Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-JGI_221_v2.0
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: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 7 of 208
Found at i:2185983 original size:2 final size:2
Alignment explanation
Indices: 2185976--2186006 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2185966 GTTTAATTAT
2185976 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2186007 TTAGTTTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2186119 original size:23 final size:22
Alignment explanation
Indices: 2186076--2186119 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
2186066 TTATAGTCTA
*
2186076 ATTTTTATTTTGTTTATAAATT
1 ATTTTTATTTTGTTTAAAAATT
2186098 ATTTGTTATTTTAG-TTAAAAAT
1 ATTT-TTATTTT-GTTTAAAAAT
2186120 AAATTATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 4 0.21
23 14 0.74
24 1 0.05
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (22 bp):
ATTTTTATTTTGTTTAAAAATT
Found at i:2186468 original size:4 final size:4
Alignment explanation
Indices: 2186459--2186690 Score: 455
Period size: 4 Copynumber: 58.0 Consensus size: 4
2186449 TATTAAATCA
*
2186459 GTAT GTAT GTAT TTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
2186507 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
2186555 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
2186603 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
2186651 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
2186691 ATCTATTGTA
Statistics
Matches: 226, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
4 226 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
GTAT
Found at i:2187692 original size:42 final size:42
Alignment explanation
Indices: 2187631--2187914 Score: 383
Period size: 42 Copynumber: 6.8 Consensus size: 42
2187621 TTTTGTGTAT
* * * * * * **
2187631 GTGAAATAATTTCAAACTTTACGTCTAGTAGGTTTATTGCTA
1 GTGAAACAATATCAGACTTTACGTCTAGCAGGCTTAATGCCG
*
2187673 GTGAAACAATATCAGACTTTACGTTTAGCAGGCTTAATGCCG
1 GTGAAACAATATCAGACTTTACGTCTAGCAGGCTTAATGCCG
* *
2187715 GTGAAACAATATTAGACTTTACGTCTAGCAGGCTTAATGCCA
1 GTGAAACAATATCAGACTTTACGTCTAGCAGGCTTAATGCCG
2187757 GTGAAACAATATCAGACTTTACGTCTAGCAGGCTTAATGCCG
1 GTGAAACAATATCAGACTTTACGTCTAGCAGGCTTAATGCCG
* * * *
2187799 GTGAAAC-ATTTCAGACTATATGTCTAGCAGGCTTAATACCG
1 GTGAAACAATATCAGACTTTACGTCTAGCAGGCTTAATGCCG
2187840 GTGAAACAATATCAGACTTTACGTCTAGCAGGCTTAATGCCG
1 GTGAAACAATATCAGACTTTACGTCTAGCAGGCTTAATGCCG
* * * *
2187882 GTGAAAC-ATTTCAGACTATATGTCTTGCAGGCT
1 GTGAAACAATATCAGACTTTACGTCTAGCAGGCT
2187915 AAGTGTCGGT
Statistics
Matches: 215, Mismatches: 26, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
41 59 0.27
42 156 0.73
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (42 bp):
GTGAAACAATATCAGACTTTACGTCTAGCAGGCTTAATGCCG
Found at i:2187864 original size:83 final size:83
Alignment explanation
Indices: 2187672--2187914 Score: 407
Period size: 83 Copynumber: 2.9 Consensus size: 83
2187662 GTTTATTGCT
* *
2187672 AGTGAAACAATATCAGACTTTACGTTTAGCAGGCTTAATGCCGGTGAAACAATATT-AGACTTTA
1 AGTGAAACAATATCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAAC-AT-TTCAGACTATA
* *
2187736 CGTCTAGCAGGCTTAATGCC
64 TGTCTAGCAGGCTTAATACC
2187756 AGTGAAACAATATCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAACATTTCAGACTATATG
1 AGTGAAACAATATCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAACATTTCAGACTATATG
2187821 TCTAGCAGGCTTAATACC
66 TCTAGCAGGCTTAATACC
*
2187839 GGTGAAACAATATCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAACATTTCAGACTATATG
1 AGTGAAACAATATCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAACATTTCAGACTATATG
*
2187904 TCTTGCAGGCT
66 TCTAGCAGGCT
2187915 AAGTGTCGGT
Statistics
Matches: 152, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
82 2 0.01
83 101 0.66
84 49 0.32
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (83 bp):
AGTGAAACAATATCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAACATTTCAGACTATATG
TCTAGCAGGCTTAATACC
Found at i:2188860 original size:143 final size:141
Alignment explanation
Indices: 2188588--2189074 Score: 643
Period size: 143 Copynumber: 3.4 Consensus size: 141
2188578 NNNNNNNNNN
2188588 GCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATCTGCCATAATTTGTAGCTT
1 GCTGGTGGCTTCAATCTGCTCCACTGCAACTTCA-GAAGATAAGATCTGCCATAATTTGTAGCTT
* * * * * * *
2188653 TAATATGTTCCACTGCAACGCCAAGGAAATAAGATTTGTTGTCTTCAGTTTGCTCCTCTACAACT
65 TAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCCACTGCAACT
*
2188718 TTAGAGAGATAAG
130 TCAG-GAGATAAG
* *
2188731 GCTGGTGGCTTCAATCTGCTCCAATGCAACTTCAAGAAGATAAGATCCT-CCATAATTTGTAACT
1 GCTGGTGGCTTCAATCTGCTCCACTGCAACTTC-AGAAGATAAGAT-CTGCCATAATTTGTAGCT
* * * * * *
2188795 TTAATCTGTTCCACTACAACGTCAGGGAAATAAGATTCGCTGACTTCAATCTGTTCCGCTGCAAC
64 TTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCCACTGCAAC
2188860 TTCAGGGAGATAAG
129 TTCA-GGAGATAAG
* * * * **
2188874 GCTAGTGGCTTCAATCTACTCCACTGGAACTTCAGAAGGATAAGATCCGCCATAATCAGTAGCTT
1 GCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGAA-GATAAGATCTGCCATAATTTGTAGCTT
* * * **
2188939 TAATCTGTTCTACTGCAATGCCAGGGAAATAAGATTCACTGTCTTCAGTCTGCAACACTGCAACT
65 TAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCCACTGCAACT
2189004 TCATGGAGATAAG
130 TCA-GGAGATAAG
*
2189017 GCTGGTGGCTTCAATCTGCTCTACTGCAACTTCAGAAAGATAAGATCTGCCATAATTT
1 GCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAG-AAGATAAGATCTGCCATAATTT
2189075 CTTCAATCAA
Statistics
Matches: 296, Mismatches: 42, Indels: 12
0.85 0.12 0.03
Matches are distributed among these distances:
142 5 0.02
143 285 0.96
144 6 0.02
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.29
Consensus pattern (141 bp):
GCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGAAGATAAGATCTGCCATAATTTGTAGCTTT
AATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCCACTGCAACTT
CAGGAGATAAG
Found at i:2189924 original size:17 final size:17
Alignment explanation
Indices: 2189902--2189966 Score: 67
Period size: 17 Copynumber: 3.7 Consensus size: 17
2189892 TGGCCTCTCC
*
2189902 TTTTTCTTTTTCTTTCA
1 TTTTTCTTTTTTTTTCA
*
2189919 TTTTTCTCCTTTTTTTTCT
1 TTTTTCT--TTTTTTTTCA
* **
2189938 TTTTTGTTTTTTTTTTG
1 TTTTTCTTTTTTTTTCA
2189955 TTTTTCTTTTTT
1 TTTTTCTTTTTT
2189967 ATTTTTTTAA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
17 26 0.65
19 14 0.35
ACGTcount: A:0.02, C:0.12, G:0.03, T:0.83
Consensus pattern (17 bp):
TTTTTCTTTTTTTTTCA
Found at i:2189948 original size:26 final size:26
Alignment explanation
Indices: 2189897--2189973 Score: 74
Period size: 24 Copynumber: 3.0 Consensus size: 26
2189887 CACCTTGGCC
*
2189897 TCTCCTTTTTCTTT-TTCTTTCA-TTTT
1 TCTCCTTTTT-TTTCTT-TTTTATTTTT
*
2189923 TCTCCTTTTTTTTCTTTTTTGTTTTT
1 TCTCCTTTTTTTTCTTTTTTATTTTT
2189949 T-T--TTTGTTTTTCTTTTTTATTTTT
1 TCTCCTTT-TTTTTCTTTTTTATTTTT
2189973 T
1 T
2189974 TAAAAGTGGA
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
23 3 0.07
24 18 0.40
25 7 0.16
26 17 0.38
ACGTcount: A:0.03, C:0.14, G:0.03, T:0.81
Consensus pattern (26 bp):
TCTCCTTTTTTTTCTTTTTTATTTTT
Found at i:2189949 original size:18 final size:18
Alignment explanation
Indices: 2189908--2189972 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 18
2189898 CTCCTTTTTC
* *
2189908 TTTTTCTTTCATTTTTCTC
1 TTTTTTTTTC-TTTTTCTT
*
2189927 CTTTTTTTTCTTTTT-TGT
1 TTTTTTTTTCTTTTTCT-T
*
2189945 TTTTTTTTTGTTTTTCTT
1 TTTTTTTTTCTTTTTCTT
2189963 TTTTATTTTT
1 TTTT-TTTTT
2189973 TTAAAAGTGG
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
17 1 0.03
18 23 0.61
19 14 0.37
ACGTcount: A:0.03, C:0.11, G:0.03, T:0.83
Consensus pattern (18 bp):
TTTTTTTTTCTTTTTCTT
Found at i:2192683 original size:23 final size:22
Alignment explanation
Indices: 2192644--2192688 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
2192634 ATTTAGTGCA
2192644 TATGATGCAATGCAATGTTAATG
1 TATGATGCAATGCAATG-TAATG
2192667 TATGAATGCAATG-AATGTAATG
1 TATG-ATGCAATGCAATGTAATG
2192689 AATGCAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 5 0.24
23 8 0.38
24 8 0.38
ACGTcount: A:0.38, C:0.07, G:0.22, T:0.33
Consensus pattern (22 bp):
TATGATGCAATGCAATGTAATG
Found at i:2192691 original size:18 final size:18
Alignment explanation
Indices: 2192652--2192695 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
2192642 CATATGATGC
2192652 AATGCAATGTTAATGTATG
1 AATGCAATG-TAATGTATG
2192671 AATGCAATG-AATGTAATG
1 AATGCAATGTAATGT-ATG
2192689 AATGCAA
1 AATGCAA
2192696 AAAAGAAGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.21
18 10 0.42
19 9 0.38
ACGTcount: A:0.43, C:0.07, G:0.20, T:0.30
Consensus pattern (18 bp):
AATGCAATGTAATGTATG
Found at i:2197510 original size:60 final size:61
Alignment explanation
Indices: 2197409--2197550 Score: 144
Period size: 60 Copynumber: 2.3 Consensus size: 61
2197399 CCTTTTCTTT
* * * * * ** *
2197409 TTGAAATTTTTAGAATTAGAGCTAAATTGTCATATTATGTAAATGTTGAGAGCTAAATTTA
1 TTGAATTTTTTAGAATTAGAACTAAAATGACAAATTATGTAAACATTAAGAGCTAAATTTA
* * * *
2197470 TTG-ATTTTTTAGAATTCA-AACTAAAATGACAAATTTTGTAAACATTAAGGGTTAAATTTG
