Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 152 of 250
Found at i:49112744 original size:21 final size:21
Alignment explanation
Indices: 49112665--49112745 Score: 90
Period size: 21 Copynumber: 3.8 Consensus size: 21
49112655 GCATGGCTGA
49112665 TCAGGCACTTTATGTGTTGTAT
1 TCAGGCACTTTATGTGTTGT-T
* * *
49112687 TCAAGCATTTTATGTGTCGTT
1 TCAGGCACTTTATGTGTTGTT
* * **
49112708 TTAGGCACCTCGTGTGTTGTT
1 TCAGGCACTTTATGTGTTGTT
49112729 TCAGGCACTTTATGTGT
1 TCAGGCACTTTATGTGT
49112746 CGTATACTGC
Statistics
Matches: 45, Mismatches: 14, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
21 28 0.62
22 17 0.38
ACGTcount: A:0.16, C:0.16, G:0.23, T:0.44
Consensus pattern (21 bp):
TCAGGCACTTTATGTGTTGTT
Found at i:49113103 original size:40 final size:40
Alignment explanation
Indices: 49113018--49113109 Score: 96
Period size: 40 Copynumber: 2.3 Consensus size: 40
49113008 TCGTTAAGAT
* *** *
49113018 AAAAAACGCCGCTATAGATCTAGCATTAGCGGTGCTTTTT
1 AAAAAACGCCGCTATAGATCTACCATTAGCGACACTTTTC
* *
49113058 GAAAAACGCCGCTATAGGT-TGACCATTAGCGACACTTTTC
1 AAAAAACGCCGCTATAGATCT-ACCATTAGCGACACTTTTC
*
49113098 AAAAAATGCCGC
1 AAAAAACGCCGC
49113110 AAAAAAATTA
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
39 1 0.02
40 41 0.98
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.25
Consensus pattern (40 bp):
AAAAAACGCCGCTATAGATCTACCATTAGCGACACTTTTC
Found at i:49113171 original size:75 final size:75
Alignment explanation
Indices: 49113081--49113259 Score: 232
Period size: 75 Copynumber: 2.4 Consensus size: 75
49113071 ATAGGTTGAC
* * *
49113081 CATTAGCGACACTTTTCAAAAAATGCCGCAAAAAAATTAAGCACAACGCCGTCGTTTTATGTTGA
1 CATTAGCGACGCTTTTCAAAAAACGCCGCAAAAAAATTAAGCACAACGCCGTCATTTTATGTTGA
49113146 GCTTTAGTGG
66 GCTTTAGTGG
* ** * * * *
49113156 CATTAGAGACGCTTTTTGAAAAACGCCTCAAAAAAATTAAGCACAATGTCGTTATTTTATGTTGA
1 CATTAGCGACGCTTTTCAAAAAACGCCGCAAAAAAATTAAGCACAACGCCGTCATTTTATGTTGA
49113221 GCTTTAGTGG
66 GCTTTAGTGG
* * **
49113231 CACTAGCGGCGCTTTTTGAAAAACGCCGC
1 CATTAGCGACGCTTTTCAAAAAACGCCGC
49113260 TATAGATTGA
Statistics
Matches: 90, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
75 90 1.00
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.29
Consensus pattern (75 bp):
CATTAGCGACGCTTTTCAAAAAACGCCGCAAAAAAATTAAGCACAACGCCGTCATTTTATGTTGA
GCTTTAGTGG
Found at i:49113625 original size:14 final size:14
Alignment explanation
Indices: 49113608--49113646 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
49113598 ATCATTATAG
49113608 TTTAGGGTTTATGA
1 TTTAGGGTTTATGA
*
49113622 TTTAGGGTATATGA
1 TTTAGGGTTTATGA
*
49113636 TTTAAGGTTTA
1 TTTAGGGTTTA
49113647 AGGTTTAGGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.49
Consensus pattern (14 bp):
TTTAGGGTTTATGA
Found at i:49113683 original size:22 final size:21
Alignment explanation
Indices: 49113642--49113696 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 21
49113632 ATGATTTAAG
49113642 GTTTAAGGTTTAGGAGTTACTA
1 GTTTAAGGTTTAGGAGTTAC-A
*
49113664 TTTTAAGGTTTAGG-GATTACA
1 GTTTAAGGTTTAGGAG-TTACA
*
49113685 GTTTATGGTTTA
1 GTTTAAGGTTTA
49113697 AAGATTGTGG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 12 0.41
22 17 0.59
ACGTcount: A:0.25, C:0.04, G:0.25, T:0.45
Consensus pattern (21 bp):
GTTTAAGGTTTAGGAGTTACA
Found at i:49116077 original size:39 final size:39
Alignment explanation
Indices: 49115995--49116090 Score: 102
Period size: 39 Copynumber: 2.5 Consensus size: 39
49115985 GACTTAAGAT
* * * *
49115995 CCGCAGGCTATGTGCTGGAATTATAACCGGACTTAAGGG
1 CCGCAGGCTACGTGCTGGAAATATAACCGGACTAAAGGC
** * *
49116034 CCGCAGGCTACGTGCTGGAAATATGTCCGGGCTAAAGTC
1 CCGCAGGCTACGTGCTGGAAATATAACCGGACTAAAGGC
* *
49116073 CCGCAGGCTTCGAGCTGG
1 CCGCAGGCTACGTGCTGG
49116091 TATTATACCG
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.22, C:0.25, G:0.32, T:0.21
Consensus pattern (39 bp):
CCGCAGGCTACGTGCTGGAAATATAACCGGACTAAAGGC
Found at i:49125038 original size:47 final size:47
Alignment explanation
Indices: 49124976--49125512 Score: 871
Period size: 47 Copynumber: 11.4 Consensus size: 47
49124966 TTCAGCCAAG
49124976 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
* **
49125023 AAGTGTATATGTGTGATAAGGCCTAATAACCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
49125070 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
49125117 AAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
* *
49125166 AAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
* *
49125213 AAGTGTATA-GTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
*
49125259 AAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
* *
49125306 ATGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
49125353 AAGTGTATATATGT-ATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
49125399 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
* * * * * * *
49125446 AAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
* *
49125493 AAGTGCATAAATGTGATAAG
1 AAGTGTATATATGTGATAAG
49125513 TCCCGAAGGG
Statistics
Matches: 463, Mismatches: 23, Indels: 8
0.94 0.05 0.02
Matches are distributed among these distances:
46 91 0.20
47 325 0.70
49 47 0.10
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
Found at i:49125274 original size:93 final size:94
Alignment explanation
Indices: 49124976--49125512 Score: 880
Period size: 93 Copynumber: 5.7 Consensus size: 94
49124966 TTCAGCCAAG
*
49124976 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
*
49125041 AGGCCTAATAACCGATGTGATGAATGTGA
66 AGGCCTAATAGCCGATGTGATGAATGTGA
49125070 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
49125135 TAAGGCCTAATGGCCGATGTGATGAATGTGA
64 TAAGGCCTAATAGCCGATGTGATGAATGTGA
* * *
49125166 AAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATA-GTGTGATA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
49125230 AGGCCTAATAGCCGATGTGATGAATGTGA
66 AGGCCTAATAGCCGATGTGATGAATGTGA
* *
49125259 AAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAATGTGTATATATGTGATA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
49125324 AGGCCTAATAGCCGATGTGATGAATGTGA
66 AGGCCTAATAGCCGATGTGATGAATGTGA
49125353 AAGTGTATATATGT-ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
*
49125417 AGGCCTAATGGCCGATGTGATGAATGTGA
66 AGGCCTAATAGCCGATGTGATGAATGTGA
* * * * * * * * *
49125446 AAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGATA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
49125511 AG
66 AG
49125513 TCCCGAAGGG
Statistics
Matches: 417, Mismatches: 22, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
93 179 0.43
94 149 0.36
96 89 0.21
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (94 bp):
AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
AGGCCTAATAGCCGATGTGATGAATGTGA
Found at i:49125336 original size:140 final size:140
Alignment explanation
Indices: 49124976--49125512 Score: 878
Period size: 140 Copynumber: 3.8 Consensus size: 140
49124966 TTCAGCCAAG
*
49124976 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
*
49125041 AGGCCTAATAACCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
66 AGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATA-ATGTGATAAGGCCTAATGGCCGATGT
49125106 GATGAATGTGA
130 GATGAATGTGA
*
49125117 AAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 AAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
49125182 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAGTGTGATAAGGCCTAATAGCCGATG
64 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAATGTGATAAGGCCTAATGGCCGATG
49125247 TGATGAATGTGA
129 TGATGAATGTGA
* *
49125259 AAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAATGTGTATATATGTGATA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
49125324 AGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGT-ATAAGGCCTAATGGCCGATGT
66 AGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATA-ATGTGATAAGGCCTAATGGCCGATGT
49125388 GATGAATGTGA
130 GATGAATGTGA
*
49125399 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
* * * * * * * *
49125464 GGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGATAAG
66 AGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT-AATGTGATAAG
49125513 TCCCGAAGGG
Statistics
Matches: 372, Mismatches: 19, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
140 221 0.59
141 14 0.04
142 40 0.11
143 97 0.26
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (140 bp):
AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
AGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAATGTGATAAGGCCTAATGGCCGATGTG
ATGAATGTGA
Found at i:49125407 original size:38 final size:40
Alignment explanation
Indices: 49125316--49125448 Score: 131
Period size: 46 Copynumber: 3.0 Consensus size: 40
49125306 ATGTGTATAT
*
49125316 ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
1 ATGT-ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG-G
49125358 TATATATGTATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 -----ATGTATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG-G
49125404 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 -----ATGT-ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
49125449 TGTATATATG
Statistics
Matches: 84, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
46 45 0.54
47 39 0.46
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (40 bp):
ATGTATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGG
Found at i:49125687 original size:37 final size:37
Alignment explanation
Indices: 49125631--49125709 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
49125621 CCGAGCTCTA
* *
49125631 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
49125668 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
49125705 AAGAC
1 AAGAC
49125710 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:49128708 original size:39 final size:39
Alignment explanation
Indices: 49128616--49128721 Score: 115
Period size: 39 Copynumber: 2.7 Consensus size: 39
49128606 TGTTTATCCA
* * *
49128616 GACTTAAGGTCCGCAGGCTATGTGCTGGAATTATAACCG
1 GACTTAAAGTCCGCAGGCTACGTGCTGGAAATATAACCG
* **
49128655 GACTTAAGGTCCGCAGGCTACGTGCTGGAAATATGTCCG
1 GACTTAAAGTCCGCAGGCTACGTGCTGGAAATATAACCG
* * *
49128694 GGC-TAAAGTCCCGCAGGCTTCGAGCTGG
1 GACTTAAAGT-CCGCAGGCTACGTGCTGG
49128722 TATTATACCG
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
38 5 0.09
39 53 0.91
ACGTcount: A:0.23, C:0.24, G:0.31, T:0.23
Consensus pattern (39 bp):
GACTTAAAGTCCGCAGGCTACGTGCTGGAAATATAACCG
Found at i:49129748 original size:7 final size:7
Alignment explanation
