Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 155 of 185
Found at i:47824080 original size:99 final size:99
Alignment explanation
Indices: 47823909--47824102 Score: 291
Period size: 99 Copynumber: 2.0 Consensus size: 99
47823899 TTGTTGGCAG
* ** * *
47823909 AGGCCAATATTAACTTTGATAAACCATAAATAACATTTATTTTTAAAAAGTAAGTGTTATCTCCA
1 AGGCCAATAGTAACTTTGATAAACCATAAATAACATTTATTTAAAAAAAGTAAGGGTTACCTCCA
47823974 TTAAAATTTTGCCTTATTTGAGTATTTTTATATT
66 TTAAAATTTTGCCTTATTTGAGTATTTTTATATT
* * * *
47824008 AGGCCAATAGTAACTTTGGTAAACCATATATAACATTTATTTAAAAAAAAGTAAGGGTTCCCT-T
1 AGGCCAATAGTAACTTTGATAAACCATAAATAACATTTATTT-AAAAAAAGTAAGGGTTACCTCC
47824072 ATTAAAATTTTGCCTTATTTGAGTATTTTTA
65 ATTAAAATTTTGCCTTATTTGAGTATTTTTA
47824103 ATAGTTGAAT
Statistics
Matches: 85, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
99 70 0.82
100 15 0.18
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.41
Consensus pattern (99 bp):
AGGCCAATAGTAACTTTGATAAACCATAAATAACATTTATTTAAAAAAAGTAAGGGTTACCTCCA
TTAAAATTTTGCCTTATTTGAGTATTTTTATATT
Found at i:47825321 original size:11 final size:11
Alignment explanation
Indices: 47825280--47825321 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
47825270 CCTTCAAAAA
47825280 TTCTCTTAAGT
1 TTCTCTTAAGT
*
47825291 TACTCTTAAGT
1 TTCTCTTAAGT
*
47825302 TCCTCTTAAGT
1 TTCTCTTAAGT
*
47825313 TTCTTTTAA
1 TTCTCTTAA
47825322 CTCCTTTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.21, C:0.19, G:0.07, T:0.52
Consensus pattern (11 bp):
TTCTCTTAAGT
Found at i:47825503 original size:15 final size:15
Alignment explanation
Indices: 47825483--47825536 Score: 54
Period size: 15 Copynumber: 3.4 Consensus size: 15
47825473 TTTTTAAATA
*
47825483 TTATTTAAGAATTTT
1 TTATTTATGAATTTT
*
47825498 TTATTTATGCATTTT
1 TTATTTATGAATTTT
*
47825513 TAGATATTTATTAATTTT
1 T---TATTTATGAATTTT
47825531 TTATTT
1 TTATTT
47825537 GTTATAAAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
15 19 0.59
18 13 0.41
ACGTcount: A:0.28, C:0.02, G:0.06, T:0.65
Consensus pattern (15 bp):
TTATTTATGAATTTT
Found at i:47827641 original size:25 final size:25
Alignment explanation
Indices: 47827613--47827660 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
47827603 TATTTTGATA
47827613 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
47827638 TTATTTGATGTAATAAAATAGAA
1 TTATTTGATGTAATAAAATAGAA
47827661 ATTTTTTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.40
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:47827846 original size:28 final size:23
Alignment explanation
Indices: 47827703--47828161 Score: 430
Period size: 23 Copynumber: 20.2 Consensus size: 23
47827693 ATTAATACCC
47827703 TTAAATTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
* *
47827726 TTTAATTAAAAACCTTAAACCCT-A
1 TTAAATTAAAAACCCT-AA-CCTAA
* ***
47827750 --AACTTAAAAACCCTAACCCCC
1 TTAAATTAAAAACCCTAACCTAA
*
47827771 TTAACTTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
*
47827794 TTAACTTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
47827817 TTAAATTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
47827840 TTAAATTAAAAACCCTAAACCCTAA
1 TTAAATTAAAAACCCT-AA-CCTAA
* **
47827865 --ACA-TAAAAACCCTAACCCCA
1 TTAAATTAAAAACCCTAACCTAA
*
47827885 TTAACTTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
* **
47827908 TTAACTTAAAAGTCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
*
47827931 TTAAATTAAAAACCTTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
*
47827954 TTTAATT-AAAACCCTAAACCCT-A
1 TTAAATTAAAAACCCT-AA-CCTAA
*
47827977 --AACTTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
* *
47827998 TTTAATTAAAAACCTTAAACCCT-A
1 TTAAATTAAAAACCCT-AA-CCTAA
* **
47828022 --AACTTAAAAACCCTAA-CTCCC
1 TTAAATTAAAAACCCTAACCT-AA
* *
47828043 TTAACTTAAAAACTCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
47828066 TTAAATTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
*
47828089 TTTAATTAAAAACCCTAAACCCT-A
1 TTAAATTAAAAACCCT-AA-CCTAA
*
47828113 --AACTTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
* *
47828134 TTTAATTAAAAACCCTAAACTAAA
1 TTAAATTAAAAACCCTAACCT-AA
47828158 TTAA
1 TTAA
47828162 TAATTTTACT
Statistics
Matches: 360, Mismatches: 47, Indels: 57
0.78 0.10 0.12
Matches are distributed among these distances:
19 2 0.01
20 11 0.03
21 15 0.04
22 60 0.17
23 237 0.66
24 21 0.06
25 14 0.04
ACGTcount: A:0.49, C:0.25, G:0.00, T:0.26
Consensus pattern (23 bp):
TTAAATTAAAAACCCTAACCTAA
Found at i:47827965 original size:68 final size:67
Alignment explanation
Indices: 47827703--47828162 Score: 467
Period size: 68 Copynumber: 6.8 Consensus size: 67
47827693 ATTAATACCC
* * * *
47827703 TTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCTTAAACCCTAA--ACTTAAAAACCCTAA
1 TTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCT-AA-CCTAATTAATTAAAAACCCTAA
**
47827766 CCCCC
64 -CCTA
*
47827771 TTAACTTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAC
1 TTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATT-AATTAAAAACCCTAAC
47827836 CTAA
65 CT-A
* * **
47827840 TTAAATTAAAAACCCTAAACCCTAA--ACA-TAAAAACCCTAACCCCATTAACTTAAAAACCCTA
1 TTAACTTAAAAACCCT-AA-CCTAATTAAATTAAAAACCCTAACCTAATTAA-TTAAAAACCCTA
47827902 ACCTAA
63 ACCT-A
** *
47827908 TTAACTTAAAAGTCCTAACCTAATTAAATTAAAAACCTTAACCTAATTTAATT-AAAACCCTAAA
1 TTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAA-TTAATTAAAAACCCT-AA
47827972 CCCTA
64 -CCTA
* * *
47827977 --AACTTAAAAACCCTAACCTAATTTAATTAAAAACCTTAAACCCTAA--ACTTAAAAACCCTAA
1 TTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCT-AA-CCTAATTAATTAAAAACCCTAA
**
47828038 CTCCC
64 C-CTA
*
47828043 TTAACTTAAAAACTCTAACCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAA
1 TTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAA-TTAATTAAAAACCCT-AA
47828108 CCCTA
64 -CCTA
* *
47828113 --AACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACTAAATTAAT
1 TTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCT-AATTAAT
47828163 AATTTTACTT
Statistics
Matches: 333, Mismatches: 34, Indels: 50
0.80 0.08 0.12
Matches are distributed among these distances:
65 1 0.00
66 21 0.06
67 50 0.15
68 175 0.53
69 68 0.20
70 12 0.04
71 6 0.02
ACGTcount: A:0.48, C:0.25, G:0.00, T:0.26
Consensus pattern (67 bp):
TTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTAATTAAAAACCCTAACC
TA
Found at i:47828019 original size:158 final size:159
Alignment explanation
Indices: 47827748--47828161 Score: 538
Period size: 158 Copynumber: 2.6 Consensus size: 159
47827738 CCTTAAACCC
*** *
47827748 TAAACTTAAAAACCCTAACCCCCTTAACTTAAAAACCCTAACCTAATTAACTTAAAAACCCTAAC
1 TAAA-TTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTAACTTAAAAACCCTAAC
47827813 CTAATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAACCCTAAACATAAAAACCCT
65 CTAA-TAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAACCCTAAACATAAAAACCCT
47827878 AAC-CCCATTAACTTAAAAACCCTAACCTAAT
129 AACTCCC-TTAACTTAAAAACCCTAACCTAAT
* ** *
47827909 TAACTTAAAAGTCCTAACCTAATTAAATTAAAAACCTTAACCTAATTTAA-TT-AAAACCCTAAA
1 TAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAA-TTAACTTAAAAACCCT-AA
* * * *
47827972 CCCT-A-AACTTAAAAACCCTAACCTAATTTAATTAAAAACCTTAAACCCTAAACTTAAAAACCC
64 -CCTAATAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAACCCTAAACATAAAAACCC
*
47828035 TAACTCCCTTAACTTAAAAACTCTAACCTAAT
128 TAACTCCCTTAACTTAAAAACCCTAACCTAAT
*
47828067 TAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCT-A--AACTTAAAAACCCTAA
1 TAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCT-AA-CCTAATTAACTTAAAAACCCTAA
* *
47828129 CCTAATTTAATTAAAAACCCTAAACTAAATTAA
64 CCTAA-TAAATTAAAAACCCTAACCT-AATTAA
47828162 TAATTTTACT
Statistics
Matches: 219, Mismatches: 22, Indels: 25
0.82 0.08 0.09
Matches are distributed among these distances:
156 5 0.02
157 5 0.02
158 122 0.56
159 30 0.14
160 47 0.21
161 10 0.05
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.26
Consensus pattern (159 bp):
TAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACC
TAATAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAACCCTAAACATAAAAACCCTAA
CTCCCTTAACTTAAAAACCCTAACCTAAT
Found at i:47828143 original size:91 final size:91
Alignment explanation
Indices: 47827703--47828161 Score: 498
Period size: 91 Copynumber: 5.0 Consensus size: 91
47827693 ATTAATACCC
* *
47827703 TTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCTTAAACCCTAAACTTAAAAACCCTAACC
1 TTAACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAAACTTAAAAACCCTAACC
**
47827768 -CCCTTAACTTAAAAACCCTAACCTAA
66 TAACTTAA-TTAAAAACCCTAACCTAA
* *
47827794 TTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCT-AA-CCTAATTAAATTAAAAACCCTA
1 TTAACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCT-A--AACTTAAAAACCCT-
**
47827857 AACCCTAA---ACA-TAAAAACCCTAACCCCA
62 AA-CCTAACTTA-ATTAAAAACCCTAACCTAA
** * *
47827885 TTAACTTAAAAACCCTAACCTAA-TTAACTTAAAAGTCCT-AA-CCTAATTAAATTAAAAACCTT
1 TTAACTTAAAAACCCTAACCTAATTTAA-TTAAAAACCCTAAACCCT-A--AACTTAAAAACCCT
*
47827947 AACCTAATTTAATT-AAAACCCTAAACCCT-A
62 AACCTAACTTAATTAAAAACCCT-AA-CCTAA
*
47827977 --AACTTAAAAACCCTAACCTAATTTAATTAAAAACCTTAAACCCTAAACTTAAAAACCCTAA-C
1 TTAACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAAACTTAAAAACCCTAACC
** *
47828039 TCCCTTAACTTAAAAACTCTAACCTAA
66 TAACTTAA-TTAAAAACCCTAACCTAA
*
47828066 TTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAAACTTAAAAACCCTAACC
1 TTAACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAAACTTAAAAACCCTAACC
* *
47828131 TAATTTAATTAAAAACCCTAAACTAAA
66 TAACTTAATTAAAAACCCTAACCT-AA
47828158 TTAA
1 TTAA
47828162 TAATTTTACT
Statistics
Matches: 315, Mismatches: 29, Indels: 47
0.81 0.07 0.12
Matches are distributed among these distances:
88 9 0.03
89 27 0.09
90 44 0.14
91 194 0.62
92 34 0.11
93 5 0.02
94 2 0.01
ACGTcount: A:0.49, C:0.25, G:0.00, T:0.26
Consensus pattern (91 bp):
TTAACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAAACTTAAAAACCCTAACC
TAACTTAATTAAAAACCCTAACCTAA
Found at i:47828362 original size:115 final size:115
Alignment explanation
Indices: 47828156--47828515 Score: 603
Period size: 116 Copynumber: 3.1 Consensus size: 115
47828146 CCCTAAACTA
* **
47828156 AATTAATAATTTTACTTTCACATAATGTTAGATTTGGAAAAATGTTTTTTCCTGGTACTAACAAT
1 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATG-TTTTGACTGGTACTAACAAT
*
47828221 TAATAATTTTATATAATTTGATAATTTTACTAATCATTAATACAATTTATC
65 TAATAATTTTATATAATTTGATAATTTTACTAACCATTAATACAATTTATC
* * *
47828272 ATTTAATAATTTTACATTCACATAATGTTAGATTTGAAAAAATGTTTTGACTAGTACTAACAATT
1 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATT
*
47828337 AATAATTTTATATAATTTGATAATTTTTAGTAACCATTAATACAATTTATC
66 AATAATTTTATATAATTTGATAA-TTTTACTAACCATTAATACAATTTATC
*
47828388 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATATTTTGACTGGTACTAACAATT
1 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATT
*
47828453 AATAATTTTATATAATTTGATAGTTTTTACTAACCATTAATACAATTTATC
66 AATAATTTTATATAATTTGATA-ATTTTACTAACCATTAATACAATTTATC
47828504 AATTAATAATTT
1 AATTAATAATTT
47828516 CACAAACTTA
Statistics
Matches: 228, Mismatches: 14, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
