCTTGCTACCTCAAGGAGATAAGATTCACCATCTTCGATCTGCTCTA
TTG
Found at i:42264796 original size:177 final size:176
Alignment explanation
Indices: 42264593--42265187 Score: 691
Period size: 177 Copynumber: 3.4 Consensus size: 176
42264583 TGCTACATTG
* * * * *
42264593 CTACCTCATGG-AGATAATATCTACAATCTTCAGCTTGCTCTACTGCT-GCTCAG-GAAGACAAG
1 CTACCTCA-GGAAGATAAGA-CTACAATCTTCAACCTGCTCT-CTGCTACCTCAGAG-AGATAAG
* *
42264655 GCTAGTGGCTTAAATCTGCTCCCTTGCTACCTCAAGGAGATAAGATTCGCCATCTTCGATTTGCT
62 GCTAGTGGCTAAAATCTGCTCCCTTGCTACCTC-AGGAGATAAGATTCGCCATCTTCGATCTGCT
* *
42264720 CTATTGCTACCTAATGGAGATAAGATCTACAATATTCAGTCTGCTTCCTTA
126 CTATTGCTACCTAATGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTA
*
42264771 CTATCTCAGGAAGATAAGACTACAATCTTCAACCTGCTCTCTCGCTACCTCAGAGAGATAAGGCT
1 CTACCTCAGGAAGATAAGACTACAATCTTCAACCTGCTCTCT-GCTACCTCAGAGAGATAAGGCT
* * * *
42264836 GGTGGCTAAAATCTGCT-CCTCTGCTACCTCGAGAAGATAAGATTCGCCATATTTGATCTGCTCT
65 AGTGGCTAAAATCTGCTCCCT-TGCTACCTC-AGGAGATAAGATTCGCCATCTTCGATCTGCTCT
* * * * * ** *
42264900 ACTACT-GCTTAGGGAGATAAGATCTTCAATCCTT-AGTCTGCTTTTTTG
128 ATTGCTACCTAATGGAGATAAGATCTTCAAT-CTTCAGTCTGCTTCCTTA
* *
42264948 CTACCTCAGGAAGATAAGACTTCAATCTTCAACCTGCTCTCTTGCTACCTTAGAGAGATAAGGCT
1 CTACCTCAGGAAGATAAGACTACAATCTTCAACCTGCTCTC-TGCTACCTCAGAGAGATAAGGCT
* * * * * * *
42265013 A-TGACTAAAATCTACTCCCCTACTACCTCGGGAAGATAAGATTCACCATCTTCGATCTGCTCCA
65 AGTGGCTAAAATCTGCTCCCTTGCTACCTCAGG-AGATAAGATTCGCCATCTTCGATCTGCTCTA
* *
42265077 TTGCTACCTCATGGAGATAAGATCTTCAATCCTCAGTCTGCTTCCTTA
129 TTGCTACCTAATGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTA
* * * * *
42265125 CTACCCCAGAAAGATAAGACTTCAATCTTCAACCTGTTCTCTTACTACCTCAGAGAGATAAGG
1 CTACCTCAGGAAGATAAGACTACAATCTTCAACCTGCTCTC-TGCTACCTCAGAGAGATAAGG
42265188 TTGTGAATTC
Statistics
Matches: 355, Mismatches: 51, Indels: 23
0.83 0.12 0.05
Matches are distributed among these distances:
175 1 0.00
176 55 0.15
177 210 0.59
178 88 0.25
179 1 0.00
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (176 bp):
CTACCTCAGGAAGATAAGACTACAATCTTCAACCTGCTCTCTGCTACCTCAGAGAGATAAGGCTA
GTGGCTAAAATCTGCTCCCTTGCTACCTCAGGAGATAAGATTCGCCATCTTCGATCTGCTCTATT
GCTACCTAATGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTA
Found at i:42264985 original size:44 final size:44
Alignment explanation
Indices: 42264948--42265186 Score: 175
Period size: 45 Copynumber: 5.4 Consensus size: 44
42264938 TGCTTTTTTG
* * *
42264948 CTACCTCAGGAAGATAAGACTTCAATCTTCAACCTGCTCTCTTG
1 CTACCTCAGGAAGATAAGACTTCAATCTTCAATCTGCTCCCTTA
* * * ** * *
42264992 CTACCTTA-GAGAGATAAGGCTAT-GA-CTAAAATCTACTCCCCTA
1 CTACCTCAGGA-AGATAAGACT-TCAATCTTCAATCTGCTCCCTTA
* * * *
42265035 CTACCTCGGGAAGATAAGA-TTCACCATCTTCGATCTGCTCCATTG
1 CTACCTCAGGAAGATAAGACTTCA--ATCTTCAATCTGCTCCCTTA
* * *
42265080 CTACCTCATGG-AGATAAGATCTTCAATCCTCAGTCTGCTTCCTTA
1 CTACCTCA-GGAAGATAAGA-CTTCAATCTTCAATCTGCTCCCTTA
* * * * *
42265125 CTACCCCAGAAAGATAAGACTTCAATCTTCAACCTGTTCTCTTA
1 CTACCTCAGGAAGATAAGACTTCAATCTTCAATCTGCTCCCTTA
42265169 CTACCTCA-GAGAGATAAG
1 CTACCTCAGGA-AGATAAG
42265187 GTTGTGAATT
Statistics
Matches: 145, Mismatches: 38, Indels: 24
0.70 0.18 0.12
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 27 0.19
44 54 0.37
45 56 0.39
46 2 0.01
47 4 0.03
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.28
Consensus pattern (44 bp):
CTACCTCAGGAAGATAAGACTTCAATCTTCAATCTGCTCCCTTA
Found at i:42265009 original size:311 final size:309
Alignment explanation
Indices: 42264377--42264997 Score: 691
Period size: 311 Copynumber: 2.0 Consensus size: 309
42264367 GCTACTGTTT
*** * *
42264377 AAGGAGATAAGATTTTTCATCTTCGATCTGCTCCATTACTACGTCATGGAAATAAGATCTACAAC
1 AAGGAGATAAGATTCGCCATCTTCGATCTGCTCCATTACTACCTAATGGAAATAAGATCTACAAC
* * * * *
42264442 CTTTAGTTTGCCCCCTTACTACCTCAGGAAGATAAAACTACAATCTTCAGCCTGCTCCTTTGCTA
66 ATTCAGTCTGCCCCCTTACTACCTCAGGAAGATAAAACTACAATCTTCAACCTGCTCCTTCGCTA
* * * *
42264507 CCTCAGAGAGATGAGGCTGATGGCTTAGATCTGCTCCCTTGCTACTTCAGGAAGATAAGATTCAC
131 CCTCAGAGAGATAAGGCTGATGGCTAAAATCTGCTCCCTTGCTACCTCAGGAAGATAAGATTCAC
* * * * *
42264572 CGTCTTCGATCTGCTACATTGCTACCTCATGGAGATAATATCTACAATCTTCAGCTTGCTCTACT
196 CATATTCGATCTGCTACA-TACTACCTCAGGGAGATAAGATCTACAATCTTCAGCTTGCTCTACT
* * * *
42264637 GCTGCTCAGGAAGACAAGGCTAGTGGCTTAAATCTGCTCCCTTGCTACCTC
260 GCTCCTCAGGAAGACAAGACTAAT-GCTTAAACCTGCTCCCTTGCTACCTC
* * * * *
42264688 AAGGAGATAAGATTCGCCATCTTCGATTTGCTCTATTGCTACCTAATGGAGATAAGATCTACAAT
1 AAGGAGATAAGATTCGCCATCTTCGATCTGCTCCATTACTACCTAATGGAAATAAGATCTACAAC
** * *
42264753 ATTCAGTCTGCTTCCTTACTATCTCAGGAAGATAAGACTACAATCTTCAACCTGCT-CTCTCGCT
66 ATTCAGTCTGCCCCCTTACTACCTCAGGAAGATAAAACTACAATCTTCAACCTGCTCCT-TCGCT
*
42264817 ACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCT-CCTCTGCTACCTC-GAGAAGATAAGATT
130 ACCTCAGAGAGATAAGGCTGATGGCTAAAATCTGCTCCCT-TGCTACCTCAG-GAAGATAAGATT
* * * *
42264880 CGCCATATTTGATCTGCT-C-TACTACTGCTTAGGGAGATAAGATCTTCAATCCTT-AG-TCTGC
193 CACCATATTCGATCTGCTACATACTAC--CTCAGGGAGATAAGATCTACAAT-CTTCAGCT-TGC
* ** * * *
42264941 TTTTTTGCTACCTCAGGAAGATAAGACTTCAAT-CTTCAACCTGCTCTCTTGCTACCT
254 TCTACTGCT-CCTCAGGAAGACAAGAC-T-AATGCTTAAACCTGCTCCCTTGCTACCT
42264998 TAGAGAGATA
Statistics
Matches: 257, Mismatches: 43, Indels: 20
0.80 0.13 0.06
Matches are distributed among these distances:
308 5 0.02
309 1 0.00
310 37 0.14
311 211 0.82
312 1 0.00
313 2 0.01
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.31
Consensus pattern (309 bp):
AAGGAGATAAGATTCGCCATCTTCGATCTGCTCCATTACTACCTAATGGAAATAAGATCTACAAC
ATTCAGTCTGCCCCCTTACTACCTCAGGAAGATAAAACTACAATCTTCAACCTGCTCCTTCGCTA
CCTCAGAGAGATAAGGCTGATGGCTAAAATCTGCTCCCTTGCTACCTCAGGAAGATAAGATTCAC
CATATTCGATCTGCTACATACTACCTCAGGGAGATAAGATCTACAATCTTCAGCTTGCTCTACTG
CTCCTCAGGAAGACAAGACTAATGCTTAAACCTGCTCCCTTGCTACCTC
Found at i:42277424 original size:17 final size:17
Alignment explanation
Indices: 42277402--42277442 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
42277392 ATGGCCGCAT
*
42277402 GAAGATAAAAATCTCAC
1 GAAGATAAAAATCCCAC
42277419 GAAGATAAAAATCCCAC
1 GAAGATAAAAATCCCAC
42277436 GAAGATA
1 GAAGATA
42277443 TAGGTACGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.54, C:0.17, G:0.15, T:0.15
Consensus pattern (17 bp):
GAAGATAAAAATCCCAC
Found at i:42279135 original size:11 final size:11
Alignment explanation
Indices: 42279119--42279194 Score: 68
Period size: 11 Copynumber: 6.9 Consensus size: 11
42279109 TAAAGTAGAA
42279119 AATAATAATAC
1 AATAATAATAC
* *
42279130 AATAATAAGAA
1 AATAATAATAC
42279141 AATAATAAT-C
1 AATAATAATAC
42279151 TAATAATAAT-C
1 -AATAATAATAC
*
42279162 TAATAATAATAT
1 -AATAATAATAC
*
42279174 AAAATATAATA-
1 AATA-ATAATAC
42279185 AATAATAATA
1 AATAATAATA
42279195 GAAAATGAAT
Statistics
Matches: 55, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
10 6 0.11
11 43 0.78
12 6 0.11
ACGTcount: A:0.64, C:0.04, G:0.01, T:0.30
Consensus pattern (11 bp):
AATAATAATAC
Found at i:42279143 original size:22 final size:22
Alignment explanation
Indices: 42279115--42279194 Score: 76
Period size: 22 Copynumber: 3.6 Consensus size: 22
42279105 ATAATAAAGT
42279115 AGAAAATAATAATACAATAATA
1 AGAAAATAATAATACAATAATA
42279137 AGAAAATAATAAT-CTAATAATA
1 AGAAAATAATAATAC-AATAATA
*** *
42279159 ATCTAATAATAATATAA-AATA
1 AGAAAATAATAATACAATAATA
42279180 TA-ATAAATAATAATA
1 -AGA-AAATAATAATA
42279195 GAAAATGAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
21 5 0.10
22 43 0.90
ACGTcount: A:0.65, C:0.04, G:0.03, T:0.29
Consensus pattern (22 bp):
AGAAAATAATAATACAATAATA
Found at i:42279175 original size:19 final size:19
Alignment explanation
Indices: 42279117--42279223 Score: 64
Period size: 19 Copynumber: 5.5 Consensus size: 19
42279107 AATAAAGTAG
42279117 AAAATAATAATACAATAATA-
1 AAAAT-ATAATA-AATAATAT
*
42279137 AGAAA-ATAATAATCTAATA-
1 A-AAATATAATAA-ATAATAT
* *
42279156 ATAATCTAAT-AATAATAT
1 AAAATATAATAAATAATAT
42279174 AAAATATAATAAATAATAAT
1 AAAATATAATAAATAAT-AT
*
42279194 AGAAA-ATGAATAAA-ACATAA
1 A-AAATAT-AATAAATA-ATAT
42279214 AAAATATAAT
1 AAAATATAAT
42279224 GATAATAGTG
Statistics
Matches: 70, Mismatches: 7, Indels: 21
0.71 0.07 0.21
Matches are distributed among these distances:
17 5 0.07
18 12 0.17
19 28 0.40
20 11 0.16
21 14 0.20
ACGTcount: A:0.66, C:0.04, G:0.03, T:0.27
Consensus pattern (19 bp):
AAAATATAATAAATAATAT
Found at i:42279303 original size:3 final size:3