Indices: 49129715--49129778 Score: 65
Period size: 7 Copynumber: 8.9 Consensus size: 7
49129705 AGGGGTTGAT
*
49129715 GTTTAAG
1 GTTTAGG
49129722 GTTTAGAG
1 GTTTAG-G
49129730 GTTTAGGG
1 GTTTA-GG
49129738 GTTTAGG
1 GTTTAGG
49129745 GTTTAGG
1 GTTTAGG
**
49129752 GTTTATA
1 GTTTAGG
* *
49129759 TTTTATG
1 GTTTAGG
49129766 GTTTAGG
1 GTTTAGG
49129773 GTTTAG
1 GTTTAG
49129779 AAGATAATGG
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
7 35 0.73
8 12 0.25
9 1 0.02
ACGTcount: A:0.19, C:0.00, G:0.34, T:0.47
Consensus pattern (7 bp):
GTTTAGG
Found at i:49129939 original size:16 final size:16
Alignment explanation
Indices: 49129920--49129950 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
49129910 ATATTAAATA
49129920 ATTTCAAATTCTAAAG
1 ATTTCAAATTCTAAAG
*
49129936 ATTTCAAATTTTAAA
1 ATTTCAAATTCTAAA
49129951 TAATTTTCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.10, G:0.03, T:0.42
Consensus pattern (16 bp):
ATTTCAAATTCTAAAG
Found at i:49129955 original size:26 final size:25
Alignment explanation
Indices: 49129926--49129982 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
49129916 AATAATTTCA
49129926 AATTCTAAAGATTTCAAATTTTAAAT
1 AATTCTAAAGATTTC-AATTTTAAAT
* * **
49129952 AATTTTCAAGATTTCAATTTTATCT
1 AATTCTAAAGATTTCAATTTTAAAT
49129977 AATTCT
1 AATTCT
49129983 TTTAAATATT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
25 13 0.50
26 13 0.50
ACGTcount: A:0.39, C:0.11, G:0.04, T:0.47
Consensus pattern (25 bp):
AATTCTAAAGATTTCAATTTTAAAT
Found at i:49130051 original size:15 final size:15
Alignment explanation
Indices: 49130031--49130060 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
49130021 AATGAAAAAA
49130031 TTAAAATAATATTAT
1 TTAAAATAATATTAT
*
49130046 TTAAAATAATTTTAT
1 TTAAAATAATATTAT
49130061 ATATTGTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TTAAAATAATATTAT
Found at i:49132298 original size:17 final size:18
Alignment explanation
Indices: 49132276--49132315 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
49132266 GACATAGGCT
49132276 AGAGTAGTTCATG-TCGA
1 AGAGTAGTTCATGCTCGA
*
49132293 AGAGTAGTTCATGCTCTA
1 AGAGTAGTTCATGCTCGA
49132311 AGAGT
1 AGAGT
49132316 GACAGTGACG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.30, C:0.12, G:0.28, T:0.30
Consensus pattern (18 bp):
AGAGTAGTTCATGCTCGA
Found at i:49140174 original size:35 final size:34
Alignment explanation
Indices: 49140135--49140200 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
49140125 TAATTGTGTT
*
49140135 ATTAATTTCTTAT-TTTAAGTTCTAAATTTAAATTC
1 ATTAATTT-TTATATTT-AGTTCTAAAGTTAAATTC
*
49140170 ATTAATTTTTATATTTAGTTTTAAAGTTAAA
1 ATTAATTTTTATATTTAGTTCTAAAGTTAAA
49140201 ATTTTAATAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 17 0.61
35 11 0.39
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.55
Consensus pattern (34 bp):
ATTAATTTTTATATTTAGTTCTAAAGTTAAATTC
Found at i:49140203 original size:35 final size:35
Alignment explanation
Indices: 49140135--49140203 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
49140125 TAATTGTGTT
*
49140135 ATTAATTTCTTATTTTAAGTTCTAAATTTAAATTC
1 ATTAATTTCTTATTTTAAGTTCTAAATTAAAATTC
*
49140170 ATTAATTT-TTATATTT-AGTTTTAAAGTTAAAATT
1 ATTAATTTCTTAT-TTTAAGTTCTAAA-TTAAAATT
49140204 TTAATAGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 12 0.40
35 18 0.60
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.55
Consensus pattern (35 bp):
ATTAATTTCTTATTTTAAGTTCTAAATTAAAATTC
Found at i:49140449 original size:43 final size:43
Alignment explanation
Indices: 49140337--49140567 Score: 315
Period size: 43 Copynumber: 5.4 Consensus size: 43
49140327 AATATTTTTT
* *
49140337 TAAAGGTCATGTTC-TTAGC-GACGTTTGTGGAAAAAGCGCCGC
1 TAAAGGTCATGTTCTTTAGCAG-CGTTTGTGGGAAAAGCACCGC
* * *
49140379 TAAAGGT-ATGTTCTATAACAGCATTTGTGGGAAAAGCACCGC
1 TAAAGGTCATGTTCTTTAGCAGCGTTTGTGGGAAAAGCACCGC
* *
49140421 TAAAGGTCATGCTCTTTAGCAGCGTTTGTGGGAAAAGCGCCGC
1 TAAAGGTCATGTTCTTTAGCAGCGTTTGTGGGAAAAGCACCGC
* * * *
49140464 TAAAGGTCCTGTTCTTTAGCGGCATTTGTGGGAAAAGTACCGC
1 TAAAGGTCATGTTCTTTAGCAGCGTTTGTGGGAAAAGCACCGC
* *
49140507 TAAAAGTCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCACCGC
1 TAAAGGTCATGTTCTTTAGCAGCGTTTGTGGGAAAAGCACCGC
49140550 TAAAGGTCATGTTCTTTA
1 TAAAGGTCATGTTCTTTA
49140568 ATGGCGCTTT
Statistics
Matches: 165, Mismatches: 21, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
41 6 0.04
42 35 0.21
43 124 0.75
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (43 bp):
TAAAGGTCATGTTCTTTAGCAGCGTTTGTGGGAAAAGCACCGC
Found at i:49143708 original size:85 final size:85
Alignment explanation
Indices: 49143517--49143713 Score: 241
Period size: 85 Copynumber: 2.3 Consensus size: 85
49143507 CTAAGACATT
* * * *
49143517 GTGTAAGACTATGTCTGGGACACAGGCCTCGATTGAGATTTACTTATAAGACCATGTCTGGAACA
1 GTGTAAGACCATGTCTGGGACACAGGCCTCAAATGAGATTTACGTATAAGACCATGTCTGGAACA
*
49143582 TCAGCATTGTATCTGATTTC
66 TCAGCATCGTATCTGATTTC
* * * * * * *
49143602 GTGTAAGACCGTGTCTAGGACACGGGCCTCAAATGGGATTTACGTATAAGACCATGTTTGGGAGA
1 GTGTAAGACCATGTCTGGGACACAGGCCTCAAATGAGATTTACGTATAAGACCATGTCTGGAACA
* *
49143667 TCGGTATCGTATCTGATTTC
66 TCAGCATCGTATCTGATTTC
* * *
49143687 GTGTAAGACCCTGTTTGGGACAGAGGC
1 GTGTAAGACCATGTCTGGGACACAGGC
49143714 ATCGATATTG
Statistics
Matches: 93, Mismatches: 19, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.29
Consensus pattern (85 bp):
GTGTAAGACCATGTCTGGGACACAGGCCTCAAATGAGATTTACGTATAAGACCATGTCTGGAACA
TCAGCATCGTATCTGATTTC
Found at i:49143737 original size:85 final size:85
Alignment explanation
Indices: 49143556--49143758 Score: 194
Period size: 85 Copynumber: 2.4 Consensus size: 85
49143546 CGATTGAGAT
* * *
49143556 TTACTTATAAGACCATGTCTGGAACATCAGCATTGTATCTGATTTCGTGTAAGACCGTGTCTAGG
1 TTACATATAAGACCATGTCTGGAACATCAGCATCGTATCTGATTTCGTGTAAGACCCTGTCTAGG
* *
49143621 ACACGGGCCTCAAATGGGAT
66 ACACGGGCATCAAATGGGAA
* * * * * * * *
49143641 TTACGTATAAGACCATGTTTGGGAGATCGGTATCGTATCTGATTTCGTGTAAGACCCTGTTTGGG
1 TTACATATAAGACCATGTCTGGAACATCAGCATCGTATCTGATTTCGTGTAAGACCCTGTCTAGG
* *
49143706 ACA-GAGGCATCGATAT-TGAA
66 ACACG-GGCATC-AAATGGGAA
* ** * *
49143726 TTACATTTAAGACCACATCCGGGACATCAGCAT
1 TTACATATAAGACCATGTCTGGAACATCAGCAT
49143759 TGTACTTGTT
Statistics
Matches: 93, Mismatches: 23, Indels: 4
0.77 0.19 0.03
Matches are distributed among these distances:
84 1 0.01
85 89 0.96
86 3 0.03
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.30
Consensus pattern (85 bp):
TTACATATAAGACCATGTCTGGAACATCAGCATCGTATCTGATTTCGTGTAAGACCCTGTCTAGG
ACACGGGCATCAAATGGGAA
Found at i:49147411 original size:23 final size:23
Alignment explanation
Indices: 49147384--49147443 Score: 102
Period size: 23 Copynumber: 2.6 Consensus size: 23
49147374 TTTGTTGTTG
*
49147384 TATTCATTGATGATATTTTGATT
1 TATTCACTGATGATATTTTGATT
49147407 TATTCACTGATGATATTTTGATT
1 TATTCACTGATGATATTTTGATT
49147430 TATTCACGTGATGA
1 TATTCAC-TGATGA
49147444 ATCTGAGCAT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
23 29 0.83
24 6 0.17
ACGTcount: A:0.27, C:0.08, G:0.15, T:0.50
Consensus pattern (23 bp):
TATTCACTGATGATATTTTGATT
Found at i:49151040 original size:42 final size:40
Alignment explanation
Indices: 49150939--49151091 Score: 157
Period size: 42 Copynumber: 3.6 Consensus size: 40
49150929 AGACATCGTG
*
49150939 TAAGACCATGTCTGGGTCACAT-GCCTCGATTGAGATTTACGTA
1 TAAGACCATGTCTGGG--ACATGGCATCGATT--GATTTACGTA
*
49150982 TAAGACCATGTCTGGGACATCGGCATCGTATCTGATTT-CGTG
1 TAAGACCATGTCTGGGACAT-GGCATCG-AT-TGATTTACGTA
* *
49151024 TAAGACCATGTCTGGGACATAGGCCTCGATGAGATTTACGTA
1 TAAGACCATGTCTGGGACAT-GGCATCGAT-TGATTTACGTA
*
49151066 TAAGACCATGGCTGGGACATTGGCAT
1 TAAGACCATGTCTGGGACA-TGGCAT
49151092 TGTACTTGTT
Statistics
Matches: 95, Mismatches: 9, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
41 11 0.12
42 54 0.57
43 27 0.28
44 2 0.02
45 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.28
Consensus pattern (40 bp):
TAAGACCATGTCTGGGACATGGCATCGATTGATTTACGTA
Found at i:49151082 original size:84 final size:85
Alignment explanation
Indices: 49150934--49151091 Score: 264
Period size: 84 Copynumber: 1.9 Consensus size: 85
49150924 GTCTGAGACA
* * *
49150934 TCGTGTAAGACCATGTCTGGGTCACATGCCTCGATTGAGATTTACGTATAAGACCATGTCTGGGA
1 TCGTGTAAGACCATGTCTGGGACACAGGCCTCGATTGAGATTTACGTATAAGACCATGGCTGGGA
49150999 CATCGGCATCGTATCTGATT
66 CATCGGCATCGTATCTGATT
*
49151019 TCGTGTAAGACCATGTCTGGGACATAGGCCTCGA-TGAGATTTACGTATAAGACCATGGCTGGGA
1 TCGTGTAAGACCATGTCTGGGACACAGGCCTCGATTGAGATTTACGTATAAGACCATGGCTGGGA
*
49151083 CATTGGCAT
66 CATCGGCAT
49151092 TGTACTTGTT
Statistics
Matches: 68, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
84 37 0.54
85 31 0.46
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (85 bp):
TCGTGTAAGACCATGTCTGGGACACAGGCCTCGATTGAGATTTACGTATAAGACCATGGCTGGGA
CATCGGCATCGTATCTGATT
Found at i:49155744 original size:28 final size:28
Alignment explanation
Indices: 49155690--49155744 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 28
49155680 AGATATAAAC
* *
49155690 TATTTAAATAATAAAATGATATTTTTAT
1 TATTTAAAAAATAAAATGATAATTTTAT
*
49155718 TATTATAAAAAATAAAAT-TTAATTTTA
1 TATT-TAAAAAATAAAATGATAATTTTA
49155745 GACCCTTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 11 0.48
29 12 0.52
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (28 bp):
TATTTAAAAAATAAAATGATAATTTTAT
Found at i:49156809 original size:14 final size:14
Alignment explanation
Indices: 49156791--49156837 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
49156781 GGTTATATGT
*
49156791 TTTAATTATTGTTT
1 TTTAATTATTGTTA
*
49156805 TTTAATAATT-TTA
1 TTTAATTATTGTTA
*
49156818 TTTAATATATCGTTA
1 TTTAAT-TATTGTTA
49156833 TTTAA
1 TTTAA
49156838 ATAACAGTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
13 8 0.30
14 11 0.41
15 8 0.30
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (14 bp):
TTTAATTATTGTTA
Found at i:49156935 original size:18 final size:18
Alignment explanation
Indices: 49156914--49156948 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
49156904 TTTCGAACAC
*
49156914 TTATTTATATTTTTTAAT
1 TTATTTATATCTTTTAAT
49156932 TTATTTATATCTTTTAA
1 TTATTTATATCTTTTAA
49156949 ATATTTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.69
Consensus pattern (18 bp):
TTATTTATATCTTTTAAT
Found at i:49156973 original size:139 final size:141
Alignment explanation
Indices: 49156830--49157117 Score: 347
Period size: 140 Copynumber: 2.1 Consensus size: 141
49156820 TAATATATCG
* * * *
49156830 TTATTTAAATAACAG-TTTTATAAAACATACGAGCAATTCA-TACATCACA-T-AGGATAAAAAA