115 41 0.18
116 187 0.82
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.44
Consensus pattern (115 bp):
AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATT
AATAATTTTATATAATTTGATAATTTTACTAACCATTAATACAATTTATC
Found at i:47828398 original size:55 final size:54
Alignment explanation
Indices: 47828332--47828515 Score: 145
Period size: 55 Copynumber: 3.2 Consensus size: 54
47828322 CTAGTACTAA
47828332 CAATTAATAATTTTATATAATTTGATAATTTTTAGTAACCATTAATACAATTTAT
1 CAATTAATAATTTTATATAATTTGATAATTTTTA-TAACCATTAATACAATTTAT
* * * ** * ** * ** * *
47828387 CAATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATATT-TTGACTGGTACTAA
1 CAATTAATAATTTTATA-T-A-AT-TTGATA-ATTTTTATAACCATTAAT-AC-AAT-TTAT
*
47828448 CAATTAATAATTTTATATAATTTGATAGTTTTTACTAACCATTAATACAATTTAT
1 CAATTAATAATTTTATATAATTTGATAATTTTTA-TAACCATTAATACAATTTAT
47828503 CAATTAATAATTT
1 CAATTAATAATTT
47828516 CACAAACTTA
Statistics
Matches: 92, Mismatches: 27, Indels: 20
0.66 0.19 0.14
Matches are distributed among these distances:
55 31 0.34
56 6 0.07
57 12 0.13
58 6 0.07
59 12 0.13
60 7 0.08
61 18 0.20
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.45
Consensus pattern (54 bp):
CAATTAATAATTTTATATAATTTGATAATTTTTATAACCATTAATACAATTTAT
Found at i:47828462 original size:61 final size:61
Alignment explanation
Indices: 47828274--47828462 Score: 169
Period size: 61 Copynumber: 3.2 Consensus size: 61
47828264 AATTTATCAT
*
47828274 TTAATAATTTTACATTCACATAATGTTAGATTTGAAAAAATGTTTTGACTAGTACTAACAA
1 TTAATAATTTTACATTCACATAATGTTAGATTTGAAAAAATATTTTGACTAGTACTAACAA
* * * * ** ** * * * *
47828335 TTAATAATTTTATA-T-A-AT-TTGATA-ATTTTTAGTAACCATTAAT-AC-AAT-TTATCAA
1 TTAATAATTTTACATTCACATAATGTTAGA-TTTGAAAAAATATT-TTGACTAGTACTAACAA
* *
47828390 TTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATATTTTGACTGGTACTAACAA
1 TTAATAATTTTACATTCACATAATGTTAGATTTGAAAAAATATTTTGACTAGTACTAACAA
47828451 TTAATAATTTTA
1 TTAATAATTTTA
47828463 TATAATTTGA
Statistics
Matches: 91, Mismatches: 27, Indels: 20
0.66 0.20 0.14
Matches are distributed among these distances:
55 18 0.20
56 4 0.04
57 15 0.16
58 6 0.07
59 15 0.16
60 3 0.03
61 30 0.33
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.43
Consensus pattern (61 bp):
TTAATAATTTTACATTCACATAATGTTAGATTTGAAAAAATATTTTGACTAGTACTAACAA
Found at i:47830859 original size:124 final size:124
Alignment explanation
Indices: 47830701--47831048 Score: 572
Period size: 124 Copynumber: 2.8 Consensus size: 124
47830691 CAAACATGCT
*
47830701 ACTGTAGCAAAAGCGCGTCCACGAGGGCGTGATTTTACAAATTCTTCTCAAATAGCATTC-TGCT
1 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTACAAATTCTTCTCAAATAGCA-TCATGCT
*
47830765 AGAAGCGATTTTATACTATTTGCTCAGAAACATCAAAAAAAAATATTTCTTCCATGGCCG
65 AGAAGCGATTTTATACTATTTGCTCAGAAACATCAAAAAAAAATATTTCTTCCATGACCG
*
47830825 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTACAAATTCTTCTCAAATAGCATCTTGCTA
1 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTACAAATTCTTCTCAAATAGCATCATGCTA
* * * **
47830890 GAATCAATTTTATACTATTTGCTCAGAAACATCAAAAAAAATTATTTCTTCCATGACTT
66 GAAGCGATTTTATACTATTTGCTCAGAAACATCAAAAAAAAATATTTCTTCCATGACCG
* *
47830949 ACTGTAGTAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCATGCTA
1 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTACAAATTCTTCTCAAATAGCATCATGCTA
* *
47831014 GAAGCGATTTTATACTATTTGATCAGAAACGTCAA
66 GAAGCGATTTTATACTATTTGCTCAGAAACATCAA
47831049 CTCGAAATTA
Statistics
Matches: 209, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
123 2 0.01
124 207 0.99
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.29
Consensus pattern (124 bp):
ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTACAAATTCTTCTCAAATAGCATCATGCTA
GAAGCGATTTTATACTATTTGCTCAGAAACATCAAAAAAAAATATTTCTTCCATGACCG
Found at i:47833515 original size:6 final size:6
Alignment explanation
Indices: 47833504--47833530 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
47833494 TGTAATGCAA
47833504 AAATGC AAATGC AAATGC AAATGC AAA
1 AAATGC AAATGC AAATGC AAATGC AAA
47833531 GTAGCCAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.56, C:0.15, G:0.15, T:0.15
Consensus pattern (6 bp):
AAATGC
Found at i:47838767 original size:13 final size:13
Alignment explanation
Indices: 47838734--47838769 Score: 58
Period size: 12 Copynumber: 2.9 Consensus size: 13
47838724 ATATATATTT
47838734 AAAAATT-ATATA
1 AAAAATTAATATA
47838746 AAAAA-TAATATA
1 AAAAATTAATATA
47838758 AAAAATTAATAT
1 AAAAATTAATAT
47838770 GGGTGGATCG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 1 0.05
12 15 0.68
13 6 0.27
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AAAAATTAATATA
Found at i:47847614 original size:6 final size:6
Alignment explanation
Indices: 47847603--47847630 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
47847593 CTCTTTTCTT
47847603 CTCTAC CTCTAC CTCTAC CTCTAC CTCT
1 CTCTAC CTCTAC CTCTAC CTCTAC CTCT
47847631 TACACTTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.50, G:0.00, T:0.36
Consensus pattern (6 bp):
CTCTAC
Found at i:47852261 original size:22 final size:22
Alignment explanation
Indices: 47852227--47852269 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
47852217 AACAATAATA
47852227 ATAATAATAAAAT-AGTAGCAAT
1 ATAATAATAAAATGA-TAGCAAT
* *
47852249 ATAATAGTGAAATGATAGCAA
1 ATAATAATAAAATGATAGCAA
47852270 AACAATAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.56, C:0.05, G:0.14, T:0.26
Consensus pattern (22 bp):
ATAATAATAAAATGATAGCAAT
Found at i:47855221 original size:3 final size:3
Alignment explanation
Indices: 47855213--47855245 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
47855203 TTTCATCACC
47855213 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
47855246 AATAAGAGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:47862510 original size:22 final size:22
Alignment explanation
Indices: 47862485--47862528 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
47862475 TTTTCCCCCC
47862485 TAATTATATATT-TTAATTATTT
1 TAATTAT-TATTATTAATTATTT
*
47862507 TAATTATTTTTATTAATTATTT
1 TAATTATTATTATTAATTATTT
47862529 GATTAGGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (22 bp):
TAATTATTATTATTAATTATTT
Found at i:47865093 original size:6 final size:6
Alignment explanation
Indices: 47865082--47865106 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
47865072 TTGTATTACA
47865082 TTTATT TTTATT TTTATT TTTATT T
1 TTTATT TTTATT TTTATT TTTATT T
47865107 CAAGTTCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTATT
Found at i:47873095 original size:4 final size:4
Alignment explanation
Indices: 47873086--47873122 Score: 65
Period size: 4 Copynumber: 9.2 Consensus size: 4
47873076 ACGTATGTTG
*
47873086 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA AGTA T
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA T
47873123 AGCTTATACT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (4 bp):
TGTA
Found at i:47876083 original size:51 final size:51
Alignment explanation
Indices: 47875963--47876140 Score: 155
Period size: 51 Copynumber: 3.5 Consensus size: 51
47875953 TGGTCACGTA
* * * * * *
47875963 TGTAGTACTATGTGGAGGCTACTACGTGTACCGGAATGAT-A-GGTCGCATG
1 TGTAGTACTATGTGCAGGCTACTATGCGTACAGG-ATGATAATGATCACATG
* * * ** *
47876013 TATTGTATTATGTGCAGGCTACTATGCGTACAGGAT-AGTTTTGATCACGTG
1 TGTAGTACTATGTGCAGGCTACTATGCGTACAGGATGA-TAATGATCACATG
* * * ** *
47876064 TGTAGTACTATGTGAAGGCTACTACGTGTATTGGATGATAATGGTCACATG
1 TGTAGTACTATGTGCAGGCTACTATGCGTACAGGATGATAATGATCACATG
47876115 TGTAGTACTATGTGCAGGCTACTATG
1 TGTAGTACTATGTGCAGGCTACTATG
47876141 TGAACCGAAC
Statistics
Matches: 99, Mismatches: 25, Indels: 7
0.76 0.19 0.05
Matches are distributed among these distances:
48 1 0.01
49 3 0.03
50 27 0.27
51 67 0.68
52 1 0.01
ACGTcount: A:0.25, C:0.14, G:0.28, T:0.33
Consensus pattern (51 bp):
TGTAGTACTATGTGCAGGCTACTATGCGTACAGGATGATAATGATCACATG
Found at i:47876083 original size:101 final size:102
Alignment explanation
Indices: 47875956--47876140 Score: 275
Period size: 101 Copynumber: 1.8 Consensus size: 102
47875946 AAAGTGATGG
* * *
47875956 TCACGTATGTAGTACTATGTGGAGGCTACTACGTGTACCGGAATGAT-A-GGTCGCATGTATTGT
1 TCACGTATGTAGTACTATGTGAAGGCTACTACGTGTACCGG-ATGATAATGGTCACATGTATAGT
*
47876019 ATTATGTGCAGGCTACTATGCGTACAGGATAGTTTTGA
65 ACTATGTGCAGGCTACTATGCGTACAGGATAGTTTTGA
* ** *
47876057 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATTGGATGATAATGGTCACATGTGTAGTA
1 TCACGTATGTAGTACTATGTGAAGGCTACTACGTGTACCGGATGATAATGGTCACATGTATAGTA
47876122 CTATGTGCAGGCTACTATG
66 CTATGTGCAGGCTACTATG
47876141 TGAACCGAAC
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
100 5 0.07
101 38 0.51
102 31 0.42
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.33
Consensus pattern (102 bp):
TCACGTATGTAGTACTATGTGAAGGCTACTACGTGTACCGGATGATAATGGTCACATGTATAGTA
CTATGTGCAGGCTACTATGCGTACAGGATAGTTTTGA
Found at i:47876212 original size:45 final size:45
Alignment explanation
Indices: 47876144--47876238 Score: 165
Period size: 45 Copynumber: 2.1 Consensus size: 45
47876134 TACTATGTGA
*
47876144 ACCGAACATCATTGATAAGTAAGGTGGTTGCTATGTGCTGATTCC
1 ACCGAACATCATTGATAAGTAAGGTGGTTGCTATGTGCTGAATCC
47876189 ACCGAACATCATTGATTAA-TAAGGTGGTTGCTATGTGCTGAATCC
1 ACCGAACATCATTGA-TAAGTAAGGTGGTTGCTATGTGCTGAATCC
47876234 ACCGA
1 ACCGA
47876239 GTATCTGTTA
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
45 45 0.94
46 3 0.06
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.29
Consensus pattern (45 bp):
ACCGAACATCATTGATAAGTAAGGTGGTTGCTATGTGCTGAATCC
Found at i:47879356 original size:3 final size:3
Alignment explanation
Indices: 47879348--47879378 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
47879338 TAAAAGGGGT
47879348 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
47879379 GAGATCTTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:47880460 original size:20 final size:20
Alignment explanation
Indices: 47880435--47880473 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
47880425 TTAAATTTAA
*
47880435 TTTAATATCAACATAATAAC
1 TTTAATATCAAAATAATAAC
*
47880455 TTTAATATTAAAATAATAA
1 TTTAATATCAAAATAATAA
47880474 AATACTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (20 bp):
TTTAATATCAAAATAATAAC
Found at i:47885025 original size:22 final size:23
Alignment explanation
Indices: 47884964--47885015 Score: 88
Period size: 22 Copynumber: 2.3 Consensus size: 23
47884954 AGTAAAAAAA
*
47884964 TTAAGAAAGAATTTGAGATA-TT
1 TTAAGAGAGAATTTGAGATATTT
47884986 TTAAGAGAGAATTTGAGATATTT
1 TTAAGAGAGAATTTGAGATATTT
47885009 TTAAGAG
1 TTAAGAG
47885016 TTGATTGAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
22 19 0.68
23 9 0.32
ACGTcount: A:0.42, C:0.00, G:0.21, T:0.37
Consensus pattern (23 bp):
TTAAGAGAGAATTTGAGATATTT
Found at i:47885634 original size:27 final size:27
Alignment explanation
Indices: 47885589--47885660 Score: 92
Period size: 27 Copynumber: 2.6 Consensus size: 27
47885579 GGGATTTTAT
*
47885589 ATATGTTATTATTAATTAGTTTCAAACTA
1 ATATGTT-TTATTATTTAGTTTCAAAC-A
*
47885618 A-ATGTTTTATTATTTAGTTTCACACA
1 ATATGTTTTATTATTTAGTTTCAAACA
*