Alignment explanation
Indices: 42279096--42279292 Score: 80
Period size: 3 Copynumber: 67.7 Consensus size: 3
42279086 AGTAATGATG
* * * *
42279096 ATA ATA ATA ATA ATA A-A GTA GAAA ATA ATA AT- ACA ATA ATA AGA
1 ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
* *
42279140 A-A ATA ATA AT- CTA ATA ATA AT- CTA ATA ATA AT- ATA A-A AT- ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
42279182 ATAA ATA ATA ATA GAAA ATGA ATA AAA CATA A-A A-A AT- ATA ATG ATA
1 AT-A ATA ATA ATA -ATA AT-A ATA ATA -ATA ATA ATA ATA ATA ATA ATA
* * * * * * *
42279228 ATA GTG GTA GTA ATA A-A AGTA ATA ATA GTA ATA ATG GTA GCA-A AT-
1 ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA --ATA ATA
42279273 ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA AT
42279293 TTTGATAATA
Statistics
Matches: 146, Mismatches: 27, Indels: 42
0.68 0.13 0.20
Matches are distributed among these distances:
2 23 0.16
3 109 0.75
4 14 0.10
ACGTcount: A:0.61, C:0.03, G:0.08, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:42281118 original size:83 final size:84
Alignment explanation
Indices: 42280978--42281145 Score: 329
Period size: 83 Copynumber: 2.0 Consensus size: 84
42280968 ATTGAAATCC
42280978 TAATGTGACTTGAGAAGTGGATTGGCTTGTTCTCCATTTATGTTCAAATTCTTCCCATGTTTTTT
1 TAATGTGACTTGAGAAGTGGATTGGCTTGTTCTCCATTTATGTTCAAATTCTTCCCATGTTTTTT
42281043 TGTTTTGGAGATTTGAAGT
66 TGTTTTGGAGATTTGAAGT
42281062 TAATGTGACTTGAGAAGTGGA-TGGCTTGTTCTCCATTTATGTTCAAATTCTTCCCATGTTTTTT
1 TAATGTGACTTGAGAAGTGGATTGGCTTGTTCTCCATTTATGTTCAAATTCTTCCCATGTTTTTT
42281126 TGTTTTGGAGATTTGAAGT
66 TGTTTTGGAGATTTGAAGT
42281145 T
1 T
42281146 TTAGGATCCC
Statistics
Matches: 84, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
83 63 0.75
84 21 0.25
ACGTcount: A:0.20, C:0.12, G:0.21, T:0.46
Consensus pattern (84 bp):
TAATGTGACTTGAGAAGTGGATTGGCTTGTTCTCCATTTATGTTCAAATTCTTCCCATGTTTTTT
TGTTTTGGAGATTTGAAGT
Found at i:42304728 original size:20 final size:20
Alignment explanation
Indices: 42304685--42304728 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
42304675 TTTTACATGT
* *
42304685 ATTAATAAATTTATATATAT
1 ATTAATAAATTTAAATATAA
*
42304705 ATTAATAAATTTAAATTTAA
1 ATTAATAAATTTAAATATAA
42304725 ATTA
1 ATTA
42304729 TTTTTACATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
ATTAATAAATTTAAATATAA
Found at i:42305971 original size:15 final size:14
Alignment explanation
Indices: 42305915--42306031 Score: 62
Period size: 15 Copynumber: 8.1 Consensus size: 14
42305905 TTATTATGTT
*
42305915 TCTATTTATATTTA
1 TCTATTTTTATTTA
*
42305929 T-T-TTGTTATTCTAA
1 TCTATTTTTATT-T-A
*
42305943 TACTATTATTATTTA
1 T-CTATTTTTATTTA
42305958 TCTAATTTTTATTTA
1 TCT-ATTTTTATTTA
* *
42305973 TCTATTTATATTTC
1 TCTATTTTTATTTA
*
42305987 TACTATTATTATATT-
1 T-CTATTTTTAT-TTA
42306002 TCTATTTATTATATT-
1 TCTATTT-TTAT-TTA
* *
42306017 TTTATTTCTATTTA
1 TCTATTTTTATTTA
42306031 T
1 T
42306032 ATACTAATAT
Statistics
Matches: 82, Mismatches: 11, Indels: 20
0.73 0.10 0.18
Matches are distributed among these distances:
12 6 0.07
13 4 0.05
14 24 0.29
15 37 0.45
16 4 0.05
17 7 0.09
ACGTcount: A:0.26, C:0.08, G:0.01, T:0.65
Consensus pattern (14 bp):
TCTATTTTTATTTA
Found at i:42305984 original size:29 final size:28
Alignment explanation
Indices: 42305903--42306010 Score: 82
Period size: 29 Copynumber: 3.8 Consensus size: 28
42305893 TTATTACTAT
42305903 TATTATTATGTT-TCTATTTATATTTAT-
1 TATTATTAT-TTATCTATTTATATTTATC
*
42305930 T-TTGTTATTCTAATACTA-TTATTATTTATC
1 TATTATTATT-T-AT-CTATTTA-TATTTATC
* *
42305960 TAATTTTTATTTATCTATTTATATTTCTAC
1 T-ATTATTATTTATCTATTTATATTTAT-C
42305990 TATTATTATATT-TCTATTTAT
1 TATTATTAT-TTATCTATTTAT
42306011 TATATTTTTA
Statistics
Matches: 66, Mismatches: 4, Indels: 20
0.73 0.04 0.22
Matches are distributed among these distances:
25 1 0.02
26 7 0.11
27 1 0.02
28 4 0.06
29 35 0.53
30 10 0.15
31 1 0.02
32 7 0.11
ACGTcount: A:0.27, C:0.07, G:0.02, T:0.64
Consensus pattern (28 bp):
TATTATTATTTATCTATTTATATTTATC
Found at i:42306000 original size:17 final size:15
Alignment explanation
Indices: 42305978--42306023 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
42305968 ATTTATCTAT
42305978 TTATATTTCTACTATTA
1 TTATATTTCTA-T-TTA
42305995 TTATATTTCTATTTA
1 TTATATTTCTATTTA
*
42306010 TTATATTTTTATTT
1 TTATATTTCTATTT
42306024 CTATTTATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (15 bp):
TTATATTTCTATTTA
Found at i:42306067 original size:52 final size:54
Alignment explanation
Indices: 42305946--42306067 Score: 125
Period size: 52 Copynumber: 2.4 Consensus size: 54
42305936 ATTCTAATAC
* * *
42305946 TATTATTATTTATC-TA-ATTTTTATTTATCTATTTATATTTCTACTATTATTA
1 TATTATTATTTTTCTTATATTTTTATTTATCTATTTATATTACTAATATTATTA
* *
42305998 TATT-TCTA--TTTATTATATTTTTA-TT-TCTATTTATA-TACTAATATTATTT
1 TATTAT-TATTTTTCTTATATTTTTATTTATCTATTTATATTACTAATATTATTA
42306047 TCATTATTATTTTTCTTATAT
1 T-ATTATTATTTTTCTTATAT
42306068 ATGTTTTTTA
Statistics
Matches: 57, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
49 12 0.21
50 17 0.30
51 6 0.11
52 22 0.39
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (54 bp):
TATTATTATTTTTCTTATATTTTTATTTATCTATTTATATTACTAATATTATTA
Found at i:42312912 original size:45 final size:45
Alignment explanation
Indices: 42312862--42312958 Score: 108
Period size: 45 Copynumber: 2.2 Consensus size: 45
42312852 GTAGCAAGGA
*
42312862 AGCAGACTAGAAATTACAGA-TCTTATCTCCATGTATC-GACTATGG
1 AGCAGA-TAGAAAATACAGAGTCTTATCTCCATGTATCAG-CTATGG
* *** *
42312907 AGCAGATCGAAAATGGTGAGTCTTGTCTCCATGTATCAGCTATGG
1 AGCAGATAGAAAATACAGAGTCTTATCTCCATGTATCAGCTATGG
42312952 AGCAGAT
1 AGCAGAT
42312959 CTTAGCCACT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
44 8 0.18
45 35 0.80
46 1 0.02
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.28
Consensus pattern (45 bp):
AGCAGATAGAAAATACAGAGTCTTATCTCCATGTATCAGCTATGG
Found at i:42313285 original size:178 final size:178
Alignment explanation
Indices: 42312834--42314002 Score: 1122
Period size: 178 Copynumber: 6.4 Consensus size: 178
42312824 CGGTGAATTT
* *
42312834 AAGTTTTATCTTCTTAAGGTAGCAAGGAAGCAGACT-AGAAATTACAGATCTTATCTCCATGTAT
1 AAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTGA-AAATTACAGATCTTATCTCCATGTAT
* *
42312898 CGACTATGGAGCAGATCGAAAATGGTGAGTCTTGTCTCCATGTATCAGCTATGGAGCAGATCTTA
65 CGACTATGGAGCAGATCGAAAATGGTGAGTCTTATCTCCATGTATCAGCTATGGAGCAGATTTTA
** * * * *
42312963 GCCACTGGTCTTATCTCTCTGAGGTAGTAGGAGAGTAGGTTGAAGATAC
130 GCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATAC
* * * * * ** *
42313012 GAGCCTTAATC-TCTTAA-GCAG-TAGGATAATAGGCTGAAAATTACAGATCTTATCTCCATGTA
1 AAGTCTT-ATCTTCCTAAGGTAGCAAGGA-AGCAGACTGAAAATTACAGATCTTATCTCCATGTA
* ** *
42313074 TCGGCTATGGAGCAGATCGAAAATCATGAGTCTTATCTCCATGTATC-GACTATGGCGCAGATTT
64 TCGACTATGGAGCAGATCGAAAATGGTGAGTCTTATCTCCATGTATCAG-CTATGGAGCAGATTT
* * *
42313138 TAGCCACCAGCATTATCTCTCTAATGTAGCAAGAGAGCAGGTTGAAGATAC
128 TAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATAC
* *
42313189 AAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAAAAATTACAGATCTTATCTCCATGTATC
1 AAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATC
** * *
42313254 GACTATGGAGCAGATAAAAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAG
66 GACTATGGAGCAGATCGAAAATGGTGAGTCTTATCTCCATGTATCAGCTATGGAGCAGATTTTAG
** * * *
42313319 CCACTGGCCTTATCTCTATGAGGTAGCAGGAGAGCAGGTTGAAGACAC
131 CCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATAC
* * * *
42313367 -CGACTTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATTACAGATCTTATTTCCATGTAT
1 AAGTC-TTATCTTCCTAAGGTAGCAAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTAT
*
42313431 C-AGCTATGGAGTAGATCGAAAATGGTGAGTCTTATCTCCATGTATCAGCTATGGAGCAGATTTT
65 CGA-CTATGGAGCAGATCGAAAATGGTGAGTCTTATCTCCATGTATCAGCTATGGAGCAGATTTT
* *
42313495 AGCCAACAGCCTTATCTCTCTTAGGTAGCAAGAGAGCAGGTTGAAGATAC
129 AGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATAC
* * * * *
42313545 AAGTCTTATCTTCTTAAGGTAGGAAGGAAGCAGACTGAAAGTTATAGATCTTATCTCCATGTATT
1 AAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATC
* * ** *** * *
42313610 GGCTATGTAGCAGATC-AGAAATGGCTATGGAG-CAGATCGAAAATGGCGAGTCTTATCTCCATG
66 GACTATGGAGCAGATCGA-AAATGG---T-GAGTCTTATC-TCCAT-G-TA-TC--AGCT--ATG
* * ** * ** ** * * *** **