1 TTGAATTTTTTAGAATT-AGAACTAAAATGACAAATTATGTAAACATTAAGAGCTAAATTTA
*
2197530 TTGAATTTTTTAGATTTAGAA
1 TTGAATTTTTTAGAATTAGAA
2197551 TCAAACCGAT
Statistics
Matches: 65, Mismatches: 13, Indels: 6
0.77 0.15 0.07
Matches are distributed among these distances:
60 47 0.72
61 18 0.28
ACGTcount: A:0.38, C:0.05, G:0.15, T:0.42
Consensus pattern (61 bp):
TTGAATTTTTTAGAATTAGAACTAAAATGACAAATTATGTAAACATTAAGAGCTAAATTTA
Found at i:2208285 original size:60 final size:61
Alignment explanation
Indices: 2208200--2208341 Score: 146
Period size: 60 Copynumber: 2.3 Consensus size: 61
2208190 CCTTTCCTTT
* * * * **
2208200 TTGAAATTTTTAGAATTAGAGCTAAA-TTATCATATTATGTAAATGTTGAGAGCTAAATTTA
1 TTGAATTTTTTAGAATTAGAACTAAAGTGA-CAAATTATGTAAACATTGAGAGCTAAATTTA
* * * *
2208261 TTG-ATTTTTTAGAATTCA-AACTAAAGTGACAAATTTTGTAAACATTGAGGGTTAAATTTG
1 TTGAATTTTTTAGAATT-AGAACTAAAGTGACAAATTATGTAAACATTGAGAGCTAAATTTA
*
2208321 TTGAATTTTTTAGATTTAGAA
1 TTGAATTTTTTAGAATTAGAA
2208342 TCAAAACGAT
Statistics
Matches: 66, Mismatches: 11, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
60 46 0.70
61 20 0.30
ACGTcount: A:0.37, C:0.05, G:0.15, T:0.42
Consensus pattern (61 bp):
TTGAATTTTTTAGAATTAGAACTAAAGTGACAAATTATGTAAACATTGAGAGCTAAATTTA
Found at i:2211221 original size:6 final size:6
Alignment explanation
Indices: 2211210--2211239 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
2211200 AAGGTTGTCA
2211210 AATTTT AATTTT AATTTT AATTTT AATTTT
1 AATTTT AATTTT AATTTT AATTTT AATTTT
2211240 TTAAGAGATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
AATTTT
Found at i:2215914 original size:23 final size:22
Alignment explanation
Indices: 2215864--2215915 Score: 104
Period size: 22 Copynumber: 2.4 Consensus size: 22
2215854 TTTACCATGT
2215864 AATTTTTTAAGGGACTAAATAG
1 AATTTTTTAAGGGACTAAATAG
2215886 AATTTTTTAAGGGACTAAATAG
1 AATTTTTTAAGGGACTAAATAG
2215908 AATTTTTT
1 AATTTTTT
2215916 TCATTTTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.38, C:0.04, G:0.15, T:0.42
Consensus pattern (22 bp):
AATTTTTTAAGGGACTAAATAG
Found at i:2223836 original size:20 final size:20
Alignment explanation
Indices: 2223811--2223850 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
2223801 GAATGAACTT
*
2223811 ATTATTTTGCTTTTTAACCA
1 ATTATTTTGCTTTTGAACCA
*
2223831 ATTATTTTGGTTTTGAACCA
1 ATTATTTTGCTTTTGAACCA
2223851 TCCCTATCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.25, C:0.12, G:0.10, T:0.53
Consensus pattern (20 bp):
ATTATTTTGCTTTTGAACCA
Found at i:2224661 original size:43 final size:43
Alignment explanation
Indices: 2224600--2224686 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
2224590 TCCCTCAAGG
2224600 TGTTCCACCAGAGTGTAAACGCCCAAGGTTCTAAAATCAAACC
1 TGTTCCACCAGAGTGTAAACGCCCAAGGTTCTAAAATCAAACC
*
2224643 TGTTCCACCAGAGTGTAAACGCCCAGGGTTCTAAAATCAAACC
1 TGTTCCACCAGAGTGTAAACGCCCAAGGTTCTAAAATCAAACC
2224686 T
1 T
2224687 CTCCTCTTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.22
Consensus pattern (43 bp):
TGTTCCACCAGAGTGTAAACGCCCAAGGTTCTAAAATCAAACC
Found at i:2226549 original size:26 final size:27
Alignment explanation
Indices: 2226500--2226550 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
2226490 AATAACTAAA
* *
2226500 TAAATAATTAAAAATTCATAAAATTTT
1 TAAAGAATAAAAAATTCATAAAATTTT
*
2226527 TAAAGAATAAAAAATT-ATTAAATT
1 TAAAGAATAAAAAATTCATAAAATT
2226551 GGTTCAACTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 7 0.33
27 14 0.67
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (27 bp):
TAAAGAATAAAAAATTCATAAAATTTT
Found at i:2228895 original size:3 final size:3
Alignment explanation
Indices: 2228887--2228923 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
2228877 ATTTTTGCAA
2228887 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
2228924 TGCCAACATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.35, G:0.00, T:0.32
Consensus pattern (3 bp):
CAT
Found at i:2233373 original size:49 final size:46
Alignment explanation
Indices: 2233301--2233409 Score: 137
Period size: 49 Copynumber: 2.3 Consensus size: 46
2233291 CCGAATAAAT
** * **
2233301 AAAGGCAAAACTACGTCATTTTGATAAATGTTTACCTTTTCTAAAGTTA
1 AAAGGCAAAACTATATCATTTTGATAAATATTTA-CTAAT-T-AAGTTA
*
2233350 AAAGGCAAAACTATATCGTTTTGATAAATATTTACTAATTAAGTTA
1 AAAGGCAAAACTATATCATTTTGATAAATATTTACTAATTAAGTTA
2233396 AAAGGCAAAACTAT
1 AAAGGCAAAACTAT
2233410 TATATTTGTT
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
46 20 0.37
47 1 0.02
48 3 0.06
49 30 0.56
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.34
Consensus pattern (46 bp):
AAAGGCAAAACTATATCATTTTGATAAATATTTACTAATTAAGTTA
Found at i:2237620 original size:2 final size:2
Alignment explanation
Indices: 2237613--2237651 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
2237603 TAAATTTCAT
2237613 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2237652 TATCATGTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2240727 original size:24 final size:23
Alignment explanation
Indices: 2240684--2240729 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
2240674 AGTGTTGTTA
*
2240684 ATATATTTTGAAAACAAATTTAG
1 ATATATTCTGAAAACAAATTTAG
2240707 ATATATTACTGAAAATC-AATTTA
1 ATATATT-CTGAAAA-CAAATTTA
2240730 TTTTCCATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 7 0.35
24 12 0.60
25 1 0.05
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.39
Consensus pattern (23 bp):
ATATATTCTGAAAACAAATTTAG
Found at i:2242632 original size:20 final size:21
Alignment explanation
Indices: 2242594--2242634 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
2242584 TATTATATAA
*
2242594 ATATTTTTTATTTAACACATTC
1 ATATTTTATATTT-ACACATTC
2242616 ATATTTTATATTT-CACATT
1 ATATTTTATATTTACACATT
2242635 TCGACTGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
22 12 0.67
ACGTcount: A:0.32, C:0.12, G:0.00, T:0.56
Consensus pattern (21 bp):
ATATTTTATATTTACACATTC
Found at i:2246052 original size:31 final size:31
Alignment explanation
Indices: 2246014--2246072 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
2246004 GTCACTGAAC
*
2246014 TATTCGAAAGTTT-TCATTTAAGTAACTAAAT
1 TATTCGAAA-TTTATAATTTAAGTAACTAAAT
*
2246045 TATTCGAAATTTATAATTTAAGTCACTA
1 TATTCGAAATTTATAATTTAAGTAACTA
2246073 GGCCGTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 3 0.12
31 22 0.88
ACGTcount: A:0.39, C:0.10, G:0.08, T:0.42
Consensus pattern (31 bp):
TATTCGAAATTTATAATTTAAGTAACTAAAT
Found at i:2247727 original size:24 final size:23
Alignment explanation
Indices: 2247684--2247729 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
2247674 AGTGTTGTTA
*
2247684 ATATATTTTGAAAACAAATTTAG
1 ATATATTCTGAAAACAAATTTAG
2247707 ATATATTACTGAAAATC-AATTTA
1 ATATATT-CTGAAAA-CAAATTTA
2247730 TTTTCCATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 7 0.35
24 12 0.60
25 1 0.05
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.39
Consensus pattern (23 bp):
ATATATTCTGAAAACAAATTTAG
Found at i:2250554 original size:46 final size:46
Alignment explanation
Indices: 2250449--2250606 Score: 277
Period size: 46 Copynumber: 3.5 Consensus size: 46
2250439 CTTACGTATG
2250449 ACCACTTATCA-TTTGTC-CTTGATCAGATAAGTGTAGCT-AGGCT
1 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCT
2250492 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCT
1 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCT
* *
2250538 ACCACTTATCACTTTGTCACTTGATCATATAAGTGTAGCTAAAGCT
1 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCT
2250584 ACCACTTATCACTTTGTCACTTG
1 ACCACTTATCACTTTGTCACTTG
2250607 TCACTGATCA
Statistics
Matches: 110, Mismatches: 2, Indels: 3
0.96 0.02 0.03
Matches are distributed among these distances:
43 11 0.10
44 6 0.05
45 21 0.19
46 72 0.65
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (46 bp):
ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCT
Found at i:2253214 original size:17 final size:17
Alignment explanation
Indices: 2253172--2253214 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
2253162 ATAGTTTATA
2253172 TATATTTTATATACATT
1 TATATTTTATATACATT
* * *
2253189 CATATTTTTTATGATATT
1 TATATTTTATAT-ACATT
2253207 TATATTTT
1 TATATTTT
2253215 CATGTTTTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (17 bp):
TATATTTTATATACATT
Found at i:2255857 original size:64 final size:61
Alignment explanation
Indices: 2255748--2255869 Score: 145
Period size: 64 Copynumber: 2.0 Consensus size: 61
2255738 TAGTATTTGT
*
2255748 ATTTTGAAAATATCTAATGTGACACCTGAACTACTAATATATTTTTTTATTATGGTACCTGCA
1 ATTTTGAAAATATCTAATGTGACACCTGAACTACTAATACA--TTTTTATTATGGTACCTGCA
* * ** * * *
2255811 ATTTTGTAAAATATTTAATGTGATATTTGAACTATTAATGCGTTTTTATTATGGTACCT
1 ATTTTG-AAAATATCTAATGTGACACCTGAACTACTAATACATTTTTATTATGGTACCT
2255870 AGTGTTAATA
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
62 17 0.34
63 6 0.12
64 27 0.54
ACGTcount: A:0.32, C:0.11, G:0.12, T:0.45
Consensus pattern (61 bp):
ATTTTGAAAATATCTAATGTGACACCTGAACTACTAATACATTTTTATTATGGTACCTGCA
Found at i:2256357 original size:24 final size:24
Alignment explanation
Indices: 2256330--2256381 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
