Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008094.1 Hibiscus syriacus cultivar Beakdansim tig00110610_pilon, whole genome shotgun sequence
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: 9952466
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 36 of 43
Found at i:7773049 original size:20 final size:20
Alignment explanation
Indices: 7773021--7773061 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
7773011 TGGATTTTTA
*
7773021 AAATTTATTTTTGAAA-TTAT
1 AAATATATTTTT-AAAGTTAT
7773041 AAATATATTTTTAAAGTTAT
1 AAATATATTTTTAAAGTTAT
7773061 A
1 A
7773062 TTTAAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 3 0.16
20 16 0.84
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (20 bp):
AAATATATTTTTAAAGTTAT
Found at i:7773252 original size:27 final size:27
Alignment explanation
Indices: 7773219--7773294 Score: 73
Period size: 27 Copynumber: 2.8 Consensus size: 27
7773209 GTGAATTAAT
7773219 AAATTATAATTTAAAAAAATAATTATA
1 AAATTATAATTTAAAAAAATAATTATA
** * * *
7773246 ATTTTATGAA-TTAAAAGATTAGTTATA
1 AAATTAT-AATTTAAAAAAATAATTATA
*
7773273 AAATTATAATTTTTAAAAAATA
1 AAATTATAA-TTTAAAAAAATA
7773295 TTTTATGATT
Statistics
Matches: 36, Mismatches: 10, Indels: 5
0.71 0.20 0.10
Matches are distributed among these distances:
26 2 0.06
27 24 0.67
28 10 0.28
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (27 bp):
AAATTATAATTTAAAAAAATAATTATA
Found at i:7773333 original size:2 final size:2
Alignment explanation
Indices: 7773326--7773368 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
7773316 TAGTAAATAA
7773326 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7773368 A
1 A
7773369 ATTGACTTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7775606 original size:20 final size:20
Alignment explanation
Indices: 7775578--7775618 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
7775568 TGGATTTTTA
*
7775578 AAATTTATTTTTGAAA-TTAT
1 AAATATATTTTT-AAAGTTAT
7775598 AAATATATTTTTAAAGTTAT
1 AAATATATTTTTAAAGTTAT
7775618 A
1 A
7775619 TTTAAAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 3 0.16
20 16 0.84
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (20 bp):
AAATATATTTTTAAAGTTAT
Found at i:7775810 original size:27 final size:27
Alignment explanation
Indices: 7775770--7775852 Score: 71
Period size: 27 Copynumber: 3.0 Consensus size: 27
7775760 AATATTTGTG
7775770 AATTAATAAA-TTATAATTTAAAAAAAT
1 AATT-ATAAAGTTATAATTTAAAAAAAT
** * *
7775797 AATTATAATTTTATGAA-TTAAAAGATT
1 AATTATAAAGTTAT-AATTTAAAAAAAT
* *
7775824 AGTTATAAAGTTATAATTTTTAAAAAAT
1 AATTATAAAGTTATAA-TTTAAAAAAAT
7775852 A
1 A
7775853 TTTTATGATT
Statistics
Matches: 43, Mismatches: 9, Indels: 7
0.73 0.15 0.12
Matches are distributed among these distances:
26 6 0.14
27 27 0.63
28 10 0.23
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (27 bp):
AATTATAAAGTTATAATTTAAAAAAAT
Found at i:7775882 original size:2 final size:2
Alignment explanation
Indices: 7775875--7775917 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
7775865 TAAATAGTAA
7775875 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7775917 A
1 A
7775918 ATTGACTTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7776509 original size:15 final size:15
Alignment explanation
Indices: 7776486--7776515 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
7776476 GATAAAGAAC
*
7776486 AAATCATAAAAATAA
1 AAATAATAAAAATAA
7776501 AAATAATAAAAATAA
1 AAATAATAAAAATAA
7776516 TAGTAAACAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.20
Consensus pattern (15 bp):
AAATAATAAAAATAA
Found at i:7777865 original size:7 final size:7
Alignment explanation
Indices: 7777853--7777900 Score: 53
Period size: 7 Copynumber: 6.7 Consensus size: 7
7777843 AAAGGAAAAG
7777853 AATAATA
1 AATAATA
7777860 AATAATA
1 AATAATA
*
7777867 AATAACA
1 AATAATA
*
7777874 AATAACA
1 AATAATA
7777881 AATAA-A
1 AATAATA
7777887 TAATAAATA
1 -AAT-AATA
7777896 AATAA
1 AATAA
7777901 AGGAAATTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
6 1 0.03
7 30 0.81
8 5 0.14
9 1 0.03
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.23
Consensus pattern (7 bp):
AATAATA
Found at i:7777870 original size:11 final size:11
Alignment explanation
Indices: 7777853--7777900 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
7777843 AAAGGAAAAG
7777853 AATAATAAAT-
1 AATAATAAATA
*
7777863 AATAA-ATAACA
1 AATAATA-AATA
*
7777874 AATAACAAATA
1 AATAATAAATA
7777885 AATAATAAATA
1 AATAATAAATA
7777896 AATAA
1 AATAA
7777901 AGGAAATTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
9 1 0.03
10 7 0.22
11 23 0.72
12 1 0.03
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.23
Consensus pattern (11 bp):
AATAATAAATA
Found at i:7778043 original size:37 final size:37
Alignment explanation
Indices: 7777949--7778297 Score: 343
Period size: 37 Copynumber: 9.3 Consensus size: 37
7777939 TTTAAATGTT
* * * *
7777949 TTTTCAAAACCATATAATATAATATATTTTCAAAACAATA
1 TTTTAAAAACTATATATTAT-ATATATTTTC-AAA-AATG
* *
7777989 TTTT-AAAATTATATATTATATATATTTTCCAAAATG
1 TTTTAAAAACTATATATTATATATATTTTCAAAAATG
*
7778025 TTTTAAAAATTATATATTATATA-AGTTTTCAAAAATGG
1 TTTTAAAAACTATATATTATATATA-TTTTCAAAAAT-G
* * *
7778063 TTTAAAAAACTATATAATATATATATATTCAAAAATG
1 TTTTAAAAACTATATATTATATATATTTTCAAAAATG
* * *** *
7778100 TTTTAAAAATTATTTATTATATAT-TTAAAAAATATTATT
1 TTTTAAAAACTATATATTATATATATTTTCAAA-A--ATG
* *
7778139 TTTTAAAAAACTATATAATATATAAATGTTTTC-AAAATG
1 TTTT-AAAAACTATAT-AT-TATATATATTTTCAAAAATG
* *
7778178 ATTTTAAAAACTATATATTATATATATATTCTAAAATG
1 -TTTTAAAAACTATATATTATATATATTTTCAAAAATG
*
7778216 TTTTAAAAACTATATA-T-TATATAGTTTCAAAAATG
