Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 147 of 211
Found at i:43791880 original size:127 final size:126
Alignment explanation
Indices: 43791481--43791879 Score: 602
Period size: 126 Copynumber: 3.2 Consensus size: 126
43791471 TAAGGCCAAA
* * * *
43791481 CAGGAACTACTGTAGAAAAAGAACATCCACGTGTGAGCCTTTTTCAGTAATTTTGCTGACAGTGC
1 CAGGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
* * *
43791546 ATCCTGCTTGAAGCATTTTTGACACTATTTGTTCAGAACCGTCTTCTTAAAATTATTTTTT
66 ATCTTGCTTGAAGCGTTTTTTACACTATTTGTTCAGAACCGTCTTCTTAAAATTATTTTTT
* ** *
43791607 CAGGAACTACTGTAGAAAAAGAGCGTCCACATGGGAGCTTTTTTTTGTAATTTTGCTGACAGTAC
1 CAGGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
*
43791672 ATCTTGCTTGAAGCGTTTTTTTACACTATTTGTTTAGAACCGTCTTCTTAAAATTATTTTTT
66 ATCTTGCTTGAAGCG-TTTTTTACACTATTTGTTCAGAACCGTCTTCTTAAAATTATTTTTT
* * * *
43791734 CAGGAACTACTATATAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAATGT
1 CAGGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
* *
43791799 ATCTTGCTTGAAGCGTTTTTTACATTATCTT-TTCAGAACCGTCTTCTCAAAATTATTTTTT
66 ATCTTGCTTGAAGCGTTTTTTACACTAT-TTGTTCAGAACCGTCTTCTTAAAATTATTTTTT
*
43791860 CAGAAACTACTGTAGAAAAA
1 CAGGAACTACTGTAGAAAAA
43791880 AAAACAAAAT
Statistics
Matches: 245, Mismatches: 26, Indels: 4
0.89 0.09 0.01
Matches are distributed among these distances:
126 127 0.52
127 118 0.48
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (126 bp):
CAGGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
ATCTTGCTTGAAGCGTTTTTTACACTATTTGTTCAGAACCGTCTTCTTAAAATTATTTTTT
Found at i:43791991 original size:33 final size:32
Alignment explanation
Indices: 43791929--43792041 Score: 111
Period size: 33 Copynumber: 3.5 Consensus size: 32
43791919 CTAAACACAA
* ** *
43791929 AATT-ATTTTTAAAAAAACTAAACCATAATTT
1 AATTAATTTTTTAAAACCCTAAACCCTAATTT
*
43791960 AATTAATTTTCTTAAAACCTTAAACCCTAATTT
1 AATTAATTTT-TTAAAACCCTAAACCCTAATTT
* * * *
43791993 AATTTATTTATTTAAAACCCAAAAACCTAGTTT
1 AATTAATTT-TTTAAAACCCTAAACCCTAATTT
*
43792026 AATTAATTTTTAAAAA
1 AATTAATTTTTTAAAA
43792042 AAACTCTAAA
Statistics
Matches: 67, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
31 4 0.06
32 11 0.16
33 51 0.76
34 1 0.01
ACGTcount: A:0.46, C:0.12, G:0.01, T:0.41
Consensus pattern (32 bp):
AATTAATTTTTTAAAACCCTAAACCCTAATTT
Found at i:43794358 original size:14 final size:13
Alignment explanation
Indices: 43794303--43794364 Score: 79
Period size: 13 Copynumber: 4.8 Consensus size: 13
43794293 TAGCTTCTTC
*
43794303 TTTTCAGAAGTGT
1 TTTTCAAAAGTGT
*
43794316 TTTTCAAAAGTAT
1 TTTTCAAAAGTGT
43794329 TTTTCAAAAGTGT
1 TTTTCAAAAGTGT
* *
43794342 TTTTCAAAAATGC
1 TTTTCAAAAGTGT
*
43794355 TTTTGAAAAG
1 TTTTCAAAAG
43794365 CCAAAAATTT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 42 1.00
ACGTcount: A:0.34, C:0.08, G:0.15, T:0.44
Consensus pattern (13 bp):
TTTTCAAAAGTGT
Found at i:43796664 original size:2 final size:2
Alignment explanation
Indices: 43796657--43796682 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
43796647 AAATTGTTTC
43796657 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
43796683 TCATATAACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:43799874 original size:41 final size:41
Alignment explanation
Indices: 43799829--43799908 Score: 97
Period size: 41 Copynumber: 2.0 Consensus size: 41
43799819 ATACATCGGT
* * * *
43799829 ACAAATACTACCATGCTCGAAGCCTGATATAATACACCAAC
1 ACAAAGACTACCAGGCACAAAGCCTGATATAATACACCAAC
* * *
43799870 ACAAAGCCTACTAGGCACAAAGCCTGTTATAATACACCA
1 ACAAAGACTACCAGGCACAAAGCCTGATATAATACACCA
43799909 GCACGAAGCC
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.41, C:0.29, G:0.11, T:0.19
Consensus pattern (41 bp):
ACAAAGACTACCAGGCACAAAGCCTGATATAATACACCAAC
Found at i:43799917 original size:66 final size:66
Alignment explanation
Indices: 43799832--43799986 Score: 177
Period size: 66 Copynumber: 2.3 Consensus size: 66
43799822 CATCGGTACA
* * *
43799832 AATACTACCATGCTCGAAGCCTGATATAATACACCAACACAAAGCCTACTAG-GCACAAAGCCTG
1 AATAC-ACCA-GCACGAAGCCTGATATAATACACCAACACAAAGCCGACT-GTACACAAAGCCTG
*
43799896 TTAT
63 ATAT
** * * *
43799900 AATACACCAGCACGAAGCCTGATATAATACACCGGCACGAAGCCGGCTGTACACAGAGCCTGATA
1 AATACACCAGCACGAAGCCTGATATAATACACCAACACAAAGCCGACTGTACACAAAGCCTGATA
43799965 T
66 T
* *
43799966 AATACACTAGCACAAAGCCTG
1 AATACACCAGCACGAAGCCTG
43799987 TTAGGCACAG
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
65 1 0.01
66 65 0.87
67 4 0.05
68 5 0.07
ACGTcount: A:0.37, C:0.28, G:0.17, T:0.17
Consensus pattern (66 bp):
AATACACCAGCACGAAGCCTGATATAATACACCAACACAAAGCCGACTGTACACAAAGCCTGATA
T
Found at i:43799918 original size:25 final size:25
Alignment explanation
Indices: 43799884--43799943 Score: 93
Period size: 25 Copynumber: 2.4 Consensus size: 25
43799874 AGCCTACTAG
* *
43799884 GCACAAAGCCTGTTATAATACACCA
1 GCACGAAGCCTGATATAATACACCA
*
43799909 GCACGAAGCCTGATATAATACACCG
1 GCACGAAGCCTGATATAATACACCA
43799934 GCACGAAGCC
1 GCACGAAGCC
43799944 GGCTGTACAC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.37, C:0.30, G:0.18, T:0.15
Consensus pattern (25 bp):
GCACGAAGCCTGATATAATACACCA
Found at i:43799972 original size:41 final size:40
Alignment explanation
Indices: 43799915--43800021 Score: 123
Period size: 41 Copynumber: 2.7 Consensus size: 40
43799905 ACCAGCACGA
*
43799915 AGCCTGATATAATACACCGGCACGAAGCCGGCTGTA-CACAG
1 AGCCTGATATAATACACCGGCACAAAGCCGG-T-TAGCACAG
** *
43799956 AGCCTGATATAATACACTAGCACAAAGCCTGTTAGGCACAG
1 AGCCTGATATAATACACCGGCACAAAGCCGGTTA-GCACAG
43799997 AGCCTGA-AT-AT-CACCGGCACAAAGC
1 AGCCTGATATAATACACCGGCACAAAGC
43800022 TTGCTAGGCA
Statistics
Matches: 58, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
38 12 0.21
39 4 0.07
40 3 0.05
41 39 0.67
ACGTcount: A:0.35, C:0.28, G:0.21, T:0.16
Consensus pattern (40 bp):
AGCCTGATATAATACACCGGCACAAAGCCGGTTAGCACAG
Found at i:43800030 original size:38 final size:38
Alignment explanation
Indices: 43799951--43800048 Score: 115
Period size: 38 Copynumber: 2.5 Consensus size: 38
43799941 GCCGGCTGTA
* *
43799951 CACAGAGCCTGATATAATACACTAGCACAAAGCCTGTTAGG
1 CACAGAGCCTGA-AT-AT-CACCAGCACAAAGCCTGCTAGG
* *
43799992 CACAGAGCCTGAATATCACCGGCACAAAGCTTGCTAGG
1 CACAGAGCCTGAATATCACCAGCACAAAGCCTGCTAGG
**
43800030 CACAGAGCCCAAATATCAC
1 CACAGAGCCTGAATATCAC
43800049 TGGAGCCCGA
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
38 35 0.69
39 2 0.04
40 2 0.04
41 12 0.24
ACGTcount: A:0.36, C:0.29, G:0.19, T:0.16
Consensus pattern (38 bp):
CACAGAGCCTGAATATCACCAGCACAAAGCCTGCTAGG
Found at i:43805595 original size:41 final size:41
Alignment explanation
Indices: 43805550--43805826 Score: 239
Period size: 41 Copynumber: 7.0 Consensus size: 41
43805540 GGCATACTCG
* * *
43805550 AAGCCTGATATAATACACCGGCACAAAGCTTACTAGGCATA
1 AAGCCTGATATAATACACCGGCACAAAGCCTGCTAGGCACA
* *
43805591 AAGCCTGATATAATACATCGGCACGAAGCCTGCTAGGCACA
1 AAGCCTGATATAATACACCGGCACAAAGCCTGCTAGGCACA
* * * *
43805632 AATCCTGATATACTACACCGACACAAAGCCTGCTAGACACA
1 AAGCCTGATATAATACACCGGCACAAAGCCTGCTAGGCACA
* * * *
43805673 GAGCCTGGTATAATACACTGGCACGAAGCCTGCTAGGCACA
1 AAGCCTGATATAATACACCGGCACAAAGCCTGCTAGGCACA
* * * * * * *
43805714 GAGCC-CAAAT-AT-CACTGACACAAAGCTTGTTAGGCACA
1 AAGCCTGATATAATACACCGGCACAAAGCCTGCTAGGCACA
* * *
43805752 GAGCCCGA-AT-AT-CACCGGCACAAAGCCTGCTAGGCACG
1 AAGCCTGATATAATACACCGGCACAAAGCCTGCTAGGCACA
* * * **
43805790 GAG-CTCAAAT-AT-CACCAACACAAAGCCTGCTAGGCAC
1 AAGCCTGATATAATACACCGGCACAAAGCCTGCTAGGCAC
43805827 GGAGCATGAA
Statistics
Matches: 198, Mismatches: 36, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
37 2 0.01
38 82 0.41
39 3 0.02
40 2 0.01
41 109 0.55
ACGTcount: A:0.35, C:0.29, G:0.20, T:0.16
Consensus pattern (41 bp):
AAGCCTGATATAATACACCGGCACAAAGCCTGCTAGGCACA
Found at i:43805748 original size:38 final size:38
Alignment explanation
Indices: 43805647--43805831 Score: 201
Period size: 38 Copynumber: 4.8 Consensus size: 38
43805637 TGATATACTA
* *
43805647 CACCGACACAAAGCCTGCTAGACACAGAGCCTGGTATAATA-
1 CACCGACACAAAGCCTGCTAGGCACAGAGCC---CA-AATAT
* * *
43805688 CACTGGCACGAAGCCTGCTAGGCACAGAGCCCAAATAT
1 CACCGACACAAAGCCTGCTAGGCACAGAGCCCAAATAT
* * * *
43805726 CACTGACACAAAGCTTGTTAGGCACAGAGCCCGAATAT
1 CACCGACACAAAGCCTGCTAGGCACAGAGCCCAAATAT
* * *
43805764 CACCGGCACAAAGCCTGCTAGGCACGGAGCTCAAATAT
1 CACCGACACAAAGCCTGCTAGGCACAGAGCCCAAATAT
* *
43805802 CACCAACACAAAGCCTGCTAGGCACGGAGC
1 CACCGACACAAAGCCTGCTAGGCACAGAGC
43805832 ATGAATAACA
Statistics
Matches: 124, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
37 4 0.03
38 93 0.75
41 27 0.22
ACGTcount: A:0.34, C:0.31, G:0.22, T:0.14
Consensus pattern (38 bp):
CACCGACACAAAGCCTGCTAGGCACAGAGCCCAAATAT
Found at i:43805799 original size:76 final size:79
Alignment explanation
Indices: 43805561--43805839 Score: 264
Period size: 76 Copynumber: 3.6 Consensus size: 79
43805551 AGCCTGATAT
* * * * * * *
43805561 AATA-CACCGGCACAAAGCTTACTAGGCATAAAGCCT-GATATAATACATCGGCACGAAGCCTGC
1 AATATCACCGACACAAAGCCTGCTAGGCACAGAGCCTCGA-ATAATACACCGGCACAAAGCCTGC
* * *
43805624 TAGGCACAAATCCTGA
65 TAGGCACAGAGCC-CA
* * * * * *
43805640 TATACTACACCGACACAAAGCCTGCTAGACACAGAGCCTGGTATAATACACTGGCACGAAGCCTG
1 AATA-T-CACCGACACAAAGCCTGCTAGGCACAGAGCCTCGAATAATACACCGGCACAAAGCCTG
43805705 CTAGGCACAGAGCCCA
64 CTAGGCACAGAGCCCA
* * *
43805721 AATATCACTGACACAAAGCTTGTTAGGCACAGAGCC-CGAAT-AT-CACCGGCACAAAGCCTGCT
1 AATATCACCGACACAAAGCCTGCTAGGCACAGAGCCTCGAATAATACACCGGCACAAAGCCTGCT
* *
43805783 AGGCACGGAGCTCA
66 AGGCACAGAGCCCA
* * *
43805797 AATATCACCAACACAAAGCCTGCTAGGCACGGAGCAT-GAATAA
1 AATATCACCGACACAAAGCCTGCTAGGCACAGAGCCTCGAATAA
43805840 CATTACGTTT
Statistics
Matches: 164, Mismatches: 30, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
76 63 0.38
77 3 0.02
78 3 0.02
79 30 0.18
80 1 0.01
81 4 0.02
82 59 0.36
83 1 0.01
ACGTcount: A:0.35, C:0.28, G:0.20, T:0.16
Consensus pattern (79 bp):
AATATCACCGACACAAAGCCTGCTAGGCACAGAGCCTCGAATAATACACCGGCACAAAGCCTGCT
AGGCACAGAGCCCA
Found at i:43810643 original size:15 final size:17
Alignment explanation
Indices: 43810623--43810655 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
43810613 CTGTAAGATA
43810623 TCAGCTAC-TA-CTTCT
1 TCAGCTACATATCTTCT
43810638 TCAGCTACATATCTTCT
1 TCAGCTACATATCTTCT
43810655 T
1 T
43810656 ACTAACTAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 2 0.12
17 6 0.38
ACGTcount: A:0.21, C:0.30, G:0.06, T:0.42
Consensus pattern (17 bp):
TCAGCTACATATCTTCT
Found at i:43811841 original size:147 final size:147
Alignment explanation
Indices: 43811643--43811915 Score: 458
Period size: 147 Copynumber: 1.9 Consensus size: 147
43811633 TCTCTATAAA
*
43811643 ACTTTTTTAAGATTGTCAAAACATTCTTGAAATGAATCTCATATACTGAGAAATCATCCATAAAT
1 ACTTTTTTAAGATTGTCAAAACATTCTTGAAATAAATCTCATATACTGAGAAATCATCCATAAAT
* * *
43811708 ACATCCAAGCCTTCTTCTAACATGTTAGCAAAAATAGCCATCATACATCTCATAAAGGTTGGTTT
66 ACATCCAAGCCTTCTTCTAACATGTCAACAAAAATAGACATCATACATCTCATAAAGGTTGGTTT
43811773 TTTTGCATCTCTGCAAG
131 TTTTGCATCTCTGCAAG
*
43811790 ACTTTTTTAAGATTGTCCAAA-ATTCTTGAAATAAATCTCCATATACTGAGAAATCATCCATAAA
1 ACTTTTTTAAGATTGTCAAAACATTCTTGAAATAAATCT-CATATACTGAGAAATCATCCATAAA
** *
43811854 TACATCCAAGCCTTCTTCTAACATGTCAACAAAAATAGATGTCATACATCTCATAGAGGTTG
65 TACATCCAAGCCTTCTTCTAACATGTCAACAAAAATAGACATCATACATCTCATAAAGGTTG