2256320 TTCGTAGGTA
** *
2256330 AAATAAATTATGCTAATAAATGCT
1 AAATAAATTACACTAATAAATACT
* *
2256354 AAATATATTACACTAATAAGTACT
1 AAATAAATTACACTAATAAATACT
2256378 AAAT
1 AAAT
2256382 CTTCTAAAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.52, C:0.10, G:0.06, T:0.33
Consensus pattern (24 bp):
AAATAAATTACACTAATAAATACT
Found at i:2259701 original size:21 final size:21
Alignment explanation
Indices: 2259672--2259720 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
2259662 AGTTTTGAAT
2259672 TAATATTTTGCATGAATATTG
1 TAATATTTTGCATGAATATTG
* *
2259693 TAATTTTTTGTATGAATATTG
1 TAATATTTTGCATGAATATTG
2259714 TAATATT
1 TAATATT
2259721 ATAATTTTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.33, C:0.02, G:0.12, T:0.53
Consensus pattern (21 bp):
TAATATTTTGCATGAATATTG
Found at i:2259703 original size:48 final size:48
Alignment explanation
Indices: 2259672--2259817 Score: 140
Period size: 47 Copynumber: 3.0 Consensus size: 48
2259662 AGTTTTGAAT
2259672 TAAT-ATTTTGCATGAATATTGTAATTTTTTGTATGAATATTGTAATA
1 TAATAATTTTGCATGAATATTGTAATTTTTTGTATGAATATTGTAATA
* * *
2259719 TTATAATTTTGTATGAATATTGTAATATTGTAATTTGTATGAATATTGTAATG
1 TAATAATTTTGCATGAATATTGT-A-ATT-T--TTTGTATGAATATTGTAATA
* *
2259772 TCGGGAT-ATATTG--T-AATATTGTAATTTTTTGTATGAATATTGTAAT
1 T---AATAATTTTGCATGAATATTGTAATTTTTTGTATGAATATTGTAAT
2259818 TATTTTATAA
Statistics
Matches: 85, Mismatches: 5, Indels: 18
0.79 0.05 0.17
Matches are distributed among these distances:
47 22 0.26
48 17 0.20
49 2 0.02
50 6 0.07
51 2 0.02
52 8 0.09
53 21 0.25
55 5 0.06
56 2 0.02
ACGTcount: A:0.33, C:0.01, G:0.15, T:0.51
Consensus pattern (48 bp):
TAATAATTTTGCATGAATATTGTAATTTTTTGTATGAATATTGTAATA
Found at i:2259720 original size:8 final size:8
Alignment explanation
Indices: 2259707--2259796 Score: 56
Period size: 8 Copynumber: 10.4 Consensus size: 8
2259697 TTTTTGTATG
2259707 AATATTGT
1 AATATTGT
*
2259715 AATATTAT
1 AATATTGT
*
2259723 AATTTTGTAT
1 AATATTG--T
2259733 GAATATTGT
1 -AATATTGT
2259742 AATATTGT
1 AATATTGT
2259750 AAT-TTGTAT
1 AATATTG--T
2259759 GAATATTGT
1 -AATATTGT
* * *
2259768 AATGTCGGG
1 AATAT-TGT
2259777 ATATATTGT
1 A-ATATTGT
2259786 AATATTGT
1 AATATTGT
2259794 AAT
1 AAT
2259797 TTTTTGTATG
Statistics
Matches: 63, Mismatches: 10, Indels: 18
0.69 0.11 0.20
Matches are distributed among these distances:
7 3 0.05
8 37 0.59
9 7 0.11
10 7 0.11
11 9 0.14
ACGTcount: A:0.36, C:0.01, G:0.16, T:0.48
Consensus pattern (8 bp):
AATATTGT
Found at i:2259723 original size:61 final size:60
Alignment explanation
Indices: 2259615--2259770 Score: 152
Period size: 61 Copynumber: 2.7 Consensus size: 60
2259605 GAATATTGTA
* * * * *
2259615 ATTTTGCATGAATATTATAATTATTTTATAATTAA-ATTTGT-ATTTATAGTTTTGAATTAAT
1 ATTTTGCATGAATATTGTAATT-TTTTGT-ATGAATA-TTGTAATTTATAATTTTGAATGAAT
*
2259676 ATTTTGCATGAATATTGTAATTTTTTGTATGAATATTGTAATATTATAATTTTGTATGAAT
1 ATTTTGCATGAATATTGTAATTTTTTGTATGAATATTGTAAT-TTATAATTTTGAATGAAT
2259737 A--TTG--T-AATATTGTAA---TTTGTATGAATATTGTAAT
1 ATTTTGCATGAATATTGTAATTTTTTGTATGAATATTGTAAT
2259771 GTCGGGATAT
Statistics
Matches: 86, Mismatches: 6, Indels: 14
0.81 0.06 0.13
Matches are distributed among these distances:
53 19 0.22
56 10 0.12
57 1 0.01
59 11 0.13
60 8 0.09
61 37 0.43
ACGTcount: A:0.35, C:0.01, G:0.12, T:0.53
Consensus pattern (60 bp):
ATTTTGCATGAATATTGTAATTTTTTGTATGAATATTGTAATTTATAATTTTGAATGAAT
Found at i:2259762 original size:26 final size:27
Alignment explanation
Indices: 2259698--2259770 Score: 130
Period size: 27 Copynumber: 2.7 Consensus size: 27
2259688 TATTGTAATT
2259698 TTTTGTATGAATATTGTAATATTATAA
1 TTTTGTATGAATATTGTAATATTATAA
*
2259725 TTTTGTATGAATATTGTAATATTGTAA
1 TTTTGTATGAATATTGTAATATTATAA
2259752 -TTTGTATGAATATTGTAAT
1 TTTTGTATGAATATTGTAAT
2259771 GTCGGGATAT
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
26 19 0.42
27 26 0.58
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.52
Consensus pattern (27 bp):
TTTTGTATGAATATTGTAATATTATAA
Found at i:2259853 original size:33 final size:32
Alignment explanation
Indices: 2259816--2259912 Score: 82
Period size: 33 Copynumber: 3.1 Consensus size: 32
2259806 GAATATTGTA
2259816 ATTATTTTATAATTAATTTGTTAGTAATTTAGG
1 ATTATTTTATAATTAATTT-TTAGTAATTTAGG
* *
2259849 ATTATGTTAT-A--AATTTTT-GT-ATTT-GTA
1 ATTATTTTATAATTAATTTTTAGTAATTTAG-G
*
2259876 ATTA-TTTAAAATTTAATTTATTAGTAATTTAGG
1 ATTATTTTATAA-TTAATTT-TTAGTAATTTAGG
2259909 ATTA
1 ATTA
2259913 AGCTATAAGT
Statistics
Matches: 50, Mismatches: 5, Indels: 18
0.68 0.07 0.25
Matches are distributed among these distances:
26 4 0.08
27 9 0.18
28 2 0.04
29 2 0.04
30 10 0.20
31 2 0.04
32 3 0.06
33 17 0.34
34 1 0.02
ACGTcount: A:0.35, C:0.00, G:0.10, T:0.55
Consensus pattern (32 bp):
ATTATTTTATAATTAATTTTTAGTAATTTAGG
Found at i:2262089 original size:27 final size:27
Alignment explanation
Indices: 2262050--2262148 Score: 139
Period size: 27 Copynumber: 3.7 Consensus size: 27
2262040 TTGGCGCCTA
*
2262050 TCTGGGAGGCGCCAATGGTGGTG-C-T
1 TCTGAGAGGCGCCAATGGTGGTGCCAT
*
2262075 TACCTGGGAGGCGCCAATGGTGGTGCCAT
1 T--CTGAGAGGCGCCAATGGTGGTGCCAT
*
2262104 TCTGAGAGGCGCCAATGGTGGTGTCAT
1 TCTGAGAGGCGCCAATGGTGGTGCCAT
2262131 TCTGAGAGGCGCCAATGG
1 TCTGAGAGGCGCCAATGG
2262149 GCCGGGCCGG
Statistics
Matches: 68, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
25 1 0.01
27 64 0.94
28 1 0.01
29 2 0.03
ACGTcount: A:0.17, C:0.21, G:0.39, T:0.22
Consensus pattern (27 bp):
TCTGAGAGGCGCCAATGGTGGTGCCAT
Found at i:2264607 original size:11 final size:11
Alignment explanation
Indices: 2264588--2264623 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
2264578 CGTATTTTTT
2264588 TTAAAAAAATTA
1 TTAAAAAAA-TA
2264600 TTAAAAAAATA
1 TTAAAAAAATA
*
2264611 TAAAAAAAATA
1 TTAAAAAAATA
2264622 TT
1 TT
2264624 TTTATTCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 13 0.59
12 9 0.41
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (11 bp):
TTAAAAAAATA
Found at i:2267719 original size:13 final size:13
Alignment explanation
Indices: 2267679--2267726 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 13
2267669 TCGAAAGCAT
* *
2267679 TTTTTAAAAGTAC
1 TTTTCAAAAATAC
* * *
2267692 TTTTCCACAACAC
1 TTTTCAAAAATAC
2267705 TTTTCAAAAATAC
1 TTTTCAAAAATAC
2267718 TTTTCAAAA
1 TTTTCAAAA
2267727 GCAATGAAGA
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.40, C:0.19, G:0.02, T:0.40
Consensus pattern (13 bp):
TTTTCAAAAATAC
Found at i:2268152 original size:31 final size:31
Alignment explanation
Indices: 2268117--2268277 Score: 164
Period size: 31 Copynumber: 5.3 Consensus size: 31
2268107 TTCATTTGAA
* * *
2268117 TTGATTTGTTTATGGTTATATATTGCCGAAT
1 TTGATTTGTATATGGATATACATTGCCGAAT
*
2268148 TTGATTTGTATATGGATATACATTGCTGAA-
1 TTGATTTGTATATGGATATACATTGCCGAAT
* * * * * *
2268178 TTAATTTATATATTGTTATACATTACCAAAT
1 TTGATTTGTATATGGATATACATTGCCGAAT
* * *
2268209 TTGATTTGTATATAGATATACATTGACAAAT
1 TTGATTTGTATATGGATATACATTGCCGAAT
* * *
2268240 TTGATTCGTATATGGATATATATCGCCGAA-
1 TTGATTTGTATATGGATATACATTGCCGAAT
2268270 TTGATTTG
1 TTGATTTG
2268278 AGCTTTGGAT
Statistics
Matches: 105, Mismatches: 24, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
30 30 0.29
31 75 0.71
ACGTcount: A:0.31, C:0.08, G:0.16, T:0.45
Consensus pattern (31 bp):
TTGATTTGTATATGGATATACATTGCCGAAT
Found at i:2268274 original size:61 final size:61
Alignment explanation
Indices: 2268115--2268277 Score: 186
Period size: 61 Copynumber: 2.7 Consensus size: 61
2268105 TCTTCATTTG
* * *
2268115 AATTGATTTGTTTATGGTTATATATTGCCGAATTTGATTTGTATATGGATATACATTGCTG
1 AATTGATTTGTATATGGTTATATATTGCCGAATTTGATTTGTATATAGATATACATTGCTA
* * * * * *
2268176 AATTAATTTATATATTGTTATACATTACCAAATTTGATTTGTATATAGATATACATTGAC-A
1 AATTGATTTGTATATGGTTATATATTGCCGAATTTGATTTGTATATAGATATACATTG-CTA
* * *
2268237 AATTTGATTCGTATATGGATATATATCGCCGAA-TTGATTTG
1 AA-TTGATTTGTATATGGTTATATATTGCCGAATTTGATTTG
2268278 AGCTTTGGAT
Statistics
Matches: 82, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
61 60 0.73
62 22 0.27
ACGTcount: A:0.32, C:0.08, G:0.15, T:0.45
Consensus pattern (61 bp):
AATTGATTTGTATATGGTTATATATTGCCGAATTTGATTTGTATATAGATATACATTGCTA
Found at i:2286187 original size:3 final size:3
Alignment explanation
Indices: 2286179--2286204 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
2286169 TTAACTGTTG
2286179 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
2286205 TCAAATTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:2287568 original size:2 final size:2
Alignment explanation
Indices: 2287561--2287591 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2287551 GCCTCTTATC
2287561 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2287592 ATTTTTTGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2287944 original size:10 final size:10
Alignment explanation
Indices: 2287922--2287953 Score: 50
Period size: 9 Copynumber: 3.4 Consensus size: 10
2287912 TTACTAATTT
2287922 AAAATTT-TA
1 AAAATTTCTA
2287931 AAAATTTCTA
1 AAAATTTCTA
2287941 AAAA-TTCTA
1 AAAATTTCTA
2287950 AAAA
1 AAAA