42313673 TATC-GACTATGGAGCAGATTTTAGCCACCAGCCTTATCT-CTCTAAGGTAGCAAGAGAGCAGGT
118 GAGCAGA-T-TTTAGC-CA--CCAGCC-TTA-TC-TCTCTGAGGT-AGCAAG-A---GAGCAGGT
*
42313736 TGAAGACAC
170 TGAAGATAC
* * * *
42313745 -CGGCTTTATCTTCTTAAGGTAGCAAGGAAGCAGACTGAAAATTACAGATATTATCTCCATGTAT
1 AAGTC-TTATCTTCCTAAGGTAGCAAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTAT
* **
42313809 CGGCTATGGAGCAGATTAAAAATGGTGAGTCTTATCTCCATGTATC-GACTATGGAGCAGATTTT
65 CGACTATGGAGCAGATCGAAAATGGTGAGTCTTATCTCCATGTATCAG-CTATGGAGCAGATTTT
* * * * *
42313873 AGCCACCGGCGTTATCTCTCTGAGGTAGCAAGAAAGCCGGTGGAAGATAC
129 AGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATAC
* * *
42313923 AAGTCTTATCTTCCTGAGGTAGCAAGGAAGTAGACTGAAAATTACAGATCTTATCTCTATGTATC
1 AAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATC
* *
42313988 GGCTATGGAACAGAT
66 GACTATGGAGCAGAT
42314003 TTTAGCCACC
Statistics
Matches: 800, Mismatches: 146, Indels: 90
0.77 0.14 0.09
Matches are distributed among these distances:
176 8 0.01
177 144 0.18
178 453 0.57
179 12 0.01
181 6 0.01
182 13 0.02
183 3 0.00
184 2 0.00
185 4 0.00
187 4 0.00
188 6 0.01
189 12 0.01
190 6 0.01
191 3 0.00
193 6 0.01
194 2 0.00
195 3 0.00
196 13 0.02
197 6 0.01
199 2 0.00
200 91 0.11
201 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (178 bp):
AAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATC
GACTATGGAGCAGATCGAAAATGGTGAGTCTTATCTCCATGTATCAGCTATGGAGCAGATTTTAG
CCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATAC
Found at i:42313637 original size:22 final size:22
Alignment explanation
Indices: 42313609--42313656 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
42313599 CTCCATGTAT
*
42313609 TGGCTATGTAGCAGATC-AGAAA
1 TGGCTATGGAGCAGATCGA-AAA
42313631 TGGCTATGGAGCAGATCGAAAA
1 TGGCTATGGAGCAGATCGAAAA
42313653 TGGC
1 TGGC
42313657 GAGTCTTATC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 23 0.96
23 1 0.04
ACGTcount: A:0.33, C:0.15, G:0.31, T:0.21
Consensus pattern (22 bp):
TGGCTATGGAGCAGATCGAAAA
Found at i:42313732 original size:44 final size:43
Alignment explanation
Indices: 42313683--42313783 Score: 105
Period size: 44 Copynumber: 2.3 Consensus size: 43
42313673 TATCGACTAT
** *
42313683 GGAGCAGATTTTAGCCACCAGCCTTATC-TCTCTAAGGTAGCAA
1 GGAGCAGATTGAAGACACCAGCCTTATCTTCT-TAAGGTAGCAA
* * *
42313726 GAGAGCAGGTTGAAGACACCGGCTTTATCTTCTTAAGGTAGCAA
1 G-GAGCAGATTGAAGACACCAGCCTTATCTTCTTAAGGTAGCAA
*
42313770 GGAAGCAGACTGAA
1 GG-AGCAGATTGAA
42313784 AATTACAGAT
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
43 2 0.04
44 42 0.89
45 3 0.06
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.23
Consensus pattern (43 bp):
GGAGCAGATTGAAGACACCAGCCTTATCTTCTTAAGGTAGCAA
Found at i:42313776 original size:200 final size:200
Alignment explanation
Indices: 42313433--42313833 Score: 635
Period size: 200 Copynumber: 2.0 Consensus size: 200
42313423 CCATGTATCA
* *
42313433 GCTATGGAGTAGATCGAAAATGGTGAGTCTTATCTCCATGTATCAGCTATGGAGCAGATTTTAGC
1 GCTATGGAGCAGATCGAAAATGGCGAGTCTTATCTCCATGTATCAGCTATGGAGCAGATTTTAGC
* *
42313498 CAACAGCCTTATCTCTCTTAGGTAGCAAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCTTAAG
66 CAACAGCCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGACACAAGTCTTATCTTCTTAAG
* * * * * * *
42313563 GTAGGAAGGAAGCAGACTGAAAGTTATAGATCTTATCTCCATGTATTGGCTATGTAGCAGATCAG
131 GTAGCAAGGAAGCAGACTGAAAATTACAGATATTATCTCCATGTATCGGCTATGGAGCAGATCAA
42313628 AAATG
196 AAATG
42313633 GCTATGGAGCAGATCGAAAATGGCGAGTCTTATCTCCATGTATC-GACTATGGAGCAGATTTTAG
1 GCTATGGAGCAGATCGAAAATGGCGAGTCTTATCTCCATGTATCAG-CTATGGAGCAGATTTTAG
* * *
42313697 CCACCAGCCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGACAC-CGGCTTTATCTTCTTA
65 CCAACAGCCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGACACAAGTC-TTATCTTCTTA
*
42313761 AGGTAGCAAGGAAGCAGACTGAAAATTACAGATATTATCTCCATGTATCGGCTATGGAGCAGATT
129 AGGTAGCAAGGAAGCAGACTGAAAATTACAGATATTATCTCCATGTATCGGCTATGGAGCAGATC
42313826 AAAAATG
194 AAAAATG
42313833 G
1 G
42313834 TGAGTCTTAT
Statistics
Matches: 184, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
199 3 0.02
200 181 0.98
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.27
Consensus pattern (200 bp):
GCTATGGAGCAGATCGAAAATGGCGAGTCTTATCTCCATGTATCAGCTATGGAGCAGATTTTAGC
CAACAGCCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGACACAAGTCTTATCTTCTTAAG
GTAGCAAGGAAGCAGACTGAAAATTACAGATATTATCTCCATGTATCGGCTATGGAGCAGATCAA
AAATG
Found at i:42313823 original size:45 final size:44
Alignment explanation
Indices: 42313773--42313868 Score: 113
Period size: 45 Copynumber: 2.1 Consensus size: 44
42313763 GTAGCAAGGA
* *
42313773 AGCAGACTGAAAAT-TACAGATATTATCTCCATGTATCGGCTATGG
1 AGCAGACTAAAAATGT-CAG-TATTATCTCCATGTATCGACTATGG
* * *
42313818 AGCAGATTAAAAATGGTGAGTCTTATCTCCATGTATCGACTATGG
1 AGCAGACTAAAAAT-GTCAGTATTATCTCCATGTATCGACTATGG
42313863 AGCAGA
1 AGCAGA
42313869 TTTTAGCCAC
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
45 41 0.93
46 2 0.05
47 1 0.02
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (44 bp):
AGCAGACTAAAAATGTCAGTATTATCTCCATGTATCGACTATGG
Found at i:42313952 original size:378 final size:378
Alignment explanation
Indices: 42313256--42313994 Score: 1174
Period size: 378 Copynumber: 2.0 Consensus size: 378
42313246 CATGTATCGA
*
42313256 CTATGGAGCAGATAAAAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCC
1 CTATGGAGCAGATAAAAAATGGCGAGTCTTATCTCCATGTATCGACTATGGAGCAGATTTTAGCC
** * * *
42313321 ACTGGCCTTATCTCTATGAGGTAGCAGGAGAGCAGGTTGAAGACACCGACTTTATCTTCCTGAGG
66 ACCAGCCTTATCTCTATAAGGTAGCAAGAGAGCAGGTTGAAGACACCGACTTTATCTTCCTAAGG
* * * *
42313386 TAGCAAGGAAGCAGACTGAAAATTACAGATCTTATTTCCATGTATCAGCTATGGAGTAGATCGAA
131 TAGCAAGGAAGCAGACTGAAAATTACAGATATTATCTCCATGTATCAGCTATGGAGCAGATCAAA
42313451 AATGGTGAGTCTTATCTCCATGTATCAGCTATGGAGCAGATTTTAGCCAACAGCCTTATCTCTCT
196 AATGGTGAGTCTTATCTCCATGTATCAGCTATGGAGCAGATTTTAGCCAACAGCCTTATCTCTCT
* * * * *
42313516 TAGGTAGCAAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCTTAAGGTAGGAAGGAAGCAGACT
261 GAGGTAGCAAGAAAGCAGGTGGAAGATACAAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACT
* * *
42313581 GAAAGTTATAGATCTTATCTCCATGTATTGGCTATGTAGCAGATCAGAAATGG
326 GAAAATTACAGATCTTATCTCCATGTATCGGCTATGTAGCAGATCAGAAATGG
**
42313634 CTATGGAGCAGATCGAAAATGGCGAGTCTTATCTCCATGTATCGACTATGGAGCAGATTTTAGCC
1 CTATGGAGCAGATAAAAAATGGCGAGTCTTATCTCCATGTATCGACTATGGAGCAGATTTTAGCC
* * *
42313699 ACCAGCCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGACACCGGCTTTATCTTCTTAAGG
66 ACCAGCCTTATCTCTATAAGGTAGCAAGAGAGCAGGTTGAAGACACCGACTTTATCTTCCTAAGG
* *
42313764 TAGCAAGGAAGCAGACTGAAAATTACAGATATTATCTCCATGTATCGGCTATGGAGCAGATTAAA
131 TAGCAAGGAAGCAGACTGAAAATTACAGATATTATCTCCATGTATCAGCTATGGAGCAGATCAAA
* * *
42313829 AATGGTGAGTCTTATCTCCATGTATC-GACTATGGAGCAGATTTTAGCCACCGGCGTTATCTCTC
196 AATGGTGAGTCTTATCTCCATGTATCAG-CTATGGAGCAGATTTTAGCCAACAGCCTTATCTCTC
* * *
42313893 TGAGGTAGCAAGAAAGCCGGTGGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGTAGAC
260 TGAGGTAGCAAGAAAGCAGGTGGAAGATACAAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGAC
*
42313958 TGAAAATTACAGATCTTATCTCTATGTATCGGCTATG
325 TGAAAATTACAGATCTTATCTCCATGTATCGGCTATG
42313995 GAACAGATTT
Statistics
Matches: 328, Mismatches: 32, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
377 1 0.00
378 327 1.00
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (378 bp):
CTATGGAGCAGATAAAAAATGGCGAGTCTTATCTCCATGTATCGACTATGGAGCAGATTTTAGCC
ACCAGCCTTATCTCTATAAGGTAGCAAGAGAGCAGGTTGAAGACACCGACTTTATCTTCCTAAGG
TAGCAAGGAAGCAGACTGAAAATTACAGATATTATCTCCATGTATCAGCTATGGAGCAGATCAAA
AATGGTGAGTCTTATCTCCATGTATCAGCTATGGAGCAGATTTTAGCCAACAGCCTTATCTCTCT
GAGGTAGCAAGAAAGCAGGTGGAAGATACAAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACT
GAAAATTACAGATCTTATCTCCATGTATCGGCTATGTAGCAGATCAGAAATGG
Found at i:42313994 original size:133 final size:133
Alignment explanation
Indices: 42313838--42314113 Score: 435
Period size: 133 Copynumber: 2.1 Consensus size: 133
42313828 AAATGGTGAG
* *
42313838 TCTTATCTCCATGTATCGACTATGGAGCAGATTTTAGCCACCGGCGTTATCTCTCTGAGGTAGCA
1 TCTTATCTCCATGTATCGACTATGGAACAGATTTTAGCCACCGGCCTTATCTCTCTGAGGTAGCA
** * * * *
42313903 AGAAAGCCGGTGGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGTAGACTGAAAATTAC
66 AGAAAGCAAGTCGAAGATACAACTCTTATCTTCCTGAGGTAGCAAAGAAGCAGACTGAAAATTAC
42313968 AGA
