Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 173 of 373
Found at i:57981896 original size:51 final size:51
Alignment explanation
Indices: 57981820--57981916 Score: 169
Period size: 51 Copynumber: 1.9 Consensus size: 51
57981810 CCTCTTTAAT
57981820 AACTGGGGCAAAGCCCTTTTCGGTAAACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCAAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
*
57981870 AACTGGGGCATAAGCCCTTTTTGGTAAACTGGGGCATAAGCCCTTTT
1 AACTGGGGCA-AAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTT
57981917 GCACTTCCTC
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
50 10 0.23
51 24 0.55
52 10 0.23
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.27
Consensus pattern (51 bp):
AACTGGGGCAAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
Found at i:57982811 original size:27 final size:27
Alignment explanation
Indices: 57982720--57982803 Score: 125
Period size: 27 Copynumber: 3.1 Consensus size: 27
57982710 GGGCATATTC
* *
57982720 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCCTACAGGGGCT-TTACG
*
57982747 GTCACTTTACCCTACAGGGGCTTTACA
1 GTCACTTTACCCTACAGGGGCTTTACG
57982774 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
57982801 GTC
1 GTC
57982804 TTTTTACCTA
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 51 0.98
28 1 0.02
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.31
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGCTTTACG
Found at i:57982904 original size:28 final size:28
Alignment explanation
Indices: 57982865--57982936 Score: 85
Period size: 28 Copynumber: 2.5 Consensus size: 28
57982855 GTAAATCTAC
57982865 AAACCAAGGGTATTT-CAGTAATTTTTGT
1 AAACCAAGGGTATTTCCA-TAATTTTTGT
*
57982893 AAACCAATGGTATTTCCATAATTTTTAG-
1 AAACCAAGGGTATTTCCATAATTTTT-GT
*
57982921 AAAGACAAGGGTATTT
1 AAA-CCAAGGGTATTT
57982937 TTGTAACTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
28 25 0.66
29 13 0.34
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.36
Consensus pattern (28 bp):
AAACCAAGGGTATTTCCATAATTTTTGT
Found at i:57983015 original size:54 final size:53
Alignment explanation
Indices: 57982956--57983202 Score: 271
Period size: 54 Copynumber: 4.6 Consensus size: 53
57982946 TGTAAATTAG
* * *
57982956 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCA
1 GGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAACCA
* **
57983009 GTGGTATTTTGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTACAAATTGA
1 G-GGTATTTTGGTAATTTTACAAATCGA-GGGTATTTTGGTAATTTTACAAA-CCA
* * * * * * *
57983064 GGGTATTTCGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTATAGACTA
1 GGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAACCA
** **
57983117 GGGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAACC-A
* **
57983171 GGGTATTTTAGTAATTTTGTAAATCGAGGGTA
1 GGGTATTTTGGTAATTTTACAAATCGAGGGTA
57983203 AAACAGTAAT
Statistics
Matches: 162, Mismatches: 27, Indels: 9
0.82 0.14 0.05
Matches are distributed among these distances:
53 46 0.28
54 112 0.69
55 4 0.02
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (53 bp):
GGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAACCA
Found at i:57983041 original size:81 final size:81
Alignment explanation
Indices: 57982926--57983193 Score: 378
Period size: 81 Copynumber: 3.3 Consensus size: 81
57982916 TTTAGAAAGA
* * * *
57982926 CAAGGGTATTTTTGTAACTTTGTAAATTAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTT
1 CAAGGGTATTTTAGTAATTTTATAAACTAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTT
*
57982991 CGGTAATTTCACAAAC
66 CGGTAATTTTACAAAC
* *
57983007 C-AGTGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATT
1 CAAG-GGTATTTTAGTAATTTTATAAACTAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATT
57983071 TCGGTAATTTTACAAAC
65 TCGGTAATTTTACAAAC
* ** *
57983088 CAAGGGTATTTTAGTAATTTTATAGACTA-GGGTATTTTGGTAATTTTACTGATCGAGGGTATTT
1 CAAGGGTATTTTAGTAATTTTATAAACTAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTT
* **
57983152 TGGTAATTTTGTAAAC
66 CGGTAATTTTACAAAC
*
57983168 CAAGGGTATTTTAGTAATTTTGTAAA
1 CAAGGGTATTTTAGTAATTTTATAAA
57983194 TCGAGGGTAA
Statistics
Matches: 168, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
80 71 0.42
81 95 0.57
82 2 0.01
ACGTcount: A:0.29, C:0.07, G:0.21, T:0.42
Consensus pattern (81 bp):
CAAGGGTATTTTAGTAATTTTATAAACTAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTT
CGGTAATTTTACAAAC
Found at i:57983189 original size:27 final size:27
Alignment explanation
Indices: 57982842--57983202 Score: 242
Period size: 27 Copynumber: 13.3 Consensus size: 27
57982832 TTTCATCCTA
* * * *
57982842 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
** *
57982869 CAAGGGTATTTCAGTAATTTTTGTAAAC
1 CAAGGGTATTTTGGTAA-TTTTATAAAC
* *** * *
57982897 CAATGGTATTTCCATAATTTTTAGAAAGA
1 CAAGGGTATTTTGGTAA-TTTTATAAA-C
* * * *
57982926 CAAGGGTATTTTTGTAACTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * * *
57982953 TAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
** * * *
57982980 TGAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
*
57983007 C-AGTGGTATTTTGGTAATTTTACAAAC
1 CAAG-GGTATTTTGGTAATTTTATAAAC
* * * *
57983034 TAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
** * *
57983061 TGAGGGTATTTCGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
57983088 CAAGGGTATTTTAGTAATTTTATAGA-
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * *
57983114 CTAGGGTATTTTGGTAATTTTACT-GAT
1 CAAGGGTATTTTGGTAATTTTA-TAAAC
* *
57983141 CGAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * *
57983168 CAAGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
*
57983195 CGAGGGTA
1 CAAGGGTA
57983203 AAACAGTAAT
Statistics
Matches: 269, Mismatches: 58, Indels: 14
0.79 0.17 0.04
Matches are distributed among these distances:
26 25 0.09
27 196 0.73
28 35 0.13
29 13 0.05
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTATAAAC
Found at i:57983210 original size:27 final size:27
Alignment explanation
Indices: 57983180--57983280 Score: 166
Period size: 27 Copynumber: 3.7 Consensus size: 27
57983170 AGGGTATTTT
*
57983180 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
57983207 AGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
57983234 AGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
57983261 GGTAATTCTGTAAGTCGAGG
1 AGTAATTCTGTAAATCGAGG
57983281 TGTGACAGCC
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 69 1.00
ACGTcount: A:0.39, C:0.10, G:0.24, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:57983212 original size:54 final size:54
Alignment explanation
Indices: 57983154--57983273 Score: 150
Period size: 54 Copynumber: 2.2 Consensus size: 54
57983144 GGGTATTTTG
* **** * *
57983154 GTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAACCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACA
* * *
57983208 GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAACCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACA
57983262 GTAATTCTGTAA
1 GTAATTCTGTAA
57983274 GTCGAGGTGT
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.38, C:0.09, G:0.21, T:0.32
Consensus pattern (54 bp):
GTAATTCTGTAAACCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACA
Found at i:57985922 original size:47 final size:47
Alignment explanation
Indices: 57985868--57986460 Score: 1033
Period size: 47 Copynumber: 12.6 Consensus size: 47
57985858 TATTTGAATA
57985868 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
57985915 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
57985962 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCAGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
57986011 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
57986058 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
57986105 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
57986152 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
57986199 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
57986246 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
57986293 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
57986340 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * *
57986387 AATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
57986434 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
57986461 TCCCGAAGGG
Statistics
Matches: 524, Mismatches: 20, Indels: 4
0.96 0.04 0.01
Matches are distributed among these distances:
47 480 0.92
49 44 0.08
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:57988694 original size:47 final size:47
Alignment explanation
Indices: 57988621--57988837 Score: 180
Period size: 47 Copynumber: 4.6 Consensus size: 47
57988611 AGTGAAGTAC
* *
57988621 CGATGCCATGTCCCAGACATAATCTTAGACTGGCTCAT-ATCTC-AAGG
1 CGATGCCATGTCCCAGACAT-GTCTTACACTGGCT-ATCATCTCGAAGG
* * * *
57988668 CGATGCCATATCCCAGACATGGTCTTACACTGACTATCATCTCGTAGT
1 CGATGCCATGTCCCAGACAT-GTCTTACACTGGCTATCATCTCGAAGG
* *
57988716 CGAT-TCATGTCCCAGACATGTCTTACACTGGCT-TACGTCTCG-AGG
1 CGATGCCATGTCCCAGACATGTCTTACACTGGCTAT-CATCTCGAAGG
* * * * * *
57988761 CCGGTG-CATGTCCCAGACATG-CATTACACTAGC-ACTCGTCTGGATGC
1 -CGATGCCATGTCCCAGACATGTC-TTACACTGGCTA-TCATCTCGAAGG
*
57988808 CAATGCCATGTCCCAGACATGTCTTACACT
1 CGATGCCATGTCCCAGACATGTCTTACACT
57988838 AGCCAAAAAT
Statistics
Matches: 140, Mismatches: 19, Indels: 22
0.77 0.10 0.12
Matches are distributed among these distances:
45 4 0.03
46 57 0.41
47 72 0.51
48 7 0.05
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGTCTTACACTGGCTATCATCTCGAAGG
Found at i:57988838 original size:47 final size:46
Alignment explanation
Indices: 57988678--57988841 Score: 147
Period size: 46 Copynumber: 3.5 Consensus size: 46
57988668 CGATGCCATA
* * * * *
57988678 TCCCAGACATGGTCTTACACT-GACTATCATCTCGTA-GTCGATTCATG
1 TCCCAGACAT-GTCTTACACTAGCCTA-CGTCTCG-AGGCCAATGCATG
* * **
57988725 TCCCAGACATGTCTTACACTGGCTTACGTCTCGAGGCCGGTGCATG
1 TCCCAGACATGTCTTACACTAGCCTACGTCTCGAGGCCAATGCATG
* *
57988771 TCCCAGACATG-CATTACACTAGCACT-CGTCTGGATGCCAATGCCATG