43811916 CTGGGGCATT
Statistics
Matches: 117, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
146 16 0.14
147 101 0.86
ACGTcount: A:0.36, C:0.20, G:0.11, T:0.33
Consensus pattern (147 bp):
ACTTTTTTAAGATTGTCAAAACATTCTTGAAATAAATCTCATATACTGAGAAATCATCCATAAAT
ACATCCAAGCCTTCTTCTAACATGTCAACAAAAATAGACATCATACATCTCATAAAGGTTGGTTT
TTTTGCATCTCTGCAAG
Found at i:43814480 original size:25 final size:25
Alignment explanation
Indices: 43814452--43814507 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 25
43814442 TAACGACAAT
43814452 AAAATCTAAA-ACCTAAAA-AAAAAGG
1 AAAATCTAAAGA-CTAAAATAAAAA-G
*
43814477 AAAAACTAAAGACTAAAATTAAAAAG
1 AAAATCTAAAGACTAAAA-TAAAAAG
43814503 AAAAT
1 AAAAT
43814508 TATACAATAG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
25 15 0.58
26 6 0.23
27 5 0.19
ACGTcount: A:0.70, C:0.09, G:0.07, T:0.14
Consensus pattern (25 bp):
AAAATCTAAAGACTAAAATAAAAAG
Found at i:43815530 original size:38 final size:40
Alignment explanation
Indices: 43815468--43815556 Score: 128
Period size: 38 Copynumber: 2.2 Consensus size: 40
43815458 TAAAAAGTAT
* *
43815468 TTATATTTAAAAACACTACTATAAATATAATATATGTTTTA
1 TTATA-TTAAAAACACTACAATAAATATAATAAATGTTTTA
43815509 TTATATTAAAAACAC-A-AATAAATATAATAAATGTTTTA
1 TTATATTAAAAACACTACAATAAATATAATAAATGTTTTA
*
43815547 TTGTATTAAA
1 TTATATTAAA
43815557 TATAATTTTA
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
38 29 0.64
39 1 0.02
40 10 0.22
41 5 0.11
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.42
Consensus pattern (40 bp):
TTATATTAAAAACACTACAATAAATATAATAAATGTTTTA
Found at i:43816561 original size:21 final size:19
Alignment explanation
Indices: 43816535--43816573 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
43816525 ATATTTCTCA
43816535 TTTATAAATTTAAATAATTTG
1 TTTATAAA-TT-AATAATTTG
*
43816556 TTTATATATTAATAATTT
1 TTTATAAATTAATAATTT
43816574 ATTTTATCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 2 0.12
21 7 0.41
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (19 bp):
TTTATAAATTAATAATTTG
Found at i:43817126 original size:11 final size:11
Alignment explanation
Indices: 43817110--43817136 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
43817100 TTATGTTGTG
43817110 TTTTTTATATA
1 TTTTTTATATA
43817121 TTTTTTATATA
1 TTTTTTATATA
43817132 TTTTT
1 TTTTT
43817137 AATGTTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTTTTATATA
Found at i:43818225 original size:20 final size:19
Alignment explanation
Indices: 43818200--43818239 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
43818190 TTAAACTATT
43818200 AAAAAACTATTATTTTGAAA
1 AAAAAACTATTATTTT-AAA
* *
43818220 AAAAAATTCTTATTTTAAA
1 AAAAAACTATTATTTTAAA
43818239 A
1 A
43818240 TTATACAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.38
Consensus pattern (19 bp):
AAAAAACTATTATTTTAAA
Found at i:43823520 original size:24 final size:24
Alignment explanation
Indices: 43823492--43823539 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
43823482 AAGTTTCTCG
43823492 ATTTT-CTTCTCTCAATTAAACTCT
1 ATTTTGCTT-TCTCAATTAAACTCT
* *
43823516 ATTTTGGTTTCTCACTTAAACTCT
1 ATTTTGCTTTCTCAATTAAACTCT
43823540 TATTAACTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 19 0.90
25 2 0.10
ACGTcount: A:0.23, C:0.23, G:0.04, T:0.50
Consensus pattern (24 bp):
ATTTTGCTTTCTCAATTAAACTCT
Found at i:43824417 original size:22 final size:22
Alignment explanation
Indices: 43824392--43824435 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
43824382 TAGTCATATA
43824392 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
43824414 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
43824436 TATTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:43824548 original size:15 final size:15
Alignment explanation
Indices: 43824528--43824584 Score: 60
Period size: 15 Copynumber: 3.5 Consensus size: 15
43824518 ATTCAATATT
43824528 AATATTTTAATAATA
1 AATATTTTAATAATA
*
43824543 AATATTTATTATAATTATA
1 AATA--T-TT-TAATAATA
*
43824562 AATATATTAATAATA
1 AATATTTTAATAATA
43824577 AATATTTT
1 AATATTTT
43824585 GTAGTATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
15 18 0.53
16 1 0.03
17 2 0.06
18 2 0.06
19 11 0.32
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:43826241 original size:32 final size:32
Alignment explanation
Indices: 43826188--43826252 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 32
43826178 CAAATTAGAA
* * *
43826188 TTTCGAGTTAATCAAATCAAGTTATTCGAGTT
1 TTTCGAGTCAATCAAATCAAGTAATTCAAGTT
43826220 TTTCGAGTCAACTCAAA-CAAGTAATTCAAGTT
1 TTTCGAGTCAA-TCAAATCAAGTAATTCAAGTT
43826252 T
1 T
43826253 CAAGTTCTAG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 24 0.83
33 5 0.17
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.37
Consensus pattern (32 bp):
TTTCGAGTCAATCAAATCAAGTAATTCAAGTT
Found at i:43826938 original size:19 final size:19
Alignment explanation
Indices: 43826902--43826940 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
43826892 AATTCGAAAC
*
43826902 AAAATAGAAAAGTAAGGTT
1 AAAATAGAAAAGCAAGGTT
43826921 AAAATAGAAAA-CAGAGGTT
1 AAAATAGAAAAGCA-AGGTT
43826940 A
1 A
43826941 CACAACTGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 1 0.06
19 17 0.94
ACGTcount: A:0.59, C:0.03, G:0.21, T:0.18
Consensus pattern (19 bp):
AAAATAGAAAAGCAAGGTT
Found at i:43830548 original size:30 final size:30
Alignment explanation
Indices: 43830486--43830548 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
43830476 ACTTATTTTA
*
43830486 TTGTTAATTTTGTTATTATTTTAAAGATAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
* *
43830516 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
43830546 TTG
1 TTG
43830549 CTTGTTAAGT
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:0.25, C:0.02, G:0.14, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:43830702 original size:12 final size:12
Alignment explanation
Indices: 43830672--43830705 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
43830662 TATATATTTT
43830672 AAAATT-ATATA
1 AAAATTAATATA
43830683 AAAA-TAATATA
1 AAAATTAATATA
43830694 AAAATTAATATA
1 AAAATTAATATA
43830706 GGCAGGCCGG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.05
11 13 0.62
12 7 0.33
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:43839693 original size:48 final size:48
Alignment explanation
Indices: 43839580--43839695 Score: 171
Period size: 48 Copynumber: 2.4 Consensus size: 48
43839570 TTGTGGAACT
* *
43839580 AAGTGCAGGCCAGAATTATGGGCATTCATGTGGGCCGTGGTTTAGAGC
1 AAGTGCAGGCCAGAATTTTGGGCATTCATGTGGGCCGTGGTTTAGACC
* *
43839628 AAGTGCAAGCCAGAATTTTGGGCA-TCTGTGTGGGCCGTGGTTTAGACC
1 AAGTGCAGGCCAGAATTTTGGGCATTC-ATGTGGGCCGTGGTTTAGACC
*
43839676 AAGTGCAGGCCAAAATTTTG
1 AAGTGCAGGCCAGAATTTTG
43839696 AATTTGTTAG
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
47 2 0.03
48 59 0.97
ACGTcount: A:0.24, C:0.17, G:0.33, T:0.26
Consensus pattern (48 bp):
AAGTGCAGGCCAGAATTTTGGGCATTCATGTGGGCCGTGGTTTAGACC
Found at i:43839796 original size:26 final size:27
Alignment explanation
Indices: 43839766--43839822 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
43839756 GGCTGCCCAG
*
43839766 TGGG-TCATCCATGCTAATCAAAATTT
1 TGGGTTCATCAATGCTAATCAAAATTT
** *
43839792 TGGGTTGGTCAATGCTAATTAAAATTT
1 TGGGTTCATCAATGCTAATCAAAATTT
43839819 TGGG
1 TGGG
43839823 CCCCGTTCAC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 4 0.15
27 22 0.85
ACGTcount: A:0.28, C:0.12, G:0.23, T:0.37
Consensus pattern (27 bp):
TGGGTTCATCAATGCTAATCAAAATTT
Found at i:43848496 original size:16 final size:16
Alignment explanation
Indices: 43848465--43848506 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
43848455 TAATAATAAC
43848465 TAATATATAA-ATATAT
1 TAAT-TATAATATATAT
*
43848481 TTATTATAATATATAT
1 TAATTATAATATATAT
43848497 TAATTATAAT
1 TAATTATAAT
43848507 CAACTTTGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 5 0.22
16 18 0.78
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TAATTATAATATATAT
Found at i:43849964 original size:3 final size:3
Alignment explanation
Indices: 43849956--43850011 Score: 103
Period size: 3 Copynumber: 18.7 Consensus size: 3
43849946 AGAGGATCTC
*
43849956 GAA GAA GAA GAA GAA GAA GAA GAA AAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
43850004 GAA GAA GA
1 GAA GAA GA
43850012 TCCCATAGAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:43851304 original size:6 final size:5
Alignment explanation
Indices: 43851279--43851345 Score: 70
Period size: 5 Copynumber: 13.4 Consensus size: 5
43851269 AAATGCTCGT
43851279 GAAAA -AAAA GAAAA GAAAA GACAAA G-AAA G-AAA -AAAA GAAAA GAAAA
1 GAAAA GAAAA GAAAA GAAAA GA-AAA GAAAA GAAAA GAAAA GAAAA GAAAA
43851326 GAAAAA GAAGAA GAAGAA GA
1 G-AAAA GAA-AA GAA-AA GA
43851346 GAATAGCATA
Statistics
Matches: 56, Mismatches: 0, Indels: 11
0.84 0.00 0.16
Matches are distributed among these distances:
4 14 0.25
5 23 0.41
6 19 0.34
ACGTcount: A:0.78, C:0.01, G:0.21, T:0.00
Consensus pattern (5 bp):
GAAAA
Found at i:43851345 original size:28 final size:28
Alignment explanation
Indices: 43851281--43851334 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
43851271 ATGCTCGTGA
*
43851281 AAAAAAAGAAAAGAAAAGACAAAGAAAG
1 AAAAAAAGAAAAGAAAAGAAAAAGAAAG
43851309 AAAAAAAGAAAAGAAAAGAAAAAGAA
1 AAAAAAAGAAAAGAAAAGAAAAAGAA
43851335 GAAGAAGAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.81, C:0.02, G:0.17, T:0.00
Consensus pattern (28 bp):
AAAAAAAGAAAAGAAAAGAAAAAGAAAG
Found at i:43854706 original size:31 final size:31
Alignment explanation
Indices: 43854665--43855179 Score: 644
Period size: 31 Copynumber: 16.7 Consensus size: 31
43854655 ATCCAATGCT
* * *
43854665 CAAATC-AATTCGGCAATATATATCCACATA
1 CAAATCAAATTCGGCAATGTATATCTATATA
* *
43854695 CGAATCAAATTCGGTAATGTATATCTATATA
1 CAAATCAAATTCGGCAATGTATATCTATATA
* * *
43854726 CAAATC-AATTTGGCAATGAATATCCATATA
1 CAAATCAAATTCGGCAATGTATATCTATATA
*
43854756 CAAATCAAATTCGACAATGTATATCTATATA
1 CAAATCAAATTCGGCAATGTATATCTATATA
43854787 CAAATCAAATTCGGCAATGTATATCTATATA
1 CAAATCAAATTCGGCAATGTATATCTATATA
*
43854818 CAAATC-AATTCGGCAATGTATATCCATATA
1 CAAATCAAATTCGGCAATGTATATCTATATA
* * *
43854848 CAAATCAAATTCGACAATGTATAACCATATA
1 CAAATCAAATTCGGCAATGTATATCTATATA
*
43854879 CAAATCAAATTCAGCAATGTATAT-TAATATA
1 CAAATCAAATTCGGCAATGTATATCT-ATATA
*
43854910 CAAATCAAATTCGACAATGTATATCTATATA
1 CAAATCAAATTCGGCAATGTATATCTATATA
* *
43854941 CAAATCAATTTCGGCAATGTATATCCATATA
1 CAAATCAAATTCGGCAATGTATATCTATATA
* * * *
43854972 GAAACCAAATTTGACAATGTATATCTATATA
1 CAAATCAAATTCGGCAATGTATATCTATATA
* *
43855003 CAAATCAAATTCGACAATGTATATCTATAAA
1 CAAATCAAATTCGGCAATGTATATCTATATA
* * ** *
43855034 CAATTCTAATTCAACAATGTATATCTATAAA
1 CAAATCAAATTCGGCAATGTATATCTATATA
* * * *
43855065 CAATTCAACTTCGGCAATATATATCTATAAA
1 CAAATCAAATTCGGCAATGTATATCTATATA
* *
43855096 CAAATCAATTTCGGCAATGTATATCTATAAA
1 CAAATCAAATTCGGCAATGTATATCTATATA
* *
43855127 CAAATCAAATTCGCCAATGTATATCTTTATA
1 CAAATCAAATTCGGCAATGTATATCTATATA
* *
43855158 AAAATC-AATTAGGCAATGTATA
1 CAAATCAAATTCGGCAATGTATA
43855180 AAACATATAC
Statistics
Matches: 425, Mismatches: 55, Indels: 10
0.87 0.11 0.02
Matches are distributed among these distances:
30 74 0.17
31 350 0.82
32 1 0.00
ACGTcount: A:0.44, C:0.17, G:0.08, T:0.31
