Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032249.1 Gossypioides kirkii chromosome KI_07
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: 37252039
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Warning! 2100 characters in sequence are not A, C, G, or T
File 54 of 120
Found at i:15877737 original size:18 final size:20
Alignment explanation
Indices: 15877699--15877737 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
15877689 GGCTTGTTTG
15877699 TAAAATTTTGAAAACTACAA
1 TAAAATTTTGAAAACTACAA
*
15877719 TAAAGTTTT-AAAA-TACAA
1 TAAAATTTTGAAAACTACAA
15877737 T
1 T
15877738 CCTTAAATGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 4 0.22
20 8 0.44
ACGTcount: A:0.54, C:0.08, G:0.05, T:0.33
Consensus pattern (20 bp):
TAAAATTTTGAAAACTACAA
Found at i:15878079 original size:97 final size:97
Alignment explanation
Indices: 15877904--15878097 Score: 264
Period size: 97 Copynumber: 2.0 Consensus size: 97
15877894 AACCTTAGAA
* * * *
15877904 AAGGATATTCGATTATCTCGATTTGAAGAATAGTCGCACCTAGTAAGTTAAGGTACAAATTTTCA
1 AAGGATATTCGATTATCTCGATTTGAAGAAAAATCACACCTAGTAAGTTAAGGCACAAATTTTCA
* * *
15877969 GAATCAGAGATAAAGAAACATTGCCTCGATTT
66 AAATCAGAAATAAAGAAACATTACCTCGATTT
* * * *
15878001 AAGGGTATTCGATTATTTCGATTTGAAGAAAAATTACGCCTAGTAAGTTAAGGCACAAATTTTCA
1 AAGGATATTCGATTATCTCGATTTGAAGAAAAATCACACCTAGTAAGTTAAGGCACAAATTTTCA
*
15878066 AAACTCA-AAATAAAGAAATATTACCTCGATTT
66 AAA-TCAGAAATAAAGAAACATTACCTCGATTT
15878098 TAAAGGTTTT
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
97 81 0.96
98 3 0.04
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.30
Consensus pattern (97 bp):
AAGGATATTCGATTATCTCGATTTGAAGAAAAATCACACCTAGTAAGTTAAGGCACAAATTTTCA
AAATCAGAAATAAAGAAACATTACCTCGATTT
Found at i:15878124 original size:97 final size:97
Alignment explanation
Indices: 15877942--15878120 Score: 211
Period size: 97 Copynumber: 1.9 Consensus size: 97
15877932 AATAGTCGCA
* * * * *
15877942 CCTAGTAAGTTAAGGTACAAATTTTCAGAATCAGAGATAAAGAAACATTGCCTCGATTTAAGGGT
1 CCTAGTAAGTTAAGGCACAAATTTTCAAAATCAGAAATAAAGAAACATTACCTCGATTTAAAGGT
* *** *
15878007 ATTCGATTATTTCGATTTGAAGAAAAATTACG
66 ATTCGATGAAAACAATTTGAAGAAAAATTACG
*
15878039 CCTAGTAAGTTAAGGCACAAATTTTCAAAACTCA-AAATAAAGAAATATTACCTCGATTTTAAAG
1 CCTAGTAAGTTAAGGCACAAATTTTCAAAA-TCAGAAATAAAGAAACATTACCTCGA-TTTAAAG
*
15878103 GT-TT-TATGAAAACAATTT
64 GTATTCGATGAAAACAATTT
15878121 TGAAAACAGA
Statistics
Matches: 68, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
96 8 0.12
97 49 0.72
98 11 0.16
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.31
Consensus pattern (97 bp):
CCTAGTAAGTTAAGGCACAAATTTTCAAAATCAGAAATAAAGAAACATTACCTCGATTTAAAGGT
ATTCGATGAAAACAATTTGAAGAAAAATTACG
Found at i:15878371 original size:29 final size:30
Alignment explanation
Indices: 15878339--15878742 Score: 231
Period size: 29 Copynumber: 13.7 Consensus size: 30
15878329 TGGATGCTTA
*
15878339 AGGGTAAAATGGTAA-TTTTAGATATTTTG
1 AGGGTAAAATGGTAATTTTTGGATATTTTG
*
15878368 AGGGTAAAATGGTAATTTTTGGAAATTTTG
1 AGGGTAAAATGGTAATTTTTGGATATTTTG
* * **
15878398 -GGGTCAAAATTGG-AATTTTTGAACA-TCCG
1 AGGGT-AAAA-TGGTAATTTTTGGATATTTTG
* * * * *
15878427 AGGGTAAAATAGTAATTTTTGAAAAGTTCG
1 AGGGTAAAATGGTAATTTTTGGATATTTTG
* * * **
15878457 AGGATAAAAATTG-AATTTTTTGATATTCAG
1 AGGGT-AAAATGGTAATTTTTGGATATTTTG
*
15878487 -GGGTAAAATGGTAATTTTTGGA-AGTTTCG
1 AGGGTAAAATGGTAATTTTTGGATA-TTTTG
* *
15878516 -GGTTCAAAAATGG-AATTTTTGGACA-TTTG
1 AGGGT--AAAATGGTAATTTTTGGATATTTTG
*
15878545 GGGGTAAAATGGTAATTTTTGGA-AGTTTT-
1 AGGGTAAAATGGTAATTTTTGGATA-TTTTG
* *
15878574 AAGGTCAAAAATGG-AATTTTTGGAT-GTTTG
1 AGGGT--AAAATGGTAATTTTTGGATATTTTG
* *
15878604 AGGGTAAAATGGTAATTCTT-GAAAGTTTTG
1 AGGGTAAAATGGTAATTTTTGGATA-TTTTG
15878634 -GGGTTAAAAATGG-AATTTTTGGATA-TTT-
1 AGGG-T-AAAATGGTAATTTTTGGATATTTTG
* * *
15878662 AGGGATAAAATGGTAATTTTT-TAAAGTTTTA
1 AGGG-TAAAATGGTAATTTTTGGATA-TTTTG
* ** **
15878693 AGGTTAAAAATGG-AATTTTTGGGCA-TCCG
1 AGGGT-AAAATGGTAATTTTTGGATATTTTG
15878722 AGGGTAAAATGGTAATTTTTG
1 AGGGTAAAATGGTAATTTTTG
15878743 AAAGTTTTAG
Statistics
Matches: 296, Mismatches: 45, Indels: 68
0.72 0.11 0.17
Matches are distributed among these distances:
28 42 0.14
29 109 0.37
30 100 0.34
31 45 0.15
ACGTcount: A:0.33, C:0.03, G:0.25, T:0.38
Consensus pattern (30 bp):
AGGGTAAAATGGTAATTTTTGGATATTTTG
Found at i:15878790 original size:59 final size:59
Alignment explanation
Indices: 15878364--15878868 Score: 440
Period size: 59 Copynumber: 8.5 Consensus size: 59
15878354 TTTTAGATAT
* *
15878364 TTTGAGGGTAAAATGGTAATTTTTGGAAA-TTTTGGGGTCAAAATTGGAATTTTT-GAACA
1 TTTGAGGGTAAAATGGTAATTTTT-GAAAGTTTTAGGGTCAAAAATGGAATTTTTGGAA-A
** * ** * * * *
15878423 TCCGAGGGTAAAATAGTAATTTTTGAAAAGTTCGAGGAT-AAAAATTGAATTTTTTGATA
1 TTTGAGGGTAAAATGGTAATTTTTG-AAAGTTTTAGGGTCAAAAATGGAATTTTTGGAAA
* * * *
15878482 -TTCAGGGGTAAAATGGTAATTTTTGGAAG-TTTCGGGTTCAAAAATGGAATTTTTGGACA
1 TTTGA-GGGTAAAATGGTAATTTTTGAAAGTTTTAGGG-TCAAAAATGGAATTTTTGGAAA
* * * **
15878541 TTTGGGGGTAAAATGGTAATTTTTGGAAGTTTTAAGGTCAAAAATGGAATTTTTGGATG
1 TTTGAGGGTAAAATGGTAATTTTTGAAAGTTTTAGGGTCAAAAATGGAATTTTTGGAAA
* * * *
15878600 TTTGAGGGTAAAATGGTAATTCTTGAAAGTTTTGGGGTTAAAAATGGAATTTTTGGATA
1 TTTGAGGGTAAAATGGTAATTTTTGAAAGTTTTAGGGTCAAAAATGGAATTTTTGGAAA
* * * **
15878659 TTT-AGGGATAAAATGGTAATTTTTTAAAGTTTTAAGGTTAAAAATGGAATTTTTGGGCA
1 TTTGAGGG-TAAAATGGTAATTTTTGAAAGTTTTAGGGTCAAAAATGGAATTTTTGGAAA
** ***
15878718 TCCGAGGGTAAAATGGTAATTTTTGAAAGTTTTAGGGTCAAAAAT-G-ATTTTCAAAAA
1 TTTGAGGGTAAAATGGTAATTTTTGAAAGTTTTAGGGTCAAAAATGGAATTTTTGGAAA
* * * * *
15878775 GTTTGTGGGTCAAAAT-GTAATTTTTGAAGAG-TTCAGAGG-CTAAAATGTACTTTTTGGAAA
1 -TTTGAGGGT-AAAATGGTAATTTTTGAA-AGTTTTAG-GGTCAAAAATGGAATTTTTGGAAA
**
15878835 GTTCAAGGGTTAAAAT-GTAATTTTTGGAAAGTTT
1 -TTTGAGGG-TAAAATGGTAATTTTT-GAAAGTTT
15878869 ATGGTTCAAA
Statistics
Matches: 363, Mismatches: 64, Indels: 36
0.78 0.14 0.08
Matches are distributed among these distances:
57 9 0.02
58 39 0.11
59 262 0.72
60 47 0.13
61 6 0.02
ACGTcount: A:0.34, C:0.04, G:0.25, T:0.38
Consensus pattern (59 bp):
TTTGAGGGTAAAATGGTAATTTTTGAAAGTTTTAGGGTCAAAAATGGAATTTTTGGAAA
Found at i:15878880 original size:30 final size:29
Alignment explanation
Indices: 15878369--15878902 Score: 191
Period size: 30 Copynumber: 18.1 Consensus size: 29
15878359 GATATTTTGA
*
15878369 GGGTAAAATGGTAATTTTTGGAAA-TTTTG
1 GGGTAAAAT-GTAATTTTTGGAAAGTTTAG
* **
15878398 GGGTCAAAATTGGAATTTTT-GAACA--TCCG
1 GGGT-AAAA-TGTAATTTTTGGAA-AGTTTAG
* *
15878427 AGGGTAAAATAGTAATTTTTGAAAAG-TTCG
1 -GGGTAAAAT-GTAATTTTTGGAAAGTTTAG
* * * *
15878457 AGGATAAAAAT-TGAATTTTTTGATA-TTCAG
1 -GGGT-AAAATGT-AATTTTTGGAAAGTTTAG
*
15878487 GGGTAAAATGGTAATTTTTGG-AAGTTTCG
1 GGGTAAAAT-GTAATTTTTGGAAAGTTTAG
* * * *
15878516 GGTTCAAAAATGGAATTTTTGGACA-TTTGG
1 GGGT--AAAATGTAATTTTTGGAAAGTTTAG
15878546 GGGTAAAATGGTAATTTTTGG-AAGTTTTA-
1 GGGTAAAAT-GTAATTTTTGGAAAG-TTTAG
* * *
15878575 AGGTCAAAAATGGAATTTTTGG-ATGTTT-G
1 GGGT--AAAATGTAATTTTTGGAAAGTTTAG
* *
15878604 AGGGTAAAATGGTAATTCTT-GAAAGTTTTG
1 -GGGTAAAAT-GTAATTTTTGGAAAGTTTAG
* *
15878634 GGGTTAAAAATGGAATTTTTGGATA-TTTAG
1 GGG-T-AAAATGTAATTTTTGGAAAGTTTAG
* * *
15878664 GGATAAAATGGTAATTTTT-TAAAGTTTTAA
1 GGGTAAAAT-GTAATTTTTGGAAAG-TTTAG
* * ** **
15878694 GGTTAAAAATGGAATTTTTGGGCA--TCCG
1 GGGT-AAAATGTAATTTTTGGAAAGTTTAG
15878722 AGGGTAAAATGGTAATTTTT-GAAAGTTTTA-
1 -GGGTAAAAT-GTAATTTTTGGAAAG-TTTAG
***
15878752 GGGTCAAAAATG--ATTTTCAAAAAGTTT-G
1 GGGT--AAAATGTAATTTTTGGAAAGTTTAG
*
15878780 TGGGTCAAAATGTAATTTTT-GAAGAGTTCAG
1 -GGGT-AAAATGTAATTTTTGGAA-AGTTTAG
* * *
15878811 AGGCTAAAATGTACTTTTTGGAAAGTTCAAG
1 -GGGTAAAATGTAATTTTTGGAAAGTT-TAG
* *
15878842 GGTTAAAATGTAATTTTTGGAAAGTTTAT
1 GGGTAAAATGTAATTTTTGGAAAGTTTAG
* * *
15878871 GGTTCAAAATATGATTTTT-GAATAGTTTAG
1 GGGT-AAAATGTAATTTTTGGAA-AGTTTAG
15878901 GG
1 GG
15878903 ACCTTTTGGG
Statistics
Matches: 381, Mismatches: 72, Indels: 103
0.69 0.13 0.19
Matches are distributed among these distances:
28 48 0.13
29 113 0.30
30 174 0.46
31 46 0.12
ACGTcount: A:0.34, C:0.04, G:0.25, T:0.38
Consensus pattern (29 bp):
GGGTAAAATGTAATTTTTGGAAAGTTTAG
Found at i:15878890 original size:177 final size:177
Alignment explanation
Indices: 15878367--15878879 Score: 535
Period size: 177 Copynumber: 2.9 Consensus size: 177
15878357 TAGATATTTT
* * * * **
15878367 GAGGGTAAAATGGTAATTTTTGGAAA-TTTTGGGGTCAAAATTGGAATTTTTGAACA-TCCGAGG
1 GAGGGTAAAATGGTAATTTTT-GAAAGTTTTAGGGTCAAAAATGGAA-TTTTAAAAAGTTTGAGG
* *
15878430 GTAAAATAGTAATTTTTGAAAAGTTCGAGGATAAAAAT-TGAATTTTTTGATATTCAGGGGTAAA
64 GTAAAATAGTAATTTTTG-AAAGTTCGAGGATAAAAATGT-AATTTTTGGATATTCAGGGATAAA
** **
15878494 ATGGTAATTTTTGG-AAGTTTCGGGTTCAAAAATGGAATTTTTGGACATTT
127 ATGGTAATTTTTGGAAAGTTTAAGGTTCAAAAATGGAATTTTTGGACATCC
* * * *** *
15878544 GGGGGTAAAATGGTAATTTTTGGAAGTTTTAAGGTCAAAAATGGAATTTTTGGATGTTTGAGGGT
1 GAGGGTAAAATGGTAATTTTTGAAAGTTTTAGGGTCAAAAATGGAATTTTAAAAAGTTTGAGGGT
* * * * * * *
15878609 AAAATGGTAATTCTTGAAAGTTTTGGGGTTAAAAATGGAATTTTTGGATATTTAGGGATAAAATG
66 AAAATAGTAATTTTTGAAAG-TTCGAGGATAAAAATGTAATTTTTGGATATTCAGGGATAAAATG
* *
15878674 GTAATTTTT-TAAAGTTTTAAGGTT-AAAAATGGAATTTTTGGGCATCC
130 GTAATTTTTGGAAAG-TTTAAGGTTCAAAAATGGAATTTTTGGACATCC
*
15878721 GAGGGTAAAATGGTAATTTTTGAAAGTTTTAGGGTCAAAAAT-G-ATTTTCAAAAAGTTTGTGGG
1 GAGGGTAAAATGGTAATTTTTGAAAGTTTTAGGGTCAAAAATGGAATTTT-AAAAAGTTTGAGGG
* * * *
15878784 TCAAAAT-GTAATTTTTGAAGAGTTCAGAGGCT-AAAATGTACTTTTTGGAAAGTTCAAGGGTTA
65 T-AAAATAGTAATTTTTGAA-AGTTC-GAGGATAAAAATGTAATTTTTGGATA-TTC-AGGGATA
*
15878847 AAAT-GTAATTTTTGGAAAGTTTATGGTTCAAAA
125 AAATGGTAATTTTTGGAAAGTTTAAGGTTCAAAA
15878880 TATGATTTTT
Statistics
Matches: 276, Mismatches: 46, Indels: 27
0.79 0.13 0.08
Matches are distributed among these distances:
175 5 0.02
176 51 0.18
177 195 0.71
178 25 0.09
ACGTcount: A:0.34, C:0.04, G:0.25, T:0.37
Consensus pattern (177 bp):
GAGGGTAAAATGGTAATTTTTGAAAGTTTTAGGGTCAAAAATGGAATTTTAAAAAGTTTGAGGGT
AAAATAGTAATTTTTGAAAGTTCGAGGATAAAAATGTAATTTTTGGATATTCAGGGATAAAATGG
TAATTTTTGGAAAGTTTAAGGTTCAAAAATGGAATTTTTGGACATCC
Found at i:15881880 original size:27 final size:26
Alignment explanation
Indices: 15881842--15881894 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
15881832 TTTTTGTGTG
*
15881842 GTTATTTATTTTCATGACTTTTTATT
1 GTTATTTATTTTCATGACTTTCTATT
* * *
15881868 GTTATCTTTTTTTTATTACTTTCTATT
1 GTTAT-TTATTTTCATGACTTTCTATT
15881895 TATTTTTCAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
26 5 0.23
27 17 0.77
ACGTcount: A:0.17, C:0.09, G:0.06, T:0.68
Consensus pattern (26 bp):
GTTATTTATTTTCATGACTTTCTATT
Found at i:15882047 original size:11 final size:11
Alignment explanation
Indices: 15882022--15882054 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
15882012 GCATTTCATA
*
15882022 TATTTA-TTGT
1 TATTTATTTAT
15882032 TATTTATTTAT
1 TATTTATTTAT
15882043 TATTTATTTAT
1 TATTTATTTAT
15882054 T
1 T
15882055 TGCTATTCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 6 0.29
11 15 0.71
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (11 bp):
TATTTATTTAT
Found at i:15882051 original size:15 final size:14
Alignment explanation
Indices: 15882022--15882055 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
15882012 GCATTTCATA
15882022 TATTTATTGTTATT
1 TATTTATTGTTATT
*
15882036 TATTTATTATTTATT
1 TATTTATT-GTTATT
15882051 TATTT
1 TATTT
15882056 GCTATTCATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (14 bp):
TATTTATTGTTATT
Found at i:15883986 original size:109 final size:109
Alignment explanation
Indices: 15883833--15884043 Score: 280
Period size: 109 Copynumber: 1.9 Consensus size: 109
15883823 TAAAGAACAC