131 AGA
* * *
42313971 TCTTATCTCTATGTATCGGCTATGGAACAGATTTTAGCCACCTGCCTTATCTCTCTGAGGTAGCA
1 TCTTATCTCCATGTATCGACTATGGAACAGATTTTAGCCACCGGCCTTATCTCTCTGAGGTAGCA
*
42314036 AGAAAGCAAGTCGAAGATACAACTCTTATCTTCCTGAGGTAGCAAAGAAGCAGACTGAAAATTTC
66 AGAAAGCAAGTCGAAGATACAACTCTTATCTTCCTGAGGTAGCAAAGAAGCAGACTGAAAATTAC
42314101 AGA
131 AGA
*
42314104 TATTATCTCC
1 TCTTATCTCC
42314114 CTAAGCAGTA
Statistics
Matches: 129, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
133 129 1.00
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (133 bp):
TCTTATCTCCATGTATCGACTATGGAACAGATTTTAGCCACCGGCCTTATCTCTCTGAGGTAGCA
AGAAAGCAAGTCGAAGATACAACTCTTATCTTCCTGAGGTAGCAAAGAAGCAGACTGAAAATTAC
AGA
Found at i:42314133 original size:44 final size:44
Alignment explanation
Indices: 42314084--42314568 Score: 180
Period size: 44 Copynumber: 11.0 Consensus size: 44
42314074 GTAGCAAAGA
*
42314084 AGCAGACTGAAAATTTCAGATATTATCTCCCTAAGCAGTAGTGG
1 AGCAGACTGAAAATTTCAGATCTTATCTCCCTAAGCAGTAGTGG
*** * * * ** *
42314128 AGCAGA-TCGAAGACGATGAG-CCTTAT-TCCCCTAAGTAGTAAAGT
1 AGCAGACT-GAA-AATTTCAGATCTTATCT-CCCTAAGCAGTAGTGG
* * * * *
42314172 AACAGGCTGAAGATTACAGATCTTATCTCCCTAAGTAGTAGTGG
1 AGCAGACTGAAAATTTCAGATCTTATCTCCCTAAGCAGTAGTGG
* * * * * * * *
42314216 AGCGGATTGAAGACA-GTGAG-CCTTAACCCCCTAAGTAGTAG-GG
1 AGCAGACTGAA-A-ATTTCAGATCTTATCTCCCTAAGCAGTAGTGG
* * * *
42314259 TAACAGGCTGAAAATTACAGATCTTATCTCCTTAAGCAGTAGTGG
1 -AGCAGACTGAAAATTTCAGATCTTATCTCCCTAAGCAGTAGTGG
* * * * * *
42314304 AGCAGA-TCGAAGACA-GTGAG-CCTTAAC-CCCTATAAGCAGTAGAGT
1 AGCAGACT-GAA-A-ATTTCAGATCTTATCTCCC--TAAGCAGTAGTGG
** * *
42314349 AATAGGCTGAAAATTTCAGATCTTATTTCCCTAAGCAGTAGTGG
1 AGCAGACTGAAAATTTCAGATCTTATCTCCCTAAGCAGTAGTGG
* * * * *
42314393 AGCA-AATCGAAGACA-GTGAG-CCTTAACTCCCTAAGCAGTAG-GG
1 AGCAGACT-GAA-A-ATTTCAGATCTTATCTCCCTAAGCAGTAGTGG
* * *
42314436 TAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGG
1 -AGCAGACTGAAAATTTCAGATCTTATCTCCCTAAGCAGTAGTGG
* * * *
42314481 AGCAGA-TCGAAGACA-GTGAG-CCTTATCCCCCTAAGCAGTAG-GG
1 AGCAGACT-GAA-A-ATTTCAGATCTTATCTCCCTAAGCAGTAGTGG
* * * *
42314524 AAACAGGCTTG-AAATTACAGATCATATCTCCCTAAGCAGTAGTGG
1 -AGCAGAC-TGAAAATTTCAGATCTTATCTCCCTAAGCAGTAGTGG
42314569 CTCAAATTGA
Statistics
Matches: 306, Mismatches: 97, Indels: 75
0.64 0.20 0.16
Matches are distributed among these distances:
42 3 0.01
43 25 0.08
44 222 0.73
45 47 0.15
46 9 0.03
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (44 bp):
AGCAGACTGAAAATTTCAGATCTTATCTCCCTAAGCAGTAGTGG
Found at i:42314198 original size:88 final size:87
Alignment explanation
Indices: 42314090--42314568 Score: 692
Period size: 88 Copynumber: 5.4 Consensus size: 87
42314080 AAGAAGCAGA
* *
42314090 CTGAAAATTTCAGATATTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAC-GATGAGCCTTAT
1 CTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAG-TGAGCCTTA-
* * **
42314154 TCCCCTAAGTAGTAAAGTAACAGG
64 ACCCCTAAGCAGTAGGGTAACAGG
* * * *
42314178 CTGAAGATTACAGATCTTATCTCCCTAAGTAGTAGTGGAGCGGATTGAAGACAGTGAGCCTTAAC
1 CTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAA-
*
42314243 CCCCTAAGTAGTAGGGTAACAGG
65 CCCCTAAGCAGTAGGGTAACAGG
*
42314266 CTGAAAATTACAGATCTTATCTCCTTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAAC
1 CTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAAC
* *
42314331 CCCTATAAGCAGTAGAGTAATAGG
66 CCC--TAAGCAGTAGGGTAACAGG
* * *
42314355 CTGAAAATTTCAGATCTTATTTCCCTAAGCAGTAGTGGAGCAAATCGAAGACAGTGAGCCTTAAC
1 CTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAAC
42314420 TCCCTAAGCAGTAGGGTAACAGG
66 -CCCTAAGCAGTAGGGTAACAGG
*
42314443 CTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTATC
1 CTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTA-A
*
42314508 CCCCTAAGCAGTAGGGAAACAGG
65 CCCCTAAGCAGTAGGGTAACAGG
*
42314531 CTTG-AAATTACAGATCATATCTCCCTAAGCAGTAGTGG
1 C-TGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGG
42314569 CTCAAATTGA
Statistics
Matches: 355, Mismatches: 29, Indels: 14
0.89 0.07 0.04
Matches are distributed among these distances:
87 4 0.01
88 267 0.75
89 81 0.23
90 3 0.01
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (87 bp):
CTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAAC
CCCTAAGCAGTAGGGTAACAGG
Found at i:42314416 original size:177 final size:175
Alignment explanation
Indices: 42314090--42314568 Score: 719
Period size: 177 Copynumber: 2.7 Consensus size: 175
42314080 AAGAAGCAGA
* *
42314090 CTGAAAATTTCAGATATTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAC-GATGAGCCTTAT
1 CTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAG-TGAGCCTTA-
* * * *
42314154 TCCCCTAAGTAGTAAAGTAACAGGCTGAAGATTACAGATCTTATCTCCCTAAGTAGTAGTGGAGC
64 TCCCCTAAGCAGTAGAGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGC
** * *
42314219 GGATTGAAGACAGTGAGCCTTAACCCCCTAAGTAGTAGGGTAACAGG
129 AAATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGG
* *
42314266 CTGAAAATTACAGATCTTATCTCCTTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAAC
1 CTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTATC
* * *
42314331 CCCTATAAGCAGTAGAGTAATAGGCTGAAAATTTCAGATCTTATTTCCCTAAGCAGTAGTGGAGC
66 CCC--TAAGCAGTAGAGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGC
*
42314396 AAATCGAAGACAGTGAGCCTTAACTCCCTAAGCAGTAGGGTAACAGG
129 AAATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGG
42314443 CTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTATC
1 CTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAT-
* * *
42314508 CCCCTAAGCAGTAGGGAAACAGGCTTG-AAATTACAGATCATATCTCCCTAAGCAGTAGTGG
65 CCCCTAAGCAGTAGAGTAACAGGC-TGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGG
42314569 CTCAAATTGA
Statistics
Matches: 274, Mismatches: 24, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
175 4 0.01
176 106 0.39
177 160 0.58
178 4 0.01
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (175 bp):
CTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTATC
CCCTAAGCAGTAGAGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAA
ATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGG
Found at i:42314495 original size:265 final size:265
Alignment explanation
Indices: 42314090--42314568 Score: 766
Period size: 265 Copynumber: 1.8 Consensus size: 265
42314080 AAGAAGCAGA
* *
42314090 CTGAAAATTTCAGATATTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGATGAGCCTTATT
1 CTGAAAATTTCAGATATTATCTCCCTAAGCAGTAGTGGAGCAAATCGAAGACGATGAGCCTTACT
* * * *
42314155 CCCCTAAGTAGTAAAGTAACAGGCTGAAGATTACAGATCTTATCTCCCTAAGTAGTAGTGGAGCG
66 CCCCTAAGCAGTAAAGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCA
* * * *
42314220 GATTGAAGACAGTGAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGC-TGAAAATTACAGATCTT
131 GATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTTG-AAATTACAGATCAT
*
42314284 ATCTCCTTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCTATAAGCAGTAGAGT
195 ATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCTATAAGCAGTAGAGT
42314349 AATAGG
260 AATAGG
* *
42314355 CTGAAAATTTCAGATCTTATTTCCCTAAGCAGTAGTGGAGCAAATCGAAGAC-AGTGAGCCTTAA
1 CTGAAAATTTCAGATATTATCTCCCTAAGCAGTAGTGGAGCAAATCGAAGACGA-TGAGCCTT-A
**
42314419 CT-CCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAG
64 CTCCCCTAAGCAGTAAAGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAG
*
42314483 CAGATCGAAGACAGTGAGCCTTATCCCCCTAAGCAGTAGGGAAACAGGCTTGAAATTACAGATCA
129 CAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTTGAAATTACAGATCA
42314548 TATCTCCCTAAGCAGTAGTGG
194 TATCTCCCTAAGCAGTAGTGG
42314569 CTCAAATTGA
Statistics
Matches: 195, Mismatches: 16, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
264 1 0.01
265 190 0.97
266 4 0.02
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (265 bp):
CTGAAAATTTCAGATATTATCTCCCTAAGCAGTAGTGGAGCAAATCGAAGACGATGAGCCTTACT
CCCCTAAGCAGTAAAGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCA
GATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTTGAAATTACAGATCATA
TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCTATAAGCAGTAGAGTA
ATAGG
Found at i:42315540 original size:44 final size:43
Alignment explanation
Indices: 42315462--42315617 Score: 135
Period size: 44 Copynumber: 3.6 Consensus size: 43
42315452 TTATTGCTAT
* * *
42315462 TATTATTATGTTTCTATTTA-TATTTATTTTTTTATTCTAATAC
