Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 161 of 216
Found at i:50538927 original size:209 final size:208
Alignment explanation
Indices: 50538565--50538982 Score: 764
Period size: 209 Copynumber: 2.0 Consensus size: 208
50538555 TAGAACACTT
*
50538565 AACCACTGAAGCATATATACATTTGTGTTAGATATTTACAGAAAAAAATAAATTATTCAAGGTGT
1 AACCACTAAAGCATATATACATTTGTGTTAGATATTTACAGAAAAAAATAAATTATTCAAGGTGT
*
50538630 TACAAATCTACCCTTAAAAGAAATTTCTACCTCGAAATTTACCTGATCAGAACAGACGAGGATTC
66 TACAAATCTACCCTTAAAAGAAATTTCTACCTCAAAATTTACCTGATCAGAACAGACGAGGATTC
*
50538695 TGCTGACGCATCGAGTCCTCAGGTTCCCACGTGGCTCCCTCAGTGCCATGATTCTGCCACAGAAC
131 TGCTGACGCATCGAGTCCTCAGGTTCCCACGTGGCTCCCTCAGTGCCATAATTCTGCCACAGAAC
50538760 CTTCACTAACGGG
196 CTTCACTAACGGG
* *
50538773 AACCACTAAAGCATCTATACATTTGTGTTAGATATTTATAGAAAAAAAATAAATTATTCAAGGTG
1 AACCACTAAAGCATATATACATTTGTGTTAGATATTTACAG-AAAAAAATAAATTATTCAAGGTG
*
50538838 TTACAAATCTACCCTTAAAAGAAATTTCTACCTCAAAATTTACCTTATCAGAACAGACGAGGATT
65 TTACAAATCTACCCTTAAAAGAAATTTCTACCTCAAAATTTACCTGATCAGAACAGACGAGGATT
*
50538903 CTGCTGACGCATCGAGTTCTCAGGTTCCCACGTGGCTCCCTCAGTGCCATAATTCTGCCACAGAA
130 CTGCTGACGCATCGAGTCCTCAGGTTCCCACGTGGCTCCCTCAGTGCCATAATTCTGCCACAGAA
50538968 CCTTCACTAACGGG
195 CCTTCACTAACGGG
50538982 A
1 A
50538983 TGGACTTCCT
Statistics
Matches: 202, Mismatches: 7, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
208 38 0.19
209 164 0.81
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (208 bp):
AACCACTAAAGCATATATACATTTGTGTTAGATATTTACAGAAAAAAATAAATTATTCAAGGTGT
TACAAATCTACCCTTAAAAGAAATTTCTACCTCAAAATTTACCTGATCAGAACAGACGAGGATTC
TGCTGACGCATCGAGTCCTCAGGTTCCCACGTGGCTCCCTCAGTGCCATAATTCTGCCACAGAAC
CTTCACTAACGGG
Found at i:50544532 original size:13 final size:13
Alignment explanation
Indices: 50544514--50544563 Score: 64
Period size: 13 Copynumber: 3.7 Consensus size: 13
50544504 ATTCCATCCC
50544514 AAATACAGATACA
1 AAATACAGATACA
* *
50544527 AAATACAGGTAGA
1 AAATACAGATACA
50544540 AAATACAGATACA
1 AAATACAGATACA
50544553 AGAATTACAGA
1 A-AA-TACAGA
50544564 CTTAACATGC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
13 23 0.74
14 2 0.06
15 6 0.19
ACGTcount: A:0.58, C:0.12, G:0.14, T:0.16
Consensus pattern (13 bp):
AAATACAGATACA
Found at i:50546123 original size:14 final size:14
Alignment explanation
Indices: 50546087--50546125 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
50546077 CCAGAACCCC
50546087 AAATCTTGAA-CTT
1 AAATCTTGAACCTT
* *
50546100 GAACCTTGAACCTT
1 AAATCTTGAACCTT
50546114 AAATCTTGAACC
1 AAATCTTGAACC
50546126 CCGATGTTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
13 8 0.38
14 13 0.62
ACGTcount: A:0.36, C:0.23, G:0.10, T:0.31
Consensus pattern (14 bp):
AAATCTTGAACCTT
Found at i:50546197 original size:21 final size:20
Alignment explanation
Indices: 50546173--50546214 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
50546163 AGGGTCTATG
50546173 GTTATGGGTTTAGGGTTACAT
1 GTTATGGGTTTAGGGTT-CAT
**
50546194 GTTATTTGTTTAGGGTTCAT
1 GTTATGGGTTTAGGGTTCAT
50546214 G
1 G
50546215 GTTTAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.17, C:0.05, G:0.31, T:0.48
Consensus pattern (20 bp):
GTTATGGGTTTAGGGTTCAT
Found at i:50549095 original size:134 final size:134
Alignment explanation
Indices: 50548855--50549388 Score: 897
Period size: 134 Copynumber: 4.0 Consensus size: 134
50548845 GAAAACTCAA
*
50548855 AGAATTTTTCCCAAAATTTTAAAATTTTCCTTAGGTGCAAGGGACATACGCCCGTGTGGCCAGGC
1 AGAATTTTTCCCAAAATTTTAAAATTTTCCTTAGGTGCAAGGGACACACGCCCGTGTGGCCAGGC
50548920 CGTGTGGTTCACATGGCCGAGAGGCACGCCCGTGTCTTAGGCCGTGTGGGCATTCGATGTGAGGC
66 CGTGTGGTTCACATGGCCGAGAGGCACGCCCGTGTCTTAGGCCGTGTGGGCATTCGATGTGAGGC
50548985 ACGG
131 ACGG
* *
50548989 AGAATTTTTCCCAAAATATTAAAATTTTCCTTAGGTGCAAGGGACATACGCCCGTGTGGCCAGGC
1 AGAATTTTTCCCAAAATTTTAAAATTTTCCTTAGGTGCAAGGGACACACGCCCGTGTGGCCAGGC
* ** *
50549054 CTTGTGGTTCACATGGCTAAAAGGCACGCCCGTGTCTTAGGCCGTGTGGGCATTCGATGTGAGGC
66 CGTGTGGTTCACATGGCCGAGAGGCACGCCCGTGTCTTAGGCCGTGTGGGCATTCGATGTGAGGC
50549119 ACGG
131 ACGG
** *
50549123 AGAATTTTTCCCAAAATTTTAAAATTTTCCTTAGGTGCAAATGACACACTCCCGTGTGGCCAGGC
1 AGAATTTTTCCCAAAATTTTAAAATTTTCCTTAGGTGCAAGGGACACACGCCCGTGTGGCCAGGC
* *
50549188 CGTGTGGTTCACATGGCCGAGAGGCACGCCCGTGTCTTAGGTCGTGTGGGCATTCGATGTAAGGC
66 CGTGTGGTTCACATGGCCGAGAGGCACGCCCGTGTCTTAGGCCGTGTGGGCATTCGATGTGAGGC
**
50549253 ATAG
131 ACGG
**
50549257 AGAATTTTTCCCAAAATTTTAAAATTTTCCTTAGGTTTAAGGGACACACGCCCGTGTGGCCAGGC
1 AGAATTTTTCCCAAAATTTTAAAATTTTCCTTAGGTGCAAGGGACACACGCCCGTGTGGCCAGGC
* * *
50549322 CGTGTGGTTCACAAGGCCGAGAGGCACGCCCGTGTCTTAGGTCATGTGGGCATTCGATGTGAGGC
66 CGTGTGGTTCACATGGCCGAGAGGCACGCCCGTGTCTTAGGCCGTGTGGGCATTCGATGTGAGGC
50549387 AC
131 AC
50549389 ACGACCGTGT
Statistics
Matches: 373, Mismatches: 27, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
134 373 1.00
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.26
Consensus pattern (134 bp):
AGAATTTTTCCCAAAATTTTAAAATTTTCCTTAGGTGCAAGGGACACACGCCCGTGTGGCCAGGC
CGTGTGGTTCACATGGCCGAGAGGCACGCCCGTGTCTTAGGCCGTGTGGGCATTCGATGTGAGGC
ACGG
Found at i:50550579 original size:63 final size:63
Alignment explanation
Indices: 50550426--50550582 Score: 149
Period size: 63 Copynumber: 2.5 Consensus size: 63
50550416 GCCTGAAGGC
* * * * * *
50550426 TAAACAGAAGCACATAAGTGCTAAAC-AAAGACCCATAAGGGTTGAATGGAAACCCATAAGGAT
1 TAAACAAAAGCTCAAAAGTGCTAAACGGAA-ACCCATAAGGGTTGAACGAAAACCCATAAGGAT
* * * *
50550489 TAAACAAAAGCTCAAAAGAGCTGAACGGAAACCCATTAGGGTTGAACGAAAACTCAT-AGGAGT
1 TAAACAAAAGCTCAAAAGTGCTAAACGGAAACCCATAAGGGTTGAACGAAAACCCATAAGGA-T
***
50550552 TAAA-AAGAAGCTCGTGAGTGCTAAACGGAAA
1 TAAACAA-AAGCTCAAAAGTGCTAAACGGAAA
50550583 GTAAAAATGA
Statistics
Matches: 76, Mismatches: 15, Indels: 6
0.78 0.15 0.06
Matches are distributed among these distances:
62 6 0.08
63 68 0.89
64 2 0.03
ACGTcount: A:0.45, C:0.17, G:0.22, T:0.16
Consensus pattern (63 bp):
TAAACAAAAGCTCAAAAGTGCTAAACGGAAACCCATAAGGGTTGAACGAAAACCCATAAGGAT
Found at i:50558211 original size:42 final size:42
Alignment explanation
Indices: 50558144--50558278 Score: 119
Period size: 42 Copynumber: 3.2 Consensus size: 42
50558134 AGGCTAAACA
* * * * *
50558144 GAAGCACATAAGTGCTAAACAAAAACCCGTAAGGGTTGAACG
1 GAAGCTCATAAGAGCTGAACGAAAACCCATAAGGGTTGAACG
* * **
50558186 GAAGCTCATAAGAGCTGAACGAAAACCCAAAAGGATT-AAAA
1 GAAGCTCATAAGAGCTGAACGAAAACCCATAAGGGTTGAACG
* * * * * *
50558227 AAAGCTCAAAAGAGCTGAACGGAAACCTATTATGGTTGAACG
1 GAAGCTCATAAGAGCTGAACGAAAACCCATAAGGGTTGAACG
*
50558269 GAAACTCATA
1 GAAGCTCATA
50558279 GGAGTTAAAC
Statistics
Matches: 70, Mismatches: 22, Indels: 2
0.74 0.23 0.02
Matches are distributed among these distances:
41 31 0.44
42 39 0.56
ACGTcount: A:0.45, C:0.18, G:0.21, T:0.16
Consensus pattern (42 bp):
GAAGCTCATAAGAGCTGAACGAAAACCCATAAGGGTTGAACG
Found at i:50565513 original size:28 final size:27
Alignment explanation
Indices: 50565475--50565536 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 27
50565465 AATTGTAATT
*
50565475 TTTTATACAAAAAAACTATGAATTTTTTA
1 TTTT-TAC-AAAAAACTATAAATTTTTTA
* *
50565504 TTTTTACAAAACATTATAAATTTTTTA
1 TTTTTACAAAAAACTATAAATTTTTTA
50565531 TATTTT
1 T-TTTT
50565537 TATTATGTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
27 18 0.62
28 7 0.24
29 4 0.14
ACGTcount: A:0.40, C:0.06, G:0.02, T:0.52
Consensus pattern (27 bp):
TTTTTACAAAAAACTATAAATTTTTTA
Found at i:50567782 original size:61 final size:61
Alignment explanation
Indices: 50567642--50567797 Score: 163
Period size: 61 Copynumber: 2.5 Consensus size: 61
50567632 AGTTAGGACA
* * * * * *
50567642 AAATTGATAGATTTTGTAAATATTGAGGGCCAAATTTATTGAATTTTTTAAAATTATAATT
1 AAATTGATAAAATTTGTAAATATTGAGGGCTAAATGTATTGAATATTTTAAAATTATAATC
* * * * *
50567703 AAAATGA-AAAATTTTGTAAACATTGAGGGCTAAATGTGTTGAATATTTTATATTTA-AGATC
1 AAATTGATAAAA-TTTGTAAATATTGAGGGCTAAATGTATTGAATATTTTAAAATTATA-ATC
*
50567764 AAATTGATAAAATGTGTAAATATTAGAGGGCTAA
1 AAATTGATAAAATTTGTAAATATT-GAGGGCTAA
50567798 TTTTGGGTAA
Statistics
Matches: 77, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
60 3 0.04
61 61 0.79
62 13 0.17
ACGTcount: A:0.42, C:0.04, G:0.16, T:0.38
Consensus pattern (61 bp):
AAATTGATAAAATTTGTAAATATTGAGGGCTAAATGTATTGAATATTTTAAAATTATAATC
Found at i:50577558 original size:54 final size:54
Alignment explanation
Indices: 50577500--50577630 Score: 149
Period size: 54 Copynumber: 2.4 Consensus size: 54
50577490 CCTAGCGCAT
* * *
50577500 GGCCTGTGACACGACCGTGTGTTACAAGTCAAAGAGTTACAC-GGTCTG-GCACAC
1 GGCCTGCGACACGACCGTGTGTCACAACTCAAAGAGTTACACAGGT-TGAG-ACAC
* * **
50577554 GGCCTGCGACACGACCGTGTGACCCAACTCAGTGAGTTACACAGGTTGAGACAC
1 GGCCTGCGACACGACCGTGTGTCACAACTCAAAGAGTTACACAGGTTGAGACAC
* *
50577608 GGGCTGGGACACGACCGTGTGTC
1 GGCCTGCGACACGACCGTGTGTC
50577631 CCTTTGTTAG
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
54 61 0.94
55 4 0.06
ACGTcount: A:0.24, C:0.27, G:0.31, T:0.18
Consensus pattern (54 bp):
GGCCTGCGACACGACCGTGTGTCACAACTCAAAGAGTTACACAGGTTGAGACAC
Found at i:50583162 original size:25 final size:25
Alignment explanation
Indices: 50583120--50583188 Score: 59
Period size: 25 Copynumber: 2.6 Consensus size: 25
50583110 CCTTTAAATA
* *
50583120 ATAATAAAATTGTAAATTAA-TATAAG
1 ATAA-AAAATTTTTAATTAATTA-AAG
* *
50583146 ATAAAAAATTTTTAATTTATTAAAT
1 ATAAAAAATTTTTAATTAATTAAAG
50583171 ATAAAAAAATTATTTAAT
1 AT-AAAAAATT-TTTAAT
50583189 CCTTTAAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