1 TCCCAGACATGTC-TTACACTAGC-CTACGTCTCGAGGCCAATG-CATG
57988818 TCCCAGACATGTCTTACACTAGCC
1 TCCCAGACATGTCTTACACTAGCC
57988842 AAAAATAACC
Statistics
Matches: 99, Mismatches: 12, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
45 2 0.02
46 57 0.58
47 39 0.39
48 1 0.01
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.27
Consensus pattern (46 bp):
TCCCAGACATGTCTTACACTAGCCTACGTCTCGAGGCCAATGCATG
Found at i:57993571 original size:42 final size:42
Alignment explanation
Indices: 57993507--57993614 Score: 121
Period size: 42 Copynumber: 2.5 Consensus size: 42
57993497 ACTTATGAAA
*
57993507 TACGTGTAAGACCACGTT-TGGGACATTGGCATCG-TACTTGAT
1 TACGTGTAAGACC-C-TTCTGGGACAGTGGCATCGATACTTGAT
* *
57993549 TTCGTGTAAGACCCTATCTGGGACAGTGGCATCGATATTTGAT
1 TACGTGTAAGACCCT-TCTGGGACAGTGGCATCGATACTTGAT
* *
57993592 TACATGTAAGACCATGTCTGGGA
1 TACGTGTAAGACCCT-TCTGGGA
57993615 TGTTAGCATT
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
40 1 0.02
41 2 0.04
42 27 0.48
43 26 0.46
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.31
Consensus pattern (42 bp):
TACGTGTAAGACCCTTCTGGGACAGTGGCATCGATACTTGAT
Found at i:57993604 original size:43 final size:42
Alignment explanation
Indices: 57993511--57993614 Score: 118
Period size: 43 Copynumber: 2.5 Consensus size: 42
57993501 ATGAAATACG
** * * * *
57993511 TGTAAGACCACGTTTGGGACATTGGCATCGTACTTGATTTCG
1 TGTAAGACCATATCTGGGACAGTGGCATCGTACTTGATTACA
* *
57993553 TGTAAGACCCTATCTGGGACAGTGGCATCGATATTTGATTACA
1 TGTAAGACCATATCTGGGACAGTGGCATCG-TACTTGATTACA
*
57993596 TGTAAGACCATGTCTGGGA
1 TGTAAGACCATATCTGGGA
57993615 TGTTAGCATT
Statistics
Matches: 51, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
42 25 0.49
43 26 0.51
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGACAGTGGCATCGTACTTGATTACA
Found at i:57997786 original size:4 final size:4
Alignment explanation
Indices: 57997772--57997810 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
57997762 GTGCCCCAAT
* * *
57997772 TTCA ATCA TTCA TTCA TTCA TCCA TTCA TTCA CTCA TTC
1 TTCA TTCA TTCA TTCA TTCA TTCA TTCA TTCA TTCA TTC
57997811 GCTAAATTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.26, C:0.31, G:0.00, T:0.44
Consensus pattern (4 bp):
TTCA
Found at i:58000166 original size:48 final size:48
Alignment explanation
Indices: 58000055--58000323 Score: 362
Period size: 48 Copynumber: 5.6 Consensus size: 48
58000045 ATGAGATTTC
* * **
58000055 GTGTAAGACCATGTCTGGGACATGGCATCGACAT-CTGA-GATATGTGCTT
1 GTGTAAGACCATGTCTGGGACATGGCATCG--GTGATGATG-TATGTGCCA
*
58000104 GTGTAAGACCATGTCTGGGACATGACATCGGTGATGATGTATGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATGTATGTGCCA
* * * *
58000152 GTCTGAGACCATGTCTAGGACATGGCATCGATGATGATGTATGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATGTATGTGCCA
* * * *
58000200 GTGTAAGACTATGTCTGGTACATGGCATCGGCGATAATGTATGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATGTATGTGCCA
*
58000248 GTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATATGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATGTATGTGCCA
*
58000296 GTGTAAAACCATGTCTGGGACATGGCAT
1 GTGTAAGACCATGTCTGGGACATGGCAT
58000324 TGGCAATGAT
Statistics
Matches: 194, Mismatches: 24, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
47 1 0.01
48 163 0.84
49 30 0.15
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.28
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATGTATGTGCCA
Found at i:58000349 original size:96 final size:97
Alignment explanation
Indices: 58000055--58000371 Score: 364
Period size: 96 Copynumber: 3.3 Consensus size: 97
58000045 ATGAGATTTC
* * **
58000055 GTGTAAGACCATGTCTGGGACATGGCATCGACAT-CTGAGATATGTGCTTGTGTAAGACCATGTC
1 GTGTAAGACCATGTCTGGGACATGGCATCG--ATGATGATATATGTGCCAGTGTAAGACCATGTC
*
58000119 TGGGACATGACATCGG--TGATGATGTATGTGCCA
64 TGGGACATGGCATCGGCATGAT-ATGTATGTGCCA
* * * * *
58000152 GTCTGAGACCATGTCTAGGACATGGCATCGATGATGATGTATGTGCCAGTGTAAGACTATGTCTG
1 GTGTAAGACCATGTCTGGGACATGGCATCGATGATGATATATGTGCCAGTGTAAGACCATGTCTG
*
58000217 GTACATGGCATCGGC--GATAATGTATGTGCCA
66 GGACATGGCATCGGCATGAT-ATGTATGTGCCA
* *
58000248 GTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATATGTGCCAGTGTAAAACCATGTCTG
1 GTGTAAGACCATGTCTGGGACATGGCATCGATGATGATATATGTGCCAGTGTAAGACCATGTCTG
* *
58000313 GGACATGGCATTGGCAATGATATGTA-GAT-TCA
66 GGACATGGCATCGGC-ATGATATGTATG-TGCCA
*
58000345 -TGTAAGGCCATG-CTGGGGACATGGCAT
1 GTGTAAGACCATGTCT-GGGACATGGCAT
58000372 TCGTACTTTA
Statistics
Matches: 190, Mismatches: 23, Indels: 15
0.83 0.10 0.07
Matches are distributed among these distances:
95 4 0.02
96 147 0.77
97 30 0.16
98 6 0.03
99 3 0.02
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (97 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGATGATGATATATGTGCCAGTGTAAGACCATGTCTG
GGACATGGCATCGGCATGATATGTATGTGCCA
Found at i:58006002 original size:12 final size:12
Alignment explanation
Indices: 58005972--58006018 Score: 71
Period size: 12 Copynumber: 4.1 Consensus size: 12
58005962 TTCTCTAAAG
*
58005972 CTTTTCTGTTCT
1 CTTTTCTCTTCT
58005984 C--TTCTCTTCT
1 CTTTTCTCTTCT
58005994 CTTTTCTCTTCT
1 CTTTTCTCTTCT
58006006 CTTTTCTCTTCT
1 CTTTTCTCTTCT
58006018 C
1 C
58006019 CATAATTCCC
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
10 9 0.28
12 23 0.72
ACGTcount: A:0.00, C:0.34, G:0.02, T:0.64
Consensus pattern (12 bp):
CTTTTCTCTTCT
Found at i:58006002 original size:17 final size:17
Alignment explanation
Indices: 58005972--58006018 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 17
58005962 TTCTCTAAAG
*
58005972 CTTTTCTGTTCTCTTCT
1 CTTTTCTCTTCTCTTCT
* *
58005989 CTTCTCTTTTCTCTTCT
1 CTTTTCTCTTCTCTTCT
58006006 CTTTTCTCTTCTC
1 CTTTTCTCTTCTC
58006019 CATAATTCCC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.00, C:0.34, G:0.02, T:0.64
Consensus pattern (17 bp):
CTTTTCTCTTCTCTTCT
Found at i:58008152 original size:51 final size:51
Alignment explanation
Indices: 58008085--58008261 Score: 252
Period size: 51 Copynumber: 3.5 Consensus size: 51
58008075 CTAATACAGG
*
58008085 TAGTAGGCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCA
* * * * * *
58008136 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAG---TCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGATC-ACAGTTTTCGGGTACGCA
*
58008185 TAGTAGCCTACACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCA
58008236 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
58008262 TGCGACCTCA
Statistics
Matches: 107, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
48 4 0.04
49 37 0.35
51 62 0.58
52 4 0.04
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (51 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCA
Found at i:58008212 original size:100 final size:99
Alignment explanation
Indices: 58008035--58008268 Score: 351
Period size: 100 Copynumber: 2.3 Consensus size: 99
58008025 CTGGTACACG
* * * * * * * *
58008035 TAGTGGCCTGCACTTAGTTCTACACACGTGACCTCACCATCTAATACAGGTAGTAGGCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAACATCTAATACACGTAGTAGCCTACACTT
58008100 AGTACTACACACGTGATCACAGTTTTCGGGTACGCA
64 AGTACTACACACGTGATCACAGTTTTCGGGTACGCA
**
58008136 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACGTAGTAGCCTACACTTA
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACA-TCTAATACACGTAGTAGCCTACACTTA
58008201 GTACTACACACGTGATCACAGTTTTCGGGTACGCA
65 GTACTACACACGTGATCACAGTTTTCGGGTACGCA
58008236 TAGTAGCCTGCACTTAGTACTACACATGCGACC
1 TAGTAGCCTGCACTTAGTACTACACATGCGACC
58008269 TCACAATAGA
Statistics
Matches: 122, Mismatches: 10, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
99 4 0.03
100 91 0.75
101 27 0.22
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAACATCTAATACACGTAGTAGCCTACACTTAG
TACTACACACGTGATCACAGTTTTCGGGTACGCA
Found at i:58010434 original size:28 final size:28
Alignment explanation
Indices: 58010402--58010486 Score: 111
Period size: 28 Copynumber: 3.1 Consensus size: 28
58010392 AAAATAGGTG
58010402 AAATGACCGTAATATCCCTGTAGGGTAA
1 AAATGACCGTAATATCCCTGTAGGGTAA
* * *
58010430 AAATGACCGTAATGTCCCTATAGGG-GA
1 AAATGACCGTAATATCCCTGTAGGGTAA
*
58010457 AAATGACCGTAATA-CCCTTGTATGGTAA
1 AAATGACCGTAATATCCC-TGTAGGGTAA
58010485 AA
1 AA
58010487 TGATGATTAT
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
26 3 0.06
27 19 0.40
28 26 0.54
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (28 bp):
AAATGACCGTAATATCCCTGTAGGGTAA
Found at i:58010486 original size:27 final size:26
Alignment explanation
Indices: 58010402--58010489 Score: 104
Period size: 27 Copynumber: 3.2 Consensus size: 26
58010392 AAAATAGGTG
58010402 AAATGACCGTAATATCCCTGTAGGGTAA
1 AAATGACCGTAATA-CCCTGTAGGGT-A
* * *
58010430 AAATGACCGTAATGTCCCTATAGGGGA
1 AAATGACCGTAAT-ACCCTGTAGGGTA
*
58010457 AAATGACCGTAATACCCTTGTATGGTA
1 AAATGACCGTAATACCC-TGTAGGGTA
58010484 AAATGA
1 AAATGA
58010490 TGATTATGCC
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
26 3 0.06
27 26 0.51
28 22 0.43
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.25
Consensus pattern (26 bp):
AAATGACCGTAATACCCTGTAGGGTA
Found at i:58017272 original size:40 final size:40
Alignment explanation
Indices: 58017228--58017489 Score: 328
Period size: 39 Copynumber: 6.7 Consensus size: 40
58017218 GCTCCTCGTT
* *
58017228 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
58017268 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
*
58017308 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
58017347 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
58017386 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
58017425 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
58017466 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
58017490 CATCATTCAA
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
38 2 0.01
39 126 0.62
40 64 0.32
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:58020550 original size:27 final size:27
Alignment explanation
Indices: 58020519--58020696 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
58020509 TAAATTGTAC