1 TTATTTAAATAA-AGATTTTATAAAACACACAAGCAA-CCAGTACAACACACTGA-GATAAAAAA
* * ** **
49156891 CTACCATATTATATTTCGAACACTTATTTATATTTTTTAAT-TT-ATTTATATCTTTTAAATATT
63 CTACCATATTATATTTCAAAAACTTAAGTATA-TTTCAAATATTGA-TTATATCTTTTAAATATT
* *
49156954 TTTTTATC-AATAATT
126 GTTTAATCAAATAATT
*
49156969 TTATTTAAATAATGATTTTATAAAACACACAAGCAACCAGTACAACACACTGAGATAAAAAACTA
1 TTATTTAAATAAAGATTTTATAAAACACACAAGCAACCAGTACAACACACTGAGATAAAAAACTA
**
49157034 GTATATTATATTTCAAAAACTTAAGTATATTTCAAATATTGATTATATCTTTTAAATATTGTTTA
66 CCATATTATATTTCAAAAACTTAAGTATATTTCAAATATTGATTATATCTTTTAAATATTGTTTA
49157099 ATCAAATAATT
131 ATCAAATAATT
49157110 TTATTTAA
1 TTATTTAA
49157118 CATATAATTA
Statistics
Matches: 127, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
138 3 0.02
139 45 0.35
140 62 0.49
141 17 0.13
ACGTcount: A:0.42, C:0.11, G:0.05, T:0.41
Consensus pattern (141 bp):
TTATTTAAATAAAGATTTTATAAAACACACAAGCAACCAGTACAACACACTGAGATAAAAAACTA
CCATATTATATTTCAAAAACTTAAGTATATTTCAAATATTGATTATATCTTTTAAATATTGTTTA
ATCAAATAATT
Found at i:49160495 original size:136 final size:134
Alignment explanation
Indices: 49160126--49160507 Score: 512
Period size: 136 Copynumber: 2.8 Consensus size: 134
49160116 GAGTTGCTCG
* *
49160126 AACTTAATCCAACTACTTTTAAGTTTATTTCCATCTTTCAAGTGCCAAATCATTTTGAAACTATT
1 AACTTAATCAAACTAC-TTTAAGTTTATTTCCATCTTTCAAGTGCCAAATCATTTTGGAACTATT
* * * * *
49160191 TGAGTCCAAGACTTTACTTCAGTAAGGCAGAGAAATAAATCATGTATTTGTAGACTATTGTGTTG
65 TGAGTCCAAGACTTTACTTCAATAAGGCAGTGAAAT-AATTATGTATTTGCAAACTATTGTGTTG
49160256 CTTGTA
129 CTTGTA
** * * * *
49160262 AACTTAATTGAACTACTGTTAAGTTTATTTCTATTTTTCAGGTGTCAAATCATTTTGGAACTATT
1 AACTTAATCAAACTACT-TTAAGTTTATTTCCATCTTTCAAGTGCCAAATCATTTTGGAACTATT
*
49160327 TGAGTCCAAGACTTTACTTCAACAAGGCAGTGAAATATATTATGTATTTGCAAACTATTGTGTTG
65 TGAGTCCAAGACTTTACTTCAATAAGGCAGTGAAATA-ATTATGTATTTGCAAACTATTGTGTTG
49160392 CTTGTA
129 CTTGTA
*
49160398 AACTTAATCAAACTACTTTCAAATTTATTTCCATCTTTCAAGTGCCAAATCATTTTGGAACTATT
1 AACTTAATCAAACTACTTT-AAGTTTATTTCCATCTTTCAAGTGCCAAATCATTTTGGAACTATT
* * * * ***
49160463 TGAATTCAAAATTTTACTTCAATAAATTAGTGAAATGAATTATGT
65 TGAGTCCAAGACTTTACTTCAATAAGGCAGTGAAAT-AATTATGT
49160508 TACTTGTTAA
Statistics
Matches: 214, Mismatches: 28, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
135 4 0.02
136 209 0.98
137 1 0.00
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.40
Consensus pattern (134 bp):
AACTTAATCAAACTACTTTAAGTTTATTTCCATCTTTCAAGTGCCAAATCATTTTGGAACTATTT
GAGTCCAAGACTTTACTTCAATAAGGCAGTGAAATAATTATGTATTTGCAAACTATTGTGTTGCT
TGTA
Found at i:49161227 original size:18 final size:18
Alignment explanation
Indices: 49161201--49161239 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
49161191 TGAATTTTCG
*
49161201 AATTCGAATAACTCGAAT
1 AATTCGAATAAATCGAAT
*
49161219 AATTTGAATAAATCGAAT
1 AATTCGAATAAATCGAAT
49161237 AAT
1 AAT
49161240 ATTTTATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.49, C:0.10, G:0.10, T:0.31
Consensus pattern (18 bp):
AATTCGAATAAATCGAAT
Found at i:49162440 original size:25 final size:25
Alignment explanation
Indices: 49162407--49162463 Score: 114
Period size: 25 Copynumber: 2.3 Consensus size: 25
49162397 TATCAACAAA
49162407 TTAAATAGAATAATTAATAATAAAT
1 TTAAATAGAATAATTAATAATAAAT
49162432 TTAAATAGAATAATTAATAATAAAT
1 TTAAATAGAATAATTAATAATAAAT
49162457 TTAAATA
1 TTAAATA
49162464 TGTGTAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (25 bp):
TTAAATAGAATAATTAATAATAAAT
Found at i:49163970 original size:23 final size:23
Alignment explanation
Indices: 49163944--49163987 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
49163934 TTAAAATAAA
*
49163944 TATTATGATATGAATT-TATTTTC
1 TATTATGACAT-AATTATATTTTC
*
49163967 TATTGTGACATAATTATATTT
1 TATTATGACATAATTATATTT
49163988 AGTCCATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.32, C:0.05, G:0.09, T:0.55
Consensus pattern (23 bp):
TATTATGACATAATTATATTTTC
Found at i:49168503 original size:35 final size:35
Alignment explanation
Indices: 49168464--49168534 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
49168454 AAATCCAAAA
*
49168464 ACCACAGTTTGTATAATCGCCTTACAAATAATCTT
1 ACCACAGTTTGTATAATCGACTTACAAATAATCTT
* *
49168499 ACCACAGTTTGTATAATCGACTTAGAAATGATCTT
1 ACCACAGTTTGTATAATCGACTTACAAATAATCTT
49168534 A
1 A
49168535 AAACCAACCA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.35, C:0.20, G:0.11, T:0.34
Consensus pattern (35 bp):
ACCACAGTTTGTATAATCGACTTACAAATAATCTT
Found at i:49169070 original size:37 final size:38
Alignment explanation
Indices: 49168982--49169075 Score: 97
Period size: 37 Copynumber: 2.5 Consensus size: 38
49168972 CACCACTTCG
*
49168982 ACCACCCTACACACCACAAGAGACCCATGAAAAGCCCA
1 ACCACCCTATACACCACAAGAGACCCATGAAAAGCCCA
*
49169020 ACCACCCTGTACACCACATAG-GA-CCAT-AATAGAG-CCA
1 ACCACCCTATACACCACA-AGAGACCCATGAA-A-AGCCCA
* *
49169057 TCCACCCTATACACAACAA
1 ACCACCCTATACACCACAA
49169076 ATGTGGAACT
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
36 3 0.06
37 23 0.48
38 20 0.42
39 2 0.04
ACGTcount: A:0.40, C:0.39, G:0.10, T:0.11
Consensus pattern (38 bp):
ACCACCCTATACACCACAAGAGACCCATGAAAAGCCCA
Found at i:49176456 original size:31 final size:31
Alignment explanation
Indices: 49176421--49176483 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
49176411 TGCTGACAAC
* *
49176421 TTGTAAGTCTGTCGTCGTATCAACAAATCAT
1 TTGTAAGTCTATCATCGTATCAACAAATCAT
49176452 TTGTAAGTCTATCATCGTATCAACAAATCAT
1 TTGTAAGTCTATCATCGTATCAACAAATCAT
49176483 T
1 T
49176484 CTCACTATTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.37
Consensus pattern (31 bp):
TTGTAAGTCTATCATCGTATCAACAAATCAT
Found at i:49177472 original size:25 final size:26
Alignment explanation
Indices: 49177424--49177480 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 26
49177414 AAATTTATAC
*
49177424 ATAA-TATTAAAATTATATAGAAATGA
1 ATAATTATTAAAATTATATAAAAAT-A
*
49177450 A-AATTATT-AAATTATTTAAAAATA
1 ATAATTATTAAAATTATATAAAAATA
49177474 ATAATTA
1 ATAATTA
49177481 ATTTGAATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 2 0.07
25 20 0.74
26 5 0.19
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.39
Consensus pattern (26 bp):
ATAATTATTAAAATTATATAAAAATA
Found at i:49183716 original size:28 final size:28
Alignment explanation
Indices: 49183685--49183747 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
49183675 TCCCATATTA
49183685 ATGGGGTATAAGAAAAGTCTCATAACTT
1 ATGGGGTATAAGAAAAGTCTCATAACTT
* * * * *
49183713 ATGGGATATAGGAAGAGTTTTATAACTT
1 ATGGGGTATAAGAAAAGTCTCATAACTT
49183741 ATGGGGT
1 ATGGGGT
49183748 TGATAATGAC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.32
Consensus pattern (28 bp):
ATGGGGTATAAGAAAAGTCTCATAACTT
Found at i:49187088 original size:40 final size:40
Alignment explanation
Indices: 49186994--49187135 Score: 187
Period size: 40 Copynumber: 3.5 Consensus size: 40
49186984 TTACTCAATG
*
49186994 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
49187035 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
49187075 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
49187115 ATATCCGGGTTAAGACCCGAA
1 ATATCCGGGCTAAGTCCCGAA
49187136 AGCCTTGTGC
Statistics
Matches: 89, Mismatches: 10, Indels: 5
0.86 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 59 0.66
41 28 0.31
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.25, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:49192348 original size:28 final size:28
Alignment explanation
Indices: 49192317--49192379 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
49192307 TCCCATATTA
*
49192317 ATGGGGTATAGGAAGAGTCTCATAACTT
1 ATGGGGTATAGGAAAAGTCTCATAACTT
* *
49192345 ATGGGGTATAGGAAAAGTTTTATAACTT
1 ATGGGGTATAGGAAAAGTCTCATAACTT
49192373 ATGGGGT
1 ATGGGGT
49192380 TGATAATGAC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.32, C:0.06, G:0.30, T:0.32
Consensus pattern (28 bp):
ATGGGGTATAGGAAAAGTCTCATAACTT
Found at i:49193249 original size:24 final size:24
Alignment explanation
Indices: 49193222--49193301 Score: 85
Period size: 23 Copynumber: 3.3 Consensus size: 24
49193212 TACCGATATA
49193222 TCAGCTCATAAGAGCTTACTGTTC
1 TCAGCTCATAAGAGCTTACTGTTC
*
49193246 TCAGCTCGTCAA-AGCTTACTG-TC
1 TCAGCTCAT-AAGAGCTTACTGTTC
* *
49193269 TCAACTCA-ATAGAGCTTACTGTTTA
1 TCAGCTCATA-AGAGCTTACTG-TTC
49193294 TCAGCTCA
1 TCAGCTCA
49193302 GGAGGAGCTT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
21 1 0.02
22 1 0.02
23 17 0.37
24 17 0.37
25 10 0.22
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (24 bp):
TCAGCTCATAAGAGCTTACTGTTC
Found at i:49196350 original size:29 final size:29
Alignment explanation
Indices: 49196312--49196377 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 29
49196302 TTAGTGAAAA
*
49196312 TGAAAATTGG-GGATTAATTTGTGAAATGT
1 TGAAAATTGGTGG-TTAAATTGTGAAATGT
* *
49196341 TGAAATTTGGTGGTTAAATTGTGAAATAAT
1 TGAAAATTGGTGGTTAAATTGTGAAAT-GT
49196371 TGAAAAT
1 TGAAAAT
49196378 ATGGGCTTCT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
29 22 0.71
30 9 0.29
ACGTcount: A:0.38, C:0.00, G:0.24, T:0.38
Consensus pattern (29 bp):
TGAAAATTGGTGGTTAAATTGTGAAATGT
Found at i:49197200 original size:26 final size:26
Alignment explanation
Indices: 49197170--49197224 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
49197160 TAAGTTATAT
49197170 GTATGTTTTGAATCGTAAATTAAATA
1 GTATGTTTTGAATCGTAAATTAAATA
*
49197196 GTATGTTTTGAATGGTAAATTAAATA
1 GTATGTTTTGAATCGTAAATTAAATA
49197222 GTA
1 GTA
49197225 AGATTTGCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.38, C:0.02, G:0.18, T:0.42
Consensus pattern (26 bp):
GTATGTTTTGAATCGTAAATTAAATA
Found at i:49197231 original size:26 final size:26
Alignment explanation
Indices: 49197176--49197231 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 26
49197166 ATATGTATGT
* *
49197176 TTTGAATCGTAAATTAAATAGTATGT
1 TTTGAATCGTAAATTAAATAGTAAGA
*
49197202 TTTGAATGGTAAATTAAATAGTAAGA
1 TTTGAATCGTAAATTAAATAGTAAGA
49197228 TTTG
1 TTTG
49197232 CTTATTATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.39, C:0.02, G:0.18, T:0.41
Consensus pattern (26 bp):
TTTGAATCGTAAATTAAATAGTAAGA
Found at i:49204949 original size:18 final size:17
Alignment explanation
Indices: 49204911--49204949 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
49204901 AATAGGGCCG
*
49204911 TGTGGGCCACACGAGCG
1 TGTGGGCCACACGAGCA
*
49204928 TGTGGGTCCACACGGGCA
1 TGTGGG-CCACACGAGCA
49204946 TGTG
1 TGTG
49204950 AGATTCTGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.15, C:0.26, G:0.41, T:0.18