** * * *
15883833 TTATCGATTTTAAAATAGGATGTTCAATTACTTAGATTCAAAGAAAAATCATACTCAATACGTTA
1 TTATCGATTTTAAAATAGGATACTCAATTACTTAGATTCAAAGAAAAACCATACCCAACACGTTA
* *
15883898 GGACACAATTTCTTGATTTCCCTAAAATAAAAGAACATTGAGCAT
66 GGACACAATTTCTCGAATT-CCTAAAATAAAAGAACATTGAGCAT
* * * * *
15883943 TTATTGATTTT-AAATAGGATACTCAATTATTTAGGTTCAAAGAAAAACCGTACCCAGCACGTTA
1 TTATCGATTTTAAAATAGGATACTCAATTACTTAGATTCAAAGAAAAACCATACCCAACACGTTA
* *
15884007 GGGCACAATTTCTCGAATTCCTAAAATAAAATAACAT
66 GGACACAATTTCTCGAATTCCTAAAATAAAAGAACAT
15884044 AACATTGCCT
Statistics
Matches: 87, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
108 17 0.20
109 60 0.69
110 10 0.11
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (109 bp):
TTATCGATTTTAAAATAGGATACTCAATTACTTAGATTCAAAGAAAAACCATACCCAACACGTTA
GGACACAATTTCTCGAATTCCTAAAATAAAAGAACATTGAGCAT
Found at i:15886093 original size:30 final size:30
Alignment explanation
Indices: 15886059--15886135 Score: 109
Period size: 30 Copynumber: 2.6 Consensus size: 30
15886049 ACATTGTGTG
*
15886059 TGTTCGCAACATGAGTGTTCACAGCTCTAA
1 TGTTCGCAACATGAGTGTTCACAGCTCCAA
* * *
15886089 TGTTCACAACATGAGTGTTCACAGGTCCAG
1 TGTTCGCAACATGAGTGTTCACAGCTCCAA
*
15886119 TGTTCGCAACACGAGTG
1 TGTTCGCAACATGAGTG
15886136 CTTGCAACTC
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.27
Consensus pattern (30 bp):
TGTTCGCAACATGAGTGTTCACAGCTCCAA
Found at i:15886107 original size:15 final size:15
Alignment explanation
Indices: 15886058--15886111 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
15886048 CACATTGTGT
*
15886058 GTGTTCGCAACATGA
1 GTGTTCACAACATGA
* *
15886073 GTGTTCACAGC-TCTA
1 GTGTTCACAACAT-GA
*
15886088 ATGTTCACAACATGA
1 GTGTTCACAACATGA
15886103 GTGTTCACA
1 GTGTTCACA
15886112 GGTCCAGTGT
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
14 1 0.03
15 28 0.93
16 1 0.03
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (15 bp):
GTGTTCACAACATGA
Found at i:15893245 original size:24 final size:24
Alignment explanation
Indices: 15893218--15893299 Score: 110
Period size: 24 Copynumber: 3.4 Consensus size: 24
15893208 AGCCCATACC
* *
15893218 AGCCCAGAATGATTAGCTCTTATG
1 AGCCCAGAATGGTTAGCTCTTACG
15893242 AGCCCAGAATGGTTAGCTCTTACG
1 AGCCCAGAATGGTTAGCTCTTACG
* * * *
15893266 AGCCTAAAAAGGTTAGCTCTTGCG
1 AGCCCAGAATGGTTAGCTCTTACG
15893290 AGCCCAGAAT
1 AGCCCAGAAT
15893300 CAGAATAACG
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 49 1.00
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.24
Consensus pattern (24 bp):
AGCCCAGAATGGTTAGCTCTTACG
Found at i:15893333 original size:27 final size:27
Alignment explanation
Indices: 15893281--15893357 Score: 118
Period size: 27 Copynumber: 2.8 Consensus size: 27
15893271 AAAAAGGTTA
*
15893281 GCTCTTGCGAGCCCAGAATCAGAATAAC
1 GCTCTTTCGAG-CCAGAATCAGAATAAC
* *
15893309 GCTCTTTCGAGCTAGAATTAGAATAAC
1 GCTCTTTCGAGCCAGAATCAGAATAAC
15893336 GCTCTTTCGAGCCAGAATCAGA
1 GCTCTTTCGAGCCAGAATCAGA
15893358 TTACTCCTAA
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
27 34 0.77
28 10 0.23
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.23
Consensus pattern (27 bp):
GCTCTTTCGAGCCAGAATCAGAATAAC
Found at i:15897958 original size:24 final size:24
Alignment explanation
Indices: 15897931--15898012 Score: 119
Period size: 24 Copynumber: 3.4 Consensus size: 24
15897921 AGCCCACACA
* *
15897931 AGCCCAGAATTGTTAGCTCTTATG
1 AGCCCAGAATGGTTAGCTCTTACG
*
15897955 AGCCCGGAATGGTTAGCTCTTACG
1 AGCCCAGAATGGTTAGCTCTTACG
* *
15897979 AGCCCGGAATGGTTAGCTTTTACG
1 AGCCCAGAATGGTTAGCTCTTACG
15898003 AGCCCAGAAT
1 AGCCCAGAAT
15898013 CAGAATAACG
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 53 1.00
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (24 bp):
AGCCCAGAATGGTTAGCTCTTACG
Found at i:15899518 original size:50 final size:50
Alignment explanation
Indices: 15899437--15899954 Score: 464
Period size: 50 Copynumber: 10.4 Consensus size: 50
15899427 CAAATCTTAT
* * * * *
15899437 AGCTGTAAAGGGGCAAATTGAAGTCACGAAGGTGAATCTTATACCCCTAA
1 AGCTGTAGAGGGGCAGATTGAAGCCGCAAAGGTGAATCTTATACCCCTAA
* * **
15899487 AGCTGTAGAGGGGTAGATTAAAGCCGTGAAGGTGAATCTTATACCCCTAA
1 AGCTGTAGAGGGGCAGATTGAAGCCGCAAAGGTGAATCTTATACCCCTAA
* * * * * *
15899537 AGCTATAAATGGGCATATTGAAGCCGCAAAAGTGAATCTTATACCCTTAA
1 AGCTGTAGAGGGGCAGATTGAAGCCGCAAAGGTGAATCTTATACCCCTAA
* ** * * * **
15899587 AGCTGTAAAGGGATAGATTGAAGCTGCAAAAGAGAATCTTATACCTTTAA
1 AGCTGTAGAGGGGCAGATTGAAGCCGCAAAGGTGAATCTTATACCCCTAA
** * * *
15899637 AGCAATAGAGGGGCAGATTAAAGTCGCGAAGGTGAATCTTATACCCCTAA
1 AGCTGTAGAGGGGCAGATTGAAGCCGCAAAGGTGAATCTTATACCCCTAA
* * * *
15899687 AGCTAG-AGAGGGGCAGATTGAAGCTGCAAAAGTGAATCTTACACACCTAA
1 AGCT-GTAGAGGGGCAGATTGAAGCCGCAAAGGTGAATCTTATACCCCTAA
* * **
15899737 AGCTGTAGAGGGGTAGATTGAAGCCGCGAAGGCAAATCTTATA-CCCTAA
1 AGCTGTAGAGGGGCAGATTGAAGCCGCAAAGGTGAATCTTATACCCCTAA
* ** * * * * ** *
15899786 AACTACAAAAGGGCAAATTGAAGCTGCAAAGGCAAATCTTATACCTCTAA
1 AGCTGTAGAGGGGCAGATTGAAGCCGCAAAGGTGAATCTTATACCCCTAA
* * * ** * * *
15899836 AGCTATAGAAGGGTAGATTGAAGCTACAAAAGTGAATCTTATGCCCTTAA
1 AGCTGTAGAGGGGCAGATTGAAGCCGCAAAGGTGAATCTTATACCCCTAA
** * * * *
15899886 AGCTGTAGAAAGGTAGATTAAAGCCACAAACGTGAATCTTATACCCCTAA
1 AGCTGTAGAGGGGCAGATTGAAGCCGCAAAGGTGAATCTTATACCCCTAA
*
15899936 AGCTGTAGAGGAGCAGATT
1 AGCTGTAGAGGGGCAGATT
15899955 AAATTTACGA
Statistics
Matches: 377, Mismatches: 88, Indels: 6
0.80 0.19 0.01
Matches are distributed among these distances:
49 40 0.11
50 337 0.89
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.22
Consensus pattern (50 bp):
AGCTGTAGAGGGGCAGATTGAAGCCGCAAAGGTGAATCTTATACCCCTAA
Found at i:15899708 original size:150 final size:149
Alignment explanation
Indices: 15899470--15900010 Score: 570
Period size: 150 Copynumber: 3.6 Consensus size: 149
15899460 TCACGAAGGT
* * * * **
15899470 GAATCTTATACCCCTAAAGCTGTAGAGGGGTAGATTAAAGCCGTGAAGGTGAATCTTATACCCCT
1 GAATCTTATACCCCTAAAGCTATAGAGGGGCAGATTAAAGTCGCGAAGGCAAATCTTATACCCCT
* * * *
15899535 AAAGCTATAAATGGGCATATTGAAGCCGCAAAAGTGAATCTTATACCCTTAAAGCTGTAAAGGGA
66 AAAGCTATAGAGGGGCAGATTGAAGCTGCAAAAGTGAATCTTATACCCTTAAAGCTGTAAAGGG-
*
15899600 TAGATTGAAGCTGCAAAAGA
130 TAGATTGAAGCCGCAAAAGA
** * **
15899620 GAATCTTATACCTTTAAAGCAATAGAGGGGCAGATTAAAGTCGCGAAGGTGAATCTTATACCCCT
1 GAATCTTATACCCCTAAAGCTATAGAGGGGCAGATTAAAGTCGCGAAGGCAAATCTTATACCCCT
* * *
15899685 AAAGCTAGAGAGGGGCAGATTGAAGCTGCAAAAGTGAATCTTACACACC-TAAAGCTGTAGAGGG
66 AAAGCTATAGAGGGGCAGATTGAAGCTGCAAAAGTGAATCTTATAC-CCTTAAAGCTGTA-AAGG
* *
15899749 GTAGATTGAAGCCGCGAAGGCA
129 GTAGATTGAAGCCGCAAAAG-A
* * * * * * * *
15899771 -AATCTTATA-CCCTAAAACTACAAAAGGGCAAATTGAAG-CTGCAAAGGCAAATCTTATACCTC
1 GAATCTTATACCCCTAAAGCTATAGAGGGGCAGATTAAAGTC-GCGAAGGCAAATCTTATACCCC
* * * * *
15899833 TAAAGCTATAGAAGGGTAGATTGAAGCTACAAAAGTGAATCTTATGCCCTTAAAGCTGTAGAAAG
65 TAAAGCTATAGAGGGGCAGATTGAAGCTGCAAAAGTGAATCTTATACCCTTAAAGCTGTA-AAGG
* * * *
15899898 GTAGATTAAAGCCACAAACGT
129 GTAGATTGAAGCCGCAAAAGA
* * * ** * *
15899919 GAATCTTATACCCCTAAAGCTGTAGAGGAGCAGATTAAATTTACGAAAGCAAATAC-TATTCCCC
1 GAATCTTATACCCCTAAAGCTATAGAGGGGCAGATTAAAGTCGCGAAGGCAAAT-CTTATACCCC
*
15899983 TAAAGATATAGAGGGGCAGATTGAAGCT
65 TAAAGCTATAGAGGGGCAGATTGAAGCT
15900011 AAAGAAAGCA
Statistics
Matches: 321, Mismatches: 61, Indels: 18
0.80 0.15 0.05
Matches are distributed among these distances:
148 3 0.01
149 117 0.36
150 193 0.60
151 8 0.02
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (149 bp):
GAATCTTATACCCCTAAAGCTATAGAGGGGCAGATTAAAGTCGCGAAGGCAAATCTTATACCCCT
AAAGCTATAGAGGGGCAGATTGAAGCTGCAAAAGTGAATCTTATACCCTTAAAGCTGTAAAGGGT
AGATTGAAGCCGCAAAAGA
Found at i:15899809 original size:49 final size:50
Alignment explanation
Indices: 15899753--15899859 Score: 144
Period size: 49 Copynumber: 2.2 Consensus size: 50
15899743 AGAGGGGTAG
*
15899753 ATTGAAGCCGCGAAGGCAAATCTTATACC-CTAAAACTACAAAAGGGCAA
1 ATTGAAGCCGCAAAGGCAAATCTTATACCTCTAAAACTACAAAAGGGCAA
* * * * * *
15899802 ATTGAAGCTGCAAAGGCAAATCTTATACCTCTAAAGCTATAGAAGGGTAG
1 ATTGAAGCCGCAAAGGCAAATCTTATACCTCTAAAACTACAAAAGGGCAA
15899852 ATTGAAGC
1 ATTGAAGC
15899860 TACAAAAGTG
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
49 27 0.54
50 23 0.46
ACGTcount: A:0.40, C:0.19, G:0.21, T:0.21
Consensus pattern (50 bp):
ATTGAAGCCGCAAAGGCAAATCTTATACCTCTAAAACTACAAAAGGGCAA
Found at i:15901549 original size:32 final size:31
Alignment explanation
Indices: 15901480--15901549 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
15901470 CATTTATTCC
* * * *
15901480 TATTTTTTTAATTTAGACCTTGTTGTTTTAT
1 TATTTATTTAATTTAGACCCTATTATTTTAT
* *
15901511 TTTTTATTTAATTTAGTCCCTATTATTCTTAT
1 TATTTATTTAATTTAGACCCTATTATT-TTAT
15901543 TATTTAT
1 TATTTAT
15901550 ATTTACTTGT
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
31 21 0.68
32 10 0.32
ACGTcount: A:0.21, C:0.09, G:0.06, T:0.64
Consensus pattern (31 bp):
TATTTATTTAATTTAGACCCTATTATTTTAT
Found at i:15901600 original size:19 final size:17
Alignment explanation
Indices: 15901578--15901621 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
15901568 GCATTTAATT
15901578 TTTATTTAATTTTTGTGTG
1 TTTATTT-ATTTTTGTG-G
15901597 TTTATTT-TTTTTGTGG
1 TTTATTTATTTTTGTGG
15901613 -TTATTTATT
1 TTTATTTATT
15901622 ATCATGACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 6 0.25
16 3 0.12
17 8 0.33
19 7 0.29
ACGTcount: A:0.14, C:0.00, G:0.14, T:0.73
Consensus pattern (17 bp):
TTTATTTATTTTTGTGG
Found at i:15909481 original size:21 final size:22
Alignment explanation
Indices: 15909450--15909491 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
15909440 AAAATATTGA
15909450 TAAAACAATAG-AAGCAAAACAG
1 TAAAACAATAGCAAG-AAAACAG
15909472 TAAAA-AATAGCAAGAAAACA
1 TAAAACAATAGCAAGAAAACA
15909492 ACAAAAAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.67, C:0.12, G:0.12, T:0.10
Consensus pattern (22 bp):
TAAAACAATAGCAAGAAAACAG
Found at i:15909497 original size:21 final size:21
Alignment explanation
Indices: 15909451--15909499 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
15909441 AAATATTGAT
**
15909451 AAAACAATAGAAGCAAAACAGT
1 AAAA-AATAGAAGCAAAACAAC
15909473 AAAAAATAGCAAG-AAAACAAC
1 AAAAAATAG-AAGCAAAACAAC
15909494 AAAAAA
1 AAAAAA
15909500 ACAACTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.71, C:0.12, G:0.10, T:0.06
Consensus pattern (21 bp):
AAAAAATAGAAGCAAAACAAC
Found at i:15912668 original size:18 final size:18
Alignment explanation
Indices: 15912647--15912703 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
15912637 CTATTTTCCT
15912647 TTTTCTCTGCTTTCTTTA
1 TTTTCTCTGCTTTCTTTA
15912665 TTTTCT-TG--TTCTTT-
1 TTTTCTCTGCTTTCTTTA
* * *
15912679 GTTACTTCTACTTTCTTTA
1 TTTTC-TCTGCTTTCTTTA
15912698 TTTTCT
1 TTTTCT
15912704 TTTCCTTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 10
0.66 0.11 0.23
Matches are distributed among these distances:
14 3 0.10
15 7 0.24
16 1 0.03
17 2 0.07
18 13 0.45
19 3 0.10
ACGTcount: A:0.07, C:0.19, G:0.05, T:0.68
Consensus pattern (18 bp):
TTTTCTCTGCTTTCTTTA
Found at i:15912697 original size:33 final size:31
Alignment explanation
Indices: 15912640--15912724 Score: 104
Period size: 33 Copynumber: 2.7 Consensus size: 31
15912630 TTTCCTTCTA
15912640 TTTTCCTTTTT-C-TCTGCTTTCTTTATTTTC
1 TTTTCCTTTTTACTTCT-CTTTCTTTATTTTC
15912670 TTGTT-CTTTGTTACTTCTACTTTCTTTATTTTC
1 TT-TTCCTTT-TTACTTCT-CTTTCTTTATTTTC
*
15912703 TTTTCCTTTTTATTTCTCTTTC
1 TTTTCCTTTTTACTTCTCTTTC
15912725 CTTTTTGATA
Statistics
Matches: 48, Mismatches: 2, Indels: 9
0.81 0.03 0.15
Matches are distributed among these distances:
30 6 0.12
31 9 0.19
32 10 0.21
33 23 0.48
ACGTcount: A:0.06, C:0.21, G:0.04, T:0.69
Consensus pattern (31 bp):
TTTTCCTTTTTACTTCTCTTTCTTTATTTTC