1 TTTTAAAAACTATATATTATATATATTTTCAAAAATG
*
7778251 TTTTAAAAACTATATATTATATATATTTTC-AAAACG
1 TTTTAAAAACTATATATTATATATATTTTCAAAAATG
7778287 TTTTAAAAACT
1 TTTTAAAAACT
7778298 TATTTCAAAA
Statistics
Matches: 260, Mismatches: 34, Indels: 34
0.79 0.10 0.10
Matches are distributed among these distances:
35 31 0.12
36 30 0.12
37 88 0.34
38 49 0.19
39 32 0.12
40 17 0.07
41 3 0.01
42 8 0.03
43 2 0.01
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (37 bp):
TTTTAAAAACTATATATTATATATATTTTCAAAAATG
Found at i:7778137 original size:18 final size:17
Alignment explanation
Indices: 7778114--7778148 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
7778104 AAAAATTATT
7778114 TATTATATATTTAAAAAA
1 TATTAT-TATTTAAAAAA
*
7778132 TATTATTTTTTAAAAAA
1 TATTATTATTTAAAAAA
7778149 CTATATAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TATTATTATTTAAAAAA
Found at i:7778200 original size:116 final size:115
Alignment explanation
Indices: 7778025--7778284 Score: 329
Period size: 116 Copynumber: 2.3 Consensus size: 115
7778015 TTCCAAAATG
* * *
7778025 TTTTAAAAATTATATATTATATAAGTTTTCAAAAATGGTTTAAAAAACTATATAATATATATATA
1 TTTTAAAAACTATATAATATATAAGTTTTCAAAAATGATTTAAAAAACTATATAATATATATATA
* *
7778090 TTCAAAAATGTTTTAAAAATTATTTATTATATA-TTTAAAAAATATTATT
66 TTCAAAAATGTTTTAAAAACTATATATTATATAGTTTAAAAAATATTATT
* *
7778139 TTTTAAAAAACTATATAATATATAAATGTTTTC-AAAATGATTTTAAAAACTATATATTATATAT
1 TTTT-AAAAACTATATAATATAT-AA-GTTTTCAAAAATGATTTAAAAAACTATATAATATATAT
* * *
7778203 ATATTCTAAAATGTTTTAAAAACTATATATTATATAGTTT--CAAA-A--ATG
63 ATATTCAAAAATGTTTTAAAAACTATATATTATATAGTTTAAAAAATATTATT
*
7778251 TTTTAAAAACTATATATTATATATA-TTTTCAAAA
1 TTTTAAAAACTATATAATATATA-AGTTTTCAAAA
7778285 CGTTTTAAAA
Statistics
Matches: 129, Mismatches: 11, Indels: 16
0.83 0.07 0.10
Matches are distributed among these distances:
109 5 0.04
110 4 0.03
111 18 0.14
112 6 0.05
114 5 0.04
115 19 0.15
116 63 0.49
117 9 0.07
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (115 bp):
TTTTAAAAACTATATAATATATAAGTTTTCAAAAATGATTTAAAAAACTATATAATATATATATA
TTCAAAAATGTTTTAAAAACTATATATTATATAGTTTAAAAAATATTATT
Found at i:7778328 original size:191 final size:191
Alignment explanation
Indices: 7777954--7778302 Score: 492
Period size: 191 Copynumber: 1.8 Consensus size: 191
7777944 ATGTTTTTTC
* * * *
7777954 AAAACCATATAATATAATATATTTTCAAAACAATATTTTAAAATTATATATTATATATATTTTCC
1 AAAACCATATAATATAAAATATTTTCAAAACAATATTTAAAAACTATATATTATATATATATTCC
*
7778019 AAAATGTTTTAAAAATTATATATTATATAAGTTTTCAAAAATGGTTTAAAAAACTATATAATATA
66 AAAATGTTTTAAAAACTATATATTATATAAGTTTTCAAAAATGGTTTAAAAAACTATATAATATA
* * * *
7778084 TATATATTCAAAAATGTTTTAAAAATTATTTATTATATATTTAAAAAATATTATTTTTTAA
131 TATATATTCAAAAACGTTTTAAAAATTATTTATAAAACATTTAAAAAATATTATTTTTTAA
* * **
7778145 AAAACTATATAATATATAAATGTTTTCAAAATGAT-TTTAAAAACTATATATTATATATATATTC
1 AAAACCATATAATATA-AAATATTTTCAAAACAATATTTAAAAACTATATATTATATATATATTC
* * *
7778209 TAAAATGTTTTAAAAACTATATATTATAT-AG-TTTCAAAAAT-GTTTTAAAAACTATATATTAT
65 CAAAATGTTTTAAAAACTATATATTATATAAGTTTTCAAAAATGGTTTAAAAAACTATATAATAT
*
7778271 ATATATTTTC-AAAACGTTTTAAAAACTTATTT
130 ATATATATTCAAAAACGTTTTAAAAA-TTATTT
7778303 CAAAAACCAT
Statistics
Matches: 142, Mismatches: 14, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
187 14 0.10
188 34 0.24
189 10 0.07
190 2 0.01
191 68 0.48
192 14 0.10
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.44
Consensus pattern (191 bp):
AAAACCATATAATATAAAATATTTTCAAAACAATATTTAAAAACTATATATTATATATATATTCC
AAAATGTTTTAAAAACTATATATTATATAAGTTTTCAAAAATGGTTTAAAAAACTATATAATATA
TATATATTCAAAAACGTTTTAAAAATTATTTATAAAACATTTAAAAAATATTATTTTTTAA
Found at i:7778333 original size:2 final size:2
Alignment explanation
Indices: 7778321--7778361 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
7778311 ATTTGCAAAC
7778321 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7778362 ATACAGACGA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7778353 original size:191 final size:192
Alignment explanation
Indices: 7777954--7778356 Score: 475
Period size: 191 Copynumber: 2.1 Consensus size: 192
7777944 ATGTTTTTTC
* * * *
7777954 AAAACCATATA-ATATAATATATTTTCAAAACAATATTTTAAAATTATATATTATATATATTTTC
1 AAAACTATATATATATAATATATTTTCAAAACAATATTTAAAAACTATATATTATATATATATTC
*
7778018 CAAAATGTTTTAAAAATTATATATTATATAAGTTTTCAAAAATGGTTTAAAAAACTATATAATAT
66 CAAAATGTTTTAAAAACTATATATTATATAAGTTTTCAAAAATGGTTTAAAAAACTATATAATAT
* * * * * *
7778083 ATATATATTCAAAAATGTTTTAAAAATTATTTATTATATATTTAAAAAATATTATTTTTTAA
131 ATATATATTCAAAAACGTTTTAAAAATTATTTATAAAACATTTAAAAAATATTATTATATAA
* **
7778145 AAAACTATATAATATATAA-ATGTTTTCAAAATGAT-TTTAAAAACTATATATTATATATATATT
1 AAAACTATAT-ATATATAATATATTTTCAAAACAATATTTAAAAACTATATATTATATATATATT
* * *
7778208 CTAAAATGTTTTAAAAACTATATATTATAT-AG-TTTCAAAAAT-GTTTTAAAAACTATATATTA
65 CCAAAATGTTTTAAAAACTATATATTATATAAGTTTTCAAAAATGGTTTAAAAAACTATATAATA
* ** *
7778270 TATATATTTTC-AAAACGTTTTAAAAACTTATTTCA-AAAACCATTTGCAAACTA-TATTATATA
130 TATATATATTCAAAAACGTTTTAAAAA-TTATTT-ATAAAA-CATTTAAAAAATATTATTATATA
7778332 TA
192 -A
* *
7778334 TATA-TATATATATATATATATAT
1 AAAACTATATATATATA-ATATAT
7778357 ATATAATACA
Statistics
Matches: 180, Mismatches: 24, Indels: 18
0.81 0.11 0.08
Matches are distributed among these distances:
187 21 0.12
188 49 0.27
189 26 0.14
190 2 0.01
191 62 0.34
192 14 0.08
193 6 0.03
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (192 bp):
AAAACTATATATATATAATATATTTTCAAAACAATATTTAAAAACTATATATTATATATATATTC
CAAAATGTTTTAAAAACTATATATTATATAAGTTTTCAAAAATGGTTTAAAAAACTATATAATAT
ATATATATTCAAAAACGTTTTAAAAATTATTTATAAAACATTTAAAAAATATTATTATATAA