Consensus pattern (17 bp):
TGTGGGCCACACGAGCA
Found at i:49206032 original size:91 final size:91
Alignment explanation
Indices: 49205877--49206060 Score: 332
Period size: 91 Copynumber: 2.0 Consensus size: 91
49205867 CAACTTTTCT
* *
49205877 AAAGACAAAATTTTTTCATAACACGAACGGTTTTCCTAAAACATGTGTTTTCCAAAGCTTCCGCT
1 AAAGACAAAAGTTTTTCATAACACAAACGGTTTTCCTAAAACATGTGTTTTCCAAAGCTTCCGCT
49205942 AAAAAGAGATGATTTTAGACTTAACG
66 AAAAAGAGATGATTTTAGACTTAACG
* *
49205968 AAAGACAAAAGTTTTTCATAACACAAATGGTTTTCCTAAAATATGTGTTTTCCAAAGCTTCCGCT
1 AAAGACAAAAGTTTTTCATAACACAAACGGTTTTCCTAAAACATGTGTTTTCCAAAGCTTCCGCT
49206033 AAAAAGAGATGATTTTAGACTTAACG
66 AAAAAGAGATGATTTTAGACTTAACG
49206059 AA
1 AA
49206061 TAACCGGTGG
Statistics
Matches: 89, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
91 89 1.00
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.31
Consensus pattern (91 bp):
AAAGACAAAAGTTTTTCATAACACAAACGGTTTTCCTAAAACATGTGTTTTCCAAAGCTTCCGCT
AAAAAGAGATGATTTTAGACTTAACG
Found at i:49214590 original size:18 final size:16
Alignment explanation
Indices: 49214567--49214611 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 16
49214557 GCATAAAAAT
49214567 TATTATCATTTATAATGA
1 TATTAT-ATTTATAAT-A
*
49214585 TATTATTATTTGTAATA
1 TATTA-TATTTATAATA
49214602 TATTATATTT
1 TATTATATTT
49214612 TCGTCTTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 5 0.20
17 6 0.24
18 13 0.52
19 1 0.04
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (16 bp):
TATTATATTTATAATA
Found at i:49214860 original size:14 final size:14
Alignment explanation
Indices: 49214802--49214854 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 14
49214792 TTTTTTACAA
49214802 AAAATTTAACAAAT
1 AAAATTTAACAAAT
**
49214816 AAAATTTAGA-ATTT
1 AAAATTTA-ACAAAT
* *
49214830 AGAGTTTAACAAAT
1 AAAATTTAACAAAT
49214844 AAAATTTAACA
1 AAAATTTAACA
49214855 GTTAAAGTTT
Statistics
Matches: 29, Mismatches: 8, Indels: 4
0.71 0.20 0.10
Matches are distributed among these distances:
13 1 0.03
14 27 0.93
15 1 0.03
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.32
Consensus pattern (14 bp):
AAAATTTAACAAAT
Found at i:49214863 original size:28 final size:28
Alignment explanation
Indices: 49214806--49214864 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
49214796 TTACAAAAAA
* *
49214806 TTTAACAAATAAAATTTAGAATTTAGAG
1 TTTAACAAATAAAATTTAGAAGTTAAAG
49214834 TTTAACAAATAAAATTTA-ACAGTTAAAG
1 TTTAACAAATAAAATTTAGA-AGTTAAAG
49214862 TTT
1 TTT
49214865 GTCTTTTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 1 0.04
28 27 0.96
ACGTcount: A:0.49, C:0.05, G:0.08, T:0.37
Consensus pattern (28 bp):
TTTAACAAATAAAATTTAGAAGTTAAAG
Found at i:49215086 original size:17 final size:17
Alignment explanation
Indices: 49215048--49215086 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
49215038 TATTTCATAT
*
49215048 AATTATTTTAATATTTA
1 AATTATTTTAATATCTA
*
49215065 AATTATTTTATTATCTA
1 AATTATTTTAATATCTA
*
49215082 CATTA
1 AATTA
49215087 ATATTGATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.56
Consensus pattern (17 bp):
AATTATTTTAATATCTA
Found at i:49216567 original size:10 final size:9
Alignment explanation
Indices: 49216548--49216582 Score: 52
Period size: 10 Copynumber: 3.7 Consensus size: 9
49216538 TCTTTTTGTC
49216548 TTTATTTAT
1 TTTATTTAT
49216557 TTTATTTTAT
1 TTTA-TTTAT
49216567 TTTATTTAT
1 TTTATTTAT
49216576 TATTATT
1 T-TTATT
49216583 AACTTTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 10 0.42
10 14 0.58
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTATTTAT
Found at i:49216611 original size:22 final size:23
Alignment explanation
Indices: 49216586--49216634 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 23
49216576 TATTATTAAC
49216586 TTTAAAA-ATTTTGA-AATATATA
1 TTTAAAATATTTT-ATAATATATA
49216608 TTTAAAATATTTTATTAATATATA
1 TTTAAAATATTTTA-TAATATATA
49216632 TTT
1 TTT
49216635 TGAAATTACT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 8 0.33
23 5 0.21
24 11 0.46
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (23 bp):
TTTAAAATATTTTATAATATATA
Found at i:49216668 original size:21 final size:22
Alignment explanation
Indices: 49216631--49216685 Score: 78
Period size: 21 Copynumber: 2.5 Consensus size: 22
49216621 ATTAATATAT
*
49216631 ATTTTGAA-ATTACTTTTTTTA
1 ATTTTAAATATTACTTTTTTTA
49216652 ATTTTAAATATTA-TTTTTTTA
1 ATTTTAAATATTACTTTTTTTA
49216673 ATATTTAAATATT
1 AT-TTTAAATATT
49216686 TTAAACTTTC
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
21 17 0.55
22 14 0.45
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (22 bp):
ATTTTAAATATTACTTTTTTTA
Found at i:49216939 original size:19 final size:20
Alignment explanation
Indices: 49216917--49216969 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 20
49216907 TTTTATTATC
*
49216917 TTTTGTCTTTTTCTTTAAAT
1 TTTTATCTTTTTCTTTAAAT
* *
49216937 TTTTTTCTTTTT-TTT-AAG
1 TTTTATCTTTTTCTTTAAAT
*
49216955 TTTTATATTTTTCTT
1 TTTTATCTTTTTCTT
49216970 GTTTTATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
18 12 0.43
19 5 0.18
20 11 0.39
ACGTcount: A:0.13, C:0.08, G:0.04, T:0.75
Consensus pattern (20 bp):
TTTTATCTTTTTCTTTAAAT
Found at i:49216940 original size:20 final size:19
Alignment explanation
Indices: 49216917--49216958 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
49216907 TTTTATTATC
49216917 TTTTGTCTTTTTCTTTAAAT
1 TTTTGTCTTTTT-TTTAAAT
* *
49216937 TTTTTTCTTTTTTTTAAGT
1 TTTTGTCTTTTTTTTAAAT
49216956 TTT
1 TTT
49216959 ATATTTTTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.12, C:0.07, G:0.05, T:0.76
Consensus pattern (19 bp):
TTTTGTCTTTTTTTTAAAT
Found at i:49217036 original size:23 final size:23
Alignment explanation
Indices: 49217010--49217139 Score: 65
Period size: 21 Copynumber: 5.9 Consensus size: 23
49217000 ATTTTTATTA
*
49217010 ATTTTAAAAAATTTAAAATTTAT
1 ATTTTAAAAAATTTAAAATATAT
* *** *
49217033 ATTTGAAATGTTTTATAATATAT
1 ATTTTAAAAAATTTAAAATATAT
* *
49217056 ATTTT-TAAAATTTTAAATAT-T
1 ATTTTAAAAAATTTAAAATATAT
** *
49217077 ATTTT-AAATTTTTAATAT-TAT
1 ATTTTAAAAAATTTAAAATATAT
* * *
49217098 TTTTTTAAACA-TT-AAATATAT
1 ATTTTAAAAAATTTAAAATATAT
* * *
49217119 ATTTTTAATAATATAAAATAT
1 ATTTTAAAAAATTTAAAATAT
49217140 TTAAATATTT
Statistics
Matches: 76, Mismatches: 26, Indels: 10
0.68 0.23 0.09
Matches are distributed among these distances:
20 4 0.05
21 32 0.42
22 13 0.17
23 27 0.36
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.53
Consensus pattern (23 bp):
ATTTTAAAAAATTTAAAATATAT
Found at i:49217081 original size:21 final size:21
Alignment explanation
Indices: 49217017--49217140 Score: 83
Period size: 22 Copynumber: 5.7 Consensus size: 21
49217007 TTAATTTTAA
* *
49217017 AAAATTTAAAAT-TTATATTTG
1 AAAATTTTAAATATTAT-TTTT
*
49217038 AAATGTTTTATAATATATATTTTT
1 AAA-ATTTTA-AATAT-TATTTTT
49217062 AAAATTTTAAATATTA-TTTT
1 AAAATTTTAAATATTATTTTT
*
49217082 -AAATTTTTAATATTATTTTTT
1 AAAATTTTAAATATTA-TTTTT
* **
49217103 TAAACATTAAATATATATTTTT
1 AAAATTTTAAATAT-TATTTTT
* *
49217125 AATAATATAAAATATT
1 AA-AATTTTAAATATT
49217141 TAAATATTTA
Statistics
Matches: 83, Mismatches: 11, Indels: 17
0.75 0.10 0.15
Matches are distributed among these distances:
19 14 0.17
20 4 0.05
21 9 0.11
22 26 0.31
23 20 0.24
24 7 0.08
25 3 0.04
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (21 bp):
AAAATTTTAAATATTATTTTT
Found at i:49217093 original size:41 final size:45
Alignment explanation
Indices: 49217017--49217123 Score: 111
Period size: 42 Copynumber: 2.4 Consensus size: 45
49217007 TTAATTTTAA
*
49217017 AAAATTTAAAAT-TTATATTTGAAATGTTTTATAATA-TATATTTTT
1 AAAATTTTAAATATTAT-TTTGAAA-GTTTTATAATATTATATTTTT
*
49217062 AAAATTTTAAATATTATTTT-AAA-TTTT-TAATATTATTTTTTT
1 AAAATTTTAAATATTATTTTGAAAGTTTTATAATATTATATTTTT
49217104 AAACA--TTAAATATATATTTT
1 AAA-ATTTTAAATAT-TATTTT
49217124 TAATAATATA
Statistics
Matches: 56, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
41 13 0.23
42 21 0.38
43 1 0.02
44 3 0.05
45 14 0.25
46 4 0.07
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (45 bp):
AAAATTTTAAATATTATTTTGAAAGTTTTATAATATTATATTTTT
Found at i:49217101 original size:20 final size:21
Alignment explanation
Indices: 49217043--49217101 Score: 77
Period size: 19 Copynumber: 2.8 Consensus size: 21
49217033 ATTTGAAATG
49217043 TTTTATAATATATATTTTTAAAA
1 TTTT-TAATAT-TATTTTTAAAA
*
49217066 TTTTAAATATTA-TTTT-AAA
1 TTTTTAATATTATTTTTAAAA
49217085 TTTTTAATATTATTTTT
1 TTTTTAATATTATTTTT
49217102 TTAAACATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
19 14 0.42
20 8 0.24
21 2 0.06
22 5 0.15
23 4 0.12
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (21 bp):
TTTTTAATATTATTTTTAAAA
Found at i:49217194 original size:29 final size:30
Alignment explanation
Indices: 49217162--49217229 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 30
49217152 AGATATGACC
49217162 TTTTAAATTTA-TT-ATTAGTTTGT-TAATA
1 TTTTAAATTTATTTAATTAGTTT-TATAATA
* *
49217190 TTTTTAATATTATTTAATTTGTTTTATAATA
1 TTTTAAAT-TTATTTAATTAGTTTTATAATA
49217221 TTTTAAATT
1 TTTTAAATT
49217230 ATGATTTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
28 7 0.21
29 3 0.09
30 4 0.12
31 19 0.58
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.63
Consensus pattern (30 bp):
TTTTAAATTTATTTAATTAGTTTTATAATA
Found at i:49217220 original size:22 final size:23
Alignment explanation
Indices: 49217189--49217247 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 23
49217179 GTTTGTTAAT
49217189 ATTTTTAATATTATTTAATT-TG
1 ATTTTTAATATTATTTAATTATG
*
49217211 -TTTTATAATATT-TTAAATTATG
1 ATTTT-TAATATTATTTAATTATG
49217233 ATTTTTAA-ATTATTT
1 ATTTTTAATATTATTT
49217248 TTAAAGATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
21 13 0.42
22 14 0.45
23 4 0.13
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (23 bp):
ATTTTTAATATTATTTAATTATG
Found at i:49217727 original size:20 final size:20
Alignment explanation
Indices: 49217677--49217747 Score: 56
Period size: 20 Copynumber: 3.5 Consensus size: 20
49217667 TAATAATAAT
*
49217677 AAATAAATAAGTAAAATA-AA
1 AAATAAAAAAGTAAAA-AGAA
*
49217697 TAAAGAGAAAAAG-ACAAAAGAA
1 -AAATA-AAAAAGTA-AAAAGAA
* *
49217719 AAGTAAAAAAGTAAAAATAA
1 AAATAAAAAAGTAAAAAGAA
49217739 AAATAAAAA
1 AAATAAAAA
49217748 GATTGACATG
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
20 20 0.50
21 10 0.25
22 10 0.25
ACGTcount: A:0.76, C:0.01, G:0.10, T:0.13
Consensus pattern (20 bp):
AAATAAAAAAGTAAAAAGAA
Found at i:49220326 original size:47 final size:47
Alignment explanation