25 16 0.44
26 14 0.39
27 6 0.17
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (25 bp):
ATAAAAAATTTTTAATTAATTAAAG
Found at i:50583195 original size:27 final size:27
Alignment explanation
Indices: 50583148--50583210 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 27
50583138 AATATAAGAT
* *
50583148 AAAAAATT-TTTAATTTATTAAATATA
1 AAAAAATTATTTAATCTATTAAAAATA
50583174 AAAAAATTATTTAATCCT-TTAAAAATA
1 AAAAAATTATTTAAT-CTATTAAAAATA
**
50583201 ATGAAATTAT
1 AAAAAATTAT
50583211 ATCATGTTGC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
26 8 0.26
27 22 0.71
28 1 0.03
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (27 bp):
AAAAAATTATTTAATCTATTAAAAATA
Found at i:50589896 original size:30 final size:30
Alignment explanation
Indices: 50589835--50589897 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
50589825 ACTTATTTTA
* *
50589835 TTGTTAATTTTGTTATTATTTTAAATACAT
1 TTGTTAATTTTGTTATTATTTCAAAGACAT
*
50589865 TTGTTAATTTTGTTATTATTTCAAAGGCAT
1 TTGTTAATTTTGTTATTATTTCAAAGACAT
50589895 TTG
1 TTG
50589898 CTTTTTAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.05, G:0.11, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTCAAAGACAT
Found at i:50590001 original size:18 final size:18
Alignment explanation
Indices: 50589980--50590019 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
50589970 GAAATATTTA
*
50589980 TTTTGATGT-TTTTAGTAT
1 TTTTGATGTATTATA-TAT
50589998 TTTTGATGTATTATATAT
1 TTTTGATGTATTATATAT
50590016 TTTT
1 TTTT
50590020 TATAATTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.20, C:0.00, G:0.12, T:0.68
Consensus pattern (18 bp):
TTTTGATGTATTATATAT
Found at i:50593905 original size:34 final size:37
Alignment explanation
Indices: 50593839--50593907 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 37
50593829 CCATGTTTCA
*
50593839 TTTTCTTTTTTTTCTATGTGTTTCTTACTCTTCATTG
1 TTTTCTTTTTCTTCTATGTGTTTCTTACTCTTCATTG
* *
50593876 TTTTGTTTTTCTTCTAT-T-TTTCTT-TTCTTCAT
1 TTTTCTTTTTCTTCTATGTGTTTCTTACTCTTCAT
50593908 CGGGTTTTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
34 7 0.24
35 6 0.21
36 1 0.03
37 15 0.52
ACGTcount: A:0.07, C:0.16, G:0.06, T:0.71
Consensus pattern (37 bp):
TTTTCTTTTTCTTCTATGTGTTTCTTACTCTTCATTG
Found at i:50602526 original size:11 final size:11
Alignment explanation
Indices: 50602512--50602577 Score: 66
Period size: 11 Copynumber: 5.9 Consensus size: 11
50602502 TTAAATATGG
50602512 ATTTGAGAGAA
1 ATTTGAGAGAA
*
50602523 ATTTTGA-AGGA
1 A-TTTGAGAGAA
50602534 ATTTGAGAGCAA
1 ATTTGAGAG-AA
50602546 A-TTGAGAGGAA
1 ATTTGAGA-GAA
50602557 A-TTGAGAGGAA
1 ATTTGAGA-GAA
50602568 ATTTGAGAGA
1 ATTTGAGAGA
50602578 GGATTAGTTT
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
10 5 0.10
11 29 0.60
12 14 0.29
ACGTcount: A:0.42, C:0.02, G:0.30, T:0.26
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:50602537 original size:22 final size:23
Alignment explanation
Indices: 50602512--50602576 Score: 75
Period size: 22 Copynumber: 2.9 Consensus size: 23
50602502 TTAAATATGG
50602512 ATTTGAGAGAAATTTTGA-AGGA
1 ATTTGAGAGAAATTTTGAGAGGA
50602534 ATTTGAGAGCAAA--TTGAGAGGA
1 ATTTGAGAG-AAATTTTGAGAGGA
*
50602556 AATTGAGAGGAAA-TTTGAGAG
1 ATTTGAGA-GAAATTTTGAGAG
50602577 AGGATTAGTT
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
21 4 0.11
22 23 0.61
23 11 0.29
ACGTcount: A:0.42, C:0.02, G:0.31, T:0.26
Consensus pattern (23 bp):
ATTTGAGAGAAATTTTGAGAGGA
Found at i:50602580 original size:14 final size:11
Alignment explanation
Indices: 50602526--50602576 Score: 68
Period size: 11 Copynumber: 4.6 Consensus size: 11
50602516 GAGAGAAATT
*
50602526 TTGA-AGGAAT
1 TTGAGAGGAAA
*
50602536 TTGAGAGCAAA
1 TTGAGAGGAAA
50602547 TTGAGAGGAAA
1 TTGAGAGGAAA
50602558 TTGAGAGGAAA
1 TTGAGAGGAAA
50602569 TTTGAGAG
1 -TTGAGAG
50602577 AGGATTAGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
10 4 0.11
11 25 0.69
12 7 0.19
ACGTcount: A:0.41, C:0.02, G:0.33, T:0.24
Consensus pattern (11 bp):
TTGAGAGGAAA
Found at i:50605605 original size:19 final size:20
Alignment explanation
Indices: 50605583--50605628 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
50605573 AAAAAAAATA
*
50605583 GAATTTTTATAAA-TATTTT
1 GAATTTTTAAAAATTATTTT
50605602 GAA-TTTTAAAAATTATTTT
1 GAATTTTTAAAAATTATTTT
50605621 GAATTTTT
1 GAATTTTT
50605629 TTGTAAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 8 0.33
19 12 0.50
20 4 0.17
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.57
Consensus pattern (20 bp):
GAATTTTTAAAAATTATTTT
Found at i:50606225 original size:30 final size:30
Alignment explanation
Indices: 50606191--50606252 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
50606181 CTTAACAAGT
* *
50606191 AAATGTCTCTAAAATAATAACAAAATTAAC
1 AAATGCCTCTAAAACAATAACAAAATTAAC
* *
50606221 AAATGCCTTTAAAACAATAATAAAATTAAC
1 AAATGCCTCTAAAACAATAACAAAATTAAC
50606251 AA
1 AA
50606253 TAAAATAAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.58, C:0.13, G:0.03, T:0.26
Consensus pattern (30 bp):
AAATGCCTCTAAAACAATAACAAAATTAAC
Found at i:50607334 original size:45 final size:45
Alignment explanation
Indices: 50607283--50607369 Score: 129
Period size: 45 Copynumber: 1.9 Consensus size: 45
50607273 CTACTAAATA
*
50607283 TTTAACTAAATTGCATACAATTTATTATAAATTATTTAAATTAAT
1 TTTAACTAAATTACATACAATTTATTATAAATTATTTAAATTAAT
** * *
50607328 TTTAACTAAATTACATAGTATTTATTGTTAATTATTTAAATT
1 TTTAACTAAATTACATACAATTTATTATAAATTATTTAAATT
50607370 TGATTAAGGA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.41, C:0.06, G:0.03, T:0.49
Consensus pattern (45 bp):
TTTAACTAAATTACATACAATTTATTATAAATTATTTAAATTAAT
Found at i:50617817 original size:4 final size:4
Alignment explanation
Indices: 50617808--50617839 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
50617798 ATTATAGTTG
50617808 CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA
50617840 TTACCTCTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:50623330 original size:19 final size:20
Alignment explanation
Indices: 50623289--50623330 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
50623279 AGCGTTACTT
**
50623289 AAAATGTTAAAGAGATTTTA
1 AAAATGTTAAAGAGATTAGA
*
50623309 AAAATTTTAAAGA-ATTAGA
1 AAAATGTTAAAGAGATTAGA
50623328 AAA
1 AAA
50623331 TCATAGAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.57, C:0.00, G:0.12, T:0.31
Consensus pattern (20 bp):
AAAATGTTAAAGAGATTAGA
Found at i:50623454 original size:78 final size:77
Alignment explanation
Indices: 50623268--50623473 Score: 234
Period size: 78 Copynumber: 2.6 Consensus size: 77
50623258 CTAGGGTAAG
* * * * *
50623268 TTAATTTTTTAAGCGTTACTTAAAATGTTAAAGAGATTTTAAAAATTTTAAAGAATTAGAAAATC
1 TTAATTTTTTAAACGTTACTTAAAATATTAAAGA-CTTTTAAAAAATTAAAAGAATTAGAAAATC
*
50623333 ATAGAAAAATCTA
65 ATAGAAAAATCAA
* * * * * *
50623346 TTAATTTTTTATACCTCACTTAAAACATTAAACGACTTTTAAAAAATTAAAAGAGTTCGAAAATC
1 TTAATTTTTTAAACGTTACTTAAAATATTAAA-GACTTTTAAAAAATTAAAAGAATTAGAAAATC
50623411 ATAGAAAAATCAA
65 ATAGAAAAATCAA
* * *
50623424 TTAATTTCTTAAATGTTACTTCAAATATTAAAGAGC-TTTAAACAAATTAA
1 TTAATTTTTTAAACGTTACTTAAAATATTAAAGA-CTTTTAAA-AAATTAA
50623474 GTAACTCCTA
Statistics
Matches: 106, Mismatches: 19, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
77 8 0.08
78 96 0.91
79 2 0.02
ACGTcount: A:0.47, C:0.09, G:0.08, T:0.36
Consensus pattern (77 bp):
TTAATTTTTTAAACGTTACTTAAAATATTAAAGACTTTTAAAAAATTAAAAGAATTAGAAAATCA
TAGAAAAATCAA
Found at i:50629401 original size:23 final size:22
Alignment explanation
Indices: 50629375--50629450 Score: 73
Period size: 23 Copynumber: 3.4 Consensus size: 22
50629365 TCAGAATTTT
50629375 CATATCATATAACATATCGAAA
1 CATATCATATAACATATCGAAA
* * * *
50629397 CCATATCGTTTAACAAATCAAAA
1 -CATATCATATAACATATCGAAA
* *
50629420 TTATATCATATAGCATAT-GAAA
1 -CATATCATATAACATATCGAAA
50629442 CATATCATA
1 CATATCATA
50629451 CCCTCATCTG
Statistics
Matches: 41, Mismatches: 12, Indels: 2
0.75 0.22 0.04
Matches are distributed among these distances:
21 8 0.20
22 3 0.07
23 30 0.73
ACGTcount: A:0.47, C:0.17, G:0.05, T:0.30
Consensus pattern (22 bp):
CATATCATATAACATATCGAAA
Found at i:50631313 original size:38 final size:37
Alignment explanation
Indices: 50631271--50631373 Score: 143
Period size: 38 Copynumber: 2.7 Consensus size: 37
50631261 TTACTACCCT
* *
50631271 ATTGAGAACATGATAAGCATGTCTACTGTTAATGATGA
1 ATTGAGTACATGTTAA-CATGTCTACTGTTAATGATGA
* *
50631309 ATTGAGTACATCTTAAACATGTCTACTGTTAGTGATGA
1 ATTGAGTACATGTT-AACATGTCTACTGTTAATGATGA
50631347 ATTGAGTACATGTTATACATGTCTACT
1 ATTGAGTACATGTTA-ACATGTCTACT
50631374 TCTAATGTTG
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
37 1 0.02
38 55 0.95
39 2 0.03
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (37 bp):
ATTGAGTACATGTTAACATGTCTACTGTTAATGATGA
Found at i:50637288 original size:29 final size:29
Alignment explanation
Indices: 50637256--50637318 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
50637246 AAACATTTAT
*
50637256 AATATGAAATATTTGT-AAATTTTAATATA
1 AATAT-AAATATTTGTAAAATATTAATATA
** *
50637285 AATATATTTATTTTTAAAATATTAATATA
1 AATATAAATATTTGTAAAATATTAATATA
50637314 AATAT
1 AATAT
50637319 TTTAAATAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 7 0.24
29 22 0.76
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (29 bp):
AATATAAATATTTGTAAAATATTAATATA
Found at i:50637305 original size:23 final size:23