Found at i:7779028 original size:84 final size:84
Alignment explanation
Indices: 7778892--7779448 Score: 688
Period size: 84 Copynumber: 6.6 Consensus size: 84
7778882 TTTTTATTGA
* * * * * *** * * *
7778892 CAGATAACACTTCTTGCCTTGAGTTAAGCTGTAAAGGATGCACCTTTGAGCTGAGTGTAATCGAA
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAA
7778957 CTCGAAGGTC-TTTGGTTGG
66 CTCGAAGGTCTTTTGG-TGG
* ** * *
7778976 CAGATAGCCCTTCTCTCCTTAAGATATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAA
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAA
*
7779041 CTTGAAGGTCTTTTGGTGG
66 CTCGAAGGTCTTTTGGTGG
* * * * *
7779060 CAGATAACCCTTCTAGCCTTGAGCTATACTGCAAATAATGTGCCTTGGAGCTGAGCGTAGTCGGA
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAA
7779125 CTCGAAGGT-TTTTGGTTGG
66 CTCGAAGGTCTTTTGG-TGG
* * *
7779144 CAGATAACCCTTCTAGCCTTGAGTTATGCTGCGAATGATATGCCTTGGAGCTGAGTGTAGTCAAA
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAA
7779209 CTCGAAGGTCTTTTGGTGG
66 CTCGAAGGTCTTTTGGTGG
* * * * * *
7779228 AAGATAGCCCTTCTAGCCTTGAGTTGTGCTGCACATGATATGCCTTGGAGCTGAGCGTTGTCGAG
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAA
*
7779293 CTCGAAGGTC-TTTGGTTAG
66 CTCGAAGGTCTTTTGG-TGG
* * *
7779312 CGGATAACCCTTCTAGCCTTGAGTTATACTGCAAATGATATGCCTGGGAGCTGAGCGTAGTCGAA
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAA
* *
7779377 CTCGAAGTTCTTTTAGTGG
66 CTCGAAGGTCTTTTGGTGG
* * * * *
7779396 CAGATAGCCCTTCTGGCCTTGAGCTATGCTGCAATTGATGTGCCTTGGAGCTG
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATATGCCTTGGAGCTG
7779449 GTGAGCACGA
Statistics
Matches: 404, Mismatches: 64, Indels: 10
0.85 0.13 0.02
Matches are distributed among these distances:
83 11 0.03
84 378 0.94
85 15 0.04
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (84 bp):
CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAA
CTCGAAGGTCTTTTGGTGG
Found at i:7779620 original size:124 final size:124
Alignment explanation
Indices: 7779446--7780044 Score: 914
Period size: 124 Copynumber: 4.8 Consensus size: 124
7779436 TGCCTTGGAG
* * * * *
7779446 CTGGTGAGCACGATTCCCTTTATCGTGAAGTTGAAACCATAGATGACCCCTTCGTTGTAAAGTTG
1 CTGGTGAGCACGATTCCCTTCATCGTGAAGTTGAAACCGTGGATGGCCCCTTCGTTGTGAAGTTG
7779511 AGCCTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTA
66 AGCCTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTA
* * *
7779570 CTGGTGAGAATGATTCCCTTCATCGTGAAAG-TGAAACCATGGATGGCCCCTTCGTTGTGAAGTT
1 CTGGTGAGCACGATTCCCTTCATCGTG-AAGTTGAAACCGTGGATGGCCCCTTCGTTGTGAAGTT
* *
7779634 GAGCCTTAAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAAAGTTA
65 GAGCCTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTA
* ** * *
7779694 CTGGTGAGCACAATTCCCTTTGTCGTGAAGTTAAAACCGTGGATGGCCCATTCGTTGTGAAGTTG
1 CTGGTGAGCACGATTCCCTTCATCGTGAAGTTGAAACCGTGGATGGCCCCTTCGTTGTGAAGTTG
* *
7779759 AGCCTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCACTCTAAAGATGAATGTTG
66 AGCCTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTA
* * *
7779818 TTGGTGAGAACGATTCCCTTCATCGTGAAGTTGAAACTGTGGATGGCCCCTTCGTTGTGAAGTTG
1 CTGGTGAGCACGATTCCCTTCATCGTGAAGTTGAAACCGTGGATGGCCCCTTCGTTGTGAAGTTG
* *
7779883 AGCCTTGAATTGAATATCCTTCTTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTA
66 AGCCTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTA
* * * * *
7779942 CTGGTGAGCACGATTTCATTCGTCGTGAAGTTGAAACCGTTGATGGCCCCTTTGTTGTGAAGTTG
1 CTGGTGAGCACGATTCCCTTCATCGTGAAGTTGAAACCGTGGATGGCCCCTTCGTTGTGAAGTTG
*
7780007 AGCC-TGTAATTAGATATCCTTCGTCGTGAAGTTGAAAT
66 AGCCTTG-AATTGGATATCCTTCGTCGTGAAGTTGAAAT
7780045 TGGCTCTGAA
Statistics
Matches: 429, Mismatches: 43, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
123 5 0.01
124 421 0.98
125 3 0.01
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (124 bp):
CTGGTGAGCACGATTCCCTTCATCGTGAAGTTGAAACCGTGGATGGCCCCTTCGTTGTGAAGTTG
AGCCTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTA
Found at i:7780211 original size:43 final size:43
Alignment explanation
Indices: 7780164--7780263 Score: 137
Period size: 43 Copynumber: 2.3 Consensus size: 43
7780154 GTCATTAAGC
* * *
7780164 TGAAATTGTGGATGTGTGGGCACGATATCCTCCATTGTGGAGT
1 TGAAATCGTGGATGTGTAGGCACGATATCCTCCATCGTGGAGT
* * *
7780207 TGAAATCGTGGATTTGTAGGTACGATATCCTCCGTCGTGGAGT
1 TGAAATCGTGGATGTGTAGGCACGATATCCTCCATCGTGGAGT
*
7780250 TGAAATCATGGATG
1 TGAAATCGTGGATG
7780264 GCCCCTTCGT
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.23, C:0.14, G:0.31, T:0.32
Consensus pattern (43 bp):
TGAAATCGTGGATGTGTAGGCACGATATCCTCCATCGTGGAGT
Found at i:7781635 original size:95 final size:95
Alignment explanation
Indices: 7781484--7781665 Score: 292
Period size: 95 Copynumber: 1.9 Consensus size: 95
7781474 ATTATAATCA
*
7781484 CCTTTATCAAGCTAGCTGAATATTATCCATAAAGCCGGGGTGTTTAACCAATTGCTCTAGAGGGA
1 CCTTTATCAAGCTAGCTGAATATTATCCATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGA
*
7781549 CAACTCAAGCTTTATTGTATATTTTAATTG
66 CAACTAAAGCTTTATTGTATATTTTAATTG
* * * *
7781579 CCTTTATCAGGCTAGCTGAATCTTATCCATAAAGTCGGGGCGTTTAAGCAATTGCTCTAGAGGGA
1 CCTTTATCAAGCTAGCTGAATATTATCCATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGA
* *
7781644 CAGCTAAAGTTTTATTGTATAT
66 CAACTAAAGCTTTATTGTATAT
7781666 ATATAATTAT
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
95 79 1.00
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.34
Consensus pattern (95 bp):
CCTTTATCAAGCTAGCTGAATATTATCCATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGA
CAACTAAAGCTTTATTGTATATTTTAATTG
Found at i:7783635 original size:7 final size:7
Alignment explanation
Indices: 7783608--7783706 Score: 53