47885644 ATATATTTTATTATTTA
1 ATATGTTTTATTATTTA
47885661 TTTATTATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
26 2 0.05
27 31 0.79
28 5 0.13
29 1 0.03
ACGTcount: A:0.35, C:0.07, G:0.06, T:0.53
Consensus pattern (27 bp):
ATATGTTTTATTATTTAGTTTCAAACA
Found at i:47886820 original size:21 final size:21
Alignment explanation
Indices: 47886794--47886846 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
47886784 TTTTTGATGA
47886794 AGGTATCGATACCTTAGGCCT
1 AGGTATCGATACCTTAGGCCT
* *
47886815 AGGTATTGATACC-TAGGCTT
1 AGGTATCGATACCTTAGGCCT
47886835 A--TATCGATACCT
1 AGGTATCGATACCT
47886847 ACCTCAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
18 9 0.32
20 7 0.25
21 12 0.43
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (21 bp):
AGGTATCGATACCTTAGGCCT
Found at i:47886845 original size:18 final size:19
Alignment explanation
Indices: 47886796--47886847 Score: 61
Period size: 18 Copynumber: 2.7 Consensus size: 19
47886786 TTTGATGAAG
47886796 GTATCGATACCTTAGGCCTA
1 GTATCGATACC-TAGGCCTA
* *
47886816 GGTATTGATACCTAGGCTTA
1 -GTATCGATACCTAGGCCTA
47886836 -TATCGATACCTA
1 GTATCGATACCTA
47886848 CCTCAAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 11 0.39
20 7 0.25
21 10 0.36
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (19 bp):
GTATCGATACCTAGGCCTA
Found at i:47887381 original size:24 final size:25
Alignment explanation
Indices: 47887345--47887391 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
47887335 TAAAATTTAC
47887345 TATTAATAGTATA-AAATAAAATAA
1 TATTAATAGTATAGAAATAAAATAA
** *
47887369 TATTAATTTTATAGACATAAAAT
1 TATTAATAGTATAGAAATAAAAT
47887392 TTACATCACT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 11 0.58
25 8 0.42
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.38
Consensus pattern (25 bp):
TATTAATAGTATAGAAATAAAATAA
Found at i:47891216 original size:21 final size:21
Alignment explanation
Indices: 47891190--47891240 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
47891180 AAAATTACTA
*
47891190 TTTTTTTTACTGTTTTCTTGT
1 TTTTTTTTACTATTTTCTTGT
* *
47891211 TTTTTTTAATTATTTTCTTGT
1 TTTTTTTTACTATTTTCTTGT
47891232 TGTTTTTTT
1 T-TTTTTTT
47891241 TTCACTATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
21 19 0.76
22 6 0.24
ACGTcount: A:0.08, C:0.06, G:0.08, T:0.78
Consensus pattern (21 bp):
TTTTTTTTACTATTTTCTTGT
Found at i:47891887 original size:120 final size:120
Alignment explanation
Indices: 47891664--47891893 Score: 307
Period size: 120 Copynumber: 1.9 Consensus size: 120
47891654 CTCTAGTCCC
* * *
47891664 AAGTATCCTCAATACATCAATTGATCGTCCAAGCTGAAATTATATACATGTCAGGTTACCCGTCC
1 AAGTATCCTCAATACATCAATTGATCGTCCAAGCTGAAAATATATACAAGTCAGGTTACCCATCC
* *
47891729 GGACTAAACCTTTAAATTAACATCAAGTTGCTCATCTGAGCTAAAGTTGTATCCT
66 GGACTAAACCTTTAAACTAACATCAAGTTACTCATCTGAGCTAAAGTTGTATCCT
* * * * * *
47891784 AAGTATTCTCAATTCATCAATTGCTCGTCCAAGTTGAAAATATATAGAAGTCAGGTTACCCATCT
1 AAGTATCCTCAATACATCAATTGATCGTCCAAGCTGAAAATATATACAAGTCAGGTTACCCATCC
* * * * * *
47891849 GGGCTAAACTTTTGAACTAACATTAGGTTACTCGTCTGAGCTAAA
66 GGACTAAACCTTTAAACTAACATCAAGTTACTCATCTGAGCTAAA
47891894 CCTGTGTCAC
Statistics
Matches: 93, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
120 93 1.00
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (120 bp):
AAGTATCCTCAATACATCAATTGATCGTCCAAGCTGAAAATATATACAAGTCAGGTTACCCATCC
GGACTAAACCTTTAAACTAACATCAAGTTACTCATCTGAGCTAAAGTTGTATCCT
Found at i:47902098 original size:50 final size:50
Alignment explanation
Indices: 47901974--47902078 Score: 192
Period size: 50 Copynumber: 2.1 Consensus size: 50
47901964 TATAAAAAAT
*
47901974 TAATAATGTTAACAACATAATAATTAACTATTTAAAATTAAATAATTTAA
1 TAATAATGTTAACAACATAATAATTAACTAATTAAAATTAAATAATTTAA
*
47902024 TAATAATGTTAACAACATAATAATTAACTAATTAAAATTTAATAATTTAA
1 TAATAATGTTAACAACATAATAATTAACTAATTAAAATTAAATAATTTAA
47902074 TAATA
1 TAATA
47902079 TTTTCCTACC
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 53 1.00
ACGTcount: A:0.54, C:0.06, G:0.02, T:0.38
Consensus pattern (50 bp):
TAATAATGTTAACAACATAATAATTAACTAATTAAAATTAAATAATTTAA
Found at i:47902366 original size:18 final size:18
Alignment explanation
Indices: 47902345--47902379 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
47902335 TATAGTTGTA
47902345 GGAATTATGACCGTTGGG
1 GGAATTATGACCGTTGGG
47902363 GGAATTATGACCGTTGG
1 GGAATTATGACCGTTGG
47902380 CTAGAAAGCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.23, C:0.11, G:0.37, T:0.29
Consensus pattern (18 bp):
GGAATTATGACCGTTGGG
Found at i:47902661 original size:14 final size:14
Alignment explanation
Indices: 47902642--47902668 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
47902632 ATTTTTATTA
47902642 TTTTTATAGTTTAG
1 TTTTTATAGTTTAG
47902656 TTTTTATAGTTTA
1 TTTTTATAGTTTA
47902669 ATTAACCATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.00, G:0.11, T:0.67
Consensus pattern (14 bp):
TTTTTATAGTTTAG
Found at i:47906789 original size:31 final size:34
Alignment explanation
Indices: 47906714--47906789 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 34
47906704 CTTAAAAAAT
*
47906714 ATTTTTTAATTCTTTTATTTTTTTTTACATTATTTC
1 ATTTTTT--TTCTTTTATTTTTTTTTACATTATTCC
*
47906750 --TTTCTTTCTTTT-TTTTTTTTT-CATT-TTCC
1 ATTTTTTTTCTTTTATTTTTTTTTACATTATTCC
47906779 ATTTTTTTTCT
1 ATTTTTTTTCT
47906790 AACGTATGGC
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
29 3 0.09
30 4 0.11
31 17 0.49
32 7 0.20
34 4 0.11
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (34 bp):
ATTTTTTTTCTTTTATTTTTTTTTACATTATTCC
Found at i:47917017 original size:30 final size:31
Alignment explanation
Indices: 47916983--47917050 Score: 93
Period size: 30 Copynumber: 2.2 Consensus size: 31
47916973 AGTTTGCATA
* *
47916983 TATGAATTCGCTATGATCATGAAG-TTCTTT
1 TATGAATTCGCTATGATCATAAAGTTTCTTC
* *
47917013 TATGAATTTGCTATGTTCATAAAGTTTCTTC
1 TATGAATTCGCTATGATCATAAAGTTTCTTC
47917044 TATGAAT
1 TATGAAT
47917051 CCGTCTGTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
30 21 0.64
31 12 0.36
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.46
Consensus pattern (31 bp):
TATGAATTCGCTATGATCATAAAGTTTCTTC
Found at i:47917125 original size:45 final size:45
Alignment explanation
Indices: 47917071--47917179 Score: 139
Period size: 45 Copynumber: 2.4 Consensus size: 45
47917061 GAATCTGTTT
* * * *
47917071 TATCCATGAAGT-TTCTTCTATGAATTTTCATGTATGAGTTTGCCA
1 TATCCATGAA-TCTTCTTCTATAAATCTGCATGTATGAGTCTGCCA
* * *
47917116 TATCTATGAATCATCTTCAATAAATCTGCATGTATGAGTCTGCCA
1 TATCCATGAATCTTCTTCTATAAATCTGCATGTATGAGTCTGCCA
47917161 TATCCATGAATCTTCTTCT
1 TATCCATGAATCTTCTTCT
47917180 TTTGCATGTA
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
44 1 0.02
45 52 0.98
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.41
Consensus pattern (45 bp):
TATCCATGAATCTTCTTCTATAAATCTGCATGTATGAGTCTGCCA
Found at i:47922186 original size:18 final size:18
Alignment explanation
Indices: 47922165--47922200 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
47922155 ATCACTAAAA
*
47922165 AATAATAAATCATTAATT
1 AATAATAAATAATTAATT
*
47922183 AATAATTAATAATTAATT
1 AATAATAAATAATTAATT
47922201 TTCATAAGAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (18 bp):
AATAATAAATAATTAATT
Found at i:47923048 original size:5 final size:5
Alignment explanation
Indices: 47923038--47923064 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
47923028 TAAAATATCA
47923038 AAAAT AAAAT AAAAT AAAAT AAAAT AA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AA
47923065 TAAAAATCGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:47923814 original size:18 final size:17
Alignment explanation
Indices: 47923791--47923825 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
47923781 GAATAGATTT
47923791 TTAATTAAATAAATTTAA
1 TTAATTAAA-AAATTTAA
47923809 TTAATTAAAAAATTTAA
1 TTAATTAAAAAATTTAA
47923826 ACCCTAAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TTAATTAAAAAATTTAA
Found at i:47924785 original size:42 final size:42
Alignment explanation
Indices: 47924710--47925164 Score: 318
Period size: 43 Copynumber: 10.6 Consensus size: 42
47924700 GCGTCGGTAA
*
47924710 CTTTAGCGGCGCTTTTTACAATAAACGCCGCTATAGACAATGGT
1 CTTTAGCGGCGC-TTTTA-AATAAACGCCGCTATAGACCATGGT
* *
47924754 CTTTAGCGGCGCTTATAAATAAACGCTGCTATAGACCATGGT
1 CTTTAGCGGCGCTTTTAAATAAACGCCGCTATAGACCATGGT
* * **
47924796 CTTTAGCGGCGCTTTTGCAGA-AAATGCCGCTATAGACC-TACAT
1 CTTTAGCGGCGCTTTT--AAATAAACGCCGCTATAGACCAT-GGT
* * **
47924839 CTTTAGCTGCGCTTCTGCATCAAACGCCGCTATAGACCATGGT
1 CTTTAGCGGCGCTTTTAAAT-AAACGCCGCTATAGACCATGGT
** * * **
47924882 CTTTAGCGGCGCTTTTGCATCAAACGCCGTTATAGACCGTTAT
1 CTTTAGCGGCGCTTTTAAAT-AAACGCCGCTATAGACCATGGT
* * ** * *
47924925 CTTTCGCGGTGCTTTTGCATCAAATGCCGCTATAGACCGTGGT
1 CTTTAGCGGCGCTTTTAAAT-AAACGCCGCTATAGACCATGGT
* *
47924968 CTTTCGCGGCGC--TTAACCTTAAAACGCCGCTATAGACC-TGGTT
1 CTTTAGCGGCGCTTTTAA--AT-AAACGCCGCTATAGACCATGG-T
* ** * *
47925011 CTTTAGCAGCGCTTTTCCATAAAACGCCACGATAGACC-TGGTT
1 CTTTAGCGGCGCTTTTAAAT-AAACGCCGCTATAGACCATGG-T
* ** * **
47925054 CTTTAGCGGCACTTTTCCATAAAACGCCGCTATAGACCTTATT
1 CTTTAGCGGCGCTTTTAAAT-AAACGCCGCTATAGACCATGGT
*
47925097 CTTTTAGCGGCGC--TTAAAAAAACGCCGCTATAG-CTCATGGT
1 C-TTTAGCGGCGCTTTTAAATAAACGCCGCTATAGAC-CATGGT
* * *
47925138 TTTTAGAGGCACTTTTATAA-AAACGCC
1 CTTTAGCGGCGCTTTTA-AATAAACGCC
47925165 ACTAATTTTG
Statistics
Matches: 337, Mismatches: 57, Indels: 36
0.78 0.13 0.08
Matches are distributed among these distances:
40 10 0.03
41 20 0.06
42 55 0.16
43 224 0.66
44 26 0.08
45 2 0.01
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (42 bp):
CTTTAGCGGCGCTTTTAAATAAACGCCGCTATAGACCATGGT
Found at i:47924800 original size:86 final size:86
Alignment explanation
Indices: 47924710--47925154 Score: 381
Period size: 86 Copynumber: 5.2 Consensus size: 86
47924700 GCGTCGGTAA
* * *
47924710 CTTTAGCGGCGCTTTTTACAAT-AAACGCCGCTATAGACAATGGTCTTTAGCGGCGCTTATAAAT
1 CTTTAGCGGCGC-TTTTACAATAAAACGCCGCTATAGAC-CTGATCTTTAGCGGCGCTTATACAT
*
47924774 -AAACGCTGCTATAGACCATGGT
64 CAAACGCCGCTATAGACCATGGT
* * * * * * *
47924796 CTTTAGCGGCGCTTTTGC-AGAAAATGCCGCTATAGACCTACATCTTTAGCTGCGCTTCTGCATC
1 CTTTAGCGGCGCTTTTACAATAAAACGCCGCTATAGACCT-GATCTTTAGCGGCGCTTATACATC
47924860 AAACGCCGCTATAGACCATGGT
65 AAACGCCGCTATAGACCATGGT
* * * * * * * *
47924882 CTTTAGCGGCGCTTTTGC-ATCAAACGCCGTTATAGACCGTTATCTTTCGCGGTGCTTTTGCATC
1 CTTTAGCGGCGCTTTTACAATAAAACGCCGCTATAGACC-TGATCTTTAGCGGCGCTTATACATC
* *
47924946 AAATGCCGCTATAGACCGTGGT
65 AAACGCCGCTATAGACCATGGT
* * ** * * * * *
47924968 CTTTCGCGGCGC-TTAACCTTAAAACGCCGCTATAGACCTGGTTCTTTAGCAGCGCTTTTCCATA
1 CTTTAGCGGCGCTTTTACAATAAAACGCCGCTATAGACCT-GATCTTTAGCGGCGCTTATACATC
* *
47925032 AAACGCCACGATAGACC-TGGTT
65 AAACGCCGCTATAGACCATGG-T
* * *
47925054 CTTTAGCGGCACTTTT-CCATAAAACGCCGCTATAGACCTTATTCTTTTAGCGGCGCTTA-A-A-
1 CTTTAGCGGCGCTTTTACAATAAAACGCCGCTATAGACCTGA-TC-TTTAGCGGCGCTTATACAT
*
47925115 AAAACGCCGCTATAG-CTCATGGT
64 CAAACGCCGCTATAGAC-CATGGT
* * *
47925138 TTTTAGAGGCACTTTTA
1 CTTTAGCGGCGCTTTTA
47925155 TAAAAACGCC
Statistics
Matches: 295, Mismatches: 51, Indels: 27
0.79 0.14 0.07
Matches are distributed among these distances:
83 1 0.00
84 31 0.11