1 TATTATTATATTTCTAATTATTATTTATTTATTTATT-TAATAC
* **
42315505 TATTATTAT-TTATCTAATTATTATTTATCTATTTATATTTCTAC
1 TATTATTATATT-TCTAATTATTATTTATTTATTTAT-TTAATAC
*
42315549 TATTATTATATTTCTATTTATTATATT-TTTATTTCTATTTATATAC
1 TATTATTATATTTCTAATTATTAT-TTATTTA-TT-TATTTA-ATAC
*
42315595 TAATATTAT-TTTC--ATTATTATTT
1 TATTATTATATTTCTAATTATTATTT
42315618 TTCTTATATA
Statistics
Matches: 94, Mismatches: 11, Indels: 17
0.77 0.09 0.14
Matches are distributed among these distances:
42 4 0.04
43 23 0.24
44 40 0.43
45 13 0.14
46 14 0.15
ACGTcount: A:0.28, C:0.07, G:0.01, T:0.64
Consensus pattern (43 bp):
TATTATTATATTTCTAATTATTATTTATTTATTTATTTAATAC
Found at i:42315553 original size:87 final size:86
Alignment explanation
Indices: 42315448--42315617 Score: 215
Period size: 87 Copynumber: 2.0 Consensus size: 86
42315438 ACTAATTTAA
* * *
42315448 TATTTTATTGCTATTATTATTATGTTTCTATTTA-TAT-TTATTT-TTT-TATTCTA-ATACTAT
1 TATTTTATTGCTACTATTATTATATTTCTATTTATTATATT-TTTATTTCTATT-TATATACTAA
42315508 TATTATTTATCTAATTATTATTTATC
64 TATTATTT-TC--ATTATTATTTATC
*
42315534 TATTTATATTTCTACTATTATTATATTTCTATTTATTATATTTTTATTTCTATTTATATACTAAT
1 TATTT-TATTGCTACTATTATTATATTTCTATTTATTATATTTTTATTTCTATTTATATACTAAT
42315599 ATTATTTTCATTATTATTT
65 ATTATTTTCATTATTATTT
42315618 TTCTTATATA
Statistics
Matches: 74, Mismatches: 4, Indels: 11
0.83 0.04 0.12
Matches are distributed among these distances:
86 5 0.07
87 36 0.49
88 6 0.08
89 9 0.12
90 18 0.24
ACGTcount: A:0.28, C:0.07, G:0.01, T:0.64
Consensus pattern (86 bp):
TATTTTATTGCTACTATTATTATATTTCTATTTATTATATTTTTATTTCTATTTATATACTAATA
TTATTTTCATTATTATTTATC
Found at i:42315557 original size:17 final size:15
Alignment explanation
Indices: 42315464--42315582 Score: 74
Period size: 15 Copynumber: 8.1 Consensus size: 15
42315454 ATTGCTATTA
*
42315464 TTATTATGTTTCTAT
1 TTATTATATTTCTAT
*
42315479 TTATATTTATTT-T-T
1 TTAT-TATATTTCTAT
* * *
42315493 TTATTCTAATACTA-
1 TTATTATATTTCTAT
*
42315507 TTATTAT-TTATCTAA
1 TTATTATATT-TCTAT
42315522 TTATTAT-TTATCTA-
1 TTATTATATT-TCTAT
42315536 -T-TTATATTTCTACT
1 TTATTATATTTCTA-T
42315550 ATTATTATATTTCTAT
1 -TTATTATATTTCTAT
*
42315566 TTATTATATTTTTAT
1 TTATTATATTTCTAT
42315581 TT
1 TT
42315583 CTATTTATAT
Statistics
Matches: 84, Mismatches: 9, Indels: 22
0.73 0.08 0.19
Matches are distributed among these distances:
12 8 0.10
13 8 0.10
14 15 0.18
15 35 0.42
16 7 0.08
17 11 0.13
ACGTcount: A:0.27, C:0.07, G:0.01, T:0.66
Consensus pattern (15 bp):
TTATTATATTTCTAT
Found at i:42315581 original size:29 final size:30
Alignment explanation
Indices: 42315459--42315572 Score: 101
Period size: 29 Copynumber: 3.9 Consensus size: 30
42315449 ATTTTATTGC
*
42315459 TATTATTATTATGTTTCTATTTA-TATTTA
1 TATTATTATTATATTTCTATTTATTATTTA
* * * * *
42315488 TTTTTTTATTCTAATACTA-TTATTATTTA
1 TATTATTATTATATTTCTATTTATTATTTA
* * *
42315517 TCTAATTATTAT-TTATCTATTTA-TATTTC
1 TATTATTATTATATT-TCTATTTATTATTTA
*
42315546 TACTATTATTATATTTCTATTTATTAT
1 TATTATTATTATATTTCTATTTATTAT
42315573 ATTTTTATTT
Statistics
Matches: 64, Mismatches: 16, Indels: 9
0.72 0.18 0.10
Matches are distributed among these distances:
28 4 0.06
29 52 0.81
30 8 0.12
ACGTcount: A:0.28, C:0.07, G:0.01, T:0.64
Consensus pattern (30 bp):
TATTATTATTATATTTCTATTTATTATTTA
Found at i:42315780 original size:25 final size:25
Alignment explanation
Indices: 42315725--42315781 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
42315715 CGCTCAATTC
* *
42315725 AAATTTTTATACATTATTTACTTTA
1 AAATTTTCATACATTATGTACTTTA
* *
42315750 ATATTTTCATATATTATGTA-TTTCA
1 AAATTTTCATACATTATGTACTTT-A
42315775 AAATTTT
1 AAATTTT
42315782 TTTTACACAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 3 0.12
25 23 0.88
ACGTcount: A:0.35, C:0.07, G:0.02, T:0.56
Consensus pattern (25 bp):
AAATTTTCATACATTATGTACTTTA
Found at i:42319265 original size:31 final size:31
Alignment explanation
Indices: 42319211--42319287 Score: 84
Period size: 31 Copynumber: 2.5 Consensus size: 31
42319201 CATATATATA
* *
42319211 CTAAATAAAATAATAAAATAATAATAAACAT
1 CTAATTAAAATATTAAAATAATAATAAACAT
* **
42319242 CTTATTAAAATATT-AAATAAATAATAATTAT
1 CTAATTAAAATATTAAAAT-AATAATAAACAT
*
42319273 CTAATTAAAAAATTA
1 CTAATTAAAATATTA
42319288 TAAAATATCA
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
30 4 0.11
31 33 0.89
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (31 bp):
CTAATTAAAATATTAAAATAATAATAAACAT
Found at i:42319296 original size:23 final size:23
Alignment explanation
Indices: 42319253--42319296 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
42319243 TTATTAAAAT
*
42319253 ATTAAATAAATAATAATTATCTA
1 ATTAAATAAATAATAAATATCTA
*
42319276 ATTAAA-AAATTATAAAATATC
1 ATTAAATAAATAAT-AAATATC
42319297 ACAAACATCA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (23 bp):
ATTAAATAAATAATAAATATCTA
Found at i:42321140 original size:46 final size:46
Alignment explanation
Indices: 42321087--42321290 Score: 231
Period size: 46 Copynumber: 4.5 Consensus size: 46
42321077 TGATGCTATA
* *
42321087 GTATCTTTCAACTATGGTCTTACTCATTTTC-TGTCAAGTT-TCCATG
1 GTATCTTTCAACCATGGTCTTA-TCATTTTCATGTCATGTTGT-CATG
* **
42321133 GTATCTTTCAACCATGGTC-T-TCATTTCCCCGTCATGTTGTCATG
1 GTATCTTTCAACCATGGTCTTATCATTTTCATGTCATGTTGTCATG
* ** *
42321177 GTATCTTTCAACCATGGTTTTATTCA-TTTCATGTCATGTTACCATA
1 GTATCTTTCAACCATGGTCTTA-TCATTTTCATGTCATGTTGTCATG
* *
42321223 GTATCTTTCAACCATGGTCTT-TCATATTTCATATCACGTTGTCATG
1 GTATCTTTCAACCATGGTCTTATCAT-TTTCATGTCATGTTGTCATG
42321269 GTATCTTTCAACCATGGTCTTA
1 GTATCTTTCAACCATGGTCTTA
42321291 CACATTTGAA
Statistics
Matches: 133, Mismatches: 17, Indels: 15
0.81 0.10 0.09
Matches are distributed among these distances:
43 7 0.05
44 32 0.24
45 3 0.02
46 88 0.66
47 3 0.02
ACGTcount: A:0.21, C:0.23, G:0.13, T:0.44
Consensus pattern (46 bp):
GTATCTTTCAACCATGGTCTTATCATTTTCATGTCATGTTGTCATG
Found at i:42321240 original size:90 final size:92
Alignment explanation
Indices: 42321087--42321297 Score: 284
Period size: 90 Copynumber: 2.3 Consensus size: 92
42321077 TGATGCTATA
* * *
42321087 GTATCTTTCAACTATGGTCTTACTCATTTTCTGTCAAGTTTCCATGGTATCTTTCAACCATGGTC
1 GTATCTTTCAACCATGGTCTTACTCATTTTCTGTCAAGTTACCATAGTATCTTTCAACCATGGTC
* * *
42321152 -TTCAT-TTCCCCGTCATGTTGTCATG
66 TTTCATATTCCACATCACGTTGTCATG
* * *
42321177 GTATCTTTCAACCATGGTTTTATTCA-TTTCATGTCATGTTACCATAGTATCTTTCAACCATGGT
1 GTATCTTTCAACCATGGTCTTACTCATTTTC-TGTCAAGTTACCATAGTATCTTTCAACCATGGT
* *
42321241 CTTTCATATTTCATATCACGTTGTCATG
65 CTTTCATATTCCACATCACGTTGTCATG
*
42321269 GTATCTTTCAACCATGGTCTTACACATTT
1 GTATCTTTCAACCATGGTCTTACTCATTT
42321298 GAATCGCGAT
Statistics
Matches: 103, Mismatches: 14, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
89 4 0.04
90 54 0.52
91 5 0.05
92 38 0.37
93 2 0.02
ACGTcount: A:0.21, C:0.23, G:0.13, T:0.44
Consensus pattern (92 bp):
GTATCTTTCAACCATGGTCTTACTCATTTTCTGTCAAGTTACCATAGTATCTTTCAACCATGGTC
TTTCATATTCCACATCACGTTGTCATG
Found at i:42332854 original size:25 final size:25
Alignment explanation
Indices: 42332820--42332880 Score: 122
Period size: 25 Copynumber: 2.4 Consensus size: 25
42332810 ATACACCTTT
42332820 TAAAATATTTTCACTATTTTAAATA
1 TAAAATATTTTCACTATTTTAAATA
42332845 TAAAATATTTTCACTATTTTAAATA
1 TAAAATATTTTCACTATTTTAAATA
42332870 TAAAATATTTT
1 TAAAATATTTT
42332881 TATATAAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (25 bp):
TAAAATATTTTCACTATTTTAAATA
Found at i:42335168 original size:30 final size:29
Alignment explanation
Indices: 42335134--42335195 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 29
42335124 AAGTTTTGGT
*
42335134 CTGTACTTTTTGTA-TTGGTCAATTTTAGTC
1 CTGTAATTTTT-TACTTGGT-AATTTTAGTC
*
42335164 CTGTAATTTTTTACTTTTGTAATTTTAGTC
1 CTGTAATTTTTTAC-TTGGTAATTTTAGTC
42335194 CT
1 CT
42335196 AACCCAAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 2 0.07
30 22 0.79
31 4 0.14
ACGTcount: A:0.18, C:0.13, G:0.13, T:0.56
Consensus pattern (29 bp):
CTGTAATTTTTTACTTGGTAATTTTAGTC
Found at i:42337489 original size:59 final size:60
Alignment explanation
Indices: 42337396--42337510 Score: 214
Period size: 59 Copynumber: 1.9 Consensus size: 60
42337386 AGATATTGTT
42337396 GTACTAATACTATGATATAAATATAAAGATAAATCCAGTGTCAACATTTGAATTTTAGCA
1 GTACTAATACTATGATATAAATATAAAGATAAATCCAGTGTCAACATTTGAATTTTAGCA
*
42337456 GTACT-ATACTATGATATAAATATAAAGATAAATCTAGTGTCAACATTTGAATTTT