58020519 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
58020546 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
58020572 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
58020600 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
58020628 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
58020655 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
58020682 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
58020697 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:58020633 original size:82 final size:81
Alignment explanation
Indices: 58020520--58020675 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
58020510 AAATTGTACA
* *
58020520 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
58020584 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
58020601 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
58020666 TGCGAGTTGA
65 TGCGAATTGA
58020676 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:58020687 original size:82 final size:81
Alignment explanation
Indices: 58020516--58020696 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
58020506 GATTAAATTG
* *
58020516 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
58020581 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
58020597 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
58020661 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
58020679 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
58020697 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:58028619 original size:27 final size:27
Alignment explanation
Indices: 58028588--58028764 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 27
58028578 TAAATTGTAC
58028588 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
58028615 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
58028641 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
58028669 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* **
58028697 AGCACTAAGTGTGCGATTTGATTGCGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
58028724 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
58028751 AGCACTGAGT-TGCG
1 AGCACTAAGTGTGCG
58028765 GACTCAATAT
Statistics
Matches: 126, Mismatches: 21, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
26 4 0.03
27 99 0.79
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:58048079 original size:10 final size:10
Alignment explanation
Indices: 58048064--58048090 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
58048054 TAAGTTGAAG
58048064 TTGAGCTGAT
1 TTGAGCTGAT
58048074 TTGAGCTGAT
1 TTGAGCTGAT
58048084 TTGAGCT
1 TTGAGCT
58048091 TGAAGGAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.19, C:0.11, G:0.30, T:0.41
Consensus pattern (10 bp):
TTGAGCTGAT
Found at i:58048959 original size:27 final size:27
Alignment explanation
Indices: 58048829--58048946 Score: 182
Period size: 27 Copynumber: 4.4 Consensus size: 27
58048819 CCCCAAAATA
* * *
58048829 GGTAAAATGATCGTAATACCCCTATAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
58048856 GGTAAAATGACCGTAATGCCCCTGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
58048883 GGTAAAATGACCGTAATGCCCCTGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
* * *
58048910 GGTAAAATGACCGTAATACCCTTGTAT
1 GGTAAAATGACCGTAATGCCCCTGTAG
58048937 GGTAAAATGA
1 GGTAAAATGA
58048947 TGATTATGCC
Statistics
Matches: 85, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 85 1.00
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.25
Consensus pattern (27 bp):
GGTAAAATGACCGTAATGCCCCTGTAG
Found at i:58049357 original size:28 final size:27
Alignment explanation
Indices: 58049303--58049362 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 27
58049293 ACTGTAATGA
* *
58049303 TACTGTATTAGGCTTAGGCTCACACTG
1 TACTGTATAAGGCTAAGGCTCACACTG
*
58049330 TTACTGTATAAGGCTAAGGC-CTAGACTG
1 -TACTGTATAAGGCTAAGGCTC-ACACTG
58049358 TACTG
1 TACTG
58049363 ATATTGAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 6 0.21
28 22 0.79
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (27 bp):
TACTGTATAAGGCTAAGGCTCACACTG
Found at i:58053383 original size:39 final size:39
Alignment explanation
Indices: 58053336--58053473 Score: 165
Period size: 39 Copynumber: 3.5 Consensus size: 39
58053326 GACTTTAAAC
*
58053336 CCGGATATATTTCCAGCATATAGCCTGCGGACCTTAAGT
1 CCGGATATAATTCCAGCATATAGCCTGCGGACCTTAAGT
* * **
58053375 CCGAATATAATTCCAGCATATAGCCTGCGGGTA-TTTAAAC
1 CCGGATATAATTCCAGCATATAGCCTGC-GG-ACCTTAAGT
* *
58053415 CCGGATATAGTTCCAGCACATAGCCTGC-GACCCTTAAGT
1 CCGGATATAATTCCAGCATATAGCCTGCGGA-CCTTAAGT
58053454 CCGGATATAATTCCAG-ATAT
1 CCGGATATAATTCCAGCATAT
58053474 CATGCATATT
Statistics
Matches: 82, Mismatches: 13, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
37 1 0.01
38 4 0.05
39 45 0.55
40 31 0.38
41 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (39 bp):
CCGGATATAATTCCAGCATATAGCCTGCGGACCTTAAGT
Found at i:58053438 original size:40 final size:40
Alignment explanation
Indices: 58053317--58053473 Score: 153
Period size: 39 Copynumber: 4.0 Consensus size: 40
58053307 ACTAGCACAA
* * *
58053317 AGCCTTCGAGACTTTAAACCCGGATATATTTCCAGCATAT
1 AGCCTGCGGGACTTTAAACCCGGATATAATTCCAGCATAT
* ** *
58053357 AGCCTGC-GGACCTTAAGTCCGAATATAATTCCAGCATAT
1 AGCCTGCGGGACTTTAAACCCGGATATAATTCCAGCATAT
* *
58053396 AGCCTGCGGGTA-TTTAAACCCGGATATAGTTCCAGCACAT
1 AGCCTGCGGG-ACTTTAAACCCGGATATAATTCCAGCATAT
* **
58053436 AGCCTGC--GACCCTTAAGTCCGGATATAATTCCAG-ATAT
1 AGCCTGCGGGA-CTTTAAACCCGGATATAATTCCAGCATAT
58053474 CATGCATATT
Statistics
Matches: 95, Mismatches: 18, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
37 1 0.01
38 4 0.04
39 52 0.55
40 37 0.39
41 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.27
Consensus pattern (40 bp):
AGCCTGCGGGACTTTAAACCCGGATATAATTCCAGCATAT
Found at i:58053450 original size:79 final size:78
Alignment explanation
Indices: 58053329--58053473 Score: 238
Period size: 79 Copynumber: 1.8 Consensus size: 78
58053319 CCTTCGAGAC
* *
58053329 TTTAAACCCGGATATATTTCCAGCATATAGCCTGCGGACCTTAAGTCCGAATATAATTCCAGCAT
1 TTTAAACCCGGATATAGTTCCAGCACATAGCCTGCGGACCTTAAGTCCGAATATAATTCCAG-AT
58053394 ATAGCCTGCGGGTA
65 ATAGCCTGCGGGTA
*
58053408 TTTAAACCCGGATATAGTTCCAGCACATAGCCTGC-GACCCTTAAGTCCGGATATAATTCCAGAT
1 TTTAAACCCGGATATAGTTCCAGCACATAGCCTGCGGA-CCTTAAGTCCGAATATAATTCCAGAT
58053472 AT
65 AT
58053474 CATGCATATT
Statistics
Matches: 62, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
78 6 0.10
79 56 0.90
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.28
Consensus pattern (78 bp):
TTTAAACCCGGATATAGTTCCAGCACATAGCCTGCGGACCTTAAGTCCGAATATAATTCCAGATA
TAGCCTGCGGGTA
Found at i:58061046 original size:40 final size:39
Alignment explanation
Indices: 58060995--58061154 Score: 146
Period size: 39 Copynumber: 4.1 Consensus size: 39
58060985 TTCAGTCACT
* * *
58060995 AGCACAAAGCCTTTGGGACTTTAAACCCGGATATATTTCT
1 AGCACATAGCC-TTGGGACTTTAAACCCGGATATAATTCC
* * **
58061035 AGCATATAGCC-TGCGGACCTTAAGTCCGGATATAATTCC
1 AGCACATAGCCTTG-GGACTTTAAACCCGGATATAATTCC
* *
58061074 AGCATATAGCCTGCGGGTA-TTTAAACCCGGATATAATTCC
1 AGCACATAGCCT-TGGG-ACTTTAAACCCGGATATAATTCC
* **
58061114 AGCACATAGCC-TGCGGACCTTAAGTCCGGATATAATTCC
1 AGCACATAGCCTTG-GGACTTTAAACCCGGATATAATTCC
58061153 AG
1 AG
58061155 ATATCATGCA
Statistics
Matches: 98, Mismatches: 16, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
38 4 0.04
39 53 0.54
40 39 0.40
41 2 0.02
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.26
Consensus pattern (39 bp):
AGCACATAGCCTTGGGACTTTAAACCCGGATATAATTCC
Found at i:58061078 original size:39 final size:39
Alignment explanation
Indices: 58061021--58061158 Score: 190
Period size: 39 Copynumber: 3.5 Consensus size: 39
58061011 GACTTTAAAC
* *
58061021 CCGGATATATTTCTAGCATATAGCCTGCGGACCTTAAGT
1 CCGGATATAATTCCAGCATATAGCCTGCGGACCTTAAGT
* **
58061060 CCGGATATAATTCCAGCATATAGCCTGCGGGTA-TTTAAAC
1 CCGGATATAATTCCAGCATATAGCCTGC-GG-ACCTTAAGT
*
58061100 CCGGATATAATTCCAGCACATAGCCTGCGGACCTTAAGT
1 CCGGATATAATTCCAGCATATAGCCTGCGGACCTTAAGT
58061139 CCGGATATAATTCCAG-ATAT
1 CCGGATATAATTCCAGCATAT
58061159 CATGCATATT
Statistics
Matches: 86, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
38 4 0.05
39 48 0.56
40 33 0.38
41 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.28
Consensus pattern (39 bp):
CCGGATATAATTCCAGCATATAGCCTGCGGACCTTAAGT
Found at i:58061133 original size:79 final size:78
Alignment explanation
Indices: 58061014--58061158 Score: 254
Period size: 79 Copynumber: 1.8 Consensus size: 78
58061004 CCTTTGGGAC
* * *
58061014 TTTAAACCCGGATATATTTCTAGCATATAGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCAT
1 TTTAAACCCGGATATAATTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATATAATTCCAG-AT
58061079 ATAGCCTGCGGGTA
65 ATAGCCTGCGGGTA
58061093 TTTAAACCCGGATATAATTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATATAATTCCAGATA
1 TTTAAACCCGGATATAATTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATATAATTCCAGATA
58061158 T
66 T
58061159 CATGCATATT
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
78 4 0.06
79 59 0.94
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (78 bp):
TTTAAACCCGGATATAATTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATATAATTCCAGATA
TAGCCTGCGGGTA
Found at i:58074670 original size:45 final size:45
Alignment explanation
Indices: 58074605--58074716 Score: 152
Period size: 45 Copynumber: 2.5 Consensus size: 45
58074595 AGGACTATGC
*
58074605 TATGTGTTTTCGTGTAAGACCACATCTAGGATGTTGGCATCGATA
1 TATGTGTTTTCGTGTAAGACCACATCTAGGACGTTGGCATCGATA
* * * *
58074650 TATGTTTTTTCGTGTGAGACCACGTCTGGGACGTTGGCATCGATA
1 TATGTGTTTTCGTGTAAGACCACATCTAGGACGTTGGCATCGATA
* * *
58074695 TATGTGGTTACGAGTAAGACCA
1 TATGTGTTTTCGTGTAAGACCA
58074717 TGTCTGGGAC
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 57 1.00
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (45 bp):
TATGTGTTTTCGTGTAAGACCACATCTAGGACGTTGGCATCGATA
Found at i:58076698 original size:16 final size:17