Indices: 49220257--49220347 Score: 182
Period size: 47 Copynumber: 1.9 Consensus size: 47
49220247 AAGAAAAAAG
49220257 AAAACCCCAAATCTATTGCCATTTGTGAGCCTGAACATGGAGACTTC
1 AAAACCCCAAATCTATTGCCATTTGTGAGCCTGAACATGGAGACTTC
49220304 AAAACCCCAAATCTATTGCCATTTGTGAGCCTGAACATGGAGAC
1 AAAACCCCAAATCTATTGCCATTTGTGAGCCTGAACATGGAGAC
49220348 ATTTGAAGTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (47 bp):
AAAACCCCAAATCTATTGCCATTTGTGAGCCTGAACATGGAGACTTC
Found at i:49220650 original size:19 final size:19
Alignment explanation
Indices: 49220626--49220664 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
49220616 TTTTAAAATT
49220626 TTTAAA-AACTGTTATGTAA
1 TTTAAATAACT-TTATGTAA
*
49220645 TTTAAATTACTTTATGTAA
1 TTTAAATAACTTTATGTAA
49220664 T
1 T
49220665 AATTTTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 15 0.83
20 3 0.17
ACGTcount: A:0.38, C:0.05, G:0.08, T:0.49
Consensus pattern (19 bp):
TTTAAATAACTTTATGTAA
Found at i:49221344 original size:154 final size:152
Alignment explanation
Indices: 49220961--49221356 Score: 493
Period size: 147 Copynumber: 2.6 Consensus size: 152
49220951 TAACCTTACA
* * *
49220961 AATATATTATATTTTAAAAACTTAAGTATATTTTTAAATTTAGTTATATATTTTAAATATTGTTT
1 AATATATTATATTTCAAAAACTTAAGTATA-TTTTATATTT-GTTATATCTTTTAAATATTGTTT
* *
49221026 TATTAATAATTTTATTTAATATATCATTATTTAAATAAAAATTTTATAAAAAAATCAGCAACATG
64 TATCAATAATTTTATTTAATATATCATTATTTAAATAAAAATTTTATAAAAAAATCAACAACATG
* * *
49221091 TGCATCACACACGGGATAAAAAATT
129 TGAATCACACAC-AGATAAAAAACT
* *
49221116 AGTATATTATATTTCAAAAACTTAAGTATATTTT-TA---G--ATATCTTTTAAATATTATTTTA
1 AATATATTATATTTCAAAAACTTAAGTATATTTTATATTTGTTATATCTTTTAAATATTGTTTTA
* * * * *
49221175 TCAATAATTTTATTTAATATATCGTTATTTAAATAATAATTTTATAAAACACA-CAAATAACCTG
66 TCAATAATTTTATTTAATATATCATTATTTAAATAAAAATTTTATAAAA-AAATC-AACAACATG
*
49221239 TGAATCACACA-AGATAGAAAACT
129 TGAATCACACACAGATAAAAAACT
* *
49221262 AATATATTATATTTCAAAAATTTGAGTATATTTTATATTTTGATTATATCTTTTAAATATTGTTT
1 AATATATTATATTTCAAAAACTTAAGTATATTTTATA-TTTG-TTATATCTTTTAAATATTGTTT
* *
49221327 AATCAATAATTTTATTTAATATATAATTAT
64 TATCAATAATTTTATTTAATATATCATTAT
49221357 GCATCACACG
Statistics
Matches: 208, Mismatches: 23, Indels: 21
0.83 0.09 0.08
Matches are distributed among these distances:
146 40 0.19
147 69 0.33
148 18 0.09
149 1 0.00
151 1 0.00
153 1 0.00
154 50 0.24
155 28 0.13
ACGTcount: A:0.43, C:0.07, G:0.05, T:0.45
Consensus pattern (152 bp):
AATATATTATATTTCAAAAACTTAAGTATATTTTATATTTGTTATATCTTTTAAATATTGTTTTA
TCAATAATTTTATTTAATATATCATTATTTAAATAAAAATTTTATAAAAAAATCAACAACATGTG
AATCACACACAGATAAAAAACT
Found at i:49221976 original size:24 final size:24
Alignment explanation
Indices: 49221925--49221976 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
49221915 TTTAGTATAT
* * *
49221925 ATTAGTATAATATATTTAAGATTT
1 ATTAGCATAATATATTTAACATTG
*
49221949 ATTAGCATAATATATTTGACATTG
1 ATTAGCATAATATATTTAACATTG
49221973 ATTA
1 ATTA
49221977 AAATTAAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.40, C:0.04, G:0.10, T:0.46
Consensus pattern (24 bp):
ATTAGCATAATATATTTAACATTG
Found at i:49223335 original size:136 final size:136
Alignment explanation
Indices: 49223065--49223326 Score: 452
Period size: 136 Copynumber: 1.9 Consensus size: 136
49223055 AGTTGTTGGT
* ** *
49223065 GAACTACTTTCAAGTTTATTTCCATCTTTCAAGTGCCAAATCATTTTGGAACTATTTGAGTCCGA
1 GAACTACTTTCAAGTTTATTTCCATCTTTCAAGTGCAAAATCATTTTGGAACTATCCGAGTCCAA
* * *
49223130 AACTTTACTTCAATAAGGCAGTGAAATGAATTATGTATTTTTAGATTATTGTGTTGCTTGTAAAC
66 AACTTTACTTCAATAAGGCAATGAAATGAATTATGTATTTATAGATTATTGCGTTGCTTGTAAAC
49223195 TTAATC
131 TTAATC
*
49223201 GAACTACTTTTAAGTTTATTTCCATCTTTCAAGTGCAAAATCATTTTGGAACTATCCGAGTCCAA
1 GAACTACTTTCAAGTTTATTTCCATCTTTCAAGTGCAAAATCATTTTGGAACTATCCGAGTCCAA
49223266 AACTTTACTTCAATAAGGCAATGAAATGAATTATGTATTTATAGATTATTGCGTTGCTTGT
66 AACTTTACTTCAATAAGGCAATGAAATGAATTATGTATTTATAGATTATTGCGTTGCTTGT
49223327 GATTTTAATT
Statistics
Matches: 118, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
136 118 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.40
Consensus pattern (136 bp):
GAACTACTTTCAAGTTTATTTCCATCTTTCAAGTGCAAAATCATTTTGGAACTATCCGAGTCCAA
AACTTTACTTCAATAAGGCAATGAAATGAATTATGTATTTATAGATTATTGCGTTGCTTGTAAAC
TTAATC
Found at i:49225731 original size:30 final size:31
Alignment explanation
Indices: 49225707--49225765 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
49225697 GTAAATACTC
* *
49225707 AAAATTTGAAGGATTAA-AGTGTAAATATGA
1 AAAACTTGAAGGACTAATAGTGTAAATATGA
*
49225737 AAAACTTGAAGGACTAATAGTGCAAATAT
1 AAAACTTGAAGGACTAATAGTGTAAATAT
49225766 TTTAAGGGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.49, C:0.05, G:0.19, T:0.27
Consensus pattern (31 bp):
AAAACTTGAAGGACTAATAGTGTAAATATGA
Found at i:49226032 original size:8 final size:8
Alignment explanation
Indices: 49226021--49226045 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
49226011 TTTAATAAGA
49226021 TATTTTAT
1 TATTTTAT
49226029 TATTTTAT
1 TATTTTAT
49226037 TATTTTAT
1 TATTTTAT
49226045 T
1 T
49226046 TAGTATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:49226757 original size:14 final size:14
Alignment explanation
Indices: 49226738--49226768 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
49226728 TAAATAGTTG
49226738 AAGAAAGGCTAAGA
1 AAGAAAGGCTAAGA
*
49226752 AAGAAAGGTTAAGA
1 AAGAAAGGCTAAGA
49226766 AAG
1 AAG
49226769 GTTCAAATAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.58, C:0.03, G:0.29, T:0.10
Consensus pattern (14 bp):
AAGAAAGGCTAAGA
Found at i:49229399 original size:27 final size:25
Alignment explanation
Indices: 49229346--49229395 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 25
49229336 TAACTCATAA
49229346 ATTTCACATTTCACAAATCAGTCCTT
1 ATTTCACATTTCACAAA-CAGTCCTT
49229372 ATTTCACATTTTCATCAAA-AGTCC
1 ATTTCACA-TTTCA-CAAACAGTCC
49229396 CTTAACAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 13 0.59
27 5 0.23
28 4 0.18
ACGTcount: A:0.32, C:0.26, G:0.04, T:0.38
Consensus pattern (25 bp):
ATTTCACATTTCACAAACAGTCCTT
Found at i:49232508 original size:38 final size:37
Alignment explanation
Indices: 49232456--49232527 Score: 99
Period size: 38 Copynumber: 1.9 Consensus size: 37
49232446 TAATTCATAT
*
49232456 TTTAATAATAATTATATTAAGAATATTACTAAATTGTA
1 TTTAATAATAATTATATTAA-AATATGACTAAATTGTA
* * *
49232494 TTTAATAATTATTATGTTAAAATATGATTAAATT
1 TTTAATAATAATTATATTAAAATATGACTAAATT
49232528 ATTTTTTCAT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 12 0.40
38 18 0.60
ACGTcount: A:0.46, C:0.01, G:0.06, T:0.47
Consensus pattern (37 bp):
TTTAATAATAATTATATTAAAATATGACTAAATTGTA
Found at i:49233933 original size:73 final size:73
Alignment explanation
Indices: 49233814--49233999 Score: 363
Period size: 73 Copynumber: 2.5 Consensus size: 73
49233804 TATTATTATT
*
49233814 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
49233879 ATTTTAAG
66 ATTTTAAG
49233887 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
49233952 ATTTTAAG
66 ATTTTAAG
49233960 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
49234000 GTCAAGTTGT
Statistics
Matches: 112, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 112 1.00
ACGTcount: A:0.28, C:0.06, G:0.25, T:0.41
Consensus pattern (73 bp):
TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
ATTTTAAG
Found at i:49238217 original size:3 final size:3
Alignment explanation
Indices: 49238209--49238234 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
49238199 ATCACATGTT
49238209 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
49238235 TGGATGTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:49247159 original size:11 final size:11
Alignment explanation
Indices: 49247143--49247173 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
49247133 TCTATATATT
49247143 TAAAAATTATA
1 TAAAAATTATA
*
49247154 TAAAAATAATA
1 TAAAAATTATA
49247165 TAAAAATTA
1 TAAAAATTA
49247174 ATACAGGCAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
TAAAAATTATA
Found at i:49248088 original size:15 final size:15
Alignment explanation
Indices: 49248068--49248097 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
49248058 GAGTATGATA
49248068 AAATATTAAAAAAAT
1 AAATATTAAAAAAAT
*
49248083 AAATATTTAAAAAAT
1 AAATATTAAAAAAAT
49248098 TACTAATAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
AAATATTAAAAAAAT
Found at i:49249738 original size:19 final size:19
Alignment explanation
Indices: 49249688--49249732 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
49249678 AATAACTTTC
*
49249688 AAAAATTAAAAATATTTCT
1 AAAAATTAAAAATATTTAT
*
49249707 TAAAATTAAAAATATTTAT
1 AAAAATTAAAAATATTTAT
49249726 AAAAATT
1 AAAAATT
49249733 CTAAATTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAAATTAAAAATATTTAT
Found at i:49250370 original size:17 final size:18
Alignment explanation
Indices: 49250338--49250372 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
49250328 GAAAATCTAA
*
49250338 TTTACATGCTTTAATTAG
1 TTTACATGCATTAATTAG
49250356 TTTACATG-ATTAATTAG
1 TTTACATGCATTAATTAG
49250373 AGCATCTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.31, C:0.09, G:0.11, T:0.49
Consensus pattern (18 bp):
TTTACATGCATTAATTAG
Found at i:49251669 original size:21 final size:21
Alignment explanation
Indices: 49251643--49251684 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
49251633 TTTGGGTTGG
*
49251643 TGTCTCGAGACATCAAGAACA
1 TGTCTCAAGACATCAAGAACA
*
49251664 TGTCTCAAGACCTCAAGAACA
1 TGTCTCAAGACATCAAGAACA
49251685 AAAATTTGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.38, C:0.26, G:0.17, T:0.19
Consensus pattern (21 bp):
TGTCTCAAGACATCAAGAACA
Found at i:49252875 original size:21 final size:23
Alignment explanation
Indices: 49252822--49252877 Score: 62
Period size: 21 Copynumber: 2.5 Consensus size: 23
49252812 AAAAATTGAG
*
49252822 ATAAGTTATGATAATTATACATTT
1 ATAA-TTATTATAATTATACATTT
* *
49252846 AAAAATATTATAATT-TA-ATTT
1 ATAATTATTATAATTATACATTT
49252867 ATAATTATTAT
1 ATAATTATTAT
49252878 TTTGAAAAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
21 13 0.48
22 2 0.07
23 9 0.33
24 3 0.11
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (23 bp):
ATAATTATTATAATTATACATTT
Found at i:49253037 original size:35 final size:35
Alignment explanation
Indices: 49252969--49253037 Score: 95
Period size: 35 Copynumber: 2.0 Consensus size: 35
49252959 TAATTATTAC
* *
49252969 AATTTTAATTTAATTTAGAATTATTAGTTAAAAAT
1 AATTATAATTTAATTTAGAATTATTAGTAAAAAAT
*
49253004 AATTATAATTTAATTTTGAAATTATTA-TAAAAAA