Found at i:15912716 original size:17 final size:17
Alignment explanation
Indices: 15912694--15912730 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
15912684 TTCTACTTTC
15912694 TTTATTT-TCTTTTCCTT
1 TTTATTTCTC-TTTCCTT
15912711 TTTATTTCTCTTTCCTT
1 TTTATTTCTCTTTCCTT
15912728 TTT
1 TTT
15912731 GATATGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.89
18 2 0.11
ACGTcount: A:0.05, C:0.19, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTATTTCTCTTTCCTT
Found at i:15916131 original size:29 final size:30
Alignment explanation
Indices: 15916079--15916152 Score: 89
Period size: 29 Copynumber: 2.5 Consensus size: 30
15916069 AAATTTAAAC
* * *
15916079 TTTTTTTAAATATTCTTTAGAATTTT-TAA
1 TTTTTTTAAATATTATATAGAATTTTGCAA
15916108 TTTTTTTAAATATATATATA-AATTTTGCAA
1 TTTTTTTAAATAT-TATATAGAATTTTGCAA
15916138 TTTTTTATAAATATT
1 TTTTTT-TAAATATT
15916153 TTGAATTTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
29 19 0.49
30 13 0.33
31 7 0.18
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (30 bp):
TTTTTTTAAATATTATATAGAATTTTGCAA
Found at i:15916146 original size:21 final size:20
Alignment explanation
Indices: 15916129--15916185 Score: 59
Period size: 18 Copynumber: 3.0 Consensus size: 20
15916119 ATATATATAA
15916129 ATTTTGCAATTTTTTATAAAT
1 ATTTTG-AATTTTTTATAAAT
*
15916150 ATTTTGAA--TTTTAAAAATT
1 ATTTTGAATTTTTTATAAA-T
15916169 ATTTT-AATTTTTT-TAAA
1 ATTTTGAATTTTTTATAAA
15916186 ATTAGTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
18 10 0.32
19 9 0.29
20 6 0.19
21 6 0.19
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.58
Consensus pattern (20 bp):
ATTTTGAATTTTTTATAAAT
Found at i:15916161 original size:19 final size:20
Alignment explanation
Indices: 15916129--15916185 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 20
15916119 ATATATATAA
15916129 ATTTTGCAATTTTTTATAAA-T
1 ATTTTG-AA-TTTTTATAAATT
*
15916150 ATTTTGAA-TTTTAAAAATT
1 ATTTTGAATTTTTATAAATT
*
15916169 ATTTT-AATTTTTTTAAA
1 ATTTTGAATTTTTATAAA
15916186 ATTAGTTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
18 10 0.32
19 13 0.42
20 2 0.06
21 6 0.19
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.58
Consensus pattern (20 bp):
ATTTTGAATTTTTATAAATT
Found at i:15916186 original size:20 final size:20
Alignment explanation
Indices: 15916129--15916194 Score: 66
Period size: 20 Copynumber: 3.2 Consensus size: 20
15916119 ATATATATAA
15916129 ATTTTGCAATTTTTTATAAA-T
1 ATTTTG-AATTTTTTA-AAATT
*
15916150 ATTTTGAA-TTTTAAAAATT
1 ATTTTGAATTTTTTAAAATT
15916169 ATTTT-AATTTTTTTAAAATT
1 ATTTTGAA-TTTTTTAAAATT
15916189 AGTTTT
1 A-TTTT
15916195 TTTTTCGAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
18 5 0.13
19 11 0.28
20 13 0.33
21 10 0.26
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.59
Consensus pattern (20 bp):
ATTTTGAATTTTTTAAAATT
Found at i:15932336 original size:36 final size:36
Alignment explanation
Indices: 15932274--15932342 Score: 90
Period size: 35 Copynumber: 1.9 Consensus size: 36
15932264 AGATAATTTA
15932274 TCTAAAAATAAACTTTATATTTAAAA-TATAAAAAT
1 TCTAAAAATAAACTTTATATTTAAAATTATAAAAAT
15932309 TCTAAAAGATAAA-TTTA-ATTTAAAAAATTATAAA
1 TCTAAAA-ATAAACTTTATATTT--AAAATTATAAA
15932343 GTAAAACGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
34 4 0.13
35 11 0.37
36 9 0.30
37 6 0.20
ACGTcount: A:0.58, C:0.04, G:0.01, T:0.36
Consensus pattern (36 bp):
TCTAAAAATAAACTTTATATTTAAAATTATAAAAAT
Found at i:15942685 original size:17 final size:17
Alignment explanation
Indices: 15942658--15942690 Score: 50
Period size: 16 Copynumber: 1.9 Consensus size: 17
15942648 AAATCATTCA
15942658 TATTCAATTCAAATATAC
1 TATTCAATTC-AATATAC
15942676 TATT-AATTCAATATA
1 TATTCAATTCAATATA
15942691 AATTTTCATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 5 0.33
18 4 0.27
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.42
Consensus pattern (17 bp):
TATTCAATTCAATATAC
Found at i:15944596 original size:18 final size:18
Alignment explanation
Indices: 15944573--15944608 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
15944563 ACGAATAATT
15944573 GCGAATATTGTTGTATCA
1 GCGAATATTGTTGTATCA
15944591 GCGAATATTGTTGTATCA
1 GCGAATATTGTTGTATCA
15944609 TATTTTCTTC
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:0.28, C:0.11, G:0.22, T:0.39
Consensus pattern (18 bp):
GCGAATATTGTTGTATCA
Found at i:15947704 original size:29 final size:28
Alignment explanation
Indices: 15947672--15947732 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 28
15947662 AAAATGAGAC
15947672 TTTTGGATATC-CGGGGGGCAAAATGGTAA
1 TTTTGGA-ATCGC-GGGGGCAAAATGGTAA
* *
15947701 TTTTGGACTCGCGGGGGCTAAATGGTAA
1 TTTTGGAATCGCGGGGGCAAAATGGTAA
15947729 TTTT
1 TTTT
15947733 CGATGAAATC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 21 0.72
29 8 0.28
ACGTcount: A:0.23, C:0.11, G:0.33, T:0.33
Consensus pattern (28 bp):
TTTTGGAATCGCGGGGGCAAAATGGTAA
Found at i:15947791 original size:30 final size:30
Alignment explanation
Indices: 15947757--15947853 Score: 78
Period size: 30 Copynumber: 3.3 Consensus size: 30
15947747 TCAAAAAGAG
15947757 AATTTTGGAAAATTTGAGGGTAAAATAGTA
1 AATTTTGGAAAATTTGAGGGTAAAATAGTA
*
15947787 AATTTTGGTTAAA-TTG-GGGTTAAAA-ATGT-
1 AATTTTGG-AAAATTTGAGGG-TAAAATA-GTA
* * *
15947816 AATTTTAGAAAGTTT-AGGGGTAAAATGGTA
1 AATTTTGGAAAATTTGA-GGGTAAAATAGTA
*
15947846 ATTTTTGG
1 AATTTTGG
15947854 TGAAACCGAG
Statistics
Matches: 52, Mismatches: 7, Indels: 16
0.69 0.09 0.21
Matches are distributed among these distances:
28 2 0.04
29 20 0.38
30 27 0.52
31 3 0.06
ACGTcount: A:0.37, C:0.00, G:0.25, T:0.38
Consensus pattern (30 bp):
AATTTTGGAAAATTTGAGGGTAAAATAGTA
Found at i:15947812 original size:59 final size:59
Alignment explanation
Indices: 15947727--15947912 Score: 178
Period size: 59 Copynumber: 3.1 Consensus size: 59
15947717 GCTAAATGGT
* *
15947727 AATTTTCGATGAAATCGGGGTCAAAAA-GAGAATTTTGGAAAATTT-GAGGGTAAAATAGTA
1 AATTTT-GGTGAAATCGGGGTTAAAAACG-GAATTTTGGAAAATTTAG-GGGTAAAATAGTA
* * * * * * *
15947787 AATTTTGGTTAAATTGGGGTTAAAAATGTAATTTTAGAAAGTTTAGGGGTAAAATGGTA
1 AATTTTGGTGAAATCGGGGTTAAAAACGGAATTTTGGAAAATTTAGGGGTAAAATAGTA
* * * * * * *
15947846 ATTTTTGGTGAAACCGAGGTTAAAAACGGAATTTTGGGAAGTTCAGGGGTAAAATGGTA
1 AATTTTGGTGAAATCGGGGTTAAAAACGGAATTTTGGAAAATTTAGGGGTAAAATAGTA
*
15947905 ATTTTTGG
1 AATTTTGG
15947913 ACCATCCAAG
Statistics
Matches: 106, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
59 98 0.92
60 8 0.08
ACGTcount: A:0.37, C:0.04, G:0.27, T:0.33
Consensus pattern (59 bp):
AATTTTGGTGAAATCGGGGTTAAAAACGGAATTTTGGAAAATTTAGGGGTAAAATAGTA
Found at i:15947907 original size:29 final size:29
Alignment explanation
Indices: 15947809--15947909 Score: 75
Period size: 29 Copynumber: 3.5 Consensus size: 29
15947799 ATTGGGGTTA
* * *
15947809 AAAAT-GTAATTTTAGAAAGTTTAGGGGT
1 AAAATGGTAATTTTGGGAAGTTCAGGGGT
* * *
15947837 AAAATGGTAATTTTTGGTGAA--ACCGAGGTT
1 AAAATGGTAA-TTTTGG-GAAGTTCAG-GGGT
*
15947867 AAAAACGG-AATTTTGGGAAGTTCAGGGGT
1 -AAAATGGTAATTTTGGGAAGTTCAGGGGT
15947896 AAAATGGTAATTTT
1 AAAATGGTAATTTT
15947910 TGGACCATCC
Statistics
Matches: 54, Mismatches: 11, Indels: 15
0.68 0.14 0.19
Matches are distributed among these distances:
28 14 0.26
29 20 0.37
30 12 0.22
31 8 0.15
ACGTcount: A:0.37, C:0.04, G:0.27, T:0.33
Consensus pattern (29 bp):
AAAATGGTAATTTTGGGAAGTTCAGGGGT
Found at i:15949858 original size:6 final size:6
Alignment explanation
Indices: 15949811--15949900 Score: 73
Period size: 6 Copynumber: 15.7 Consensus size: 6
15949801 TTTTGGGCTT
* * * *
15949811 TTTAAT TTTAAT TTTAAA ATT--A TTTCAAA TTTAAA -CTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTT-AAA TTTAAA TTTAAA TTTAAA
* * *
15949857 TTTAAA -ATAAA TTTAAA TTTAAA TTTAAA -ATAAA TTTAAT TTTA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTA
15949901 GAAATACATT
Statistics
Matches: 68, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
4 3 0.04
5 12 0.18
6 49 0.72
7 4 0.06
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (6 bp):
TTTAAA
Found at i:15949877 original size:23 final size:23
Alignment explanation
Indices: 15949847--15949900 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
15949837 AAATTTAAAC
15949847 TAAATTTAAATTTAAAATAAATT
1 TAAATTTAAATTTAAAATAAATT
15949870 TAAATTTAAATTTAAAATAAATT
1 TAAATTTAAATTTAAAATAAATT
*
15949893 TAATTTTA
1 TAAATTTA
15949901 GAAATACATT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (23 bp):
TAAATTTAAATTTAAAATAAATT
Found at i:15949900 original size:17 final size:17
Alignment explanation
Indices: 15949817--15949913 Score: 70
Period size: 17 Copynumber: 5.3 Consensus size: 17
15949807 GCTTTTTAAT
*
15949817 TTTAATTTTAAAAT-TA
1 TTTAATTTTAAAATAAA
* *
15949833 TTTCAAATTTAAACTAAA
1 TTT-AATTTTAAAATAAA
*
15949851 TTTAAATTTAAAATAAA
1 TTTAATTTTAAAATAAA
15949868 TTTAAATTTAAATTTAAAATAAA
1 TTT-AA--T---TTTAAAATAAA
*
15949891 TTTAATTTTAGAAATACA
1 TTTAATTTTA-AAATAAA
15949909 TTTAA
1 TTTAA
15949914 AAATCATTTT
Statistics
Matches: 66, Mismatches: 6, Indels: 16
0.75 0.07 0.18
Matches are distributed among these distances:
16 3 0.05
17 29 0.44
18 17 0.26
20 1 0.02
22 2 0.03
23 14 0.21
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (17 bp):
TTTAATTTTAAAATAAA
Found at i:15949913 original size:18 final size:17
Alignment explanation
Indices: 15949817--15949879 Score: 83
Period size: 17 Copynumber: 3.7 Consensus size: 17
15949807 GCTTTTTAAT
* *
15949817 TTTAATTTTAAAAT-TA
1 TTTAAATTTAAAATAAA
*
15949833 TTTCAAATTTAAACTAAA
1 TTT-AAATTTAAAATAAA
15949851 TTTAAATTTAAAATAAA
1 TTTAAATTTAAAATAAA
15949868 TTTAAATTTAAA
1 TTTAAATTTAAA
15949880 TTTAAAATAA
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
16 3 0.07
17 34 0.83
18 4 0.10
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:15950265 original size:76 final size:76
Alignment explanation
Indices: 15950178--15950692 Score: 897
Period size: 76 Copynumber: 6.8 Consensus size: 76
15950168 TCAATTTTAG
* *
15950178 AGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTT
1 AGAGATAAAGACTTGTTATCCAACTTTACTTCAATTTCAAGAGGATAGGAAATGATGTTGCTCTT
*
15950243 ACCTCAATTTC
66 ACTTCAATTTC
* *
15950254 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGAGGTTGCTCTT
1 AGAGATAAAGACTTGTTATCCAACTTTACTTCAATTTCAAGAGGATAGGAAATGATGTTGCTCTT
15950319 ACTTCAATTTC
66 ACTTCAATTTC
* * *
15950330 AGAGATAAAGACTTGTTATCCAGCTCTACTTCAATTTCAAGAGGATAGGAAATGAGGTTGCTCTT
1 AGAGATAAAGACTTGTTATCCAACTTTACTTCAATTTCAAGAGGATAGGAAATGATGTTGCTCTT
15950395 ACTTCAATTTC
66 ACTTCAATTTC
* * *
15950406 AGAGATAAAGACTTGTTATCCAGCTGTACTTCAATTTCAAGAGGATAGGAAATGATGTTGCTCTG
1 AGAGATAAAGACTTGTTATCCAACTTTACTTCAATTTCAAGAGGATAGGAAATGATGTTGCTCTT
15950471 ACTTCAATTTC
66 ACTTCAATTTC
* *
15950482 AGAGATAAAGACTTGTTATCCAACTTTACTTTAATTTCAAGAGGATAGGAAATGAGGTTGCTCTT
1 AGAGATAAAGACTTGTTATCCAACTTTACTTCAATTTCAAGAGGATAGGAAATGATGTTGCTCTT
15950547 ACTTCAATTTC
66 ACTTCAATTTC
*
15950558 AGAGATAAAGACTTGTTATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAATGATGTTGCTCTT
1 AGAGATAAAGACTTGTTATCCAACTTTACTTCAATTTCAAGAGGATAGGAAATGATGTTGCTCTT
15950623 ACTTCAA-TTC
66 ACTTCAATTTC
15950633 AGAGATAAAGACTTGTTATCCAACTTTACTTCAATTTCAAGAGGATAGGAAATGATGTTG
1 AGAGATAAAGACTTGTTATCCAACTTTACTTCAATTTCAAGAGGATAGGAAATGATGTTG
15950693 GTGCTTCATT
Statistics
Matches: 421, Mismatches: 18, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
75 62 0.15
76 359 0.85
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (76 bp):
AGAGATAAAGACTTGTTATCCAACTTTACTTCAATTTCAAGAGGATAGGAAATGATGTTGCTCTT
ACTTCAATTTC
Found at i:15962993 original size:59 final size:59
Alignment explanation
Indices: 15962901--15963093 Score: 255