Period size: 7 Copynumber: 14.0 Consensus size: 7
7783598 AAAGCGTTAG
*
7783608 ATAAAGA
1 ATAAAAA
*
7783615 ATAAAAC
1 ATAAAAA
7783622 AT-AAAA
1 ATAAAAA
7783628 ATAAAAAA
1 AT-AAAAA
***
7783636 ATGGTAA
1 ATAAAAA
7783643 ATAAATCAA
1 ATAAA--AA
7783652 ATAAGAGAA
1 ATAA-A-AA
*
7783661 A-AAAGA
1 ATAAAAA
7783667 ATAAAAA
1 ATAAAAA
*
7783674 ATAAAAG
1 ATAAAAA
*
7783681 AGAAAAA
1 ATAAAAA
7783688 AT-AAAA
1 ATAAAAA
7783694 AT-AAAA
1 ATAAAAA
7783700 ATAAAAA
1 ATAAAAA
7783707 TGTTAAAAGT
Statistics
Matches: 69, Mismatches: 16, Indels: 14
0.70 0.16 0.14
Matches are distributed among these distances:
6 19 0.28
7 32 0.46
8 8 0.12
9 9 0.13
10 1 0.01
ACGTcount: A:0.76, C:0.02, G:0.08, T:0.14
Consensus pattern (7 bp):
ATAAAAA
Found at i:7783699 original size:26 final size:24
Alignment explanation
Indices: 7783654--7783705 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
7783644 TAAATCAAAT
* *
7783654 AAGAGAAAAAAGAATAAAAAATAA
1 AAGAGAAAAAAAAAAAAAAAATAA
7783678 AAGAGAAAAAATAAAAATAAAAATAA
1 AAGAGAAAAAA-AAAAA-AAAAATAA
7783704 AA
1 AA
7783706 ATGTTAAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 11 0.46
25 3 0.12
26 10 0.42
ACGTcount: A:0.81, C:0.00, G:0.10, T:0.10
Consensus pattern (24 bp):
AAGAGAAAAAAAAAAAAAAAATAA
Found at i:7783706 original size:27 final size:25
Alignment explanation
Indices: 7783645--7783706 Score: 63
Period size: 24 Copynumber: 2.4 Consensus size: 25
7783635 AATGGTAAAT
* *
7783645 AAATCAAATAAGAGAAAAAAGAATAAA
1 AAAT-AAA-AAGAGAAAAAAAAAAAAA
7783672 AAAT-AAAAGAGAAAAAATAAAAATAA
1 AAATAAAAAGAGAAAAAA-AAAAA-AA
7783698 AAATAAAAA
1 AAATAAAAA
7783707 TGTTAAAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
24 11 0.37
25 5 0.17
26 6 0.20
27 8 0.27
ACGTcount: A:0.79, C:0.02, G:0.08, T:0.11
Consensus pattern (25 bp):
AAATAAAAAGAGAAAAAAAAAAAAA
Found at i:7785047 original size:11 final size:11
Alignment explanation
Indices: 7785016--7785047 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
7785006 GGAAAAGAAT
*
7785016 AATAAATAACA
1 AATAAATAATA
7785027 AATAAATAATA
1 AATAAATAATA
7785038 AATAAATAAT
1 AATAAATAAT
7785048 GGAAAATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (11 bp):
AATAAATAATA
Found at i:7785118 original size:41 final size:40
Alignment explanation
Indices: 7785050--7785127 Score: 95
Period size: 41 Copynumber: 1.9 Consensus size: 40
7785040 TAAATAATGG
* * *
7785050 AAAATATTTTTTTAAACTATATTATAT-ATATGATTTTTTA
1 AAAATATTTTTTAAAACCATATAATATAATAT-ATTTTTTA
*
7785090 AAAATGTTTTTTCAAAACCATATAATATAATATATTTT
1 AAAATATTTTTT-AAAACCATATAATATAATATATTTT
7785128 CAAAAAAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
40 11 0.34
41 17 0.53
42 4 0.12
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (40 bp):
AAAATATTTTTTAAAACCATATAATATAATATATTTTTTA
Found at i:7785171 original size:35 final size:36
Alignment explanation
Indices: 7785109--7785434 Score: 314
Period size: 37 Copynumber: 9.0 Consensus size: 36
7785099 TTTCAAAACC
* **
7785109 ATATAATATAATATATTTTCAAAAAAATATTTAAAATT
1 ATATATTAT-ATATATTTTCAAAAATGT-TTTAAAATT
*
7785147 ATATATTATATATATTTTCCAAAATGTTTTAAAAATT
1 ATATATTATATATATTTTCAAAAATGTTTT-AAAATT
* *
7785184 ATATATTATATA-AGTTTCAAAAATGTTTTAAAA-A
1 ATATATTATATATATTTTCAAAAATGTTTTAAAATT
* *
7785218 ACTATA-TA-ATATATATTC-AAAATGTTTTAAAA-A
1 A-TATATTATATATATTTTCAAAAATGTTTTAAAATT
* *
7785251 ACTATA-TAT-TATATATTT-AAAAATGTTTTTTTAAACT
1 A-TATATTATATATAT-TTTCAAAAATG--TTTTAAAATT
* *
7785288 ATCTACTATATAAATATTTTC-AAAATGATTTTAAAATCT
1 ATATA-T-TATATATATTTTCAAAAATG-TTTTAAAAT-T
*
7785327 ATATATTATATATATTTTCTAAAATGTTTTAAAATCT
1 ATATATTATATATATTTTCAAAAATGTTTTAAAAT-T
*
7785364 ATATATTATATATATTTTCTAAAATGTTTTAAAAATT
1 ATATATTATATATATTTTCAAAAATGTTTT-AAAATT
*
7785401 ATATATTATATA-GTTTTCAAAAATGTTTTAAAAT
1 ATATATTATATATATTTTCAAAAATGTTTTAAAAT
7785435 GAGTGTCTAC
Statistics
Matches: 250, Mismatches: 21, Indels: 37
0.81 0.07 0.12
Matches are distributed among these distances:
33 31 0.12
34 15 0.06
35 13 0.05
36 43 0.17
37 100 0.40
38 27 0.11
39 17 0.07
40 4 0.02
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (36 bp):
ATATATTATATATATTTTCAAAAATGTTTTAAAATT
Found at i:7785313 original size:39 final size:38
Alignment explanation
Indices: 7785057--7785434 Score: 312
Period size: 37 Copynumber: 10.3 Consensus size: 38
7785047 TGGAAAATAT
* *
7785057 TTTTTTAAA-CTATAT-TATATATATGATTTTTTAAAAATG
1 TTTTTAAAATCTATATAT-TATATAT-ATTTTCT-AAAATG
* * * **
7785096 TTTTTTCAAAA-CCATATAATATAATATATTTTCAAAAAAA
1 -TTTTT-AAAATCTATATATTAT-ATATATTTTCTAAAATG
* *
7785136 TATTTAAAAT-TATATATTATATATATTTTCCAAAATG
1 TTTTTAAAATCTATATATTATATATATTTTCTAAAATG
* * *
7785173 TTTTAAAAAT-TATATATTATATA-AGTTTCAAAAATG
1 TTTTTAAAATCTATATATTATATATATTTTCTAAAATG
* *
7785209 TTTTAAAAAACTATATA--ATATATA--TTC-AAAATG
1 TTTTTAAAATCTATATATTATATATATTTTCTAAAATG
* * *
7785242 TTTTAAAAAACTATATA-T-TATATA-TTT-AAAAATG
1 TTTTTAAAATCTATATATTATATATATTTTCTAAAATG
* * *
7785276 TTTTTTTAAA-CTATCTACTATATAAATATTTTC-AAAATG
1 -TTTTTAAAATCTATATA-T-TATATATATTTTCTAAAATG
*
7785315 ATTTTAAAATCTATATATTATATATATTTTCTAAAATG
1 TTTTTAAAATCTATATATTATATATATTTTCTAAAATG
7785353 -TTTTAAAATCTATATATTATATATATTTTCTAAAATG
1 TTTTTAAAATCTATATATTATATATATTTTCTAAAATG
* * *
7785390 TTTTAAAAAT-TATATATTATATA-GTTTTCAAAAATG
1 TTTTTAAAATCTATATATTATATATATTTTCTAAAATG
7785426 -TTTTAAAAT
1 TTTTTAAAAT
7785435 GAGTGTCTAC
Statistics
Matches: 289, Mismatches: 30, Indels: 43
0.80 0.08 0.12
Matches are distributed among these distances:
33 29 0.10
34 17 0.06
35 20 0.07
36 32 0.11
37 104 0.36
38 39 0.13
39 19 0.07
40 9 0.03
41 16 0.06
42 4 0.01
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.47