1 GTACTAATACTATGATATAAATATAAAGATAAATCCAGTGTCAACATTTGAATTTT
42337511 TGCATTTTAC
Statistics
Matches: 54, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
59 49 0.91
60 5 0.09
ACGTcount: A:0.43, C:0.10, G:0.11, T:0.36
Consensus pattern (60 bp):
GTACTAATACTATGATATAAATATAAAGATAAATCCAGTGTCAACATTTGAATTTTAGCA
Found at i:42339394 original size:23 final size:24
Alignment explanation
Indices: 42339362--42339422 Score: 63
Period size: 23 Copynumber: 2.6 Consensus size: 24
42339352 GTTTATAGTG
42339362 TTTATATTTTTTTAAAATTTAAAA-
1 TTTA-ATTTTTTTAAAATTTAAAAT
* * **
42339386 TTTAGTTTTTAT-ATTTTTAAAAT
1 TTTAATTTTTTTAAAATTTAAAAT
42339409 TTTAATTTTTTTAA
1 TTTAATTTTTTTAA
42339423 TTTTAGATTA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
22 8 0.28
23 16 0.55
24 5 0.17
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (24 bp):
TTTAATTTTTTTAAAATTTAAAAT
Found at i:42343991 original size:15 final size:15
Alignment explanation
Indices: 42343967--42343998 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
42343957 TATGCATGCA
*
42343967 AAATAGAAAAGACAT
1 AAATACAAAAGACAT
42343982 AAATACAAAAGACAT
1 AAATACAAAAGACAT
42343997 AA
1 AA
42343999 TAATGAATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.09, T:0.12
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:42346327 original size:32 final size:33
Alignment explanation
Indices: 42346253--42346327 Score: 77
Period size: 32 Copynumber: 2.4 Consensus size: 33
42346243 TCTTTATGTT
* *
42346253 TTATTTCTT-TTATTCTTTTTTATTATATTATA
1 TTATTTCTTATTATTCTTTTATATTATATAATA
* *
42346285 TCA-TTATTATTATAT-TTTTATATTATA-AATA
1 TTATTTCTTATTAT-TCTTTTATATTATATAATA
42346316 TTATTTCTTATT
1 TTATTTCTTATT
42346328 TAATAAGTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
31 9 0.26
32 24 0.71
33 1 0.03
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (33 bp):
TTATTTCTTATTATTCTTTTATATTATATAATA
Found at i:42348006 original size:37 final size:35
Alignment explanation
Indices: 42347958--42348034 Score: 84
Period size: 37 Copynumber: 2.1 Consensus size: 35
42347948 AGAAAATATG
42347958 AAAAAAAGAAAATTCATA-AAAATTAAAAAAAATTA
1 AAAAAAAGAAAATTCATATAAAATT-AAAAAAATTA
* * *
42347993 AAAAAATATGAAAATTGATATAAACTTATAAAAATTA
1 AAAAAA-A-GAAAATTCATATAAAATTAAAAAAATTA
*
42348030 TAAAA
1 AAAAA
42348035 TTAATAAAAC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
35 6 0.17
36 1 0.03
37 23 0.66
38 5 0.14
ACGTcount: A:0.69, C:0.03, G:0.04, T:0.25
Consensus pattern (35 bp):
AAAAAAAGAAAATTCATATAAAATTAAAAAAATTA
Found at i:42348032 original size:9 final size:9
Alignment explanation
Indices: 42347966--42348152 Score: 67
Period size: 10 Copynumber: 19.3 Consensus size: 9
42347956 TGAAAAAAAG
42347966 AAAATTCATA
1 AAAATT-ATA
*
42347976 AAAATTAAAA
1 AAAATT-ATA
42347986 AAAATTA-A
1 AAAATTATA
* *
42347994 AAAAATATG
1 AAAATTATA
42348003 AAAATTGATA
1 AAAATT-ATA
*
42348013 TAAACTTATA
1 -AAAATTATA
42348023 AAAATTAT-
1 AAAATTATA
42348031 AAAATTAATA
1 AAAATT-ATA
*
42348041 AAACATATTTA
1 AAA-AT-TATA
42348052 AAATATT-TA
1 AAA-ATTATA
*
42348061 AAATTTTATA
1 AAA-ATTATA
*
42348071 AAAACATATTA
1 AAAA-TTA-TA
* *
42348082 AAATTCTACA
1 AAAAT-TATA
*
42348092 AAAATAATAAA
1 AAAAT--TATA
*
42348103 AAAATTGTAA
1 AAAATTAT-A
42348113 AAAATTAT-
1 AAAATTATA
* *
42348121 AAAAGTATT
1 AAAATTATA
42348130 AAAATTGATA
1 AAAATT-ATA
*
42348140 TAAACTTATA
1 -AAAATTATA
42348150 AAA
1 AAA
42348153 TAAAATAAAA
Statistics
Matches: 135, Mismatches: 26, Indels: 33
0.70 0.13 0.17
Matches are distributed among these distances:
8 20 0.15
9 32 0.24
10 48 0.36
11 34 0.25
12 1 0.01
ACGTcount: A:0.62, C:0.04, G:0.03, T:0.32
Consensus pattern (9 bp):
AAAATTATA
Found at i:42348105 original size:21 final size:21
Alignment explanation
Indices: 42348081--42348124 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
42348071 AAAACATATT
42348081 AAAATTCTACAAAAATAATAAA
1 AAAATTCTA-AAAAATAATAAA
* *
42348103 AAAATTGTAAAAAATTATAAA
1 AAAATTCTAAAAAATAATAAA
42348124 A
1 A
42348125 GTATTAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.25
Consensus pattern (21 bp):
AAAATTCTAAAAAATAATAAA
Found at i:42348628 original size:18 final size:19
Alignment explanation
Indices: 42348597--42348632 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
42348587 CAATTTGAAT
42348597 ATTTTTATAGTATTTTTAC
1 ATTTTTATAGTATTTTTAC
*
42348616 ATTTTT-TATTATTTTTA
1 ATTTTTATAGTATTTTTA
42348633 AGAATTCTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.69
Consensus pattern (19 bp):
ATTTTTATAGTATTTTTAC
Found at i:42348708 original size:8 final size:8
Alignment explanation
Indices: 42348697--42348748 Score: 59
Period size: 8 Copynumber: 6.1 Consensus size: 8
42348687 TTGTAATTTT
42348697 TTTTATAA
1 TTTTATAA
42348705 TTTTATAA
1 TTTTATAA
42348713 TTTTATAA
1 TTTTATAA
*
42348721 TATTTACAA
1 T-TTTATAA
42348730 GTTTTTATAA
1 --TTTTATAA
*
42348740 TTTTTTAA
1 TTTTATAA
42348748 T
1 T
42348749 AATTTTAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
8 25 0.66
9 6 0.16
10 6 0.16
11 1 0.03
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (8 bp):
TTTTATAA
Found at i:42348708 original size:10 final size:9
Alignment explanation
Indices: 42348696--42348857 Score: 86
Period size: 10 Copynumber: 17.8 Consensus size: 9
42348686 TTTGTAATTT
42348696 TTTTTATAA
1 TTTTTATAA
42348705 -TTTTATAA
1 TTTTTATAA
42348713 -TTTTATAA
1 TTTTTATAA
* *
42348721 TATTTACAA
1 TTTTTATAA
42348730 GTTTTTATAA
1 -TTTTTATAA
42348740 TTTTTTAATAA
1 -TTTTT-ATAA
*
42348751 TTTTAATAA
1 TTTTTATAA
*
42348760 GTTTATATCAA
1 -TTTTTAT-AA
* *
42348771 TGTTAAT-A
1 TTTTTATAA
*
42348779 TTTTTAAAA
1 TTTTTATAA
*
42348788 TTTTTAAAA
1 TTTTTATAA
42348797 TTTTTA-AGCA
1 TTTTTATA--A
*
42348807 TATTTA-AA
1 TTTTTATAA
*
42348815 ATTTT-T-A
1 TTTTTATAA
42348822 TTTTTATAA
1 TTTTTATAA
*
42348831 TTTTTTCTAA
1 -TTTTTATAA
*
42348841 TTTTTAATCA
1 TTTTT-ATAA
42348851 TTTTTAT
1 TTTTTAT
42348858 GGAAAAAATG
Statistics
Matches: 119, Mismatches: 21, Indels: 26
0.72 0.13 0.16
Matches are distributed among these distances:
7 5 0.04
8 27 0.23
9 34 0.29
10 47 0.39
11 6 0.05
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.59
Consensus pattern (9 bp):
TTTTTATAA
Found at i:42348799 original size:18 final size:19
Alignment explanation
Indices: 42348773--42348821 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
42348763 TATATCAATG
* *
42348773 TTAATATTTTTAA-AATTT
1 TTAAAATTTTTAAGAATAT
*
42348791 TTAAAATTTTTAAGCATAT
1 TTAAAATTTTTAAGAATAT
42348810 TTAAAATTTTTA
1 TTAAAATTTTTA
42348822 TTTTTATAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 12 0.44
19 15 0.56
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (19 bp):
TTAAAATTTTTAAGAATAT
Found at i:42349842 original size:27 final size:26
Alignment explanation
Indices: 42349801--42349853 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
42349791 ATAAACTCAT
*
42349801 TTTCAGATTCAAATATTTTTGAAAAAA
1 TTTCAGATTCAAATATTATT-AAAAAA
42349828 TTTCAGATTTC-AATATTATTAAAAAA
1 TTTCAGA-TTCAAATATTATTAAAAAA
42349854 GAAAAAGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 6 0.25
27 15 0.62
28 3 0.12
ACGTcount: A:0.45, C:0.08, G:0.06, T:0.42
Consensus pattern (26 bp):
TTTCAGATTCAAATATTATTAAAAAA
Found at i:42351845 original size:17 final size:18
Alignment explanation
Indices: 42351825--42351860 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
42351815 GAAAATAAAT
42351825 TATTAAAAAATA-AAAAA
1 TATTAAAAAATAGAAAAA
*
42351842 TATTAAAAATTAGAAAAA
1 TATTAAAAAATAGAAAAA
42351860 T
1 T
42351861 TGGTTCAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (18 bp):
TATTAAAAAATAGAAAAA
Found at i:42352058 original size:25 final size:24
Alignment explanation
Indices: 42352030--42352076 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
42352020 TTTTATATAT
*
42352030 ATTTAAAATGATTTTTTATTTTTGA
1 ATTTAAAAT-AATTTTTATTTTTGA
**
42352055 ATTTTTAATAATTTTTATTTTT
1 ATTTAAAATAATTTTTATTTTT
42352077 TTCCGTAACT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 12 0.63
25 7 0.37
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (24 bp):
ATTTAAAATAATTTTTATTTTTGA
Found at i:42376728 original size:30 final size:30
Alignment explanation
Indices: 42376692--42376752 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 30
42376682 TTTGAAAAAT