Alignment explanation
Indices: 50637279--50637353 Score: 62
Period size: 23 Copynumber: 3.1 Consensus size: 23
50637269 TGTAAATTTT
50637279 AATATAAATATATTTATTTTTAA
1 AATATAAATATATTTATTTTTAA
* ** *
50637302 AATATTAATATAAATATTTTAAA
1 AATATAAATATATTTATTTTTAA
*
50637325 TAATATATTAAGA-ATATTATTTTTAA
1 -AATATA--AATATAT-TTATTTTTAA
50637351 AAT
1 AAT
50637354 TTATTATTAA
Statistics
Matches: 39, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
23 19 0.49
24 5 0.13
25 4 0.10
26 11 0.28
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (23 bp):
AATATAAATATATTTATTTTTAA
Found at i:50637332 original size:14 final size:14
Alignment explanation
Indices: 50637274--50637333 Score: 52
Period size: 14 Copynumber: 4.2 Consensus size: 14
50637264 ATATTTGTAA
50637274 ATTTTAATATAAAT
1 ATTTTAATATAAAT
* *
50637288 ATATTTATTTTTAAA-
1 AT-TTTA-ATATAAAT
*
50637303 ATATTAATATAAAT
1 ATTTTAATATAAAT
50637317 ATTTTAA-ATAATAT
1 ATTTTAATATAA-AT
50637331 ATT
1 ATT
50637334 AAGAATATTA
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
13 9 0.25
14 16 0.44
15 6 0.17
16 5 0.14
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
ATTTTAATATAAAT
Found at i:50637363 original size:13 final size:14
Alignment explanation
Indices: 50637330--50637367 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
50637320 TTAAATAATA
50637330 TATTAAGAATATTAT
1 TATTAA-AATATTAT
*
50637345 TTTTAAAAT-TTAT
1 TATTAAAATATTAT
50637358 TATTAAAATA
1 TATTAAAATA
50637368 AAATTTTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
13 12 0.60
14 3 0.15
15 5 0.25
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (14 bp):
TATTAAAATATTAT
Found at i:50637398 original size:17 final size:18
Alignment explanation
Indices: 50637376--50637422 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
50637366 TAAAATTTTA
50637376 ATATTATATAATTTAT-C
1 ATATTATATAATTTATAC
*
50637393 ATATTAT-TAA-GTATAC
1 ATATTATATAATTTATAC
50637409 ATATTTATATAATT
1 ATA-TTATATAATT
50637423 ATTTATATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
15 3 0.12
16 7 0.29
17 11 0.46
18 3 0.12
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (18 bp):
ATATTATATAATTTATAC
Found at i:50637880 original size:37 final size:36
Alignment explanation
Indices: 50637824--50637917 Score: 109
Period size: 37 Copynumber: 2.6 Consensus size: 36
50637814 CATTCTTGGT
* * * * *
50637824 AGGGAATAACTCCTATTCATTTTTGTTTTTGCTCTGC
1 AGGGAAT-ACTCTTGTTCATTTTTGTCTTTACTCTAC
50637861 AGGGAATCACTCTTGTTCATTTTTGTCTTTACTCTAC
1 AGGGAAT-ACTCTTGTTCATTTTTGTCTTTACTCTAC
50637898 AGGGAAT-CTCATTGTTCATT
1 AGGGAATACTC-TTGTTCATT
50637918 CTTGGTTGCT
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
35 3 0.06
36 9 0.18
37 38 0.76
ACGTcount: A:0.20, C:0.19, G:0.16, T:0.45
Consensus pattern (36 bp):
AGGGAATACTCTTGTTCATTTTTGTCTTTACTCTAC
Found at i:50642343 original size:152 final size:147
Alignment explanation
Indices: 50642022--50642410 Score: 494
Period size: 152 Copynumber: 2.6 Consensus size: 147
50642012 CGAAATAATT
* * * *
50642022 AAAAAAAT-CAATTTTTTTTAAAATTTTAAATTTTCCTTTAAAATGACTTAAAAAAACATATTTT
1 AAAAAAATAAAATTTATTTTAAAATTTTAAACTTTCCTTTAAAATGAC-TAAAAAAACAGATTTT
*
50642086 TATTTTTCAAAATCTAAACTTTCTCTTTTTAAAAAAAAAAACTATTTTTCTTAAAGATTAAAGCT
65 TATTTTTCAAAATCTAAACTTTCTCTTTTTAAAAAAAAAAACTATTTTTCTTAAAGATTAAAACT
*
50642151 TTTATTTTAAAGTAGTTG
130 TTTATTTGAAAGTAGTTG
*
50642169 AAAAAAATCAAAACTTTATTTTAAAATTTTAAACTTTCCTTTAAAATGACTAAAAAAATAGATTT
1 AAAAAAAT-AAAA-TTTATTTTAAAATTTTAAACTTTCCTTTAAAATGACTAAAAAAACAGATTT
* * * * *
50642234 TTATTTTTCAAAATTTAAATTTTCTCCTTTTTTTTAAAAAAAATATTATTTTTCTTAAAGATTAA
64 TTATTTTTCAAAATCTAAACTTTCT-C--TTTTTAAAAAAAAAAACTATTTTTCTTAAAGATTAA
50642299 AACTTTTACTTTGAAA-TAGTTGG
126 AACTTTTA-TTTGAAAGTAGTT-G
* * * * *
50642322 AAAAAAAATAAAATTTGTTTTAAAAATTTAAACTTTCCTTTAAAATAACTAGAAAAAACATATAT
1 -AAAAAAATAAAATTTATTTTAAAATTTTAAACTTTCCTTTAAAATGACTA-AAAAAACAGATTT
* *
50642387 ATATTTTTTAAAAATCTAAACTTT
64 TTA-TTTTTCAAAATCTAAACTTT
50642411 TTTTAAAAAA
Statistics
Matches: 209, Mismatches: 22, Indels: 15
0.85 0.09 0.06
Matches are distributed among these distances:
147 8 0.04
149 38 0.18
150 35 0.17
152 80 0.38
153 23 0.11
154 25 0.12
ACGTcount: A:0.44, C:0.08, G:0.04, T:0.43
Consensus pattern (147 bp):
AAAAAAATAAAATTTATTTTAAAATTTTAAACTTTCCTTTAAAATGACTAAAAAAACAGATTTTT
ATTTTTCAAAATCTAAACTTTCTCTTTTTAAAAAAAAAAACTATTTTTCTTAAAGATTAAAACTT
TTATTTGAAAGTAGTTG
Found at i:50642355 original size:53 final size:52
Alignment explanation
Indices: 50642269--50642418 Score: 144
Period size: 53 Copynumber: 2.9 Consensus size: 52
50642259 CCTTTTTTTT
* * * * ** *
50642269 AAAAAAAATATTATTTTTCTTAAAGATTAAAACTTTTACTTTGAAATAGTTGG
1 AAAAAAAATAATATTTTT-TTAAAAATTTAAACTTTTACTTTAAAATAACTAG
* *
50642322 AAAAAAAATAAAATTTGTTTTAAAAATTTAAAC-TTTCCTTTAAAATAACTAG
1 AAAAAAAATAATATTT-TTTTAAAAATTTAAACTTTTACTTTAAAATAACTAG
* *
50642374 AAAAAACATATATATATTTTTTAAAAATCTAAACTTTT--TTTAAAA
1 AAAAAAAATA-ATAT-TTTTTTAAAAATTTAAACTTTTACTTTAAAA
50642419 AAAATCAAAA
Statistics
Matches: 81, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
52 30 0.37
53 44 0.54
54 7 0.09
ACGTcount: A:0.49, C:0.07, G:0.05, T:0.40
Consensus pattern (52 bp):
AAAAAAAATAATATTTTTTTAAAAATTTAAACTTTTACTTTAAAATAACTAG
Found at i:50646532 original size:23 final size:22
Alignment explanation
Indices: 50646506--50646554 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
50646496 TTACTCTTTA
*
50646506 TGGCTTGAGTAAGTATATGAATG
1 TGGCTT-ACTAAGTATATGAATG
*
50646529 TGGC-TCCTAAGTATATGAATG
1 TGGCTTACTAAGTATATGAATG
50646550 TGGCT
1 TGGCT
50646555 CTTAAGATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 18 0.78
22 1 0.04
23 4 0.17
ACGTcount: A:0.27, C:0.10, G:0.29, T:0.35
Consensus pattern (22 bp):
TGGCTTACTAAGTATATGAATG
Found at i:50646540 original size:21 final size:21
Alignment explanation
Indices: 50646515--50646560 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
50646505 ATGGCTTGAG
50646515 TAAGTATATGAATGTGGCTCC
1 TAAGTATATGAATGTGGCTCC
*
50646536 TAAGTATATGAATGTGGCTCT
1 TAAGTATATGAATGTGGCTCC
50646557 TAAG
1 TAAG
50646561 ATGACATCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.30, C:0.11, G:0.24, T:0.35
Consensus pattern (21 bp):
TAAGTATATGAATGTGGCTCC
Found at i:50656341 original size:36 final size:36
Alignment explanation
Indices: 50656289--50656371 Score: 94
Period size: 36 Copynumber: 2.3 Consensus size: 36
50656279 ATATATAATT
* * * * * * *
50656289 ATCACTTTTAAATATTACAACTATATCATTATGCCGA
1 ATCACTTAT-AATATTACAAATACACCAATATACCAA
50656326 ATCACTTATAATATTACAAATACACCAATATACCAA
1 ATCACTTATAATATTACAAATACACCAATATACCAA
50656362 ATCACTTATA
1 ATCACTTATA
50656372 TGCTCAATTT
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
36 31 0.79
37 8 0.21
ACGTcount: A:0.43, C:0.20, G:0.02, T:0.34
Consensus pattern (36 bp):
ATCACTTATAATATTACAAATACACCAATATACCAA
Found at i:50656642 original size:43 final size:44
Alignment explanation
Indices: 50656581--50656703 Score: 128
Period size: 43 Copynumber: 2.8 Consensus size: 44
50656571 ACAATGTCAA
* * * *
50656581 TGTCCCAGACATGGTCTTACATGTAATCACATATCGATGCC-AC
1 TGTCCTAGACAGGGTCTTACATGTAAACACATATCGATACCAAC
*
50656624 TGTCCTAGACAGGGTCTTACATGTAACCACA-AGTCGATACCAAC
1 TGTCCTAGACAGGGTCTTACATGTAAACACATA-TCGATACCAAC
* * *
50656668 -GTCTTAGAC-GTGGTCTTACACGAAAACACATATCGA
1 TGTCCTAGACAG-GGTCTTACATGTAAACACATATCGA
50656704 AATCCTATGT
Statistics
Matches: 68, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
42 2 0.03
43 63 0.93
44 3 0.04
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (44 bp):
TGTCCTAGACAGGGTCTTACATGTAAACACATATCGATACCAAC
Found at i:50659183 original size:17 final size:17
Alignment explanation
Indices: 50659152--50659196 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
50659142 ATATTTCACA
50659152 TTTTAAT-ATTT--TAT
1 TTTTAATAATTTAATAT
50659166 TTTTAATAATTTAATAT
1 TTTTAATAATTTAATAT
*
50659183 TTTTAAAAATTTAA
1 TTTTAATAATTTAA
50659197 AATATTAGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 7 0.26
15 4 0.15
17 16 0.59
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TTTTAATAATTTAATAT
Found at i:50661689 original size:25 final size:25
Alignment explanation
Indices: 50661655--50661705 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
50661645 TCTTGAAAAC
*
50661655 TTTAACCTTTTTAGAAACACAACGA
1 TTTAACCTTTTTAAAAACACAACGA
50661680 TTTAACCTTTTTAAAAACACAACGA
1 TTTAACCTTTTTAAAAACACAACGA
50661705 T
1 T
50661706 AATAATATCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.41, C:0.20, G:0.06, T:0.33
Consensus pattern (25 bp):
TTTAACCTTTTTAAAAACACAACGA
Found at i:50667569 original size:21 final size:21
Alignment explanation
Indices: 50667545--50667604 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
50667535 CTAATATTAC
*
50667545 ATGCAAACCCATATGTTATTT
1 ATGCGAACCCATATGTTATTT
* *
50667566 ATGCGAACCAATATATTATTT
1 ATGCGAACCCATATGTTATTT
*
50667587 ATGTGAACCCTATATGTT
1 ATGCGAACCC-ATATGTT
50667605 TGTGACATGC
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 26 0.81
22 6 0.19
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (21 bp):
ATGCGAACCCATATGTTATTT
Found at i:50670510 original size:17 final size:17
Alignment explanation
Indices: 50670488--50670537 Score: 91
Period size: 17 Copynumber: 2.9 Consensus size: 17
50670478 TCTCAGATTT