85 48 0.16
86 200 0.68
87 15 0.05
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (86 bp):
CTTTAGCGGCGCTTTTACAATAAAACGCCGCTATAGACCTGATCTTTAGCGGCGCTTATACATCA
AACGCCGCTATAGACCATGGT
Found at i:47924842 original size:43 final size:43
Alignment explanation
Indices: 47924710--47925111 Score: 327
Period size: 43 Copynumber: 9.3 Consensus size: 43
47924700 GCGTCGGTAA
* * *
47924710 CTTTAGCGGCGCTTTTTACA-ATAAACGCCGCTATAGA-CAATGGT
1 CTTTAGCGGCGC-TTTTGCATA-AAACGCCGCTATAGACCTA-GTT
* ** * *
47924754 CTTTAGCGGCGCTTATAAAT-AAACGCTGCTATAGACC-ATGGT
1 CTTTAGCGGCGCTTTTGCATAAAACGCCGCTATAGACCTA-GTT
* * **
47924796 CTTTAGCGGCGCTTTTGCAGAAAATGCCGCTATAGACCTACAT
1 CTTTAGCGGCGCTTTTGCATAAAACGCCGCTATAGACCTAGTT
* * * *
47924839 CTTTAGCTGCGCTTCTGCATCAAACGCCGCTATAGACC-ATGGT
1 CTTTAGCGGCGCTTTTGCATAAAACGCCGCTATAGACCTA-GTT
* *
47924882 CTTTAGCGGCGCTTTTGCATCAAACGCCGTTATAGACC--GTTAT
1 CTTTAGCGGCGCTTTTGCATAAAACGCCGCTATAGACCTAG-T-T
* * * * *
47924925 CTTTCGCGGTGCTTTTGCATCAAATGCCGCTATAGACCGT-GGT
1 CTTTAGCGGCGCTTTTGCATAAAACGCCGCTATAGACC-TAGTT
* *** * *
47924968 CTTTCGCGGCGCTTAACCTTAAAACGCCGCTATAGACCTGGTT
1 CTTTAGCGGCGCTTTTGCATAAAACGCCGCTATAGACCTAGTT
* * * * *
47925011 CTTTAGCAGCGCTTTTCCATAAAACGCCACGATAGACCTGGTT
1 CTTTAGCGGCGCTTTTGCATAAAACGCCGCTATAGACCTAGTT
* *
47925054 CTTTAGCGGCACTTTTCCATAAAACGCCGCTATAGACCTTA-TT
1 CTTTAGCGGCGCTTTTGCATAAAACGCCGCTATAGACC-TAGTT
47925097 CTTTTAGCGGCGCTT
1 C-TTTAGCGGCGCTT
47925112 AAAAAAACGC
Statistics
Matches: 298, Mismatches: 48, Indels: 24
0.81 0.13 0.06
Matches are distributed among these distances:
41 1 0.00
42 37 0.12
43 233 0.78
44 26 0.09
45 1 0.00
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTGCATAAAACGCCGCTATAGACCTAGTT
Found at i:47924940 original size:129 final size:126
Alignment explanation
Indices: 47924710--47925164 Score: 418
Period size: 129 Copynumber: 3.6 Consensus size: 126
47924700 GCGTCGGTAA
* * * * *
47924710 CTTTAGCGGCGCTTTTTACAAT-AAACGCCGCTATAGACAATGGTCTTTAGCGGCGCTTATAAAT
1 CTTTAGCGGCGC--TTAACCATAAAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTTTACAT
* * * *
47924774 AAACGCTGCTATAGACCATGGTCTTTAGCGGCGCTTTTGCAGAAAATGCCGCTATAGACCTACAT
64 AAACGCCGCTATAGACCGT-TTCTTTAGCGGCGCTTTTGCATAAAATGCCGCTATAGACCT-CAT
* *** * *
47924839 CTTTAGCTGCGCTTCTGCATCAAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTTTGCATCA
1 CTTTAGCGGCGCTTAACCATAAAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTTTACAT-A
* * * * **
47924904 AACGCCGTTATAGACCGTTATCTTTCGCGGTGCTTTTGCATCAAATGCCGCTATAGACCGTGGT
65 AACGCCGCTATAGACCGTT-TCTTTAGCGGCGCTTTTGCATAAAATGCCGCTATAGACC-TCAT
* * * *
47924968 CTTTCGCGGCGCTTAACCTTAAAACGCCGCTATAGACC-TGGTTCTTTAGCAGCGCTTTTCCATA
1 CTTTAGCGGCGCTTAACCATAAAACGCCGCTATAGACCATGG-TCTTTAGCGGCGCTTTTACAT-
* * * * * * *
47925032 AAACGCCACGATAGACCTGGTTCTTTAGCGGCACTTTTCCATAAAACGCCGCTATAGACCTTATT
64 AAACGCCGCTATAGACC-GTTTCTTTAGCGGCGCTTTTGCATAAAATGCCGCTATAGACCTCA-T
* * * * *
47925097 CTTTTAGCGGCGCTTAA--A-AAAACGCCGCTATAG-CTCATGGTTTTTAGAGGCACTTTTATAA
1 C-TTTAGCGGCGCTTAACCATAAAACGCCGCTATAGAC-CATGGTCTTTAGCGGCGCTTTTACAT
47925158 AAACGCC
64 AAACGCC
47925165 ACTAATTTTG
Statistics
Matches: 266, Mismatches: 50, Indels: 23
0.78 0.15 0.07
Matches are distributed among these distances:
126 8 0.03
127 34 0.13
128 45 0.17
129 162 0.61
130 17 0.06
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (126 bp):
CTTTAGCGGCGCTTAACCATAAAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTTTACATAA
ACGCCGCTATAGACCGTTTCTTTAGCGGCGCTTTTGCATAAAATGCCGCTATAGACCTCAT
Found at i:47925251 original size:14 final size:14
Alignment explanation
Indices: 47925234--47925263 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
47925224 AATCAGAAGA
47925234 AACCAAATCTAACC
1 AACCAAATCTAACC
47925248 AACCAAATCTAACC
1 AACCAAATCTAACC
47925262 AA
1 AA
47925264 ATCTATATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.53, C:0.33, G:0.00, T:0.13
Consensus pattern (14 bp):
AACCAAATCTAACC
Found at i:47925501 original size:21 final size:21
Alignment explanation
Indices: 47925475--47925529 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
47925465 AGCTGTTCTG
*
47925475 CTTCCCTCGCTGCAGCCTCTA
1 CTTCCCTCGCTGCAGCCACTA
* * *
47925496 CTTCCCTCGTTACAGCCACTG
1 CTTCCCTCGCTGCAGCCACTA
*
47925517 CTTCTCTCGCTGC
1 CTTCCCTCGCTGC
47925530 CGCATCTTCT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.09, C:0.45, G:0.15, T:0.31
Consensus pattern (21 bp):
CTTCCCTCGCTGCAGCCACTA
Found at i:47925663 original size:87 final size:87
Alignment explanation
Indices: 47925514--47925676 Score: 240
Period size: 87 Copynumber: 1.9 Consensus size: 87
47925504 GTTACAGCCA
* * *
47925514 CTGCTTCTCTCGCTGCCGCATCTTCTTTAAGCTACTGCTGGAGTTGTTCATACTTTTATTGAACC
1 CTGCTTCTCTCGCTGCCGCATCTGCCTTAAGCTACTGCTGGAGTTCTTCATACTTTTATTGAACC
*
47925579 TTAGCTTCTCTTACCGTTGCCT
66 TCAGCTTCTCTTACCGTTGCCT
**
47925601 CTGCTTCTCTCGCTGCCGCATCTGCCTTAAG-TTGTAGCTGGAGTTCTTCATATCTTTT-TTGAA
1 CTGCTTCTCTCGCTGCCGCATCTGCCTTAAGCTACT-GCTGGAGTTCTTCATA-CTTTTATTGAA
47925664 CCTCAGCTTCTCT
64 CCTCAGCTTCTCT
47925677 CGATGTTGCC
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
86 2 0.03
87 61 0.90
88 5 0.07
ACGTcount: A:0.13, C:0.29, G:0.17, T:0.41
Consensus pattern (87 bp):
CTGCTTCTCTCGCTGCCGCATCTGCCTTAAGCTACTGCTGGAGTTCTTCATACTTTTATTGAACC
TCAGCTTCTCTTACCGTTGCCT
Found at i:47931723 original size:27 final size:27
Alignment explanation
Indices: 47931708--47931763 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
47931698 ATAATGTAAT
*
47931708 TTTTAAAAATTGTTAATACAATTAAAA
1 TTTTAAAAATTGTTAAAACAATTAAAA
*
47931735 TTTTAAAAATTGTTAATACAATTAAAA
1 TTTTAAAAATTGTTAAAACAATTAAAA
47931762 TT
1 TT
47931764 ATCTATTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.43
Consensus pattern (27 bp):
TTTTAAAAATTGTTAAAACAATTAAAA
Found at i:47932213 original size:19 final size:19
Alignment explanation
Indices: 47932191--47932248 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
47932181 AAAATGACAC
47932191 AAACTTTAAAAAATTATAA
1 AAACTTTAAAAAATTATAA
*
47932210 AAAC-TTATAAATATTATAA
1 AAACTTTA-AAAAATTATAA
* *
47932229 AAA-TCTAATAAATTATAA
1 AAACTTTAAAAAATTATAA
47932247 AA
1 AA
47932249 TTAACAAACC
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
18 14 0.42
19 19 0.58
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (19 bp):
AAACTTTAAAAAATTATAA
Found at i:47932226 original size:9 final size:9
Alignment explanation
Indices: 47932199--47932248 Score: 57
Period size: 9 Copynumber: 5.4 Consensus size: 9
47932189 ACAAACTTTA
47932199 AAAAATTAT
1 AAAAATTAT
47932208 AAAAACTTAT
1 AAAAA-TTAT
*
47932218 AAATATTAT
1 AAAAATTAT
47932227 AAAAATCTA-
1 AAAAAT-TAT
*
47932236 ATAAATTAT
1 AAAAATTAT
47932245 AAAA
1 AAAA
47932249 TTAACAAACC
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
8 2 0.06
9 22 0.65
10 10 0.29
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (9 bp):
AAAAATTAT
Found at i:47933069 original size:16 final size:16
Alignment explanation
Indices: 47933048--47933078 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
47933038 TTAAATGGAG
47933048 TTAGGGATTTCAGAAC
1 TTAGGGATTTCAGAAC
*
47933064 TTAGGGATTTTAGAA
1 TTAGGGATTTCAGAA
47933079 GAGGAAAAAT
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:0.32, C:0.06, G:0.26, T:0.35
Consensus pattern (16 bp):
TTAGGGATTTCAGAAC
Found at i:47934647 original size:23 final size:23
Alignment explanation
Indices: 47934604--47934648 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
47934594 TGCTTTTGTA
*
47934604 CCCTAAAACCCGAAGCTATTAAT
1 CCCTAAAACCCGAAACTATTAAT
*
47934627 CCCTATAACCCGTAAAC-ATTAA
1 CCCTAAAACCCG-AAACTATTAA
47934649 AATTAAAGGC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.40, C:0.31, G:0.07, T:0.22
Consensus pattern (23 bp):
CCCTAAAACCCGAAACTATTAAT
Found at i:47935624 original size:41 final size:41
Alignment explanation
Indices: 47935552--47935665 Score: 104
Period size: 41 Copynumber: 2.8 Consensus size: 41
47935542 GTTTTTACAA
* * * * *
47935552 AAACGCCGCTATAGACC-CAAGAATTACCGGCGCTGCTTCAG
1 AAACGCCGCTATAGACCGGAA-CATTAGCGGCGATGCTCCAG
* * *
47935593 GAACGCCGCTATAGACCGGAACATTAGCGGCGATTCTCCAT
1 AAACGCCGCTATAGACCGGAACATTAGCGGCGATGCTCCAG
* * * *
47935634 AAACGCCGCTTTAGAGCGGAGCATCAGCGGCG
1 AAACGCCGCTATAGACCGGAACATTAGCGGCG
47935666 GTTTATAAAA
Statistics
Matches: 59, Mismatches: 13, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
41 57 0.97
42 2 0.03
ACGTcount: A:0.27, C:0.30, G:0.26, T:0.17
Consensus pattern (41 bp):
AAACGCCGCTATAGACCGGAACATTAGCGGCGATGCTCCAG
Found at i:47935961 original size:114 final size:113
Alignment explanation
Indices: 47935755--47936101 Score: 514
Period size: 113 Copynumber: 3.1 Consensus size: 113
47935745 GCTTAACGCC
* * *
47935755 AAACGCCGCTGAAGAACGGAGTATTAGCAGCGTTTGGGCAACAACCGCCACTAGTGTTCCCAAAT
1 AAACGCCGCTGAAGAACGGAGTATTAGCGGCGCTTGGGCAA-AACCGCCACTAATGTTCCCAAAT
* * *
47935820 ATATGAAAATGGCGTCATTCTGTGTTACTCTATTTGCGACGCTTTTTGTA
65 ATATGAAAACGGCGTCGTTCTGTGTTACTCTA-TTGCGGCGCTTTTTGTA
* *
47935870 AAACGCCGCTGAAGAATGGAGTATTAGTGGCGCTTGGGCAAAACCGCCACTAATGTTCCCAAATA
1 AAACGCCGCTGAAGAACGGAGTATTAGCGGCGCTTGGGCAAAACCGCCACTAATGTTCCCAAATA
* * * *
47935935 TATGAAAACGGCATTGTTCTGTGTTACTCCATTGCGGCGCTTTTTATA
66 TATGAAAACGGCGTCGTTCTGTGTTACTCTATTGCGGCGCTTTTTGTA
* * * * *
47935983 AAACGCCACTGAAGAACAGAGTTTTAGCGGCGCTTGGGAAAAACCGCCACTAAAGTTCCCAAATA
1 AAACGCCGCTGAAGAACGGAGTATTAGCGGCGCTTGGGCAAAACCGCCACTAATGTTCCCAAATA
*
47936048 TATGAAAACGGCGTCGTTCTGTGTCACTCTATTGCGGCGCTTTTTGTA
66 TATGAAAACGGCGTCGTTCTGTGTTACTCTATTGCGGCGCTTTTTGTA
47936096 AAACGC
1 AAACGC
47936102 TGCTAATGCT
Statistics
Matches: 208, Mismatches: 24, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
113 122 0.59
114 49 0.24
115 37 0.18
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (113 bp):
AAACGCCGCTGAAGAACGGAGTATTAGCGGCGCTTGGGCAAAACCGCCACTAATGTTCCCAAATA
TATGAAAACGGCGTCGTTCTGTGTTACTCTATTGCGGCGCTTTTTGTA
Found at i:47944350 original size:26 final size:26
Alignment explanation
Indices: 47944320--47944370 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
47944310 ACCAATGAAC
*
47944320 CGGGGAATCAGCACTTAGCAACCCCT
1 CGGGGAATCAGCACATAGCAACCCCT
47944346 CGGGGAATCAGCACATAGCAACCCC
1 CGGGGAATCAGCACATAGCAACCCC
47944371 CTTTCACATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.24, T:0.12
Consensus pattern (26 bp):
CGGGGAATCAGCACATAGCAACCCCT
Found at i:47944410 original size:103 final size:104
Alignment explanation
Indices: 47944226--47944448 Score: 369
Period size: 103 Copynumber: 2.2 Consensus size: 104
47944216 AATGGATATC
47944226 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
47944291 GGATATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATATCGCACATAGCACCACCAATAAACCGGGGAATCA
47944330 GCACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
47944394 GGATCA-CGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGAT-ATCGCACATAGCACCACCAATAAACCGGGGAATCA
**
47944433 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
47944449 TTTATATACA
Statistics
Matches: 112, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
103 94 0.84
104 18 0.16