42376692 AGAAATT-AAAAGACTCAACTCAACTCTCGC
1 AGAAATTAAAAAG-CTCAACTCAACTCTCGC
*
42376722 AGAAATTAAAAAGCTCAACTCACCTCTCGC
1 AGAAATTAAAAAGCTCAACTCAACTCTCGC
42376752 A
1 A
42376753 ATATAAGTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 24 0.83
31 5 0.17
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.20
Consensus pattern (30 bp):
AGAAATTAAAAAGCTCAACTCAACTCTCGC
Found at i:42377029 original size:79 final size:79
Alignment explanation
Indices: 42376900--42377286 Score: 238
Period size: 77 Copynumber: 4.8 Consensus size: 79
42376890 GTGACCCGAG
* * * * * * * *
42376900 GCTCAACTCACATCTCACAATGTAAGTTAATTTTTTTGAAAAATATAAATTGAAAAAATACCTCA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAAAATACCTCA
* * * *
42376965 ATGTGTGATCTAAA
66 ACGCGTGAGCCAAA
* *
42376979 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATT--TAAAATAGCTCA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAAAATACCTCA
* *
42377042 GCGCGTGAGCCAAG
66 ACGCGTGAGCCAAA
* *
42377056 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTGAAAGGCAGAAATTGAAAAACAAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTTTGAAAGACAGAAATTG-AAAA-AATA
** * * * *
42377121 ATTGAAAATACCTTGGCGTGTAACCTGAG
61 CCT---CA-A-C---GCGTG-AGCC-AAA
* * * *
42377150 GCTCAACTCGCCTCTCACAATACGAGTTGATTTTTTTGACA-ACAGAAATTG---AAATGACCTC
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAAAAT-ACCTC
* * *
42377211 -A-GCGTG-TCCGGAG
65 AACGCGTGAGCC-AAA
* * *
42377224 GCTCAACTCACATCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAATTG--AAAATACCTCA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAAAATACCTCA
42377287 GCATGTTTTG
Statistics
Matches: 245, Mismatches: 42, Indels: 45
0.74 0.13 0.14
Matches are distributed among these distances:
74 41 0.17
75 14 0.06
76 9 0.04
77 48 0.20
79 43 0.18
80 20 0.08
81 1 0.00
83 2 0.01
84 4 0.02
85 2 0.01
86 3 0.01
87 1 0.00
89 1 0.00
90 9 0.04
91 10 0.04
92 5 0.02
93 3 0.01
94 29 0.12
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (79 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAAAATACCTCA
ACGCGTGAGCCAAA
Found at i:42377068 original size:77 final size:78
Alignment explanation
Indices: 42376875--42377336 Score: 251
Period size: 79 Copynumber: 5.8 Consensus size: 78
42376865 ACAGATTTTG
* ** * * * * * * *
42376875 AAAATACCTCGACATGTGACCCGAGGCTCAACTCACATCTCACAATGTAAGTTAATTTTTTTGAA
1 AAAATACCTCAACGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAA
* *
42376940 AAATATAAATTGAA
66 AAACAGAAATT-AA
* * * * *
42376954 AAAATACCTCAATGTGTGATCTAAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAA
1 AAAATACCTCAACGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAA
* *
42377019 AGACAGAAATT-T
66 AAACAGAAATTAA
* *
42377031 AAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTT
1 AAAATACCTCAACGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTTT
**
42377096 GAAAGGCAGAAATTGAAA
63 GAAAAACAGAAATT--AA
* ** * * * * * *
42377114 AACAAAAATTGAAAATACCTTGGCGTGTAACCTGAGGCTCAACTCGCCTCTCACAATACGAGTTG
1 AA-AATACCT---CA-A-C---GCGTG-AGCC-AAGGCTCAACTCACCTCTCGCAATATGAGTTG
*
42377179 ATTTTTTTG-ACAACAGAAATT--
55 ATTTTTTTGAAAAACAGAAATTAA
* * * *
42377200 GAAATGACCTC-A-GCGTG-TCCGGAGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTTTG
1 AAAAT-ACCTCAACGCGTGAGCC-AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
* *
42377262 AAAAATAGAAATT-G
64 AAAAACAGAAATTAA
* ***** ** *
42377276 AAAATACCTC-A-GCATGTTTTGAGGCTCAACTCATTTCTCACAATATGAGTTGATTTTTTTG
1 AAAATACCTCAACGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
42377337 TTATCGTGTC
Statistics
Matches: 304, Mismatches: 58, Indels: 46
0.75 0.14 0.11
Matches are distributed among these distances:
74 39 0.13
75 58 0.19
76 10 0.03
77 48 0.16
79 61 0.20
80 20 0.07
81 1 0.00
83 2 0.01
84 4 0.01
85 2 0.01
86 3 0.01
87 1 0.00
89 1 0.00
90 9 0.03
91 8 0.03
92 5 0.02
93 3 0.01
94 29 0.10
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.31
Consensus pattern (78 bp):
AAAATACCTCAACGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAA
AAACAGAAATTAA
Found at i:42377245 original size:74 final size:75
Alignment explanation
Indices: 42377108--42377336 Score: 264
Period size: 75 Copynumber: 3.0 Consensus size: 75
42377098 AAGGCAGAAA
* ** * * * * *
42377108 TTGAAAAACAAAAATTGAAAATACCTTGGCGTGTAACCTGAGGCTCAACTCGCCTCTCACAATAC
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATGT--CCGGAGGCTCAACTCACATCTCACAATAT
42377173 GAGTTGATTTTT
64 GAGTTGATTTTT
* * *
42377185 TTG-ACAACAGAAATTG-AAATGACCTCAGCGTGTCCGGAGGCTCAACTCACATCTCGCAATATG
1 TTGAAAAACAGAAATTGAAAAT-ACCTCAGCATGTCCGGAGGCTCAACTCACATCTCACAATATG
42377248 AGTTGATTTTT
65 AGTTGATTTTT
* *** **
42377259 TTGAAAAATAGAAATTGAAAATACCTCAGCATGTTTTGAGGCTCAACTCATTTCTCACAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCCGGAGGCTCAACTCACATCTCACAATATGA
42377324 GTTGATTTTT
66 GTTGATTTTT
42377334 TTG
1 TTG
42377337 TTATCGTGTC
Statistics
Matches: 131, Mismatches: 18, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
74 39 0.30
75 64 0.49
76 25 0.19
77 3 0.02
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.31
Consensus pattern (75 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCCGGAGGCTCAACTCACATCTCACAATATGA
GTTGATTTTT
Found at i:42377490 original size:127 final size:127
Alignment explanation
Indices: 42377337--42377922 Score: 574
Period size: 127 Copynumber: 4.4 Consensus size: 127
42377327 GATTTTTTTG
42377337 TTATCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTA
1 TTATCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTA
42377402 AAAGATTCAACCCATCTCTTGCAATATTAGTTGATTCTTGACAAACAAAAATTGAGATGACC
66 AAAGATTCAACCCATCTCTTGCAATATTAGTTGATTCTTGACAAACAAAAATTGAGATGACC
42377464 TTATCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTA
1 TTATCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTA
*
42377529 AAAGATTCAACCCATCTCTTGCAATATTAGTTGATTCTTGACAAACAAAAATTGA-AT-AGC
66 AAAGATTCAACCCATCTCTTGCAATATTAGTTGATTCTTGACAAACAAAAATTGAGATGACC
* * * *
42377589 TCAGCGCGTGAGCC-AAGGCTCAACTCACCTCTCGCAATATGAG-TCGATTTTTTTTTG-AAAAG
1 TTA--TCGTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAGCT-GA-----TTTTGAAAAAG
* * *** * * * * * ** * * * *
42377651 CAGAAATTAAAAAACGAAAATTGAAAATACCTC-GGC-GTGTGACCTGAGGCTCAACTCGCCGCT
57 TAGAAATT--AAAA-G---ATTCAACCCATCTCTTGCAATATTAGTTGA---T--TCTTG--ACA
** *
42377714 CGCAATACGAGTTGACCAAAAATTGAGATGACC
109 AACAA-A--AATTG-----------AGATGACC
42377747 TTATCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTA
1 TTATCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTA
42377812 AAAGATTCAACCCATCTCTTGCAATATTAGTTGATTCTTGACAAACAAAAATTGAGATGACC
66 AAAGATTCAACCCATCTCTTGCAATATTAGTTGATTCTTGACAAACAAAAATTGAGATGACC
*
42377874 TTATCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 TTATCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
42377923 TTTTGAAAGG
Statistics
Matches: 367, Mismatches: 49, Indels: 86
0.73 0.10 0.17
Matches are distributed among these distances:
125 4 0.01
126 3 0.01
127 210 0.57
128 2 0.01
131 12 0.03
132 5 0.01
133 4 0.01
134 1 0.00
135 6 0.02
136 2 0.01
137 9 0.02
138 5 0.01
140 4 0.01
141 4 0.01
142 4 0.01
143 4 0.01
145 5 0.01
146 9 0.02
147 2 0.01
148 6 0.02
149 1 0.00
150 4 0.01
151 5 0.01
152 12 0.03
155 2 0.01
156 35 0.10
157 3 0.01
158 4 0.01
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (127 bp):
TTATCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTA
AAAGATTCAACCCATCTCTTGCAATATTAGTTGATTCTTGACAAACAAAAATTGAGATGACC
Found at i:42378070 original size:73 final size:73
Alignment explanation
Indices: 42377949--42378162 Score: 365
Period size: 73 Copynumber: 2.9 Consensus size: 73
42377939 TTGAAAAACG
* *
42377949 GAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATACGAGTTGATTT
1 GAAATTGAAATTACCTCAGCGTGT--CCTGAGGCTCAACTCGCCACTCGCAATACGAGTTGATTT
42378014 TTTGACAACA
64 TTTGACAACA
42378024 GAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCGCCACTCGCAATACGAGTTGATTTTT
1 GAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCGCCACTCGCAATACGAGTTGATTTTT
42378089 TGACAACA
66 TGACAACA
* * *
42378097 GAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 GAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCGCCACTCGCAATACGAGTTGATTTTT
42378162 T
66 T
42378163 TTTAAAGACA