50670488 TGATACCCATATCTTTC
1 TGATACCCATATCTTTC
*
50670505 TGATACCTATATCTTTC
1 TGATACCCATATCTTTC
50670522 TGATACCCATATCTTT
1 TGATACCCATATCTTT
50670538 GACTTTCTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.24, C:0.26, G:0.06, T:0.44
Consensus pattern (17 bp):
TGATACCCATATCTTTC
Found at i:50675048 original size:17 final size:17
Alignment explanation
Indices: 50675026--50675075 Score: 91
Period size: 17 Copynumber: 2.9 Consensus size: 17
50675016 TCTCAGATTT
50675026 TGATACCCATATCTTTC
1 TGATACCCATATCTTTC
*
50675043 TGATACCTATATCTTTC
1 TGATACCCATATCTTTC
50675060 TGATACCCATATCTTT
1 TGATACCCATATCTTT
50675076 TACTTTCTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.24, C:0.26, G:0.06, T:0.44
Consensus pattern (17 bp):
TGATACCCATATCTTTC
Found at i:50675361 original size:28 final size:27
Alignment explanation
Indices: 50675295--50675362 Score: 64
Period size: 28 Copynumber: 2.4 Consensus size: 27
50675285 TGTATTTAAT
* ***
50675295 TATAATATATATTTTTAAAATTTTATTT
1 TATAATA-ATATTTATAAAATTTTAAAA
*
50675323 TATTAAAAATATTTATAAAATTTTAAAAA
1 TA-TAATAATATTTATAAAATTTT-AAAA
50675352 TATAATAATAT
1 TATAATAATAT
50675363 ACATATTAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
28 25 0.78
29 7 0.22
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (27 bp):
TATAATAATATTTATAAAATTTTAAAA
Found at i:50676009 original size:32 final size:31
Alignment explanation
Indices: 50675973--50676047 Score: 87
Period size: 32 Copynumber: 2.4 Consensus size: 31
50675963 TAAAAATAAA
** *
50675973 AATTATAAATTATAAAAAATCTTAAAATTAGG
1 AATTATAAAAAATAAAAAA-CATAAAATTAGG
* *
50676005 AATTATAAAAAAATTAAAAAGATAAAATTAGG
1 AATTAT-AAAAAATAAAAAACATAAAATTAGG
50676037 AATTATAAAAA
1 AATTATAAAAA
50676048 TTTCAATAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
31 5 0.14
32 22 0.59
33 10 0.27
ACGTcount: A:0.63, C:0.01, G:0.07, T:0.29
Consensus pattern (31 bp):
AATTATAAAAAATAAAAAACATAAAATTAGG
Found at i:50676024 original size:25 final size:24
Alignment explanation
Indices: 50675964--50676024 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 24
50675954 ATTTAAAAAT
*
50675964 AAAAA-TAAAAATTATAAATTATA
1 AAAAATTAAAAATTAGAAATTATA
* *
50675987 AAAAATCTTAAAATTAGGAATTATAA
1 AAAAAT-TAAAAATTAGAAATTAT-A
50676013 AAAAATTAAAAA
1 AAAAATTAAAAA
50676025 GATAAAATTA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
23 5 0.16
25 19 0.61
26 7 0.23
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.28
Consensus pattern (24 bp):
AAAAATTAAAAATTAGAAATTATA
Found at i:50677805 original size:21 final size:21
Alignment explanation
Indices: 50677762--50677805 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
50677752 CATGGACGTT
*
50677762 TGGCTACCCCACACGCCTATG
1 TGGCTACCCCACACGCCCATG
* * *
50677783 TGGCTACTCCACATGCCCCTG
1 TGGCTACCCCACACGCCCATG
50677804 TG
1 TG
50677806 CTCAGATCGT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.41, G:0.20, T:0.23
Consensus pattern (21 bp):
TGGCTACCCCACACGCCCATG
Found at i:50703173 original size:19 final size:20
Alignment explanation
Indices: 50703136--50703173 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
50703126 AAGTTAATAA
*
50703136 AAATTTTGATTAAGGTGGAC
1 AAATTTTGATTAAGATGGAC
*
50703156 AAATTTT-ATTACGATGGA
1 AAATTTTGATTAAGATGGA
50703174 TGACAGTGGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 9 0.56
20 7 0.44
ACGTcount: A:0.37, C:0.05, G:0.21, T:0.37
Consensus pattern (20 bp):
AAATTTTGATTAAGATGGAC
Found at i:50706173 original size:12 final size:12
Alignment explanation
Indices: 50706143--50706172 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
50706133 TCTTATTTGT
50706143 AATTTTTATTTC
1 AATTTTTATTTC
50706155 AATTTTTATTTC
1 AATTTTTATTTC
50706167 -ATTTTT
1 AATTTTT
50706173 TGCAAGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 6 0.33
12 12 0.67
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (12 bp):
AATTTTTATTTC
Found at i:50719877 original size:14 final size:15
Alignment explanation
Indices: 50719849--50719886 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
50719839 GTTTGGTAGT
50719849 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
50719863 AAAATGATTTT-TGG
1 AAAATGATTTTCTGG
50719877 AAAATGATTT
1 AAAATGATTT
50719887 ACTTTTCTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 18 0.78
15 5 0.22
ACGTcount: A:0.39, C:0.03, G:0.16, T:0.42
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:50720025 original size:20 final size:20
Alignment explanation
Indices: 50719997--50720046 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
50719987 TGGAAAAGTT
50719997 ATTTTTATATATATTAATAA
1 ATTTTTATATATATTAATAA
* * *
50720017 ATTTATATACATGTTAATAA
1 ATTTTTATATATATTAATAA
50720037 ATTTTTATAT
1 ATTTTTATAT
50720047 TTTAAATTGT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (20 bp):
ATTTTTATATATATTAATAA
Found at i:50722573 original size:13 final size:13
Alignment explanation
Indices: 50722555--50722580 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
50722545 CCATTATTCA
50722555 TATATCTCTCACT
1 TATATCTCTCACT
50722568 TATATCTCTCACT
1 TATATCTCTCACT
50722581 CCTAACCTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.31, G:0.00, T:0.46
Consensus pattern (13 bp):
TATATCTCTCACT
Found at i:50722891 original size:15 final size:15
Alignment explanation
Indices: 50722867--50722896 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
50722857 AAATGTTTTC
*
50722867 TGGAATCTTCAACAA
1 TGGAAGCTTCAACAA
50722882 TGGAAGCTTCAACAA
1 TGGAAGCTTCAACAA
50722897 ACAATTTGTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.23
Consensus pattern (15 bp):
TGGAAGCTTCAACAA
Found at i:50723419 original size:30 final size:30
Alignment explanation
Indices: 50723385--50723444 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
50723375 TCTATCCGAA
50723385 TCTATACGAGGAAATTTAGCTTAATTTAAT
1 TCTATACGAGGAAATTTAGCTTAATTTAAT
50723415 TCTATACGAGGAAATTTAGCTTAATTTAAT
1 TCTATACGAGGAAATTTAGCTTAATTTAAT
50723445 ACAATTCACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.40
Consensus pattern (30 bp):
TCTATACGAGGAAATTTAGCTTAATTTAAT
Found at i:50724493 original size:26 final size:26
Alignment explanation
Indices: 50724450--50724519 Score: 113
Period size: 26 Copynumber: 2.7 Consensus size: 26
50724440 TATTCCAACC
*
50724450 CACAGCTCGTGTGAGCATGCCCATTT
1 CACAACTCGTGTGAGCATGCCCATTT
* *
50724476 CACGACTTGTGTGAGCATGCCCATTT
1 CACAACTCGTGTGAGCATGCCCATTT
50724502 CACAACTCGTGTGAGCAT
1 CACAACTCGTGTGAGCAT
50724520 TGATGTAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.27
Consensus pattern (26 bp):
CACAACTCGTGTGAGCATGCCCATTT
Found at i:50724586 original size:48 final size:48
Alignment explanation
Indices: 50724531--50724623 Score: 143
Period size: 48 Copynumber: 1.9 Consensus size: 48
50724521 GATGTAAAAG
**
50724531 AAAGGTTA-TGTTTATATGTAAAGGCATGTTATGTGTGAGATTTCCTGA
1 AAAGGTTACT-TTTATATGTAAAGGCACATTATGTGTGAGATTTCCTGA
*
50724579 AAAGGTTACTTTTATATGTAAAGGCACATTATGTGTGAGCTTTCC
1 AAAGGTTACTTTTATATGTAAAGGCACATTATGTGTGAGATTTCC
50724624 CGAGTATTCG
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
48 40 0.98
49 1 0.02
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.39
Consensus pattern (48 bp):
AAAGGTTACTTTTATATGTAAAGGCACATTATGTGTGAGATTTCCTGA
Found at i:50729011 original size:36 final size:36
Alignment explanation
Indices: 50728880--50728997 Score: 155
Period size: 36 Copynumber: 3.3 Consensus size: 36
50728870 ATTCCAACCA
* * *
50728880 AAACACACTAGATGCTCAAAAGAGCTAATCCATCCA
1 AAACACACCAGATGCTCAAAAGAGTTAATCCATCCG
* **
50728916 AAACACACCAGATGCTCAAAATAGTTAATCCATATG
1 AAACACACCAGATGCTCAAAAGAGTTAATCCATCCG
** *
50728952 AAATGCAACAGATGCTCAAAAGAGTTAATCCATCCG
1 AAACACACCAGATGCTCAAAAGAGTTAATCCATCCG
50728988 AAACACACCA
1 AAACACACCA
50728998 ATGGCTCCGA
Statistics
Matches: 67, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 67 1.00
ACGTcount: A:0.45, C:0.25, G:0.12, T:0.18
Consensus pattern (36 bp):
AAACACACCAGATGCTCAAAAGAGTTAATCCATCCG
Found at i:50735828 original size:28 final size:27
Alignment explanation
Indices: 50735764--50735837 Score: 85
Period size: 28 Copynumber: 2.7 Consensus size: 27
50735754 TAATGAGATT
* **
50735764 AGCACTAAGTGTGTGAGTTTAATTGAA
1 AGCACTAAGTGTGTGAGTATAAGGGAA
*
50735791 ATGCAGTAAGTGTGTGAGTATAAGGGTAA
1 A-GCACTAAGTGTGTGAGTATAAGGG-AA
*
50735820 AGCACTAAGTGTGCGAGT
1 AGCACTAAGTGTGTGAGT
50735838 TTGATTATTA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
27 1 0.03
28 35 0.90
29 3 0.08
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.28
Consensus pattern (27 bp):
AGCACTAAGTGTGTGAGTATAAGGGAA
Found at i:50736706 original size:39 final size:39
Alignment explanation
Indices: 50736659--50736736 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
50736649 GGTATATTTT
50736659 TGTGTTATAAATTTAATGTATAATGCTGTCCAATTTTAA
1 TGTGTTATAAATTTAATGTATAATGCTGTCCAATTTTAA
50736698 TGTGTTATAAATTTAATGTATAATGCTGTCCAATTTTAA
1 TGTGTTATAAATTTAATGTATAATGCTGTCCAATTTTAA
50736737 GTATATTGAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.33, C:0.08, G:0.13, T:0.46
Consensus pattern (39 bp):
TGTGTTATAAATTTAATGTATAATGCTGTCCAATTTTAA
Found at i:50736754 original size:25 final size:24
Alignment explanation
Indices: 50736720--50736851 Score: 98
Period size: 25 Copynumber: 5.6 Consensus size: 24
50736710 TTAATGTATA
50736720 ATGCTGTCCAATTTTAAGTATATT