2287954 ATAAATGATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 16 0.73
10 6 0.27
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.34
Consensus pattern (10 bp):
AAAATTTCTA
Found at i:2297400 original size:23 final size:24
Alignment explanation
Indices: 2297346--2297400 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 24
2297336 AATCTATATT
2297346 TTTAAATTTTAAAAAAATAAAAAA
1 TTTAAATTTTAAAAAAATAAAAAA
* * *
2297370 -TCATATTTT-TAAAAATAAAAAA
1 TTTAAATTTTAAAAAAATAAAAAA
2297392 TTTAAATTT
1 TTTAAATTT
2297401 AAACTTAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
22 12 0.48
23 13 0.52
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (24 bp):
TTTAAATTTTAAAAAAATAAAAAA
Found at i:2302120 original size:123 final size:124
Alignment explanation
Indices: 2301900--2302173 Score: 496
Period size: 123 Copynumber: 2.2 Consensus size: 124
2301890 GCTATAATTT
*
2301900 TATTCCTACTTCATTTGCTAATTTGAGCAATTTGGTCCGCAGGGACAACAGGCTTTTTGGTTCCA
1 TATTCCTACTTCATTTGCTAATTTGAGCAATTTGGTCCGCAGGGACAACAGGCTTTTTGGTCCCA
*
2301965 TTCCTGAAGAAGTAGGAAGCTTGAAATTATTGATTTTTCTAGAGCTGACTCAATGGTTG
66 TTCCTGAAGAAGTAAGAAGCTTGAAATTATTGATTTTTCTAGAGCTGACTCAATGGTTG
*
2302024 TATTCCTACTTCATTTGCTAATTTGAGCAATTTGGTCCTCA-GGACAACAGGCTTTTTGGTCCCA
1 TATTCCTACTTCATTTGCTAATTTGAGCAATTTGGTCCGCAGGGACAACAGGCTTTTTGGTCCCA
* *
2302088 TTCCTGAAGAATTAAGAAGCTTGAAATTATTGATTTTTCTAGAGTTGACTCAATGGTTG
66 TTCCTGAAGAAGTAAGAAGCTTGAAATTATTGATTTTTCTAGAGCTGACTCAATGGTTG
2302147 TATTCCTACTTCATTTGCTAATTTGAG
1 TATTCCTACTTCATTTGCTAATTTGAG
2302174 TCCCGTCCCA
Statistics
Matches: 145, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
123 105 0.72
124 40 0.28
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.38
Consensus pattern (124 bp):
TATTCCTACTTCATTTGCTAATTTGAGCAATTTGGTCCGCAGGGACAACAGGCTTTTTGGTCCCA
TTCCTGAAGAAGTAAGAAGCTTGAAATTATTGATTTTTCTAGAGCTGACTCAATGGTTG
Found at i:2303531 original size:2 final size:2
Alignment explanation
Indices: 2303524--2303548 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2303514 TTTATCTATT
2303524 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
2303549 GTATGTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2311386 original size:17 final size:16
Alignment explanation
Indices: 2311364--2311418 Score: 58
Period size: 16 Copynumber: 3.2 Consensus size: 16
2311354 CTAAATCTTA
2311364 AAAATATTTAATAATAT
1 AAAATA-TTAATAATAT
2311381 AAAATATTAA-AATATT
1 AAAATATTAATAATA-T
*
2311397 AAAATTAAATAATAATAT
1 AAAA-T-ATTAATAATAT
2311415 AAAA
1 AAAA
2311419 ATGAAAATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
15 4 0.12
16 9 0.27
17 7 0.21
18 9 0.27
19 4 0.12
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
AAAATATTAATAATAT
Found at i:2311393 original size:8 final size:8
Alignment explanation
Indices: 2311364--2311401 Score: 51
Period size: 8 Copynumber: 4.6 Consensus size: 8
2311354 CTAAATCTTA
2311364 AAAATATTT
1 AAAATA-TT
2311373 AATAATA-T
1 AA-AATATT
2311381 AAAATATT
1 AAAATATT
2311389 AAAATATT
1 AAAATATT
2311397 AAAAT
1 AAAAT
2311402 TAAATAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
7 4 0.15
8 17 0.63
9 2 0.07
10 4 0.15
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (8 bp):
AAAATATT
Found at i:2311400 original size:34 final size:33
Alignment explanation
Indices: 2311356--2311426 Score: 88
Period size: 34 Copynumber: 2.1 Consensus size: 33
2311346 TATATGAACT
* ** *
2311356 AAATCTTAAAAATATTTAATAATATAAAATATTA
1 AAATATTAAAAATAAATAATAATATAAAA-ATGA
*
2311390 AAATATTAAAATTAAATAATAATATAAAAATGA
1 AAATATTAAAAATAAATAATAATATAAAAATGA
2311423 AAAT
1 AAAT
2311427 TTTTCTTCAA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
33 7 0.22
34 25 0.78
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.34
Consensus pattern (33 bp):
AAATATTAAAAATAAATAATAATATAAAAATGA
Found at i:2311940 original size:16 final size:15
Alignment explanation
Indices: 2311891--2311937 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 15
2311881 TAAACATTTT
*
2311891 TAAAAAATATAAAACA
1 TAAAAAATATTAAA-A
2311907 TAAAAAATATTAAAA
1 TAAAAAATATTAAAA
2311922 TAAAATAATAATTAAA
1 TAAAA-AAT-ATTAAA
2311938 TAATGATATA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
15 6 0.21
16 16 0.57
17 6 0.21
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAAAAATATTAAAA
Found at i:2317938 original size:28 final size:28
Alignment explanation
Indices: 2317898--2317964 Score: 125
Period size: 28 Copynumber: 2.4 Consensus size: 28
2317888 GCCTATTTCC
*
2317898 AACATTATTTACGGAATGGGCCACTTAA
1 AACATTATTTACGGAATAGGCCACTTAA
2317926 AACATTATTTACGGAATAGGCCACTTAA
1 AACATTATTTACGGAATAGGCCACTTAA
2317954 AACATTATTTA
1 AACATTATTTA
2317965 TAGAAATAGA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.31
Consensus pattern (28 bp):
AACATTATTTACGGAATAGGCCACTTAA
Found at i:2317999 original size:28 final size:29
Alignment explanation
Indices: 2317898--2317999 Score: 104
Period size: 28 Copynumber: 3.6 Consensus size: 29
2317888 GCCTATTTCC
* * *
2317898 AACATTATTTAC-GGAATGGGCCACTTAA
1 AACATTATTTACTGAAATAGACCACTTAA
* *
2317926 AACATTATTTAC-GGAATAGGCCACTTAA
1 AACATTATTTACTGAAATAGACCACTTAA
*
2317954 AACATTATTTA-TAGAAATAGATCACTTAA
1 AACATTATTTACT-GAAATAGACCACTTAA
*
2317983 AA-AATATTTACTGAAAT
1 AACATTATTTACTGAAAT
2318000 GGTCCAAAAA
Statistics
Matches: 66, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
28 50 0.76
29 16 0.24
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.31
Consensus pattern (29 bp):
AACATTATTTACTGAAATAGACCACTTAA
Found at i:2319226 original size:95 final size:95
Alignment explanation
Indices: 2319106--2319289 Score: 323
Period size: 95 Copynumber: 1.9 Consensus size: 95
2319096 AATAATTCAT
*
2319106 CCATTAAGACTAATAGCTTCATCATCACCCTCTGCTGTGATATGACTCTGGCTTGAATTTAAAGA
1 CCATTAAGACTAATAGCTTCATCATCACCCTCTGCTGTGATATGACTCTGGCTTGAATATAAAGA
2319171 AGCAAATATGAAGAACTCATCATGGTCGAG
66 AGCAAATATGAAGAACTCATCATGGTCGAG
* * *
2319201 CCATTAAGACTGATAGCTTCATCATCATCCTTTGCTGTGATATGACTCTGGCTTGAATATAAAGA
1 CCATTAAGACTAATAGCTTCATCATCACCCTCTGCTGTGATATGACTCTGGCTTGAATATAAAGA
*
2319266 AGCAAATATGAAGTACTCATCATG
66 AGCAAATATGAAGAACTCATCATG
2319290 CGAGAGAAAA
Statistics
Matches: 84, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
95 84 1.00
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (95 bp):
CCATTAAGACTAATAGCTTCATCATCACCCTCTGCTGTGATATGACTCTGGCTTGAATATAAAGA
AGCAAATATGAAGAACTCATCATGGTCGAG
Found at i:2320494 original size:19 final size:19
Alignment explanation
Indices: 2320457--2320494 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
2320447 CTACCTTTCT
*
2320457 TCTTTCTCTTCTCATCCTC
1 TCTTTCTCATCTCATCCTC
2320476 TCTTTCTCAATCTCA-CCTC
1 TCTTTCTC-ATCTCATCCTC
2320495 CCCAAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.11, C:0.42, G:0.00, T:0.47
Consensus pattern (19 bp):
TCTTTCTCATCTCATCCTC
Found at i:2321001 original size:154 final size:155
Alignment explanation
Indices: 2320749--2321033 Score: 545
Period size: 154 Copynumber: 1.8 Consensus size: 155
2320739 AATATTATAA
2320749 AACATAAAAATATTAAAATTAAATAATAATATAGAAATGGAATTTTTTTTCTCCAAATTTCTCAT
1 AACATAAAAATATTAAAATTAAATAATAATATAGAAATGGAATTTTTTTTCTCCAAATTTCTCAT
*
2320814 CCAAATATAGTCTAAGAAAGCTTGAAAGCTGAAATTTAAAAATATTTCTATCAAAAGTGAACAAT
66 CCAAATACAGTCTAAGAAAGCTTGAAAGCTGAAATTTAAAAATATTTCTATCAAAAGTGAACAAT
2320879 TATATATTGTATCATCAAAATTTTC
131 TATATATTGTATCATCAAAATTTTC
*
2320904 AACATGAAAATATTAAAATTAAATAATAATATAGAAATGGAA-TTTTTTTCTCCAAATTTCTCAT
1 AACATAAAAATATTAAAATTAAATAATAATATAGAAATGGAATTTTTTTTCTCCAAATTTCTCAT
2320968 CCAAATACAGTCTAAGAAAGCTTGAAAGCTGAAATTTAAAAATATTTCTATCAAAAGTGAACAAT
66 CCAAATACAGTCTAAGAAAGCTTGAAAGCTGAAATTTAAAAATATTTCTATCAAAAGTGAACAAT
2321033 T
131 T
2321034 TCTCATCAAA
Statistics
Matches: 128, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
154 87 0.68
155 41 0.32
ACGTcount: A:0.46, C:0.11, G:0.08, T:0.34
Consensus pattern (155 bp):
AACATAAAAATATTAAAATTAAATAATAATATAGAAATGGAATTTTTTTTCTCCAAATTTCTCAT
CCAAATACAGTCTAAGAAAGCTTGAAAGCTGAAATTTAAAAATATTTCTATCAAAAGTGAACAAT
TATATATTGTATCATCAAAATTTTC
Found at i:2326671 original size:44 final size:44
Alignment explanation
Indices: 2326608--2326695 Score: 158
Period size: 44 Copynumber: 2.0 Consensus size: 44
2326598 AAAAAAAAAT
*
2326608 CAATTCTCTTATTGTAAAACATTTATAAGAATTTATTCAAGGGA
1 CAATTCTCTTATTGTAAAACATTTAAAAGAATTTATTCAAGGGA
*
2326652 CAATTCTCTTATTGTAAAACATTTAAAAGAATTTATTTAAGGGA
1 CAATTCTCTTATTGTAAAACATTTAAAAGAATTTATTCAAGGGA
2326696 AAGGATGGTA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.40, C:0.10, G:0.11, T:0.39
Consensus pattern (44 bp):
CAATTCTCTTATTGTAAAACATTTAAAAGAATTTATTCAAGGGA
Found at i:2340427 original size:45 final size:43
Alignment explanation
Indices: 2340376--2340518 Score: 186
Period size: 45 Copynumber: 3.3 Consensus size: 43
2340366 CAGTAATCAA
* **
2340376 TAACAGTAACAGTAACAGTATTCAACACACAAAGTGTTGAACCTG
1 TAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAA-C-G
*
2340421 TAACAGTAACGGTAACAGTATTCGACACACAAAGTGCCG-A-G
1 TAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAACG
2340462 T--CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCAG
1 TAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAA-C-G
2340505 TAACAGTAACAGTA
1 TAACAGTAACAGTA
2340519 GTCGGCACAT
Statistics
Matches: 87, Mismatches: 5, Indels: 12
0.84 0.05 0.12
Matches are distributed among these distances:
39 35 0.40
40 1 0.01
41 2 0.02
43 2 0.02
44 1 0.01
45 46 0.53
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.20
Consensus pattern (43 bp):
TAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAACG
Found at i:2340467 original size:39 final size:39
Alignment explanation
Indices: 2340379--2340545 Score: 185
Period size: 39 Copynumber: 4.2 Consensus size: 39
2340369 TAATCAATAA
* **
2340379 CAGTAACAGTAACAGTATTCAACACACAAAGTGTTGAACCTGT
1 CAGTAACAGTAACAGTATTCGACACACAAAGTGCCG-A---GT
*
2340422 AACAGTAACGGTAACAGTATTCGACACACAAAGTGCCGAGT
1 --CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAGT
*
2340463 CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT
1 CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAGT
* * *
2340502 CAGTAACAGTAACAGTAGTCGGCACA-TAAGTGCCTGA-T
1 CAGTAACAGTAACAGTATTCGACACACAAAGTGCC-GAGT
2340540 CAGTAA
1 CAGTAA
2340546 GCCGGCAAAT
Statistics
Matches: 112, Mismatches: 9, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
38 14 0.12
39 63 0.56
41 2 0.02
44 1 0.01
45 32 0.29
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.20
Consensus pattern (39 bp):
CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAGT
Found at i:2340806 original size:39 final size:40
Alignment explanation
Indices: 2340722--2340806 Score: 102
Period size: 39 Copynumber: 2.1 Consensus size: 40
2340712 TTCTTTACTT
* * * *
2340722 CAGTAATTTCACAATTCAATGCATTATACATAACAATATT
1 CAGTATTTTCACAATTCAATGCATAATACAAAACAATATC
*
2340762 CAGTATTTTCACAATTC-ATTCAGTAAT-CAAAACAATATC
1 CAGTATTTTCACAATTCAATGCA-TAATACAAAACAATATC
2340801 CAGTAT
1 CAGTAT
2340807 CCCATAATTC
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
39 20 0.51
40 19 0.49
ACGTcount: A:0.41, C:0.19, G:0.06, T:0.34
Consensus pattern (40 bp):
CAGTATTTTCACAATTCAATGCATAATACAAAACAATATC
Found at i:2341544 original size:11 final size:11
Alignment explanation
Indices: 2341528--2341553 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
2341518 CTTTTTCTTC
2341528 TTTCTCCCCTG
1 TTTCTCCCCTG
2341539 TTTCTCCCCTG
1 TTTCTCCCCTG
2341550 TTTC
1 TTTC
2341554 GTCTCTTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.42, G:0.08, T:0.50
Consensus pattern (11 bp):
TTTCTCCCCTG
Found at i:2354983 original size:25 final size:27
Alignment explanation
Indices: 2354955--2355009 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
2354945 TTTATGTTTT
*
2354955 ATATTT-AA-TAATATAAAACA-AAAAA
1 ATATTTCAATTAA-ATAAAAAATAAAAA
2354980 ATATTTCAATTAAATAAAAAATAAAAA
1 ATATTTCAATTAAATAAAAAATAAAAA
2355007 ATA
1 ATA
2355010 ATGTAAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
25 6 0.23
26 9 0.35
27 11 0.42
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (27 bp):
ATATTTCAATTAAATAAAAAATAAAAA
Found at i:2355373 original size:19 final size:19
Alignment explanation
Indices: 2355348--2355407 Score: 72
Period size: 19 Copynumber: 3.3 Consensus size: 19
2355338 AAATTATACT
*
2355348 ATTTTTTTAT-ATTTTTTA
1 ATTTTTTTATAATTTATTA
2355366 ATTTTTTTATAATTTATTA
1 ATTTTTTTATAATTTATTA
* *
2355385 CTTTTTTAATAA-TT-TTA
1 ATTTTTTTATAATTTATTA
2355402 ATTTTT
1 ATTTTT
2355408 AAAAATAGAT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
17 8 0.22
18 12 0.32
19 17 0.46
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.72
Consensus pattern (19 bp):
ATTTTTTTATAATTTATTA
Found at i:2357885 original size:29 final size:30
Alignment explanation
Indices: 2357826--2357885 Score: 70
Period size: 30 Copynumber: 2.0 Consensus size: 30
2357816 CATATTTCAG
* * *
2357826 GAGCCACATAGGTTGGACACATGACCGTGT
1 GAGCCACACAGGCTGGACACATGACCATGT
2357856 GAGCCACACAGGCTGGCACACA-G-CCATGT
1 GAGCCACACAGGCTGG-ACACATGACCATGT
2357885 G
1 G
2357886 CCAGACCGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
29 6 0.23
30 15 0.58
31 5 0.19
ACGTcount: A:0.27, C:0.28, G:0.30, T:0.15
Consensus pattern (30 bp):
GAGCCACACAGGCTGGACACATGACCATGT
Found at i:2358146 original size:18 final size:18
Alignment explanation
Indices: 2358123--2358158 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
2358113 GTTTCTTTAT
2358123 CTAATCTTATAGTTATAC
1 CTAATCTTATAGTTATAC
2358141 CTAATCTTATAGTTATAC
1 CTAATCTTATAGTTATAC
2358159 TGACTTTGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.17, G:0.06, T:0.44
Consensus pattern (18 bp):
CTAATCTTATAGTTATAC
Found at i:2372618 original size:2 final size:2
Alignment explanation
Indices: 2372607--2372642 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
2372597 AATTGACAAG
2372607 AT AT -T AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2372643 TTAATGGGTC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 30 0.94
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2373339 original size:27 final size:26
Alignment explanation
Indices: 2373288--2373339 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
2373278 ATATAAATGA
* * *
2373288 ATTTTTATAATTATTTTTTATTTTTT
1 ATTTTTAAAATTATTTTGTAATTTTT
2373314 ATTTTTGAAAATTATTTTGTAATTTT
1 ATTTTT-AAAATTATTTTGTAATTTT
2373340 CGCTGAGAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 6 0.27
27 16 0.73
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (26 bp):
ATTTTTAAAATTATTTTGTAATTTTT
Found at i:2374184 original size:26 final size:26
Alignment explanation
Indices: 2374138--2374187 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
2374128 TTAATTATAA
*
2374138 TAATTAAAAATATATTATATAAAAAC
1 TAATTAAAAATATAATATATAAAAAC
*
2374164 TAATTAAAAAT-TAAATGTATAAAA
1 TAATTAAAAATAT-AATATATAAAA
2374188 TCACATTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 1 0.05
26 20 0.95
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (26 bp):
TAATTAAAAATATAATATATAAAAAC
Found at i:2379591 original size:18 final size:17
Alignment explanation
Indices: 2379561--2379605 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
2379551 ATAAATGAAT
2379561 TTTTATAAATATTTTTAA
1 TTTTA-AAATATTTTTAA
*
2379579 TTTTAAAATTATTTTTAT
1 TTTTAAAA-TATTTTTAA
2379597 TTTTGAAAA
1 TTTT-AAAA
2379606 CTACTATGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 3 0.12
18 17 0.71
19 4 0.17
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (17 bp):
TTTTAAAATATTTTTAA
Found at i:2389266 original size:22 final size:23
Alignment explanation
Indices: 2389239--2389281 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
2389229 TATGGGTTGA
2389239 TTTATTAATAGTT-TTATTAAGT
1 TTTATTAATAGTTATTATTAAGT
*
2389261 TTTATTAATATTTATTATTAA
1 TTTATTAATAGTTATTATTAA
2389282 AAATCTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (23 bp):
TTTATTAATAGTTATTATTAAGT
Found at i:2389982 original size:13 final size:13
Alignment explanation
Indices: 2389964--2389996 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
2389954 ACGAGATGAC
2389964 AATAAAATAA-AAA
1 AATAAAA-AATAAA
2389977 AATAAAAAATAAA
1 AATAAAAAATAAA
2389990 AATAAAA
1 AATAAAA
2389997 CAACAATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 2 0.11
13 17 0.89
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
AATAAAAAATAAA
Found at i:2390086 original size:16 final size:16
Alignment explanation
Indices: 2390067--2390105 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
2390057 TTAATAATTT
2390067 ATTTATATAAATTAAA
1 ATTTATATAAATTAAA
*
2390083 ATTTA-AAAAATTAAA
1 ATTTATATAAATTAAA
2390098 ATTT-TATA
1 ATTTATATA
2390106 TTAATATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
15 15 0.75
16 5 0.25
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
ATTTATATAAATTAAA
Found at i:2391126 original size:3 final size:3
Alignment explanation
Indices: 2391113--2391142 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
2391103 GGTAATGATT
2391113 TTC TCTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC T-TC TTC TTC TTC TTC TTC TTC TTC TT
2391143 TTTGTTTTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:2396680 original size:4 final size:4
Alignment explanation
Indices: 2396671--2396700 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
2396661 GCTCAAAGTA
2396671 ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
2396701 TTTGAATGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (4 bp):
ATAC
Found at i:2400008 original size:28 final size:28
Alignment explanation
Indices: 2399937--2400011 Score: 80
Period size: 28 Copynumber: 2.7 Consensus size: 28
2399927 AATTTATAAA
* *
2399937 ATGAATGTTT-AGATTTTAATAATTTTT
1 ATGAATGTTTAAAATTTTTATAATTTTT
** ** *
2399964 ATTTATGTTTATTATTTTTTTAATTTTT
1 ATGAATGTTTAAAATTTTTATAATTTTT
2399992 ATGAATGTTTAAAATTTTTA
1 ATGAATGTTTAAAATTTTTA
2400012 ATGAGTTCTC
Statistics
Matches: 36, Mismatches: 11, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
27 8 0.22
28 28 0.78
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.61
Consensus pattern (28 bp):