Consensus pattern (31 bp):
CAAATCAAATTCGGCAATGTATATCTATATA
Found at i:43855068 original size:17 final size:17
Alignment explanation
Indices: 43855016--43855068 Score: 58
Period size: 17 Copynumber: 3.3 Consensus size: 17
43855006 ATCAAATTCG
43855016 ACAATGTATATCTATAA
1 ACAATGTATATCTATAA
* * *
43855033 ACAAT-TCTA-AT-TCA
1 ACAATGTATATCTATAA
43855047 ACAATGTATATCTATAA
1 ACAATGTATATCTATAA
43855064 ACAAT
1 ACAAT
43855069 TCAACTTCGG
Statistics
Matches: 27, Mismatches: 6, Indels: 6
0.69 0.15 0.15
Matches are distributed among these distances:
14 7 0.26
15 4 0.15
16 4 0.15
17 12 0.44
ACGTcount: A:0.47, C:0.15, G:0.04, T:0.34
Consensus pattern (17 bp):
ACAATGTATATCTATAA
Found at i:43867403 original size:78 final size:77
Alignment explanation
Indices: 43867291--43867716 Score: 519
Period size: 78 Copynumber: 5.5 Consensus size: 77
43867281 TAGAAATACA
* * * * * *
43867291 GTGATTGTTCGGGCTATGTGCCTAGCAGGCTGTGTGTCGATGATTATTCAGGTTTTGTACCTAGC
1 GTGATTATTCGGGCTATGTGCCTAGCAGGTTGTGTGCCGATGATTATTCAGGCTATGTGCCTAGC
* *
43867356 AGGCTGGGTGCG
66 AAGCTGTGTGCG
* * * * * *
43867368 AATGATTATTCGGGTTATGAGCCTATCAGGTTGTGTGCCGGTGATTATTCAGTCTATGTGCCTAG
1 -GTGATTATTCGGGCTATGTGCCTAGCAGGTTGTGTGCCGATGATTATTCAGGCTATGTGCCTAG
* ***
43867433 CAAGATGCAAGCAG
65 CAAGCTGTGTGC-G
*
43867447 GTGATTATTCGGGCTATGTGCCTAGCAGGTTGAGTGCCGATGATTATTCAGGCTATGTGCCTAGC
1 GTGATTATTCGGGCTATGTGCCTAGCAGGTTGTGTGCCGATGATTATTCAGGCTATGTGCCTAGC
43867512 AAGCTGTGTGCCG
66 AAGCTGTGTG-CG
* * *
43867525 GTGATTATTCGGGCTATGTGCCTAGCAGGGTGTGTGCCGATGATTATTCAAGCTATGTGCCTAGT
1 GTGATTATTCGGGCTATGTGCCTAGCAGGTTGTGTGCCGATGATTATTCAGGCTATGTGCCTAGC
*
43867590 AGGCTGTGTGCTG
66 AAGCTGTGTGC-G
* * * * *
43867603 GTGATTATTCGGGCTTTGTGCCTAGCAGGCTGTGTGCTGGTGATTATTCGGGCTATGTGCCTAGC
1 GTGATTATTCGGGCTATGTGCCTAGCAGGTTGTGTGCCGATGATTATTCAGGCTATGTGCCTAGC
*
43867668 AAGTTGTGTGTCG
66 AAGCTGTGTG-CG
* * *
43867681 ATGATTATTCGGGCTATATGCCTAGCAAGTTGTGTG
1 GTGATTATTCGGGCTATGTGCCTAGCAGGTTGTGTG
43867717 TCGGTGTATT
Statistics
Matches: 297, Mismatches: 47, Indels: 8
0.84 0.13 0.02
Matches are distributed among these distances:
77 1 0.00
78 293 0.99
79 3 0.01
ACGTcount: A:0.18, C:0.17, G:0.32, T:0.33
Consensus pattern (77 bp):
GTGATTATTCGGGCTATGTGCCTAGCAGGTTGTGTGCCGATGATTATTCAGGCTATGTGCCTAGC
AAGCTGTGTGCG
Found at i:43867715 original size:117 final size:116
Alignment explanation
Indices: 43867291--43867716 Score: 487
Period size: 117 Copynumber: 3.6 Consensus size: 116
43867281 TAGAAATACA
* * * * * *
43867291 GTGATTGTTCGGGCTATGTGCCTAGCAGGCTGTGTGTCGATGATTATTCAGGTTTTGTACCTAGC
1 GTGATTATTCGGGCTATGTGCCTAGCAAGATGTGTGTCGATGATTATTCAGGCTATGTGCCTAGC
* * * *
43867356 AGGCTGGGTGCGAATGATTATTCGGG-TTATGAGCCTATCAGGTTGTGTGCCG
66 AGGCTGTGTGCG-ATGATTATTCGGGCTT-TGTGCCTAGCAGGCTGTGTGCCG
* * *** * *
43867408 GTGATTATTCAGTCTATGTGCCTAGCAAGATGCAAG-CAGGTGATTATTCGGGCTATGTGCCTAG
1 GTGATTATTCGGGCTATGTGCCTAGCAAGATGTGTGTC-GATGATTATTCAGGCTATGTGCCTAG
* * * * *
43867472 CAGGTTGAGTGCCGATGATTATTCAGGCTATGTGCCTAGCAAGCTGTGTGCCG
65 CAGGCTGTGTG-CGATGATTATTCGGGCTTTGTGCCTAGCAGGCTGTGTGCCG
* * * * *
43867525 GTGATTATTCGGGCTATGTGCCTAGCAGGGTGTGTGCCGATGATTATTCAAGCTATGTGCCTAGT
1 GTGATTATTCGGGCTATGTGCCTAGCAAGATGTGTGTCGATGATTATTCAGGCTATGTGCCTAGC
* *
43867590 AGGCTGTGTGCTGGTGATTATTCGGGCTTTGTGCCTAGCAGGCTGTGTGCTG
66 AGGCTGTGTGC-GATGATTATTCGGGCTTTGTGCCTAGCAGGCTGTGTGCCG
* * *
43867642 GTGATTATTCGGGCTATGTGCCTAGCAAGTTGTGTGTCGATGATTATTCGGGCTATATGCCTAGC
1 GTGATTATTCGGGCTATGTGCCTAGCAAGATGTGTGTCGATGATTATTCAGGCTATGTGCCTAGC
* *
43867707 AAGTTGTGTG
66 AGGCTGTGTG
43867717 TCGGTGTATT
Statistics
Matches: 256, Mismatches: 48, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
116 2 0.01
117 250 0.98
118 4 0.02
ACGTcount: A:0.18, C:0.17, G:0.32, T:0.33
Consensus pattern (116 bp):
GTGATTATTCGGGCTATGTGCCTAGCAAGATGTGTGTCGATGATTATTCAGGCTATGTGCCTAGC
AGGCTGTGTGCGATGATTATTCGGGCTTTGTGCCTAGCAGGCTGTGTGCCG
Found at i:43867719 original size:39 final size:38
Alignment explanation
Indices: 43867292--43867716 Score: 436
Period size: 39 Copynumber: 10.9 Consensus size: 38
43867282 AGAAATACAG
*
43867292 TGATTGTTCGGGCTATGTGCCTAGCAGGCTGTGTGTCGA
1 TGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTG-CGA
* * * * *
43867331 TGATTATTCAGGTTTTGTACCTAGCAGGCTGGGTGCGAA
1 TGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTGCG-A
* * * * *
43867370 TGATTATTCGGGTTATGAGCCTATCAGGTTGTGTGCCGG
1 TGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTG-CGA
* * * * *** *
43867409 TGATTATTCAGTCTATGTGCCTAGCAAGATGCAAGCAGG
1 TGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTGC-GA
* *
43867448 TGATTATTCGGGCTATGTGCCTAGCAGGTTGAGTGCCGA
1 TGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTG-CGA
* * *
43867487 TGATTATTCAGGCTATGTGCCTAGCAAGCTGTGTGCCGG
1 TGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTG-CGA
*
43867526 TGATTATTCGGGCTATGTGCCTAGCAGGGTGTGTGCCGA
1 TGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTG-CGA
** * *
43867565 TGATTATTCAAGCTATGTGCCTAGTAGGCTGTGTGCTGG
1 TGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTGC-GA
* *
43867604 TGATTATTCGGGCTTTGTGCCTAGCAGGCTGTGTGCTGG
1 TGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTGC-GA
* *
43867643 TGATTATTCGGGCTATGTGCCTAGCAAGTTGTGTGTCGA
1 TGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTG-CGA
* * *
43867682 TGATTATTCGGGCTATATGCCTAGCAAGTTGTGTG
1 TGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTG
43867717 TCGGTGTATT
Statistics
Matches: 325, Mismatches: 55, Indels: 12
0.83 0.14 0.03
Matches are distributed among these distances:
38 4 0.01
39 317 0.98
40 4 0.01
ACGTcount: A:0.18, C:0.17, G:0.32, T:0.33
Consensus pattern (38 bp):
TGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTGCGA
Found at i:43873276 original size:299 final size:298
Alignment explanation
Indices: 43872713--43873609 Score: 1216
Period size: 299 Copynumber: 3.0 Consensus size: 298
43872703 AGTCACGATA
* *
43872713 GATTTCATATCTGG--T--CTGTAACTCCGAGAAAGAAAGATTCAATCT-GAGGGATTGTTGACA
1 GATTTCATATCTGGTTTACCTGTAACTCCGAGAAAGAAAGATTCAATCTGGA-TGATTGTTGATA
* * * * * *
43872773 GATTGACGAAAACGAAACATTTTATTCTAATCAGAACATACTATACCCTTGAGAGATTAGTAGAA
65 GATTGAAGAAATCGAAACATTTTATTCCAATCAGAACAGACTACACCCTTGAGAGATTAGCAGAA
* * ** *
43872838 CTATATGGGTCTGAGATTGTGAGATTACACGGAG-TTCTGACATCTATTATTTCTAATCAAGATC
130 CTATATGTGTCTGAGATTGTGAGATTACACGGAGTTTC-AACATCTATTATTTCGGATCGAGATC
* * ** * *
43872902 TGAGATTTATATCGAGATTTTATAGCAAACTTCATGAGGCTTTAGGCACTAAGCTTAATTTTAGC
194 TAAGATTTACATCGAGATTTTGGAACAAACTTCATGAGGCTTTAGGCACTAAGCTTAATTTCAGC
* * *
43872967 ACCACGATTCATCCTCAGACTGACGGGTAATCAAAACGAGT
259 A-CGCGATTCATCCTCAGACTGACGGGCAATCAGAACGAGT
*
43873008 GATTTCGTATCTGGTTTACCTGTAACTCCGAGAAAGAAAGATTCAATCTGGATGATTGTTGATAG
1 GATTTCATATCTGGTTTACCTGTAACTCCGAGAAAGAAAGATTCAATCTGGATGATTGTTGATAG
** *
43873073 ATTGAAGAAATCGGCACATTTTATTCCAATCAGAACAGACTACACCCTTGAGAGATTAACAGAAC
66 ATTGAAGAAATCGAAACATTTTATTCCAATCAGAACAGACTACACCCTTGAGAGATTAGCAGAAC
* * *
43873138 TATATGTGCCTGAGATTGTGAGATTACACGAAGTTTCAACATCAATTATTTCGGATCGAGATCTA
131 TATATGTGTCTGAGATTGTGAGATTACACGGAGTTTCAACATCTATTATTTCGGATCGAGATCTA
* * * *
43873203 AGATTTACATTGAGATTTTGGAACAAAATTCATGAGGCTTTACGTACTAAGCTTAATTTCAGCAT
196 AGATTTACATCGAGATTTTGGAACAAACTTCATGAGGCTTTAGGCACTAAGCTTAATTTCAGCA-
*
43873268 CGCGATTCATCCTCAGACTGACAGGCAATCAGAACGAGT
260 CGCGATTCATCCTCAGACTGACGGGCAATCAGAACGAGT
* * *
43873307 GATTTCATATTTGGTTTACCTGTAACTCCGAGAAATAAAGATTGAATCTGGATGATTGTTGATAG
1 GATTTCATATCTGGTTTACCTGTAACTCCGAGAAAGAAAGATTCAATCTGGATGATTGTTGATAG
* * * *
43873372 ATTGATGAAATCGAAACATTTTACTCCAATCAGAATAGACTACACCCTTGAGAGATTAGCAAAAC
66 ATTGAAGAAATCGAAACATTTTATTCCAATCAGAACAGACTACACCCTTGAGAGATTAGCAGAAC
* * * *
43873437 TATATGTGTCTGAGATTGTGAGATTACACGGAGTTCCAGCATCTATTATTTTGGATCGAGATCCA
131 TATATGTGTCTGAGATTGTGAGATTACACGGAGTTTCAACATCTATTATTTCGGATCGAGATCTA
* *
43873502 AGATTTACATCGAGATTTTGGAGA-AAACTTCACT-AGGCTTTAGGCATTAAGCTTAATTTCAAC
196 AGATTTACATCGAGATTTTGGA-ACAAACTTCA-TGAGGCTTTAGGCACTAAGCTTAATTTCAGC
* * * *
43873565 ACTGCGTTTCATCCTCAGATTGACGAGCAATCAGAATGAGT
259 AC-GCGATTCATCCTCAGACTGACGGGCAATCAGAACGAGT
43873606 GATT
1 GATT
43873610 CAAATTTTGG
Statistics
Matches: 529, Mismatches: 64, Indels: 14
0.87 0.11 0.02
Matches are distributed among these distances:
295 13 0.02
297 1 0.00
298 1 0.00
299 507 0.96
300 7 0.01
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (298 bp):
GATTTCATATCTGGTTTACCTGTAACTCCGAGAAAGAAAGATTCAATCTGGATGATTGTTGATAG
ATTGAAGAAATCGAAACATTTTATTCCAATCAGAACAGACTACACCCTTGAGAGATTAGCAGAAC
TATATGTGTCTGAGATTGTGAGATTACACGGAGTTTCAACATCTATTATTTCGGATCGAGATCTA
AGATTTACATCGAGATTTTGGAACAAACTTCATGAGGCTTTAGGCACTAAGCTTAATTTCAGCAC
GCGATTCATCCTCAGACTGACGGGCAATCAGAACGAGT
Found at i:43875616 original size:23 final size:23
Alignment explanation
Indices: 43875586--43875629 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
43875576 GTGCCTAGCA
43875586 GGCTGTGTGC-GGATGATTATTTG
1 GGCTGTGTGCTGG-TGATTATTTG
43875609 GGCTGTGTGCTGGTGATTATT
1 GGCTGTGTGCTGGTGATTATT
43875630 CAGGCTACGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 18 0.90
24 2 0.10
ACGTcount: A:0.11, C:0.09, G:0.39, T:0.41
Consensus pattern (23 bp):
GGCTGTGTGCTGGTGATTATTTG
Found at i:43875635 original size:23 final size:23
Alignment explanation
Indices: 43875584--43875635 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
43875574 ATGTGCCTAG
43875584 CAGGCTGTGTGCGGATGATTATT
1 CAGGCTGTGTGCGGATGATTATT
**
43875607 TGGGCTGTGTGCTGG-TGATTATT
1 CAGGCTGTGTGC-GGATGATTATT
43875630 CAGGCT
1 CAGGCT
43875636 ACGTTCCTAG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
23 22 0.92
24 2 0.08
ACGTcount: A:0.13, C:0.13, G:0.37, T:0.37
Consensus pattern (23 bp):
CAGGCTGTGTGCGGATGATTATT
Found at i:43875652 original size:39 final size:39
Alignment explanation
Indices: 43875609--43875896 Score: 254
Period size: 39 Copynumber: 7.4 Consensus size: 39
43875599 TGATTATTTG
* * * *
43875609 GGCTGTGTGCTGGTGATTATTCAGGCTACGTTCCTAGTA
1 GGCTGTGTGCTGGTGATTATTCGGGCTATGTGCCTAGCA
** * * * *
43875648 GGCTGCATG-TAGGTGATTATTCAGGCGATGTGCCAAGCC
1 GGCTGTGTGCT-GGTGATTATTCGGGCTATGTGCCTAGCA
** * * *
43875687 GGCTGCATGCCGATGATTATTCGGGCTATATGCCTAGCA
1 GGCTGTGTGCTGGTGATTATTCGGGCTATGTGCCTAGCA
* * * *
43875726 GGCTGTGTGCTAGTGAATATTCGGGTTATGTGCCTAGCT
1 GGCTGTGTGCTGGTGATTATTCGGGCTATGTGCCTAGCA
* * ** *
43875765 GGCTGTATGCTGGTGATTATTCAGGCTATGTATCTTGCA
1 GGCTGTGTGCTGGTGATTATTCGGGCTATGTGCCTAGCA
* *
43875804 GGCTGTGTGCCGGTGATTATTCGGGCTATGTGCCTAGTA
1 GGCTGTGTGCTGGTGATTATTCGGGCTATGTGCCTAGCA
* * * * * *
43875843 GTCTGTGTTCCGATGATTATTCGGGCTATATGCTTAGCA
1 GGCTGTGTGCTGGTGATTATTCGGGCTATGTGCCTAGCA
* *
43875882 GGATGTGTGCCGGTG
1 GGCTGTGTGCTGGTG
43875897 TATGAAAAAT
Statistics
Matches: 197, Mismatches: 50, Indels: 4
0.78 0.20 0.02
Matches are distributed among these distances:
38 1 0.01
39 196 0.99
ACGTcount: A:0.17, C:0.18, G:0.32, T:0.33
Consensus pattern (39 bp):
GGCTGTGTGCTGGTGATTATTCGGGCTATGTGCCTAGCA
Found at i:43875815 original size:117 final size:117
Alignment explanation
Indices: 43875609--43875850 Score: 281
Period size: 117 Copynumber: 2.1 Consensus size: 117
43875599 TGATTATTTG
* * *
43875609 GGCTGTGTGCTGGTGATTATTCAGGCTACGTTCCTAGTAGGCTGCATGTAGGTGATTATTCAGGC