Consensus pattern (38 bp):
TTTTTAAAATCTATATATTATATATATTTTCTAAAATG
Found at i:7790054 original size:38 final size:39
Alignment explanation
Indices: 7790006--7790083 Score: 131
Period size: 38 Copynumber: 2.0 Consensus size: 39
7789996 TGGGTCGAGC
*
7790006 TTTTTAAGTGTGATATTCGGGTCGAGTCGGG-TCGGGTT
1 TTTTTAAGTGTGATATTCAGGTCGAGTCGGGTTCGGGTT
*
7790044 TTTTTAAGTGTGATATTCAGGTCGGGTCGGGTTCGGGTT
1 TTTTTAAGTGTGATATTCAGGTCGAGTCGGGTTCGGGTT
7790083 T
1 T
7790084 AGGGTGCGAC
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
38 29 0.78
39 8 0.22
ACGTcount: A:0.13, C:0.10, G:0.36, T:0.41
Consensus pattern (39 bp):
TTTTTAAGTGTGATATTCAGGTCGAGTCGGGTTCGGGTT
Found at i:7790669 original size:17 final size:18
Alignment explanation
Indices: 7790644--7790690 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
7790634 TATAGAATTG
*
7790644 GATTCCAATTCC-TGACA
1 GATTCCAATTCCTTCACA
*
7790661 GATTTCAATTCCTTCACA
1 GATTCCAATTCCTTCACA
7790679 GATTCCAATTCC
1 GATTCCAATTCC
7790691 CTCATAAGCA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 11 0.42
18 15 0.58
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.34
Consensus pattern (18 bp):
GATTCCAATTCCTTCACA
Found at i:7790816 original size:23 final size:22
Alignment explanation
Indices: 7790790--7790843 Score: 72
Period size: 23 Copynumber: 2.4 Consensus size: 22
7790780 ATATTTAAAA
*
7790790 TAAAATATCCAAAAGATAAATCT
1 TAAAATAT-CAAAAGATAAATCC
7790813 TAAAATAATCAAAAGATAAATCC
1 TAAAAT-ATCAAAAGATAAATCC
*
7790836 AAAAATAT
1 TAAAATAT
7790844 TTTTCAAACT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 2 0.07
23 24 0.86
24 2 0.07
ACGTcount: A:0.61, C:0.11, G:0.04, T:0.24
Consensus pattern (22 bp):
TAAAATATCAAAAGATAAATCC
Found at i:7793431 original size:29 final size:29
Alignment explanation
Indices: 7793346--7793431 Score: 100
Period size: 29 Copynumber: 2.9 Consensus size: 29
7793336 CGCCCCCAAC
* *
7793346 AGGTCGCCATGCATTCCCCAACACCCCTACA
1 AGGTCGCCATGCACT-CCCAACA-ACCTACA
* * * *
7793377 AGGTCGCCAAGAACTCCCAGCGACCTACA
1 AGGTCGCCATGCACTCCCAACAACCTACA
7793406 AGGTCGCCATGCACTCCCAACAACCT
1 AGGTCGCCATGCACTCCCAACAACCT
7793432 TGTAGGTCGC
Statistics
Matches: 45, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
29 28 0.62
30 5 0.11
31 12 0.27
ACGTcount: A:0.28, C:0.42, G:0.16, T:0.14
Consensus pattern (29 bp):
AGGTCGCCATGCACTCCCAACAACCTACA
Found at i:7793758 original size:12 final size:12
Alignment explanation
Indices: 7793741--7793776 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
7793731 CAGCCGAGAA
7793741 AGAAAGAAAGGG
1 AGAAAGAAAGGG
*
7793753 AGAAAGAAAGGA
1 AGAAAGAAAGGG
7793765 AG-AAGAAAGGG
1 AGAAAGAAAGGG
7793776 A
1 A
7793777 TAAGGCTCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 9 0.41
12 13 0.59
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (12 bp):
AGAAAGAAAGGG
Found at i:7793904 original size:22 final size:21
Alignment explanation
Indices: 7793879--7793919 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
7793869 GTTAATTAAT
*
7793879 TTGTTAATTTAGGGTTATATGA
1 TTGTTAATTTA-AGTTATATGA
*
7793901 TTGTTAGTTTAAGTTATAT
1 TTGTTAATTTAAGTTATAT
7793920 TACATAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.27, C:0.00, G:0.20, T:0.54
Consensus pattern (21 bp):
TTGTTAATTTAAGTTATATGA
Found at i:7796505 original size:10 final size:10
Alignment explanation
Indices: 7796492--7796518 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
7796482 ATAAATTATT
7796492 ATTACTAATC
1 ATTACTAATC
7796502 ATTACTAATC
1 ATTACTAATC
7796512 ATTACTA
1 ATTACTA
7796519 TCAAATCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.19, G:0.00, T:0.41
Consensus pattern (10 bp):
ATTACTAATC
Found at i:7796576 original size:96 final size:98
Alignment explanation
Indices: 7796476--7796912 Score: 377
Period size: 106 Copynumber: 4.1 Consensus size: 98
7796466 AATCATTAAT
7796476 ATTAATAT-AAA-TTATTATTACTAATCATTACTAATCATTACTATCAAATCATTAAAAATTAAT
1 ATTAATATAAAATTTATTATTACTAATCATTACTAATCATTACTATCAAATCATTAAAAATTAAT
7796539 AATAATTTCATTATTACTAATCATTACTAAATC
66 AATAATTTCATTATTACTAATCATTACTAAATC
* *
7796572 ATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACTATCAAATCAT
1 ATTAATAT-AAA--ATT---TATTATTACTAA--TC---ATTACTAATCATTACTATCAAATCAT
7796637 T-AAAATTAATAATAATTTCATTATTACT-ATCATTACTATCAAATC
55 TAAAAATTAATAATAATTTCATTATTACTAATCATTAC--T-AAATC
7796682 ATTAAAAATTAATAATAATTTCATTATTACTAATCATTACTAATCATTACTATC-AATCATTAAA
1 ATT---AA-T-ATAA-AATTT-ATTATTACTAATCATTACTAATCATTACTATCAAATCATTAAA
* *
7796746 TATTAATAACAATTTCATTATTACTAATCATTACT-AATC
59 AATTAATAATAATTTCATTATTACTAATCATTACTAAATC
* *
7796785 ATTACTATCAAATAGTTAAATATTATAAC-AATTTCATTATTACTAATCATTACTAATCATTACT
1 ATTAATAT-AAA-A-TT---TATTATTACTAA--TC---ATTACTAATCATTACT-ATCA--A--
*
7796849 ATCAATCATAAATATTAATAATAATTTCATTATTACTAATCATTACT-AATC
50 ATC-AT--TAAAAATTAATAATAATTTCATTATTACTAATCATTACTAAATC
* *
7796900 ATTACTATCAAAT
1 ATTAATATAAAAT
7796913 CATTAAAATT
Statistics
Matches: 286, Mismatches: 10, Indels: 74
0.77 0.03 0.20
Matches are distributed among these distances:
96 8 0.03
98 5 0.02
99 4 0.01
100 4 0.01
101 3 0.01
102 7 0.02
103 10 0.03
104 10 0.03
105 8 0.03
106 62 0.22
107 19 0.07
108 27 0.09
109 30 0.10
110 10 0.03
111 9 0.03
112 4 0.01
113 8 0.03
114 5 0.02
115 53 0.19
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (98 bp):
ATTAATATAAAATTTATTATTACTAATCATTACTAATCATTACTATCAAATCATTAAAAATTAAT
AATAATTTCATTATTACTAATCATTACTAAATC
Found at i:7796582 original size:60 final size:60
Alignment explanation
Indices: 7796443--7796627 Score: 292
Period size: 60 Copynumber: 3.2 Consensus size: 60