Period size: 59 Copynumber: 3.3 Consensus size: 59
15962891 CACGGGGGCT
* * *
15962901 AAATGGTAATTTTCGATGAAATCGAGGTCAAAAA-GAGAATTTTGGAAAATTTGAGGGTA
1 AAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATG-GAATTTTGGAAAATTTGAGGGTA
* * * *
15962960 AAATAGTAATTTTTGGTTAAATTGGGGTTAAAAATGGAATTTTGGAAAATTT-AGGGGTA
1 AAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAATTTGA-GGGTA
* * * *
15963019 AAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGGAAGTTCGGGGGTA
1 AAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAATTTGAGGGTA
15963078 AAATGGTAATTTTTGG
1 AAATGGTAATTTTTGG
15963094 ACCATCCAAG
Statistics
Matches: 116, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
58 1 0.01
59 114 0.98
60 1 0.01
ACGTcount: A:0.36, C:0.03, G:0.27, T:0.34
Consensus pattern (59 bp):
AAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAATTTGAGGGTA
Found at i:15963029 original size:29 final size:28
Alignment explanation
Indices: 15962938--15963090 Score: 107
Period size: 29 Copynumber: 5.2 Consensus size: 28
15962928 TCAAAAAGAG
*
15962938 AATTTTGGAAAATTTGAGGGTAAAATAGT
1 AATTTTGGAAAATTTG-GGGTAAAATGGT
*
15962967 AATTTTTGGTTAAA-TTGGGGTTAAAAATGG-
1 AA-TTTTGG-AAAATTTGGGG-T-AAAATGGT
15962997 AATTTTGGAAAATTTAGGGGTAAAATGGT
1 AATTTTGGAAAATTT-GGGGTAAAATGGT
* * *
15963026 AATTTTTGGTGAAA-TCGAGGTTAAAAATGG-
1 AA-TTTTGG-AAAATTTG-GGGT-AAAATGGT
* * *
15963056 AATTTTGGGAAGTTCGGGGGTAAAATGGT
1 AATTTTGGAAAATT-TGGGGTAAAATGGT
15963085 AATTTT
1 AATTTT
15963091 TGGACCATCC
Statistics
Matches: 101, Mismatches: 9, Indels: 28
0.73 0.07 0.20
Matches are distributed among these distances:
28 20 0.20
29 33 0.33
30 29 0.29
31 19 0.19
ACGTcount: A:0.35, C:0.01, G:0.27, T:0.36
Consensus pattern (28 bp):
AATTTTGGAAAATTTGGGGTAAAATGGT
Found at i:15965033 original size:18 final size:17
Alignment explanation
Indices: 15964997--15965118 Score: 121
Period size: 17 Copynumber: 7.4 Consensus size: 17
15964987 GCTTTTTAAT
* *
15964997 TTTAATTTTAAAAT-TA
1 TTTAAATTTAAAATAAA
*
15965013 TTTCAAATTTAAACTAAA
1 TTT-AAATTTAAAATAAA
15965031 TTTAAATTTAAAATAAA
1 TTTAAATTTAAAATAAA
*
15965048 TTTAAATTTAAAAATGAA
1 TTTAAATTT-AAAATAAA
15965066 TTTAAA-TT----TAAA
1 TTTAAATTTAAAATAAA
*
15965078 TTTAAATTTAAAGTAAA
1 TTTAAATTTAAAATAAA
*
15965095 TTTAATTTTAGAAATAAA
1 TTTAAATTTA-AAATAAA
15965113 TTTAAA
1 TTTAAA
15965119 AATCATTTTA
Statistics
Matches: 88, Mismatches: 9, Indels: 16
0.78 0.08 0.14
Matches are distributed among these distances:
12 9 0.10
13 2 0.02
16 3 0.03
17 46 0.52
18 28 0.32
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:15965038 original size:6 final size:6
Alignment explanation
Indices: 15964991--15965118 Score: 97
Period size: 6 Copynumber: 22.0 Consensus size: 6
15964981 TTTTGGGCTT
* * * *
15964991 TTTAAT TTTAAT TTTAAA ATT--A TTTCAAA TTTAAA -CTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTT-AAA TTTAAA TTTAAA TTTAAA
* ** *
15965037 TTTAAA -ATAAA TTTAAA TTTAAA AATGAA TTTAAA TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * *
15965084 TTTAAA -GTAAA TTTAAT TTTAGAA -ATAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTA-AA TTTAAA TTTAAA
15965119 AATCATTTTA
Statistics
Matches: 95, Mismatches: 19, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
4 3 0.03
5 14 0.15
6 73 0.77
7 5 0.05
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (6 bp):
TTTAAA
Found at i:15965087 original size:47 final size:46
Alignment explanation
Indices: 15965017--15965118 Score: 150
Period size: 47 Copynumber: 2.2 Consensus size: 46
15965007 AAATTATTTC
15965017 AAATTTAAACTAAATTTAAATTTAAAATAAATTTAAATTTAAAAAT
1 AAATTTAAACTAAATTTAAATTTAAAATAAATTTAAATTTAAAAAT
* * * * *
15965063 GAATTTAAATTTAAATTTAAATTTAAAGTAAATTTAATTTTAGAAAT
1 AAATTTAAA-CTAAATTTAAATTTAAAATAAATTTAAATTTAAAAAT
15965110 AAATTTAAA
1 AAATTTAAA
15965119 AATCATTTTA
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
46 8 0.16
47 41 0.84
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.41
Consensus pattern (46 bp):
AAATTTAAACTAAATTTAAATTTAAAATAAATTTAAATTTAAAAAT
Found at i:15965129 original size:47 final size:47
Alignment explanation
Indices: 15965017--15965141 Score: 144
Period size: 47 Copynumber: 2.7 Consensus size: 47
15965007 AAATTATTTC
*
15965017 AAATTT-AAACTAAATTTAAATTTAAAATAAATTTAAATTTAAAAAT
1 AAATTTAAAAATAAATTTAAATTTAAAATAAATTTAAATTTAAAAAT
* ** * * *
15965063 GAATTTAAATTTAAATTTAAATTTAAAGTAAATTTAATTTTAGAAAT
1 AAATTTAAAAATAAATTTAAATTTAAAATAAATTTAAATTTAAAAAT
* * * *
15965110 AAATTTAAAAATCATTTTAAACTTAAATTAAA
1 AAATTTAAAAATAAATTTAAATTTAAAATAAA
15965142 ATTGACCCAA
Statistics
Matches: 65, Mismatches: 13, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
46 5 0.08
47 60 0.92
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (47 bp):
AAATTTAAAAATAAATTTAAATTTAAAATAAATTTAAATTTAAAAAT
Found at i:15965530 original size:76 final size:76
Alignment explanation
Indices: 15965403--15965939 Score: 903
Period size: 76 Copynumber: 7.0 Consensus size: 76
15965393 AGGTTTCATC
* * *
15965403 TTGCTCTTACTTCAATTTTAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTCAAGAGG
1 TTGCTCTTACTTCAA-TTT-CAGAGATAAAGACTTGTTATCCAGCTTTACTTCAATTTCAAGAGG
*
15965468 ATAGGAAATGATC
64 ATAGGAAATGATG
* * *
15965481 TTGCTTTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAGCTTTACTTCAATTTCAAGAGGAT
*
15965546 AGGAAATGAGG
66 AGGAAATGATG
*
15965557 TTGCTCTTACTTCAATTTTAGAGATAAAGACTTGTTATCCAGCTTTACTTCAATTTCAAGAGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAGCTTTACTTCAATTTCAAGAGGAT
*
15965622 AAGAAATGATG
66 AGGAAATGATG
15965633 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAGCTTTACTTCAATTTCAAGAGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAGCTTTACTTCAATTTCAAGAGGAT
15965698 AGGAAATGATG
66 AGGAAATGATG
* *
15965709 TTGCTCTGACTTCAATTTCAGAGATAAAGACTTGTTATCCAGCTTTACTTTAATTTCAAGAGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAGCTTTACTTCAATTTCAAGAGGAT
*
15965774 AGGAAATGAGG
66 AGGAAATGATG
*
15965785 TTGCTCTTACTTCAATTTTAGAGATAAAGACTTGTTATCCAGCTTTACTTCAATTTCAAGAGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAGCTTTACTTCAATTTCAAGAGGAT
*
15965850 AGGAAATGATT
66 AGGAAATGATG
* *
15965861 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTTTCCAACTTTACTTCAATTTCAAGAGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAGCTTTACTTCAATTTCAAGAGGAT
15965926 AGGAAATGATG
66 AGGAAATGATG
15965937 TTG
1 TTG
15965940 GTGCTTCATT
Statistics
Matches: 433, Mismatches: 26, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
76 416 0.96
77 3 0.01
78 14 0.03
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (76 bp):
TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAGCTTTACTTCAATTTCAAGAGGAT
AGGAAATGATG
Found at i:15981068 original size:4 final size:4
Alignment explanation
Indices: 15981059--15981125 Score: 75
Period size: 4 Copynumber: 16.5 Consensus size: 4
15981049 TAAATGTGCT
* *
15981059 AATA AATAA AATA AA-A GATA AATA AATA AATA ACATA AATGA AAGA AAT-
1 AATA AAT-A AATA AATA AATA AATA AATA AATA A-ATA AAT-A AATA AATA
15981108 AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AA
15981126 ACATAAAGAA
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
3 5 0.09
4 38 0.70
5 11 0.20
ACGTcount: A:0.73, C:0.01, G:0.04, T:0.21
Consensus pattern (4 bp):
AATA
Found at i:15981109 original size:18 final size:17
Alignment explanation
Indices: 15981076--15981136 Score: 58
Period size: 15 Copynumber: 3.8 Consensus size: 17
15981066 AAAATAAAAG
*
15981076 ATAAATAAATAAATAAC
1 ATAAATAAAGAAATAAC
15981093 ATAAATGAAAGAAAT-A-
1 ATAAAT-AAAGAAATAAC
*
15981109 ATAAATAAATAAATAA-
1 ATAAATAAAGAAATAAC
*
15981125 A-ACATAAAGAAA
1 ATAAATAAAGAAA
15981137 CATAAAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
15 16 0.42
16 8 0.21
17 7 0.18
18 7 0.18
ACGTcount: A:0.72, C:0.03, G:0.05, T:0.20
Consensus pattern (17 bp):
ATAAATAAAGAAATAAC
Found at i:15981145 original size:37 final size:38
Alignment explanation
Indices: 15981062--15981146 Score: 99
Period size: 37 Copynumber: 2.3 Consensus size: 38
15981052 ATGTGCTAAT
15981062 AAATAAAATAAAAGATAAATAAATAAATAACATAAATG
1 AAATAAAATAAAAGATAAATAAATAAATAACATAAATG
*
15981100 AAA-GAAATAATAA-ATAAATAAAT-AA-AACATAAA-G
1 AAATAAAATAA-AAGATAAATAAATAAATAACATAAATG
15981134 AAACATAAAATAA
1 -AA-ATAAAATAA
15981147 GGGACCGAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
34 1 0.02
35 10 0.24
36 3 0.07
37 22 0.54
38 5 0.12
ACGTcount: A:0.73, C:0.04, G:0.05, T:0.19
Consensus pattern (38 bp):
AAATAAAATAAAAGATAAATAAATAAATAACATAAATG
Found at i:15981396 original size:5 final size:5
Alignment explanation
Indices: 15981386--15981410 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
15981376 AGGGTAAATG
15981386 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
15981411 GGATGAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:15982837 original size:100 final size:100
Alignment explanation
Indices: 15982733--15983490 Score: 749
Period size: 100 Copynumber: 7.6 Consensus size: 100
15982723 AGGAAGACAA
* * * * * * * * *
15982733 GATTTAATATTATAACTTTATCTAGCTCCACTGCATCTTCAGGGAGATAGGACTTGCTAATGCAA
1 GATTTGATGTTATAACTTCATCTTGCTCCACTGCATCTTTAGGGAGATAAGATTTGCTAATGTAG
* *
15982798 ATTCAATCTAATCCACTTCAACTTCAGGGATATAG
66 CTTCAATCTGATCCACTTCAACTTCAGGGATATAG
* * *
15982833 GATTTGATGTTGTAACTTCATCTTGCTCAACTGCATCTTTAGGGAGATAAGACTTGCTAATGTAG
1 GATTTGATGTTATAACTTCATCTTGCTCCACTGCATCTTTAGGGAGATAAGATTTGCTAATGTAG
* *
15982898 TTTCAAT-TCGATCCACTACAACCTT-AGGGATATAG
66 CTTCAATCT-GATCCACTTCAA-CTTCAGGGATATAG
* * * * *
15982933 GATTTGATGTCATAACTTCATCCTGCTCTACTACATCTTTAGGGAGATAAGATTTTC-ATATGTA
1 GATTTGATGTTATAACTTCATCTTGCTCCACTGCATCTTTAGGGAGATAAGATTTGCTA-ATGTA
** * * * *
15982997 TTTTCAATTTGATGCACTGCAACTTCAGAGATATAG
65 GCTTCAATCTGATCCACTTCAACTTCAGGGATATAG
* * * * **
15983033 GATTTGAT-TTCGTAACTTCATCTTGGTCCATTACATCTTTAGGGAGATAAGATTTGCTTTTGTA
1 GATTTGATGTT-ATAACTTCATCTTGCTCCACTGCATCTTTAGGGAGATAAGATTTGCTAATGTA
* ** *
15983097 GCTTTAATAAGATCCACTGCAACTTCAGGGATATAG
65 GCTTCAATCTGATCCACTTCAACTTCAGGGATATAG
* * ** * ** *
15983133 GATTTGATGTTGTAGCTTTTTCTTGCTCCACTGCATCTTTAGGGAGATACGATTTGCTTCTCTAG
1 GATTTGATGTTATAACTTCATCTTGCTCCACTGCATCTTTAGGGAGATAAGATTTGCTAATGTAG
** * * * *
15983198 CTTCAATCCAATCGACTACAACTTTAGGGATATAA
66 CTTCAATCTGATCCACTTCAACTTCAGGGATATAG
* * * * **
15983233 GATTTGGTGTTATAGCTTCATCTTGCTCCCCTGCATCTTTAGGGAGATAATATTTGCTTCTGTAG
1 GATTTGATGTTATAACTTCATCTTGCTCCACTGCATCTTTAGGGAGATAAGATTTGCTAATGTAG
* *
15983298 CTTCAATAC-GATTCACTGT-AACTTTAGGGATATAG
66 CTTCAAT-CTGATCCACT-TCAACTTCAGGGATATAG
* * * * * * * *
15983333 G-TTTGGTGTTGTAGCTTCATCTTGCTCCATTGCATCTTCAAGGAGATAAGATTTTCTACTGTAG
1 GATTTGATGTTATAACTTCATCTTGCTCCACTGCATCTTTAGGGAGATAAGATTTGCTAATGTAG
15983397 CTTCAATCTGATCCACTAT-AACTTCAGGGATATAG
66 CTTCAATCTGATCCACT-TCAACTTCAGGGATATAG
* * * * *
15983432 GATTTGATATTATAGCTTCATCTTGCTCCACTGCATCTTCAGGGAGGTGAGATTTGCTA
1 GATTTGATGTTATAACTTCATCTTGCTCCACTGCATCTTTAGGGAGATAAGATTTGCTA
15983491 TCGTGGTTTC
Statistics
Matches: 557, Mismatches: 89, Indels: 24
0.83 0.13 0.04
Matches are distributed among these distances:
98 1 0.00
99 92 0.17
100 457 0.82
101 7 0.01
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.37
Consensus pattern (100 bp):
GATTTGATGTTATAACTTCATCTTGCTCCACTGCATCTTTAGGGAGATAAGATTTGCTAATGTAG
CTTCAATCTGATCCACTTCAACTTCAGGGATATAG
Found at i:15983299 original size:50 final size:50
Alignment explanation
Indices: 15982759--15983489 Score: 345
Period size: 50 Copynumber: 14.6 Consensus size: 50
15982749 TTTATCTAGC
* * * ** * ** *
15982759 TCCACTGCATCTTCAGGGAGATAGGACTTGCTAATGCAAATTCAATC-TAA