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATATCGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:47944810 original size:29 final size:29
Alignment explanation
Indices: 47944777--47944840 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
47944767 TAATCCACCA
47944777 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
47944806 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
47944836 CCCAA
1 CCCAA
47944841 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:47944814 original size:30 final size:30
Alignment explanation
Indices: 47944784--47944840 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
47944774 CCACCCAACT
47944784 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
47944813 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
47944841 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:47950110 original size:14 final size:15
Alignment explanation
Indices: 47950080--47950117 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
47950070 GTTTGCCAGT
47950080 AAAATG-TTTTTCAG
1 AAAATGATTTTTCAG
*
47950094 AAAATGATTTTT-GG
1 AAAATGATTTTTCAG
47950108 AAAATGATTT
1 AAAATGATTT
47950118 ACTTTTCTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 17 0.77
15 5 0.23
ACGTcount: A:0.39, C:0.03, G:0.16, T:0.42
Consensus pattern (15 bp):
AAAATGATTTTTCAG
Found at i:47950131 original size:19 final size:19
Alignment explanation
Indices: 47950109--47950146 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
47950099 GATTTTTGGA
47950109 AAATGATTTACTTTTCTGG
1 AAATGATTTACTTTTCTGG
47950128 AAATGATTTACTTTTCTGG
1 AAATGATTTACTTTTCTGG
47950147 TGTTTGGATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.11, G:0.16, T:0.47
Consensus pattern (19 bp):
AAATGATTTACTTTTCTGG
Found at i:47950248 original size:18 final size:18
Alignment explanation
Indices: 47950222--47950264 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
47950212 AAAAGCTGTT
*
47950222 TTTACATATATTAATAAA
1 TTTATATATATTAATAAA
*
47950240 TTTATATATATTAATAAG
1 TTTATATATATTAATAAA
47950258 TTTATAT
1 TTTATAT
47950265 TTTAAATTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (18 bp):
TTTATATATATTAATAAA
Found at i:47950269 original size:16 final size:16
Alignment explanation
Indices: 47950227--47950269 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 16
47950217 CTGTTTTTAC
*
47950227 ATATATTAATAAATTT
1 ATATTTTAATAAATTT
*
47950243 ATATATATTAATAAGTTT
1 ATAT-T-TTAATAAATTT
47950261 ATATTTTAA
1 ATATTTTAA
47950270 ATTGTTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 8 0.35
17 1 0.04
18 14 0.61
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATATTTTAATAAATTT
Found at i:47951516 original size:27 final size:27
Alignment explanation
Indices: 47951464--47951518 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
47951454 CATAATAAAT
*
47951464 TCAATATCTAACAAGCTTAAAGCATAA
1 TCAATATCTAACAAGATTAAAGCATAA
*
47951491 TCAATATCTAACAA-ATTCAAGACATAA
1 TCAATATCTAACAAGATTAAAG-CATAA
47951518 T
1 T
47951519 AATTTCAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 5 0.20
27 20 0.80
ACGTcount: A:0.49, C:0.18, G:0.05, T:0.27
Consensus pattern (27 bp):
TCAATATCTAACAAGATTAAAGCATAA
Found at i:47954528 original size:16 final size:16
Alignment explanation
Indices: 47954504--47954538 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
47954494 AAAACTTTCT
47954504 TCACAACAACTACACA
1 TCACAACAACTACACA
*
47954520 TCACCACAACTACACA
1 TCACAACAACTACACA
47954536 TCA
1 TCA
47954539 AGATTTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.46, C:0.40, G:0.00, T:0.14
Consensus pattern (16 bp):
TCACAACAACTACACA
Found at i:47955303 original size:15 final size:15
Alignment explanation
Indices: 47955283--47955328 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
47955273 ACATAATAAT
47955283 AACATAAGTGACTAA
1 AACATAAGTGACTAA
* *
47955298 AACATAA-T-ATTTCA
1 AACATAAGTGA-CTAA
47955312 AACATAAGTGACTAA
1 AACATAAGTGACTAA
47955327 AA
1 AA
47955329 TGTAACTTGA
Statistics
Matches: 24, Mismatches: 4, Indels: 6
0.71 0.12 0.18
Matches are distributed among these distances:
13 1 0.04
14 10 0.42
15 12 0.50
16 1 0.04
ACGTcount: A:0.54, C:0.13, G:0.09, T:0.24
Consensus pattern (15 bp):
AACATAAGTGACTAA
Found at i:47955633 original size:28 final size:28
Alignment explanation
Indices: 47955591--47955645 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
47955581 ATATTATAAT
* *
47955591 AAAAATCCTAATTATTTTTAAAGTATTA
1 AAAAATCATAATTATTATTAAAGTATTA
*
47955619 AAAAATCATATTTATTATTAAAGTATT
1 AAAAATCATAATTATTATTAAAGTATT
47955646 TGTACAATAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.44
Consensus pattern (28 bp):
AAAAATCATAATTATTATTAAAGTATTA
Found at i:47955964 original size:15 final size:15
Alignment explanation
Indices: 47955946--47955996 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
47955936 AAAATATTTG
47955946 AAAATAAAAAAATAT
1 AAAATAAAAAAATAT
* *
47955961 AAAATTAAAAAATCT
1 AAAATAAAAAAATAT
* *
47955976 AAATATATAAAATTA-
1 AAA-ATAAAAAAATAT
47955991 AAAATA
1 AAAATA
47955997 TATTAAAAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
14 3 0.10
15 19 0.66
16 7 0.24
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (15 bp):
AAAATAAAAAAATAT
Found at i:47966717 original size:19 final size:20
Alignment explanation
Indices: 47966684--47966721 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
47966674 TTGTTAAAAG
*
47966684 TAAAAATCATTAAAATTATT
1 TAAAAATCATAAAAATTATT
47966704 TAAAAAT-ATAAAAATTAT
1 TAAAAATCATAAAAATTAT
47966722 AAAATATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (20 bp):
TAAAAATCATAAAAATTATT
Found at i:47975477 original size:25 final size:25
Alignment explanation
Indices: 47975423--47975477 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
47975413 AAAAACTAAC
**
47975423 AAAAA-TTAAAATAAATATTTTCCA
1 AAAAATTTAAAATAAATATTTTAAA
* *
47975447 ACAAATTTAAAATAAATTTTTTAAA
1 AAAAATTTAAAATAAATATTTTAAA
47975472 AAAAAT
1 AAAAAT
47975478 CTTTATACTT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
24 4 0.16
25 21 0.84
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (25 bp):
AAAAATTTAAAATAAATATTTTAAA
Found at i:47975601 original size:22 final size:22
Alignment explanation
Indices: 47975576--47975618 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
47975566 GAAATGTTAG
*
47975576 CAAAACAGTGGGAAAACAACAA
1 CAAAACAGTGGAAAAACAACAA
*
47975598 CAAAATAGTGGAAAAACAACA
1 CAAAACAGTGGAAAAACAACA
47975619 GTTTTTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.60, C:0.16, G:0.16, T:0.07
Consensus pattern (22 bp):
CAAAACAGTGGAAAAACAACAA
Found at i:47981540 original size:5 final size:5
Alignment explanation
Indices: 47981524--47981562 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
47981514 GCCTAAGATG
* *
47981524 TGAAT TGGAT TGAAT TGAAT ATGAAT TGTAT TGAAT TGA
1 TGAAT TGAAT TGAAT TGAAT -TGAAT TGAAT TGAAT TGA
47981563 GCTAAATTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.36, C:0.00, G:0.23, T:0.41
Consensus pattern (5 bp):
TGAAT
Found at i:47989775 original size:31 final size:32
Alignment explanation
Indices: 47989719--47989779 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
47989709 TATAAAATGA
*
47989719 TCACACAACTATTTGACTTTTTTCTTTTTTGG
1 TCACACAACTATTTGACATTTTTCTTTTTTGG
*
47989751 TCACCCAACTATTTGA-ATTTTTCTTTTTT
1 TCACACAACTATTTGACATTTTTCTTTTTT
47989780 AGTTATCAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 12 0.44
32 15 0.56
ACGTcount: A:0.20, C:0.20, G:0.07, T:0.54
Consensus pattern (32 bp):
TCACACAACTATTTGACATTTTTCTTTTTTGG
Found at i:48009270 original size:30 final size:30
Alignment explanation
Indices: 48009236--48009298 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
48009226 GTAAGGAAAG
*
48009236 TAGTGGAGGATGATAATCGATGGGCTGAGA
1 TAGTGGAGGATGATAATCGATAGGCTGAGA
48009266 TAGTGGAGGATGATAATCGATAGGCTGAGA
1 TAGTGGAGGATGATAATCGATAGGCTGAGA
48009296 TAG
1 TAG
48009299 GGCATCTGCA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.32, C:0.06, G:0.38, T:0.24
Consensus pattern (30 bp):
TAGTGGAGGATGATAATCGATAGGCTGAGA
Found at i:48013872 original size:106 final size:106
Alignment explanation
Indices: 48013684--48013907 Score: 423
Period size: 106 Copynumber: 2.1 Consensus size: 106
48013674 TTCTCTGAAA
48013684 TAGGACTTGATACTCATGGTTTGCATAATTCAACAATTTAATCCTAGCACATTAGCATCTCAAAT
1 TAGGACTTGATACTCATGGTTTGCATAATTCAACAATTTAATCCTAGCACATTAGCATCTCAAAT
48013749 AACCTAACCTAAGAAGTAAGTAAATATATTTCAGAATTTAT
66 AACCTAACCTAAGAAGTAAGTAAATATATTTCAGAATTTAT
48013790 TAGGACTTGATACTCATGGTTTGCATAATTCAACAATTTAATCCTAGCACATTAGCATCTCAAAT
1 TAGGACTTGATACTCATGGTTTGCATAATTCAACAATTTAATCCTAGCACATTAGCATCTCAAAT
*
48013855 AACCTAACCTAATAAGTAAGTAAATATATTTCAGAATTTAT
66 AACCTAACCTAAGAAGTAAGTAAATATATTTCAGAATTTAT
48013896 TA-GAGCTTGATA
1 TAGGA-CTTGATA
48013908 GACTTACCTT
Statistics
Matches: 116, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
105 2 0.02
106 114 0.98
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (106 bp):
TAGGACTTGATACTCATGGTTTGCATAATTCAACAATTTAATCCTAGCACATTAGCATCTCAAAT
AACCTAACCTAAGAAGTAAGTAAATATATTTCAGAATTTAT
Found at i:48014725 original size:3 final size:3
Alignment explanation
Indices: 48014694--48014741 Score: 55
Period size: 3 Copynumber: 16.3 Consensus size: 3
48014684 ATAAAAATGA
* *
48014694 AAT AA- AAT AA- AAT AGT AAA AAT AAAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT
48014738 AAT A
1 AAT A
48014742 GGAAAATTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
2 4 0.11
3 31 0.82
4 3 0.08
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:48023863 original size:24 final size:24
Alignment explanation
Indices: 48023818--48023864 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
48023808 TATATATACC
48023818 AATTCAATCAATATAAATTCAATA
1 AATTCAATCAATATAAATTCAATA
48023842 AATTC-ATCACATACTAAA-TCAAT
1 AATTCAATCA-ATA-TAAATTCAAT
48023865 CCATTTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 13 0.62
25 4 0.19
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (24 bp):
AATTCAATCAATATAAATTCAATA
Found at i:48024595 original size:7 final size:7
Alignment explanation
Indices: 48024585--48024660 Score: 77
Period size: 7 Copynumber: 10.7 Consensus size: 7
48024575 TTATTATATA
48024585 ATATAAT
1 ATATAAT
48024592 ATATAAT
1 ATATAAT
48024599 ATATAAT
1 ATATAAT
48024606 ATATAAT
1 ATATAAT
48024613 ATAT-AT
1 ATATAAT
48024619 ACT-TAA-
1 A-TATAAT
* *
48024625 AAATTAAG
1 ATA-TAAT
48024633 ATATAAT
1 ATATAAT
48024640 ATTATAAT
1 A-TATAAT
48024648 ATTATAAT
1 A-TATAAT
48024656 ATATA
1 ATATA
48024661 TTTTAACTTT
Statistics
Matches: 60, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
6 5 0.08
7 38 0.63
8 17 0.28
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (7 bp):
ATATAAT
Found at i:48026459 original size:2 final size:2
Alignment explanation
Indices: 48026452--48026481 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
48026442 GGACACATAA
48026452 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
48026482 TTATTCAAGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:48037184 original size:43 final size:45