Alignment explanation
Indices: 58076669--58076714 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
58076659 ATAATTTTTA
*
58076669 TTTATTCTTATTTCATC
1 TTTATTCATATTTCATC
*
58076686 TTTATTCAT-TTTCATG
1 TTTATTCATATTTCATC
*
58076702 TTTATTTATATTT
1 TTTATTCATATTT
58076715 ATGTTTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 14 0.56
17 11 0.44
ACGTcount: A:0.20, C:0.11, G:0.02, T:0.67
Consensus pattern (17 bp):
TTTATTCATATTTCATC
Found at i:58076718 original size:16 final size:16
Alignment explanation
Indices: 58076669--58076720 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
58076659 ATAATTTTTA
* *
58076669 TTTATTCTTATTTCATC
1 TTTATTCAT-TTTCATG
58076686 TTTATTCATTTTCATG
1 TTTATTCATTTTCATG
*
58076702 TTTATTTATATTT-ATG
1 TTTATTCAT-TTTCATG
58076718 TTT
1 TTT
58076721 TTTTTTACAC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
16 20 0.65
17 11 0.35
ACGTcount: A:0.19, C:0.10, G:0.04, T:0.67
Consensus pattern (16 bp):
TTTATTCATTTTCATG
Found at i:58084189 original size:30 final size:31
Alignment explanation
Indices: 58084108--58084190 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
58084098 TCAGTCTCGA
58084108 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
58084138 CATATCACTGGGCCAAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
58084169 CATATCACT-GGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
58084191 ACTGTAAGTA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
30 17 0.34
31 33 0.66
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.29
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:58084438 original size:25 final size:25
Alignment explanation
Indices: 58084410--58084479 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
58084400 CTCTTTTAAT
*
58084410 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
58084435 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
58084460 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
58084480 AGCACTTCCT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:58085343 original size:27 final size:27
Alignment explanation
Indices: 58085281--58085358 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
58085271 GGGCATATTC
58085281 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* *
58085308 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCATACAGGGG-TATTACG
* *
58085335 GTCTTTTTACC-TATTAGGGGTATT
1 GTCATTTTACCATA-CAGGGGTATT
58085359 TTAGTCATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
26 3 0.07
27 39 0.91
28 1 0.02
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.37
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:58085429 original size:27 final size:27
Alignment explanation
Indices: 58085399--58085484 Score: 86
Period size: 27 Copynumber: 3.1 Consensus size: 27
58085389 GTAAATCTAC
58085399 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
*
58085426 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTTC-AGTAATTTTGT
** *
58085452 AGAAAGTTAAGGGTATTTCTGTAATTTTGT
1 --AAA-CCAAGGGTATTTCAGTAATTTTGT
58085482 AAA
1 AAA
58085485 TTAGGGGTAT
Statistics
Matches: 48, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
26 1 0.02
27 22 0.46
28 7 0.15
29 17 0.35
30 1 0.02
ACGTcount: A:0.35, C:0.08, G:0.16, T:0.41
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:58085502 original size:27 final size:27
Alignment explanation
Indices: 58085462--58085585 Score: 144
Period size: 27 Copynumber: 4.6 Consensus size: 27
58085452 AGAAAGTTAA
** *
58085462 GGGTATTTCT-GTAATTTTGTAAATTAG
1 GGGTATTT-TGGTAATTTTACAAACTAG
*
58085489 GGGTATTTTGGTAATTTTACAAA-TTG
1 GGGTATTTTGGTAATTTTACAAACTAG
* * *
58085515 ATGGTATTTCGGTAATTTCACAAACTAG
1 -GGGTATTTTGGTAATTTTACAAACTAG
*
58085543 TGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
58085570 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
58085586 CTACCCTATA
Statistics
Matches: 84, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
26 3 0.04
27 79 0.94
28 2 0.02
ACGTcount: A:0.27, C:0.06, G:0.22, T:0.44
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:58085504 original size:56 final size:55
Alignment explanation
Indices: 58085404--58085577 Score: 174
Period size: 54 Copynumber: 3.2 Consensus size: 55
58085394 TCTACAAACC
* * * *
58085404 AAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCT-ATAATTTTTAGAAAGTT
1 AAGGGTATTTCAGTAATTTTGTAAACTAGTGGTATTT-TGGTAATTTTTACAAA-TT
* * *
58085460 AAGGGTATTTCTGTAATTTTGTAAATTAGGGGTATTTTGGTAA-TTTTACAAATT
1 AAGGGTATTTCAGTAATTTTGTAAACTAGTGGTATTTTGGTAATTTTTACAAATT
* * * *** *
58085514 GATGGTATTTCGGTAATTTCACAAACTAGTGGTATTTTGGTAA-TTTTACAAACT
1 AAGGGTATTTCAGTAATTTTGTAAACTAGTGGTATTTTGGTAATTTTTACAAATT
*
58085568 AGGGGTATTT
1 AAGGGTATTT
58085578 TGGTAATTCT
Statistics
Matches: 98, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
54 54 0.55
55 9 0.09
56 35 0.36
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.43
Consensus pattern (55 bp):
AAGGGTATTTCAGTAATTTTGTAAACTAGTGGTATTTTGGTAATTTTTACAAATT
Found at i:58085579 original size:81 final size:81
Alignment explanation
Indices: 58085463--58085618 Score: 208
Period size: 81 Copynumber: 1.9 Consensus size: 81
58085453 GAAAGTTAAG
** * * * *
58085463 GGTATTTCTGTAATTTTGTAAATTAGGGGTATTTTGGTAATTTTA-CAAATTGATGGTATTTCGG
1 GGTATTTCTGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTACCAAATAGA-GGTATTTCAG
58085527 TAATTTCACAAACTAGT
65 TAATTTCACAAACTAGT
**
58085544 GGTATTT-TGGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTACCCTATAGAGGTATTTCAG
1 GGTATTTCT-GTAATTTTACAAACTAGGGGTATTTTGGTAATTCTACCAAATAGAGGTATTTCAG
58085608 TAATTTCACAA
65 TAATTTCACAA
58085619 TAGAGGGTAA
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
80 1 0.02
81 59 0.91
82 5 0.08
ACGTcount: A:0.29, C:0.10, G:0.19, T:0.42
Consensus pattern (81 bp):
GGTATTTCTGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTACCAAATAGAGGTATTTCAGT
AATTTCACAAACTAGT
Found at i:58085602 original size:54 final size:54
Alignment explanation
Indices: 58085461--58085627 Score: 144
Period size: 54 Copynumber: 3.1 Consensus size: 54
58085451 TAGAAAGTTA
* *** * * *
58085461 AGGGTATTTCTGTAATTTTGTAAATTAGGGGTATTTTGGTAATTTTACAAATTG
1 AGGGTATTTCGGTAATTTCACAAACTAGAGGTATTTTGGTAATTTTACAAATAG
* *
58085515 ATGGTATTTCGGTAATTTCACAAACTAGTGGTATTTTGGTAATTTTACAAACTAG
1 AGGGTATTTCGGTAATTTCACAAACTAGAGGTATTTTGGTAATTTTACAAA-TAG
* ** ** *
58085570 -GGGTATTTTGGTAA-TTCTACCCTA-TAGAGGTATTTCAGTAATTTCAC-AATAG
1 AGGGTATTTCGGTAATTTC-A-CAAACTAGAGGTATTTTGGTAATTTTACAAATAG
58085622 AGGGTA
1 AGGGTA
58085628 AAACGGTAAT
Statistics
Matches: 93, Mismatches: 16, Indels: 9
0.79 0.14 0.08
Matches are distributed among these distances:
52 3 0.03
53 10 0.11
54 76 0.82
55 4 0.04
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (54 bp):
AGGGTATTTCGGTAATTTCACAAACTAGAGGTATTTTGGTAATTTTACAAATAG
Found at i:58085636 original size:26 final size:26
Alignment explanation
Indices: 58085605--58085684 Score: 74
Period size: 27 Copynumber: 3.0 Consensus size: 26
58085595 AGAGGTATTT
58085605 CAGTAATTT-CACAATAGAGGGTAAAA
1 CAGTAATTTGCA-AATAGAGGGTAAAA
* * *
58085631 CGGTAATTTTGTAAATCGAGGGTAAAA
1 CAGTAA-TTTGCAAATAGAGGGTAAAA
*
58085658 CAGTAATTCTGTAAATCA-AGGGTAAAA
1 CAGTAATT-TGCAAAT-AGAGGGTAAAA
58085685 TTGTGATTCT
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
26 7 0.16
27 37 0.82
28 1 0.02
ACGTcount: A:0.42, C:0.10, G:0.21, T:0.26
Consensus pattern (26 bp):
CAGTAATTTGCAAATAGAGGGTAAAA
Found at i:58085654 original size:27 final size:27
Alignment explanation
Indices: 58085621--58085708 Score: 113
Period size: 27 Copynumber: 3.3 Consensus size: 27
58085611 TTTCACAATA
* *
58085621 GAGGGTAAAACGGTAATTTTGTAAATC
1 GAGGGTAAAACAGTAATTCTGTAAATC
58085648 GAGGGTAAAACAGTAATTCTGTAAATC
1 GAGGGTAAAACAGTAATTCTGTAAATC
* ** * *
58085675 AAGGGTAAAATTGTGATTCTATAAATC
1 GAGGGTAAAACAGTAATTCTGTAAATC
58085702 GAGGGTA
1 GAGGGTA
58085709 CTTTGGTAAT
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.39, C:0.08, G:0.25, T:0.28
Consensus pattern (27 bp):
GAGGGTAAAACAGTAATTCTGTAAATC
Found at i:58088343 original size:25 final size:25
Alignment explanation
Indices: 58088315--58088384 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
58088305 CTCTTTTAAT
*
58088315 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
58088340 AACTAGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
58088365 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
58088385 AGCATTTCCT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:58089247 original size:27 final size:27
Alignment explanation
Indices: 58089185--58089262 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
58089175 GGGCATATTC
58089185 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* *
58089212 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCATACAGGGG-TATTACG
* *
58089239 GTCTTTTTACC-TATTAGGGGTATT
1 GTCATTTTACCATA-CAGGGGTATT
58089263 TTAGTCATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
26 3 0.07
27 39 0.91
28 1 0.02
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.37
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:58089333 original size:27 final size:27
Alignment explanation
Indices: 58089303--58089409 Score: 85
Period size: 27 Copynumber: 3.9 Consensus size: 27
58089293 GTAAATCTAC
58089303 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
*
58089330 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTTC-AGTAATTTTGT
* **
58089356 AGAAAGTCAAGGGTATTT-TTTAATTTTGT
1 --AAA-CCAAGGGTATTTCAGTAATTTTGT
* * **
58089385 AAATCAGGGGTATTTTGGTAATTTT
1 AAACCAAGGGTATTTCAGTAATTTT
58089410 ACAAATTGAT
Statistics
Matches: 66, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
26 12 0.18
27 32 0.48
28 11 0.17
29 11 0.17
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.43
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:58089415 original size:27 final size:27
Alignment explanation
Indices: 58089352--58089488 Score: 102
Period size: 27 Copynumber: 5.1 Consensus size: 27