ATGAATGTTTAAAATTTTTATAATTTTT
Found at i:2400201 original size:14 final size:13
Alignment explanation
Indices: 2400168--2400207 Score: 64
Period size: 13 Copynumber: 3.1 Consensus size: 13
2400158 TGATTTTAAA
2400168 TTTT-AAAATAAT
1 TTTTAAAAATAAT
2400180 TTTTAAAAATAAT
1 TTTTAAAAATAAT
2400193 TTTTAAAAAATAAT
1 TTTT-AAAAATAAT
2400207 T
1 T
2400208 AAATACTAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 4 0.15
13 12 0.46
14 10 0.38
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
TTTTAAAAATAAT
Found at i:2401156 original size:3 final size:3
Alignment explanation
Indices: 2401150--2401201 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
2401140 TATTGGGTGG
2401150 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
2401198 ATT A
1 ATT A
2401202 GATACTACAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:2401716 original size:21 final size:21
Alignment explanation
Indices: 2401687--2401758 Score: 105
Period size: 21 Copynumber: 3.6 Consensus size: 21
2401677 TTGATATGTT
*
2401687 AAAAGAAATGGAGAAGGTAGG
1 AAAATAAATGGAGAAGGTAGG
2401708 AAAATAAATGGAGAAGGTAGG
1 AAAATAAATGGAGAAGGTAGG
*
2401729 AAAATAAAAGGAGAA-GTA-G
1 AAAATAAATGGAGAAGGTAGG
2401748 AAAAT-AATGGA
1 AAAATAAATGGA
2401759 AAATAAAAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.10
19 6 0.12
20 3 0.06
21 34 0.71
ACGTcount: A:0.57, C:0.00, G:0.31, T:0.12
Consensus pattern (21 bp):
AAAATAAATGGAGAAGGTAGG
Found at i:2402571 original size:29 final size:30
Alignment explanation
Indices: 2402530--2402601 Score: 101
Period size: 29 Copynumber: 2.4 Consensus size: 30
2402520 TAAACCTCTT
2402530 CACTTTCCTCCCAAAACTTTTACTC-CCTCC
1 CACTTTCC-CCCAAAACTTTTACTCTCCTCC
*
2402560 CACTTTCCCCCATAACTTTTACTCTCCTCC
1 CACTTTCCCCCAAAACTTTTACTCTCCTCC
*
2402590 CATCTTACCCCC
1 CA-CTTTCCCCC
2402602 TTCTACCCCA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
29 15 0.39
30 15 0.39
31 8 0.21
ACGTcount: A:0.18, C:0.49, G:0.00, T:0.33
Consensus pattern (30 bp):
CACTTTCCCCCAAAACTTTTACTCTCCTCC
Found at i:2406097 original size:53 final size:53
Alignment explanation
Indices: 2406035--2406141 Score: 214
Period size: 53 Copynumber: 2.0 Consensus size: 53
2406025 GTCCTTAATG
2406035 AAGAGTATCTATTCTTCTTTATCTTTGATGCAGGGGCTGTTGAAAGAAGAATT
1 AAGAGTATCTATTCTTCTTTATCTTTGATGCAGGGGCTGTTGAAAGAAGAATT
2406088 AAGAGTATCTATTCTTCTTTATCTTTGATGCAGGGGCTGTTGAAAGAAGAATT
1 AAGAGTATCTATTCTTCTTTATCTTTGATGCAGGGGCTGTTGAAAGAAGAATT
2406141 A
1 A
2406142 TACTTGTTTA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.29, C:0.11, G:0.22, T:0.37
Consensus pattern (53 bp):
AAGAGTATCTATTCTTCTTTATCTTTGATGCAGGGGCTGTTGAAAGAAGAATT
Found at i:2412504 original size:2 final size:2
Alignment explanation
Indices: 2412448--2412485 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
2412438 TGTGTATCAG
2412448 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2412486 AGCAATGTGC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2418359 original size:30 final size:30
Alignment explanation
Indices: 2418323--2418384 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
2418313 GAATTAGTCT
2418323 AATTATATATTT-TTATCATTTAAGTTATAA
1 AATTATATATTTATTATCATTTAA-TTATAA
* *
2418353 AATTATATTTTTATTATTATTTAATTATAA
1 AATTATATATTTATTATCATTTAATTATAA
2418383 AA
1 AA
2418385 ATTTATAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 19 0.66
31 10 0.34
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (30 bp):
AATTATATATTTATTATCATTTAATTATAA
Found at i:2434162 original size:12 final size:12
Alignment explanation
Indices: 2434145--2434169 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2434135 CGAACTAGAG
2434145 TACCCTTATGTT
1 TACCCTTATGTT
2434157 TACCCTTATGTT
1 TACCCTTATGTT
2434169 T
1 T
2434170 TACTTGAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.08, T:0.52
Consensus pattern (12 bp):
TACCCTTATGTT
Found at i:2440872 original size:14 final size:14
Alignment explanation
Indices: 2440853--2440879 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2440843 GAATAGTGTT
2440853 TATTTATTTATTTA
1 TATTTATTTATTTA
2440867 TATTTATTTATTT
1 TATTTATTTATTT
2440880 TAAATTCACA
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:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TATTTATTTATTTA
Found at i:2440978 original size:33 final size:34
Alignment explanation
Indices: 2440915--2440978 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 34
2440905 GAATATTCTA
* **
2440915 TATTTATGTATTTAAAATTATATGTGTTTGTATT
1 TATTTATGTATTTAAAATTAAATGAATTTGTATT
*
2440949 TATTTATTTATTT-AAATTAAATGAATTTGT
1 TATTTATGTATTTAAAATTAAATGAATTTGT
2440979 TTATAAACTC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
33 14 0.54
34 12 0.46
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.58
Consensus pattern (34 bp):
TATTTATGTATTTAAAATTAAATGAATTTGTATT
Found at i:2441072 original size:21 final size:20
Alignment explanation
Indices: 2441046--2441105 Score: 68
Period size: 22 Copynumber: 2.9 Consensus size: 20
2441036 AGTGATCTAT
2441046 TAAATGAGTCTTGAATAAATA
1 TAAATGAGT-TTGAATAAATA
* *
2441067 TAAATGAATTTGTTTATAAATA
1 TAAATGAGTTTG--AATAAATA
2441089 TAAATG-GTTTGAATAAA
1 TAAATGAGTTTGAATAAA
2441106 ATTTGTTAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
19 5 0.15
20 3 0.09
21 12 0.36
22 13 0.39
ACGTcount: A:0.47, C:0.02, G:0.13, T:0.38
Consensus pattern (20 bp):
TAAATGAGTTTGAATAAATA
Found at i:2443307 original size:15 final size:15
Alignment explanation
Indices: 2443289--2443318 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2443279 ACCTTACTTG
2443289 AAAAAAAAAAGTAAA
1 AAAAAAAAAAGTAAA
*
2443304 AAAAAAAAAATTAAA
1 AAAAAAAAAAGTAAA
2443319 GAGGTGAAGT
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:0.87, C:0.00, G:0.03, T:0.10
Consensus pattern (15 bp):
AAAAAAAAAAGTAAA
Found at i:2446465 original size:20 final size:20
Alignment explanation
Indices: 2446440--2446480 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
2446430 AATTTCGTTG
2446440 GGTTAAATTCGATTAATTGT
1 GGTTAAATTCGATTAATTGT
2446460 GGTTAAATTCGATTAATTGT
1 GGTTAAATTCGATTAATTGT
2446480 G
1 G
2446481 TTATACTATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.05, G:0.22, T:0.44
Consensus pattern (20 bp):
GGTTAAATTCGATTAATTGT
Found at i:2448461 original size:2 final size:2
Alignment explanation
Indices: 2448454--2448482 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2448444 AGAGAATTTC
2448454 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2448483 AATGAAACTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2453933 original size:4 final size:5
Alignment explanation
Indices: 2453911--2453958 Score: 53
Period size: 6 Copynumber: 9.0 Consensus size: 5
2453901 CTTTCCCCTA
2453911 ATTTCT ATTTT ATTTT A-TTT ATTTT ATTTT CATTTT CATTTT CATTTT
1 ATTT-T ATTTT ATTTT ATTTT ATTTT ATTTT -ATTTT -ATTTT -ATTTT
2453959 CCCCTTCTCT
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
4 4 0.10
5 15 0.38
6 21 0.52
ACGTcount: A:0.19, C:0.08, G:0.00, T:0.73
Consensus pattern (5 bp):
ATTTT
Found at i:2453935 original size:14 final size:15
Alignment explanation
Indices: 2453916--2453959 Score: 54
Period size: 14 Copynumber: 2.8 Consensus size: 15
2453906 CCCTAATTTC
2453916 TATTTTATTTT-ATT
1 TATTTTATTTTCATT
2453930 TATTTTATTTTCATTT
1 TATTTTATTTTCA-TT
2453946 TCATTTTCATTTTC
1 T-ATTTT-ATTTTC
2453960 CCCTTCTCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
14 11 0.42
15 1 0.04
16 3 0.12
17 5 0.19
18 6 0.23
ACGTcount: A:0.18, C:0.09, G:0.00, T:0.73
Consensus pattern (15 bp):
TATTTTATTTTCATT
Found at i:2464181 original size:12 final size:13
Alignment explanation
Indices: 2464164--2464192 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
2464154 ACAGATAATA
2464164 TTATTTTTAT-TT
1 TTATTTTTATGTT
2464176 TTATTTTTATGTT
1 TTATTTTTATGTT
2464189 TTAT
1 TTAT
2464193 CCTAACTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.79
Consensus pattern (13 bp):
TTATTTTTATGTT
Found at i:2465135 original size:17 final size:17
Alignment explanation
Indices: 2465103--2465151 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
2465093 TATAATACAT
2465103 ATTTTATATTT-A-TTAA
1 ATTTTA-ATTTAATTTAA
*
2465119 TATTTT-ATTTAGTTTAA
1 -ATTTTAATTTAATTTAA
2465136 ATTTTAATTTAATTTA
1 ATTTTAATTTAATTTA
2465152 GTTGATATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
15 4 0.15
16 5 0.19
17 18 0.67
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (17 bp):
ATTTTAATTTAATTTAA
Found at i:2465161 original size:22 final size:22
Alignment explanation
Indices: 2465120--2465161 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
2465110 ATTTATTAAT
* *
2465120 ATTTTATTTAGTTTAAATTTTA
1 ATTTAATTTAGTTGAAATTTTA
*
2465142 ATTTAATTTAGTTGATATTT
1 ATTTAATTTAGTTGAAATTT
2465162 ATAAATAGTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (22 bp):
ATTTAATTTAGTTGAAATTTTA
Found at i:2472942 original size:16 final size:16
Alignment explanation
Indices: 2472921--2472989 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
2472911 TTTGGTTCGC