1 ATGCTGTCCAATTTTAAGTATATT
50736744 GATGCTGTCC-ATTTTAATGTATA--
1 -ATGCTGTCCAATTTTAA-GTATATT
*
50736767 ATGCTGTCCAATTTTGAGTATATTT
1 ATGCTGTCCAATTTTAAGTATA-TT
* * ** *
50736792 AAGCTGTCTAATTCGATGTATA--
1 ATGCTGTCCAATTTTAAGTATATT
*
50736814 ATGCTGTCC-A-TTTAGAGCATATT
1 ATGCTGTCCAATTTTA-AGTATATT
*
50736837 ATTACTGTCCAATTT
1 A-TGCTGTCCAATTT
50736852 GATGAATAAA
Statistics
Matches: 82, Mismatches: 14, Indels: 21
0.70 0.12 0.18
Matches are distributed among these distances:
20 2 0.02
21 5 0.06
22 21 0.26
23 7 0.09
24 14 0.17
25 31 0.38
26 2 0.02
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.43
Consensus pattern (24 bp):
ATGCTGTCCAATTTTAAGTATATT
Found at i:50736763 original size:47 final size:47
Alignment explanation
Indices: 50736707--50736823 Score: 171
Period size: 47 Copynumber: 2.5 Consensus size: 47
50736697 ATGTGTTATA
*
50736707 AATTTAATGTATAATGCTGTCCAATTTTAAGTATATTGATGCTGTCC
1 AATTTAATGTATAATGCTGTCCAATTTTAAGTATATTGAAGCTGTCC
* * * *
50736754 ATTTTAATGTATAATGCTGTCCAATTTTGAGTATATTTAAGCTGTCT
1 AATTTAATGTATAATGCTGTCCAATTTTAAGTATATTGAAGCTGTCC
**
50736801 AATTCGATGTATAATGCTGTCCA
1 AATTTAATGTATAATGCTGTCCA
50736824 TTTAGAGCAT
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 62 1.00
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.43
Consensus pattern (47 bp):
AATTTAATGTATAATGCTGTCCAATTTTAAGTATATTGAAGCTGTCC
Found at i:50736788 original size:22 final size:23
Alignment explanation
Indices: 50736709--50736781 Score: 105
Period size: 22 Copynumber: 3.1 Consensus size: 23
50736699 GTGTTATAAA
50736709 TTTAATGTATAATGCTGTCCAAT
1 TTTAATGTATAATGCTGTCCAAT
50736732 TTTAA-GTATATTGATGCTGTCC-AT
1 TTTAATGTATA---ATGCTGTCCAAT
50736756 TTTAATGTATAATGCTGTCCAAT
1 TTTAATGTATAATGCTGTCCAAT
50736779 TTT
1 TTT
50736782 GAGTATATTT
Statistics
Matches: 45, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
22 14 0.31
23 10 0.22
24 7 0.16
25 14 0.31
ACGTcount: A:0.27, C:0.12, G:0.14, T:0.47
Consensus pattern (23 bp):
TTTAATGTATAATGCTGTCCAAT
Found at i:50747522 original size:54 final size:54
Alignment explanation
Indices: 50747464--50747567 Score: 127
Period size: 54 Copynumber: 1.9 Consensus size: 54
50747454 TCAGTAGGGT
* ** * *
50747464 CACACGGTCGTGTCGTAGGCCATGTGCCAGGCCATGTAACTCTCTGACTTGCCA
1 CACACAGTCGTGTCACAGGCCATGTGCCAGGCCATATAACTCACTGACTTGCCA
* * * *
50747518 CACACAGTCGTGTCACAGGCTATGTGCTAGGTCGTATAACTCACTGACTT
1 CACACAGTCGTGTCACAGGCCATGTGCCAGGCCATATAACTCACTGACTT
50747568 AAAACACTAG
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 41 1.00
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (54 bp):
CACACAGTCGTGTCACAGGCCATGTGCCAGGCCATATAACTCACTGACTTGCCA
Found at i:50751766 original size:12 final size:12
Alignment explanation
Indices: 50751749--50751787 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
50751739 CGACTCGCCC
50751749 ATATTAATTTTT
1 ATATTAATTTTT
*
50751761 ATATTATTTTTT
1 ATATTAATTTTT
*
50751773 ATA-TAATTTTA
1 ATATTAATTTTT
50751784 ATAT
1 ATAT
50751788 ATATAATACA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
11 9 0.39
12 14 0.61
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:50751948 original size:30 final size:30
Alignment explanation
Indices: 50751904--50751964 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
50751894 ACTTAACAAG
50751904 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
* *
50751934 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
50751964 C
1 C
50751965 TATAAAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.56, C:0.15, G:0.03, T:0.26
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:50757838 original size:17 final size:17
Alignment explanation
Indices: 50757813--50757846 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
50757803 GGTTCAACTA
*
50757813 TTTAATTAATTTTTATT
1 TTTAATTAATTATTATT
*
50757830 TTTATTTAATTATTATT
1 TTTAATTAATTATTATT
50757847 GAATAAGAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTAATTAATTATTATT
Found at i:50760420 original size:2 final size:2
Alignment explanation
Indices: 50760413--50760445 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
50760403 ATGGTATTTG
50760413 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
50760446 TGAGTGATAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:50762917 original size:21 final size:21
Alignment explanation
Indices: 50762893--50762942 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
50762883 ACACGGTTTG
* *
50762893 GCCACATGGCCACGTTCTTGA
1 GCCACACGACCACGTTCTTGA
*
50762914 GCCACACGACCATGTTCTTGA
1 GCCACACGACCACGTTCTTGA
50762935 GCCACACG
1 GCCACACG
50762943 GGCTAAGCCC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.22, C:0.36, G:0.22, T:0.20
Consensus pattern (21 bp):
GCCACACGACCACGTTCTTGA
Found at i:50777720 original size:12 final size:10
Alignment explanation
Indices: 50777694--50777718 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
50777684 TAAAGGAAAC
50777694 TATATTTCAA
1 TATATTTCAA
50777704 TATATTTCAA
1 TATATTTCAA
50777714 TATAT
1 TATAT
50777719 ATATATGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (10 bp):
TATATTTCAA
Found at i:50778731 original size:5 final size:5
Alignment explanation
Indices: 50778703--50778744 Score: 57
Period size: 5 Copynumber: 7.8 Consensus size: 5
50778693 TAAAGAAAGA
50778703 AAAAT GAAAAT GAAAAT GAAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT -AAAAT -AAAAT -AAAAT AAAAT AAAAT AAAAT AAAA
50778745 ACAAAATATA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 19 0.53
6 17 0.47
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:50778736 original size:10 final size:11
Alignment explanation
Indices: 50778703--50778751 Score: 64
Period size: 11 Copynumber: 4.5 Consensus size: 11
50778693 TAAAGAAAGA
50778703 AAAATGAAAAT
1 AAAATGAAAAT
50778714 GAAAATGAAAAT
1 -AAAATGAAAAT
50778726 AAAAT-AAAAT
1 AAAATGAAAAT
* *
50778736 AAAATAAAAAC
1 AAAATGAAAAT
50778747 AAAAT
1 AAAAT
50778752 ATAATATAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
10 10 0.29
11 14 0.40
12 11 0.31
ACGTcount: A:0.76, C:0.02, G:0.06, T:0.16
Consensus pattern (11 bp):
AAAATGAAAAT
Found at i:50778745 original size:16 final size:16
Alignment explanation
Indices: 50778703--50778763 Score: 61
Period size: 16 Copynumber: 3.6 Consensus size: 16
50778693 TAAAGAAAGA
*
50778703 AAAATGAAAATGAAAAT
1 AAAATAAAAAT-AAAAT
50778720 GAAAAT-AAAATAAAAT
1 -AAAATAAAAATAAAAT
*
50778736 AAAATAAAAACAAAAT
1 AAAATAAAAATAAAAT
50778752 ATAATATAAAAA
1 A-AA-ATAAAAA
50778764 CTCACAGATC
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
15 5 0.13
16 15 0.38
17 7 0.18
18 12 0.31
ACGTcount: A:0.75, C:0.02, G:0.05, T:0.18
Consensus pattern (16 bp):
AAAATAAAAATAAAAT
Found at i:50778752 original size:11 final size:11
Alignment explanation
Indices: 50778703--50778762 Score: 59
Period size: 12 Copynumber: 5.4 Consensus size: 11
50778693 TAAAGAAAGA
*
50778703 AAAATGAAAAT
1 AAAATAAAAAT
*
50778714 GAAAATGAAAAT
1 -AAAATAAAAAT
50778726 AAAAT-AAAAT
1 AAAATAAAAAT
*
50778736 AAAATAAAAAC
1 AAAATAAAAAT
*
50778747 AAAATATAATAT
1 AAAATA-AAAAT
50778759 AAAA
1 AAAA
50778763 ACTCACAGAT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
10 10 0.23
11 15 0.35
12 18 0.42
ACGTcount: A:0.75, C:0.02, G:0.05, T:0.18
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:50782990 original size:43 final size:43
Alignment explanation
Indices: 50782940--50783134 Score: 214
Period size: 43 Copynumber: 4.5 Consensus size: 43
50782930 AGATACTGGT
* * *
50782940 CTAAAGAACATGATCTTTAGTGGTGCTTCCCATAAAAATGCCG
1 CTAAAGAACATGATCTTTAGCGGTGCTTCTCACAAAAATGCCG
* * * *
50782983 TTAAAGAACATGATCTTTAGCGGTACTT-TTACTAAAAACGCCG
1 CTAAAGAACATGATCTTTAGCGGTGCTTCTCAC-AAAAATGCCG
* *
50783026 CTATAA-AAAATGATCTTTCGCGGTGCTTCTCACAAAAATGCCG
1 CTA-AAGAACATGATCTTTAGCGGTGCTTCTCACAAAAATGCCG
** ***
50783069 CTGTAGAACATGATCTTTAGCAACGCTTCTCACAAAAATGCCG
1 CTAAAGAACATGATCTTTAGCGGTGCTTCTCACAAAAATGCCG
* *
50783112 CTAAAGATCATGTTCTTTAGCGG
1 CTAAAGAACATGATCTTTAGCGG
50783135 CATTTGTAAG
Statistics
Matches: 122, Mismatches: 26, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
42 2 0.02
43 115 0.94
44 5 0.04
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (43 bp):
CTAAAGAACATGATCTTTAGCGGTGCTTCTCACAAAAATGCCG
Found at i:50784723 original size:27 final size:29
Alignment explanation
Indices: 50784688--50784743 Score: 73
Period size: 27 Copynumber: 2.0 Consensus size: 29
50784678 TTTATATTAT
*
50784688 AAAATAAAGAAAGATA-GAG-AG-AATAAA
1 AAAACAAAGAAA-ATATGAGAAGCAATAAA
50784715 AAAACAAAGAAAATATGAGAAGCAATAAA
1 AAAACAAAGAAAATATGAGAAGCAATAAA
50784744 GAATGTATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 3 0.12
27 14 0.56
28 2 0.08
29 6 0.24
ACGTcount: A:0.70, C:0.04, G:0.16, T:0.11
Consensus pattern (29 bp):
AAAACAAAGAAAATATGAGAAGCAATAAA
Found at i:50789898 original size:23 final size:23
Alignment explanation
Indices: 50789872--50789915 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
50789862 TAGTCACTAA
50789872 AAAACTAAAAGAAAT-ATATTAGT
1 AAAA-TAAAAGAAATCATATTAGT
* *
50789895 AAAATAATAGTAATCATATTA
1 AAAATAAAAGAAATCATATTA
50789916 TTTGTCAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.59, C:0.05, G:0.07, T:0.30
Consensus pattern (23 bp):
AAAATAAAAGAAATCATATTAGT
Found at i:50798623 original size:61 final size:59
Alignment explanation