58089342 TTTCTATAAT
* * *
58089352 TTTTAGAAAGTCAAGGGTATTTT-TTAA
1 TTTTACAAA-TCAGGGGTATTTTGGTAA
**
58089379 TTTTGTAAATCAGGGGTATTTTGGTAA
1 TTTTACAAATCAGGGGTATTTTGGTAA
* * ***
58089406 TTTTACAAAT-TGATGGTATTTCAATAA
1 TTTTACAAATCAG-GGGTATTTTGGTAA
*
58089433 TTTCACAAA-CTAGGGGTATTTTGGTAA
1 TTTTACAAATC-AGGGGTATTTTGGTAA
*
58089460 TTTTACAAA-CTAGGGGTCTTTTGGTAA
1 TTTTACAAATC-AGGGGTATTTTGGTAA
58089487 TT
1 TT
58089489 CTACCCTATA
Statistics
Matches: 87, Mismatches: 19, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
26 13 0.15
27 73 0.84
28 1 0.01
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.43
Consensus pattern (27 bp):
TTTTACAAATCAGGGGTATTTTGGTAA
Found at i:58089539 original size:26 final size:26
Alignment explanation
Indices: 58089508--58089587 Score: 74
Period size: 27 Copynumber: 3.0 Consensus size: 26
58089498 AGAGGTATTT
58089508 CAGTAATTT-CACAATCGAAGGTAAAA
1 CAGTAATTTGCA-AATCGAAGGTAAAA
* * *
58089534 CGGTAATTTTGTAAATCGAGGGTAAAA
1 CAGTAA-TTTGCAAATCGAAGGTAAAA
*
58089561 CAGTAATTCTGTAAATC-AAGGGTAAAA
1 CAGTAATT-TGCAAATCGAA-GGTAAAA
58089588 TTGTGATTCT
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
26 8 0.18
27 36 0.80
28 1 0.02
ACGTcount: A:0.42, C:0.11, G:0.20, T:0.26
Consensus pattern (26 bp):
CAGTAATTTGCAAATCGAAGGTAAAA
Found at i:58089557 original size:27 final size:27
Alignment explanation
Indices: 58089520--58089611 Score: 112
Period size: 27 Copynumber: 3.4 Consensus size: 27
58089510 GTAATTTCAC
* * *
58089520 AATCGAAGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
58089547 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
* ** * *
58089574 AATCAAGGGTAAAATTGTGATTCTATA
1 AATCGAGGGTAAAACAGTAATTCTGTA
58089601 AATCGAGGGTA
1 AATCGAGGGTA
58089612 CTTTGGTAAT
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACAGTAATTCTGTA
Found at i:58090467 original size:28 final size:28
Alignment explanation
Indices: 58090427--58090482 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
58090417 ATTTAAAAGG
58090427 CCCTCATCCAAGCATCCAGGTTTTTTTT
1 CCCTCATCCAAGCATCCAGGTTTTTTTT
58090455 CCCTCATCCAAGCATCCAGGTTTTTTTT
1 CCCTCATCCAAGCATCCAGGTTTTTTTT
58090483 TCACTTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.18, C:0.32, G:0.11, T:0.39
Consensus pattern (28 bp):
CCCTCATCCAAGCATCCAGGTTTTTTTT
Found at i:58095485 original size:40 final size:40
Alignment explanation
Indices: 58095440--58095631 Score: 217
Period size: 40 Copynumber: 4.8 Consensus size: 40
58095430 ATAACCACAA
* * *
58095440 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* *
58095480 GCACAAATGCCTTCGGGTCTTAGCCCAGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* * *
58095520 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* * * * *
58095560 GCATAAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* *
58095600 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
58095632 CATTCAAATG
Statistics
Matches: 140, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 1 0.01
40 135 0.96
41 4 0.03
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
Found at i:58098477 original size:29 final size:29
Alignment explanation
Indices: 58098442--58098515 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
58098432 GTTGTGAGAT
* *
58098442 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
58098471 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
58098500 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
58098516 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:58102214 original size:9 final size:9
Alignment explanation
Indices: 58102200--58102268 Score: 60
Period size: 9 Copynumber: 8.0 Consensus size: 9
58102190 ATTAAGCTAA
58102200 GTGTTTAAT
1 GTGTTTAAT
58102209 GTGTTT--T
1 GTGTTTAAT
58102216 GTGTTTAAT
1 GTGTTTAAT
58102225 AAGTGTTTAAAT
1 --GTGTTT-AAT
58102237 GTGTTTAAT
1 GTGTTTAAT
*
58102246 ATG-TT--T
1 GTGTTTAAT
58102252 GT-TTTAAT
1 GTGTTTAAT
58102260 GTGTTTAAT
1 GTGTTTAAT
58102269 TGCAGGCATC
Statistics
Matches: 49, Mismatches: 2, Indels: 18
0.71 0.03 0.26
Matches are distributed among these distances:
6 4 0.08
7 7 0.14
8 5 0.10
9 18 0.37
10 6 0.12
11 6 0.12
12 3 0.06
ACGTcount: A:0.23, C:0.00, G:0.20, T:0.57
Consensus pattern (9 bp):
GTGTTTAAT
Found at i:58102241 original size:21 final size:22
Alignment explanation
Indices: 58102215--58102268 Score: 74
Period size: 23 Copynumber: 2.5 Consensus size: 22
58102205 TAATGTGTTT
58102215 TGTGTTTAATAAG-TGTTTAAA
1 TGTGTTTAATAAGTTGTTTAAA
* *
58102236 TGTGTTTAATATGTTTGTTTTAA
1 TGTGTTTAATAAG-TTGTTTAAA
58102259 TGTGTTTAAT
1 TGTGTTTAAT
58102269 TGCAGGCATC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 12 0.41
23 17 0.59
ACGTcount: A:0.26, C:0.00, G:0.19, T:0.56
Consensus pattern (22 bp):
TGTGTTTAATAAGTTGTTTAAA
Found at i:58104338 original size:19 final size:19
Alignment explanation
Indices: 58104314--58104361 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
58104304 AAAAGAAGTG
58104314 AGAAAAAGAAATCG-AGAGA
1 AGAAAAAGAAA-CGCAGAGA
* *
58104333 AGAAAAA-AAAGGCATAGA
1 AGAAAAAGAAACGCAGAGA
58104351 AGAAAAAGAAA
1 AGAAAAAGAAA
58104362 AGGAAATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 1 0.04
18 14 0.56
19 10 0.40
ACGTcount: A:0.69, C:0.04, G:0.23, T:0.04
Consensus pattern (19 bp):
AGAAAAAGAAACGCAGAGA
Found at i:58104623 original size:20 final size:20
Alignment explanation
Indices: 58104598--58104636 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
58104588 GAAACGAGTA
58104598 GAAAAGGTGAAAGTGAGCAG
1 GAAAAGGTGAAAGTGAGCAG
58104618 GAAAAGGTGAAAGTGAGCA
1 GAAAAGGTGAAAGTGAGCA
58104637 AAAAAAAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.46, C:0.05, G:0.38, T:0.10
Consensus pattern (20 bp):
GAAAAGGTGAAAGTGAGCAG
Found at i:58104642 original size:20 final size:20
Alignment explanation
Indices: 58104599--58104642 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
58104589 AAACGAGTAG
**
58104599 AAAAGGTGAAAGTGAGCAGG
1 AAAAGGTGAAAGTGAGCAAA
58104619 AAAAGGTGAAAGTGAGCAAA
1 AAAAGGTGAAAGTGAGCAAA
58104639 AAAA
1 AAAA
58104643 AAGTGAGTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.55, C:0.05, G:0.32, T:0.09
Consensus pattern (20 bp):
AAAAGGTGAAAGTGAGCAAA
Found at i:58117391 original size:46 final size:46
Alignment explanation
Indices: 58117341--58117516 Score: 201
Period size: 46 Copynumber: 3.8 Consensus size: 46
58117331 TGTTTGGGCA
58117341 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *** * * ** *
58117387 TCCGAACACGTTGAGTTGAGTCTGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGC-AAACG
* *
58117434 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
58117480 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
58117517 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 23, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
46 70 0.67
47 34 0.33
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:58117496 original size:93 final size:93
Alignment explanation
Indices: 58117337--58117508 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
58117327 AGGATGTTTG
*
58117337 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACACGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACACGTTGAG
*
58117402 TTGAGTCTGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * * *
58117430 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACACGTTGAG
58117495 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
58117509 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACACGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:58119646 original size:60 final size:59
Alignment explanation
Indices: 58119566--58119706 Score: 169
Period size: 60 Copynumber: 2.4 Consensus size: 59
58119556 TTTAGTGTTA
*
58119566 ACTGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCT-TACAGTAATAGAG-TAT
1 ACTGGGCC-TAGCCCATATCAATATCAATCTGGGCCATAG-CCCTATACA--AATAGAGATAT
* * * *
58119627 ACTGGGCCTAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATACAAGTCGAGATAT
1 ACTGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATACAAATAGAGATAT
* *
58119686 ATTGGGCCTTGCCCATATCAA
1 ACTGGGCCTAGCCCATATCAA
58119707 CACAGTTGGG
Statistics
Matches: 70, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
58 5 0.07
59 25 0.36
60 32 0.46
61 8 0.11
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (59 bp):
ACTGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATACAAATAGAGATAT
Found at i:58122424 original size:19 final size:19
Alignment explanation
Indices: 58122400--58122436 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
58122390 ATTTATGTTT
58122400 TAGATACAGCACCTTTTAA
1 TAGATACAGCACCTTTTAA
*
58122419 TAGATATAGCACCTTTTA
1 TAGATACAGCACCTTTTA
58122437 TATTAATAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.35
Consensus pattern (19 bp):
TAGATACAGCACCTTTTAA
Found at i:58123593 original size:18 final size:18
Alignment explanation
Indices: 58123570--58123622 Score: 88
Period size: 18 Copynumber: 2.9 Consensus size: 18
58123560 AAAATGTGAG
*
58123570 AAATGATGTTCACATTTT
1 AAATGATGTTCACATTTC
58123588 AAATGATGTTCACATTTC
1 AAATGATGTTCACATTTC
*
58123606 AAATGATGTTCAAATTT
1 AAATGATGTTCACATTT
58123623 ATGGAAATGG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.42
Consensus pattern (18 bp):
AAATGATGTTCACATTTC
Found at i:58124168 original size:72 final size:72
Alignment explanation
Indices: 58124046--58124282 Score: 354
Period size: 72 Copynumber: 3.3 Consensus size: 72
58124036 AAATGCTAAA
* * *
58124046 CTAGTTTTATCAATAGTTATTTATGTTTGGTTTTTGGATATTGAACTTATGTTCTACTTATTTAT
1 CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGAATATTGAATTTATGTTCTACTTATTTAT
58124111 GTGTAAT
66 GTGTAAT
*
58124118 CTAGTTTTATCAATGGTTGTTTATGTTTGGTTTTTGAATATTGAATTTATGTTCTACTTATTTAT
1 CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGAATATTGAATTTATGTTCTACTTATTTAT
58124183 GTGTAAT
66 GTGTAAT
* *
58124190 CT-GCTTTTATTAATAGTTGTTTATGTTTGGTCTTTGAGATATTGAATTTATGTTCTACTTATTT
1 CTAG-TTTTATCAATAGTTGTTTATGTTTGGTTTTTGA-ATATTGAATTTATGTTCTACTTATTT