Alignment explanation
Indices: 48037107--48037269 Score: 151
Period size: 43 Copynumber: 3.8 Consensus size: 45
48037097 TAGCCCAGCT
* * * *
48037107 ATGGTCTTACATG-AAT--CATATATTGATGCTAATGTCCCATAC
1 ATGGTCTTACACGAAATCACATACATCGATGCCAATGTCCCATAC
* *
48037149 ATGGTCTTACACGAAATCACATA-A-CGATGCCAATGTCCTAGAC
1 ATGGTCTTACACGAAATCACATACATCGATGCCAATGTCCCATAC
* * * * * *
48037192 ATGGTCTTACATGTAATCACATATATCGATG-CTATATCCCATAT
1 ATGGTCTTACACGAAATCACATACATCGATGCCAATGTCCCATAC
*
48037236 ATGGTCTTACAC-AAAGTCTCATACATCGATGCCA
1 ATGGTCTTACACGAAA-TCACATACATCGATGCCA
48037270 TAGCTCAGCT
Statistics
Matches: 97, Mismatches: 17, Indels: 11
0.78 0.14 0.09
Matches are distributed among these distances:
42 12 0.12
43 41 0.42
44 34 0.35
45 10 0.10
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.31
Consensus pattern (45 bp):
ATGGTCTTACACGAAATCACATACATCGATGCCAATGTCCCATAC
Found at i:48037246 original size:87 final size:87
Alignment explanation
Indices: 48037107--48037269 Score: 226
Period size: 87 Copynumber: 1.9 Consensus size: 87
48037097 TAGCCCAGCT
* *
48037107 ATGGTCTTACATGAATCATATATTGATGCTAATGTCCCATACATGGTCTTACACGAAA-TCACAT
1 ATGGTCTTACATGAATCATATATCGATGCTAATATCCCATACATGGTCTTACAC-AAAGTCACAT
48037171 A-A-CGATGCCAATGTCCTAGAC
65 ACATCGATGCCAATGTCCTAGAC
* *
48037192 ATGGTCTTACATGTAATCACATATATCGATGCT-ATATCCCATATATGGTCTTACACAAAGTCTC
1 ATGGTCTTACATG-AAT--CATATATCGATGCTAATATCCCATACATGGTCTTACACAAAGTCAC
48037256 ATACATCGATGCCA
63 ATACATCGATGCCA
48037270 TAGCTCAGCT
Statistics
Matches: 68, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
85 13 0.19
86 6 0.09
87 27 0.40
88 14 0.21
89 8 0.12
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.31
Consensus pattern (87 bp):
ATGGTCTTACATGAATCATATATCGATGCTAATATCCCATACATGGTCTTACACAAAGTCACATA
CATCGATGCCAATGTCCTAGAC
Found at i:48037298 original size:88 final size:87
Alignment explanation
Indices: 48037086--48037288 Score: 224
Period size: 87 Copynumber: 2.3 Consensus size: 87
48037076 GTTATCGCAT
* * * *
48037086 ATCGATGTCAATAGCCCAGCTATGGTCTTACATGAAT--CATATATTGATGCTAATGTCCCATAC
1 ATCGATG-CCATAGCTCAGCTATGGTCTTACATGAATCACATATATCGATGCTAATATCCCATAC
48037149 ATGGTCTTACACGAAATCACATA
65 ATGGTCTTACACGAAATCACATA
48037172 A-CGATGCCA-ATG-TCCTAGAC-ATGGTCTTACATGTAATCACATATATCGATGCT-ATATCCC
1 ATCGATGCCATA-GCT-C-AG-CTATGGTCTTACATG-AATCACATATATCGATGCTAATATCCC
* *
48037232 ATATATGGTCTTACAC-AAAGTCTCATA
61 ATACATGGTCTTACACGAAA-TCACATA
48037259 CATCGATGCCATAGCTCAGCTATGGTCTTA
1 -ATCGATGCCATAGCTCAGCTATGGTCTTA
48037289 TACGAAATCA
Statistics
Matches: 98, Mismatches: 6, Indels: 24
0.77 0.05 0.19
Matches are distributed among these distances:
83 1 0.01
84 4 0.04
85 20 0.20
86 8 0.08
87 28 0.29
88 25 0.26
89 10 0.10
90 2 0.02
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (87 bp):
ATCGATGCCATAGCTCAGCTATGGTCTTACATGAATCACATATATCGATGCTAATATCCCATACA
TGGTCTTACACGAAATCACATA
Found at i:48039406 original size:15 final size:16
Alignment explanation
Indices: 48039386--48039423 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
48039376 TTTTAAACCT
48039386 ATAATTTAA-TAAAAA
1 ATAATTTAACTAAAAA
*
48039401 ATAA-TTAACTCAAAA
1 ATAATTTAACTAAAAA
48039416 ATAATTTA
1 ATAATTTA
48039424 TGCTTATTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 4 0.20
15 13 0.65
16 3 0.15
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (16 bp):
ATAATTTAACTAAAAA
Found at i:48041049 original size:127 final size:126
Alignment explanation
Indices: 48040795--48041327 Score: 707
Period size: 126 Copynumber: 4.3 Consensus size: 126
48040785 TTTTGAAGTG
* *
48040795 GCGCCCACGTGTACGCGCTTTTGCTACAGTAGATCCTGGAAAAATAATTTCGAGTTGACGTTTCT
1 GCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCT
* * **
48040860 GAGCAAATAGTTT-AAAAAATGCTTCAAGCAGGATGCTTTATGAGAAGAGCTTGTGAAATC
66 GAGCAAATAGTTTAAAAAAACGCTTCAAGCAGGATACTTTATGAGAAGAATTTGTGAAATC
* * *
48040920 GCGTCCTCGTGGACGCGCTTTTGCTACAGTTGGTCCTGGAAGAAATAATTTCGAGTTGACGTTTC
1 GCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAA-AAATAATTTCGAGTTGACGTTTC
* * *
48040985 TGAACAAATAGTTTAAAAAAACGCTTCAAGCAGGACACTTTATGAGAAGAATTTATGAAATC
65 TGAGCAAATAGTTTAAAAAAACGCTTCAAGCAGGATACTTTATGAGAAGAATTTGTGAAATC
* * *
48041047 GCGCCCACATGAACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCT
1 GCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCT
* * * * * *
48041112 GAGCAAATAGTGTAAAACAATGCTGCAAGCAGGATGCTATT-TAAGAAGAATTTGTGAAATC
66 GAGCAAATAGTTTAAAAAAACGCTTCAAGCAGGATACT-TTATGAGAAGAATTTGTGAAATC
* * * * * *
48041173 GCGCCCTCGTGGACGCGTTTTTGCTACAATAGGTCTTGGAAAAATAATTTTGACTTGACGTTTCT
1 GCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCT
* * * * * *
48041238 GAGCAAATAG--TATAAAATCTCTTCTAGTAGGATATTTTATGAGAAGAATTTGTGAAATC
66 GAGCAAATAGTTTAAAAAAACGCTTCAAGCAGGATACTTTATGAGAAGAATTTGTGAAATC
*
48041297 GCGCCCACGTGGA-GCGATTTTGCTACAGTAG
1 GCGCCCACGTGGACGCGCTTTTGCTACAGTAG
48041328 CATGTTTGGG
Statistics
Matches: 354, Mismatches: 50, Indels: 10
0.86 0.12 0.02
Matches are distributed among these distances:
123 18 0.05
124 47 0.13
125 36 0.10
126 175 0.49
127 78 0.22
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (126 bp):
GCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCT
GAGCAAATAGTTTAAAAAAACGCTTCAAGCAGGATACTTTATGAGAAGAATTTGTGAAATC
Found at i:48044560 original size:41 final size:43
Alignment explanation
Indices: 48044491--48045241 Score: 273
Period size: 43 Copynumber: 17.0 Consensus size: 43
48044481 TCAAATTATA
* * *
48044491 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGTG-TTA-GGTT
1 TTTAATTTAAGGGTTAGGGTTTTAAAGTTAAGGGTTTAGGGTT
* * *
48044532 TTTTATTTAATGGTTATGGTTTTAAAGTTAAGGGTTTAGGGTT
1 TTTAATTTAAGGGTTAGGGTTTTAAAGTTAAGGGTTTAGGGTT
* ** *
48044575 TTTAATTTAAGGATTA-CATTTATTAAGTTAAGGGTTTAGGGTT
1 TTTAATTTAAGGGTTAGGGTTT-TAAAGTTAAGGGTTTAGGGTT
* * * * *
48044618 TTTAATTTAAGTGTTAGGGTTTTTAATTTAA-GGATTAAGGTT
1 TTTAATTTAAGGGTTAGGGTTTTAAAGTTAAGGGTTTAGGGTT
* * * *
48044660 TTTAAGGTTTTAGGGTTTAAGGTTTTTAATTTAAGGGTTTAGGGTT
1 TTTAA--TTTAAGGG-TTAGGGTTTTAAAGTTAAGGGTTTAGGGTT
* * * * * * * *
48044706 TTTAAGTTAAGAGTTTAAGATTTTAGGATTTTATGGTTTAGGGTT
1 TTTAATTTAAG-GGTTAGGGTTTTA-AAGTTAAGGGTTTAGGGTT
* * * *
48044751 ATTAATTTAAGGATTTAGTGTTTT-AAGTTAATGGTTTAGGG-T
1 TTTAATTTAAGG-GTTAGGGTTTTAAAGTTAAGGGTTTAGGGTT
* * ** * * * *
48044793 TTTAGGGTTT-AGAGTTTAGGGTTTTAGGGTTTAGAGTTAAAGGTT
1 TTTA--ATTTAAG-GGTTAGGGTTTTAAAGTTAAGGGTTTAGGGTT
**** * * * *
48044838 TAGGGTTT-AGGGTTAAGATTTGTAGGTTAAGGGTTTATGTGTTTAGGGTT
1 TTTAATTTAAGGGTTAGGGTTT-TA----AA--G-TTAAGGGTTTAGGGTT
* * * * *
48044888 TTAAAGTTTTAGGGTTTAGGG--TTAAGGTT-TGTAGGTTAAGGGTT
1 TTTAA-TTTAAGGG-TTAGGGTTTTAAAGTTAAG--GGTTTAGGGTT
* * * ** * * *
48044932 TAT-GTGTTAAGGGTTTATGGTTTTTAGGGTTTAGGATTTAGGATTTAAATT
1 TTTAAT-TTAAGGG-TTA-GGGTTTTAAAGTTAAGGGTTTAGG------GTT
* * * * * *
48044983 TTTAAGTTAAGGGTTTAGGG-TTTATAGTTTTATGATTTAGGATT
1 TTTAATTTAAGGG-TTAGGGTTTTAAAG-TTAAGGGTTTAGGGTT
* *
48045027 TTTAAGTTAAGGGTTTAAGGTTTT-AAGTTAAGGG-TTAGGGTT
1 TTTAATTTAAGGG-TTAGGGTTTTAAAGTTAAGGGTTTAGGGTT
* * * **
48045069 TTTAAATTAAGGATTTATGGGTTTTAAGGTTTAA-GGTTTAAAGTT
1 TTTAATTTAAGG-GTTA-GGGTTTTAAAG-TTAAGGGTTTAGGGTT
*
48045114 TTTAAGTTAAGGGTTTAGGGTTTT-AAGTTAAGGGTTT-GGGTT
1 TTTAATTTAAGGG-TTAGGGTTTTAAAGTTAAGGGTTTAGGGTT
* ** * * *
48045156 TGTAGGTTAAGAGTTTATGGTTTTTAAA-TTAAAGGTTTAGGGTT
1 TTTAATTTAAG-GGTTA-GGGTTTTAAAGTTAAGGGTTTAGGGTT
*
48045200 TTTAATTTAAGGGTTATGGTTTT-AAGTTAAGGGTTTAGGGTT
1 TTTAATTTAAGGGTTAGGGTTTTAAAGTTAAGGGTTTAGGGTT
48045242 AGGGTTAGGG
Statistics
Matches: 537, Mismatches: 118, Indels: 109
0.70 0.15 0.14
Matches are distributed among these distances:
41 30 0.06
42 95 0.18
43 142 0.26
44 100 0.19
45 86 0.16
46 22 0.04
47 1 0.00
49 6 0.01
50 28 0.05
51 19 0.04
52 4 0.01
53 4 0.01
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.47
Consensus pattern (43 bp):
TTTAATTTAAGGGTTAGGGTTTTAAAGTTAAGGGTTTAGGGTT
Found at i:48044584 original size:22 final size:22
Alignment explanation
Indices: 48044491--48045241 Score: 302
Period size: 21 Copynumber: 34.0 Consensus size: 22
48044481 TCAAATTATA
*
48044491 TTTAAGTTAAGGG-TTAGGGTT
1 TTTAATTTAAGGGTTTAGGGTT
* *
48044512 TTTAAGTTAAGTG-TTA-GGTT
1 TTTAATTTAAGGGTTTAGGGTT
* * *
48044532 TTTTATTTAATGG-TTATGGTT
1 TTTAATTTAAGGGTTTAGGGTT
* *
48044553 TTAAAGTTAAGGGTTTAGGGTT
1 TTTAATTTAAGGGTTTAGGGTT
* **
48044575 TTTAATTTAA-GGATTA-CATT
1 TTTAATTTAAGGGTTTAGGGTT
*
48044595 TATTAAGTTAAGGGTTTAGGGTT
1 T-TTAATTTAAGGGTTTAGGGTT
*
48044618 TTTAATTTAAGTG-TTAGGGTT
1 TTTAATTTAAGGGTTTAGGGTT
* *
48044639 TTTAATTTAA-GGATTAAGGTT
1 TTTAATTTAAGGGTTTAGGGTT
* *
48044660 TTTAAGGTTTTAGGGTTTAAGGTT
1 TTTAA--TTTAAGGGTTTAGGGTT
48044684 TTTAATTTAAGGGTTTAGGGTT
1 TTTAATTTAAGGGTTTAGGGTT
* * * *
48044706 TTTAAGTTAAGAGTTTA-AGAT
1 TTTAATTTAAGGGTTTAGGGTT
* *
48044727 TTTAGGATTTTATGGTTTAGGGTT
1 TTTA--ATTTAAGGGTTTAGGGTT
* * *
48044751 ATTAATTTAAGGATTTAGTG-T
1 TTTAATTTAAGGGTTTAGGGTT
* *
48044772 TTTAAGTTAATGGTTTAGGG-T
1 TTTAATTTAAGGGTTTAGGGTT
* *
48044793 TTTAGGGTTT-AGAGTTTAGGGTTTT
1 TTTA--ATTTAAGGGTTTAGGG--TT
* *
48044818 AGGGTTTAGAGTTAAAGGTTTAGGGTT
1 ----TTTA-ATTTAAGGGTTTAGGGTT
* *
48044845 TAGGGTTAAGATTTGTA-GGTTAAGGGTT
1 T----TT-A-ATTT-AAGGGTTTAGGGTT
* **
48044873 TATGT-GTTT-AGGGTTTTAAAG-T
1 T-T-TAATTTAAGGG-TTTAGGGTT
* *
48044895 TTTAGGGTTT-AGGG-TTAAGGTT
1 TTTA--ATTTAAGGGTTTAGGGTT
* ** *
48044917 TGTAGGTTAAGGGTTTA-TG-T
1 TTTAATTTAAGGGTTTAGGGTT
* * *
48044937 GTTAAGGGTTTATGGTTTTTAGGGTT
1 TTTAA---TTTAAGG-GTTTAGGGTT
*** * **
48044963 TAGGATTT-AGGATTTA-AATT
1 TTTAATTTAAGGGTTTAGGGTT
*
48044983 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAATTTAAGGGTTTAGGGTT
* * * * * *
48045005 TATAGTTTTATGATTTAGGATT
1 TTTAATTTAAGGGTTTAGGGTT
* *
48045027 TTTAAGTTAAGGGTTTAAGG-T
1 TTTAATTTAAGGGTTTAGGGTT
*
48045048 TTTAAGTTAAGGG-TTAGGGTT
1 TTTAATTTAAGGGTTTAGGGTT
* *
48045069 TTTAAATTAAGGATTTATGGG-T
1 TTTAATTTAAGGGTTTA-GGGTT
**
48045091 TTTAAGGTTTAA-GGTTTAAAGTT
1 TTTAA--TTTAAGGGTTTAGGGTT
*
48045114 TTTAAGTTAAGGGTTTAGGG-T
1 TTTAATTTAAGGGTTTAGGGTT
*
48045135 TTTAAGTTAAGGGTTT-GGGTT
1 TTTAATTTAAGGGTTTAGGGTT
* ** * *
48045156 TGTAGGTTAAGAGTTTATGGTT
1 TTTAATTTAAGGGTTTAGGGTT
* *
48045178 TTTAAATTAAAGGTTTAGGGTT
1 TTTAATTTAAGGGTTTAGGGTT
*
48045200 TTTAATTTAAGGG-TTATGG-T
1 TTTAATTTAAGGGTTTAGGGTT
*
48045220 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAATTTAAGGGTTTAGGGTT
48045242 AGGGTTAGGG
Statistics
Matches: 545, Mismatches: 129, Indels: 111
0.69 0.16 0.14
Matches are distributed among these distances:
20 54 0.10
21 192 0.35
22 172 0.32
23 56 0.10
24 28 0.05
25 3 0.01
26 3 0.01
27 4 0.01
28 19 0.03
29 14 0.03
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.47
Consensus pattern (22 bp):
TTTAATTTAAGGGTTTAGGGTT
Found at i:48044680 original size:15 final size:15
Alignment explanation
Indices: 48044660--48044922 Score: 67
Period size: 15 Copynumber: 17.9 Consensus size: 15
48044650 GATTAAGGTT
48044660 TTTAAGGTTTTAGGG
1 TTTAAGGTTTTAGGG
*
48044675 TTTAAGGTTTTTA--A
1 TTTAAGG-TTTTAGGG
*
48044689 TTTAAGGGTTTAGGG
1 TTTAAGGTTTTAGGG
* *
48044704 TTTTTAA-G-TTAAGAG
1 --TTTAAGGTTTTAGGG
* *
48044719 TTTAAGATTTTAGGAT
1 TTTAAGGTTTTAGG-G
*