2472921 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
2472937 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
2472953 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
2472970 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
2472986 TGTA
1 TGTA
2472990 ATAGCTAATC
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:2472967 original size:33 final size:32
Alignment explanation
Indices: 2472921--2472989 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
2472911 TTTGGTTCGC
2472921 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
2472953 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGTGTATTGGATTAGAGG
2472986 TGTA
1 TGTA
2472990 ATAGCTAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 6 0.17
33 30 0.83
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGGTGTATTGGATTAGAGG
Found at i:2473054 original size:44 final size:45
Alignment explanation
Indices: 2472970--2473060 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
2472960 GGATTAGAGG
* * *
2472970 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
2473015 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
2473059 TG
1 TG
2473061 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:2473242 original size:16 final size:16
Alignment explanation
Indices: 2473205--2473259 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
2473195 TTAATCATAT
*
2473205 TTAAACATA-ATTATAA
1 TTAAA-ATATATTTTAA
2473221 TT-AAATATATTTTAA
1 TTAAAATATATTTTAA
2473236 TTAAAATATATAATTTAA
1 TTAAAATATAT--TTTAA
2473254 -TAAAAT
1 TTAAAAT
2473260 TCTTATAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 3 0.09
15 10 0.29
16 10 0.29
17 6 0.18
18 5 0.15
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
TTAAAATATATTTTAA
Found at i:2473252 original size:18 final size:18
Alignment explanation
Indices: 2473211--2473259 Score: 61
Period size: 16 Copynumber: 2.9 Consensus size: 18
2473201 ATATTTAAAC
2473211 ATAATTATAATT-AAATAT
1 ATAATT-TAATTAAAATAT
2473229 AT--TTTAATTAAAATAT
1 ATAATTTAATTAAAATAT
2473245 ATAATTTAA-TAAAAT
1 ATAATTTAATTAAAAT
2473260 TCTTATAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 5 0.18
16 10 0.36
17 6 0.21
18 7 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATAATTTAATTAAAATAT
Found at i:2473378 original size:67 final size:67
Alignment explanation
Indices: 2473307--2473519 Score: 163
Period size: 67 Copynumber: 3.1 Consensus size: 67
2473297 ATTGTTAATG
*
2473307 TTATTTAAATTTTAATAAGATTATTATTATCAGTAATAAATATCTTAATCATATTTAAACATAAT
1 TTATTTAAATTTTAATAAGATTATTATTATCAATAATAAATATCTTAATCATATTTAAACATAAT
2473372 TA
66 TA
* * * * ***
2473374 TTATTAAATATATTTTAATTAAAATATATAATT-T-AAT-A-AAAT-TCTT-ATAATTAGCAGAA
1 TTATT---TAAATTTTAA-TAAGAT-TATTATTATCAATAATAAATATCTTAATCA-TA-TTTAA
** * *
2473433 ATTTGTTATTG
59 A--CATAATTA
*
2473444 TTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAAT-TTAATCATATTTAAACATAA
1 TTATTTAAATTTTAATAAGATTATTATTATCAATAATAAAT-ATCTTAATCATATTTAAACATAA
2473508 TTA
65 TTA
2473511 TTA-TTAAAT
1 TTATTTAAAT
2473520 ACATTATAAT
Statistics
Matches: 106, Mismatches: 24, Indels: 33
0.65 0.15 0.20
Matches are distributed among these distances:
65 5 0.05
66 15 0.14
67 30 0.28
68 8 0.08
69 8 0.08
70 24 0.23
71 10 0.09
72 6 0.06
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.46
Consensus pattern (67 bp):
TTATTTAAATTTTAATAAGATTATTATTATCAATAATAAATATCTTAATCATATTTAAACATAAT
TA
Found at i:2473396 original size:156 final size:156
Alignment explanation
Indices: 2473112--2473439 Score: 611
Period size: 156 Copynumber: 2.1 Consensus size: 156
2473102 TAGAATACCC
* *
2473112 TTAGCATAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
*
2473177 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAA
66 TTATCAGTAATAAATATCTTAATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAA
2473242 TATATAATTTAATAAAATTCTTATAA
131 TATATAATTTAATAAAATTCTTATAA
2473268 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
*
2473333 TTATCAGTAATAAATATCTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 TTATCAGTAATAAATATCTTAATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAA
2473398 TATATAATTTAATAAAATTCTTATAA
131 TATATAATTTAATAAAATTCTTATAA
*
2473424 TTAGCAGAAATTTGTT
1 TTAGCAGAAAATTGTT
2473440 ATTGTTATTT
Statistics
Matches: 167, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
156 167 1.00
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.47
Consensus pattern (156 bp):
TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
TTATCAGTAATAAATATCTTAATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAA
TATATAATTTAATAAAATTCTTATAA
Found at i:2473402 original size:18 final size:17
Alignment explanation
Indices: 2473381--2473415 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
2473371 TTATTATTAA
*
2473381 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
2473399 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
2473416 TCTTATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:2473406 original size:137 final size:137
Alignment explanation
Indices: 2473298--2473557 Score: 387
Period size: 137 Copynumber: 1.9 Consensus size: 137
2473288 TAAATGATTA
* *
2473298 TTGTTAATGTTATTTAAATTTTAATAAGATTATTATTATCAGTAATAAAT-ATCTTAATCATATT
1 TTGTTAATGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAAT-TTAATCATATT
* * * *
2473362 TAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTATAATTA
65 TAAACATAATTATTATTAAATACATTATAATTAAAATATATAATTTAAGAAAATTCTTATAAGTA
*
2473427 GCAGAAAT
130 GAAGAAAT
*
2473435 TTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTT
1 TTGTTAATGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTT
**** *
2473500 AAACATAATTATTATTAAATACATTATAATTTTGGTATATAATTTAATAAAATTCTTA
66 AAACATAATTATTATTAAATACATTATAATTAAAATATATAATTTAAGAAAATTCTTA
2473558 ATAATTCATA
Statistics
Matches: 113, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
137 111 0.98
138 2 0.02
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (137 bp):
TTGTTAATGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTT
AAACATAATTATTATTAAATACATTATAATTAAAATATATAATTTAAGAAAATTCTTATAAGTAG
AAGAAAT
Found at i:2473597 original size:137 final size:135
Alignment explanation
Indices: 2473319--2473597 Score: 332
Period size: 137 Copynumber: 2.0 Consensus size: 135
2473309 ATTTAAATTT
* *
2473319 TAATAAGATTATTATTATCAGTAATAAATATCTTAATCATATTTAAACATAATTATTATTAAATA
1 TAATAAGATTATTAATATCAATAATAAATATCTTAATCATATTTAAACATAATTATTATTAAATA
* * * *
2473384 TATTTTAATTAAAATATATAATTTAATAAAATTCTTATAATTAGCAGAAATTTGTTATTGTTATT
66 CATTATAATTAAAATATATAATTTAATAAAATTCTTATAATTA-CA-AAATTTCTTATTGTTACT
* **
2473449 TAAATTT
129 CAAATCA
2473456 TAATAAGATTATTAATATCAATAATAAATAAT-TTAATCATATTTAAACATAATTATTATTAAAT
1 TAATAAGATTATTAATATCAATAATAAAT-ATCTTAATCATATTTAAACATAATTATTATTAAAT
**** *
2473520 ACATTATAATTTTGGTATATAATTTAATAAAATTCTTAATAATT-C-ATA-TTCTTATATGAATT
65 ACATTATAATTAAAATATATAATTTAATAAAATTCTT-ATAATTACAAAATTTCTTAT-TG---T
2473582 TACTCAAATCA
125 TACTCAAATCA
2473593 TAATA
1 TAATA
2473598 TAATGAAAAT
Statistics
Matches: 122, Mismatches: 14, Indels: 12
0.82 0.09 0.08
Matches are distributed among these distances:
133 6 0.05
134 4 0.03
136 1 0.01
137 103 0.84
138 8 0.07
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.45
Consensus pattern (135 bp):
TAATAAGATTATTAATATCAATAATAAATATCTTAATCATATTTAAACATAATTATTATTAAATA
CATTATAATTAAAATATATAATTTAATAAAATTCTTATAATTACAAAATTTCTTATTGTTACTCA
AATCA
Found at i:2485426 original size:12 final size:12
Alignment explanation
Indices: 2485409--2485460 Score: 63
Period size: 12 Copynumber: 4.4 Consensus size: 12
2485399 GGAAATGACG
2485409 AAAAAAGGGAAA
1 AAAAAAGGGAAA
2485421 AAAAAAGGGAAA
1 AAAAAAGGGAAA
*
2485433 AAAAAGGAGGAAA
1 AAAAAAG-GGAAA
*
2485446 AAGAAA--GAAA
1 AAAAAAGGGAAA
2485456 AAAAA
1 AAAAA
2485461 TACAAGCAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
10 8 0.23
12 18 0.51
13 9 0.26
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (12 bp):
AAAAAAGGGAAA
Found at i:2487098 original size:45 final size:45
Alignment explanation
Indices: 2487048--2487144 Score: 149
Period size: 45 Copynumber: 2.2 Consensus size: 45
2487038 CTTCCTCTGT
* * *
2487048 GATGCTTGCCATCAAAAGATCTTGACCTTGACCTCTTTCTATCCC
1 GATGCTTGCCATCAAAAGATCTTGACCTCGACCGCCTTCTATCCC
**
2487093 GATGCTTGCCATCAGCAGATCTTGACCTCGACCGCCTTCTATCCC
1 GATGCTTGCCATCAAAAGATCTTGACCTCGACCGCCTTCTATCCC
2487138 GATGCTT
1 GATGCTT
2487145 AGATTTCTTA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.20, C:0.33, G:0.16, T:0.31
Consensus pattern (45 bp):
GATGCTTGCCATCAAAAGATCTTGACCTCGACCGCCTTCTATCCC
Found at i:2487903 original size:42 final size:42
Alignment explanation
Indices: 2487857--2487945 Score: 115
Period size: 42 Copynumber: 2.1 Consensus size: 42
2487847 ATAAGAGCGA
* * *
2487857 GACCTCCTCCTTCGCCTATAACTGATAGGTGATCTTGACTTT
1 GACCTCCACCTTCGCCTATAAATGATAGGTGATCTTGACTTG
** * *
2487899 GACCTTGACTTTCGCCTATAAATGATCGGTGATCTTGACTTG
1 GACCTCCACCTTCGCCTATAAATGATAGGTGATCTTGACTTG
2487941 GACCT
1 GACCT
2487946 TGATCTTCGC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.20, C:0.26, G:0.19, T:0.35