* *
58124254 ATACT-AAAT
64 AT-GTGTAAT
58124263 -TAGTTTTATCAATAGTTGTT
1 CTAGTTTTATCAATAGTTGTT
58124283 AATATATGAT
Statistics
Matches: 151, Mismatches: 10, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
71 1 0.01
72 117 0.77
73 32 0.21
74 1 0.01
ACGTcount: A:0.24, C:0.07, G:0.15, T:0.54
Consensus pattern (72 bp):
CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGAATATTGAATTTATGTTCTACTTATTTAT
GTGTAAT
Found at i:58126355 original size:13 final size:13
Alignment explanation
Indices: 58126332--58126395 Score: 74
Period size: 13 Copynumber: 4.9 Consensus size: 13
58126322 ACACCTAAAA
*
58126332 TTTTTAAAAGCAC
1 TTTTCAAAAGCAC
*
58126345 TTCTCAAAAGCAC
1 TTTTCAAAAGCAC
* *
58126358 TTTTCCACAGCAC
1 TTTTCAAAAGCAC
*
58126371 TTTTTAAAAGCAC
1 TTTTCAAAAGCAC
*
58126384 TTTTTAAAAGCA
1 TTTTCAAAAGCA
58126396 TTGCCAAACA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 43 1.00
ACGTcount: A:0.36, C:0.22, G:0.08, T:0.34
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:58126395 original size:26 final size:26
Alignment explanation
Indices: 58126332--58126395 Score: 83
Period size: 26 Copynumber: 2.5 Consensus size: 26
58126322 ACACCTAAAA
58126332 TTTTTAAAAGCACTTCTCAAAAGCAC
1 TTTTTAAAAGCACTTCTCAAAAGCAC
** * * *
58126358 TTTTCCACAGCACTTTTTAAAAGCAC
1 TTTTTAAAAGCACTTCTCAAAAGCAC
58126384 TTTTTAAAAGCA
1 TTTTTAAAAGCA
58126396 TTGCCAAACA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.22, G:0.08, T:0.34
Consensus pattern (26 bp):
TTTTTAAAAGCACTTCTCAAAAGCAC
Found at i:58140910 original size:15 final size:15
Alignment explanation
Indices: 58140890--58140923 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
58140880 TCAACGGATT
58140890 ATCCGTCCGGGCTAA
1 ATCCGTCCGGGCTAA
*
58140905 ATCCGTCCGGGCTAG
1 ATCCGTCCGGGCTAA
58140920 ATCC
1 ATCC
58140924 TTTTCATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.18, C:0.35, G:0.26, T:0.21
Consensus pattern (15 bp):
ATCCGTCCGGGCTAA
Found at i:58140946 original size:59 final size:59
Alignment explanation
Indices: 58140854--58140967 Score: 228
Period size: 59 Copynumber: 1.9 Consensus size: 59
58140844 ACATCCATCT
58140854 GGGCTAGATCCTTTTCATAATTGAGATCAACGGATTATCCGTCCGGGCTAAATCCGTCC
1 GGGCTAGATCCTTTTCATAATTGAGATCAACGGATTATCCGTCCGGGCTAAATCCGTCC
58140913 GGGCTAGATCCTTTTCATAATTGAGATCAACGGATTATCCGTCCGGGCTAAATCC
1 GGGCTAGATCCTTTTCATAATTGAGATCAACGGATTATCCGTCCGGGCTAAATCC
58140968 TTACTGCAAC
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 55 1.00
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.29
Consensus pattern (59 bp):
GGGCTAGATCCTTTTCATAATTGAGATCAACGGATTATCCGTCCGGGCTAAATCCGTCC
Found at i:58143583 original size:28 final size:28
Alignment explanation
Indices: 58143543--58143610 Score: 95
Period size: 28 Copynumber: 2.4 Consensus size: 28
58143533 TATGAGATTG
58143543 GCACTAAGTGTGCGAGTTTAATTGCA-T-A
1 GCACTAAGTGTGCGAGTTTAATT--ATTAA
*
58143571 GCACTAAGTGTGCGAGTTTTATTATTAA
1 GCACTAAGTGTGCGAGTTTAATTATTAA
58143599 GCACTAAGTGTG
1 GCACTAAGTGTG
58143611 TGAACTTACT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
26 1 0.03
27 1 0.03
28 35 0.95
ACGTcount: A:0.28, C:0.13, G:0.25, T:0.34
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATTAA
Found at i:58153019 original size:40 final size:40
Alignment explanation
Indices: 58152960--58153147 Score: 313
Period size: 40 Copynumber: 4.7 Consensus size: 40
58152950 GAGCATTGGA
* *
58152960 ATATATCCGGGCTAAGACCCGAAGGCAATTACGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
* *
58153000 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
*
58153040 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAATTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
58153080 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
* *
58153120 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
58153148 ATGTGTTTGC
Statistics
Matches: 140, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 140 1.00
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
Found at i:58167913 original size:14 final size:14
Alignment explanation
Indices: 58167896--58167935 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
58167886 CGAATGGAAT
*
58167896 GGTAGGAACGAAAG
1 GGTAGGAACAAAAG
58167910 GGTAGGAACAAAAG
1 GGTAGGAACAAAAG
* *
58167924 GATATGAACAAA
1 GGTAGGAACAAA
58167936 TTGGTCGGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.50, C:0.07, G:0.33, T:0.10
Consensus pattern (14 bp):
GGTAGGAACAAAAG
Found at i:58171193 original size:20 final size:20
Alignment explanation
Indices: 58171137--58171193 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
58171127 AGCTCCGTTT
* *
58171137 AGCTCATTTCCAGCTCACTCG
1 AGCTCAATT-CAGCTCACTCA
* * *
58171158 AGCTCAAGTCAACTCATTCA
1 AGCTCAATTCAGCTCACTCA
58171178 AGCTCAATTCAGCTCA
1 AGCTCAATTCAGCTCA
58171194 ATCTTAACCC
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
20 22 0.76
21 7 0.24
ACGTcount: A:0.28, C:0.33, G:0.12, T:0.26
Consensus pattern (20 bp):
AGCTCAATTCAGCTCACTCA
Found at i:58172753 original size:12 final size:11
Alignment explanation
Indices: 58172738--58172780 Score: 61
Period size: 11 Copynumber: 3.9 Consensus size: 11
58172728 AAAAGTGAGC
58172738 AAAAAAAG-AA
1 AAAAAAAGAAA
*
58172748 AAAAAAAGTAA
1 AAAAAAAGAAA
58172759 AAAAAAAGAACA
1 AAAAAAAGAA-A
58172771 AAAAAAAGAA
1 AAAAAAAGAA
58172781 GTGAAAAGTC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
10 8 0.27
11 11 0.37
12 11 0.37
ACGTcount: A:0.86, C:0.02, G:0.09, T:0.02
Consensus pattern (11 bp):
AAAAAAAGAAA
Found at i:58172778 original size:23 final size:23
Alignment explanation
Indices: 58172723--58172776 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
58172713 TCGAAATTCA
*
58172723 AAAAAAAAAGTGAGCAAAAAAAG
1 AAAAAAAAAGTGAGAAAAAAAAG
58172746 AAAAAAAAAGT-A-AAAAAAAAG
1 AAAAAAAAAGTGAGAAAAAAAAG
58172767 AACAAAAAAA
1 AA-AAAAAAA
58172777 AGAAGTGAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 10 0.34
22 8 0.28
23 11 0.38
ACGTcount: A:0.81, C:0.04, G:0.11, T:0.04
Consensus pattern (23 bp):
AAAAAAAAAGTGAGAAAAAAAAG
Found at i:58175660 original size:20 final size:20
Alignment explanation
Indices: 58175614--58175660 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
58175604 AGCTCGTTTC
*
58175614 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* * *
58175634 CAACTCATTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
58175654 CAGCTCA
1 CAGCTCA
58175661 ATCTTAACCC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.34, G:0.13, T:0.23
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:58184167 original size:55 final size:56
Alignment explanation
Indices: 58184072--58184197 Score: 209
Period size: 55 Copynumber: 2.3 Consensus size: 56
58184062 AGTAAGACCA
* *
58184072 TGGCATCGATATGTGGTTCCGATATATGTGTACGGGTAAGACCCTGTCTGGGACAG
1 TGGCATCGATATGTGGTTCCGATATATGTGTACGAGTAAGACCCTATCTGGGACAG
* *
58184128 TGGCATCGATATGTGGTT-CGATATATGTGTATGAGTAAGACCTTATCTGGGACAG
1 TGGCATCGATATGTGGTTCCGATATATGTGTACGAGTAAGACCCTATCTGGGACAG
58184183 TGGCATCGATATGTG
1 TGGCATCGATATGTG
58184198 ACTACATGTA
Statistics
Matches: 66, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
55 48 0.73
56 18 0.27
ACGTcount: A:0.23, C:0.15, G:0.31, T:0.31
Consensus pattern (56 bp):
TGGCATCGATATGTGGTTCCGATATATGTGTACGAGTAAGACCCTATCTGGGACAG
Found at i:58190176 original size:27 final size:26
Alignment explanation
Indices: 58190128--58190186 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 26
58190118 AGCAGCAGCT
*
58190128 ATTAAATTTGTCCCTAAGCTAGACAC
1 ATTAAATTTGTCCCTAAACTAGACAC
58190154 ATTAAATTGATGT-CCTAAACTAGACAC
1 ATTAAATT--TGTCCCTAAACTAGACAC
58190181 ATTAAA
1 ATTAAA
58190187 ACTATGTATT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 8 0.27
27 19 0.63
28 3 0.10
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.31
Consensus pattern (26 bp):
ATTAAATTTGTCCCTAAACTAGACAC
Found at i:58191306 original size:20 final size:20
Alignment explanation
Indices: 58191283--58191330 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
58191273 AGCTCCGTCC
58191283 AGCTCAACTCAGCTCATTTG
1 AGCTCAACTCAGCTCATTTG
*** *
58191303 AGCTCGTTTCAGCTCGTTTG
1 AGCTCAACTCAGCTCATTTG
58191323 AGCTCAAC
1 AGCTCAAC
58191331 CGAGCTTACT
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.21, C:0.29, G:0.19, T:0.31
Consensus pattern (20 bp):
AGCTCAACTCAGCTCATTTG
Found at i:58192827 original size:25 final size:23
Alignment explanation
Indices: 58192799--58192845 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
58192789 CCACGAACTT
*
58192799 CATTGAACAAGTCTGTCAAGCTGAG
1 CATTG-ACAAGT-TGGCAAGCTGAG
*
58192824 CATTGACATGTTGGCAAGCTGA
1 CATTGACAAGTTGGCAAGCTGA
58192846 TCCCAGCTCG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 10 0.50
24 5 0.25
25 5 0.25
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.26
Consensus pattern (23 bp):
CATTGACAAGTTGGCAAGCTGAG
Found at i:58192977 original size:30 final size:30
Alignment explanation
Indices: 58192941--58193037 Score: 99
Period size: 30 Copynumber: 3.2 Consensus size: 30
58192931 AGCTCACTCC
58192941 TAGCTCATA-TTCAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTCAGCTCACGAGCTAAACCT
* * * *
58192971 TAGCTCAACTTCAGCTTA-GCAGTTTAGCCT
1 TAGCTCAACTTCAGCTCACG-AGCTAAACCT
* * *
58193001 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
58193031 TAGCTCA
1 TAGCTCA
58193038 TTTTAGTTTA
Statistics
Matches: 52, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
29 2 0.04
30 49 0.94
31 1 0.02
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (30 bp):
TAGCTCAACTTCAGCTCACGAGCTAAACCT
Found at i:58195599 original size:21 final size:20
Alignment explanation
Indices: 58195565--58195632 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 20
58195555 ACATTTTTGT
58195565 AAAGAGAAAA-CAAAGAAAAGA
1 AAAGA-AAAAGCAAA-AAAAGA
*
58195586 AAAGAAAAAGCAAAAGAAGAA
1 AAAGAAAAAGCAAAAAAAG-A
* *
58195607 AAAGAAAACGAAATAAAAAGA
1 AAAGAAAAAGCAA-AAAAAGA
58195628 AAAGA
1 AAAGA
58195633 GAGGCAAGAG