48044735 TTTATGG-TTTAGGG
1 TTTAAGGTTTTAGGG
* *
48044749 TTATTAA--TTTAAGGA
1 -T-TTAAGGTTTTAGGG
*
48044764 TTT-AGTGTTTTA-AG
1 TTTAAG-GTTTTAGGG
48044778 -TTAATGG-TTTAGGG
1 TTTAA-GGTTTTAGGG
* * *
48044792 TTTTAGGGTTTAGAG
1 TTTAAGGTTTTAGGG
*
48044807 TTTAGGGTTTTAGGG
1 TTTAAGGTTTTAGGG
* *
48044822 TTT-AGAG-TTAAAGG
1 TTTAAG-GTTTTAGGG
*
48044836 TTT-AGGGTTTAGGG
1 TTTAAGGTTTTAGGG
*
48044850 -TTAAGATTTGTA-GG
1 TTTAAGGTTT-TAGGG
* *
48044864 -TTAAGGGTTTATGTG
1 TTTAAGGTTTTA-GGG
* **
48044879 TTTAGGGTTTTAAAG
1 TTTAAGGTTTTAGGG
* *
48044894 TTTTAGGGTTTAGGG
1 TTTAAGGTTTTAGGG
48044909 -TTAAGGTTTGTAGG
1 TTTAAGGTTT-TAGG
48044923 TTAAGGGTTT
Statistics
Matches: 175, Mismatches: 46, Indels: 54
0.64 0.17 0.20
Matches are distributed among these distances:
12 1 0.01
13 22 0.13
14 49 0.28
15 75 0.43
16 23 0.13
17 5 0.03
ACGTcount: A:0.24, C:0.00, G:0.30, T:0.46
Consensus pattern (15 bp):
TTTAAGGTTTTAGGG
Found at i:48044775 original size:88 final size:85
Alignment explanation
Indices: 48044559--48044795 Score: 230
Period size: 88 Copynumber: 2.7 Consensus size: 85
48044549 GGTTTTAAAG
*
48044559 TTAAGGGTTTAGGGTTTTTAATTTAAGGA-TTACAT-TTATTAAGTTAAGGGTTTAGGGTTTTTA
1 TTAA-GGTTTAGGGTTTTTAATTTAAGGATTTA-GTGTT-TTAAGTTAAGGGTTTAGGGTTTTTA
* * * *
48044622 ATTTAAGTGTTAGGGTTTTTAAT
63 AGTTAAGAGTTAGAGATTTTAAT
* * * * *
48044645 TTAAGGATTAAGGTTTTTAAGGTTTTAGGGTTTAAG-GTTTTTAATTTAAGGGTTTAGGGTTTTT
1 TTAAGGTTTAGGGTTTTTAA--TTTAAGGATTT-AGTG-TTTTAAGTTAAGGGTTTAGGGTTTTT
48044709 AAGTTAAGAGTTTA-AGATTTTAGGATT
62 AAGTTAAGAG-TTAGAGATTTTA--A-T
* * *
48044736 TTATGGTTTAGGGTTATTAATTTAAGGATTTAGTGTTTTAAGTTAATGGTTTAGGGTTTT
1 TTAAGGTTTAGGGTTTTTAATTTAAGGATTTAGTGTTTTAAGTTAAGGGTTTAGGGTTTT
48044796 AGGGTTTAGA
Statistics
Matches: 122, Mismatches: 18, Indels: 20
0.76 0.11 0.12
Matches are distributed among these distances:
85 14 0.11
86 4 0.03
87 6 0.05
88 64 0.52
89 16 0.13
90 1 0.01
91 17 0.14
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.49
Consensus pattern (85 bp):
TTAAGGTTTAGGGTTTTTAATTTAAGGATTTAGTGTTTTAAGTTAAGGGTTTAGGGTTTTTAAGT
TAAGAGTTAGAGATTTTAAT
Found at i:48044798 original size:8 final size:8
Alignment explanation
Indices: 48044785--48044824 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
48044775 AAGTTAATGG
48044785 TTTAGGGT
1 TTTAGGGT
48044793 TTTAGGG-
1 TTTAGGGT
*
48044800 TTTAGAG-
1 TTTAGGGT
48044807 TTTAGGGT
1 TTTAGGGT
48044815 TTTAGGGT
1 TTTAGGGT
48044823 TT
1 TT
48044825 AGAGTTAAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
7 12 0.41
8 17 0.59
ACGTcount: A:0.15, C:0.00, G:0.35, T:0.50
Consensus pattern (8 bp):
TTTAGGGT
Found at i:48044803 original size:7 final size:7
Alignment explanation
Indices: 48044783--48044978 Score: 117
Period size: 7 Copynumber: 26.9 Consensus size: 7
48044773 TTAAGTTAAT
48044783 GGTTTAG
1 GGTTTAG
48044790 GGTTTTAG
1 GG-TTTAG
48044798 GGTTTAG
1 GGTTTAG
*
48044805 AGTTTAG
1 GGTTTAG
48044812 GGTTTTAG
1 GG-TTTAG
48044820 GGTTTAG
1 GGTTTAG
* * *
48044827 AGTTAAA
1 GGTTTAG
48044834 GGTTTAG
1 GGTTTAG
48044841 GGTTTAG
1 GGTTTAG
*
48044848 GGTTAAG
1 GGTTTAG
**
48044855 ATTTGTA-
1 GGTT-TAG
*
48044862 GGTTAAG
1 GGTTTAG
48044869 GGTTTATG
1 GGTTTA-G
*
48044877 TGTTTAG
1 GGTTTAG
*
48044884 GGTTTTAAA
1 GG-TTT-AG
*
48044893 GTTTTAG
1 GGTTTAG
48044900 GGTTTAG
1 GGTTTAG
*
48044907 GGTTAAG
1 GGTTTAG
*
48044914 GTTTGTA-
1 GGTT-TAG
*
48044921 GGTTAAG
1 GGTTTAG
48044928 GGTTTATG
1 GGTTTA-G
* *
48044936 TGTTAAG
1 GGTTTAG
48044943 GGTTTATG
1 GGTTTA-G
*
48044951 GTTTTTAG
1 G-GTTTAG
48044959 GGTTTAG
1 GGTTTAG
*
48044966 GATTTAG
1 GGTTTAG
*
48044973 GATTTA
1 GGTTTA
48044979 AATTTTTAAG
Statistics
Matches: 142, Mismatches: 35, Indels: 24
0.71 0.17 0.12
Matches are distributed among these distances:
6 2 0.01
7 97 0.68
8 37 0.26
9 6 0.04
ACGTcount: A:0.21, C:0.00, G:0.34, T:0.45
Consensus pattern (7 bp):
GGTTTAG
Found at i:48044808 original size:29 final size:28
Alignment explanation
Indices: 48044772--48044851 Score: 93
Period size: 22 Copynumber: 3.1 Consensus size: 28
48044762 GATTTAGTGT
48044772 TTTAAGTTAATGGTTTAGGGTTTTAGGG
1 TTTAAGTTAATGGTTTAGGGTTTTAGGG
48044800 TTT-AG---A--GTTTAGGGTTTTAGGG
1 TTTAAGTTAATGGTTTAGGGTTTTAGGG
*
48044822 TTTAGAGTTAAAGGTTTAGGG-TTTAGGG
1 TTTA-AGTTAATGGTTTAGGGTTTTAGGG
48044850 TT
1 TT
48044852 AAGATTTGTA
Statistics
Matches: 45, Mismatches: 0, Indels: 14
0.76 0.00 0.24
Matches are distributed among these distances:
22 19 0.42
24 3 0.07
27 3 0.07
28 12 0.27
29 8 0.18
ACGTcount: A:0.21, C:0.00, G:0.34, T:0.45
Consensus pattern (28 bp):
TTTAAGTTAATGGTTTAGGGTTTTAGGG
Found at i:48044838 original size:36 final size:36
Alignment explanation
Indices: 48044798--48044900 Score: 102
Period size: 36 Copynumber: 2.9 Consensus size: 36
48044788 AGGGTTTTAG
*
48044798 GGTTTAGAGTTTAGGGTTTTAGGGTT-TAGAGTTAAA
1 GGTTTAGAGTTTAGGGTTTTAGAGTTGTAG-GTTAAA
* * * *
48044834 GGTTTAGGGTTTAGGG-TTAAGATTTGTAGGTTAAG
1 GGTTTAGAGTTTAGGGTTTTAGAGTTGTAGGTTAAA
* * *
48044869 GGTTTATGTGTTTAGGGTTTTAAAGTTTTAGG
1 GGTTTA-GAGTTTAGGGTTTTAGAGTTGTAGG
48044901 GTTTAGGGTT
Statistics
Matches: 54, Mismatches: 10, Indels: 5
0.78 0.14 0.07
Matches are distributed among these distances:
35 17 0.31
36 27 0.50
37 10 0.19
ACGTcount: A:0.22, C:0.00, G:0.34, T:0.44
Consensus pattern (36 bp):
GGTTTAGAGTTTAGGGTTTTAGAGTTGTAGGTTAAA
Found at i:48044903 original size:59 final size:58
Alignment explanation
Indices: 48044829--48044966 Score: 213
Period size: 59 Copynumber: 2.3 Consensus size: 58
48044819 GGGTTTAGAG
* *
48044829 TTAAAGGTTTAGGGTTTAGGGTTAAGATTTGTAGGTTAAGGGTTTATGTGTTTAGGGTT
1 TTAAAGTTTTAGGGTTTAGGGTTAAGATTTGTAGGTTAAGGGTTTATGTGTTAAGGG-T
*
48044888 TTAAAGTTTTAGGGTTTAGGGTTAAGGTTTGTAGGTTAAGGGTTTATGTGTTAAGGGT
1 TTAAAGTTTTAGGGTTTAGGGTTAAGATTTGTAGGTTAAGGGTTTATGTGTTAAGGGT
**
48044946 TTATGGTTTTTAGGGTTTAGG
1 TTAAAG-TTTTAGGGTTTAGG
48044967 ATTTAGGATT
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
58 5 0.07
59 68 0.93
ACGTcount: A:0.21, C:0.00, G:0.34, T:0.45
Consensus pattern (58 bp):
TTAAAGTTTTAGGGTTTAGGGTTAAGATTTGTAGGTTAAGGGTTTATGTGTTAAGGGT
Found at i:48044962 original size:16 final size:15
Alignment explanation
Indices: 48044863--48044964 Score: 77
Period size: 15 Copynumber: 6.8 Consensus size: 15
48044853 AGATTTGTAG
48044863 GTTAAGGGTTTATGT
1 GTTAAGGGTTTATGT
* *
48044878 GTTTAGGGTTTTAAAGT
1 GTTAAGGG-TTT-ATGT
* *
48044895 -TTTAGGGTTTA-GG
1 GTTAAGGGTTTATGT
*
48044908 GTTAA-GGTTTGTAG-
1 GTTAAGGGTTTAT-GT
48044922 GTTAAGGGTTTATGT
1 GTTAAGGGTTTATGT
48044937 GTTAAGGGTTTATGGT
1 GTTAAGGGTTTAT-GT
* *
48044953 TTTTAGGGTTTA
1 GTTAAGGGTTTA
48044965 GGATTTAGGA
Statistics
Matches: 71, Mismatches: 8, Indels: 15
0.76 0.09 0.16
Matches are distributed among these distances:
13 6 0.08
14 10 0.14
15 30 0.42
16 22 0.31
17 3 0.04
ACGTcount: A:0.20, C:0.00, G:0.33, T:0.47
Consensus pattern (15 bp):
GTTAAGGGTTTATGT
Found at i:48045013 original size:28 final size:29
Alignment explanation
Indices: 48044941--48045027 Score: 70
Period size: 28 Copynumber: 3.0 Consensus size: 29
48044931 TTATGTGTTA
* * *
48044941 AGGGTTTATGGTTTTTAGGGTTTAGGATTT
1 AGGGTTTATAG-TTTTAGAGTTAAGGATTT
* * * *
48044971 AGGATTTAAATTTTTA-AGTTAAGGGTTT
1 AGGGTTTATAGTTTTAGAGTTAAGGATTT
*
48044999 AGGGTTTATAGTTTTATGA-TTTAGGATTT
1 AGGGTTTATAGTTTTA-GAGTTAAGGATTT
48045028 TTAAGTTAAG
Statistics
Matches: 43, Mismatches: 12, Indels: 5
0.72 0.20 0.08
Matches are distributed among these distances:
28 22 0.51
29 13 0.30
30 8 0.19
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.49
Consensus pattern (29 bp):
AGGGTTTATAGTTTTAGAGTTAAGGATTT
Found at i:48045123 original size:87 final size:86
Alignment explanation
Indices: 48045025--48045241 Score: 285
Period size: 87 Copynumber: 2.5 Consensus size: 86
48045015 TGATTTAGGA
*
48045025 TTTTTAAGTTAAGGGTTTAAGGTTTTAAGTTAAGGGTTAGGGTTTTTAAATTAAG-GATTTATGG
1 TTTTTAAGTTAAGGGTTTAAGGTTTTAAGTTAAGGGTTAGGGTTTGTAAATTAAGAG-TTTATGG
* *
48045089 GTTTTAAGGTTTAAGGTTTAAAG
65 GTTTTAA-ATTAAAGGTTTAAAG
* * ** *
48045112 TTTTTAAGTTAAGGGTTTAGGGTTTTAAGTTAAGGGTTTGGGTTTGTAGGTTAAGAGTTTATGGT
1 TTTTTAAGTTAAGGGTTTAAGGTTTTAAGTTAAGGGTTAGGGTTTGTAAATTAAGAGTTTATGGG
**
48045177 TTTTAAATTAAAGGTTTAGGG
66 TTTTAAATTAAAGGTTTAAAG
* *
48045198 TTTTTAATTTAAGGG-TTATGGTTTTAAGTTAAGGGTTTAGGGTT
1 TTTTTAAGTTAAGGGTTTAAGGTTTTAAGTTAAGGG-TTAGGGTT
48045242 AGGGTTAGGG
Statistics
Matches: 115, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
85 19 0.17
86 32 0.28
87 63 0.55
88 1 0.01
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.46
Consensus pattern (86 bp):
TTTTTAAGTTAAGGGTTTAAGGTTTTAAGTTAAGGGTTAGGGTTTGTAAATTAAGAGTTTATGGG
TTTTAAATTAAAGGTTTAAAG
Found at i:48045264 original size:15 final size:15
Alignment explanation
Indices: 48045240--48045269 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
48045230 GGGTTTAGGG
48045240 TTAGGGTTAGGGTTT
1 TTAGGGTTAGGGTTT
*
48045255 TTAGGTTTAGGGTTT
1 TTAGGGTTAGGGTTT
48045270 AAGGTTTGTC
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:0.13, C:0.00, G:0.37, T:0.50
Consensus pattern (15 bp):
TTAGGGTTAGGGTTT
Found at i:48045846 original size:18 final size:18
Alignment explanation
Indices: 48045820--48045861 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
48045810 GACTCGGAAA
* *
48045820 AGGAAACATATAAGGGTT
1 AGGAAACATAAAAGGGCT
*
48045838 AGGATACATAAAAGGGCT
1 AGGAAACATAAAAGGGCT
48045856 AGGAAA
1 AGGAAA
48045862 AGCACTTGGC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.48, C:0.07, G:0.29, T:0.17
Consensus pattern (18 bp):
AGGAAACATAAAAGGGCT
Found at i:48046638 original size:20 final size:20
Alignment explanation
Indices: 48046613--48046651 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
48046603 TTTGTTTTTT
48046613 TAAAATCTAA-ATAATAATTG
1 TAAAATCTAATATAA-AATTG
48046633 TAAAATCTAATATAAAATT
1 TAAAATCTAATATAAAATT
48046652 TACCTCGTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.56, C:0.05, G:0.03, T:0.36
Consensus pattern (20 bp):
TAAAATCTAATATAAAATTG
Found at i:48047663 original size:11 final size:11
Alignment explanation
Indices: 48047649--48047703 Score: 60
Period size: 11 Copynumber: 4.9 Consensus size: 11
48047639 TTAAATATGG
48047649 ATTTGAGAGAA
1 ATTTGAGAGAA
*
48047660 ATTTG-GAAGGA
1 ATTTGAG-AGAA
48047671 ATTTGAGAGTAA
1 ATTTGAGAG-AA
48047683 A-TTGAGAGGAA
1 ATTTGAGA-GAA
48047694 ATTTGAGAGA
1 ATTTGAGAGA
48047704 GGATTAGTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
10 1 0.03
11 26 0.70
12 10 0.27
ACGTcount: A:0.42, C:0.00, G:0.31, T:0.27
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:48047696 original size:23 final size:22
Alignment explanation
Indices: 48047649--48047703 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
48047639 TTAAATATGG
48047649 ATTTGAGAGAAATTTGGAAGGA
1 ATTTGAGAGAAATTTGGAAGGA
48047671 ATTTGAGAGTAAA-TT-GAGAGGAA
1 ATTTGAGAG-AAATTTGGA-AGG-A
48047694 ATTTGAGAGA
1 ATTTGAGAGA
48047704 GGATTAGTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
21 2 0.07
22 15 0.50
23 13 0.43
ACGTcount: A:0.42, C:0.00, G:0.31, T:0.27
Consensus pattern (22 bp):
ATTTGAGAGAAATTTGGAAGGA
Found at i:48054514 original size:18 final size:17