7796433 ATTACTATCA
* *
7796443 AATCATTACTAAACCATT-A-ATCAAATCATT-AATATTAAT-ATAAATT-ATTATTACT
1 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACT
* *
7796498 AATCATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACT
1 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACT
7796557 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACT
1 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACT
7796617 AATCATTACTA
1 AATCATTACTA
7796628 TCAAATCATT
Statistics
Matches: 118, Mismatches: 6, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
54 6 0.05
55 10 0.08
56 11 0.09
57 8 0.07
58 6 0.05
59 19 0.16
60 58 0.49
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (60 bp):
AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACT
Found at i:7796648 original size:48 final size:49
Alignment explanation
Indices: 7796561--7796953 Score: 373
Period size: 58 Copynumber: 7.3 Consensus size: 49
7796551 ATTACTAATC
*
7796561 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATT
1 ATTACT-AATCATTACTATCAAATCATTAAATATTAATAATAATTTCATT
7796611 ATTACTAATCATTACTATCAAATCATTAAA-ATTAATAATAATTTCATT
1 ATTACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATT
*
7796659 ATTACT-ATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
1 ATTACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATT
*
7796707 ATTACTAATCATTACTAATCATTACTATCAATCATTAAATATTAATAACAATTTCATT
1 ATTACTAATCATTAC---T-A-T-C-A--AATCATTAAATATTAATAATAATTTCATT
*
7796765 ATTACTAATCATTACTAATCATTACTATCAAATAGTTAAATATT-ATAACAATTTCATT
1 ATTACTAATCATTACT-ATCA--A--ATC----A-TTAAATATTAATAATAATTTCATT
7796823 ATTACTAATCATTACTAATCATTACTATCAATCATAAATATTAATAATAATTTCATTATTACTAA
1 ATTACTAATCATTACT-ATCA--A--ATC-AT--TAAATATTAATAATAATTTC------A-T--
7796888 T
49 T
7796889 CATTACTAATCATTACTATCAAATCATTAAA-ATTAATAAT-ATTTCATT
1 -ATTACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATT
7796937 ATTACTAATCATTACTA
1 ATTACTAATCATTACTA
7796954 AATCATTAAT
Statistics
Matches: 305, Mismatches: 7, Indels: 65
0.81 0.02 0.17
Matches are distributed among these distances:
47 40 0.13
48 49 0.16
49 31 0.10
50 7 0.02
51 1 0.00
52 4 0.01
53 2 0.01
54 6 0.02
55 4 0.01
56 9 0.03
57 15 0.05
58 95 0.31
59 13 0.04
61 2 0.01
62 3 0.01
63 1 0.00
64 2 0.01
66 5 0.02
67 16 0.05
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (49 bp):
ATTACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATT
Found at i:7796720 original size:10 final size:10
Alignment explanation
Indices: 7796707--7796906 Score: 83
Period size: 10 Copynumber: 20.7 Consensus size: 10
7796697 TAATTTCATT
7796707 ATTACTAATC
1 ATTACTAATC
7796717 ATTACTAATC
1 ATTACTAATC
7796727 ATTACTATCAATC
1 ATTAC--T-AATC
7796740 ATTA--AAT-
1 ATTACTAATC
*
7796747 ATTAATAA-C
1 ATTACTAATC
* *
7796756 AATT--TCATT
1 -ATTACTAATC
7796765 ATTACTAATC
1 ATTACTAATC
7796775 ATTACTAATC
1 ATTACTAATC
7796785 ATTACT-ATC
1 ATTACTAATC
* *
7796794 AAATAGTTAAAT-
1 -ATTA-CT-AATC
7796806 ATTA-TAA-C
1 ATTACTAATC
* *
7796814 AATT--TCATT
1 -ATTACTAATC
7796823 ATTACTAATC
1 ATTACTAATC
7796833 ATTACTAATC
1 ATTACTAATC
7796843 ATTACT-ATC
1 ATTACTAATC
*
7796852 AAT-CATAAAT-
1 ATTAC-T-AATC
* *
7796862 ATTAATAATA
1 ATTACTAATC
* *
7796872 ATT--TCATT
1 ATTACTAATC
7796880 ATTACTAATC
1 ATTACTAATC
7796890 ATTACTAATC
1 ATTACTAATC
7796900 ATTACTA
1 ATTACTA
7796907 TCAAATCATT
Statistics
Matches: 146, Mismatches: 18, Indels: 52
0.68 0.08 0.24
Matches are distributed among these distances:
7 4 0.03
8 22 0.15
9 18 0.12
10 85 0.58
11 6 0.04
12 1 0.01
13 10 0.07
ACGTcount: A:0.43, C:0.15, G:0.01, T:0.41
Consensus pattern (10 bp):
ATTACTAATC
Found at i:7796742 original size:58 final size:59
Alignment explanation
Indices: 7796659--7797069 Score: 641
Period size: 58 Copynumber: 7.1 Consensus size: 59
7796649 TAATTTCATT
*
7796659 ATTACT-ATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
1 ATTACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
*
7796717 ATTACTAATCATTACTATC-AATCATTAAATATTAATAACAATTTCATTATTACTAATC
1 ATTACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
*
7796775 ATTACTAATCATTACTATCAAAT-AGTTAAATATT-ATAACAATTTCATTATTACTAATC
1 ATTACTAATCATTACTATCAAATCA-TTAAATATTAATAATAATTTCATTATTACTAATC
7796833 ATTACTAATCATTACTATC-AATCA-TAAATATTAATAATAATTTCATTATTACTAATC
1 ATTACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
7796890 ATTACTAATCATTACTATCAAATCATTAAA-ATTAATAAT-ATTTCATTATTACTAATC
1 ATTACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
* * *
7796947 ATTACTAAATCATTAATATCAAATTATTAAATATTAATAACAATTTCATTATTACT-A-C
1 ATTACT-AATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
*
7797005 ATTACTAAATCATTACTATCAAATCATTAAATA-T--TAATAATTTCATCATTACTAATC
1 ATTACT-AATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
7797062 ATTACTAA
1 ATTACTAA
7797070 ATCTTATAAA
Statistics
Matches: 331, Mismatches: 10, Indels: 26
0.90 0.03 0.07
Matches are distributed among these distances:
55 17 0.05
56 11 0.03
57 77 0.23
58 175 0.53
59 37 0.11
60 14 0.04
ACGTcount: A:0.44, C:0.14, G:0.00, T:0.41
Consensus pattern (59 bp):
ATTACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
Found at i:7796901 original size:115 final size:117
Alignment explanation
Indices: 7796659--7797069 Score: 655
Period size: 115 Copynumber: 3.6 Consensus size: 117
7796649 TAATTTCATT
*
7796659 ATTACT-ATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACT
1 ATTACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACT
7796723 AATCATTACTATCAATCATTAAATATTAATAACAATTTCATTATTACTAATC
66 AATCATTACTATCAATCATTAAATATTAATAACAATTTCATTATTACTAATC
*