1 AATTATAATTTAATTTAG-AATTATTAGTAAAAAA
49253038 GACTTTTTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
35 22 0.73
36 8 0.27
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.46
Consensus pattern (35 bp):
AATTATAATTTAATTTAGAATTATTAGTAAAAAAT
Found at i:49257904 original size:22 final size:21
Alignment explanation
Indices: 49257847--49257904 Score: 53
Period size: 22 Copynumber: 2.6 Consensus size: 21
49257837 TATAATATAT
* *
49257847 AATATGAAAGTATATATGTAAA
1 AATAT-AAAGAATATATATAAA
* *
49257869 AATAATATATAATATATATAAA
1 AAT-ATAAAGAATATATATAAA
49257891 GAATATAAAGAATA
1 -AATATAAAGAATA
49257905 CGTAATACAA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
22 23 0.82
23 5 0.18
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.31
Consensus pattern (21 bp):
AATATAAAGAATATATATAAA
Found at i:49257931 original size:3 final size:3
Alignment explanation
Indices: 49257923--49258022 Score: 52
Period size: 3 Copynumber: 33.7 Consensus size: 3
49257913 AAGTAAAAAT
* * * *
49257923 ATA ATA ATA ATA TATAA ATA ATA AT- GTA A-A ATA ATA ATA GTTT GTA
1 ATA ATA ATA ATA -AT-A ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA
*
49257969 A-A A-A ATA ATA TATAA ATA ATA ATA ATA AT- ATA A-A ATA ATGT ATA
1 ATA ATA ATA ATA -AT-A ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA
49258013 ATA A-A ATA AT
1 ATA ATA ATA AT
49258023 TATTTAATAT
Statistics
Matches: 76, Mismatches: 9, Indels: 24
0.70 0.08 0.22
Matches are distributed among these distances:
2 13 0.17
3 50 0.66
4 11 0.14
5 2 0.03
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:49257961 original size:50 final size:50
Alignment explanation
Indices: 49257864--49258007 Score: 120
Period size: 50 Copynumber: 2.8 Consensus size: 50
49257854 AAGTATATAT
* * *
49257864 GTAAAAATAATATATAAT-ATATATAAAGAAT-ATAAAGAATACGTAATA-CAA
1 GTAAAAAT-ATA-ATAATAATATATAAATAATAATTAA-AATA-ATAATAGCAA
***
49257915 GTAAAAATATAATAATAATATATAAATAATAATGTAAAATAATAATAGTTT
1 GTAAAAATATAATAATAATATATAAATAATAAT-TAAAATAATAATAGCAA
49257966 GTAAAAA-ATAATATATAA-ATA-ATAATAATAATATAAAATAAT
1 GTAAAAATATAATA-ATAATATATA-AATAATAAT-TAAAATAAT
49258008 GTATAATAAA
Statistics
Matches: 80, Mismatches: 7, Indels: 13
0.80 0.07 0.13
Matches are distributed among these distances:
49 6 0.08
50 47 0.59
51 25 0.31
52 2 0.03
ACGTcount: A:0.62, C:0.01, G:0.06, T:0.31
Consensus pattern (50 bp):
GTAAAAATATAATAATAATATATAAATAATAATTAAAATAATAATAGCAA
Found at i:49258013 original size:20 final size:19
Alignment explanation
Indices: 49257972--49258021 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 19
49257962 GTTTGTAAAA
49257972 AATAATATATAAATAATAAT
1 AATAATATA-AAATAATAAT
*
49257992 AATAATATAAAATAATGTAT
1 AATAATATAAAATAAT-AAT
*
49258012 AATAAAATAA
1 AATAATATAA
49258022 TTATTTAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 7 0.26
20 20 0.74
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (19 bp):
AATAATATAAAATAATAAT
Found at i:49258099 original size:49 final size:45
Alignment explanation
Indices: 49257967--49258099 Score: 117
Period size: 49 Copynumber: 2.8 Consensus size: 45
49257957 TAATAGTTTG
* *
49257967 TAAAAAATAATAT-ATAAATAATAATAATAATATAAAATAATGTA
1 TAAAAAATATTATAATAAATAATAATAATGATATAAAATAATGTA
* * *
49258011 TAATAAAATAATTATTTAATATATAAT-ATAAAGATATATAAACATTATGTGA
1 TAA-AAAAT-ATTA--TAATAAATAATAATAATG--ATATAAA-ATAATGT-A
49258063 TAAAAATATATTATAATAAATAATAAGTAATGATATA
1 TAAAAA-ATATTATAATAAATAATAA-TAATGATATA
49258100 TGTTAATTAA
Statistics
Matches: 70, Mismatches: 7, Indels: 19
0.73 0.07 0.20
Matches are distributed among these distances:
44 3 0.04
45 5 0.07
46 3 0.04
48 5 0.07
49 23 0.33
50 8 0.11
51 17 0.24
52 6 0.09
ACGTcount: A:0.59, C:0.01, G:0.05, T:0.35
Consensus pattern (45 bp):
TAAAAAATATTATAATAAATAATAATAATGATATAAAATAATGTA
Found at i:49260468 original size:206 final size:207
Alignment explanation
Indices: 49259732--49260523 Score: 1284
Period size: 206 Copynumber: 3.8 Consensus size: 207
49259722 AATCTACTAT
* * * *
49259732 CTTCGATTTGCTCTCTGCCAATACAGAGATGCCAAATCATCTTAGATTTGTTTCAGCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
*** * * * *
49259797 ACAAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCCT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTT
* * * *
49259862 GGATC-TGCTCCAGTCTAATCGTCTGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATAT
*
49259926 GGAGACGCCAAA
196 GGAGATGCCAAA
*
49259938 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGCAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
* *
49260003 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGAATGCCAAAGCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTT
* *
49260068 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAAATCTGCTATGTGTCTGCTCTCCATCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATAT
49260133 GGAGATGCCAAA
196 GGAGATGCCAAA
49260145 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
49260210 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCAC-AGGATGCCAAATCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTT
* * * *
49260274 GGATCTTGCTTCAGTATAAACATCTGAAGGCTAGATCTGCTATGTATCTGCTCCCCGTCGAA-GT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATAT
*
49260338 GGAGATGCCAGA
196 GGAGATGCCAAA
* * *
49260350 CTTTGATTTGTTCTCTGCCAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
49260415 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTT
* *
49260480 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAAATCTGTTATG
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATG
49260524 CTGCGGCCTA
Statistics
Matches: 548, Mismatches: 36, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
205 120 0.22
206 254 0.46
207 174 0.32
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (207 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTT
GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATAT
GGAGATGCCAAA
Found at i:49265660 original size:40 final size:40
Alignment explanation
Indices: 49265616--49265692 Score: 138
Period size: 40 Copynumber: 1.9 Consensus size: 40
49265606 TTGATAATGG
49265616 GTTAGGTAAATGTTCCATGATAATGGA-TTAGGTAAATATT
1 GTTAGGTAAATGTTCCATGATAAT-GATTTAGGTAAATATT
49265656 GTTAGGTAAATGTTCCATGATAATGATTTAGGTAAAT
1 GTTAGGTAAATGTTCCATGATAATGATTTAGGTAAAT
49265693 GTTCTATGAT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
39 2 0.06
40 34 0.94
ACGTcount: A:0.35, C:0.05, G:0.22, T:0.38
Consensus pattern (40 bp):
GTTAGGTAAATGTTCCATGATAATGATTTAGGTAAATATT
Found at i:49272737 original size:40 final size:39
Alignment explanation
Indices: 49272682--49272757 Score: 143
Period size: 40 Copynumber: 1.9 Consensus size: 39
49272672 ATTGATAATG
49272682 GTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATT
1 GTTAGGTAAATGTTCCATGATAATGG-TTAGGTAAATATT
49272722 GTTAGGTAAATGTTCCATGATAATGGTTAGGTAAAT
1 GTTAGGTAAATGTTCCATGATAATGGTTAGGTAAAT
49272758 GTTCCATGAT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
39 10 0.28
40 26 0.72
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (39 bp):
GTTAGGTAAATGTTCCATGATAATGGTTAGGTAAATATT
Found at i:49276921 original size:13 final size:13
Alignment explanation
Indices: 49276903--49276935 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
49276893 TTAAACATAA
49276903 GGCCTTGCACTAT
1 GGCCTTGCACTAT
49276916 GGCCTTGCACTAT
1 GGCCTTGCACTAT
*
49276929 GACCTTG
1 GGCCTTG
49276936 AAATCCTCAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.15, C:0.30, G:0.24, T:0.30
Consensus pattern (13 bp):
GGCCTTGCACTAT
Found at i:49282920 original size:3 final size:3
Alignment explanation
Indices: 49282912--49283027 Score: 59
Period size: 3 Copynumber: 39.0 Consensus size: 3
49282902 AAGTAAAAAT
* * * *
49282912 ATA ATA ATA ATA TATAA ATA ATA AT- GTA A-A ATA ATA ATA GTTT GTA
1 ATA ATA ATA ATA -AT-A ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA
*
49282958 A-A A-A ATA ATA TATA ATAA ATA ATA ATA AT- ATA A-A ATA ATGT ATA
1 ATA ATA ATA ATA -ATA AT-A ATA ATA ATA ATA ATA ATA ATA AT-A ATA
*
49283002 ATA A-A ATA ATT AT- ATA ATA TATA ATA
1 ATA ATA ATA ATA ATA ATA ATA -ATA ATA
49283028 TAAAGATATA
Statistics
Matches: 89, Mismatches: 10, Indels: 28
0.70 0.08 0.22
Matches are distributed among these distances:
2 15 0.17
3 57 0.64
4 16 0.18
5 1 0.01
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:49282935 original size:20 final size:20
Alignment explanation
Indices: 49282908--49283029 Score: 60
Period size: 20 Copynumber: 6.0 Consensus size: 20
49282898 ATACAAGTAA
49282908 AAAT-ATAATAATAATATAT
1 AAATAATAATAATAATATAT
49282927 AAATAATAATGTAA-AATA-AT
1 AAATAATAA--TAATAATATAT
** *
49282947 AATAGTTTGTAAAAAATAATATAT
1 AA-A--TAAT-AATAATAATATAT
49282971 -AATAAATAATAATAATATA-
1 AAAT-AATAATAATAATATAT
*
49282990 AAATAATGTATAATAA-A-AT
1 AAATAAT-AATAATAATATAT
*
49283009 AATTATATAATATATAATATA
1 AAATA-ATAATA-ATAATATA
49283030 AAGATATATA
Statistics
Matches: 77, Mismatches: 9, Indels: 31
0.66 0.08 0.26
Matches are distributed among these distances:
18 1 0.01
19 15 0.19
20 36 0.47
21 7 0.09
22 7 0.09
23 7 0.09
24 4 0.05
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.35
Consensus pattern (20 bp):
AAATAATAATAATAATATAT
Found at i:49282948 original size:30 final size:31
Alignment explanation
Indices: 49282912--49283040 Score: 108
Period size: 30 Copynumber: 4.2 Consensus size: 31
49282902 AAGTAAAAAT
*
49282912 ATAATAATAATATATA-AATAATAATGTAAA
1 ATAATAATAATATATATAATAATAATATAAA
* * * * *
49282942 ATAATAATAGTTTGTA-AAAAATAATATATA
1 ATAATAATAATATATATAATAATAATATAAA
* *
49282972 ATAAATAATAATA-ATATAA-AATAATGTATA
1 AT-AATAATAATATATATAATAATAATATAAA
49283002 ATAA-AATAAT-TATATAATATATAATATAAA
1 ATAATAATAATATATATAATA-ATAATATAAA
49283032 GATATATAA
1 -ATA-ATAA
49283041 ACATTATGTG
Statistics
Matches: 79, Mismatches: 12, Indels: 13
0.76 0.12 0.12
Matches are distributed among these distances:
28 12 0.15
29 3 0.04
30 48 0.61
31 13 0.16
32 1 0.01
33 2 0.03
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (31 bp):
ATAATAATAATATATATAATAATAATATAAA
Found at i:49282950 original size:50 final size:50
Alignment explanation
Indices: 49282856--49282996 Score: 146
Period size: 50 Copynumber: 2.8 Consensus size: 50
49282846 GTATATATGT
* *
49282856 AAAAATAATATATAATATATTAAATAAT-ATAAAGAATACGTAATA-CAAGTA
1 AAAAATAATATATAATATA-TAAATAATAATTAA-AATA-ATAATAGCAAGTA
***
49282907 AAAATATAATA-ATAATATATAAATAATAATGTAAAATAATAATAGTTTGTA
1 AAAA-ATAATATATAATATATAAATAATAAT-TAAAATAATAATAGCAAGTA
*
49282958 AAAAATAATATATAATAAAT-AATAATAATATAAAATAAT