1 GGCTGTGTGCTAGTGAATATTCAGGCTACGTGCCTAGTAGGCTGCATGTAGGTGATTATTCAGGC
* *
43875674 GATGTGCCAAGCCGGCTGCATGCCGATGATTATTCGGGCTATATGCCTAGCA
66 GATGTACCAAGCAGGCTGCATGCCGATGATTATTCGGGCTATATGCCTAGCA
* * * *
43875726 GGCTGTGTGCTAGTGAATATTCGGGTTATGTGCCTAGCT-GGCTGTATGCT-GGTGATTATTCAG
1 GGCTGTGTGCTAGTGAATATTCAGGCTACGTGCCTAG-TAGGCTGCATG-TAGGTGATTATTCAG
* * ** ** * * *
43875789 GCTATGTATCTTGCAGGCTGTGTGCCGGTGATTATTCGGGCTATGTGCCTAGTA
64 GCGATGTACCAAGCAGGCTGCATGCCGATGATTATTCGGGCTATATGCCTAGCA
*
43875843 GTCTGTGT
1 GGCTGTGT
43875851 TCCGATGATT
Statistics
Matches: 104, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
117 102 0.98
118 2 0.02
ACGTcount: A:0.17, C:0.18, G:0.32, T:0.33
Consensus pattern (117 bp):
GGCTGTGTGCTAGTGAATATTCAGGCTACGTGCCTAGTAGGCTGCATGTAGGTGATTATTCAGGC
GATGTACCAAGCAGGCTGCATGCCGATGATTATTCGGGCTATATGCCTAGCA
Found at i:43878287 original size:440 final size:440
Alignment explanation
Indices: 43877461--43878341 Score: 1555
Period size: 440 Copynumber: 2.0 Consensus size: 440
43877451 GAATGAACCT
* *
43877461 AGACCGCAAGAAACTAGGGATGTTACACCTGATGTATTTCTTCGTATGATGCATGACTAATATGT
1 AGACCGCAAGAAACTAGGGATGTTACACCTGATGTATTTCTCCGTATGATGCATAACTAATATGT
* * *
43877526 TGCATACTTAAAGGTAAACTCTACAGTTCCATAACCTTAATCTTCTCACCTTTAAGGTTGAAGTA
66 TGCATACTTAAAGGTAAACTCTACAGTTCCACAACCTTAATCTTCTCACCCTTAAGGTTCAAGTA
* *
43877591 AGCAACATGTTCATAGAGTGTCCATTGATAAAGTTAGTAAGTGTGGAGTTGCTGAATTTTGTGGT
131 AGCAACATGTTCATAGAGTGTCCATTGATAAAGTTAGTAAGTGTGGAGCTACTGAATTTTGTGGT
43877656 AACGTGAGTGATGACCCAACCAAGGCAGAATATTGGTTGGAAAATACTCAAAGGGTGCTAGATAA
196 AACGTGAGTGATGACCCAACCAAGGCAGAATATTGGTTGGAAAATACTCAAAGGGTGCTAGATAA
43877721 AATGTTGTGCTCCATTGAAGATTTTTTATGGTGTACGGTACCATTTTTAAAAGAGGAAGCATTCC
261 AATGTTGTGCTCCATTGAAGATTTTTTATGGTGTACGGTACCATTTTTAAAAGAGGAAGCATTCC
**
43877786 AATGGTGGTCCACATTAATGGCAATGGTGTAGAAAGAAAGAATCAATTAGGACTTCTTTAAGTCC
326 AATGGTGGTCCACATTAATGGCAATGGTACAGAAAGAAAGAATCAATTAGGACTTCTTTAAGTCC
* ** *
43877851 TAATTTTGAAAGAAGTAGGTTAGCAAACTCTATTTGGAGTGGAAGAAGGA
391 GAATTTAAAAAGAAGTAGGTTAGCAAACGCTATTTGGAGTGGAAGAAGGA
* * *
43877901 AGACTGCAAGAAACTAGGGATGTTACACCTGATGTATTTCTCCGTATGATGTATAACTTATATGT
1 AGACCGCAAGAAACTAGGGATGTTACACCTGATGTATTTCTCCGTATGATGCATAACTAATATGT
*
43877966 TGCGTACTTAAAGGTAAACTCTACAGTTCCACAACCTTAATCTTCTCACCCTTAAGGTTCAAGTA
66 TGCATACTTAAAGGTAAACTCTACAGTTCCACAACCTTAATCTTCTCACCCTTAAGGTTCAAGTA
* *
43878031 AGCAACATGTTTATAGAGTGTCCATTGATAAAGTTAGTAAGTGTGGAGCTATTGAATTTTGTGGT
131 AGCAACATGTTCATAGAGTGTCCATTGATAAAGTTAGTAAGTGTGGAGCTACTGAATTTTGTGGT
* *
43878096 AACGTGAGTGATGACCCAACCAAGGCAGAATATTGGTTGGAAAATACTCAGAGGGTGCTAGATGA
196 AACGTGAGTGATGACCCAACCAAGGCAGAATATTGGTTGGAAAATACTCAAAGGGTGCTAGATAA
*
43878161 AATGTTGTGCTCCATTGAAGATTTTTTATGGTGTACGGTATCATTTTTAAAAGAGGAAGCATTCC
261 AATGTTGTGCTCCATTGAAGATTTTTTATGGTGTACGGTACCATTTTTAAAAGAGGAAGCATTCC
*
43878226 AATGGTGGTCCACATTAATGGCAATGGTACAGAAAGAAAGAATCAATTGGGACTTCTTTAAGTCC
326 AATGGTGGTCCACATTAATGGCAATGGTACAGAAAGAAAGAATCAATTAGGACTTCTTTAAGTCC
43878291 GAATTTAAAAAGAAGTAGGTTAGCAAACGCTATTTGGAGTGGAAGAAGGA
391 GAATTTAAAAAGAAGTAGGTTAGCAAACGCTATTTGGAGTGGAAGAAGGA
43878341 A
1 A
43878342 TTTCTTGAGT
Statistics
Matches: 418, Mismatches: 23, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
440 418 1.00
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (440 bp):
AGACCGCAAGAAACTAGGGATGTTACACCTGATGTATTTCTCCGTATGATGCATAACTAATATGT
TGCATACTTAAAGGTAAACTCTACAGTTCCACAACCTTAATCTTCTCACCCTTAAGGTTCAAGTA
AGCAACATGTTCATAGAGTGTCCATTGATAAAGTTAGTAAGTGTGGAGCTACTGAATTTTGTGGT
AACGTGAGTGATGACCCAACCAAGGCAGAATATTGGTTGGAAAATACTCAAAGGGTGCTAGATAA
AATGTTGTGCTCCATTGAAGATTTTTTATGGTGTACGGTACCATTTTTAAAAGAGGAAGCATTCC
AATGGTGGTCCACATTAATGGCAATGGTACAGAAAGAAAGAATCAATTAGGACTTCTTTAAGTCC
GAATTTAAAAAGAAGTAGGTTAGCAAACGCTATTTGGAGTGGAAGAAGGA
Found at i:43881937 original size:298 final size:298
Alignment explanation
Indices: 43881389--43881976 Score: 876
Period size: 298 Copynumber: 2.0 Consensus size: 298
43881379 TTCGTATCTA
* *
43881389 GTTTACCTATAACTCCGACAAAGAAAGATTCAATCTGGGTGATTGTTGACAGATTGATGAAATCG
1 GTTTACCTATAACTCCGACAAAGAAAGATTCAATCTGGGTGATTGTTGACAAATTGATCAAATCG
* * *
43881454 ATACATTTTATTCCAATTAGAACAAACTACACCCTTGAGAGATTACCAGAATTATATGCATCTTA
66 ACACATTTTATTCCAATTAGAACAAACTACACCCTTGAGAGATTACCAGAACTATATGCATCTGA
* * * * *
43881519 GATTGTGAGATTACATGGAGTTCCGACATCTATTATTTTGAATTGAGATCCGATATTTACATCGA
131 GATTGTGAGATTACACGAAGTTCCGACATCTATTATTTTGAATCGAGATCCGAGATTTACATCAA
* * * *
43881584 GATTTTGGAGCAAACTTAATGAGGCTTTAAGCACTAAGCTTAATTTCAGCACTGCATTTCATCTT
196 GATTTTGGAGCAAACTTAACGAGGCTTTAAGAACTAAGCTTAATTTCAACACTGCATTTCATCCT
*
43881649 CAGACTGACGGGCAATCAGAATGAATGATTTTTTTCTG
261 CAGACTGACGGGCAATCAGAACGAATGATTTTTTTCTG
* * *
43881687 GTTTACTTGTAACTCCGAGAAAGAAAGATTCAATAC-GGGTGATTGTTGACAAATTGA-CAAAGT
1 GTTTACCTATAACTCCGACAAAGAAAGATTCAAT-CTGGGTGATTGTTGACAAATTGATCAAA-T
* * * * **
43881750 CGGCACATTTTATTCCAATTAGAATATACTACACCCTTGAGAGATTAGCAGAACTATATGTGTCT
64 CGACACATTTTATTCCAATTAGAACAAACTACACCCTTGAGAGATTACCAGAACTATATGCATCT
*
43881815 GAGATTGTGAGATTACACGAAGTTTCGACATCTATTATTTT-AGATCGAGATCCGAGATTTACAT
129 GAGATTGTGAGATTACACGAAGTTCCGACATCTATTATTTTGA-ATCGAGATCCGAGATTTACAT
*
43881879 CAAGATTTTGGAGCAAACTTTACGAGGCTTTAAGAACTAAGCTTAATTTCAACACTGCATTTCAT
193 CAAGATTTTGGAGCAAACTTAACGAGGCTTTAAGAACTAAGCTTAATTTCAACACTGCATTTCAT
* *
43881944 CCTCAGACTGATGGGCAATCAGAACGAGTGATT
258 CCTCAGACTGACGGGCAATCAGAACGAATGATT
43881977 CTGTAACAGC
Statistics
Matches: 259, Mismatches: 28, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
297 4 0.02
298 254 0.98
299 1 0.00
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.32
Consensus pattern (298 bp):
GTTTACCTATAACTCCGACAAAGAAAGATTCAATCTGGGTGATTGTTGACAAATTGATCAAATCG
ACACATTTTATTCCAATTAGAACAAACTACACCCTTGAGAGATTACCAGAACTATATGCATCTGA
GATTGTGAGATTACACGAAGTTCCGACATCTATTATTTTGAATCGAGATCCGAGATTTACATCAA
GATTTTGGAGCAAACTTAACGAGGCTTTAAGAACTAAGCTTAATTTCAACACTGCATTTCATCCT
CAGACTGACGGGCAATCAGAACGAATGATTTTTTTCTG
Found at i:43883222 original size:50 final size:50
Alignment explanation
Indices: 43883163--43883402 Score: 333
Period size: 50 Copynumber: 4.8 Consensus size: 50
43883153 GGCAGTGAGT
* * * *
43883163 GTGCCAGTGTAAGACCATGTCTGGCACATGGCATCGGGACAGACCGAGGA
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACAGAGGA
*
43883213 GTGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCACAGACAGAGGA
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACAGAGGA
* * *
43883263 GAGTTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACCA-ATGA
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGA-CAGAGGA
* *
43883313 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCACGGACAGATGAGA
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACAGA-G-GA
*
43883365 GT-C-AGTGTAAGACCATGTCCGGGACATGGCATCGGCAC
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC
43883403 CGATATACGA
Statistics
Matches: 170, Mismatches: 16, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
49 2 0.01
50 161 0.95
51 3 0.02
52 4 0.02
ACGTcount: A:0.28, C:0.21, G:0.33, T:0.19
Consensus pattern (50 bp):
GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACAGAGGA
Found at i:43883315 original size:100 final size:100
Alignment explanation
Indices: 43883167--43883402 Score: 382
Period size: 100 Copynumber: 2.4 Consensus size: 100
43883157 GTGAGTGTGC
* * *
43883167 CAGTGTAAGACCATGTCTGGCACATGGCATCGGGACAGACCGAGGAGTGCTAGTGTAAGACCATG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACCAAGGAGTGCTAGTGTAAGACCATG
43883232 TCTAGGACATGGCATCGGCACAGACAGAGGAGAGT
66 TCTAGGACATGGCATCGGCACAGACAGAGGAGAGT
* *
43883267 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACCAATGAGTGCTAGTGTAAGACCATG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACCAAGGAGTGCTAGTGTAAGACCATG
* * * *
43883332 TCTGGGACATGGCATTGGCACGGACAGATGAGAGT
66 TCTAGGACATGGCATCGGCACAGACAGAGGAGAGT
*
43883367 CAGTGTAAGACCATGTCCGGGACATGGCATCGGCAC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC
43883403 CGATATACGA
Statistics
Matches: 125, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
100 125 1.00
ACGTcount: A:0.28, C:0.21, G:0.32, T:0.19
Consensus pattern (100 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACCAAGGAGTGCTAGTGTAAGACCATG
TCTAGGACATGGCATCGGCACAGACAGAGGAGAGT
Found at i:43883461 original size:100 final size:100
Alignment explanation
Indices: 43883167--43883448 Score: 336
Period size: 100 Copynumber: 2.8 Consensus size: 100
43883157 GTGAGTGTGC
* * * * * * * *
43883167 CAGTGTAAGACCATGTCTGGCACATGGCATCGGGACAGACCGAGGAGTGCTAGTGTAAGACCATG
1 CAGTGTAAGACCATGTCCGGGACATGGCATCGGCACAGACCAACGAGTCCCAGTGTAAGACCATA
* * * *
43883232 TCTAGGACATGGCATCGGCACAGACAGAGGAGAGT
66 TCTGGGACATGGCATTGGCACCGACAGATGAGAGT
* * * * * *
43883267 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACCAATGAGTGCTAGTGTAAGACCATG
1 CAGTGTAAGACCATGTCCGGGACATGGCATCGGCACAGACCAACGAGTCCCAGTGTAAGACCATA
*
43883332 TCTGGGACATGGCATTGGCACGGACAGATGAGAGT
66 TCTGGGACATGGCATTGGCACCGACAGATGAGAGT
* *
43883367 CAGTGTAAGACCATGTCCGGGACATGGCATCGGCACCGA-TATACGA-TCCCA-TGTAAGACCAT
1 CAGTGTAAGACCATGTCCGGGACATGGCATCGGCACAGACCA-ACGAGTCCCAGTGTAAGACCAT
*
43883429 ATCTGGGATATGGCATTGGC
65 ATCTGGGACATGGCATTGGC
43883449 GTCCTACCAG
Statistics
Matches: 163, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
98 29 0.18
99 4 0.02
100 130 0.80
ACGTcount: A:0.28, C:0.21, G:0.31, T:0.20
Consensus pattern (100 bp):
CAGTGTAAGACCATGTCCGGGACATGGCATCGGCACAGACCAACGAGTCCCAGTGTAAGACCATA
TCTGGGACATGGCATTGGCACCGACAGATGAGAGT
Found at i:43889818 original size:16 final size:16
Alignment explanation
Indices: 43889797--43889845 Score: 89
Period size: 16 Copynumber: 3.1 Consensus size: 16
43889787 TTCGCTGTAT
43889797 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
*
43889813 TGGAATAGAGGTGTAA
1 TGGAATAGAGGCGTAA
43889829 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
43889845 T
1 T
43889846 AGCAAATCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.37, C:0.04, G:0.37, T:0.22
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:43889875 original size:45 final size:44
Alignment explanation
Indices: 43889824--43889914 Score: 139
Period size: 45 Copynumber: 2.0 Consensus size: 44
43889814 GGAATAGAGG
43889824 TGTAATGGAATAGAGGCGTAATAGCAAATCAAT-TGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAG-AAATC-ATGTGTTTGGTTGAA
* *
43889869 TGTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGAAATCATGTGTTTGGTTGAA
43889913 TG
1 TG
43889915 GAATAGAGGT
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
43 1 0.02
44 18 0.42
45 24 0.56
ACGTcount: A:0.32, C:0.05, G:0.29, T:0.34
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGAAATCATGTGTTTGGTTGAA
Found at i:43890129 original size:54 final size:54
Alignment explanation
Indices: 43890070--43890599 Score: 285
Period size: 66 Copynumber: 8.9 Consensus size: 54
43890060 ATATTTAAAC
*
43890070 ATAATTAATATTAAATATATTTTAATTAAAATATATAACTTAACAAAATTCTTA
1 ATAATTAATATTAAATATATTTTAATTAAAATATATAACTTAAAAAAATTCTTA
** * *
43890124 ATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATT-TG
1 ATAATTAATATT-AAATAT--ATTT--T--AATTAAAATATAT-A-ACT-TAAAA-A-AATTCT-
*
43890188 AA
53 TA
* *