1 TCCACTGCATCTTTAGGGAGATAAGATTTGCTGTTGTAGCTTC-ATCTTGA
* * * * * * * *
15982809 TCCACTTCAACTTCAGGGATATAGGATTTGATGTTGTAACTTCATCTTGC
1 TCCACTGCATCTTTAGGGAGATAAGATTTGCTGTTGTAGCTTCATCTTGA
* * ** * *
15982859 TCAACTGCATCTTTAGGGAGATAAGACTTGCTAATGTAGTTTCAAT-TCGA
1 TCCACTGCATCTTTAGGGAGATAAGATTTGCTGTTGTAGCTTC-ATCTTGA
* * * * * * ** * * *
15982909 TCCACTACAACCTTAGGGATATAGGATTTGATGTCATAACTTCATCCTGC
1 TCCACTGCATCTTTAGGGAGATAAGATTTGCTGTTGTAGCTTCATCTTGA
* * * * **
15982959 TCTACTACATCTTTAGGGAGATAAGATTTTCAT-ATGTATTTTCAAT-TTGA
1 TCCACTGCATCTTTAGGGAGATAAGATTTGC-TGTTGTAGCTTC-ATCTTGA
* * * * * * * * *
15983009 TGCACTGCAACTTCAGAGATATAGGATTTGAT-TTCGTAACTTCATCTTGG
1 TCCACTGCATCTTTAGGGAGATAAGATTTGCTGTT-GTAGCTTCATCTTGA
* * * * **
15983059 TCCATTACATCTTTAGGGAGATAAGATTTGCTTTTGTAGCTTTAAT-AAGA
1 TCCACTGCATCTTTAGGGAGATAAGATTTGCTGTTGTAGC-TTCATCTTGA
* * * * * ** *
15983109 TCCACTGCAACTTCAGGGATATAGGATTTGATGTTGTAGCTTTTTCTTGC
1 TCCACTGCATCTTTAGGGAGATAAGATTTGCTGTTGTAGCTTCATCTTGA
* * **
15983159 TCCACTGCATCTTTAGGGAGATACGATTTGCT-TCTCTAGCTTCAATC-CAA
1 TCCACTGCATCTTTAGGGAGATAAGATTTGCTGT-TGTAGCTTC-ATCTTGA
* * * * * * *
15983209 TCGACTACAACTTTAGGGATATAAGATTTGGTGTTATAGCTTCATCTTGC
1 TCCACTGCATCTTTAGGGAGATAAGATTTGCTGTTGTAGCTTCATCTTGA
* *
15983259 TCCCCTGCATCTTTAGGGAGATAATATTTGCT-TCTGTAGCTTCAATAC--GA
1 TCCACTGCATCTTTAGGGAGATAAGATTTGCTGT-TGTAGCTTC-AT-CTTGA
* * * * * * *
15983309 TTCACTGTAACTTTAGGGATAT-AGGTTTGGTGTTGTAGCTTCATCTTGC
1 TCCACTGCATCTTTAGGGAGATAAGATTTGCTGTTGTAGCTTCATCTTGA
* * * * **
15983358 TCCATTGCATCTTCAAGGAGATAAGATTTTCTACTGTAGCTTCAATC-TGA
1 TCCACTGCATCTTTAGGGAGATAAGATTTGCTGTTGTAGCTTC-ATCTTGA
** * * * * * * * *
15983408 TCCACTATAACTTCAGGGATATAGGATTTGATATTATAGCTTCATCTTGC
1 TCCACTGCATCTTTAGGGAGATAAGATTTGCTGTTGTAGCTTCATCTTGA
* * *
15983458 TCCACTGCATCTTCAGGGAGGTGAGATTTGCT
1 TCCACTGCATCTTTAGGGAGATAAGATTTGCT
15983490 ATCGTGGTTT
Statistics
Matches: 489, Mismatches: 169, Indels: 46
0.69 0.24 0.07
Matches are distributed among these distances:
47 1 0.00
48 2 0.00
49 51 0.10
50 415 0.85
51 19 0.04
52 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.37
Consensus pattern (50 bp):
TCCACTGCATCTTTAGGGAGATAAGATTTGCTGTTGTAGCTTCATCTTGA
Found at i:15986273 original size:23 final size:22
Alignment explanation
Indices: 15986241--15986356 Score: 90
Period size: 23 Copynumber: 5.0 Consensus size: 22
15986231 AGCACGCTTA
*
15986241 CTGTTCAGCACTGTTTGTGCTCT
1 CTGTTTAGCACT-TTTGTGCTCT
* *
15986264 CTGTTTAGCATCTCTCGTGCTCT
1 CTGTTTAGCA-CTTTTGTGCTCT
* *
15986287 CTGTTTAGCATCTCTCGTGCTCT
1 CTGTTTAGCA-CTTTTGTGCTCT
*
15986310 CTGTTATTATCACTTCGTT-TGCTCT
1 CTG-T-TTAGCACTT--TTGTGCTCT
*
15986335 CTGATTAGCACTTTGTGTGCTC
1 CTGTTTAGCACTTT-TGTGCTC
15986357 AGTACTTTGT
Statistics
Matches: 78, Mismatches: 8, Indels: 14
0.78 0.08 0.14
Matches are distributed among these distances:
21 1 0.01
22 1 0.01
23 56 0.72
24 5 0.06
25 14 0.18
26 1 0.01
ACGTcount: A:0.10, C:0.27, G:0.18, T:0.45
Consensus pattern (22 bp):
CTGTTTAGCACTTTTGTGCTCT
Found at i:15991828 original size:4 final size:4
Alignment explanation
Indices: 15991819--15991884 Score: 59
Period size: 4 Copynumber: 16.5 Consensus size: 4
15991809 TAAATGTGCT
*
15991819 AATA AATAA AATA AA-A TAA-A AATA AATA AATA ACATA AATGA AAGA
1 AATA AAT-A AATA AATA -AATA AATA AATA AATA A-ATA AAT-A AATA
15991865 AATA AA-A AATA AA-A AATA AA
1 AATA AATA AATA AATA AATA AA
15991885 GAAACATAAA
Statistics
Matches: 53, Mismatches: 2, Indels: 14
0.77 0.03 0.20
Matches are distributed among these distances:
3 9 0.17
4 33 0.62
5 11 0.21
ACGTcount: A:0.77, C:0.02, G:0.03, T:0.18
Consensus pattern (4 bp):
AATA
Found at i:15991858 original size:33 final size:32
Alignment explanation
Indices: 15991820--15991883 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 32
15991810 AAATGTGCTA
15991820 ATAAATAAAATAAAAT-AAAAATAAATAAATAAC
1 ATAAATAAAA-AAAATAAAAAATAAA-AAATAAC
* *
15991853 ATAAATGAAAGAAATAAAAAATAAAAAATAA
1 ATAAATAAAAAAAATAAAAAATAAAAAATAA
15991884 AGAAACATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 10 0.36
33 18 0.64
ACGTcount: A:0.77, C:0.02, G:0.03, T:0.19
Consensus pattern (32 bp):
ATAAATAAAAAAAATAAAAAATAAAAAATAAC
Found at i:15991885 original size:22 final size:23
Alignment explanation
Indices: 15991831--15991898 Score: 70
Period size: 22 Copynumber: 3.0 Consensus size: 23
15991821 TAAATAAAAT
15991831 AAAAT-AA-AAATAAATAAATAAC
1 AAAATAAAGAAATAAA-AAATAAC
15991853 ATAAATGAAAGAAATAAAAAATAA-
1 A-AAAT-AAAGAAATAAAAAATAAC
* *
15991877 AAAATAAAGAAACATAAAATAA
1 AAAATAAAGAAATAAAAAATAA
15991899 GGGATTGAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
22 16 0.40
23 8 0.20
24 1 0.03
25 8 0.20
26 7 0.17
ACGTcount: A:0.76, C:0.03, G:0.04, T:0.16
Consensus pattern (23 bp):
AAAATAAAGAAATAAAAAATAAC
Found at i:16010935 original size:26 final size:26
Alignment explanation
Indices: 16010886--16010954 Score: 68
Period size: 26 Copynumber: 2.7 Consensus size: 26
16010876 GTTAAAGCAT
* *
16010886 TACTGGCTGGTAAGAGTAAAATACTA
1 TACTGGCTCGTAAGAGCAAAATACTA
* *
16010912 TACTGGCTCGTAGGAGCAACATAC-A
1 TACTGGCTCGTAAGAGCAAAATACTA
* *
16010937 GATTGAGCTCGTAAGAGC
1 TACTG-GCTCGTAAGAGC
16010955 TATATTTACT
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
25 4 0.11
26 31 0.89
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.23
Consensus pattern (26 bp):
TACTGGCTCGTAAGAGCAAAATACTA
Found at i:16026065 original size:26 final size:24
Alignment explanation
Indices: 16026025--16026103 Score: 74
Period size: 26 Copynumber: 3.2 Consensus size: 24
16026015 TCCCTTTAAA
16026025 ATTTT-ATTTTATTTCCATTCT-TT
1 ATTTTCATTTTATTTCCATT-TATT
16026048 ATTTTCATTTTGATTTTCCATTTATT
1 ATTTTCATTTT-A-TTTCCATTTATT
* *
16026074 ATTTTCACTCTATTT-CATATATATT
1 ATTTTCATTTTATTTCCAT-T-TATT
16026099 ATTTT
1 ATTTT
16026104 ATGAAAAAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
23 8 0.17
24 9 0.19
25 12 0.25
26 19 0.40
ACGTcount: A:0.22, C:0.13, G:0.01, T:0.65
Consensus pattern (24 bp):
ATTTTCATTTTATTTCCATTTATT
Found at i:16026369 original size:14 final size:16
Alignment explanation
Indices: 16026335--16026383 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 16
16026325 TCCTTTTTTA
**
16026335 TTTTTAGCATTTATGAT
1 TTTTTAGCATTT-CCAT
16026352 TTTTTAG-ATTT-CA-
1 TTTTTAGCATTTCCAT
16026365 TTTTTAGCATTTCCAT
1 TTTTTAGCATTTCCAT
16026381 TTT
1 TTT
16026384 ATTTTATCAC
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
13 7 0.25
14 5 0.18
15 2 0.07
16 7 0.25
17 7 0.25
ACGTcount: A:0.20, C:0.10, G:0.08, T:0.61
Consensus pattern (16 bp):
TTTTTAGCATTTCCAT
Found at i:16028366 original size:7 final size:7
Alignment explanation
Indices: 16028356--16028410 Score: 56
Period size: 7 Copynumber: 7.6 Consensus size: 7
16028346 GATTTTTTTT
16028356 TTTTAGA
1 TTTTAGA
16028363 TTTTAGA
1 TTTTAGA
* *
16028370 TCTTAAA
1 TTTTAGA
16028377 TTTTAGA
1 TTTTAGA
16028384 TTTTAGGA
1 TTTTA-GA
*
16028392 TTTTTAAA
1 -TTTTAGA
*
16028400 TATTAGA
1 TTTTAGA
16028407 TTTT
1 TTTT
16028411 TAGGCTTTTA
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
7 30 0.79
8 3 0.08
9 5 0.13
ACGTcount: A:0.31, C:0.02, G:0.11, T:0.56
Consensus pattern (7 bp):
TTTTAGA
Found at i:16028398 original size:23 final size:23
Alignment explanation
Indices: 16028356--16028419 Score: 78
Period size: 21 Copynumber: 2.8 Consensus size: 23
16028346 GATTTTTTTT
*
16028356 TTTTAGATTTTA-GA-TCTTAAA
1 TTTTAGATTTTAGGATTTTTAAA
16028377 TTTTAGATTTTAGGATTTTTAAA
1 TTTTAGATTTTAGGATTTTTAAA
* *
16028400 TATTAGATTTTTAGGCTTTT
1 TTTTAGA-TTTTAGGATTTT
16028420 AGATCAATGA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
21 12 0.32
22 2 0.05
23 12 0.32
24 11 0.30
ACGTcount: A:0.28, C:0.03, G:0.12, T:0.56
Consensus pattern (23 bp):
TTTTAGATTTTAGGATTTTTAAA
Found at i:16028420 original size:23 final size:23
Alignment explanation
Indices: 16028358--16028420 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 23
16028348 TTTTTTTTTT
* *
16028358 TTAGATTTTA-GA-TCTTAAATT
1 TTAGATTTTAGGACTTTTAAATA
*
16028379 TTAGATTTTAGGATTTTTAAATA
1 TTAGATTTTAGGACTTTTAAATA
16028402 TTAGATTTTTAGG-CTTTTA
1 TTAGA-TTTTAGGACTTTTA
16028421 GATCAATGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
21 10 0.28
22 2 0.06
23 17 0.47
24 7 0.19
ACGTcount: A:0.30, C:0.03, G:0.13, T:0.54
Consensus pattern (23 bp):
TTAGATTTTAGGACTTTTAAATA
Found at i:16028968 original size:16 final size:17
Alignment explanation
Indices: 16028947--16028985 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
16028937 CAAATAATTA
16028947 TAAAATAATTT-ATTTT
1 TAAAATAATTTAATTTT
*
16028963 TAAAAT-TTTTAATTTT
1 TAAAATAATTTAATTTT
16028979 TAAAATA
1 TAAAATA
16028986 TTGTCACCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 3 0.15
16 17 0.85
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TAAAATAATTTAATTTT
Found at i:16030576 original size:21 final size:20
Alignment explanation
Indices: 16030560--16030600 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
16030550 TGTCAATTCT
*
16030560 AGGAATAATGAGATCAAGTC
1 AGGAACAATGAGATCAAGTC
* *
16030580 ATGAACAATGAGATCATGTC
1 AGGAACAATGAGATCAAGTC
16030600 A
1 A
16030601 TAAAATACAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.12, G:0.22, T:0.22
Consensus pattern (20 bp):
AGGAACAATGAGATCAAGTC
Found at i:16033827 original size:16 final size:15
Alignment explanation
Indices: 16033788--16033827 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
16033778 ATTTATTTTA
16033788 TTTTATTTTAATATT
1 TTTTATTTTAATATT
*
16033803 TATTAATTTTATATATT
1 T-TTTATTTTA-ATATT
16033820 TTTTATTT
1 TTTTATTT
16033828 ATTGAAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 1 0.05
16 14 0.67
17 6 0.29
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTTATTTTAATATT
Found at i:16040575 original size:21 final size:21
Alignment explanation
Indices: 16040549--16040589 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
16040539 TGATCCCTTG
16040549 GTAAATGCCTACTTAATCAAA
1 GTAAATGCCTACTTAATCAAA
*
16040570 GTAAATGCGTACTTAATCAA
1 GTAAATGCCTACTTAATCAA
16040590 CTCTCATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.41, C:0.17, G:0.12, T:0.29
Consensus pattern (21 bp):
GTAAATGCCTACTTAATCAAA
Found at i:16042989 original size:9 final size:9
Alignment explanation
Indices: 16042970--16043002 Score: 57
Period size: 9 Copynumber: 3.6 Consensus size: 9
16042960 TAAAAGACTC
16042970 TTTTCACACA
1 TTTT-ACACA
16042980 TTTTACACA
1 TTTTACACA
16042989 TTTTACACA
1 TTTTACACA
16042998 TTTTA
1 TTTTA
16043003 GTCACTTAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 19 0.83
10 4 0.17
ACGTcount: A:0.30, C:0.21, G:0.00, T:0.48
Consensus pattern (9 bp):
TTTTACACA
Found at i:16045798 original size:16 final size:16
Alignment explanation
Indices: 16045779--16045811 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
16045769 ATTTTATTTT
16045779 TTTTAATTTAGATTAA
1 TTTTAATTTAGATTAA
*
16045795 TTTTTATTTAGATTAA
1 TTTTAATTTAGATTAA
16045811 T
1 T
16045812 ACTCTTCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (16 bp):
TTTTAATTTAGATTAA
Found at i:16047474 original size:28 final size:28
Alignment explanation
Indices: 16047388--16047493 Score: 97
Period size: 28 Copynumber: 3.7 Consensus size: 28
16047378 AGAAATATTT
* * *
16047388 TGTATTCTAACTCGAAAGAGT-TATATTT
1 TGTATTCTAGCTCGAAAGAGTGT-TACTC
* * * *
16047416 TGTATTTTGGCTCAAGAGAGAGTGTTGCTC
1 TGTATTCTAGCTC--GAAAGAGTGTTACTC
*
16047446 TGTATTCTGGCTCGAAAGAGTGTTACTC
1 TGTATTCTAGCTCGAAAGAGTGTTACTC
*
16047474 TGTATTCTAGATCGAAAGAG
1 TGTATTCTAGCTCGAAAGAG
16047494 CATTATTCTG
Statistics
Matches: 63, Mismatches: 12, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