7796775 ATTACTAATCATTACTATCAAAT-AGTTAAATATT-ATAACAATTTCATTATTACTAATCATTAC
1 ATTACTAATCATTACTATCAAATCA-TTAAATATTAATAATAATTTCATTATTACTAATCATTAC
*
7796838 TAATCATTACTATCAATCA-TAAATATTAATAATAATTTCATTATTACTAATC
65 TAATCATTACTATCAATCATTAAATATTAATAACAATTTCATTATTACTAATC
7796890 ATTACTAATCATTACTATCAAATCATTAAA-ATTAATAAT-ATTTCATTATTACTAATCATTACT
1 ATTACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACT
* *
7796953 AAATCATTAATATCAAATTATTAAATATTAATAACAATTTCATTATTACT-A-C
66 -AATCATTACTATC-AATCATTAAATATTAATAACAATTTCATTATTACTAATC
*
7797005 ATTACTAAATCATTACTATCAAATCATTAAATA-T--TAATAATTTCATCATTACTAATCATTAC
1 ATTACT-AATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTAC
7797067 TAA
65 TAA
7797070 ATCTTATAAA
Statistics
Matches: 277, Mismatches: 8, Indels: 22
0.90 0.03 0.07
Matches are distributed among these distances:
114 33 0.12
115 106 0.38
116 85 0.31
117 53 0.19
ACGTcount: A:0.44, C:0.14, G:0.00, T:0.41
Consensus pattern (117 bp):
ATTACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACT
AATCATTACTATCAATCATTAAATATTAATAACAATTTCATTATTACTAATC
Found at i:7800903 original size:23 final size:23
Alignment explanation
Indices: 7800873--7800916 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
7800863 GCTTGGCTAC
7800873 AATCTCCCAGCTATGGATGCAGG
1 AATCTCCCAGCTATGGATGCAGG
7800896 AATCTCCCAGCTATGGATGCA
1 AATCTCCCAGCTATGGATGCA
7800917 ACCCATGCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (23 bp):
AATCTCCCAGCTATGGATGCAGG
Found at i:7800938 original size:32 final size:32
Alignment explanation
Indices: 7800902--7800966 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
7800892 CAGGAATCTC
7800902 CCAGCTATGGATGCAACCCATGCACGAGGGAG
1 CCAGCTATGGATGCAACCCATGCACGAGGGAG
7800934 CCAGCTATGGATGCAACCCATGCACGAGGGAG
1 CCAGCTATGGATGCAACCCATGCACGAGGGAG
7800966 C
1 C
7800967 AGGGTTAAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.28, C:0.29, G:0.31, T:0.12
Consensus pattern (32 bp):
CCAGCTATGGATGCAACCCATGCACGAGGGAG
Found at i:7801118 original size:29 final size:29
Alignment explanation
Indices: 7801006--7801117 Score: 145
Period size: 29 Copynumber: 3.9 Consensus size: 29
7800996 GTCGAGCCTT
* *
7801006 GGTCGCCGGGATTGCTTGGCAACCTACAA
1 GGTCGCCGGGAGTGCTTGGCGACCTACAA
*
7801035 GGTCGCCGGGATTGCTTGGCGACCTACAA
1 GGTCGCCGGGAGTGCTTGGCGACCTACAA
* *
7801064 GGTCGCTGGGAGTGCATGGCGACCTTAC-A
1 GGTCGCCGGGAGTGCTTGGCGACC-TACAA
* *
7801093 GGTCGCTGGGAGTGCTTGGTGACCT
1 GGTCGCCGGGAGTGCTTGGCGACCT
7801118 TGTAGGGGTG
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
28 1 0.01
29 72 0.95
30 3 0.04
ACGTcount: A:0.16, C:0.25, G:0.37, T:0.22
Consensus pattern (29 bp):
GGTCGCCGGGAGTGCTTGGCGACCTACAA
Found at i:7802652 original size:2 final size:2
Alignment explanation
Indices: 7802612--7802636 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7802602 CACCTTAAAT
7802612 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
7802637 TTAATTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7803497 original size:20 final size:17
Alignment explanation
Indices: 7803472--7803513 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 17
7803462 ATAAGCATCT
7803472 AATAAAATTAAATGGAATGA
1 AATAAAATTAAA---AATGA
7803492 AAT-AAATTAAAAATGA
1 AATAAAATTAAAAATGA
7803508 AATAAA
1 AATAAA
7803514 GTATGCTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 8 0.38
17 2 0.10
19 8 0.38
20 3 0.14
ACGTcount: A:0.67, C:0.00, G:0.10, T:0.24
Consensus pattern (17 bp):
AATAAAATTAAAAATGA
Found at i:7805516 original size:38 final size:38
Alignment explanation
Indices: 7805474--7805581 Score: 162
Period size: 38 Copynumber: 2.8 Consensus size: 38
7805464 ACTAAGTGTA
* *
7805474 ATATGGTGGGCACAACCTTATGTGTAGCACTTCGGTGC
1 ATATGGTGGGCACGACCTTATGTGTAGCACTTCGATGC
* *
7805512 ATATGGTGGGCATGACCTTATTTGTAGCACTTCGATGC
1 ATATGGTGGGCACGACCTTATGTGTAGCACTTCGATGC
*
7805550 ATATGGTGGGCACGACCATATGTGTAAGCACT
1 ATATGGTGGGCACGACCTTATGTGT-AGCACT
7805582 ATGGTGTATA
Statistics
Matches: 62, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
38 56 0.90
39 6 0.10
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (38 bp):
ATATGGTGGGCACGACCTTATGTGTAGCACTTCGATGC
Found at i:7806641 original size:20 final size:20
Alignment explanation
Indices: 7806616--7806664 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
7806606 TTCAATTAGT
7806616 ATCGATACCGAAGGGGAA-GA
1 ATCGATACCGAA-GGGAAGGA
*
7806636 ATCGATACCGAAGGGAAGGT
1 ATCGATACCGAAGGGAAGGA
7806656 ATCGATACC
1 ATCGATACC
7806665 ATTTTGAAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 5 0.19
20 22 0.81
ACGTcount: A:0.37, C:0.18, G:0.31, T:0.14
Consensus pattern (20 bp):
ATCGATACCGAAGGGAAGGA
Found at i:7807306 original size:55 final size:55
Alignment explanation
Indices: 7807083--7807297 Score: 299
Period size: 55 Copynumber: 3.9 Consensus size: 55
7807073 CCAAGTGTAC
7807083 TACAGGCACTATGTGTGCAAAACCAC-AGAATTCATCATGAGTTGATGAATAGCCG
1 TACAGGCACTATGTGTGCAAAACCACGA-AATTCATCATGAGTTGATGAATAGCCG
* * * *
7807138 TACATGCACTATGTGTGCATAATCAAGAAATTCATCAAT-AGTTGATGAATAGCCG
1 TACAGGCACTATGTGTGCAAAACCACGAAATTCATC-ATGAGTTGATGAATAGCCG
* ** * *
7807193 TACAAGCACTATGTGTGCAATTCCACGGAATTCATCATGAGTTGATGAACAGCCG
1 TACAGGCACTATGTGTGCAAAACCACGAAATTCATCATGAGTTGATGAATAGCCG
* *
7807248 TATAGGCACTATGTGTGCAAAACCACGAAATTCATCACGAGTTGATGAAT
1 TACAGGCACTATGTGTGCAAAACCACGAAATTCATCATGAGTTGATGAAT
7807298 TACCGTATAT
Statistics
Matches: 138, Mismatches: 19, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
54 2 0.01
55 133 0.96
56 3 0.02
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.26
Consensus pattern (55 bp):