43890190 ATAATTAATATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTA
1 ATAATTAATATTAAATATATTTTAATTAAAATATATAACTTAAAAAAATTCTTA
** * *
43890244 ATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATT-TG
1 ATAATTAATATT-AAATAT--ATTT--T--AATTAAAATATAT-A-ACT-TAAAA-A-AATTCT-
*
43890308 AA
53 TA
* *
43890310 ATAATTAATATTAAATATATTTTAATTAAAATATATAATTTAACAAAATTCTTA
1 ATAATTAATATTAAATATATTTTAATTAAAATATATAACTTAAAAAAATTCTTA
* ** * *
43890364 ATAATTAATATTCTTATATGAATATACTCAAATCATAATATATGATACTATAAAAGATAATT-TG
1 ATAATTAATA----T-TA--AATATATTTTAATTAAAATATAT-A-ACT-TAAAA-A-AATTCT-
*
43890428 AA
53 TA
* *
43890430 ATAATTAATATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTA
1 ATAATTAATATTAAATATATTTTAATTAAAATATATAACTTAAAAAAATTCTTA
** * *
43890484 ATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATT-TG
1 ATAATTAATATT-AAATAT--ATTT--T--AATTAAAATATAT-A-ACT-TAAAA-A-AATTCT-
*
43890548 AA
53 TA
* * *
43890550 ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATAATTAATATTAAATATATTTTAATTAAAATATATAACTTAAAAAAATT
43890600 TAAAATAATT
Statistics
Matches: 364, Mismatches: 57, Indels: 110
0.69 0.11 0.21
Matches are distributed among these distances:
54 65 0.18
55 19 0.05
56 16 0.04
57 20 0.05
58 4 0.01
59 56 0.15
61 56 0.15
62 5 0.01
63 21 0.06
64 16 0.04
65 20 0.05
66 66 0.18
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (54 bp):
ATAATTAATATTAAATATATTTTAATTAAAATATATAACTTAAAAAAATTCTTA
Found at i:43890231 original size:18 final size:17
Alignment explanation
Indices: 43890204--43890238 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
43890194 TTAATATTAA
*
43890204 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
43890222 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
43890239 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:43890471 original size:18 final size:17
Alignment explanation
Indices: 43890444--43890478 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
43890434 TTAATATTAA
*
43890444 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
43890462 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
43890479 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:43890610 original size:120 final size:120
Alignment explanation
Indices: 43890070--43890599 Score: 1015
Period size: 120 Copynumber: 4.4 Consensus size: 120
43890060 ATATTTAAAC
* *
43890070 ATAATTAATATTAAATATATTTTAATTAAAATATATAACTTAACAAAATTCTTAATAATTAATAT
1 ATAATTAATATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
43890135 TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTGAA
66 TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTGAA
43890190 ATAATTAATATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
1 ATAATTAATATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
43890255 TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTGAA
66 TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTGAA
*
43890310 ATAATTAATATTAAATATATTTTAATTAAAATATATAATTTAACAAAATTCTTAATAATTAATAT
1 ATAATTAATATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
*
43890375 TCTTATATGAATATACTCAAATCATAATATATGATACTATAAAAGATAATTTGAA
66 TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTGAA
43890430 ATAATTAATATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
1 ATAATTAATATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
43890495 TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTGAA
66 TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTGAA
*
43890550 ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATAATTAATATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
43890600 TAAAATAATT
Statistics
Matches: 403, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 403 1.00
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (120 bp):
ATAATTAATATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTGAA
Found at i:43890646 original size:101 final size:93
Alignment explanation
Indices: 43890540--43890822 Score: 342
Period size: 91 Copynumber: 3.0 Consensus size: 93
43890530 ACTATAAAAG
* * * *
43890540 ATAATTTGAAATAATTAATATTAAATATATTTTAATTAA-AATATATGATTTAATAAAATTTAAA
1 ATAATTTAAAATAATTAATATTAAATATAATTTAA-TAATAATATATAATTTCATAAAATTT---
* *
43890604 ATAATTATAACTAATAAATTTTCTTATATGAATTTGT
62 -T--CT-TAA-TAATAAATTTTCTTATATGAATTTAT
* *
43890641 ATAATTTAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCATAAAA--TTCTT
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
43890704 AATAATAAATTTTCTTATATGAATTTAT
66 AATAATAAATTTTCTTATATGAATTTAT
* *
43890732 ACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCATAAAA--TTCTT
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
*
43890795 AATAATAAAATGTTCTTATATGAATTTA
66 AATAAT-AAATTTTCTTATATGAATTTA
43890823 CTAAAATCAA
Statistics
Matches: 167, Mismatches: 13, Indels: 13
0.87 0.07 0.07
Matches are distributed among these distances:
91 90 0.54
92 23 0.14
93 1 0.01
95 1 0.01
99 1 0.01
100 3 0.02
101 48 0.29
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (93 bp):
ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
AATAATAAATTTTCTTATATGAATTTAT
Found at i:43890650 original size:47 final size:46
Alignment explanation
Indices: 43890581--43890748 Score: 152
Period size: 47 Copynumber: 3.7 Consensus size: 46
43890571 TTAATTAAAA
*
43890581 TATATG-ATTTAATAAAATTTAAAATAATTATAACTAATAAATTTTCT
1 TATATGAATTT-ATATAATTTAAAATAATTATAA-TAATAAATTTTCT
* * **
43890628 TATATGAATTTGTATAATTTAAAATAATTATTATTACATATAA-TTTAA
1 TATATGAATTTATATAATTTAAAATAATTA-TAATA-ATA-AATTTTCT
* *
43890676 TA-AT-AA--TATATAATTTCATAA-AATTCTTAATAATAAATTTTCT
1 TATATGAATTTATATAATTT-AAAATAATT-ATAATAATAAATTTTCT
*
43890719 TATATGAATTTATACAATTTAAAATAATTA
1 TATATGAATTTATATAATTTAAAATAATTA
43890749 ATATTAAATA
Statistics
Matches: 95, Mismatches: 14, Indels: 25
0.71 0.10 0.19
Matches are distributed among these distances:
42 2 0.02
43 8 0.08
44 19 0.20
45 5 0.05
46 5 0.05
47 40 0.42
48 14 0.15
49 2 0.02
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (46 bp):
TATATGAATTTATATAATTTAAAATAATTATAATAATAAATTTTCT
Found at i:43890670 original size:26 final size:28
Alignment explanation
Indices: 43890640--43890802 Score: 86
Period size: 26 Copynumber: 5.6 Consensus size: 28
43890630 TATGAATTTG
*
43890640 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
43890666 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
* *
43890694 TAAAATTCTTAATAATAAATTTTCTTATATGAATT-TA
1 TATAA-T-TTAATAAT-AA------TATAT-AATTACA
* *
43890731 TACAATTTAA-AATAAT-TA-ATATTAAA
1 TATAATTTAATAATAATATATA-ATTACA
* *
43890757 TATAATTTAATAATGATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
43890785 TAAAATTCTTAATAATAA
1 TATAA-T-TTAATAATAA
43890803 AATGTTCTTA
Statistics
Matches: 106, Mismatches: 12, Indels: 34
0.70 0.08 0.22
Matches are distributed among these distances:
24 1 0.01
25 3 0.03
26 22 0.21
27 12 0.11
28 22 0.21
29 3 0.03
30 17 0.16
31 2 0.02
33 2 0.02
34 3 0.03
35 4 0.04
36 1 0.01
37 10 0.09
38 4 0.04
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.45
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:43890710 original size:91 final size:91
Alignment explanation
Indices: 43890615--43890822 Score: 353
Period size: 91 Copynumber: 2.3 Consensus size: 91
43890605 TAATTATAAC
* * * *
43890615 TAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTATTATTACATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
43890680 AATATATAATTTCATAAAATTCTTAA
66 AATATATAATTTCATAAAATTCTTAA
43890706 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
43890771 GATATATAATTTCATAAAATTCTTAA
66 AATATATAATTTCATAAAATTCTTAA
*
43890797 TAATAAAATGTTCTTATATGAATTTA
1 TAAT-AAATTTTCTTATATGAATTTA
43890823 CTAAAATCAA
Statistics
Matches: 110, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
91 90 0.82
92 20 0.18
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (91 bp):
TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
AATATATAATTTCATAAAATTCTTAA
Found at i:43890782 original size:44 final size:43
Alignment explanation
Indices: 43890640--43890782 Score: 128
Period size: 44 Copynumber: 3.2 Consensus size: 43
43890630 TATGAATTTG
* *
43890640 TATAATTTAAAATAATTATTATTACATATAATTTAATAATAATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
** * * *
43890684 TATAATTTCATAAAATTCTTAATAATAAAT-T-TTCTTATATGAATTTA
1 TATAA-TT--TAAAATAATTAATATTAAATATAAT-TTA-AT-AATATA
*
43890731 TACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
43890775 TATAATTT
1 TATAATTT
43890783 CATAAAATTC
Statistics
Matches: 76, Mismatches: 14, Indels: 18
0.70 0.13 0.17
Matches are distributed among these distances:
43 3 0.04
44 33 0.43
45 7 0.09
46 7 0.09
47 23 0.30
48 3 0.04
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.46
Consensus pattern (43 bp):
TATAATTTAAAATAATTAATATTAAATATAATTTAATAATATA
Found at i:43890797 original size:47 final size:47
Alignment explanation
Indices: 43890665--43890803 Score: 146
Period size: 47 Copynumber: 3.0 Consensus size: 47
43890655 TTATTATTAC
*
43890665 ATATAATTTAATAATAATATATAATTTCATAAAATTCTTAATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
* * * ** *
43890712 AT-T--TTCTTAT-ATGAATTTATACAATT--TAAAATAATTAATATTAA
1 ATATAATT-TAATAATG-ATATATA-ATTTCATAAAATTCTTAATAATAA
43890756 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
43890803 A
1 A
43890804 ATGTTCTTAT
Statistics
Matches: 70, Mismatches: 13, Indels: 18
0.69 0.13 0.18
Matches are distributed among these distances:
44 21 0.30
45 13 0.19
46 13 0.19
47 23 0.33
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.44
Consensus pattern (47 bp):
ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
Found at i:43893887 original size:13 final size:13
Alignment explanation
Indices: 43893869--43893894 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
43893859 TGCTTTTGAG
43893869 TTCAAAAATAATT
1 TTCAAAAATAATT
43893882 TTCAAAAATAATT
1 TTCAAAAATAATT
43893895 CTGATTTAGA
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:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (13 bp):
TTCAAAAATAATT
Found at i:43895744 original size:30 final size:30
Alignment explanation
Indices: 43895708--43895774 Score: 125
Period size: 30 Copynumber: 2.2 Consensus size: 30
43895698 CGATTAACTC
*
43895708 AAACAAATAATGCAATACAGGCAAGAATCG
1 AAACAAATAATGCAATACAGGCAAGAACCG
43895738 AAACAAATAATGCAATACAGGCAAGAACCG
1 AAACAAATAATGCAATACAGGCAAGAACCG
43895768 AAACAAA
1 AAACAAA
43895775 CTATTTAGCC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.57, C:0.18, G:0.15, T:0.10
Consensus pattern (30 bp):
AAACAAATAATGCAATACAGGCAAGAACCG
Found at i:43909443 original size:3 final size:3
Alignment explanation
Indices: 43909435--43909477 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
43909425 TCCATTTTCC
43909435 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
43909478 TTCAATTCCT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:43912392 original size:17 final size:17
Alignment explanation
Indices: 43912370--43912425 Score: 69
Period size: 17 Copynumber: 3.2 Consensus size: 17
43912360 GTCAATCAAT
43912370 AATTTAAAAATTATAAA
1 AATTTAAAAATTATAAA
* *
43912387 AATTTAAAAA-AATTAA
1 AATTTAAAAATTATAAA
43912403 AATTTAAAAAAATTATAAA
1 AATTT--AAAAATTATAAA