28 41 0.65
30 21 0.33
31 1 0.02
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.37
Consensus pattern (28 bp):
TGTATTCTAGCTCGAAAGAGTGTTACTC
Found at i:16047503 original size:28 final size:28
Alignment explanation
Indices: 16047443--16047503 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 28
16047433 GAGAGTGTTG
* * **
16047443 CTCTGTATTCTGGCTCGAAAGAGTGTTA
1 CTCTGTATTCTAGATCGAAAGAGCATTA
16047471 CTCTGTATTCTAGATCGAAAGAGCATTA
1 CTCTGTATTCTAGATCGAAAGAGCATTA
*
16047499 TTCTG
1 CTCTG
16047504 GGCTTGGCAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.36
Consensus pattern (28 bp):
CTCTGTATTCTAGATCGAAAGAGCATTA
Found at i:16073602 original size:48 final size:48
Alignment explanation
Indices: 16073531--16073627 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
16073521 CCAACCAATG
16073531 TAAAGGGAATAAGGAGTTTTCTCTGCCATGCCGAATTTTATCGATATT
1 TAAAGGGAATAAGGAGTTTTCTCTGCCATGCCGAATTTTATCGATATT
16073579 TAAAGGGAATAAGGAGTTTTCTCTGCCATGCCGAATTTTATCGATATT
1 TAAAGGGAATAAGGAGTTTTCTCTGCCATGCCGAATTTTATCGATATT
16073627 T
1 T
16073628 CATTCGAAAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (48 bp):
TAAAGGGAATAAGGAGTTTTCTCTGCCATGCCGAATTTTATCGATATT
Found at i:16087980 original size:52 final size:52
Alignment explanation
Indices: 16087902--16088240 Score: 423
Period size: 52 Copynumber: 6.5 Consensus size: 52
16087892 TGAAATAGGC
*
16087902 TCGATGATTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGGT
1 TCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGGT
* * * *
16087954 TCGATGACTATGTATCATTGTGAGTATATAAATCCTTTATGGATTATGAGGT
1 TCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGGT
* * * *
16088006 CCGATGACTATGTGTCATCGTGAGTATATAAATGCTTTACAGATTATGAGG-
1 TCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGGT
* *
16088057 TCTGATGATTATGTGTCATCGTGAGTATATGAATCCTCTACGGATTATGAGGT
1 TC-GATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGGT
* * * * *
16088110 CCGATTACTATGTCTTATCGTGAGTATATGAATCCTTTACAGATTATGAGG-
1 TCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGGT
* * * * *
16088161 TCTGATGACTATGTATCATCGTGAGTATATGATTACTAATACGGATTAAG-GGT
1 TC-GATGACTATGTGTCATCGTGAGTATATGAATCCT-TTACGGATTATGAGGT
* *
16088214 CCGATGACTCTGTGTCATCGTGAGTAT
1 TCGATGACTATGTGTCATCGTGAGTAT
16088241 CAAAAGTGCA
Statistics
Matches: 246, Mismatches: 36, Indels: 10
0.84 0.12 0.03
Matches are distributed among these distances:
51 2 0.01
52 233 0.95
53 11 0.04
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (52 bp):
TCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGGT
Found at i:16088083 original size:104 final size:104
Alignment explanation
Indices: 16087903--16088240 Score: 482
Period size: 104 Copynumber: 3.2 Consensus size: 104
16087893 GAAATAGGCT
* *
16087903 CGATGATTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGGT-TCGATGACTATGT
1 CGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACAGATTATGAGGTCT-GATGACTATGT
* * * *
16087967 ATCATTGTGAGTATATAAATCCTTTATGGATTATGAGGTC
65 ATCATCGTGAGTATATGAATCCTATACGGATTATGAGGTC
* * * *
16088007 CGATGACTATGTGTCATCGTGAGTATATAAATGCTTTACAGATTATGAGGTCTGATGATTATGTG
1 CGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACAGATTATGAGGTCTGATGACTATGTA
*
16088072 TCATCGTGAGTATATGAATCCTCTACGGATTATGAGGTC
66 TCATCGTGAGTATATGAATCCTATACGGATTATGAGGTC
* * *
16088111 CGATTACTATGTCTTATCGTGAGTATATGAATCCTTTACAGATTATGAGGTCTGATGACTATGTA
1 CGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACAGATTATGAGGTCTGATGACTATGTA
* * *
16088176 TCATCGTGAGTATATGATTACTAATACGGATTAAG-GGTC
66 TCATCGTGAGTATATGAATCCT-ATACGGATTATGAGGTC
*
16088215 CGATGACTCTGTGTCATCGTGAGTAT
1 CGATGACTATGTGTCATCGTGAGTAT
16088241 CAAAAGTGCA
Statistics
Matches: 207, Mismatches: 25, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
104 196 0.95
105 11 0.05
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (104 bp):
CGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACAGATTATGAGGTCTGATGACTATGTA
TCATCGTGAGTATATGAATCCTATACGGATTATGAGGTC
Found at i:16088188 original size:156 final size:156
Alignment explanation
Indices: 16087903--16088240 Score: 480
Period size: 156 Copynumber: 2.2 Consensus size: 156
16087893 GAAATAGGCT
* *
16087903 CGATGATTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGGTTCGATGACTATGTA
1 CGATGATTATGTGTCATCGTGAGTATATGAATCCTCTACGGATTATGAGGTCCGATGACTATGTA
* ** *
16087968 TCATTGTGAGTATATAAATCCTTTATGGATTATGAGGTCCGATGACTATGTGTCATCGTGAGTAT
66 TCATCGTGAGTATATAAATCCTTTACAGATTATGAGGTCCGATGACTATGTATCATCGTGAGTAT
* * *
16088033 ATAAATGCT-TTACAGATTATGAGGTC
131 ATAAATACTAATACAGATTAAG-GGTC
* * *
16088059 TGATGATTATGTGTCATCGTGAGTATATGAATCCTCTACGGATTATGAGGTCCGATTACTATGTC
1 CGATGATTATGTGTCATCGTGAGTATATGAATCCTCTACGGATTATGAGGTCCGATGACTATGTA
* * *
16088124 TTATCGTGAGTATATGAATCCTTTACAGATTATGAGGTCTGATGACTATGTATCATCGTGAGTAT
66 TCATCGTGAGTATATAAATCCTTTACAGATTATGAGGTCCGATGACTATGTATCATCGTGAGTAT
* * *
16088189 ATGATTACTAATACGGATTAAGGGTC
131 ATAAATACTAATACAGATTAAGGGTC
* *
16088215 CGATGACTCTGTGTCATCGTGAGTAT
1 CGATGATTATGTGTCATCGTGAGTAT
16088241 CAAAAGTGCA
Statistics
Matches: 160, Mismatches: 21, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
156 151 0.94
157 9 0.06
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (156 bp):
CGATGATTATGTGTCATCGTGAGTATATGAATCCTCTACGGATTATGAGGTCCGATGACTATGTA
TCATCGTGAGTATATAAATCCTTTACAGATTATGAGGTCCGATGACTATGTATCATCGTGAGTAT
ATAAATACTAATACAGATTAAGGGTC
Found at i:16123273 original size:32 final size:32
Alignment explanation
Indices: 16123236--16123829 Score: 445
Period size: 32 Copynumber: 18.6 Consensus size: 32
16123226 ATATTTGTAT
* * *
16123236 GAGCTATTAATCTATGAACAGTATGCTCGTAA
1 GAGCTATCAATCTATGAACAATAAGCTCGTAA
* * *
16123268 GAGCTAACCAAT-TA-GTACCCAATATA-TTCGTATA
1 GAGCT-ATCAATCTATG-A-ACAATA-AGCTCGTA-A
* * * *
16123302 -AGTTATTAATCTATGAACACTATGCTCGTAA
1 GAGCTATCAATCTATGAACAATAAGCTCGTAA
* * * *
16123333 GAGATATTAATCTTTGAATAGTATAA--TCGTAA
1 GAGCTATCAATCTATGAACA--ATAAGCTCGTAA
* * * *
16123365 GAGCTATCAATCTGTGAATAGAT-TGCTCATAA
1 GAGCTATCAATCTATGAACA-ATAAGCTCGTAA
* * * *
16123397 GAGCTATCAATCTGTGAACAATTAGCTCATAG
1 GAGCTATCAATCTATGAACAATAAGCTCGTAA
* **
16123429 GAGCTATCAATCTGTGAACAGAT--GCTTATAA
1 GAGCTATCAATCTATGAACA-ATAAGCTCGTAA
* * * *
16123460 GAGCTATTAATCTATAAACAGTATA-CTCATAA
1 GAGCTATCAATCTATGAACAATA-AGCTCGTAA
* * * * *
16123492 GAGCTATCAATCTTTGAATAGTATGCTCATAA
1 GAGCTATCAATCTATGAACAATAAGCTCGTAA
* * * * *
16123524 AAGCTATCAATATGTGAACAGTAAGCTCATAA
1 GAGCTATCAATCTATGAACAATAAGCTCGTAA
* * *
16123556 GAGATATCAATTTGTGAACAATAAGCTCGTAA
1 GAGCTATCAATCTATGAACAATAAGCTCGTAA
* * * *
16123588 GAGCTATCAATCTGTGAACAGTAAGCTTGTAG
1 GAGCTATCAATCTATGAACAATAAGCTCGTAA
* * *
16123620 GACCTATCAGTCTATGAACAATAAGCTCGTAG
1 GAGCTATCAATCTATGAACAATAAGCTCGTAA
* * *
16123652 GAGCTGTCAGTCTATGAATAATAAGCTCGTAA
1 GAGCTATCAATCTATGAACAATAAGCTCGTAA
* * *
16123684 AAGCTGTCAATCTATGAACAATAAGCTCG-CA
1 GAGCTATCAATCTATGAACAATAAGCTCGTAA
* * *
16123715 GAGCTACCAATCTATGAACAATAAGCTCATAG
1 GAGCTATCAATCTATGAACAATAAGCTCGTAA
* * *
16123747 GAGCTGTCAATCTATGAACAATAAGCTCGCAGC
1 GAGCTATCAATCTATGAACAATAAGCTCGTA-A
* *
16123780 GAGCTATCAATCTGTGAACAATAAGCTCGTAG
1 GAGCTATCAATCTATGAACAATAAGCTCGTAA
16123812 GAGCTATCAATCTATGAA
1 GAGCTATCAATCTATGAA
16123830 TATTGTTTCA
Statistics
Matches: 458, Mismatches: 83, Indels: 42
0.79 0.14 0.07
Matches are distributed among these distances:
30 1 0.00
31 55 0.12
32 349 0.76
33 49 0.11
34 4 0.01
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (32 bp):
GAGCTATCAATCTATGAACAATAAGCTCGTAA
Found at i:16123309 original size:65 final size:65
Alignment explanation
Indices: 16123190--16123335 Score: 229
Period size: 65 Copynumber: 2.2 Consensus size: 65
16123180 TAATTTTCAT
* * * * *
16123190 AGTAAGCTCATAAGAGCTAACCATTTAGTACCCAATATATTTGTATGAGCTATTAATCTATGAAC
1 AGTATGCTCGTAAGAGCTAACCAATTAGTACCCAATATATTCGTATAAGCTATTAATCTATGAAC
*
16123255 AGTATGCTCGTAAGAGCTAACCAATTAGTACCCAATATATTCGTATAAGTTATTAATCTATGAAC
1 AGTATGCTCGTAAGAGCTAACCAATTAGTACCCAATATATTCGTATAAGCTATTAATCTATGAAC
*
16123320 ACTATGCTCGTAAGAG
1 AGTATGCTCGTAAGAG
16123336 ATATTAATCT
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
65 74 1.00
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (65 bp):
AGTATGCTCGTAAGAGCTAACCAATTAGTACCCAATATATTCGTATAAGCTATTAATCTATGAAC
Found at i:16123594 original size:159 final size:160
Alignment explanation
Indices: 16123305--16123831 Score: 533
Period size: 159 Copynumber: 3.3 Consensus size: 160
16123295 TCGTATAAGT
* * * * ** *
16123305 TATTAATCTATGAACACTATGCTCGTAAGAGATATTAATCTTTGAATAGTATAATCGTAAGAGCT
1 TATTAATCTATGAACAATATACTCGTAAGAGCTATCAATCTTTGAATAGTATGCTCGTAAAAGCT
* * *
16123370 ATCAATCTGTGAATAG-ATTGCTCATAAGAGCTATCAATCTGTGAACAATTAGCTCATAGGAGCT
66 ATCAATCTGTGAACAGTA-AGCTCATAAGAGCTATCAATCTGTGAACAATAAGCTCATAGGAGCT
* *
16123434 ATCAATCTGTGAACAG-ATGCTTATAAGAGC
130 ATCAATCTGTGAACAGTAAGCTTATAAGACC
* * * *
16123464 TATTAATCTATAAACAGTATACTCATAAGAGCTATCAATCTTTGAATAGTATGCTCATAAAAGCT
1 TATTAATCTATGAACAATATACTCGTAAGAGCTATCAATCTTTGAATAGTATGCTCGTAAAAGCT
* * * * *
16123529 ATCAATATGTGAACAGTAAGCTCATAAGAGATATCAATTTGTGAACAATAAGCTCGTAAGAGCTA
66 ATCAATCTGTGAACAGTAAGCTCATAAGAGCTATCAATCTGTGAACAATAAGCTCATAGGAGCTA
* *
16123594 TCAATCTGTGAACAGTAAGCTTGTAGGACC
131 TCAATCTGTGAACAGTAAGCTTATAAGACC
* * * * * * * *
16123624 TATCAGTCTATGAACAATA-AGCTCGTAGGAGCTGTCAGTCTATGAATAATAAGCTCGTAAAAGC
1 TATTAATCTATGAACAATATA-CTCGTAAGAGCTATCAATCTTTGAATAGTATGCTCGTAAAAGC
* * * ** * *
16123688 TGTCAATCTATGAACAATAAGCTC-GCAGAGCTACCAATCTATGAACAATAAGCTCATAGGAGCT
65 TATCAATCTGTGAACAGTAAGCTCATAAGAGCTATCAATCTGTGAACAATAAGCTCATAGGAGCT
* * * *** * *
16123752 GTCAATCTATGAACAATAAGCTCGCAGCGAGC
130 ATCAATCTGTGAACAGTAAGCTTATA-AGACC
* * * *
16123784 TATCAATCTGTGAACAATA-AGCTCGTAGGAGCTATCAATCTATGAATA
1 TATTAATCTATGAACAATATA-CTCGTAAGAGCTATCAATCTTTGAATA
16123832 TTGTTTCATG
Statistics
Matches: 307, Mismatches: 57, Indels: 7
0.83 0.15 0.02
Matches are distributed among these distances:
159 179 0.58
160 128 0.42
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (160 bp):
TATTAATCTATGAACAATATACTCGTAAGAGCTATCAATCTTTGAATAGTATGCTCGTAAAAGCT
ATCAATCTGTGAACAGTAAGCTCATAAGAGCTATCAATCTGTGAACAATAAGCTCATAGGAGCTA
TCAATCTGTGAACAGTAAGCTTATAAGACC
Found at i:16124768 original size:28 final size:28
Alignment explanation
Indices: 16124717--16124770 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
16124707 TGTCCACTTC
* *
16124717 TCCCAGATTGGTACCTATAGTTTTTTTG
1 TCCCAGATTGGTACCTAAACTTTTTTTG
16124745 TCCCAGATTGGTA-CTCAAACTTTTTT
1 TCCCAGATTGGTACCT-AAACTTTTTT
16124771 CCGTCCATTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 2 0.09
28 21 0.91
ACGTcount: A:0.20, C:0.20, G:0.15, T:0.44
Consensus pattern (28 bp):
TCCCAGATTGGTACCTAAACTTTTTTTG
Found at i:16126296 original size:3 final size:3
Alignment explanation
Indices: 16126288--16126322 Score: 61
Period size: 3 Copynumber: 11.3 Consensus size: 3
16126278 GAGGGAAGCG
16126288 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA G-AA GAA G
16126323 GAAACAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:16126371 original size:15 final size:15
Alignment explanation
Indices: 16126288--16126386 Score: 55
Period size: 15 Copynumber: 6.5 Consensus size: 15
16126278 GAGGGAAGCG
16126288 GAAGAAGAAGAA-GAA
1 GAAGAA-AAGAAGGAA
*
16126303 GAAGAAGAAGAAGAAA
1 GAAGAA-AAGAAGGAA
* *
16126319 GAAGGAAACAAAATGATA
1 GAA-GAAA-AGAAGGA-A
**
16126337 GAA-AAATTAAGGAA
1 GAAGAAAAGAAGGAA
*
16126351 -AGGAAAAGAAGGAA
1 GAAGAAAAGAAGGAA
16126365 GAAGAAAA-AAGGGAA
1 GAAGAAAAGAA-GGAA
16126380 GAA-AAAA