Consensus pattern (42 bp):
GACCTCCACCTTCGCCTATAAATGATAGGTGATCTTGACTTG
Found at i:2487946 original size:42 final size:42
Alignment explanation
Indices: 2487866--2488032 Score: 156
Period size: 42 Copynumber: 4.0 Consensus size: 42
2487856 AGACCTCCTC
*
2487866 CTTCGCCTATAACTGATAGGTGATCTTGACTTTGACCTTGA-
1 CTTCGCCTATAACTGATAGGTGATCTTGACTTGGACCTTGAT
* *
2487907 CTTTCGCCTATAAATGATCGGTGATCTTGACTTGGACCTTGAT
1 C-TTCGCCTATAACTGATAGGTGATCTTGACTTGGACCTTGAT
* * * * * * *
2487950 CTTCGCCGATAACTAATTGGTGATCTAGTCTTTGATCTTGAT
1 CTTCGCCTATAACTGATAGGTGATCTTGACTTGGACCTTGAT
* * * ** * * *
2487992 CTTCTCCGATAACTAAGGGGTGATTTTGATTTGGATCTTGA
1 CTTCGCCTATAACTGATAGGTGATCTTGACTTGGACCTTGA
2488033 CCTTGCACGA
Statistics
Matches: 105, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
41 1 0.01
42 103 0.98
43 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.21, T:0.38
Consensus pattern (42 bp):
CTTCGCCTATAACTGATAGGTGATCTTGACTTGGACCTTGAT
Found at i:2502836 original size:72 final size:72
Alignment explanation
Indices: 2502742--2502932 Score: 269
Period size: 72 Copynumber: 2.7 Consensus size: 72
2502732 TTTAGAAGAA
* * * * *
2502742 TTCGACGCATCTTCTAACAATTTGAGTGGCCCAATTCCAAATTGGTTATG-TAATATGAGTCAAC
1 TTCGATGCATCTTATAACAATTTGAGTGGCCCAATTCCAAATTGCTT-GGACAATATGAGTCAAC
2502806 TT-TACAGT
65 TTGT-CAGT
* *
2502814 TTCGATGCATCTTATAATAATTTGAGTGGCTCAATTCCAAATTGCTTGGACAATATGAGTCAACT
1 TTCGATGCATCTTATAACAATTTGAGTGGCCCAATTCCAAATTGCTTGGACAATATGAGTCAACT
2502879 TGTCAGT
66 TGTCAGT
* *
2502886 TTCGATGTATCTTATAACAATTTGAGTGGCCCAATTCCCAATTGCTT
1 TTCGATGCATCTTATAACAATTTGAGTGGCCCAATTCCAAATTGCTT
2502933 CGGCAAAATG
Statistics
Matches: 106, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
71 1 0.01
72 104 0.98
73 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Consensus pattern (72 bp):
TTCGATGCATCTTATAACAATTTGAGTGGCCCAATTCCAAATTGCTTGGACAATATGAGTCAACT
TGTCAGT
Found at i:2508874 original size:14 final size:11
Alignment explanation
Indices: 2508842--2508866 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
2508832 AAAATATTAA
2508842 AATTAAATAAT
1 AATTAAATAAT
2508853 AATTAAATAAT
1 AATTAAATAAT
2508864 AAT
1 AAT
2508867 ATAGAAATGA
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:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
AATTAAATAAT
Found at i:2518718 original size:12 final size:12
Alignment explanation
Indices: 2518688--2518720 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
2518678 ATGCAATAGG
2518688 AAACCAGCA-GC
1 AAACCAGCATGC
2518699 AAACCAGCATGC
1 AAACCAGCATGC
*
2518711 AGACCAGCAT
1 AAACCAGCAT
2518721 CCAAGCTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 9 0.45
12 11 0.55
ACGTcount: A:0.42, C:0.33, G:0.18, T:0.06
Consensus pattern (12 bp):
AAACCAGCATGC
Found at i:2519777 original size:21 final size:21
Alignment explanation
Indices: 2519753--2519803 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
2519743 CGCTGTTTCT
*
2519753 AATCTCACTGCTACAATATCC
1 AATCTCACTGCTACAATAACC
* * * *
2519774 AATCTTACCGCTACAGTAACT
1 AATCTCACTGCTACAATAACC
2519795 AATCTCACT
1 AATCTCACT
2519804 ACCACCGCTG
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.33, C:0.31, G:0.06, T:0.29
Consensus pattern (21 bp):
AATCTCACTGCTACAATAACC
Found at i:2520002 original size:2 final size:2
Alignment explanation
Indices: 2519995--2520025 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2519985 TTTATTTTGA
2519995 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2520026 AGAACAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2520968 original size:12 final size:11
Alignment explanation
Indices: 2520930--2520974 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 11
2520920 AAAAGATTAT
2520930 TTATTATTTATA
1 TTATTATTT-TA
*
2520942 TTATCATTTTCA
1 TTATTATTTT-A
2520954 TTATTATTATTA
1 TTATTATT-TTA
2520966 TTATTATTT
1 TTATTATTT
2520975 GTTTATGCAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
11 2 0.07
12 25 0.86
13 2 0.07
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:2527444 original size:18 final size:19
Alignment explanation
Indices: 2527407--2527445 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
2527397 GATCGAATAC
2527407 ATCGAAATAAAAAAATGAA
1 ATCGAAATAAAAAAATGAA
*
2527426 ATCGAAATACAAAAA-GAA
1 ATCGAAATAAAAAAATGAA
2527444 AT
1 AT
2527446 ATTAGAAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.67, C:0.08, G:0.10, T:0.15
Consensus pattern (19 bp):
ATCGAAATAAAAAAATGAA
Found at i:2527517 original size:11 final size:11
Alignment explanation
Indices: 2527501--2527525 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
2527491 CATTTTATTG
2527501 TTTATTATTAT
1 TTTATTATTAT
2527512 TTTATTATTAT
1 TTTATTATTAT
2527523 TTT
1 TTT
2527526 TCTCTTTTTG
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTATTATTAT
Found at i:2534655 original size:24 final size:24
Alignment explanation
Indices: 2534627--2534741 Score: 78
Period size: 24 Copynumber: 4.9 Consensus size: 24
2534617 GTATTGTATA
*
2534627 TTATTATTTTAGATTTATCATGTT
1 TTATTATTTTAAATTTATCATGTT
* * * *
2534651 TTATTGTTTGT-GATTTATCA-ATA
1 TTATTATTT-TAAATTTATCATGTT
*
2534674 TTATTATTTTATATTTAT--TGTT
1 TTATTATTTTAAATTTATCATGTT
**
2534696 AACATTATTTTAAATTTATCATG-T
1 -TTATTATTTTAAATTTATCATGTT
* *
2534720 ATATCTATTTCAAATTTATCAT
1 TTAT-TATTTTAAATTTATCAT
2534742 TAATATTTTT
Statistics
Matches: 72, Mismatches: 12, Indels: 14
0.73 0.12 0.14
Matches are distributed among these distances:
22 2 0.03
23 33 0.46
24 34 0.47
25 3 0.04
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.58
Consensus pattern (24 bp):
TTATTATTTTAAATTTATCATGTT
Found at i:2534747 original size:24 final size:22
Alignment explanation
Indices: 2534699--2534865 Score: 82
Period size: 24 Copynumber: 7.4 Consensus size: 22
2534689 TATTGTTAAC
2534699 ATTATTTTAAATTTATCATGTAT
1 ATTA-TTTAAATTTATCATGTAT
2534722 ATCTATTTCAAATTTATCAT-TAAT
1 AT-TATTT-AAATTTATCATGT-AT
2534746 ATT-TTTAAATTTAT--TGTATGCT
1 ATTATTTAAATTTATCATGTA---T
** *
2534768 ATTATTTTGGATTTATCACGTAT
1 ATTA-TTTAAATTTATCATGTAT
** *
2534791 GATTATTCTAGAA-TTATCATCAAA
1 -ATTATT-TA-AATTTATCATGTAT
2534815 ATT-TTTAAATTTTAT-ATGTATT
1 ATTATTTAAA-TTTATCATGTA-T
*
2534837 ATTATTTCAAATTTAT--TATAT
1 ATTATTT-AAATTTATCATGTAT
2534858 ATTATTTA
1 ATTATTTA
2534866 TTGTAAACTA
Statistics
Matches: 112, Mismatches: 13, Indels: 41
0.67 0.08 0.25
Matches are distributed among these distances:
19 2 0.02
20 4 0.04
21 21 0.19
22 19 0.17
23 21 0.19
24 41 0.37
25 1 0.01
26 3 0.03
ACGTcount: A:0.34, C:0.07, G:0.05, T:0.54
Consensus pattern (22 bp):
ATTATTTAAATTTATCATGTAT
Found at i:2534851 original size:69 final size:68
Alignment explanation
Indices: 2534680--2534852 Score: 176
Period size: 69 Copynumber: 2.5 Consensus size: 68
2534670 AATATTATTA
* * * *
2534680 TTTTATATTTATTGTTAAC-ATTATTTTAAATTTATCATGTATATCTATTTCAAATTTATCATTA
1 TTTTAAATTTATTG-TATCTATTATTTTAAATTTATCACGTATATCTATTTCAAATTTATCATCA
*
2534744 ATAT
65 AAAT
**
2534748 TTTTAAATTTATTGTATGCTATTATTTTGGATTTATCACGTATGAT-TA-TTCTAGAA-TTATCA
1 TTTTAAATTTATTGTAT-CTATTATTTTAAATTTATCACGTAT-ATCTATTTC-A-AATTTATCA
2534810 TCAAAAT
62 TCAAAAT
*
2534817 TTTTAAATTTTATATGTAT-TATTATTTCAAATTTAT
1 TTTTAAA-TTTAT-TGTATCTATTATTTTAAATTTAT
2534853 TATATATTAT
Statistics
Matches: 88, Mismatches: 10, Indels: 13
0.79 0.09 0.12
Matches are distributed among these distances:
67 2 0.02
68 17 0.19
69 55 0.62
70 9 0.10
71 5 0.06
ACGTcount: A:0.33, C:0.07, G:0.06, T:0.54
Consensus pattern (68 bp):
TTTTAAATTTATTGTATCTATTATTTTAAATTTATCACGTATATCTATTTCAAATTTATCATCAA
AAT
Found at i:2538193 original size:12 final size:12
Alignment explanation
Indices: 2538176--2538202 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
2538166 CCTGAGGAAG
2538176 CTGTTCTTAAGA
1 CTGTTCTTAAGA
2538188 CTGTTCTTAAGA
1 CTGTTCTTAAGA
2538200 CTG
1 CTG
2538203 AGGAAATTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (12 bp):
CTGTTCTTAAGA
Found at i:2542209 original size:44 final size:44
Alignment explanation
Indices: 2542014--2542210 Score: 128
Period size: 44 Copynumber: 4.5 Consensus size: 44
2542004 CATTGGAAAT
* * *
2542014 AGCAAATCTTGTCTCCCTAAACAGTAGTGGAGCAGATCGAGGAC
1 AGCAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAC
* * * * * *
2542058 AGCAAATCTTATATTCCTAAGATAGTAATGAAGCAGATTC-AAGCC
1 AGCAAATCTTATCTCCCTAAG-CAGTAGTGGAGCAGA-TCGAAGAC
*** * * * * * * *
2542103 A-CCGGTCCTATCTCCCTAAGCAGCAGTGGAGTAGGTTGAATAT
1 AGCAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAC
* * * * *
2542146 TGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAC
1 AGCAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAC
* *
2542190 GGCAAATCTTATCTTCCTAAG
1 AGCAAATCTTATCTCCCTAAG
2542211 ATAGTAGAGA
Statistics
Matches: 107, Mismatches: 42, Indels: 8
0.68 0.27 0.05
Matches are distributed among these distances:
42 1 0.01
43 11 0.10
44 77 0.72
45 16 0.15
46 2 0.02
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (44 bp):
AGCAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAC
Done.