43912422 AATT
1 AATT
43912426 CATAATTAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
16 9 0.28
17 10 0.31
18 5 0.16
19 8 0.25
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AATTTAAAAATTATAAA
Found at i:43912404 original size:16 final size:16
Alignment explanation
Indices: 43912370--43912417 Score: 69
Period size: 16 Copynumber: 2.9 Consensus size: 16
43912360 GTCAATCAAT
* *
43912370 AATTTAAAAATTATAAA
1 AATTTAAAAA-AATTAA
43912387 AATTTAAAAAAATTAA
1 AATTTAAAAAAATTAA
43912403 AATTTAAAAAAATTA
1 AATTTAAAAAAATTA
43912418 TAAAAATTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 19 0.66
17 10 0.34
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AATTTAAAAAAATTAA
Found at i:43912404 original size:26 final size:27
Alignment explanation
Indices: 43912373--43912439 Score: 77
Period size: 25 Copynumber: 2.6 Consensus size: 27
43912363 AATCAATAAT
*
43912373 TTAAAAATTATAAAAATT-TAAAAAAA
1 TTAAAAATTAAAAAAATTATAAAAAAA
*
43912399 TTAAAATTTAAAAAAATTAT--AAAAA
1 TTAAAAATTAAAAAAATTATAAAAAAA
* *
43912424 TTCATAATTAAAAAAA
1 TTAAAAATTAAAAAAA
43912440 ACATAATATA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
25 18 0.51
26 16 0.46
27 1 0.03
ACGTcount: A:0.67, C:0.01, G:0.00, T:0.31
Consensus pattern (27 bp):
TTAAAAATTAAAAAAATTATAAAAAAA
Found at i:43912430 original size:10 final size:9
Alignment explanation
Indices: 43912370--43912430 Score: 56
Period size: 9 Copynumber: 6.9 Consensus size: 9
43912360 GTCAATCAAT
43912370 AATT-TAAA
1 AATTATAAA
43912378 AATTATAAA
1 AATTATAAA
43912387 AATT-TAAA
1 AATTATAAA
*
43912395 AA-AATTAAA
1 AATTA-TAAA
* *
43912404 ATTTAAAAA
1 AATTATAAA
43912413 AATTATAAA
1 AATTATAAA
43912422 AATTCATAA
1 AATT-ATAA
43912431 TTAAAAAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
8 10 0.24
9 27 0.64
10 5 0.12
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.33
Consensus pattern (9 bp):
AATTATAAA
Found at i:43914118 original size:36 final size:36
Alignment explanation
Indices: 43914091--43914168 Score: 106
Period size: 36 Copynumber: 2.2 Consensus size: 36
43914081 TTTGATTATT
*
43914091 AAATTTTGAATTATTTAGTGATAAAATTTAATGATA
1 AAATTTAGAATTATTTAGTGATAAAATTTAATGATA
* * *
43914127 AAATTTAGGATTATTTAGTGATAATATTT-AGGA-A
1 AAATTTAGAATTATTTAGTGATAAAATTTAATGATA
43914161 AAATTTAG
1 AAATTTAG
43914169 CTAAATTTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
34 9 0.24
35 3 0.08
36 26 0.68
ACGTcount: A:0.44, C:0.00, G:0.14, T:0.42
Consensus pattern (36 bp):
AAATTTAGAATTATTTAGTGATAAAATTTAATGATA
Found at i:43914148 original size:23 final size:23
Alignment explanation
Indices: 43914116--43914159 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
43914106 TAGTGATAAA
43914116 ATTTAATGATAAAATTTAGGATT
1 ATTTAATGATAAAATTTAGGATT
* *
43914139 ATTTAGTGATAATATTTAGGA
1 ATTTAATGATAAAATTTAGGA
43914160 AAAATTTAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.16, T:0.43
Consensus pattern (23 bp):
ATTTAATGATAAAATTTAGGATT
Found at i:43914156 original size:13 final size:13
Alignment explanation
Indices: 43914102--43914157 Score: 64
Period size: 13 Copynumber: 4.5 Consensus size: 13
43914092 AATTTTGAAT
43914102 TATTTAGTGATAA
1 TATTTAGTGATAA
* *
43914115 AATTTAATGATAA
1 TATTTAGTGATAA
*
43914128 AATTTAG-GAT--
1 TATTTAGTGATAA
43914138 TATTTAGTGATAA
1 TATTTAGTGATAA
43914151 TATTTAG
1 TATTTAG
43914158 GAAAAATTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
10 6 0.17
11 3 0.08
12 3 0.08
13 24 0.67
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.45
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:43917437 original size:27 final size:27
Alignment explanation
Indices: 43917379--43917615 Score: 150
Period size: 27 Copynumber: 8.8 Consensus size: 27
43917369 CATCTTGGCT
* * **
43917379 GACTATCCCGTATTTACTGTCCCAGCG
1 GACTAACCCGTGTTTACTGTCCCAATG
* * *
43917406 AACTACCCCGTGTTTACTATCCCAATG
1 GACTAACCCGTGTTTACTGTCCCAATG
* * *
43917433 GACTAACCCGTGTTTAATGTCCTAATA
1 GACTAACCCGTGTTTACTGTCCCAATG
* ** * ***
43917460 GTCTAATTCGTGTTTACTATCCCAGCA
1 GACTAACCCGTGTTTACTGTCCCAATG
* * * *
43917487 GACTAACTCATGTTTAATGTCCCGATG
1 GACTAACCCGTGTTTACTGTCCCAATG
**
43917514 GACTAACCCGTGTTTACTGTCCCGGTG
1 GACTAACCCGTGTTTACTGTCCCAATG
* **** *
43917541 GACTAACCTGTGTTTACTGTCTTGCTA
1 GACTAACCCGTGTTTACTGTCCCAATG
* * * **
43917568 GACTAACCCGTGTTTAATATCCCGACA
1 GACTAACCCGTGTTTACTGTCCCAATG
* *
43917595 AACTAACTCGTGTTTACTGTC
1 GACTAACCCGTGTTTACTGTC
43917616 TCGACAGACT
Statistics
Matches: 161, Mismatches: 49, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
27 161 1.00
ACGTcount: A:0.23, C:0.27, G:0.17, T:0.33
Consensus pattern (27 bp):
GACTAACCCGTGTTTACTGTCCCAATG
Found at i:43917554 original size:81 final size:81
Alignment explanation
Indices: 43917407--43917615 Score: 197
Period size: 81 Copynumber: 2.6 Consensus size: 81
43917397 GTCCCAGCGA
* * * * * * * *
43917407 ACTACCCCGTGTTTACTATCCCAATGGACTAACCCGTGTTTAATGTCCTAATAGTCTAATTCGTG
1 ACTAACCCATGTTTAATATCCCGATGGACTAACCCGTGTTTACTGTCCCAATAGACTAACTCGTG
43917472 TTTACTATCCCAGC-AG
66 TTTACTAT-CCAGCTAG
* * ** *
43917488 ACTAACTCATGTTTAATGTCCCGATGGACTAACCCGTGTTTACTGTCCCGGTGGACTAAC-CTGT
1 ACTAACCCATGTTTAATATCCCGATGGACTAACCCGTGTTTACTGTCCCAATAGACTAACTC-GT
* **
43917552 GTTTACTGTCTTGCTAG
65 GTTTACTATCCAGCTAG
* *** *
43917569 ACTAACCCGTGTTTAATATCCCGACAAACTAACTCGTGTTTACTGTC
1 ACTAACCCATGTTTAATATCCCGATGGACTAACCCGTGTTTACTGTC
43917616 TCGACAGACT
Statistics
Matches: 103, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
80 4 0.04
81 99 0.96
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.33
Consensus pattern (81 bp):
ACTAACCCATGTTTAATATCCCGATGGACTAACCCGTGTTTACTGTCCCAATAGACTAACTCGTG
TTTACTATCCAGCTAG
Found at i:43917591 original size:54 final size:54
Alignment explanation
Indices: 43917407--43917590 Score: 190
Period size: 54 Copynumber: 3.4 Consensus size: 54
43917397 GTCCCAGCGA
* * * *
43917407 ACTACCCCGTGTTTACTATCCCAATGGACTAACCCGTGTTTAATGTCCTAATAG
1 ACTAACCCGTGTTTACTATCCCAGTGGACTAACCTGTGTTTAATGTCCTGATAG
* ** ** * * *
43917461 TCTAATTCGTGTTTACTATCCCAGCAGACTAA-CTCATGTTTAATGTCCCGATGG
1 ACTAACCCGTGTTTACTATCCCAGTGGACTAACCT-GTGTTTAATGTCCTGATAG
* * * * *
43917515 ACTAACCCGTGTTTACTGTCCCGGTGGACTAACCTGTGTTTACTGTCTTGCTAG
1 ACTAACCCGTGTTTACTATCCCAGTGGACTAACCTGTGTTTAATGTCCTGATAG
*
43917569 ACTAACCCGTGTTTAATATCCC
1 ACTAACCCGTGTTTACTATCCC
43917591 GACAAACTAA
Statistics
Matches: 101, Mismatches: 27, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
53 1 0.01
54 98 0.97
55 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.17, T:0.34
Consensus pattern (54 bp):
ACTAACCCGTGTTTACTATCCCAGTGGACTAACCTGTGTTTAATGTCCTGATAG
Found at i:43917625 original size:54 final size:54
Alignment explanation
Indices: 43917407--43917626 Score: 169
Period size: 54 Copynumber: 4.1 Consensus size: 54
43917397 GTCCCAGCGA
* * ** * * * *
43917407 ACTACCCCGTGTTTACTATCCCAATGGACTAACCCGTGTTTAATGTC-CTAATAG
1 ACTAACCCGTGTTTACTATCCCGACAGACTAACTCGTGTTTACTGTCTC-GACAG
* ** * * * **
43917461 TCTAATTCGTGTTTACTATCCC-AGCAGACTAACTCATGTTTAATGTCCCGATGG
1 ACTAACCCGTGTTTACTATCCCGA-CAGACTAACTCGTGTTTACTGTCTCGACAG
* *** *
43917515 ACTAACCCGTGTTTACTGTCCCGGTGGACTAAC-CTGTGTTTACTGTCTTG-CTAG
1 ACTAACCCGTGTTTACTATCCCGACAGACTAACTC-GTGTTTACTGTCTCGAC-AG
* *
43917569 ACTAACCCGTGTTTAATATCCCGACAAACTAACTCGTGTTTACTGTCTCGACAG
1 ACTAACCCGTGTTTACTATCCCGACAGACTAACTCGTGTTTACTGTCTCGACAG
43917623 ACTA
1 ACTA
43917627 TACTGGTTGC
Statistics
Matches: 129, Mismatches: 30, Indels: 14
0.75 0.17 0.08
Matches are distributed among these distances:
53 2 0.02
54 124 0.96
55 3 0.02
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (54 bp):
ACTAACCCGTGTTTACTATCCCGACAGACTAACTCGTGTTTACTGTCTCGACAG
Found at i:43917972 original size:16 final size:16
Alignment explanation
Indices: 43917936--43917975 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
43917926 ATTCCTCTGC
**
43917936 CCATTCCTCTATTTTG
1 CCATTCCTCTATTTCA
*
43917952 TCATTCCTCTATTTCA
1 CCATTCCTCTATTTCA
43917968 CCATTCCT
1 CCATTCCT
43917976 AATCTTGATG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.15, C:0.35, G:0.03, T:0.47
Consensus pattern (16 bp):
CCATTCCTCTATTTCA
Found at i:43927783 original size:13 final size:13
Alignment explanation
Indices: 43927761--43927793 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
43927751 AAATTTAATC
*
43927761 ATTAAGAATATAT
1 ATTAATAATATAT
43927774 ATTAATAATATAT
1 ATTAATAATATAT
43927787 A-TAATAA
1 ATTAATAA
43927794 ACTTATAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (13 bp):
ATTAATAATATAT
Found at i:43930411 original size:3 final size:3
Alignment explanation
Indices: 43930403--43930485 Score: 141
Period size: 3 Copynumber: 27.7 Consensus size: 3
43930393 GTTTTGCTAT
43930403 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC -TC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
*
43930450 TTC TTC TTC TTC TTC TTC TTTC TTC TTC CTC TTC TT
1 TTC TTC TTC TTC TTC TTC -TTC TTC TTC TTC TTC TT
43930486 TTTCACACTT
Statistics
Matches: 76, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
2 2 0.03
3 71 0.93
4 3 0.04
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TTC
Found at i:43943949 original size:15 final size:14
Alignment explanation
Indices: 43943931--43943999 Score: 54
Period size: 12 Copynumber: 4.9 Consensus size: 14
43943921 CCTTTTTTCT
43943931 TTTCTTTCCTTTTTG
1 TTTCTTT-CTTTTTG
43943946 TTTCTTTC-TTTT-
1 TTTCTTTCTTTTTG
* *
43943958 TTTCATT-TTTTTC
1 TTTCTTTCTTTTTG
*
43943971 TTTCTATTTCTTTTTA
1 TTTC--TTTCTTTTTG
*
43943987 TTTCTTTATTTTT
1 TTTCTTTCTTTTT
43944000 TTATTATATA
Statistics
Matches: 45, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
12 10 0.22
13 8 0.18
14 9 0.20
15 9 0.20
16 9 0.20
ACGTcount: A:0.06, C:0.14, G:0.01, T:0.78
Consensus pattern (14 bp):
TTTCTTTCTTTTTG
Found at i:43943952 original size:10 final size:9
Alignment explanation
Indices: 43943923--43943999 Score: 55
Period size: 10 Copynumber: 7.7 Consensus size: 9
43943913 TTTCATTCCC
43943923 TTTTTTCTT
1 TTTTTTCTT
*
43943932 TTCTTTCCTT
1 TT-TTTTCTT
43943942 TTTGTTTCTTTCT
1 TTT-TTTC--T-T
*
43943955 TTTTTTCAT
1 TTTTTTCTT
43943964 TTTTTTCTT
1 TTTTTTCTT
*
43943973 TCTATTTCTT
1 T-TTTTTCTT
43943983 TTTATTTCTT
1 TTT-TTTCTT
43943993 TATTTTT
1 T-TTTTT
43944000 TTATTATATA
Statistics
Matches: 54, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
9 14 0.26
10 29 0.54
11 2 0.04
12 5 0.09
13 4 0.07
ACGTcount: A:0.05, C:0.14, G:0.01, T:0.79
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:43943968 original size:9 final size:8
Alignment explanation
Indices: 43943923--43943985 Score: 56
Period size: 8 Copynumber: 7.5 Consensus size: 8
43943913 TTTCATTCCC
43943923 TTTTTTCT
1 TTTTTTCT
43943931 TTTCTTTC-
1 TTT-TTTCT
* *
43943939 CTTTTTGT
1 TTTTTTCT
*
43943947 TTCTTTCT
1 TTTTTTCT
43943955 TTTTTTCAT
1 TTTTTTC-T
43943964 TTTTTTCT
1 TTTTTTCT
43943972 TTCTATTTCT
1 TT-T-TTTCT
43943982 TTTT
1 TTTT
43943986 ATTTCTTTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
7 3 0.07
8 20 0.45
9 14 0.32
10 7 0.16
ACGTcount: A:0.03, C:0.16, G:0.02, T:0.79
Consensus pattern (8 bp):
TTTTTTCT
Found at i:43943968 original size:41 final size:41
Alignment explanation
Indices: 43943923--43944001 Score: 115