1 GAAGAAAA
16126387 ACAAAAACGT
Statistics
Matches: 66, Mismatches: 11, Indels: 15
0.72 0.12 0.16
Matches are distributed among these distances:
13 1 0.02
14 16 0.24
15 29 0.44
16 9 0.14
17 7 0.11
18 4 0.06
ACGTcount: A:0.67, C:0.01, G:0.28, T:0.04
Consensus pattern (15 bp):
GAAGAAAAGAAGGAA
Found at i:16129470 original size:24 final size:23
Alignment explanation
Indices: 16129438--16129519 Score: 67
Period size: 24 Copynumber: 3.4 Consensus size: 23
16129428 TTAAACTCTG
16129438 TCTGGGCTCGAATAAGCTAATTTA
1 TCTGGGCTCG-ATAAGCTAATTTA
**
16129462 TCTGGGCTC-ATAAGAGCTAACCTA
1 TCTGGGCTCGAT-A-AGCTAATTTA
* * *
16129486 TCTGGGCTCGTATGAGTTAATTTTG
1 TCTGGGCTCG-ATAAGCTAA-TTTA
16129511 TCTGGGCTC
1 TCTGGGCTC
16129520 ATATGAGCTA
Statistics
Matches: 46, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
22 2 0.04
23 1 0.02
24 31 0.67
25 10 0.22
26 2 0.04
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.34
Consensus pattern (23 bp):
TCTGGGCTCGATAAGCTAATTTA
Found at i:16129528 original size:49 final size:48
Alignment explanation
Indices: 16129438--16129530 Score: 132
Period size: 49 Copynumber: 1.9 Consensus size: 48
16129428 TTAAACTCTG
16129438 TCTGGGCTCGAATAAGCTAATTTATCTGGGCTCATAAGAGCTAACCTA
1 TCTGGGCTCGAATAAGCTAATTTATCTGGGCTCATAAGAGCTAACCTA
* * * * *
16129486 TCTGGGCTCGTATGAGTTAATTTTGTCTGGGCTCATATGAGCTAA
1 TCTGGGCTCGAATAAGCTAA-TTTATCTGGGCTCATAAGAGCTAA
16129531 ATTTCTGAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
48 17 0.44
49 22 0.56
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (48 bp):
TCTGGGCTCGAATAAGCTAATTTATCTGGGCTCATAAGAGCTAACCTA
Found at i:16133375 original size:84 final size:84
Alignment explanation
Indices: 16133204--16133366 Score: 281
Period size: 84 Copynumber: 1.9 Consensus size: 84
16133194 TGATGCGATA
* *
16133204 GTGGTGTTGATTCCCAAAGGTGAAAATCCTAGGGACATGACCAAGTATAGCCCCATCAGTCTTTG
1 GTGGTGTTGATTCCCAAAGGCGAAAATCCTAGGGACATGACCAAGTATAGCCCCATCAGTCTTTA
16133269 CCGTGTGATCTACAAAATG
66 CCGTGTGATCTACAAAATG
* *
16133288 GTGGTGTTGATTTCCAAAGGCGAAAATCCTAGGGACATGACCAAGTATCGCCCCATCAGTCTTTA
1 GTGGTGTTGATTCCCAAAGGCGAAAATCCTAGGGACATGACCAAGTATAGCCCCATCAGTCTTTA
*
16133353 CTGTGTGATCTACA
66 CCGTGTGATCTACA
16133367 CGGTGGTGGC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
84 74 1.00
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (84 bp):
GTGGTGTTGATTCCCAAAGGCGAAAATCCTAGGGACATGACCAAGTATAGCCCCATCAGTCTTTA
CCGTGTGATCTACAAAATG
Found at i:16139299 original size:5 final size:5
Alignment explanation
Indices: 16139289--16139326 Score: 76
Period size: 5 Copynumber: 7.6 Consensus size: 5
16139279 TTTAAAAAAA
16139289 TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTA
1 TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTA
16139327 ATATTTACTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTATT
Found at i:16141803 original size:3 final size:3
Alignment explanation
Indices: 16141795--16141833 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
16141785 AGACTATGTT
16141795 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
16141834 ATTTCTTCCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:16148563 original size:47 final size:48
Alignment explanation
Indices: 16148408--16148568 Score: 130
Period size: 50 Copynumber: 3.3 Consensus size: 48
16148398 CCTAAACACA
* ** *
16148408 TGGGAGGAGGCTTATGAAAAATGGTAATAAATACCTTACTCCCAGATGCAT
1 TGGG-GGAGGCTTACG-AAAA-GGTAATAAAGGCCTTACTCCCAGACGCAT
* * * *
16148459 AT-GGGGAGGCTTAC-AAAACGTGGTAATAAAGGCCTTGCTCCTAAACGTAT
1 -TGGGGGAGGCTTACGAAAA---GGTAATAAAGGCCTTACTCCCAGACGCAT
* * *
16148509 AGAGGGAGGCTTACGAAAA-GTAATAAAGGCCCTACTCCCAGACGCAT
1 TGGGGGAGGCTTACGAAAAGGTAATAAAGGCCTTACTCCCAGACGCAT
*
16148556 TGGGGGAGACTTA
1 TGGGGGAGGCTTA
16148569 AGGAAAAATG
Statistics
Matches: 87, Mismatches: 18, Indels: 13
0.74 0.15 0.11
Matches are distributed among these distances:
47 33 0.38
48 4 0.05
50 43 0.49
51 6 0.07
52 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.27, T:0.22
Consensus pattern (48 bp):
TGGGGGAGGCTTACGAAAAGGTAATAAAGGCCTTACTCCCAGACGCAT
Found at i:16150446 original size:24 final size:25
Alignment explanation
Indices: 16150400--16150447 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
16150390 CTCGTTTAAC
* * *
16150400 TTAAACTCCAAAGTGCTCTATTTCA
1 TTAAACTCCAAAATGCACCATTTCA
16150425 TTAAAC-CCAAAATGCACCATTTC
1 TTAAACTCCAAAATGCACCATTTC
16150448 TTCATTAAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.35, C:0.27, G:0.06, T:0.31
Consensus pattern (25 bp):
TTAAACTCCAAAATGCACCATTTCA
Found at i:16154160 original size:73 final size:73
Alignment explanation
Indices: 16154041--16154188 Score: 260
Period size: 73 Copynumber: 2.0 Consensus size: 73
16154031 CACATAATTT
**
16154041 AATCCTTTTTGGGAAAATCATAATTTTACTTCTATTATTTTTCCATTTATTCAATCTAGTCTTTT
1 AATCCTTTTTGGGAAAATCATAATTTTACCCCTATTATTTTTCCATTTATTCAATCTAGTCTTTT
16154106 TTCACTCA
66 TTCACTCA
*
16154114 AATCCTTTTTGGGAAAATCATAATTTTACCCCTATTGTTTTTCCATTTATTCAATCTAGTCTTTT
1 AATCCTTTTTGGGAAAATCATAATTTTACCCCTATTATTTTTCCATTTATTCAATCTAGTCTTTT
*
16154179 TTCATTCA
66 TTCACTCA
16154187 AA
1 AA
16154189 GCATGTAAAG
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
73 71 1.00
ACGTcount: A:0.26, C:0.18, G:0.06, T:0.49
Consensus pattern (73 bp):
AATCCTTTTTGGGAAAATCATAATTTTACCCCTATTATTTTTCCATTTATTCAATCTAGTCTTTT
TTCACTCA
Found at i:16165313 original size:19 final size:20
Alignment explanation
Indices: 16165289--16165335 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
16165279 AATTGAACTT
16165289 GAAAATTGGAT-CGAAAACC
1 GAAAATTGGATCCGAAAACC
* *
16165308 GAAAATTGGGTCCGAGAACC
1 GAAAATTGGATCCGAAAACC
*
16165328 CAAAATTG
1 GAAAATTG
16165336 AGACTAAGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 10 0.42
20 14 0.58
ACGTcount: A:0.43, C:0.17, G:0.23, T:0.17
Consensus pattern (20 bp):
GAAAATTGGATCCGAAAACC
Found at i:16165332 original size:20 final size:19
Alignment explanation
Indices: 16165290--16165361 Score: 58
Period size: 20 Copynumber: 3.7 Consensus size: 19
16165280 ATTGAACTTG
*
16165290 AAAATTGGATCGAAAACCG
1 AAAATTGGATCGAAAACCC
* *
16165309 AAAATTGGGTCCGAGAACCC
1 AAAATTGGAT-CGAAAACCC
* *
16165329 AAAATTGAGA-CTAAGACCC
1 AAAATTG-GATCGAAAACCC
16165348 AAAAATTGG-TCGAA
1 -AAAATTGGATCGAA
16165362 CCAGGCCTAG
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
19 19 0.46
20 21 0.51
21 1 0.02
ACGTcount: A:0.44, C:0.18, G:0.21, T:0.17
Consensus pattern (19 bp):
AAAATTGGATCGAAAACCC
Found at i:16165707 original size:68 final size:65
Alignment explanation
Indices: 16165631--16165836 Score: 174
Period size: 68 Copynumber: 3.1 Consensus size: 65
16165621 ATTTGAAAAA
*
16165631 TAATATTATTTTAATAGGTTTAATATTAAATTTAATTTGATACTTATCTTGATAGTATTTTGTTA
1 TAATATTATTTTAATAGGTTTAATATTAAATTTAATTTAATA-TTATCTTGATAGTA-TTT-TTA
16165696 ATT
63 ATT
* * * *
16165699 TAATATTATAATGATTA-GCTTAATATTAAATTTAATTTAATATTATCTTG-TAG-A---TTAAT
1 TAATATTAT-TTTAATAGGTTTAATATTAAATTTAATTTAATATTATCTTGATAGTATTTTTAAT
16165758 AT
65 -T
** * * * *
16165760 T-CCATTAATTTAATAAGATTTAATATTAAATTTAATCTAATATTTATCTTGATTAGTGTTATAT
1 TAATATTATTTTAAT-AGGTTTAATATTAAATTTAATTTAATA-TTATCTTGA-TAGTATT-T-T
16165824 TAATT
61 TAATT
16165829 TAATATTA
1 TAATATTA
16165837 AAGTGATTAA
Statistics
Matches: 107, Mismatches: 17, Indels: 26
0.71 0.11 0.17
Matches are distributed among these distances:
59 3 0.03
60 10 0.09
61 24 0.22
62 8 0.07
64 3 0.03
65 1 0.01
66 3 0.03
67 8 0.07
68 32 0.30
69 6 0.06
70 9 0.08
ACGTcount: A:0.38, C:0.04, G:0.07, T:0.51
Consensus pattern (65 bp):
TAATATTATTTTAATAGGTTTAATATTAAATTTAATTTAATATTATCTTGATAGTATTTTTAATT
Found at i:16165740 original size:17 final size:19
Alignment explanation
Indices: 16165693--16165744 Score: 63
Period size: 17 Copynumber: 2.8 Consensus size: 19
16165683 TAGTATTTTG
16165693 TTAATTTAATATTATAATGA
1 TTAATTTAATATTATAAT-A
**
16165713 TTAGCTTAATATTA-AAT-
1 TTAATTTAATATTATAATA
16165730 TTAATTTAATATTAT
1 TTAATTTAATATTAT
16165745 CTTGTAGATT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
17 12 0.44
19 3 0.11
20 12 0.44
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (19 bp):
TTAATTTAATATTATAATA
Found at i:16175648 original size:6 final size:6
Alignment explanation
Indices: 16175639--16175674 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
16175629 GGATGGATTG
16175639 GGGAGA GGGAGA GGGAGA GGGAGA GGGAGA GGGAGA
1 GGGAGA GGGAGA GGGAGA GGGAGA GGGAGA GGGAGA
16175675 AAAGTGGGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (6 bp):
GGGAGA
Found at i:16177109 original size:3 final size:3
Alignment explanation
Indices: 16177101--16177134 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
16177091 TTTTATTTTA
16177101 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
16177135 TGCACATGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:16177596 original size:12 final size:12
Alignment explanation
Indices: 16177581--16177614 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
16177571 AGCAACAATC
16177581 AAAACAACAGCA
1 AAAACAACAGCA
*
16177593 AAAATAACAGCA
1 AAAACAACAGCA
16177605 AATAACAACA
1 AA-AACAACA
16177615 AACACAACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 13 0.68
13 6 0.32
ACGTcount: A:0.68, C:0.21, G:0.06, T:0.06
Consensus pattern (12 bp):
AAAACAACAGCA
Found at i:16177667 original size:11 final size:11
Alignment explanation
Indices: 16177621--16177683 Score: 56
Period size: 12 Copynumber: 5.5 Consensus size: 11
16177611 AACAAACACA
16177621 ACAAAAATAGC
1 ACAAAAATAGC
*
16177632 AGCAAAAATAAC
1 A-CAAAAATAGC
**
16177644 AACAAAAGCAGC
1 -ACAAAAATAGC
*
16177656 ACCAAAATAGC
1 ACAAAAATAGC
16177667 A-AAAAATAGC
1 ACAAAAATAGC
16177677 ACTAAAA
1 AC-AAAA
16177684 CAGTAAAAAC
Statistics
Matches: 40, Mismatches: 8, Indels: 7
0.73 0.15 0.13
Matches are distributed among these distances:
10 9 0.22
11 10 0.25
12 20 0.50
13 1 0.03
ACGTcount: A:0.63, C:0.19, G:0.10, T:0.08
Consensus pattern (11 bp):
ACAAAAATAGC
Found at i:16177672 original size:33 final size:32
Alignment explanation
Indices: 16177604--16177674 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 32
16177594 AAATAACAGC
16177604 AAATAACAACAAACACAACAAAAATAGCAGCAA
1 AAATAACAACAAACACAACAAAAATAGCA-CAA
*
16177637 AAATAACAACAAA-AGCAGCACCAAAATAGCA-AA
1 AAATAACAACAAACA-CA--ACAAAAATAGCACAA
16177670 AAATA
1 AAATA
16177675 GCACTAAAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
32 1 0.03
33 22 0.65
35 11 0.32
ACGTcount: A:0.66, C:0.20, G:0.07, T:0.07
Consensus pattern (32 bp):
AAATAACAACAAACACAACAAAAATAGCACAA
Found at i:16177677 original size:21 final size:21
Alignment explanation
Indices: 16177623--16177692 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
16177613 CAAACACAAC
*
16177623 AAAAATAGCAGCAAAAATAACA
1 AAAAATAGCA-CAAAAATAGCA
* *
16177645 ACAAAAGCAGCACCAAAATAGCA
1 A-AAAA-TAGCACAAAAATAGCA
* * *
16177668 AAAAATAGCACTAAAACAGTA
1 AAAAATAGCACAAAAATAGCA
16177689 AAAA
1 AAAA
16177693 CAAAAACAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
21 16 0.41
22 5 0.13
23 14 0.36
24 4 0.10
ACGTcount: A:0.64, C:0.17, G:0.10, T:0.09
Consensus pattern (21 bp):
AAAAATAGCACAAAAATAGCA
Found at i:16177677 original size:24 final size:22
Alignment explanation
Indices: 16177588--16177677 Score: 76
Period size: 21 Copynumber: 4.1 Consensus size: 22
16177578 ATCAAAACAA
** *
16177588 CAGCAAAAATAACAGCAAATAA
1 CAGCAAAAATAACAAAAAATAG
* * *
16177610 CAACAAACACAAC-AAAAATAG
1 CAGCAAAAATAACAAAAAATAG
*
16177631 CAGCAAAAATAACAACAAA-AG
1 CAGCAAAAATAACAAAAAATAG
*
16177652 CAGCACCAAAATAGCAAAAAATAG
1 CAGCA--AAAATAACAAAAAATAG
16177676 CA