1 AAAAATAATATATAATATATAAATAATAAT-TAAAATAAT
49282997 GTATAATAAA
Statistics
Matches: 78, Mismatches: 7, Indels: 11
0.81 0.07 0.11
Matches are distributed among these distances:
50 37 0.47
51 33 0.42
52 8 0.10
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.32
Consensus pattern (50 bp):
AAAAATAATATATAATATATAAATAATAATTAAAATAATAATAGCAAGTA
Found at i:49283025 original size:15 final size:14
Alignment explanation
Indices: 49282910--49283040 Score: 63
Period size: 14 Copynumber: 8.9 Consensus size: 14
49282900 ACAAGTAAAA
49282910 ATATAATA-ATAAT
1 ATATAATATATAAT
49282923 ATATAA-ATAATAAT
1 ATATAATAT-ATAAT
* *
49282937 GTAAAATA-ATAAT
1 ATATAATATATAAT
* * *
49282950 AGTTTGTAAAAAATAAT
1 A---TATAATATATAAT
*
49282967 ATATAATAAATAAT
1 ATATAATATATAAT
49282981 A-ATAATATAAAATAAT
1 ATATAATAT---ATAAT
* *
49282997 GTATAATAAAATAATT
1 ATATAAT-ATATAA-T
49283013 ATATAATATATAAT
1 ATATAATATATAAT
*
49283027 ATAAAGATATATAA
1 ATATA-ATATATAA
49283041 ACATTATGTG
Statistics
Matches: 90, Mismatches: 14, Indels: 26
0.69 0.11 0.20
Matches are distributed among these distances:
12 1 0.01
13 17 0.19
14 26 0.29
15 18 0.20
16 16 0.18
17 11 0.12
18 1 0.01
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (14 bp):
ATATAATATATAAT
Found at i:49283030 original size:20 final size:19
Alignment explanation
Indices: 49282809--49283030 Score: 82
Period size: 19 Copynumber: 11.8 Consensus size: 19
49282799 AAAAGATGAC
*
49282809 ATAATAATATAAAATAAT-T
1 ATAAT-ATATAATATAATAT
49282828 ATAATATATAATATGAA-AGT
1 ATAATATATAATAT-AATA-T
* *
49282848 AT-ATATGTAAAAATAATAT
1 ATAATATAT-AATATAATAT
49282867 ATAATATATTAA-ATAATAT
1 ATAATATA-TAATATAATAT
* *
49282886 A-AAGAATACGTAATACAAGTA-
1 ATAA-TATA--TAATATAA-TAT
49282907 A-AA-ATATAATAATAATAT
1 ATAATATATAAT-ATAATAT
*
49282925 ATAA-ATAATAATGTAA-A-
1 ATAATAT-ATAATATAATAT
* * * *
49282942 ATAATA-ATAGTTTGTAAAAA
1 ATAATATATA--ATATAATAT
49282962 ATAATATATAATA-AATA-
1 ATAATATATAATATAATAT
* *
49282979 ATAATAATATAAAATAATGT
1 ATAAT-ATATAATATAATAT
*
49282999 ATAATA-A-AATA-ATTAT
1 ATAATATATAATATAATAT
49283015 ATAATATATAATATAA
1 ATAATATATAATATAA
49283031 AGATATATAA
Statistics
Matches: 157, Mismatches: 19, Indels: 54
0.68 0.08 0.23
Matches are distributed among these distances:
16 12 0.08
17 19 0.12
18 36 0.23
19 45 0.29
20 33 0.21
21 10 0.06
22 2 0.01
ACGTcount: A:0.60, C:0.01, G:0.05, T:0.34
Consensus pattern (19 bp):
ATAATATATAATATAATAT
Found at i:49285947 original size:27 final size:27
Alignment explanation
Indices: 49285899--49286057 Score: 184
Period size: 27 Copynumber: 5.9 Consensus size: 27
49285889 GCGAGGCTGC
* *
49285899 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
49285926 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
49285952 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * *
49285979 CAGATAATCGTAGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
49286006 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
49286033 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
49286058 GACGCTTCCT
Statistics
Matches: 115, Mismatches: 9, Indels: 16
0.82 0.06 0.11
Matches are distributed among these distances:
26 10 0.09
27 100 0.87
28 5 0.04
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:49285999 original size:54 final size:54
Alignment explanation
Indices: 49285917--49286057 Score: 239
Period size: 54 Copynumber: 2.6 Consensus size: 54
49285907 GTGACGAAGT
*
49285917 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
* *
49285971 CACCAGATCAGATAATCGTAGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
49286025 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
49286058 GACGCTTCCT
Statistics
Matches: 81, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
53 5 0.06
54 76 0.94
ACGTcount: A:0.35, C:0.24, G:0.23, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:49288437 original size:3 final size:3
Alignment explanation
Indices: 49288429--49288493 Score: 51
Period size: 3 Copynumber: 21.7 Consensus size: 3
49288419 GGGGTTTAAA
* * * * * * *
49288429 AAT AAT AAT ATT AAT AAT GAT GAT AGT AAT ATT AAT AAT AAT AAT TAC
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
49288477 AAT AAT ACA- AAT AAT AA
1 AAT AAT A-AT AAT AAT AA
49288494 ATATTCTAAA
Statistics
Matches: 48, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
2 1 0.02
3 46 0.96
4 1 0.02
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:49288668 original size:3 final size:3
Alignment explanation
Indices: 49288662--49288711 Score: 91
Period size: 3 Copynumber: 16.3 Consensus size: 3
49288652 AAAAGAAAAT
49288662 ATA ATA ATA ATA ATA ATAA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA
49288708 ATA A
1 ATA A
49288712 AATTGATTAA
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 43 0.93
4 3 0.07
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:49290168 original size:44 final size:44
Alignment explanation
Indices: 49290073--49290169 Score: 122
Period size: 44 Copynumber: 2.2 Consensus size: 44
49290063 AATCCACTAC
* * * *
49290073 AACTTTAGGGAGATGAGACTTGTAGCTTCGATTTACTCCAATGT
1 AACTTTAAGGAGAAGAGACTTGTAGCTTCGATCTACTCCAATGG
* * **
49290117 AATTTTAAGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGG
1 AACTTTAAGGAGAAGAGACTTGTAGCTTCGATCTACTCCAATGG
49290161 AACTTTAAG
1 AACTTTAAG
49290170 AATATAAGAA
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (44 bp):
AACTTTAAGGAGAAGAGACTTGTAGCTTCGATCTACTCCAATGG
Found at i:49290222 original size:45 final size:45
Alignment explanation
Indices: 49290149--49290580 Score: 150
Period size: 45 Copynumber: 9.6 Consensus size: 45
49290139 TAGCTTCGAT
* * * * *
49290149 CTACTCCGCTGGAACTTTAAGAATATAAGAATTGGTAATTTCAAC
1 CTACTCCACTGCAACTTCAAGGAGATAAGAATTGGTAATTTCAAC
** * * *
49290194 CTACTCCACTGCAACTTCAAGGAGATAAGGTTTGTGTATTTTTATC
1 CTACTCCACTGCAACTTCAAGGAGATAAGAATTG-GTAATTTCAAC
* * * * * *
49290240 CTGCTCTACTGCAACTTC-AGAGAGATAAGAATT-GTGACTTCGAT
1 CTACTCCACTGCAACTTCAAG-GAGATAAGAATTGGTAATTTCAAC
* * * * * * * * ** * *
49290284 CTGCTTCAATGTAATTTC-AGG-GAGAAGAGGTTTGTAGCTTCGAT
1 CTACTCCACTGCAACTTCAAGGAGATAAGA-ATTGGTAATTTCAAC
* * * *
49290328 CTACTCCGCTGAAACTTAAAGGAGGTAAGAATTGGTAATTTCAAC
1 CTACTCCACTGCAACTTCAAGGAGATAAGAATTGGTAATTTCAAC
* * * ** * * *
49290373 CTGCTCCACTACAACTTCAGGGAGATAAGGTTTGTGTATTTTTATC
1 CTACTCCACTGCAACTTCAAGGAGATAAGAATTG-GTAATTTCAAC
* * * * ** * *
49290419 CTGCTCTATTGCAACTTC-AGAGAGATAAGGATT-GTGGCTTT-GAT
1 CTACTCCACTGCAACTTCAAG-GAGATAAGAATTGGT-AATTTCAAC
* * * * * * * *
49290463 CTGCTCCAATGTAATTTC-A-GAGAGAAGAGATCT-GTAGCTTT-GAT
1 CTACTCCACTGCAACTTCAAGGAGATAAGA-AT-TGGTA-ATTTCAAC
* * *
49290507 CTACTCCGCTGGAACTTCAAGGAGGTAAGAATTGGTAATTTCAAC
1 CTACTCCACTGCAACTTCAAGGAGATAAGAATTGGTAATTTCAAC
*
49290552 C-AGCTCCACTGCAACTTCAGGGAGATAAG
1 CTA-CTCCACTGCAACTTCAAGGAGATAAG
49290581 GTTTGTGTAT
Statistics
Matches: 282, Mismatches: 88, Indels: 34
0.70 0.22 0.08
Matches are distributed among these distances:
42 13 0.05
43 5 0.02
44 84 0.30
45 100 0.35
46 80 0.28
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (45 bp):
CTACTCCACTGCAACTTCAAGGAGATAAGAATTGGTAATTTCAAC
Found at i:49290255 original size:46 final size:46
Alignment explanation
Indices: 49290201--49290589 Score: 173
Period size: 44 Copynumber: 8.7 Consensus size: 46
49290191 AACCTACTCC
* * *
49290201 ACTGCAACTTCAAGGAGATAAGGTTTGTGTATTTTTATCCTGCTCT
1 ACTGCAACTTCAAGGAGATAAGGATTGTGTACTTTGATCCTGCTCT
* *
49290247 ACTGCAACTTC-AGAGAGATAAGAATTGTG-ACTTCGAT-CTGCT-T
1 ACTGCAACTTCAAG-GAGATAAGGATTGTGTACTTTGATCCTGCTCT
* * * * * * *
49290290 CAATGTAATTTCAGGGAGA-AGAGG-TT-TGTAGCTTCGAT-CTACTCC
1 -ACTGCAACTTCAAGGAGATA-AGGATTGTGTA-CTTTGATCCTGCTCT
* * * * * * * * *
49290335 GCTGAAACTTAAAGGAGGTAAGAATTG-GTAATTTCAACCTGCTCC
1 ACTGCAACTTCAAGGAGATAAGGATTGTGTACTTTGATCCTGCTCT
* * * * *
49290380 ACTACAACTTCAGGGAGATAAGGTTTGTGTATTTTTATCCTGCTCT
1 ACTGCAACTTCAAGGAGATAAGGATTGTGTACTTTGATCCTGCTCT
* * *
49290426 ATTGCAACTTC-AGAGAGATAAGGATTGTG-GCTTTGAT-CTGCTCC
1 ACTGCAACTTCAAG-GAGATAAGGATTGTGTACTTTGATCCTGCTCT
* * * * * * *
49290470 AATGTAATTTC-A-GAGAGAAGAGA-TCTGTAGCTTTGAT-CTACTCC
1 ACTGCAACTTCAAGGAGATAAG-GATTGTGTA-CTTTGATCCTGCTCT
* * * * * * * * *
49290514 GCTGGAACTTCAAGGAGGTAAGAATTG-GTAATTTCAACCAGCTCC
1 ACTGCAACTTCAAGGAGATAAGGATTGTGTACTTTGATCCTGCTCT
* *
49290559 ACTGCAACTTCAGGGAGATAAGGTTTGTGTA
1 ACTGCAACTTCAAGGAGATAAGGATTGTGTA
49290590 TTTTTAGCTT
Statistics
Matches: 251, Mismatches: 71, Indels: 42
0.69 0.20 0.12
Matches are distributed among these distances:
42 12 0.05
43 7 0.03
44 85 0.34
45 76 0.30
46 71 0.28
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (46 bp):
ACTGCAACTTCAAGGAGATAAGGATTGTGTACTTTGATCCTGCTCT
Found at i:49290399 original size:179 final size:179
Alignment explanation
Indices: 49290072--49290595 Score: 789
Period size: 179 Copynumber: 2.9 Consensus size: 179
49290062 TAATCCACTA
* * * * * * * *
49290072 CAACTTTAGGGAGATGAGACTTGT-AGCTTCGATTTACTCCAATGTAATTTTAAGGAGAAGAGAT
1 CAACTTCAGAGAGATAAGAATTGTGA-CTTCGATCTGCTCCAATGTAATTTCAGGGAGAAGAGAT
* * ** *
49290136 TTGTAGCTTCGATCTACTCCGCTGGAACTTTAAGAATATAAGAATTGGTAATTTCAACCTACTCC
65 TTGTAGCTTCGATCTACTCCGCTGGAACTTAAAGGAGGTAAGAATTGGTAATTTCAACCTGCTCC
*
49290201 ACTGCAACTTCAAGGAGATAAGGTTTGTGTATTTTTATCCTGCTCTACTG
130 ACTGCAACTTCAGGGAGATAAGGTTTGTGTATTTTTATCCTGCTCTACTG
* *
49290251 CAACTTCAGAGAGATAAGAATTGTGACTTCGATCTGCTTCAATGTAATTTCAGGGAGAAGAGGTT
1 CAACTTCAGAGAGATAAGAATTGTGACTTCGATCTGCTCCAATGTAATTTCAGGGAGAAGAGATT
*
49290316 TGTAGCTTCGATCTACTCCGCTGAAACTTAAAGGAGGTAAGAATTGGTAATTTCAACCTGCTCCA
66 TGTAGCTTCGATCTACTCCGCTGGAACTTAAAGGAGGTAAGAATTGGTAATTTCAACCTGCTCCA
* *
49290381 CTACAACTTCAGGGAGATAAGGTTTGTGTATTTTTATCCTGCTCTATTG
131 CTGCAACTTCAGGGAGATAAGGTTTGTGTATTTTTATCCTGCTCTACTG
* * * * *
49290430 CAACTTCAGAGAGATAAGGATTGTGGCTTTGATCTGCTCCAATGTAATTTCAGAGAGAAGAGATC
1 CAACTTCAGAGAGATAAGAATTGTGACTTCGATCTGCTCCAATGTAATTTCAGGGAGAAGAGATT
* * *
49290495 TGTAGCTTTGATCTACTCCGCTGGAACTTCAAGGAGGTAAGAATTGGTAATTTCAACCAGCTCCA
66 TGTAGCTTCGATCTACTCCGCTGGAACTTAAAGGAGGTAAGAATTGGTAATTTCAACCTGCTCCA
49290560 CTGCAACTTCAGGGAGATAAGGTTTGTGTATTTTTA
131 CTGCAACTTCAGGGAGATAAGGTTTGTGTATTTTTA
49290596 GCTTTAATCT
Statistics
Matches: 313, Mismatches: 31, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
179 312 1.00
180 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (179 bp):
CAACTTCAGAGAGATAAGAATTGTGACTTCGATCTGCTCCAATGTAATTTCAGGGAGAAGAGATT
TGTAGCTTCGATCTACTCCGCTGGAACTTAAAGGAGGTAAGAATTGGTAATTTCAACCTGCTCCA