Period size: 41 Copynumber: 1.9 Consensus size: 41
43943913 TTTCATTCCC
* *
43943923 TTTTTTCTTTTCT-TTCCTTTTTGTTTCTTTCTTTTTTTCAT
1 TTTTTTC-TTTCTATTCCTTTTTATTTCTTTATTTTTTTCAT
*
43943964 TTTTTTCTTTCTATTTCTTTTTATTTCTTTATTTTTTT
1 TTTTTTCTTTCTATTCCTTTTTATTTCTTTATTTTTTT
43944002 ATTATATAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 5 0.15
41 29 0.85
ACGTcount: A:0.05, C:0.14, G:0.01, T:0.80
Consensus pattern (41 bp):
TTTTTTCTTTCTATTCCTTTTTATTTCTTTATTTTTTTCAT
Found at i:43943984 original size:24 final size:24
Alignment explanation
Indices: 43943926--43943989 Score: 71
Period size: 24 Copynumber: 2.8 Consensus size: 24
43943916 CATTCCCTTT
* *
43943926 TTTCTTTTCTTTCCTTTTTGTTTC
1 TTTCTTTTCTTTTCATTTTGTTTC
43943950 TTTC-TTT-TTTTCATTTT-TTTC
1 TTTCTTTTCTTTTCATTTTGTTTC
*
43943971 TTTCTATTTCTTTTTATTT
1 TTTCT-TTTCTTTTCATTT
43943990 CTTTATTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
21 8 0.24
22 8 0.24
23 6 0.18
24 12 0.35
ACGTcount: A:0.05, C:0.16, G:0.02, T:0.78
Consensus pattern (24 bp):
TTTCTTTTCTTTTCATTTTGTTTC
Found at i:43944527 original size:4 final size:4
Alignment explanation
Indices: 43944510--43944546 Score: 56
Period size: 4 Copynumber: 9.2 Consensus size: 4
43944500 TCTTTCCATC
* *
43944510 TTCT TTCC TTCT TTCT TTCT TTCT TTCC TTCT TTCT T
1 TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT T
43944547 GCATTATATA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (4 bp):
TTCT
Found at i:43944527 original size:12 final size:12
Alignment explanation
Indices: 43944498--43944546 Score: 55
Period size: 12 Copynumber: 4.2 Consensus size: 12
43944488 AAACGTGCAT
*
43944498 TTTCTTTCCATC
1 TTTCTTTCCTTC
43944510 -TTCTTTCCTTC
1 TTTCTTTCCTTC
*
43944521 TTTCTTTCTTTC
1 TTTCTTTCCTTC
* *
43944533 TTTCCTTCTTTC
1 TTTCTTTCCTTC
43944545 TT
1 TT
43944547 GCATTATATA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
11 10 0.30
12 23 0.70
ACGTcount: A:0.02, C:0.31, G:0.00, T:0.67
Consensus pattern (12 bp):
TTTCTTTCCTTC
Found at i:43947561 original size:14 final size:14
Alignment explanation
Indices: 43947542--43947569 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
43947532 TAATTTAGTT
43947542 AGTGGATGTGCATG
1 AGTGGATGTGCATG
43947556 AGTGGATGTGCATG
1 AGTGGATGTGCATG
43947570 GCTTGGTAAT
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:0.21, C:0.07, G:0.43, T:0.29
Consensus pattern (14 bp):
AGTGGATGTGCATG
Found at i:43948022 original size:21 final size:20
Alignment explanation
Indices: 43947981--43948022 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
43947971 TTAAATTGAG
*
43947981 AAATGTGTAAATTCTGTAGT
1 AAATGTGTAAATTCTGAAGT
*
43948001 AAATGTGTGAAATTGTGAAGT
1 AAATGTGT-AAATTCTGAAGT
43948022 A
1 A
43948023 TATGGGCTGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.38, C:0.02, G:0.24, T:0.36
Consensus pattern (20 bp):
AAATGTGTAAATTCTGAAGT
Found at i:43948526 original size:25 final size:25
Alignment explanation
Indices: 43948477--43948552 Score: 73
Period size: 25 Copynumber: 3.1 Consensus size: 25
43948467 GTCATTAGGG
* * *
43948477 TTATCGATTC-CAACTCTTATGAGC
1 TTATCGATACTCAGCTCGTATGAGC
43948501 TTATCGATACTCAGCTCGTATGAGC
1 TTATCGATACTCAGCTCGTATGAGC
* * * * *
43948526 TTACCGTTATTCAGCTCGGAGGAGC
1 TTATCGATACTCAGCTCGTATGAGC
43948551 TT
1 TT
43948553 CCCGTTTATC
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
24 9 0.21
25 34 0.79
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (25 bp):
TTATCGATACTCAGCTCGTATGAGC
Found at i:43950795 original size:21 final size:21
Alignment explanation
Indices: 43950770--43950810 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
43950760 GACAATTAAA
*
43950770 GACACACGAGAAGAATTATCC
1 GACACACGACAAGAATTATCC
43950791 GACACACGACAAGAATTATC
1 GACACACGACAAGAATTATC
43950811 TGATACAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.44, C:0.24, G:0.17, T:0.15
Consensus pattern (21 bp):
GACACACGACAAGAATTATCC
Found at i:43950822 original size:21 final size:21
Alignment explanation
Indices: 43950770--43950823 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
43950760 GACAATTAAA
* *
43950770 GACACACGAGAAGAATTATCC
1 GACACAAGACAAGAATTATCC
* *
43950791 GACACACGACAAGAATTATCT
1 GACACAAGACAAGAATTATCC
*
43950812 GATACAAGACAA
1 GACACAAGACAA
43950824 AGTGATAGGC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.46, C:0.22, G:0.17, T:0.15
Consensus pattern (21 bp):
GACACAAGACAAGAATTATCC
Found at i:43953846 original size:25 final size:25
Alignment explanation
Indices: 43953799--43953879 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
43953789 TTCTGGCTTT
* *
43953799 TATGAGCTTACAGATACTCAGCTCG
1 TATGAGCTTACCGTTACTCAGCTCG
* *
43953824 TATGAGCTTACCGTTATTTAGCTCG
1 TATGAGCTTACCGTTACTCAGCTCG
* * *
43953849 GAGGAGCTTACCGTTTA-TC-GCTCA
1 TATGAGCTTACCG-TTACTCAGCTCG
43953873 TATGAGC
1 TATGAGC
43953880 ATACATGTAC
Statistics
Matches: 45, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
24 9 0.20
25 33 0.73
26 3 0.07
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.32
Consensus pattern (25 bp):
TATGAGCTTACCGTTACTCAGCTCG
Found at i:43955769 original size:3 final size:3
Alignment explanation
Indices: 43955761--43955806 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
43955751 ATTTACCCTT
43955761 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
43955807 AGAGGCCCAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:43959578 original size:90 final size:90
Alignment explanation
Indices: 43959459--43959633 Score: 239
Period size: 90 Copynumber: 1.9 Consensus size: 90
43959449 AGTTCTTGCT
* * *
43959459 TTTTTTTTTACACTCATTTGAGCACTTAAACTTTCAAAATGCATCAAAAA-ATCCCTTAAACCTT
1 TTTTTTTTTACACTCATTGGAGCACTTAAACTTTCAAAATGCATCAAAAAGA-CCATCAAACCTT
*
43959523 TTCGAAGAAAA-CAATTAAGCCACTAC
65 TTC-AAAAAAAGCAATTAAGCCACTAC
* * *
43959549 TTTTTTTTTGCACTCAATTGGA-TACTTAAACTTTCAAAATGCATCAAAAAGACCATCAAACTTT
1 TTTTTTTTTACACTC-ATTGGAGCACTTAAACTTTCAAAATGCATCAAAAAGACCATCAAACCTT
43959613 TTCAAAAAAAGCAATTAAGCC
65 TTCAAAAAAAGCAATTAAGCC
43959634 CCTGCTTAGG
Statistics
Matches: 75, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
89 6 0.08
90 63 0.84
91 6 0.08
ACGTcount: A:0.39, C:0.21, G:0.07, T:0.33
Consensus pattern (90 bp):
TTTTTTTTTACACTCATTGGAGCACTTAAACTTTCAAAATGCATCAAAAAGACCATCAAACCTTT
TCAAAAAAAGCAATTAAGCCACTAC
Found at i:43959729 original size:29 final size:29
Alignment explanation
Indices: 43959670--43959724 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
43959660 AAATAGAATC
* *
43959670 AATAAAAGATATAAATATTATTAAATTTT
1 AATAAAAAATATAAATATTATAAAATTTT
43959699 AATAAAAAATA-AAATATTA-AAAATTT
1 AATAAAAAATATAAATATTATAAAATTT
43959725 ATTAAAAGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 6 0.25
28 8 0.33
29 10 0.42
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (29 bp):
AATAAAAAATATAAATATTATAAAATTTT
Found at i:43959769 original size:19 final size:19
Alignment explanation
Indices: 43959738--43959807 Score: 81
Period size: 19 Copynumber: 3.7 Consensus size: 19
43959728 AAAAGTTAGA
*
43959738 AAAAAATAT-AAAAATCGT
1 AAAAAATATAAAAAATTGT
43959756 AAAAAATATAAAAAATTGT
1 AAAAAATATAAAAAATTGT
* *
43959775 -AAAATTTTATAAAAATTGT
1 AAAAAATATA-AAAAATTGT
43959794 AAAAAAATATAAAA
1 -AAAAAATATAAAA
43959808 TATATGGAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
18 16 0.37
19 17 0.40
20 3 0.07
21 7 0.16
ACGTcount: A:0.67, C:0.01, G:0.04, T:0.27
Consensus pattern (19 bp):
AAAAAATATAAAAAATTGT
Found at i:43960177 original size:7 final size:7
Alignment explanation
Indices: 43960165--43960189 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
43960155 TTTTTCTAAA
43960165 ATTTATT
1 ATTTATT
43960172 ATTTATT
1 ATTTATT
43960179 ATTTATT
1 ATTTATT
43960186 ATTT
1 ATTT
43960190 TTAATTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
ATTTATT
Found at i:43960196 original size:14 final size:15
Alignment explanation
Indices: 43960164--43960196 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
43960154 GTTTTTCTAA
43960164 AATTTATTATTTATT
1 AATTTATTATTTATT
43960179 -ATTTATTATTT-TT
1 AATTTATTATTTATT
43960192 AATTT
1 AATTT
43960197 TTAATAAGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 2 0.12
14 15 0.88
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
AATTTATTATTTATT
Found at i:43960382 original size:93 final size:90
Alignment explanation
Indices: 43960204--43960384 Score: 229
Period size: 93 Copynumber: 2.0 Consensus size: 90
43960194 TTTTTAATAA
* *
43960204 GAGCAGGGCTTAAATGCTTTTTTGAAAAATTTTGAGAGTATTTTTGATGCATTTTGAAAGTTTAA
1 GAGCAGGGCTTAAATGCTTTTTTGAAAAAGTTTGAGAGTATTTTTGATGCATTTTGAAAGTTCAA
* *
43960269 GTACCCAATTGAGTGAAAAAAAAAG
66 ATACCCAATTAAGTGAAAAAAAAAG
* * * *
43960294 GAGCAGAGGCTTAATTGCTGTTTTTTGAAGAAGTTTGAGGGTCTTTTTGATGCATTTTGAAAGTT
1 GAGCAG-GGCTTAAATGC--TTTTTTGAAAAAGTTTGAGAGTATTTTTGATGCATTTTGAAAGTT
** *
43960359 CAAATACTTAATTAAGT-ATAAAAAAA
63 CAAATACCCAATTAAGTGAAAAAAAAA
43960385 TGAGGAGCTT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
90 6 0.08
91 10 0.13
92 8 0.10
93 53 0.69
ACGTcount: A:0.35, C:0.08, G:0.21, T:0.36
Consensus pattern (90 bp):
GAGCAGGGCTTAAATGCTTTTTTGAAAAAGTTTGAGAGTATTTTTGATGCATTTTGAAAGTTCAA
ATACCCAATTAAGTGAAAAAAAAAG
Found at i:43960493 original size:13 final size:13
Alignment explanation
Indices: 43960475--43960499 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43960465 CTACATAATA
43960475 TATAAAAATATAT
1 TATAAAAATATAT
43960488 TATAAAAATATA
1 TATAAAAATATA
43960500 AAACCGACCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
TATAAAAATATAT
Found at i:43962858 original size:9 final size:9
Alignment explanation
Indices: 43962846--43962913 Score: 75
Period size: 9 Copynumber: 7.4 Consensus size: 9
43962836 AAAATAAAAA
43962846 AATTCGGGT
1 AATTCGGGT
43962855 AATTCGGGT
1 AATTCGGGT
*
43962864 ATTTTTC-GGT
1 A--ATTCGGGT
*
43962874 AATTCGGTT
1 AATTCGGGT
*
43962883 AATTCGGTT
1 AATTCGGGT
43962892 AATTCGGGT
1 AATTCGGGT
*
43962901 AATTCGGTT
1 AATTCGGGT
43962910 AATT
1 AATT
43962914 TTTAACCAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
8 3 0.06
9 41 0.80
10 4 0.08
11 3 0.06
ACGTcount: A:0.22, C:0.10, G:0.25, T:0.43
Consensus pattern (9 bp):
AATTCGGGT
Found at i:43962896 original size:18 final size:18
Alignment explanation
Indices: 43962846--43962913 Score: 84
Period size: 18 Copynumber: 3.7 Consensus size: 18
43962836 AAAATAAAAA
*
43962846 AATTCGGGTAATTCGGGT
1 AATTCGGTTAATTCGGGT
* *
43962864 ATTTTTCGG-TAATTCGGTT
1 A--ATTCGGTTAATTCGGGT
43962883 AATTCGGTTAATTCGGGT
1 AATTCGGTTAATTCGGGT
43962901 AATTCGGTTAATT
1 AATTCGGTTAATT
43962914 TTTAACCAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
17 5 0.12
18 23 0.53
19 10 0.23
20 5 0.12
ACGTcount: A:0.22, C:0.10, G:0.25, T:0.43
Consensus pattern (18 bp):
AATTCGGTTAATTCGGGT
Found at i:43964011 original size:44 final size:44
Alignment explanation
Indices: 43963941--43964031 Score: 130
Period size: 44 Copynumber: 2.1 Consensus size: 44
43963931 ACTTTGTTTC
* * *
43963941 TTAGTTTCCCACTTAAACTCTTATTAGTGTGGGTTATTTTAATA
1 TTAGTTTCACACTTAAACTCTGATTAGTGTAGGTTATTTTAATA
*
43963985 TTAGTTTCACATTTAAACGT-TGATTAGTGTAGGTTATTTTAATA
1 TTAGTTTCACACTTAAAC-TCTGATTAGTGTAGGTTATTTTAATA
43964029 TTA
1 TTA
43964032 CTGGACCTAC