Indices: 50798499--50798627 Score: 170
Period size: 59 Copynumber: 2.2 Consensus size: 59
50798489 TGCATTGATT
* *
50798499 TTTTTAATATATTTGTACAAACTATTTTTATATTATTTTATTTAATAAAATAGAAGTTG
1 TTTTGAATATATTTGTACAAACTATTTTTATATTATTTTATTTAATAAAATAGAAGTTC
* * * *
50798558 TTTTGAATATTTTTGTATAAATTATTTTTATATT-TTGTCCTATTTAATAAAATATAAGTTC
1 TTTTGAATATATTTGTACAAACTATTTTTATATTATT-T--TATTTAATAAAATAGAAGTTC
50798619 TTTTGAATA
1 TTTTGAATA
50798628 AGGCAATAGA
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
58 2 0.03
59 31 0.51
61 28 0.46
ACGTcount: A:0.35, C:0.04, G:0.07, T:0.54
Consensus pattern (59 bp):
TTTTGAATATATTTGTACAAACTATTTTTATATTATTTTATTTAATAAAATAGAAGTTC
Found at i:50799804 original size:43 final size:42
Alignment explanation
Indices: 50799754--50799838 Score: 134
Period size: 43 Copynumber: 2.0 Consensus size: 42
50799744 TCATATTTCA
*
50799754 TTTCTCATCTCATAATCATTTTTCATATTTGCCATTTCAATAT
1 TTTCTCATCTCATAATCATTTCTCATATTTGCCATTT-AATAT
* *
50799797 TTTCTCATCTCATATTCATTTCTCATATTTTCCATTTAATAT
1 TTTCTCATCTCATAATCATTTCTCATATTTGCCATTTAATAT
50799839 CAATCACATA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
42 5 0.13
43 34 0.87
ACGTcount: A:0.25, C:0.21, G:0.01, T:0.53
Consensus pattern (42 bp):
TTTCTCATCTCATAATCATTTCTCATATTTGCCATTTAATAT
Found at i:50806746 original size:126 final size:126
Alignment explanation
Indices: 50806489--50806973 Score: 598
Period size: 126 Copynumber: 3.9 Consensus size: 126
50806479 GTTAAGCAGG
*
50806489 ACCATCTTCTCAAAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCATCTAGCTGGGAGCTTT
1 ACCATCTTCTCAAAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCATCCAGCTGGGAGCTTT
* ** * * * *
50806554 TTT-AGTACTTTTGCTGACAATGTGTCCTGGTTGAAGTGTTTTTTACCTTATTTTTTCAGA
66 TTTCAGTACTTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTTTACCATATTTTTTTAGA
* * * * * * * * *
50806614 ATCATCTT-TCCAAAATTATATTTCCAGAAATTACTTTAGAAAAAGAGCGTCCAGTTAGGAGCTG
1 ACCATCTTCT-CAAAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCATCCAGCTGGGAGCTT
*
50806678 TTTTCAGTACTTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTTTACCCTATTTTTTTAGA
65 TTTTCAGTACTTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTTTACCATATTTTTTTAGA
* * * *** * *
50806740 ACCATCTTTTTAAAATTATTTTTTAAGAAACTACTGTAGAAAAAGAATGTCTAGCTGGGAACTTT
1 ACCATCTTCTCAAAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCATCCAGCTGGGAGCTTT
* * *
50806805 TTTTAGTACTTTTACTGATAGTGCATCCTGCTTGAAGCGTTTTTTACCATATTTTTTTAGA
66 TTTCAGTACTTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTTTACCATATTTTTTTAGA
* * * * * * *
50806866 ACTATCTTCTTAAAATTA-TTTTTCGGAAACTATTGTAGAAAAATAGCATCCAACTGTGAGCTTT
1 ACCATCTTCTCAAAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCATCCAGCTGGGAGCTTT
* *
50806930 TTTCAGTACTTTTGCTGACAGTGCATCCTACTTGAAGCATTTTT
66 TTTCAGTACTTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTT
50806974 GAACACAAGT
Statistics
Matches: 304, Mismatches: 53, Indels: 6
0.84 0.15 0.02
Matches are distributed among these distances:
124 1 0.00
125 130 0.43
126 172 0.57
127 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.15, T:0.41
Consensus pattern (126 bp):
ACCATCTTCTCAAAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCATCCAGCTGGGAGCTTT
TTTCAGTACTTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTTTACCATATTTTTTTAGA
Found at i:50806935 original size:251 final size:251
Alignment explanation
Indices: 50806489--50806973 Score: 647
Period size: 251 Copynumber: 1.9 Consensus size: 251
50806479 GTTAAGCAGG
* * *
50806489 ACCATCTTCTCAAAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCATCTAGCTGGGAGCTTT
1 ACCATCTTCTCAAAATTATTTTTTAAGAAACTACTGTAGAAAAAGAACATCTAGCTGGGAACTTT
* ** * * *
50806554 TTTAGTACTTTTGCTGACAATGTGTCCTGGTTGAAGTGTTTTTTACCTTATTTTTTCAGAATCAT
66 TTTAGTACTTTTACTGACAATGCATCCTGCTTGAAGCGTTTTTTACCATATTTTTTCAGAATCAT
* * **
50806619 CTTTCCAAAATTATATTTCCAGAAATTACTTTAGAAAAAGAGCGTCCAGTTAGGAGCTGTTTTCA
131 CTTTCCAAAATTATATTTCCAGAAACTACTTTAGAAAAAGAGCATCCAACTAGGAGCTGTTTTCA
* *
50806684 GTACTTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTTTACCCTATTTTTTTAGA
196 GTACTTTTGCTGACAGTGCATCCTACTTGAAGCATTTTTTACCCTATTTTTTTAGA
* * **
50806740 ACCATCTTTTTAAAATTATTTTTTAAGAAACTACTGTAGAAAAAGAATGTCTAGCTGGGAACTTT
1 ACCATCTTCTCAAAATTATTTTTTAAGAAACTACTGTAGAAAAAGAACATCTAGCTGGGAAC-TT
* * *
50806805 TTTTAGTACTTTTACTGATAGTGCATCCTGCTTGAAGCGTTTTTTACCATATTTTTTTAGAA-CT
65 TTTTAGTACTTTTACTGACAATGCATCCTGCTTGAAGCGTTTTTTACCATATTTTTTCAGAATC-
* * * * *
50806869 ATC-TTCTTAAAATTAT-TTTTCGGAAACTA-TTGTAGAAAAATAGCATCCAACT-GTGAGCTTT
129 ATCTTTC-CAAAATTATATTTCCAGAAACTACTT-TAGAAAAAGAGCATCCAACTAG-GAGCTGT
50806930 TTTCAGTACTTTTGCTGACAGTGCATCCTACTTGAAGCATTTTT
191 TTTCAGTACTTTTGCTGACAGTGCATCCTACTTGAAGCATTTTT
50806974 GAACACAAGT
Statistics
Matches: 202, Mismatches: 27, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
250 3 0.01
251 133 0.66
252 66 0.33
ACGTcount: A:0.28, C:0.16, G:0.15, T:0.41
Consensus pattern (251 bp):
ACCATCTTCTCAAAATTATTTTTTAAGAAACTACTGTAGAAAAAGAACATCTAGCTGGGAACTTT
TTTAGTACTTTTACTGACAATGCATCCTGCTTGAAGCGTTTTTTACCATATTTTTTCAGAATCAT
CTTTCCAAAATTATATTTCCAGAAACTACTTTAGAAAAAGAGCATCCAACTAGGAGCTGTTTTCA
GTACTTTTGCTGACAGTGCATCCTACTTGAAGCATTTTTTACCCTATTTTTTTAGA
Found at i:50812728 original size:18 final size:18
Alignment explanation
Indices: 50812705--50812745 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
50812695 AAAATATATC
50812705 AACTAAAAATCAAATTTA
1 AACTAAAAATCAAATTTA
50812723 AACTAAAAATCAAATTTA
1 AACTAAAAATCAAATTTA
50812741 AACTA
1 AACTA
50812746 TTTATAGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.61, C:0.12, G:0.00, T:0.27
Consensus pattern (18 bp):
AACTAAAAATCAAATTTA
Found at i:50813815 original size:17 final size:17
Alignment explanation
Indices: 50813793--50813836 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
50813783 TTAAATTATC
50813793 CATTAAATATTTAAATT
1 CATTAAATATTTAAATT
*
50813810 CATTAAATATTTATATT
1 CATTAAATATTTAAATT
* *
50813827 TAGTAAATAT
1 CATTAAATAT
50813837 AAAAATATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (17 bp):
CATTAAATATTTAAATT
Found at i:50825184 original size:3 final size:3
Alignment explanation
Indices: 50825169--50825255 Score: 66
Period size: 3 Copynumber: 29.0 Consensus size: 3
50825159 TTTAAGATTT
* * ** * * * * * *
50825169 TTA TTA TTG TTA TTA TTA TTA TTA ATA CCA TCA TCA TCA TCA TCA TCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
50825217 TTA TTA TTA TTA TTA TTA ATA CTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
50825256 AATTGTTTTA
Statistics
Matches: 74, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 74 1.00
ACGTcount: A:0.34, C:0.10, G:0.01, T:0.54
Consensus pattern (3 bp):
TTA
Found at i:50834226 original size:6 final size:6
Alignment explanation
Indices: 50834215--50834241 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
50834205 AAGTGACTTT
50834215 TTATAA TTATAA TTATAA TTATAA TTA
1 TTATAA TTATAA TTATAA TTATAA TTA
50834242 CTATGTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TTATAA
Found at i:50834369 original size:18 final size:15
Alignment explanation
Indices: 50834327--50834369 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 15
50834317 CGTTATGTCT
50834327 GCGACCGCGACAAAC
1 GCGACCGCGACAAAC
50834342 GCGA-CGCGACTGAAAAC
1 GCGACCGCGAC---AAAC
50834359 GCGACCGCGAC
1 GCGACCGCGAC
50834370 CGCAATTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 6 0.25
15 4 0.17
17 8 0.33
18 6 0.25
ACGTcount: A:0.30, C:0.37, G:0.30, T:0.02
Consensus pattern (15 bp):
GCGACCGCGACAAAC
Found at i:50837577 original size:25 final size:24
Alignment explanation
Indices: 50837549--50837611 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
50837539 AATAAAGATA
*
50837549 AAATATTTAAATCCAAATATTTTAC
1 AAATATTAAAAT-CAAATATTTTAC
** *
50837574 AAATTAAAAAAATCAAATATTTTGC
1 AAA-TATTAAAATCAAATATTTTAC
50837599 AAATATTCAAAAT
1 AAATATT-AAAAT
50837612 TTACTCTACC
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
24 2 0.07
25 22 0.73
26 6 0.20
ACGTcount: A:0.54, C:0.10, G:0.02, T:0.35
Consensus pattern (24 bp):
AAATATTAAAATCAAATATTTTAC
Found at i:50842195 original size:7 final size:7
Alignment explanation
Indices: 50842183--50842209 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
50842173 ATTTCATATT
50842183 AATTTTA
1 AATTTTA
50842190 AATTTTA
1 AATTTTA
50842197 AATTTTA
1 AATTTTA
50842204 AATTTT
1 AATTTT
50842210 TTTCTATAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (7 bp):
AATTTTA
Found at i:50845790 original size:27 final size:25
Alignment explanation
Indices: 50845760--50845816 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 25
50845750 TCATTAAGTC
*
50845760 AATTAATATATATATTTTAAAATAATT
1 AATTAATATAAAT-TTTTAAAA-AATT
**
50845787 AATTTTTATAAATTTTTAAAAAATT
1 AATTAATATAAATTTTTAAAAAATT
50845812 -ATTAA
1 AATTAA
50845817 AATTTTAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
24 3 0.12
25 4 0.16
26 8 0.32
27 10 0.40
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (25 bp):
AATTAATATAAATTTTTAAAAAATT
Found at i:50845835 original size:20 final size:19
Alignment explanation
Indices: 50845795--50845838 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
50845785 TTAATTTTTA
* *
50845795 TAAATTTTTAAAAAATTAT
1 TAAAATTTTAAAAAATAAT
50845814 TAAAATTTTAAAAAATAAAT