1 CA
16177678 CTAAAACAGT
Statistics
Matches: 52, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
21 22 0.42
22 14 0.27
23 12 0.23
24 4 0.08
ACGTcount: A:0.63, C:0.21, G:0.09, T:0.07
Consensus pattern (22 bp):
CAGCAAAAATAACAAAAAATAG
Found at i:16177713 original size:19 final size:20
Alignment explanation
Indices: 16177689--16177726 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
16177679 TAAAACAGTA
16177689 AAAACAA-AAACAAAACACT
1 AAAACAACAAACAAAACACT
*
16177708 AAAACAACAACCAAAACAC
1 AAAACAACAAACAAAACAC
16177727 ACTAGAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.71, C:0.26, G:0.00, T:0.03
Consensus pattern (20 bp):
AAAACAACAAACAAAACACT
Found at i:16183544 original size:23 final size:23
Alignment explanation
Indices: 16183470--16183683 Score: 142
Period size: 23 Copynumber: 9.5 Consensus size: 23
16183460 TAAACGGAAC
* * *
16183470 AAACAGAGAGTAC-CGAAGTACT
1 AAACAGAGAGCACACAAAGTGCT
* *
16183492 GAACAGAGAGCACA-TAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
*
16183514 GGGCAACAGAGAGCACACAAAGTGCT
1 ---AAACAGAGAGCACACAAAGTGCT
*
16183540 AAACAGAGAGTACACAAA--G-T
1 AAACAGAGAGCACACAAAGTGCT
*
16183560 --AC--TGAGCACACAAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* * *
16183579 AATCAGAGAGCACACGAAGTACT
1 AAACAGAGAGCACACAAAGTGCT
* * *
16183602 AATCGGAGAGCACACACAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
16183625 AATAACAGAGAGCACGA-GACGTGCT
1 -A-AACAGAGAGCAC-ACAAAGTGCT
*
16183650 AAACAGAGAGCACACACAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
*
16183673 AATCAGAGAGC
1 AAACAGAGAGC
16183684 GCGCTAGTGT
Statistics
Matches: 149, Mismatches: 27, Indels: 31
0.72 0.13 0.15
Matches are distributed among these distances:
16 10 0.07
18 3 0.02
19 1 0.01
20 1 0.01
21 2 0.01
22 18 0.12
23 76 0.51
24 2 0.01
25 28 0.19
26 8 0.05
ACGTcount: A:0.42, C:0.21, G:0.25, T:0.12
Consensus pattern (23 bp):
AAACAGAGAGCACACAAAGTGCT
Found at i:16183578 original size:39 final size:39
Alignment explanation
Indices: 16183524--16183601 Score: 129
Period size: 39 Copynumber: 2.0 Consensus size: 39
16183514 GGGCAACAGA
*
16183524 GAGCACACAAAGTGCTAAACAGAGAGTACACAAAGTACT
1 GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGTACT
* *
16183563 GAGCACACAAAGTGCTAATCAGAGAGCACACGAAGTACT
1 GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGTACT
16183602 AATCGGAGAG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.13
Consensus pattern (39 bp):
GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGTACT
Found at i:16183619 original size:48 final size:46
Alignment explanation
Indices: 16183563--16183683 Score: 163
Period size: 48 Copynumber: 2.6 Consensus size: 46
16183553 ACAAAGTACT
* * *
16183563 GAGCACACAAAGTGCTAATCAGAGAGCAC-ACGAAGTACTAATCGGA
1 GAGCACACACAGTGCTAATCAGAGAGCACGA-GAAGTACTAAACAGA
* *
16183609 GAGCACACACAGTGCTAATAACAGAGAGCACGAGACGTGCTAAACAGA
1 GAGCACACACAGTGCTAAT--CAGAGAGCACGAGAAGTACTAAACAGA
16183657 GAGCACACACAGTGCTAATCAGAGAGC
1 GAGCACACACAGTGCTAATCAGAGAGC
16183684 GCGCTAGTGT
Statistics
Matches: 67, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
46 26 0.39
48 40 0.60
49 1 0.01
ACGTcount: A:0.40, C:0.23, G:0.25, T:0.12
Consensus pattern (46 bp):
GAGCACACACAGTGCTAATCAGAGAGCACGAGAAGTACTAAACAGA
Found at i:16188655 original size:28 final size:28
Alignment explanation
Indices: 16188614--16188669 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
16188604 ATATTAATAT
* * *
16188614 CATGCTTATATTCGACCTGAACCCGACC
1 CATGATTAGATTCGACCCGAACCCGACC
*
16188642 CATGATTAGATTCGACCCGAACTCGACC
1 CATGATTAGATTCGACCCGAACCCGACC
16188670 TATTAACACC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.27, C:0.34, G:0.16, T:0.23
Consensus pattern (28 bp):
CATGATTAGATTCGACCCGAACCCGACC
Found at i:16192658 original size:25 final size:27
Alignment explanation
Indices: 16192609--16192658 Score: 68
Period size: 25 Copynumber: 1.9 Consensus size: 27
16192599 ATAATATTTC
16192609 TTATAAATAATATATTTTTTCATAACT
1 TTATAAATAATATATTTTTTCATAACT
* *
16192636 TTATAAA-ATTAT-TTTTTTTATAA
1 TTATAAATAATATATTTTTTCATAA
16192659 ATAAATTACG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 10 0.48
26 4 0.19
27 7 0.33
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (27 bp):
TTATAAATAATATATTTTTTCATAACT
Found at i:16197339 original size:20 final size:21
Alignment explanation
Indices: 16197305--16197354 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
16197295 AAGAAATATA
* **
16197305 TAAAAATACATTAATATTTTT
1 TAAAAATATATTAATAAATTT
16197326 TAAAAATATA-TAATAAATTT
1 TAAAAATATATTAATAAATTT
16197346 TAAAAATAT
1 TAAAAATAT
16197355 GTAAAAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 17 0.65
21 9 0.35
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (21 bp):
TAAAAATATATTAATAAATTT
Found at i:16197372 original size:51 final size:52
Alignment explanation
Indices: 16197298--16197395 Score: 137
Period size: 51 Copynumber: 1.9 Consensus size: 52
16197288 AAATTCAAAG
* * *
16197298 AAATATATAAAAATACATTAATATTTTTTA-AAAATAT-ATAATAAATTTTAA
1 AAATATATAAAAATAAATAAATA-TTTTAACAAAATATAATAATAAATTTTAA
*
16197349 AAATATGTAAAAATAAATAAATATTTTAACAAAATATAATAATAAAT
1 AAATATATAAAAATAAATAAATATTTTAACAAAATATAATAATAAAT
16197396 AAAATAAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
50 5 0.12
51 27 0.66
52 9 0.22
ACGTcount: A:0.60, C:0.02, G:0.01, T:0.37
Consensus pattern (52 bp):
AAATATATAAAAATAAATAAATATTTTAACAAAATATAATAATAAATTTTAA
Found at i:16197374 original size:29 final size:29
Alignment explanation
Indices: 16197326--16197399 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 29
16197316 TAATATTTTT
* *
16197326 TAAAAATATATAATAAATTTTAA-AAATATG
1 TAAAAATAAATAA-AAATTTTAACAAA-ATA
*
16197356 TAAAAATAAATAAATATTTTAACAAAATA
1 TAAAAATAAATAAAAATTTTAACAAAATA
*
16197385 TAATAATAAATAAAA
1 TAAAAATAAATAAAA
16197400 TAAAAAAAAC
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
29 23 0.61
30 15 0.39
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.32
Consensus pattern (29 bp):
TAAAAATAAATAAAAATTTTAACAAAATA
Found at i:16199514 original size:13 final size:13
Alignment explanation
Indices: 16199496--16199521 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
16199486 TTAAACTAGA
16199496 TCGTTGGATCATG
1 TCGTTGGATCATG
16199509 TCGTTGGATCATG
1 TCGTTGGATCATG
16199522 GGGAGCTCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.31, T:0.38
Consensus pattern (13 bp):
TCGTTGGATCATG
Found at i:16204328 original size:19 final size:20
Alignment explanation
Indices: 16204306--16204381 Score: 66
Period size: 20 Copynumber: 3.8 Consensus size: 20
16204296 AATAAAAGTT
*
16204306 ATAAAATTATT-TAATTTTA
1 ATAAAATTATTAAAATTTTA
*
16204325 ATAAAAATATTAAAATTTTA
1 ATAAAATTATTAAAATTTTA
* * *
16204345 TTAAAATTTATAAAAATTGTAA
1 ATAAAA-TTATTAAAATT-TTA
*
16204367 AAAAAATTA-TAAAAT
1 ATAAAATTATTAAAAT
16204382 ATAGAAAAAT
Statistics
Matches: 45, Mismatches: 9, Indels: 5
0.76 0.15 0.08
Matches are distributed among these distances:
19 10 0.22
20 17 0.38
21 12 0.27
22 6 0.13
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (20 bp):
ATAAAATTATTAAAATTTTA
Found at i:16204360 original size:10 final size:10
Alignment explanation
Indices: 16204325--16204399 Score: 55
Period size: 10 Copynumber: 7.5 Consensus size: 10
16204315 TTTAATTTTA
*
16204325 ATAAAAATAT
1 ATAAAAATTT
*
16204335 -TAAAATTTT
1 ATAAAAATTT
*
16204344 ATTAAAATTT
1 ATAAAAATTT
16204354 ATAAAAATTGT
1 ATAAAAATT-T
* *
16204365 AAAAAAAATT
1 ATAAAAATTT
*
16204375 AT-AAAATAT
1 ATAAAAATTT
*
16204384 AGAAAAATTTT
1 ATAAAAA-TTT
16204395 ATAAA
1 ATAAA
16204400 GTCGTAAGAA
Statistics
Matches: 48, Mismatches: 13, Indels: 7
0.71 0.19 0.10
Matches are distributed among these distances:
9 13 0.27
10 21 0.44
11 14 0.29
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (10 bp):
ATAAAAATTT
Found at i:16204362 original size:21 final size:20
Alignment explanation
Indices: 16204318--16204380 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 20
16204308 AAAATTATTT
* *
16204318 AATTTTAATAAAAATATTAA
1 AATTTTAATAAAATTATAAA
*
16204338 AATTTTATTAAAATTTATAAA
1 AATTTTAATAAAA-TTATAAA
* *
16204359 AATTGTAAAAAAAATTATAAA
1 AATT-TTAATAAAATTATAAA
16204380 A
1 A
16204381 TATAGAAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
20 12 0.34
21 17 0.49
22 6 0.17
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (20 bp):
AATTTTAATAAAATTATAAA
Found at i:16204389 original size:21 final size:21
Alignment explanation
Indices: 16204347--16204390 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
16204337 AAATTTTATT
* *
16204347 AAAATTTATAAAAATTGTAAA
1 AAAAATTATAAAAATAGTAAA
16204368 AAAAATTATAAAATATAG-AAA
1 AAAAATTATAAAA-ATAGTAAA
16204389 AA
1 AA
16204391 TTTTATAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (21 bp):
AAAAATTATAAAAATAGTAAA
Found at i:16204653 original size:10 final size:10
Alignment explanation
Indices: 16204640--16204734 Score: 56
Period size: 10 Copynumber: 9.6 Consensus size: 10
16204630 TTTTGACTCA
16204640 TTTTATATAT
1 TTTTATATAT
16204650 TTTT-TATAAT
1 TTTTATAT-AT
16204660 TTTTATA-AT
1 TTTTATATAT
*
16204669 CTTTTAT-GAT
1 -TTTTATATAT
16204679 TTTTATAT-T
1 TTTTATATAT
* *
16204688 TTTTTTCTAAT
1 TTTTATAT-AT
* *
16204699 TTTAATAACAT
1 TTTTAT-ATAT
**
16204710 TTAAATATAT
1 TTTTATATAT
16204720 TTTTATAT-T
1 TTTTATATAT
16204729 TTTTAT
1 TTTTAT
16204735 TAAAAAGTTT
Statistics
Matches: 66, Mismatches: 11, Indels: 17
0.70 0.12 0.18
Matches are distributed among these distances:
9 25 0.38
10 27 0.41
11 14 0.21
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.66
Consensus pattern (10 bp):
TTTTATATAT
Found at i:16204657 original size:9 final size:9
Alignment explanation
Indices: 16204625--16204691 Score: 55
Period size: 9 Copynumber: 7.0 Consensus size: 9
16204615 ATGGTTAAAA
16204625 ATATTTTTT
1 ATATTTTTT
*
16204634 GACTCATTTTAT
1 -A-T-ATTTTTT
16204646 ATATTTTTT
1 ATATTTTTT
*
16204655 ATAATTTTT
1 ATATTTTTT
*
16204664 ATAATCTTTT
1 AT-ATTTTTT
16204674 ATGA-TTTTT
1 AT-ATTTTTT
16204683 ATATTTTTT
1 ATATTTTTT
16204692 TTCTAATTTT
Statistics
Matches: 46, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
8 1 0.02
9 27 0.59
10 10 0.22
11 2 0.04
12 6 0.13
ACGTcount: A:0.25, C:0.04, G:0.03, T:0.67
Consensus pattern (9 bp):
ATATTTTTT
Found at i:16204661 original size:19 final size:19
Alignment explanation
Indices: 16204625--16204702 Score: 68
Period size: 19 Copynumber: 3.9 Consensus size: 19
16204615 ATGGTTAAAA
*
16204625 ATATTTTTTGACTCATTTTAT
1 ATATTTTTT-A-TAATTTTAT
16204646 ATATTTTTTATAATTTT-T
1 ATATTTTTTATAATTTTAT
* *
16204664 ATAATCTTTTATGATTTTTAT
1 AT-ATTTTTTAT-AATTTTAT
* *
16204685 ATTTTTTTTCTAATTTTA
1 ATATTTTTTATAATTTTA
16204703 ATAACATTTA
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
18 3 0.06
19 20 0.43
20 12 0.26
21 12 0.26
ACGTcount: A:0.26, C:0.05, G:0.03, T:0.67
Consensus pattern (19 bp):
ATATTTTTTATAATTTTAT
Found at i:16204692 original size:39 final size:39
Alignment explanation
Indices: 16204640--16204732 Score: 109
Period size: 39 Copynumber: 2.3 Consensus size: 39
16204630 TTTTGACTCA
* *
16204640 TTTTATATATTTTTTATAATTTTTATAATC-TTT-TATGAT
1 TTTTATATTTTTTTTATAATTTTAATAA-CATTTATAT-AT
*
16204679 TTTTATATTTTTTTTCTAATTTTAATAACATTTAAATATAT
1 TTTTATATTTTTTTTATAATTTTAATAACATTT--ATATAT
16204720 TTTTATATTTTTT
1 TTTTATATTTTTT
16204733 ATTAAAAAGT
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
38 1 0.02
39 28 0.60
41 15 0.32
42 3 0.06
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.67
Consensus pattern (39 bp):
TTTTATATTTTTTTTATAATTTTAATAACATTTATATAT
Done.