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 41 0.98
45 1 0.02
ACGTcount: A:0.27, C:0.10, G:0.14, T:0.48
Consensus pattern (44 bp):
TTAGTTTCACACTTAAACTCTGATTAGTGTAGGTTATTTTAATA
Found at i:43966064 original size:94 final size:94
Alignment explanation
Indices: 43965903--43966096 Score: 379
Period size: 94 Copynumber: 2.1 Consensus size: 94
43965893 CTGATTAGTA
43965903 TAGGTTATTTTAATATTATTTAACTTGTGAATTTAGCCTATAAATAGGTCATTTTTTCCACCCTA
1 TAGGTTATTTTAATATTATTTAACTTGTGAATTTAGCCTATAAATAGGTCATTTTTTCCACCCTA
43965968 GAAAGATAACTCATTACAAATTTAGGTAT
66 GAAAGATAACTCATTACAAATTTAGGTAT
43965997 TAGGTTATTTTAATATTATTTAACTTGTGAATTTAGCCTATAAATAGGTCATTTTTTCCACCCTA
1 TAGGTTATTTTAATATTATTTAACTTGTGAATTTAGCCTATAAATAGGTCATTTTTTCCACCCTA
*
43966062 GAAAGATAACTCATTACAGATTTAGGTAT
66 GAAAGATAACTCATTACAAATTTAGGTAT
43966091 TAGGTT
1 TAGGTT
43966097 TTGCAAGCTT
Statistics
Matches: 99, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
94 99 1.00
ACGTcount: A:0.33, C:0.12, G:0.13, T:0.42
Consensus pattern (94 bp):
TAGGTTATTTTAATATTATTTAACTTGTGAATTTAGCCTATAAATAGGTCATTTTTTCCACCCTA
GAAAGATAACTCATTACAAATTTAGGTAT
Found at i:43967169 original size:39 final size:37
Alignment explanation
Indices: 43967102--43967194 Score: 98
Period size: 39 Copynumber: 2.5 Consensus size: 37
43967092 ACCAGAATGG
* *
43967102 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAGTTGA
1 CACCCAGTGCCTCATCGGAAAGTCCGAAG-AA-AGTTGA
* *
43967141 CACCCAGTGTCTCATCGGCAAAG-CCGAAGAAAGTTGG
1 CACCCAGTGCCTCATCGG-AAAGTCCGAAGAAAGTTGA
* *
43967178 TACCCAGTACCTCATCG
1 CACCCAGTGCCTCATCG
43967195 AATCTATCCG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
37 19 0.41
38 2 0.04
39 22 0.48
40 3 0.07
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGAAAGTCCGAAGAAAGTTGA
Found at i:43968327 original size:20 final size:20
Alignment explanation
Indices: 43968293--43968332 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
43968283 TTCTATTCTG
*
43968293 TTTCTTTTCTGTTTTGTTTC
1 TTTCTTTTCTGTTTTATTTC
43968313 TTTCTTTTTCT-TTTTATTTC
1 TTTC-TTTTCTGTTTTATTTC
43968333 CTTTTATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.03, C:0.15, G:0.05, T:0.78
Consensus pattern (20 bp):
TTTCTTTTCTGTTTTATTTC
Found at i:43968499 original size:31 final size:28
Alignment explanation
Indices: 43968463--43968530 Score: 73
Period size: 31 Copynumber: 2.3 Consensus size: 28
43968453 TTGTCTTTAT
**
43968463 TTAATTTATTTCTTAATATAATATTTATAA
1 TTAATTTATTTAATAATAT-A-ATTTATAA
* *
43968493 TGTAATTAATTTAATAATATACTTTATAA
1 T-TAATTTATTTAATAATATAATTTATAA
43968522 TTAATTTAT
1 TTAATTTAT
43968531 ATATTTATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
28 7 0.22
29 8 0.25
30 2 0.06
31 15 0.47
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.54
Consensus pattern (28 bp):
TTAATTTATTTAATAATATAATTTATAA
Found at i:43968547 original size:21 final size:20
Alignment explanation
Indices: 43968509--43968547 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
43968499 TAATTTAATA
*
43968509 ATATACTTTATAATTAATTT
1 ATATACTTTATAAATAATTT
*
43968529 ATATATTTATATAAATAAT
1 ATATACTT-TATAAATAAT
43968548 AATATAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (20 bp):
ATATACTTTATAAATAATTT
Found at i:43973477 original size:21 final size:21
Alignment explanation
Indices: 43973435--43973477 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
43973425 TTCAGTATAC
*
43973435 ATTCTTTCATCAGTATCATTT
1 ATTCTTTCATCAGCATCATTT
*
43973456 ATTCTTTCTTCAGACATC-TTT
1 ATTCTTTCATCAG-CATCATTT
43973477 A
1 A
43973478 ATCTATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.23, C:0.21, G:0.05, T:0.51
Consensus pattern (21 bp):
ATTCTTTCATCAGCATCATTT
Found at i:43974586 original size:39 final size:37
Alignment explanation
Indices: 43974519--43974611 Score: 98
Period size: 39 Copynumber: 2.5 Consensus size: 37
43974509 ACCAGAATGG
* *
43974519 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAGTTGA
1 CACCCAGTGCCTCATCGGAAAGTCCGAAG-AA-AGTTGA
* *
43974558 CACCCAGTGTCTCATCGGCAAAG-CCGAAGAAAGTTGG
1 CACCCAGTGCCTCATCGG-AAAGTCCGAAGAAAGTTGA
* *
43974595 TACCCAGTACCTCATCG
1 CACCCAGTGCCTCATCG
43974612 AATCTATCCG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
37 19 0.41
38 2 0.04
39 22 0.48
40 3 0.07
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGAAAGTCCGAAGAAAGTTGA
Found at i:43975733 original size:20 final size:20
Alignment explanation
Indices: 43975699--43975738 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
43975689 TTCTATTCTG
*
43975699 TTTCTTTTCTGTTTTGTTTC
1 TTTCTTTTCTGTTTTATTTC
43975719 TTTCTTTTTCT-TTTTATTTC
1 TTTC-TTTTCTGTTTTATTTC
43975739 CTTTTATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.03, C:0.15, G:0.05, T:0.78
Consensus pattern (20 bp):
TTTCTTTTCTGTTTTATTTC
Found at i:43975905 original size:31 final size:28
Alignment explanation
Indices: 43975869--43975936 Score: 73
Period size: 31 Copynumber: 2.3 Consensus size: 28
43975859 TTGTCTTTAT
**
43975869 TTAATTTATTTCTTAATATAATATTTATAA
1 TTAATTTATTTAATAATAT-A-ATTTATAA
* *
43975899 TGTAATTAATTTAATAATATACTTTATAA
1 T-TAATTTATTTAATAATATAATTTATAA
43975928 TTAATTTAT
1 TTAATTTAT
43975937 ATATTTATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
28 7 0.22
29 8 0.25
30 2 0.06
31 15 0.47
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.54
Consensus pattern (28 bp):
TTAATTTATTTAATAATATAATTTATAA
Found at i:43975953 original size:21 final size:20
Alignment explanation
Indices: 43975915--43975953 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
43975905 TAATTTAATA
*
43975915 ATATACTTTATAATTAATTT
1 ATATACTTTATAAATAATTT
*
43975935 ATATATTTATATAAATAAT
1 ATATACTT-TATAAATAAT
43975954 AATATAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (20 bp):
ATATACTTTATAAATAATTT
Found at i:43980870 original size:21 final size:21
Alignment explanation
Indices: 43980828--43980870 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
43980818 TTCAGTATAC
*
43980828 ATTCTTTCATCAGTATCATTT
1 ATTCTTTCATCAGCATCATTT
*
43980849 ATTCTTTCTTCAGACATC-TTT
1 ATTCTTTCATCAG-CATCATTT
43980870 A
1 A
43980871 ATCTATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.23, C:0.21, G:0.05, T:0.51
Consensus pattern (21 bp):
ATTCTTTCATCAGCATCATTT
Found at i:43981981 original size:39 final size:37
Alignment explanation
Indices: 43981914--43982006 Score: 98
Period size: 39 Copynumber: 2.5 Consensus size: 37
43981904 ACCAGAATGG
* *
43981914 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAGTTGA
1 CACCCAGTGCCTCATCGGAAAGTCCGAAG-AA-AGTTGA
* *
43981953 CACCCAGTGTCTCATCGGCAAAG-CCGAAGAAAGTTGG
1 CACCCAGTGCCTCATCGG-AAAGTCCGAAGAAAGTTGA
* *
43981990 TACCCAGTACCTCATCG
1 CACCCAGTGCCTCATCG
43982007 AATCTATCCG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
37 19 0.41
38 2 0.04
39 22 0.48
40 3 0.07
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGAAAGTCCGAAGAAAGTTGA
Found at i:43983142 original size:20 final size:20
Alignment explanation
Indices: 43983108--43983147 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
43983098 TTCTATTCTG
*
43983108 TTTCTTTTCTGTTTTGTTTC
1 TTTCTTTTCTGTTTTATTTC
43983128 TTTCTTTTTCT-TTTTATTTC
1 TTTC-TTTTCTGTTTTATTTC
43983148 CTTTTATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.03, C:0.15, G:0.05, T:0.78
Consensus pattern (20 bp):
TTTCTTTTCTGTTTTATTTC
Found at i:43983314 original size:31 final size:28
Alignment explanation
Indices: 43983278--43983345 Score: 73
Period size: 31 Copynumber: 2.3 Consensus size: 28
43983268 TTGTCTTTAT
**
43983278 TTAATTTATTTCTTAATATAATATTTATAA
1 TTAATTTATTTAATAATAT-A-ATTTATAA
* *
43983308 TGTAATTAATTTAATAATATACTTTATAA
1 T-TAATTTATTTAATAATATAATTTATAA
43983337 TTAATTTAT
1 TTAATTTAT
43983346 ATATTTATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
28 7 0.22
29 8 0.25
30 2 0.06
31 15 0.47
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.54
Consensus pattern (28 bp):
TTAATTTATTTAATAATATAATTTATAA
Found at i:43983362 original size:21 final size:20
Alignment explanation
Indices: 43983324--43983362 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
43983314 TAATTTAATA
*
43983324 ATATACTTTATAATTAATTT
1 ATATACTTTATAAATAATTT
*
43983344 ATATATTTATATAAATAAT
1 ATATACTT-TATAAATAAT
43983363 AATATAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (20 bp):
ATATACTTTATAAATAATTT
Found at i:43987212 original size:6 final size:6
Alignment explanation
Indices: 43987201--43987229 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
43987191 CAAAAGAATT
43987201 AAAAGG AAAAGG AAAAGG AAAAGG AAAAG
1 AAAAGG AAAAGG AAAAGG AAAAGG AAAAG
43987230 CTTACAGTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (6 bp):
AAAAGG
Found at i:43990162 original size:18 final size:18
Alignment explanation
Indices: 43990139--43990178 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
43990129 TTTGCTAAGT
43990139 CTATCAGAGATTTCAAGC
1 CTATCAGAGATTTCAAGC
43990157 CTATCAGAGATTTCAAGC
1 CTATCAGAGATTTCAAGC
43990175 CTAT
1 CTAT
43990179 ATCTCTACGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.30
Consensus pattern (18 bp):
CTATCAGAGATTTCAAGC
Found at i:43991166 original size:24 final size:24
Alignment explanation
Indices: 43991139--43991241 Score: 93
Period size: 24 Copynumber: 4.1 Consensus size: 24
43991129 ACAAAGAATG
*
43991139 TATGAACATATATAAATTATAAAA
1 TATGAAAATATATAAATTATAAAA
*
43991163 TATGAAAATATAAAAATTATAAAA
1 TATGAAAATATATAAATTATAAAA
*
43991187 TAT-AAATGTATATAAAATATATAAAAA
1 TATGAAA-ATATAT-AAAT-TAT-AAAA
* *
43991214 CTATGAAAATA-AAATAATAATAAAA
1 -TATGAAAATATATA-AATTATAAAA
43991239 TAT
1 TAT
43991242 ATACATAATA
Statistics
Matches: 65, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
23 3 0.05
24 32 0.49
25 8 0.12
26 6 0.09
27 8 0.12
28 5 0.08
29 3 0.05
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (24 bp):
TATGAAAATATATAAATTATAAAA
Found at i:43991202 original size:17 final size:17
Alignment explanation
Indices: 43991146--43991242 Score: 80
Period size: 16 Copynumber: 5.8 Consensus size: 17
43991136 ATGTATGAAC
*
43991146 ATATATAAATTAT-AAA
1 ATATATAAAATATAAAA
*
43991162 ATAT-GAAAATATAAAA
1 ATATATAAAATATAAAA
*
43991178 AT-TATAAAATATAAAT
1 ATATATAAAATATAAAA
*
43991194 GTATATAAAATATATAAA
1 ATATATAAAATATA-AAA
43991212 A-ACTATGAAAATA-AAATA
1 ATA-TAT-AAAATATAAA-A
43991230 ATA-ATAAAATATA
1 ATATATAAAATATA
43991243 TACATAATAT
Statistics
Matches: 65, Mismatches: 7, Indels: 17
0.73 0.08 0.19
Matches are distributed among these distances:
15 7 0.11
16 26 0.40
17 17 0.26
18 8 0.12
19 7 0.11
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (17 bp):
ATATATAAAATATAAAA
Found at i:43991206 original size:7 final size:7
Alignment explanation
Indices: 43991148--43991207 Score: 57
Period size: 7 Copynumber: 7.7 Consensus size: 7
43991138 GTATGAACAT
43991148 ATATAAA
1 ATATAAA
*
43991155 TTATAAA
1 ATATAAA
43991162 ATATGAAA
1 ATAT-AAA
43991170 ATATAAAA
1 ATAT-AAA
43991178 ATTATAAA
1 A-TATAAA
43991186 ATATAAA
1 ATATAAA
43991193 TGTATATAAA
1 ---ATATAAA
43991203 ATATA
1 ATATA
43991208 TAAAAACTAT
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
7 20 0.44
8 15 0.33
9 3 0.07
10 7 0.16
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (7 bp):
ATATAAA
Done.