1 TAAAATTTTAAAAAAT-AAT
50845834 TAAAA
1 TAAAA
50845839 ATTAATATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
TAAAATTTTAAAAAATAAT
Found at i:50845843 original size:19 final size:19
Alignment explanation
Indices: 50845802--50845843 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
50845792 TTATAAATTT
* *
50845802 TTAAAAAATTATTAAAATT
1 TTAAAAAATAATTAAAATA
50845821 TTAAAAAATAAATTAAAA-A
1 TTAAAAAAT-AATTAAAATA
50845840 TTAA
1 TTAA
50845844 TATAAAATCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
TTAAAAAATAATTAAAATA
Found at i:50846134 original size:19 final size:20
Alignment explanation
Indices: 50846098--50846135 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
50846088 TTTTTTTGAA
**
50846098 ATTTTTAAACTTTAATTAAT
1 ATTTTTAAAAGTTAATTAAT
50846118 ATTTTTAAAAGTT-ATTAA
1 ATTTTTAAAAGTTAATTAA
50846136 AAACATTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (20 bp):
ATTTTTAAAAGTTAATTAAT
Found at i:50846515 original size:8 final size:8
Alignment explanation
Indices: 50846496--50846538 Score: 50
Period size: 8 Copynumber: 5.1 Consensus size: 8
50846486 AAGGTTCAAA
50846496 TTCCACTTT
1 TTCCA-TTT
50846505 TTCCATTT
1 TTCCATTT
*
50846513 TTCCCTTTT
1 TT-CCATTT
50846522 TTCCATTT
1 TTCCATTT
*
50846530 TTCCCTTT
1 TTCCATTT
50846538 T
1 T
50846539 ATTTTTCTGC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
8 18 0.60
9 12 0.40
ACGTcount: A:0.07, C:0.30, G:0.00, T:0.63
Consensus pattern (8 bp):
TTCCATTT
Found at i:50846522 original size:17 final size:17
Alignment explanation
Indices: 50846502--50846538 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
50846492 CAAATTCCAC
50846502 TTTTTCCATTTTTCCCT
1 TTTTTCCATTTTTCCCT
50846519 TTTTTCCATTTTTCCCT
1 TTTTTCCATTTTTCCCT
50846536 TTT
1 TTT
50846539 ATTTTTCTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.05, C:0.27, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTTTCCATTTTTCCCT
Found at i:50848617 original size:14 final size:14
Alignment explanation
Indices: 50848598--50848625 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
50848588 AGAGAACTCT
50848598 ATTATGCAATTAAG
1 ATTATGCAATTAAG
50848612 ATTATGCAATTAAG
1 ATTATGCAATTAAG
50848626 TCCTGGATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.14, T:0.36
Consensus pattern (14 bp):
ATTATGCAATTAAG
Found at i:50853887 original size:108 final size:108
Alignment explanation
Indices: 50853685--50853901 Score: 373
Period size: 108 Copynumber: 2.0 Consensus size: 108
50853675 ACATTAGCAT
50853685 TTGGCCAAAGCAACCTTCCACAAAGATCACCTCGTAAGAGATTTCAAGACTATCAGCAGCCAAGG
1 TTGGCCAAAGCAACCTTCCACAAAGATCACCTCGTAAGAGATTTCAAGACTATCAGCAGCCAAGG
*
50853750 ACCATCAACAACCAACGACTAGTTGAGAACTCCAAACCCGACA
66 ACCATCAACAACCAACGACCAGTTGAGAACTCCAAACCCGACA
*
50853793 TTGGCCAAAGCAACCTTCCACAAAGATCACCTCGTAAGAGATTTCAAGACTATCAGCAGTCAAGG
1 TTGGCCAAAGCAACCTTCCACAAAGATCACCTCGTAAGAGATTTCAAGACTATCAGCAGCCAAGG
* * *
50853858 ACCATTAACAACCCAA-GACCAGTTTAGAACTCCAAACCTGACA
66 ACCATCAACAA-CCAACGACCAGTTGAGAACTCCAAACCCGACA
50853901 T
1 T
50853902 AACACCAATA
Statistics
Matches: 103, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
108 99 0.96
109 4 0.04
ACGTcount: A:0.38, C:0.29, G:0.15, T:0.18
Consensus pattern (108 bp):
TTGGCCAAAGCAACCTTCCACAAAGATCACCTCGTAAGAGATTTCAAGACTATCAGCAGCCAAGG
ACCATCAACAACCAACGACCAGTTGAGAACTCCAAACCCGACA
Found at i:50862656 original size:4 final size:4
Alignment explanation
Indices: 50862647--50862673 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
50862637 AAAAGAAACG
50862647 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
50862674 ATTGTAACTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:50865110 original size:11 final size:11
Alignment explanation
Indices: 50865096--50865125 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
50865086 AATAATATCC
50865096 AAATAAATTTA
1 AAATAAATTTA
50865107 AAATAAATTTA
1 AAATAAATTTA
50865118 AAATAAAT
1 AAATAAAT
50865126 ATTAGTAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAAATTTA
Found at i:50866642 original size:5 final size:6
Alignment explanation
Indices: 50866625--50866655 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
50866615 ACTGAATTTG
50866625 ATTTATT ATTTTT ATTTTT ATTTTT ATTTTT
1 ATTT-TT ATTTTT ATTTTT ATTTTT ATTTTT
50866656 TGGTTTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 20 0.83
7 4 0.17
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
ATTTTT
Found at i:50867224 original size:132 final size:132
Alignment explanation
Indices: 50867065--50867390 Score: 428
Period size: 132 Copynumber: 2.5 Consensus size: 132
50867055 TTTACACTTG
* ** *
50867065 AAGATAAGATTTGCCGT-TTTGAATCTGCTCCGCTACTACTTAGATAGACAAGATCTG-TAAT-T
1 AAGATAAGATTTGTCGTCTTTG-ATCTGCTCCGCTACTACTTAGGGAGATAAGATCTGCT-ATCT
* *
50867127 TCCAACCTATTCCACTGCTGAC-CAGTGG-GACAAGGCTCGGTGACTTAAGTCTGCTTCCCACTA
64 T-CAACCTACTCCACTGCTG-CTCAG-GGAGACAAGGCTCGGTGACTTAAATCTGCTTCCCACTA
50867190 TCCTGAA
126 TCCTGAA
* *
50867197 AAGATAAGATTTGTCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCTATCTTC
1 AAGATAAGATTTGTCGTCTTTGATCTGCTCCGCTACTACTTAGGGAGATAAGATCTGCTATCTTC
*** * * *
50867262 AACCTACTCTGGTGCTGCTCAGGGAGACAAGGTTCGGTGGCTTAAATCTGCTTCCCACTATCTTG
66 AACCTACTCCACTGCTGCTCAGGGAGACAAGGCTCGGTGACTTAAATCTGCTTCCCACTATCCTG
*
50867327 GA
131 AA
*
50867329 AAGATAAGATTTGTCGTCTTTGATCTGCTCCGCTACAACTTAGGGAGATAAGATCTGCTATC
1 AAGATAAGATTTGTCGTCTTTGATCTGCTCCGCTACTACTTAGGGAGATAAGATCTGCTATC
50867391 CTTACTGATC
Statistics
Matches: 171, Mismatches: 18, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
131 3 0.02
132 161 0.94
133 7 0.04
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (132 bp):
AAGATAAGATTTGTCGTCTTTGATCTGCTCCGCTACTACTTAGGGAGATAAGATCTGCTATCTTC
AACCTACTCCACTGCTGCTCAGGGAGACAAGGCTCGGTGACTTAAATCTGCTTCCCACTATCCTG
AA
Found at i:50869219 original size:5 final size:6
Alignment explanation
Indices: 50869202--50869232 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
50869192 ACTGAATTTG
50869202 ATTTATT ATTTTT ATTTTT ATTTTT ATTTTT
1 ATTT-TT ATTTTT ATTTTT ATTTTT ATTTTT
50869233 TGGTTTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 20 0.83
7 4 0.17
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
ATTTTT
Found at i:50869802 original size:132 final size:132
Alignment explanation
Indices: 50869642--50869967 Score: 401
Period size: 132 Copynumber: 2.5 Consensus size: 132
50869632 TTTACACTTG
* * *
50869642 AAGATAAGATTTGCCGT-TTTGAATCTGCTCCGCTACTACTTCGATAGACAAGATCTG-TAAT-T
1 AAGATAAGATTTGTCGTCTTTG-ATCTGCTCCGCTACTACTTAGAGAGACAAGATCTGCT-ATCT
* *
50869704 TCCAACCTATTCCACTGCTGAC-CAGTGG-GACAAGGCTCGGTGACTTAAGTCTGCTTCCCACTA
64 T-CAACCTACTCCACTGCTG-CTCAG-GGAGACAAGGCTCGGTGACTTAAATCTGCTTCCCACTA
50869767 TCCTGAA
126 TCCTGAA
* * * *
50869774 AAGATAAGATTTGTCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCTATCTTC
1 AAGATAAGATTTGTCGTCTTTGATCTGCTCCGCTACTACTTAGAGAGACAAGATCTGCTATCTTC
*** * * *
50869839 AACCTACTCTGGTGCTGCTCAGGGAGACAAGGTTCGGTGGCTTAAATCTGCTTCCCACTATCTTG
66 AACCTACTCCACTGCTGCTCAGGGAGACAAGGCTCGGTGACTTAAATCTGCTTCCCACTATCCTG
*
50869904 GA
131 AA
* * *
50869906 AAGATAAGATTTGTCGTCTTTGATCTGCTCCGCTACAACTTAGGGAGATAAGATCTGCTATC
1 AAGATAAGATTTGTCGTCTTTGATCTGCTCCGCTACTACTTAGAGAGACAAGATCTGCTATC
50869968 CTTACTGATC
Statistics
Matches: 170, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
131 3 0.02
132 160 0.94
133 7 0.04
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (132 bp):
AAGATAAGATTTGTCGTCTTTGATCTGCTCCGCTACTACTTAGAGAGACAAGATCTGCTATCTTC
AACCTACTCCACTGCTGCTCAGGGAGACAAGGCTCGGTGACTTAAATCTGCTTCCCACTATCCTG
AA
Found at i:50878568 original size:25 final size:25
Alignment explanation
Indices: 50878530--50878626 Score: 65
Period size: 24 Copynumber: 4.0 Consensus size: 25
50878520 TTCCTGATAT
**
50878530 ATGGCTATCCGGAGCTTCCCGATTA
1 ATGGCTATTAGGAGCTTCCCGATTA
* *
50878555 ATGGCTATTAGGAGCTACCAG-TTA
1 ATGGCTATTAGGAGCTTCCCGATTA
* ** * *
50878579 TTGGCTCGTATGAGCTTCCTGATT-
1 ATGGCTATTAGGAGCTTCCCGATTA
* * *
50878603 ATGACTCTTATGAGCTTCCC-ATTA
1 ATGGCTATTAGGAGCTTCCCGATTA
50878627 TATAGTCTGA
Statistics
Matches: 56, Mismatches: 14, Indels: 5
0.75 0.19 0.07
Matches are distributed among these distances:
23 3 0.05
24 34 0.61
25 19 0.34
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.34
Consensus pattern (25 bp):
ATGGCTATTAGGAGCTTCCCGATTA
Found at i:50878645 original size:25 final size:25
Alignment explanation
Indices: 50878615--50878681 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 25
50878605 GACTCTTATG
* *
50878615 AGCTTCCCATTATATAGTCTGA-ATA
1 AGCTTCCCATTATAT-GGCTCACATA
* *
50878640 AGCTTCCCGTTACATGGCTCACATA
1 AGCTTCCCATTATATGGCTCACATA
*
50878665 AGCTTCTCATTATATGG
1 AGCTTCCCATTATATGG
50878682 ATCGAGAGAG
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
24 4 0.12
25 30 0.88
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (25 bp):
AGCTTCCCATTATATGGCTCACATA
Found at i:50881093 original size:17 final size:17
Alignment explanation
Indices: 50881071--50881108 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
50881061 ACACTTTGGG
50881071 ATTCTAATTAATGCAAT
1 ATTCTAATTAATGCAAT
50881088 ATTCTAATTAATGCAAT
1 ATTCTAATTAATGCAAT
50881105 ATTC
1 ATTC
50881109 AAATCCCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.39, C:0.13, G:0.05, T:0.42
Consensus pattern (17 bp):
ATTCTAATTAATGCAAT