Statistics
Matches: 134, Mismatches: 5, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
73 112 0.84
75 22 0.16
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.29
Consensus pattern (73 bp):
GAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCGCCACTCGCAATACGAGTTGATTTTT
TGACAACA
Found at i:42378334 original size:88 final size:88
Alignment explanation
Indices: 42378093--42378426 Score: 472
Period size: 88 Copynumber: 3.8 Consensus size: 88
42378083 ATTTTTTGAC
* * *
42378093 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
* * * * *
42378158 TTTTTTTTAAAGACAGAA-ATTGAAA
65 -TTCTTTCAAAAACATAATAATG-AA
* * * *
42378183 AACGGAAATTGAAAGTACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTG
1 AACAGAAATTGAAAATACCTCGGC--GTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
42378248 ATTCTTTCAAAAACATAATAATGAA
64 ATTCTTTCAAAAACATAATAATGAA
* *
42378273 AACAGAAATTGAAAATACCTCGGCGTGACTTGAGACTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
42378338 TCTTTCAAAAACATAATAATGAA
66 TCTTTCAAAAACATAATAATGAA
* *
42378361 GACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
1 AACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
42378426 T
66 T
42378427 TTGAAAAAGT
Statistics
Matches: 220, Mismatches: 21, Indels: 8
0.88 0.08 0.03
Matches are distributed among these distances:
88 122 0.55
90 58 0.26
91 3 0.01
92 37 0.17
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (88 bp):
AACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TCTTTCAAAAACATAATAATGAA
Found at i:42387143 original size:12 final size:12
Alignment explanation
Indices: 42387123--42387158 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
42387113 TCGGATATGC
*
42387123 AATGTATGAATG
1 AATGCATGAATG
42387135 AATGCATGAATG
1 AATGCATGAATG
42387147 AATGCATGAATG
1 AATGCATGAATG
42387159 TCAAATGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.42, C:0.06, G:0.25, T:0.28
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:42388640 original size:19 final size:19
Alignment explanation
Indices: 42388616--42388654 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
42388606 ATCCGGTTCC
42388616 TAAATAGATAGTTTATCAT
1 TAAATAGATAGTTTATCAT
42388635 TAAATAGATAGTTTATCAT
1 TAAATAGATAGTTTATCAT
42388654 T
1 T
42388655 GAAAAGGGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.41, C:0.05, G:0.10, T:0.44
Consensus pattern (19 bp):
TAAATAGATAGTTTATCAT
Found at i:42390875 original size:9 final size:9
Alignment explanation
Indices: 42390861--42390892 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
42390851 CAACGCTTTT
42390861 TTGCATTCA
1 TTGCATTCA
42390870 TTGCATTCA
1 TTGCATTCA
42390879 TTGCATTCA
1 TTGCATTCA
42390888 -TGCAT
1 TTGCAT
42390893 CGGCATTGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 5 0.22
9 18 0.78
ACGTcount: A:0.22, C:0.22, G:0.12, T:0.44
Consensus pattern (9 bp):
TTGCATTCA
Found at i:42392350 original size:42 final size:42
Alignment explanation
Indices: 42392291--42392375 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
42392281 ACATGTCGTG
42392291 TCTCCCTTCTATTTGAAGCCAATGCAACCTCCATACCCCAAA
1 TCTCCCTTCTATTTGAAGCCAATGCAACCTCCATACCCCAAA
42392333 TCTCCCTTCTATTTGAAGCCAATGCAACCTCCATACCCCAAA
1 TCTCCCTTCTATTTGAAGCCAATGCAACCTCCATACCCCAAA
42392375 T
1 T
42392376 GGTATGACGC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.28, C:0.38, G:0.07, T:0.27
Consensus pattern (42 bp):
TCTCCCTTCTATTTGAAGCCAATGCAACCTCCATACCCCAAA
Found at i:42396362 original size:41 final size:41
Alignment explanation
Indices: 42396305--42396387 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
42396295 GCAGAGCCCT
* *
42396305 AGAGGACAATGAACCTCTGAACTTTGACTTCCCAAATGAAG
1 AGAGGACAACGAACCTCTAAACTTTGACTTCCCAAATGAAG
42396346 AGAGGACAACGAACCTCTAAACTTTGACTTCCCAAATGAAG
1 AGAGGACAACGAACCTCTAAACTTTGACTTCCCAAATGAAG
42396387 A
1 A
42396388 TCTAATGTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.20
Consensus pattern (41 bp):
AGAGGACAACGAACCTCTAAACTTTGACTTCCCAAATGAAG
Found at i:42398973 original size:64 final size:64
Alignment explanation
Indices: 42398896--42399019 Score: 176
Period size: 64 Copynumber: 1.9 Consensus size: 64
42398886 TCATTCGTGA
* **
42398896 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTGGTTATTTGACATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGACATAAGCAT
* * * * *
42398960 CACATTTAGTTAGGATCATTTGATTCATTTCAATGATAGCGTCCTAATTATTTGGCATAA
1 CACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGACATAA
42399020 ACATAGTTAC
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
64 52 1.00
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (64 bp):
CACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGACATAAGCAT
Found at i:42399231 original size:44 final size:44
Alignment explanation
Indices: 42399083--42399392 Score: 226
Period size: 44 Copynumber: 7.1 Consensus size: 44
42399073 GTGGAATTGG
*
42399083 TGAATTCACAAG-CCTTAAACCCCTAAGCAGTAGGGTAACAGGC
1 TGAATTTACAAGACCTTAAACCCCTAAGCAGTAGGGTAACAGGC
* * * * *
42399126 TGAATTTACAA-ATCTTAACCCCCTAAGCAGTAAGGAAACA-GA
1 TGAATTTACAAGACCTTAAACCCCTAAGCAGTAGGGTAACAGGC
* * ** * *
42399168 TCGAAGATGA-TGGGCCTTAAAACCCTAAGCAGTAGGGTAACAGGC
1 T-GAA-TTTACAAGACCTTAAACCCCTAAGCAGTAGGGTAACAGGC
* * * *
42399213 TGAATTTACAAGATCTTAACCCCCTAAGCAGTAGGGAAACA-GA
1 TGAATTTACAAGACCTTAAACCCCTAAGCAGTAGGGTAACAGGC
** * *
42399256 TCGAA--GGCGATGAACCTTAAACCCTTAAGCAGTAGGGTAACAGGC
1 T-GAATTTAC-AAG-ACCTTAAACCCCTAAGCAGTAGGGTAACAGGC
* * * * *
42399301 TGAATTTACAAGATCTTAACCCCCTAAGCAGTAGGGAAATA-GA
1 TGAATTTACAAGACCTTAAACCCCTAAGCAGTAGGGTAACAGGC
** *
42399344 TCGAA--GGCGATGGACCTTAAACCCCTAAGCAGTAGGGTAACAGGC
1 T-GAATTTAC-A-AGACCTTAAACCCCTAAGCAGTAGGGTAACAGGC
42399389 TGAA
1 TGAA
42399393 AATTATAGAT
Statistics
Matches: 199, Mismatches: 52, Indels: 31
0.71 0.18 0.11
Matches are distributed among these distances:
42 4 0.02
43 46 0.23
44 140 0.70
45 8 0.04
46 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (44 bp):
TGAATTTACAAGACCTTAAACCCCTAAGCAGTAGGGTAACAGGC
Found at i:42399252 original size:88 final size:88
Alignment explanation
Indices: 42399095--42399392 Score: 501
Period size: 88 Copynumber: 3.4 Consensus size: 88
42399085 AATTCACAAG
* *
42399095 CCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAA-ATCTTAACCCCCTAAGCAGTAA
1 CCTTAAAACCCTAAGCAGTAGGGTAACAGGCTGAATTTACAAGATCTTAACCCCCTAAGCAGTAG
** *
42399159 GGAAACAGATCGAAGATGATGGG
66 GGAAACAGATCGAAGGCGATGGA
42399182 CCTTAAAACCCTAAGCAGTAGGGTAACAGGCTGAATTTACAAGATCTTAACCCCCTAAGCAGTAG
1 CCTTAAAACCCTAAGCAGTAGGGTAACAGGCTGAATTTACAAGATCTTAACCCCCTAAGCAGTAG
*
42399247 GGAAACAGATCGAAGGCGATGAA
66 GGAAACAGATCGAAGGCGATGGA
42399270 CCTT-AAACCCTTAAGCAGTAGGGTAACAGGCTGAATTTACAAGATCTTAACCCCCTAAGCAGTA
1 CCTTAAAACCC-TAAGCAGTAGGGTAACAGGCTGAATTTACAAGATCTTAACCCCCTAAGCAGTA
*
42399334 GGGAAATAGATCGAAGGCGATGGA
65 GGGAAACAGATCGAAGGCGATGGA
*
42399358 CCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAA
1 CCTTAAAACCCTAAGCAGTAGGGTAACAGGCTGAA
42399393 AATTATAGAT
Statistics
Matches: 199, Mismatches: 9, Indels: 5
0.93 0.04 0.02
Matches are distributed among these distances:
87 47 0.24
88 147 0.74
89 5 0.03
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (88 bp):
CCTTAAAACCCTAAGCAGTAGGGTAACAGGCTGAATTTACAAGATCTTAACCCCCTAAGCAGTAG
GGAAACAGATCGAAGGCGATGGA
Found at i:42400186 original size:12 final size:12
Alignment explanation
Indices: 42400171--42400218 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
42400161 TATTTATCTC
42400171 TTTATATTTATG
1 TTTATATTTATG
42400183 TTTATATTTTATG
1 TTTATA-TTTATG
** *
42400196 TATTATACATATC
1 T-TTATATTTATG
42400209 TTTATATTTA
1 TTTATATTTA
42400219 CACATGAACA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
12 13 0.45
13 11 0.38
14 5 0.17
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.62
Consensus pattern (12 bp):
TTTATATTTATG
Found at i:42400399 original size:22 final size:22
Alignment explanation
Indices: 42400371--42400412 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
42400361 TAACGTGCTA
* *
42400371 TTATTACTATTATTTTTATTTT
1 TTATTACCATTATTGTTATTTT
42400393 TTATTACCATTATTGTTATT
1 TTATTACCATTATTGTTATT
42400413 GTACTTATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.67
Consensus pattern (22 bp):
TTATTACCATTATTGTTATTTT
Done.