CTGCAACTTCAGGGAGATAAGGTTTGTGTATTTTTATCCTGCTCTACTG
Found at i:49290669 original size:45 final size:43
Alignment explanation
Indices: 49290594--49290722 Score: 134
Period size: 43 Copynumber: 3.0 Consensus size: 43
49290584 TGTGTATTTT
* * * *
49290594 TAGCTTTAATCTGTTCCACTACAA-TGTCAGGGAAATAAGATCCG
1 TAGCTTCAATCTGCTCCACTACAACT-TCAGGGAGATAAGAT-AG
* * *
49290638 CTATCTTCAATCTGCTCCGCTACAACTTCAGGGAGATAAGCTAG
1 -TAGCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATAG
* * *
49290682 TGGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGAT
1 TAGCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGAT
49290723 TCGACATAAT
Statistics
Matches: 70, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
43 35 0.50
44 1 0.01
45 33 0.47
46 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (43 bp):
TAGCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATAG
Found at i:49290814 original size:98 final size:98
Alignment explanation
Indices: 49290646--49290918 Score: 323
Period size: 98 Copynumber: 2.8 Consensus size: 98
49290636 CGCTATCTTC
* * * *
49290646 AATCTGCTCCGCTACAACTTCAGGGAGATAA-GCTAGTGGCTTCAATCTGCTCCACTGCAACTTT
1 AATCTGTTCCACTACAACTTCAGGGAGATAAGGCTAGTGGCTTCAATCTGCTCCACTACAACTTC
*
49290710 AGGGAGATAAGATTCGACATAATTTGTAGCTTT
66 AGGGAGATAAGATTCGACATAATTTGTAACTTT
* * * * * *
49290743 AATCTGTTCCATTGCAACTTCAGAGAGATAAGGCTAGTGGTTTCAATCTGCTCTACTATAACTTC
1 AATCTGTTCCACTACAACTTCAGGGAGATAAGGCTAGTGGCTTCAATCTGCTCCACTACAACTTC
*
49290808 AGGGAGATAAGATTCGCCATAATTTGTAACTTT
66 AGGGAGATAAGATTCGACATAATTTGTAACTTT
* * ** * * * * * * *
49290841 AATCTGTTCTACTACAACTTCAGGGAAATAAGATTCGCTGTCTTTAGTCTGCTCCGCTGCGACTT
1 AATCTGTTCCACTACAACTTCAGGGAGATAAGGCTAG-TGGCTTCAATCTGCTCCACTACAACTT
49290906 CAGGGAGATAAGA
65 CAGGGAGATAAGA
49290919 CTTGTGGATT
Statistics
Matches: 145, Mismatches: 29, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
97 26 0.18
98 88 0.61
99 31 0.21
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (98 bp):
AATCTGTTCCACTACAACTTCAGGGAGATAAGGCTAGTGGCTTCAATCTGCTCCACTACAACTTC
AGGGAGATAAGATTCGACATAATTTGTAACTTT
Found at i:49291413 original size:46 final size:46
Alignment explanation
Indices: 49291355--49291548 Score: 253
Period size: 46 Copynumber: 4.2 Consensus size: 46
49291345 AAAATTTGGT
* *
49291355 TTCTTCCATCCATCCTACTACAACTCAAGGGTATAGGATTTGTATC
1 TTCTTCAATCCATCCCACTACAACTCAAGGGTATAGGATTTGTATC
* * *
49291401 ATCTTCAATCCATCCCACTACAACTCAGGGGTATAGAATTTGTATC
1 TTCTTCAATCCATCCCACTACAACTCAAGGGTATAGGATTTGTATC
* * * *
49291447 TTCTTCAATCCATCCCACTATAGCTCATGGGTATGGGATTTGTATC
1 TTCTTCAATCCATCCCACTACAACTCAAGGGTATAGGATTTGTATC
* * * * **
49291493 TTCTTCAATCCATCCCACTGCAGCTCAAGGGTACAGGATTTTTGGC
1 TTCTTCAATCCATCCCACTACAACTCAAGGGTATAGGATTTGTATC
49291539 TTCTTCAATC
1 TTCTTCAATC
49291549 AATTGGTCAG
Statistics
Matches: 129, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 129 1.00
ACGTcount: A:0.25, C:0.26, G:0.15, T:0.34
Consensus pattern (46 bp):
TTCTTCAATCCATCCCACTACAACTCAAGGGTATAGGATTTGTATC
Found at i:49295270 original size:74 final size:74
Alignment explanation
Indices: 49295149--49295292 Score: 270
Period size: 74 Copynumber: 1.9 Consensus size: 74
49295139 TTTTGCTTCT
*
49295149 TCTCCATGTTCTGCAATTTGATTTTGTCAGGTGTCATGTCTACCACATGATTATATTGCTTCATA
1 TCTCCATGTTCTGCAATTTGATTCTGTCAGGTGTCATGTCTACCACATGATTATATTGCTTCATA
49295214 AAAGCACAA
66 AAAGCACAA
*
49295223 TCTCCATGTTCTGCAATTTGATTCTGTTAGGTGTCATGTCTACCACATGATTATATTGCTTCATA
1 TCTCCATGTTCTGCAATTTGATTCTGTCAGGTGTCATGTCTACCACATGATTATATTGCTTCATA
49295288 AAAGC
66 AAAGC
49295293 TTGTGCTAAA
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
74 68 1.00
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.39
Consensus pattern (74 bp):
TCTCCATGTTCTGCAATTTGATTCTGTCAGGTGTCATGTCTACCACATGATTATATTGCTTCATA
AAAGCACAA
Found at i:49296027 original size:24 final size:23
Alignment explanation
Indices: 49295989--49296034 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
49295979 GGATTCTGGC
* *
49295989 TAATTGCTCTTGCATCTGCTCTTG
1 TAATTGATCTCGCATCT-CTCTTG
49296013 TAATTGATCTCGCATCTCTCTT
1 TAATTGATCTCGCATCTCTCTT
49296035 TACATTTGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.15, C:0.26, G:0.13, T:0.46
Consensus pattern (23 bp):
TAATTGATCTCGCATCTCTCTTG
Found at i:49298323 original size:3 final size:3
Alignment explanation
Indices: 49298317--49298407 Score: 92
Period size: 3 Copynumber: 29.3 Consensus size: 3
49298307 AAAAGAAAAT
* * * * *
49298317 ATA ATA ATG ATA ATA ATA ATGCA ATA GTA GTA GTA GTA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA AT--A ATA ATA ATA ATA ATA ATA ATA ATA
* *
49298364 ATA ATA ATA ATA ATA ATA ATAA ATA GTA ATA ATA ATA TTA ATA A
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA A
49298408 AAAATTTTGA
Statistics
Matches: 77, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
3 71 0.92
4 3 0.04
5 3 0.04
ACGTcount: A:0.58, C:0.01, G:0.08, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:49303823 original size:57 final size:59
Alignment explanation
Indices: 49303704--49303824 Score: 149
Period size: 58 Copynumber: 2.1 Consensus size: 59
49303694 AGTAATGGTG
* * *
49303704 AAATGGAGAAATAAGAAACATTTGAAAATGATTATGGTTTTCTCTAAAAATGAAAATAA
1 AAATGGAGAAATAAGAAACATTTGAAAATAAATATGGTTTTCTCCAAAAATGAAAATAA
* * * *
49303763 AAATGGAGAACT-AGAATA-ATTTGGAAATAAATATGGTTTTC-CCCAAAATGAAAATGA
1 AAATGGAGAAATAAGAA-ACATTTGAAAATAAATATGGTTTTCTCCAAAAATGAAAATAA
49303820 AAATG
1 AAATG
49303825 ACCTTAAAAT
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
57 18 0.33
58 24 0.44
59 12 0.22
ACGTcount: A:0.50, C:0.07, G:0.17, T:0.27
Consensus pattern (59 bp):
AAATGGAGAAATAAGAAACATTTGAAAATAAATATGGTTTTCTCCAAAAATGAAAATAA
Found at i:49329202 original size:21 final size:21
Alignment explanation
Indices: 49329160--49329208 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
49329150 TAAGTACTTT
*
49329160 TTATTTTATTTTCCTTTATTA
1 TTATTTTATTTTACTTTATTA
*
49329181 TTATTTTAATTTTAGTTT-TTA
1 TTATTTT-ATTTTACTTTATTA
*
49329202 TAATTTT
1 TTATTTT
49329209 TATTGACTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 16 0.67
22 8 0.33
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.71
Consensus pattern (21 bp):
TTATTTTATTTTACTTTATTA
Found at i:49331139 original size:33 final size:33
Alignment explanation
Indices: 49331102--49331171 Score: 83
Period size: 33 Copynumber: 2.1 Consensus size: 33
49331092 TATTTATACA
49331102 ATTATAATATT-TTATT-TAAATT-AGTAGATATTT
1 ATTAT-ATATTATTATTAT-AATTAAG-AGATATTT
*
49331135 ATTATTTATTATTATTATAATTAAGAGATATTT
1 ATTATATATTATTATTATAATTAAGAGATATTT
49331168 ATTA
1 ATTA
49331172 ATTAAATAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
32 4 0.12
33 26 0.79
34 3 0.09
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (33 bp):
ATTATATATTATTATTATAATTAAGAGATATTT
Found at i:49331193 original size:33 final size:33
Alignment explanation
Indices: 49331091--49331193 Score: 82
Period size: 33 Copynumber: 3.0 Consensus size: 33
49331081 TGTAATGATA
* * *
49331091 ATATTTATACAATTATAATATTTTATTTAAATTAGTAG
1 ATATTTAT-TAATTATAATA-ATTA--TAAATAAG-AG
* * * *
49331129 ATATTTATTATTTATTATTATTATAATTAAGAG
1 ATATTTATTAATTATAATAATTATAAATAAGAG
49331162 ATATTTATTAATTA-AATAATTATAAAATAAGA
1 ATATTTATTAATTATAATAATTAT-AAATAAGA
49331194 TTTTTATGTG
Statistics
Matches: 53, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
32 7 0.13
33 22 0.42
34 6 0.11
36 3 0.06
37 7 0.13
38 8 0.15
ACGTcount: A:0.46, C:0.01, G:0.05, T:0.49
Consensus pattern (33 bp):
ATATTTATTAATTATAATAATTATAAATAAGAG
Found at i:49331447 original size:18 final size:19
Alignment explanation
Indices: 49331416--49331453 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
49331406 AAAACAAGGG
49331416 AGAAAAAGAGAAA-GAAAA
1 AGAAAAAGAGAAAGGAAAA
49331434 AGAAAAAG-GAAAAGGAAAA
1 AGAAAAAGAG-AAAGGAAAA
49331453 A
1 A
49331454 CTAGAGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 1 0.06
18 11 0.61
19 6 0.33
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (19 bp):
AGAAAAAGAGAAAGGAAAA
Found at i:49332197 original size:40 final size:40
Alignment explanation
Indices: 49332150--49332230 Score: 99
Period size: 40 Copynumber: 2.0 Consensus size: 40
49332140 AATTATGGGA
* * *
49332150 TACTGAATATTGTTTTGAATACTGAATTGAACTGTGAAAT
1 TACTGAATAATGTTATGAATACTGAATTGAACTGTAAAAT
* ** *
49332190 TACTGAATAATGTTATGTATTTTGCATTGAACTGTAAAAT
1 TACTGAATAATGTTATGAATACTGAATTGAACTGTAAAAT
49332230 T
1 T
49332231 GCTAATGAAG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.35, C:0.07, G:0.16, T:0.42
Consensus pattern (40 bp):
TACTGAATAATGTTATGAATACTGAATTGAACTGTAAAAT
Found at i:49332549 original size:45 final size:45
Alignment explanation
Indices: 49332443--49332549 Score: 133
Period size: 45 Copynumber: 2.4 Consensus size: 45
49332433 CGACTACTGT
* **
49332443 TACTGTTACAGTTACTATTACTGATTCAACACTTTGTGTGTCGAA
1 TACTGTTACAGTTACTGTTACAAATTCAACACTTTGTGTGTCGAA
* * * *
49332488 TACTGTTACCGTTACTGTTACAAATTCAGCATTTTGTGTGTTGAA
1 TACTGTTACAGTTACTGTTACAAATTCAACACTTTGTGTGTCGAA
* *
49332533 TACTGTTGCTGTTACTG
1 TACTGTTACAGTTACTG
49332550 CTACTGCTAC
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 53 1.00
ACGTcount: A:0.23, C:0.17, G:0.18, T:0.42
Consensus pattern (45 bp):
TACTGTTACAGTTACTGTTACAAATTCAACACTTTGTGTGTCGAA
Found at i:49335919 original size:17 final size:18
Alignment explanation
Indices: 49335899--49335938 Score: 57
Period size: 16 Copynumber: 2.3 Consensus size: 18
49335889 GAAAAATTAG
*
49335899 AAAATAAGAATAAAAAT-
1 AAAATAACAATAAAAATC
49335916 AAAAT-ACAATAAAAATC
1 AAAATAACAATAAAAATC
49335933 AAAATA
1 AAAATA
49335939 GCTAAAGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.75, C:0.05, G:0.03, T:0.17
Consensus pattern (18 bp):
AAAATAACAATAAAAATC
Found at i:49340849 original size:15 final size:15
Alignment explanation
Indices: 49340829--49340873 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
49340819 ATTTTAATCA
49340829 TTTTTTATTTTTTAT
1 TTTTTTATTTTTTAT
* *
49340844 TTTTTTAGTTTTTAA
1 TTTTTTATTTTTTAT
* *
49340859 ATTTGTATTTTTTAT
1 TTTTTTATTTTTTAT
49340874 CAATTCACTT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.18, C:0.00, G:0.04, T:0.78
Consensus pattern (15 bp):
TTTTTTATTTTTTAT
Found at i:49344599 original size:3 final size:3
Alignment explanation
Indices: 49344591--49344615 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
49344581 ATTAAATATG
49344591 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
49344616 AGTGATGTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Done.