Found at i:50888564 original size:31 final size:31
Alignment explanation
Indices: 50888528--50888589 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
50888518 AGATAATTTT
50888528 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
50888559 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
50888590 TAATTTTCCC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.42
Consensus pattern (31 bp):
AAAGAGTTTTATTAGGATTCAATTACTCTTG
Found at i:50889147 original size:32 final size:33
Alignment explanation
Indices: 50889106--50889178 Score: 96
Period size: 32 Copynumber: 2.3 Consensus size: 33
50889096 TATTCTTTTA
*
50889106 AAAAAAAAAG-AAAAAAGCGCAAAAAAACCCGC
1 AAAAAAAAAGCAAAAAAGCCCAAAAAAACCCGC
* * *
50889138 AAAAGAAAAGCCAAAAAGCCCAAAAAAA-CCAC
1 AAAAAAAAAGCAAAAAAGCCCAAAAAAACCCGC
50889170 AAAAAAAAA
1 AAAAAAAAA
50889179 AGTTACCTAC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
32 20 0.57
33 15 0.43
ACGTcount: A:0.71, C:0.19, G:0.10, T:0.00
Consensus pattern (33 bp):
AAAAAAAAAGCAAAAAAGCCCAAAAAAACCCGC
Found at i:50889180 original size:33 final size:32
Alignment explanation
Indices: 50889105--50889180 Score: 91
Period size: 33 Copynumber: 2.3 Consensus size: 32
50889095 TTATTCTTTT
*
50889105 AAAAAAAAAAGAAAAAAGCGCAAAAAAACCCG
1 AAAAAAAAAAGAAAAAAGCCCAAAAAAACCCG
* * *
50889137 CAAAAGAAAAGCCAAAAAGCCCAAAAAAACCAC-
1 AAAAAAAAAAG-AAAAAAGCCCAAAAAAACC-CG
50889170 AAAAAAAAAAG
1 AAAAAAAAAAG
50889181 TTACCTACCT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
32 9 0.25
33 26 0.72
34 1 0.03
ACGTcount: A:0.71, C:0.18, G:0.11, T:0.00
Consensus pattern (32 bp):
AAAAAAAAAAGAAAAAAGCCCAAAAAAACCCG
Found at i:50894756 original size:31 final size:31
Alignment explanation
Indices: 50894720--50894781 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
50894710 AGATAATTTT
50894720 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
50894751 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
50894782 TAATTTGCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.42
Consensus pattern (31 bp):
AAAGAGTTTTATTAGGATTCAATTACTCTTG
Found at i:50896470 original size:21 final size:21
Alignment explanation
Indices: 50896444--50896483 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
50896434 ATACGCCAAC
50896444 AGAAGCTCATAAGAGCTGAAT
1 AGAAGCTCATAAGAGCTGAAT
50896465 AGAAGCTCATAAGAGCTGA
1 AGAAGCTCATAAGAGCTGA
50896484 TCCACCCAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.42, C:0.15, G:0.25, T:0.17
Consensus pattern (21 bp):
AGAAGCTCATAAGAGCTGAAT
Found at i:50899130 original size:27 final size:27
Alignment explanation
Indices: 50899092--50899145 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
50899082 CTTGGGTCAC
50899092 ATGGTGCTAGGCCATGTATTAGGCTAT
1 ATGGTGCTAGGCCATGTATTAGGCTAT
50899119 ATGGTGCTAGGCCATGTATTAGGCTAT
1 ATGGTGCTAGGCCATGTATTAGGCTAT
50899146 GTAACTGTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.22, C:0.15, G:0.30, T:0.33
Consensus pattern (27 bp):
ATGGTGCTAGGCCATGTATTAGGCTAT
Found at i:50903038 original size:15 final size:15
Alignment explanation
Indices: 50903018--50903064 Score: 51
Period size: 17 Copynumber: 3.0 Consensus size: 15
50903008 TGGTTGAAAA
50903018 AAATAAAATATATAT
1 AAATAAAATATATAT
*
50903033 AAATAATAAAAATATAT
1 AAAT-A-AAATATATAT
50903050 AAA-AAAAGTATATAT
1 AAATAAAA-TATATAT
50903065 TGGGTATGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
14 3 0.11
15 11 0.41
16 1 0.04
17 12 0.44
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (15 bp):
AAATAAAATATATAT
Found at i:50903049 original size:17 final size:18
Alignment explanation
Indices: 50903019--50903052 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
50903009 GGTTGAAAAA
50903019 AATAAAATATATATAAAT
1 AATAAAATATATATAAAT
50903037 AATAAAA-ATATATAAA
1 AATAAAATATATATAAA
50903053 AAAAGTATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
AATAAAATATATATAAAT
Found at i:50913784 original size:55 final size:56
Alignment explanation
Indices: 50913716--50913880 Score: 228
Period size: 55 Copynumber: 3.0 Consensus size: 56
50913706 ATACATAATA
* * *
50913716 AAACTAGTAAGCATGACTATGTACATGCATGCTCAATTTTTATATGTGCACTAT-G
1 AAACTAGTAAGCATCACTATGTACATGCATGCTCTATTTTGATATGTGCACTATAG
*
50913771 AAACTAGTAAGCATCACTATGTACATGAATGCTCTATTTTGATATGTGCACT-TAG
1 AAACTAGTAAGCATCACTATGTACATGCATGCTCTATTTTGATATGTGCACTATAG
* * * *
50913826 AAACTAATGATCATCACTATGTACATGCATGC-CTTATTATGATATGTGCACTATA
1 AAACTAGTAAGCATCACTATGTACATGCATGCTC-TATTTTGATATGTGCACTATA
50913881 TACATTTCCA
Statistics
Matches: 98, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
54 2 0.02
55 94 0.96
56 2 0.02
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (56 bp):
AAACTAGTAAGCATCACTATGTACATGCATGCTCTATTTTGATATGTGCACTATAG
Found at i:50913907 original size:59 final size:55
Alignment explanation
Indices: 50913725--50913911 Score: 180
Period size: 55 Copynumber: 3.3 Consensus size: 55
50913715 AAAACTAGTA
* * * * * * * *
50913725 AGCATGACTATGTACATGCATGCTCAATTTTTATATGTGCAC-TATGAAACTAGTA
1 AGCATCACTATGTACATGAATGCTCTATTATGATATGTGCACTTA-GAAACCAATG
* *
50913780 AGCATCACTATGTACATGAATGCTCTATTTTGATATGTGCACTTAGAAACTAATG
1 AGCATCACTATGTACATGAATGCTCTATTATGATATGTGCACTTAGAAACCAATG
* * * *
50913835 ATCATCACTATGTACATGCATGC-CTTATTATGATATGTGCACTATATACATTTCCAATG
1 AGCATCACTATGTACATGAATGCTC-TATTATGATATGTGCACT-TAGA-A--ACCAATG
50913894 AGCATCACTATGTACATG
1 AGCATCACTATGTACATG
50913912 GTTGTTACAT
Statistics
Matches: 113, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
54 1 0.01
55 84 0.74
56 5 0.04
57 1 0.01
59 22 0.19
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (55 bp):
AGCATCACTATGTACATGAATGCTCTATTATGATATGTGCACTTAGAAACCAATG
Found at i:50924914 original size:23 final size:24
Alignment explanation
Indices: 50924878--50924969 Score: 100
Period size: 23 Copynumber: 3.9 Consensus size: 24
50924868 GGACTCATCA
50924878 CAGCTCGTAT-GAGCTTACCGTTT
1 CAGCTCGTATAGAGCTTACCGTTT
50924901 CAGCTC-TATAGAGCTTACCGTTT
1 CAGCTCGTATAGAGCTTACCGTTT
* * *
50924924 TAGTTTG-ATAGAGCTTACCGTTTAT
1 CAGCTCGTATAGAGCTTACCG-TT-T
* *
50924949 CAGCTCGAAAAGAGCTTACCG
1 CAGCTCGTATAGAGCTTACCG
50924970 ATCATGGCTC
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
22 3 0.05
23 35 0.61
24 2 0.04
25 5 0.09
26 12 0.21
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.33
Consensus pattern (24 bp):
CAGCTCGTATAGAGCTTACCGTTT
Found at i:50925152 original size:20 final size:20
Alignment explanation
Indices: 50925118--50925167 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
50925108 CTATGTAATT
50925118 ATATGGATGAA-TTACCATTG
1 ATATGGAT-AAGTTACCATTG
* **
50925138 ATATGTATAAGTTACGGTTG
1 ATATGGATAAGTTACCATTG
50925158 ATATGGATAA
1 ATATGGATAA
50925168 ATTTTTGTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 2 0.08
20 23 0.92
ACGTcount: A:0.36, C:0.06, G:0.22, T:0.36
Consensus pattern (20 bp):
ATATGGATAAGTTACCATTG
Found at i:50925792 original size:11 final size:11
Alignment explanation
Indices: 50925778--50925877 Score: 59
Period size: 11 Copynumber: 9.4 Consensus size: 11
50925768 GAGAAATTTA
50925778 AGAGGAAATTG
1 AGAGGAAATTG
*
50925789 AGAGCAAATTG
1 AGAGGAAATTG
**
50925800 AGATTAAA-T-
1 AGAGGAAATTG
* *
50925809 A-TGG-ATTTG
1 AGAGGAAATTG
50925818 AGA-GAAATTTG
1 AGAGGAAA-TTG
*
50925829 -GAAGGAATTTG
1 AG-AGGAAATTG
*
50925840 AGAGCAAATTG
1 AGAGGAAATTG
*
50925851 AGAGCAAATTG
1 AGAGGAAATTG
50925862 AGAGGAAATTTG
1 AGAGGAAA-TTG
50925874 AGAG
1 AGAG
50925878 AGGATTAGTT
Statistics
Matches: 67, Mismatches: 13, Indels: 17
0.69 0.13 0.18
Matches are distributed among these distances:
7 1 0.01
8 1 0.01
9 3 0.04
10 3 0.04
11 48 0.72
12 11 0.16
ACGTcount: A:0.43, C:0.03, G:0.30, T:0.24
Consensus pattern (11 bp):
AGAGGAAATTG
Found at i:50925798 original size:51 final size:51
Alignment explanation
Indices: 50925754--50925853 Score: 148
Period size: 51 Copynumber: 2.0 Consensus size: 51
50925744 AATTATTTAA
50925754 AAATAGGGATTTAAGAGAAATTTA-AGAGGAAATTGAGAGCAAATTGAGATT
1 AAATAGGGATTTAAGAGAAATTTAGA-AGGAAATTGAGAGCAAATTGAGATT
* * * *
50925805 AAATATGGATTTGAGAGAAATTTGGAAGGAATTTGAGAGCAAATTGAGA
1 AAATAGGGATTTAAGAGAAATTTAGAAGGAAATTGAGAGCAAATTGAGA
50925854 GCAAATTGAG
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 43 0.98
52 1 0.02
ACGTcount: A:0.45, C:0.02, G:0.27, T:0.26
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAATTTAGAAGGAAATTGAGAGCAAATTGAGATT
Found at i:50926729 original size:16 final size:16
Alignment explanation
Indices: 50926705--50926735 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
50926695 CAGTTTTTTT
50926705 AAAAAAAAAAGAAAAG
1 AAAAAAAAAAGAAAAG
*
50926721 AAAAGAAAAAGAAAA
1 AAAAAAAAAAGAAAA
50926736 ATGAATGAAG
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:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAGAAAAG
Found at i:50926951 original size:18 final size:17
Alignment explanation
Indices: 50926917--50926966 Score: 55
Period size: 20 Copynumber: 2.7 Consensus size: 17
50926907 TTTTTTTAAA
50926917 ATTAAAAAATTAAAATATAT
1 ATTAAAAAATT--AATAT-T
50926937 ATTAAAAAATTAATATT
1 ATTAAAAAATTAATATT
*
50926954 TTTAAAAACATTA
1 ATTAAAAA-ATTA
50926967 TAAATCTGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 8 0.29
18 9 0.32
20 11 0.39
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (17 bp):
ATTAAAAAATTAATATT
Done.