Alignment explanation
Indices: 48054486--48054520 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
48054476 TCAGATGTAC
*
48054486 TTTATATTTTTTTTATT
1 TTTATATTTTTTATATT
48054503 TTTATGATTTTTTATATT
1 TTTAT-ATTTTTTATATT
48054521 ATGTTTTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (17 bp):
TTTATATTTTTTATATT
Found at i:48055142 original size:30 final size:29
Alignment explanation
Indices: 48055102--48055159 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 29
48055092 GAATAGTTGA
* * *
48055102 GTGATCATTTTGTAACTTTTTTATAATTAG
1 GTGATCATTTTATAA-ATTTTCATAATTAG
*
48055132 GTGATTATTTTATAAATTTTCATAATTA
1 GTGATCATTTTATAAATTTTCATAATTA
48055160 AGTAATCAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 11 0.46
30 13 0.54
ACGTcount: A:0.31, C:0.05, G:0.10, T:0.53
Consensus pattern (29 bp):
GTGATCATTTTATAAATTTTCATAATTAG
Found at i:48057482 original size:12 final size:11
Alignment explanation
Indices: 48057460--48057484 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
48057450 TCTTGGGGGG
48057460 AAAGGAAAAAA
1 AAAGGAAAAAA
48057471 AAAGGAAAAAA
1 AAAGGAAAAAA
48057482 AAA
1 AAA
48057485 TATTTTCATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (11 bp):
AAAGGAAAAAA
Found at i:48059207 original size:16 final size:16
Alignment explanation
Indices: 48059186--48059218 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
48059176 TTCGTTGTAT
*
48059186 TGGAATAGAGGCGTAA
1 TGGAATAGAGACGTAA
48059202 TGGAATAGAGACGTAA
1 TGGAATAGAGACGTAA
48059218 T
1 T
48059219 AGCAATTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.33, T:0.21
Consensus pattern (16 bp):
TGGAATAGAGACGTAA
Found at i:48059450 original size:56 final size:54
Alignment explanation
Indices: 48059379--48059570 Score: 188
Period size: 55 Copynumber: 3.3 Consensus size: 54
48059369 TTATTATTAA
48059379 ATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTT
1 ATATAATTTAAT-AAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTT
* * * * * *
48059434 ATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAA-AATAATTATTATT
1 ATAT-AATTTAATAAAAT-AT-ATA-AT-TTA--ATAAAAT-T--CTTAATATTAAATATTCTT
48059497 AAATATAATTTAATAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTT
1 --ATATAATTTAATAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTT
*
48059553 ATATGAATTTACTAAAAT
1 ATAT-AATTTAATAAAAT
48059571 CATAATATAT
Statistics
Matches: 110, Mismatches: 13, Indels: 28
0.73 0.09 0.19
Matches are distributed among these distances:
54 4 0.04
55 25 0.23
56 19 0.17
57 4 0.04
58 9 0.08
59 2 0.02
60 2 0.02
61 9 0.08
62 4 0.04
63 12 0.11
64 16 0.15
65 4 0.04
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (54 bp):
ATATAATTTAATAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTT
Found at i:48059539 original size:17 final size:17
Alignment explanation
Indices: 48059499--48059532 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
48059489 TTATTATTAA
48059499 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
48059516 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
48059533 TCTTAATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:48059571 original size:119 final size:120
Alignment explanation
Indices: 48059359--48059824 Score: 834
Period size: 120 Copynumber: 3.9 Consensus size: 120
48059349 TTAATCATAT
*
48059359 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
48059424 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
48059479 TTTAAAATAATTATTATTAAATATAATTTAAT-AAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
* *
48059543 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATAATATAAAATATTA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* *
48059598 TTTAAAATAATTATAATTAAATATAATTTAATAAAAATATATAAATTAATAAAATTCTTAATATT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
*
48059663 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTACAAAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
48059718 TTT--AA-AATTATTATTAAATATAA-TTAGATAAAAATATATAATTTAATAAAATTCTTAATAT
1 TTTAAAATAATTATTATTAAATATAATTTA-ATAAAAATATATAATTTAATAAAATTCTTAATAT
48059779 TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTA
65 TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTA
48059825 AAATCATAAT
Statistics
Matches: 334, Mismatches: 10, Indels: 7
0.95 0.03 0.02
Matches are distributed among these distances:
116 3 0.01
117 96 0.29
118 2 0.01
119 116 0.35
120 117 0.35
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.42
Consensus pattern (120 bp):
TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
Found at i:48059620 original size:26 final size:29
Alignment explanation
Indices: 48059590--48059646 Score: 75
Period size: 26 Copynumber: 2.1 Consensus size: 29
48059580 TAATAATATA
* *
48059590 AAATATTATTTAA-AATAAT-TAT-AATT
1 AAATATAATTTAATAAAAATATATAAATT
48059616 AAATATAATTTAATAAAAATATATAAATT
1 AAATATAATTTAATAAAAATATATAAATT
48059645 AA
1 AA
48059647 TAAAATTCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 12 0.46
27 5 0.19
28 3 0.12
29 6 0.23
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (29 bp):
AAATATAATTTAATAAAAATATATAAATT
Found at i:48059629 original size:15 final size:15
Alignment explanation
Indices: 48059582--48059636 Score: 55
Period size: 15 Copynumber: 3.8 Consensus size: 15
48059572 ATAATATATA
48059582 ATAATATAAAAT-ATT
1 ATAAT-TAAAATAATT
48059597 AT--TTAAAATAATT
1 ATAATTAAAATAATT
48059610 ATAATTAAATATAATT
1 ATAATTAAA-ATAATT
*
48059626 -TAATAAAAATA
1 ATAATTAAAATA
48059637 TATAAATTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
12 6 0.17
13 6 0.17
14 3 0.09
15 14 0.40
16 6 0.17
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
ATAATTAAAATAATT
Found at i:48059663 original size:18 final size:19
Alignment explanation
Indices: 48059618--48059664 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
48059608 TTATAATTAA
48059618 ATATAAT-TTAATAAAAAT
1 ATATAATATTAATAAAAAT
*
48059636 ATATAA-ATTAATAAAATT
1 ATATAATATTAATAAAAAT
*
48059654 CT-TAATATTAA
1 ATATAATATTAA
48059665 ATATTCTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 3 0.12
18 22 0.88
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (19 bp):
ATATAATATTAATAAAAAT
Found at i:48059806 original size:56 final size:55
Alignment explanation
Indices: 48059618--48059806 Score: 170
Period size: 56 Copynumber: 3.3 Consensus size: 55
48059608 TTATAATTAA
*
48059618 ATATAATTTAATAAAAATATATAAATTAATAAAATTCTTAATATTAAATATTCTT
1 ATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTT
* * * * * *
48059673 ATATGAATTTACT-AAAATCATAATATATAATACTACAAAAT-ATAAT-TTAAAATTATTATT
1 ATAT-AATTTAATAAAAAT-AT-ATA-AT-TTAATA-AAATTCTTAATATT-AAA-TATTCTT
48059733 AAATATAA-TTAGATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTT
1 --ATATAATTTA-ATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTT
*
48059790 ATATGAATTTACTAAAA
1 ATAT-AATTTAATAAAA
48059807 TCATAATATA
Statistics
Matches: 104, Mismatches: 14, Indels: 31
0.70 0.09 0.21
Matches are distributed among these distances:
55 13 0.12
56 16 0.15
57 16 0.15
58 14 0.13
59 15 0.14
60 16 0.15
61 5 0.05
62 9 0.09
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (55 bp):
ATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTT
Found at i:48059843 original size:23 final size:21
Alignment explanation
Indices: 48059799--48059839 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
48059789 TATATGAATT
48059799 TACTAAAATCATAATATATAA
1 TACTAAAATCATAATATATAA
48059820 TACTAAAATCATAATATATA
1 TACTAAAATCATAATATATA
48059840 TAATTTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.34
Consensus pattern (21 bp):
TACTAAAATCATAATATATAA
Found at i:48062337 original size:14 final size:14
Alignment explanation
Indices: 48062318--48062346 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
48062308 CTTTTATAGT
48062318 TTAAAAGGTTTGTA
1 TTAAAAGGTTTGTA
48062332 TTAAAAGGTTTGTA
1 TTAAAAGGTTTGTA
48062346 T
1 T
48062347 CAATAACACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.21, T:0.45
Consensus pattern (14 bp):
TTAAAAGGTTTGTA
Found at i:48063723 original size:8 final size:9
Alignment explanation
Indices: 48063695--48063722 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
48063685 GTATTATCTC
48063695 AATTTTAAA
1 AATTTTAAA
48063704 AATTTTAAA
1 AATTTTAAA
48063713 AATTTTAAA
1 AATTTTAAA
48063722 A
1 A
48063723 TCAAGTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (9 bp):
AATTTTAAA
Found at i:48064130 original size:2 final size:2
Alignment explanation
Indices: 48064123--48064157 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
48064113 GACATGTACG
*
48064123 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA AA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
48064158 TCATTAGATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:48064176 original size:8 final size:8
Alignment explanation
Indices: 48064123--48064179 Score: 53
Period size: 8 Copynumber: 7.2 Consensus size: 8
48064113 GACATGTACG
*
48064123 TATATATA
1 TATATAAA
*
48064131 TATATATA
1 TATATAAA
*
48064139 TATATATA
1 TATATAAA
48064147 TATATAAA
1 TATATAAA
* *
48064155 TAT-TCAT
1 TATATAAA
*
48064162 TAGATAAA
1 TATATAAA
48064170 TATATAAA
1 TATATAAA
48064178 TA
1 TA
48064180 CATACATGTA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
7 4 0.10
8 37 0.90
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (8 bp):
TATATAAA
Found at i:48064888 original size:19 final size:19
Alignment explanation
Indices: 48064864--48064917 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
48064854 AATCATATCT
48064864 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
48064883 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
48064902 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
48064918 CTTGAAGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:48064913 original size:38 final size:40
Alignment explanation
Indices: 48064841--48064917 Score: 113
Period size: 38 Copynumber: 1.9 Consensus size: 40
48064831 AAATTAAATC
48064841 TCTAAGATTACAAAATCATATCTTCTAAGATTGCATATCATA
1 TCTAAGATTACAAAATCATA--TTCTAAGATTGCATATCATA
*
48064883 TCTAAGATTAC-ATATCATA-TCTAAGATTGCATATC
1 TCTAAGATTACAAAATCATATTCTAAGATTGCATATC
48064918 CTTGAAGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
38 16 0.47
41 7 0.21
42 11 0.32
ACGTcount: A:0.39, C:0.17, G:0.08, T:0.36
Consensus pattern (40 bp):
TCTAAGATTACAAAATCATATTCTAAGATTGCATATCATA
Found at i:48065249 original size:43 final size:42
Alignment explanation
Indices: 48065202--48065306 Score: 140
Period size: 42 Copynumber: 2.5 Consensus size: 42
48065192 TAAAAAATAT
*
48065202 ATATATGTATGTGTATATA-CATAAAATTATAAACATATGAAAA
1 ATATATGTATGTATATATATCATAAAATTATAAA-ATAT-AAAA
**
48065245 ATATATGTATGTATATATATTTTAAAATTATAAAATATAAAA
1 ATATATGTATGTATATATATCATAAAATTATAAAATATAAAA
* *
48065287 ATATATGTAAGTATGTATAT
1 ATATATGTATGTATATATAT
48065307 ATACATATAT
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
42 22 0.39
43 22 0.39
44 12 0.21
ACGTcount: A:0.50, C:0.02, G:0.09, T:0.40
Consensus pattern (42 bp):
ATATATGTATGTATATATATCATAAAATTATAAAATATAAAA
Done.