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
20 8 0.20
21 27 0.68
22 5 0.12
ACGTcount: A:0.76, C:0.04, G:0.18, T:0.01
Consensus pattern (20 bp):
AAAGAAAAAGCAAAAAAAGA
Found at i:58195600 original size:6 final size:5
Alignment explanation
Indices: 58195576--58195632 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
58195566 AAGAGAAAAC
*
58195576 AAAGA AAAGA AAAGAA AAAGCA AAAGA AGA-A AAAGA AAACGA AATA-A
1 AAAGA AAAGA AAAG-A AAAG-A AAAGA AAAGA AAAGA AAA-GA AA-AGA
58195623 AAAGA AAAGA
1 AAAGA AAAGA
58195633 GAGGCAAGAG
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
4 4 0.09
5 25 0.57
6 14 0.32
7 1 0.02
ACGTcount: A:0.77, C:0.04, G:0.18, T:0.02
Consensus pattern (5 bp):
AAAGA
Found at i:58195607 original size:15 final size:14
Alignment explanation
Indices: 58195576--58195632 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
58195566 AAGAGAAAAC
58195576 AAAGAAAAGAAAAGAA
1 AAAGAAAAG--AAGAA
58195592 AAAGCAAAAGAAGAA
1 AAAG-AAAAGAAGAA
*
58195607 AAAGAAAACGAAATAA
1 AAAGAAAA-G-AAGAA
58195623 AAAGAAAAGA
1 AAAGAAAAGA
58195633 GAGGCAAGAG
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
14 5 0.14
15 11 0.30
16 16 0.43
17 5 0.14
ACGTcount: A:0.77, C:0.04, G:0.18, T:0.02
Consensus pattern (14 bp):
AAAGAAAAGAAGAA
Found at i:58195709 original size:12 final size:12
Alignment explanation
Indices: 58195701--58195725 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
58195691 TTTGAAAAGC
58195701 AAAAAGAAAATG
1 AAAAAGAAAATG
58195713 AAAAAGAAAATG
1 AAAAAGAAAATG
58195725 A
1 A
58195726 GATTGAAAAA
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:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (12 bp):
AAAAAGAAAATG
Found at i:58195722 original size:18 final size:18
Alignment explanation
Indices: 58195695--58195750 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
58195685 AAAGCTTTTG
58195695 AAAAGCAAAAAGAAAATGA
1 AAAAG-AAAAAGAAAATGA
* * *
58195714 AAAAGAAAATGAGATTGA
1 AAAAGAAAAAGAAAATGA
* *
58195732 AAAAGAGAACGAAAA-GA
1 AAAAGAAAAAGAAAATGA
58195749 AA
1 AA
58195751 TCTGAGAGTG
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
17 4 0.13
18 21 0.70
19 5 0.17
ACGTcount: A:0.70, C:0.04, G:0.20, T:0.07
Consensus pattern (18 bp):
AAAAGAAAAAGAAAATGA
Found at i:58195735 original size:30 final size:31
Alignment explanation
Indices: 58195701--58195782 Score: 105
Period size: 30 Copynumber: 2.7 Consensus size: 31
58195691 TTTGAAAAGC
*
58195701 AAAAAGAAAATGAAAAAGAAA-ATGAGATTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
* * *
58195731 AAAAAGAGAACG-AAAAGAAATCTGAGAGTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
*
58195761 AAAAAGAAGATGAAAAAGAAAT
1 AAAAAGAAAATGAAAAAGAAAT
58195783 TGAAACAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
29 8 0.19
30 26 0.60
31 9 0.21
ACGTcount: A:0.65, C:0.02, G:0.22, T:0.11
Consensus pattern (31 bp):
AAAAAGAAAATGAAAAAGAAATATGAGAGTG
Found at i:58198052 original size:30 final size:30
Alignment explanation
Indices: 58198018--58198114 Score: 88
Period size: 30 Copynumber: 3.2 Consensus size: 30
58198008 AGCTCACTCC
58198018 TAGCTCATA-TTCAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTCAGCTCACGAGCTAAACCT
* * * * * *
58198048 TAGCTTAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
* * * *
58198078 CAGCTCAACTTTAGCTCATGAGCTAAAGCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
58198108 TAGCTCA
1 TAGCTCA
58198115 TTTTAGTTTA
Statistics
Matches: 50, Mismatches: 16, Indels: 2
0.74 0.24 0.03
Matches are distributed among these distances:
29 1 0.02
30 49 0.98
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (30 bp):
TAGCTCAACTTCAGCTCACGAGCTAAACCT
Found at i:58201024 original size:30 final size:30
Alignment explanation
Indices: 58200990--58201086 Score: 99
Period size: 30 Copynumber: 3.2 Consensus size: 30
58200980 TAAACTAAAA
58200990 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * *
58201020 TGAGCTAAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCTAA-GCTTTAGCTCGTGAGCTAAAGT
* *
58201050 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
58201080 TGAGCTA
1 TGAGCTA
58201087 GGAGTGAGCT
Statistics
Matches: 52, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
29 1 0.02
30 46 0.88
31 5 0.10
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:58203215 original size:30 final size:30
Alignment explanation
Indices: 58203153--58203226 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 30
58203143 TTCTTTTGTT
* *
58203153 TCAATTTCTTTTTCATCTTCTTTTTCACTC
1 TCAATTTCTTTTTCATCTTCTTTTGCAATC
**
58203183 TCAAATTTCTTTTTGTTC-TCTTTTGCAATC
1 TC-AATTTCTTTTTCATCTTCTTTTGCAATC
*
58203213 TCATTTTCTTTTTC
1 TCAATTTCTTTTTC
58203227 TTTTTGCTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
29 10 0.27
30 14 0.38
31 13 0.35
ACGTcount: A:0.14, C:0.23, G:0.03, T:0.61
Consensus pattern (30 bp):
TCAATTTCTTTTTCATCTTCTTTTGCAATC
Found at i:58203310 original size:5 final size:5
Alignment explanation
Indices: 58203300--58203366 Score: 59
Period size: 5 Copynumber: 13.2 Consensus size: 5
58203290 CTCTTGCCTC
*
58203300 TCTTT TCTTT T-TATT TCGTTT TCTTT T-TCT TCTTTT TCTTTT TCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TC-TTT TC-TTT TCTTT
*
58203347 TCTTT TC-TT TGTTT TCTTT T
1 TCTTT TCTTT TCTTT TCTTT T
58203367 TACAAGAATG
Statistics
Matches: 52, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
4 7 0.13
5 30 0.58
6 14 0.27
7 1 0.02
ACGTcount: A:0.01, C:0.16, G:0.03, T:0.79
Consensus pattern (5 bp):
TCTTT
Found at i:58203323 original size:16 final size:14
Alignment explanation
Indices: 58203300--58203366 Score: 71
Period size: 16 Copynumber: 4.4 Consensus size: 14
58203290 CTCTTGCCTC
58203300 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-TT
*
58203315 TCGTTTTCTTTTTCT
1 TC-TTTTCTTTTTTT
58203330 TCTTTTTCTTTTTCTTT
1 TC-TTTTC-TTTT-TTT
*
58203347 TCTTTTCTTTGTTT
1 TCTTTTCTTTTTTT
58203361 TCTTTT
1 TCTTTT
58203367 TACAAGAATG
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
14 9 0.20
15 13 0.29
16 19 0.42
17 4 0.09
ACGTcount: A:0.01, C:0.16, G:0.03, T:0.79
Consensus pattern (14 bp):
TCTTTTCTTTTTTT
Found at i:58203338 original size:31 final size:31
Alignment explanation
Indices: 58203302--58203367 Score: 91
Period size: 31 Copynumber: 2.1 Consensus size: 31
58203292 CTTGCCTCTC
58203302 TTTTCTTTTT-ATTTCGTTTTCTTT-TTCTTCT
1 TTTTCTTTTTCATTTC-TTTTCTTTGTT-TTCT
*
58203333 TTTTCTTTTTCTTTTCTTTTCTTTGTTTTCT
1 TTTTCTTTTTCATTTCTTTTCTTTGTTTTCT
58203364 TTTT
1 TTTT
58203368 ACAAGAATGT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
31 26 0.81
32 6 0.19
ACGTcount: A:0.02, C:0.15, G:0.03, T:0.80
Consensus pattern (31 bp):
TTTTCTTTTTCATTTCTTTTCTTTGTTTTCT
Found at i:58205971 original size:30 final size:30
Alignment explanation
Indices: 58205937--58206033 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
58205927 TAAACTAAAA
58205937 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
58205967 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
58205997 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
58206027 TGAGCTA
1 TGAGCTA
58206034 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 2 0.04
30 42 0.84
31 6 0.12
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:58207492 original size:27 final size:25
Alignment explanation
Indices: 58207437--58207492 Score: 58
Period size: 27 Copynumber: 2.2 Consensus size: 25
58207427 CAACCTTAAC
* *
58207437 CCTAGGGTATATCAGTAATTTTACT
1 CCTAGGGTAAATCAGTAATTTTACA
* *
58207462 CCTAGGGGTAAATCTGTAAATTTTCCA
1 CCTA-GGGTAAATCAGT-AATTTTACA
58207489 CCTA
1 CCTA
58207493 TAAAGGTATT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
25 4 0.16
26 10 0.40
27 11 0.44
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.36
Consensus pattern (25 bp):
CCTAGGGTAAATCAGTAATTTTACA
Found at i:58208766 original size:30 final size:30
Alignment explanation
Indices: 58208744--58208828 Score: 107
Period size: 30 Copynumber: 2.8 Consensus size: 30
58208734 GCTCATATTC
58208744 AGCTCACGAGCTAAACCTTAGCTCAACTTT
1 AGCTCACGAGCTAAACCTTAGCTCAACTTT
* * * * * *
58208774 AGCTTAGGAGTTTAGCCTCAGCTCAACTTT
1 AGCTCACGAGCTAAACCTTAGCTCAACTTT
*
58208804 AGCTCACGAGCTAAAGCTTAGCTCA
1 AGCTCACGAGCTAAACCTTAGCTCA
58208829 TTTTAGTTTA
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (30 bp):
AGCTCACGAGCTAAACCTTAGCTCAACTTT
Found at i:58216262 original size:12 final size:12
Alignment explanation
Indices: 58216232--58216293 Score: 54
Period size: 12 Copynumber: 5.1 Consensus size: 12
58216222 AGAAAAGTCA
*
58216232 AAAGAAAAAGAG
1 AAAGAAAAAAAG
*
58216244 CAAGAAAAAAAG
1 AAAGAAAAAAAG
*
58216256 AATGAAAAATAA-
1 AAAGAAAAA-AAG
58216268 AAAGAAAAGAAAG
1 AAAGAAAA-AAAG
* *
58216281 TAGGAAAAAAAG
1 AAAGAAAAAAAG
58216293 A
1 A
58216294 GGAAAAAGTG
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
12 30 0.77
13 9 0.23
ACGTcount: A:0.74, C:0.02, G:0.19, T:0.05
Consensus pattern (12 bp):
AAAGAAAAAAAG
Found at i:58219275 original size:93 final size:93
Alignment explanation
Indices: 58219143--58219314 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
58219133 CGCCCATAAG
* * *
58219143 CGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
58219208 ACGAGCTCGGATGCCTAGTTACATTTCA
66 ACGAGCTCGGATGCCTAGTTACATTTCA
* *
58219236 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
58219301 ACGAGTTCGGATGC
66 ACGAGCTCGGATGC
58219315 TCAACCATCC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATTTCA
Found at i:58219311 original size:46 final size:46
Alignment explanation
Indices: 58219136--58219311 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
58219126 TGTAACCCGC
* * * *
58219136 CCATAAGCGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
* * *
58219182 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA---C-ATTTGCAT
* * *
58219232 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
* *
58219275 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
58219312 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
44 1 0.01
45 2 0.02
46 63 0.59
47 28 0.26
48 2 0.02
49 1 0.01
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
Found at i:58221147 original size:30 final size:30
Alignment explanation
Indices: 58221113--58221209 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
58221103 TAAACTAAAA
58221113 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
58221143 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
58221173 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
58221203 TGAGCTA
1 TGAGCTA
58221210 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 2 0.04
30 42 0.84
31 6 0.12
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:58223384 original size:30 final size:30
Alignment explanation
Indices: 58223313--58223395 Score: 89
Period size: 30 Copynumber: 2.7 Consensus size: 30
58223303 CTTTTGTTTC
* *
58223313 AATTTCTTTTTCATCTTCTTTTTCACTCTCA
1 AATTTCTTTTTCTTC-TCTTTTTCAATCTCA
58223344 AATTTC-TTTTCGTTCTCTTTTTCAATCTC-
1 AATTTCTTTTTC-TTCTCTTTTTCAATCTCA
* *
58223373 ATTTTCTTTTTCTTTTTCTTTTT
1 AATTTCTTTTTC-TTCTCTTTTT
58223396 GCTTTTCAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
29 5 0.11
30 32 0.71
31 8 0.18
ACGTcount: A:0.12, C:0.22, G:0.01, T:0.65
Consensus pattern (30 bp):
AATTTCTTTTTCTTCTCTTTTTCAATCTCA
Found at i:58223413 original size:12 final size:12
Alignment explanation
Indices: 58223398--58223428 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
58223388 TTCTTTTTGC
*
58223398 TTTTCAAAGGCT
1 TTTTCAAAGACT
58223410 TTTTCAAAGACT
1 TTTTCAAAGACT
58223422 TTTTCAA
1 TTTTCAA
58223429 GTTCTCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.29, C:0.16, G:0.10, T:0.45
Consensus pattern (12 bp):
TTTTCAAAGACT
Found at i:58223486 original size:5 final size:5
Alignment explanation
Indices: 58223476--58223532 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
58223466 CTCTTGCCTC
*
58223476 TCTTT TCTTT T-TATT TCGTTT TCTTT T-TCT TCTTT TGCTTTT TCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCTTT T-C-TTT TCTTT
58223523 TCTTT TCTTT
1 TCTTT TCTTT
58223533 GTTTTCTCTT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
4 4 0.09
5 29 0.66
6 6 0.14
7 5 0.11
ACGTcount: A:0.02, C:0.18, G:0.04, T:0.77
Consensus pattern (5 bp):
TCTTT
Found at i:58223516 original size:15 final size:14
Alignment explanation
Indices: 58223476--58223532 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
58223466 CTCTTGCCTC
*
58223476 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-CT
58223491 TCGTTTTCTTTTTCT
1 TC-TTTTCTTTTTCT
58223506 TCTTTTGCTTTTTCTTT
1 TCTTTT-CTTTTTC--T
58223523 TCTTTTCTTT
1 TCTTTTCTTT
58223533 GTTTTCTCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
14 4 0.11
15 12 0.32
16 14 0.38
17 7 0.19
ACGTcount: A:0.02, C:0.18, G:0.04, T:0.77
Consensus pattern (14 bp):
TCTTTTCTTTTTCT
Found at i:58223533 original size:21 final size:21
Alignment explanation
Indices: 58223476--58223543 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
58223466 CTCTTGCCTC
* *
58223476 TCTTTTCTTTT-TATTTCGTTT
1 TCTTTTCTTTTCT-TTGCTTTT
*
58223497 TCTTTT-TCTTCTTTTGCTTTT
1 TCTTTTCTTTTC-TTTGCTTTT
58223518 TCTTTTCTTTTCTTTG-TTTT
1 TCTTTTCTTTTCTTTGCTTTT
58223538 CTCTTT
1 -TCTTT
58223544 ACAAAAATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
20 7 0.18
21 27 0.69
22 5 0.13
ACGTcount: A:0.01, C:0.18, G:0.04, T:0.76
Consensus pattern (21 bp):
TCTTTTCTTTTCTTTGCTTTT
Found at i:58227979 original size:6 final size:5
Alignment explanation
Indices: 58227944--58228017 Score: 62
Period size: 5 Copynumber: 14.0 Consensus size: 5
58227934 ACATTCTTGT
* *
58227944 AAAGA AAAAA CAAAGA AAAGA AAAGAA AAAGCA AAAGCA AAAGA AGA-A
1 AAAGA AAAGA -AAAGA AAAGA AAAG-A AAAG-A AAAG-A AAAGA AAAGA
58227992 AAAGA AAATGA AATA-A AAAGA AAAGA
1 AAAGA AAA-GA AA-AGA AAAGA AAAGA
58228018 GAGGCAAGAG
Statistics
Matches: 58, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
4 4 0.07
5 29 0.50
6 24 0.41
7 1 0.02
ACGTcount: A:0.77, C:0.04, G:0.16, T:0.03
Consensus pattern (5 bp):
AAAGA
Found at i:58227984 original size:27 final size:27
Alignment explanation
Indices: 58227944--58228017 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
58227934 ACATTCTTGT
58227944 AAAGAAAAAACAAAGAAAAG-AAAAGAA
1 AAAGAAAAAACAAA-AAAAGAAAAAGAA
* * *
58227971 AAAGCAAAAGCAAAAGAAGAAAAAGAA
1 AAAGAAAAAACAAAAAAAGAAAAAGAA
* *
58227998 AATGAAATAAA-AAGAAAAGA
1 AAAGAAA-AAACAAAAAAAGA
58228018 GAGGCAAGAG
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
26 4 0.11
27 31 0.84
28 2 0.05
ACGTcount: A:0.77, C:0.04, G:0.16, T:0.03
Consensus pattern (27 bp):
AAAGAAAAAACAAAAAAAGAAAAAGAA
Found at i:58227985 original size:12 final size:10
Alignment explanation
Indices: 58227944--58228017 Score: 62
Period size: 11 Copynumber: 7.0 Consensus size: 10
58227934 ACATTCTTGT
*
58227944 AAAGAAAAAA
1 AAAGAAAAGA
58227954 CAAAGAAAAGA
1 -AAAGAAAAGA
58227965 AAAGAAAAAGCA
1 AAAG-AAAAG-A
58227977 AAAGCAAAAGA
1 AAAG-AAAAGA
*
58227988 AGA-AAAAGA
1 AAAGAAAAGA
58227997 AAATGAAATA-A
1 AAA-GAAA-AGA
58228008 AAAGAAAAGA
1 AAAGAAAAGA
58228018 GAGGCAAGAG
Statistics
Matches: 53, Mismatches: 4, Indels: 13
0.76 0.06 0.19
Matches are distributed among these distances:
9 9 0.17
10 9 0.17
11 24 0.45
12 11 0.21
ACGTcount: A:0.77, C:0.04, G:0.16, T:0.03
Consensus pattern (10 bp):
AAAGAAAAGA
Found at i:58227990 original size:21 final size:21
Alignment explanation
Indices: 58227944--58228015 Score: 69
Period size: 21 Copynumber: 3.4 Consensus size: 21
58227934 ACATTCTTGT
*
58227944 AAAGAAAAAAC-AAAGAAAAG
1 AAAGAAAAAGCAAAAGAAAAG
58227964 AAAAGAAAAAGCAAAAGCAAAAG
1 -AAAGAAAAAGCAAAAG-AAAAG
*
58227987 -AAGAAAAAG-AAAATGAAATAA
1 AAAGAAAAAGCAAAA-GAAA-AG
58228008 AAAGAAAA
1 AAAGAAAA
58228016 GAGAGGCAAG
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
20 7 0.16
21 21 0.48
22 11 0.25
23 5 0.11
ACGTcount: A:0.78, C:0.04, G:0.15, T:0.03
Consensus pattern (21 bp):
AAAGAAAAAGCAAAAGAAAAG
Found at i:58228101 original size:12 final size:12
Alignment explanation
Indices: 58228086--58228129 Score: 61
Period size: 12 Copynumber: 3.7 Consensus size: 12
58228076 TTTGAAAAAC
*
58228086 AAAAAGAAAATG
1 AAAAAGAGAATG
* *
58228098 AAAATGAGATTG
1 AAAAAGAGAATG
58228110 AAAAAGAGAATG
1 AAAAAGAGAATG
58228122 AAAAAGAG
1 AAAAAGAG
58228130 TTTGAGAGAG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.66, C:0.00, G:0.23, T:0.11
Consensus pattern (12 bp):
AAAAAGAGAATG
Found at i:58228113 original size:24 final size:24
Alignment explanation
Indices: 58228086--58228143 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
58228076 TTTGAAAAAC
*
58228086 AAAAAGAAAATGAAAATGAGATTG
1 AAAAAGAAAATGAAAAAGAGATTG
* *
58228110 AAAAAGAGAATGAAAAAGAGTTTG
1 AAAAAGAAAATGAAAAAGAGATTG
* *
58228134 AGAGAGAAAA
1 AAAAAGAAAA
58228144 AGAATGTGAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.62, C:0.00, G:0.24, T:0.14
Consensus pattern (24 bp):
AAAAAGAAAATGAAAAAGAGATTG
Found at i:58230508 original size:30 final size:30
Alignment explanation
Indices: 58230428--58230515 Score: 88
Period size: 30 Copynumber: 3.0 Consensus size: 30
58230418 CATATTCAGT
* *
58230428 TCACGAGCTAAACCTTAGCTCAGCTTAAGC
1 TCACGAGCTAAACCTTAGCTCAACTTTAGC
* * * * * *
58230458 TTAGGAGTTTAATCTCAGCTCAACTTTAGC
1 TCACGAGCTAAACCTTAGCTCAACTTTAGC
*
58230488 TCACGAGCTAAAGCTTAGCTCAA-TTTAG
1 TCACGAGCTAAACCTTAGCTCAACTTTAG
58230516 TTTAACTCGA
Statistics
Matches: 44, Mismatches: 14, Indels: 1
0.75 0.24 0.02
Matches are distributed among these distances:
29 5 0.11
30 39 0.89
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.30
Consensus pattern (30 bp):
TCACGAGCTAAACCTTAGCTCAACTTTAGC
Found at i:58233561 original size:21 final size:21
Alignment explanation
Indices: 58233543--58233583 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
58233533 TCTCTCATGT
58233543 TCTTTTCTTTCTTTTTCATTC
1 TCTTTTCTTTCTTTTTCATTC
58233564 TCTTTTCTTTCTTTTTCATT
1 TCTTTTCTTTCTTTTTCATT
58233584 TTCACTTTTT
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:0.05, C:0.22, G:0.00, T:0.73
Consensus pattern (21 bp):
TCTTTTCTTTCTTTTTCATTC
Found at i:58233564 original size:10 final size:10
Alignment explanation
Indices: 58233545--58233583 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
58233535 TCTCATGTTC
*
58233545 TTTTCTTTCT
1 TTTTCATTCT
58233555 TTTTCATTCT
1 TTTTCATTCT
*
58233565 CTTTTCTTTCT
1 -TTTTCATTCT
58233576 TTTTCATT
1 TTTTCATT
58233584 TTCACTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
10 16 0.64
11 9 0.36
ACGTcount: A:0.05, C:0.21, G:0.00, T:0.74
Consensus pattern (10 bp):
TTTTCATTCT
Found at i:58233565 original size:27 final size:28
Alignment explanation
Indices: 58233523--58233587 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 28
58233513 TCACAACTCT
58233523 TTTCTTTTTC-TCTCTCATGTTCTTT-TC
1 TTTCTTTTTCATCTCTC-TGTTCTTTCTC
* *
58233550 TTTCTTTTTCAT-TCTCTTTTCTTTCTT
1 TTTCTTTTTCATCTCTCTGTTCTTTCTC
*
58233577 TTTCATTTTCA
1 TTTCTTTTTCA
58233588 CTTTTTTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 7 0.21
27 25 0.76
28 1 0.03
ACGTcount: A:0.06, C:0.23, G:0.02, T:0.69
Consensus pattern (28 bp):
TTTCTTTTTCATCTCTCTGTTCTTTCTC
Found at i:58237288 original size:27 final size:27
Alignment explanation
Indices: 58237254--58237404 Score: 160
Period size: 27 Copynumber: 5.6 Consensus size: 27
58237244 TAAATTGTAC
* *
58237254 AGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
58237280 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
58237308 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * *
58237336 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
58237363 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
58237390 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
58237405 GACTCAATAT
Statistics
Matches: 108, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
26 1 0.01
27 84 0.78
28 23 0.21
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.28
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Done.