TACAGGCACTATGTGTGCAAAACCACGAAATTCATCATGAGTTGATGAATAGCCG
Found at i:7813846 original size:20 final size:20
Alignment explanation
Indices: 7813823--7813874 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
7813813 ACTGAAGTGG
7813823 AGGTATCGATACCAAGGATA
1 AGGTATCGATACCAAGGATA
7813843 AGGTATCGATACCAAGGATA
1 AGGTATCGATACCAAGGATA
*
7813863 AGGTATTGATAC
1 AGGTATCGATAC
7813875 TGTAAATAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.13, G:0.25, T:0.23
Consensus pattern (20 bp):
AGGTATCGATACCAAGGATA
Found at i:7814604 original size:38 final size:38
Alignment explanation
Indices: 7814552--7814653 Score: 143
Period size: 38 Copynumber: 2.7 Consensus size: 38
7814542 AGTAAGTGTA
* * *
7814552 ATATGGTGGGCACGACCTTATATGTAGCACTTCGGTGC
1 ATATGGTGGACACGACCTTATGTGTAGAACTTCGGTGC
* *
7814590 ATATGGTGGACACGACCTTATGTGTAGAACTTTGGTGT
1 ATATGGTGGACACGACCTTATGTGTAGAACTTCGGTGC
7814628 ATATGGTGGGA-ACGACCTTATGTGTA
1 ATATGGT-GGACACGACCTTATGTGTA
7814654 AGTACTATGG
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
38 55 0.95
39 3 0.05
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.31
Consensus pattern (38 bp):
ATATGGTGGACACGACCTTATGTGTAGAACTTCGGTGC
Found at i:7818751 original size:25 final size:24
Alignment explanation
Indices: 7818715--7818769 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
7818705 GCTTTATCAA
7818715 TCATGATAGGAAGGGT-GCTGCGATT
1 TCATGATAGGAA-GGTCG-TGCGATT
* *
7818740 TCATGATGGGAAGGTCGTGTGATT
1 TCATGATAGGAAGGTCGTGCGATT
7818764 TCATGA
1 TCATGA
7818770 GAAGAAGGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 15 0.56
25 12 0.44
ACGTcount: A:0.24, C:0.11, G:0.35, T:0.31
Consensus pattern (24 bp):
TCATGATAGGAAGGTCGTGCGATT
Found at i:7822470 original size:21 final size:22
Alignment explanation
Indices: 7822446--7822487 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
7822436 AAAACAGAAT
7822446 TTTGAGTAAAAAAAT-TTTAAA
1 TTTGAGTAAAAAAATATTTAAA
* *
7822467 TTTGAGTTAAAATATATTTAA
1 TTTGAGTAAAAAAATATTTAA
7822488 GTCCATGGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.43
Consensus pattern (22 bp):
TTTGAGTAAAAAAATATTTAAA
Found at i:7828462 original size:28 final size:29
Alignment explanation
Indices: 7828418--7828483 Score: 91
Period size: 28 Copynumber: 2.3 Consensus size: 29
7828408 ATTTGTTGTG
7828418 GTGGAGAGGGCTCCTGGGTTACTTGAAAC
1 GTGGAGAGGGCTCCTGGGTTACTTGAAAC
* **
7828447 GTGGAG-GGGCTGCTGGGTTGTTTGAAAC
1 GTGGAGAGGGCTCCTGGGTTACTTGAAAC
7828475 GTGGA-AGGG
1 GTGGAGAGGG
7828484 TTACTGGATA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
28 27 0.82
29 6 0.18
ACGTcount: A:0.18, C:0.12, G:0.45, T:0.24
Consensus pattern (29 bp):
GTGGAGAGGGCTCCTGGGTTACTTGAAAC
Found at i:7829661 original size:23 final size:22
Alignment explanation
Indices: 7829609--7829662 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 22
7829599 TACCTATATC
7829609 AAAATAAATTTATCAATTTTTTA
1 AAAAT-AATTTATCAATTTTTTA
*
7829632 AAGATAATTTATC-ATTTTTTA
1 AAAATAATTTATCAATTTTTTA
7829653 ATTAAATAAT
1 A--AAATAAT
7829663 CTCCTACAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 9 0.33
22 8 0.30
23 10 0.37
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (22 bp):
AAAATAATTTATCAATTTTTTA
Found at i:7830844 original size:2 final size:2
Alignment explanation
Indices: 7830806--7830832 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7830796 TCTATCTATC
7830806 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
7830833 CAAATGTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7836598 original size:18 final size:18
Alignment explanation
Indices: 7836577--7836617 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
7836567 CCCGTTGACC
7836577 TTGACTGAATCGTTAACT
1 TTGACTGAATCGTTAACT
* * *
7836595 TTGAATGAATGGTTGACT
1 TTGACTGAATCGTTAACT
7836613 TTGAC
1 TTGAC
7836618 CTGACCCGTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.12, G:0.22, T:0.39
Consensus pattern (18 bp):
TTGACTGAATCGTTAACT
Found at i:7839758 original size:22 final size:23
Alignment explanation
Indices: 7839688--7839769 Score: 82
Period size: 22 Copynumber: 3.7 Consensus size: 23
7839678 CAGAACTCGT
*
7839688 GGGGGTATCGATTCCC--T-AAA
1 GGGGGAATCGATTCCCATTCAAA
*
7839708 GGAGGGAATCAATTCCCATTCAAA
1 GG-GGGAATCGATTCCCATTCAAA
* *
7839732 GGGGGAATCGGTTCCCCTTC-AA
1 GGGGGAATCGATTCCCATTCAAA
*
7839754 GGGGGTATCGATTCCC
1 GGGGGAATCGATTCCC
7839770 TCTACACTAA
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
20 2 0.04
21 12 0.24
22 16 0.31
23 16 0.31
24 5 0.10
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.23
Consensus pattern (23 bp):
GGGGGAATCGATTCCCATTCAAA
Found at i:7844322 original size:25 final size:25
Alignment explanation
Indices: 7844294--7844342 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
7844284 TTTTAAGTTA
7844294 TATATCGGGTCGGGT-GGAATCTCGT
1 TATATCGGGTCGGGTCGG-ATCTCGT
7844319 TATATCGGGTCGGGTCGGATCTCG
1 TATATCGGGTCGGGTCGGATCTCG
7844343 GGTGGAGGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 21 0.91
26 2 0.09
ACGTcount: A:0.14, C:0.18, G:0.37, T:0.31
Consensus pattern (25 bp):
TATATCGGGTCGGGTCGGATCTCGT
Found at i:7846822 original size:197 final size:197
Alignment explanation
Indices: 7846362--7846848 Score: 662
Period size: 197 Copynumber: 2.5 Consensus size: 197
7846352 GATATTTATT
* * * * * * *
7846362 TAACAATTTATAACAATTATTAA-TTCACAATATAAAATATTATGACAAAAAATATTATTTCATA
1 TAACAATTTATAACAAATATTAATTTCTCATTATAAAAAATTGTGACAAATAATATTATTTCACA
* * *
7846426 ATAACAAATTGTAACAAATTTATTTAGTTACAATAACGTAATAAATTTATTCAAAATAAAAATTT
66 ATAACAAATTGTAACAAAATTATTTAGTTACAATAACGT-ATAAATTTAGTCAAAATAAAAAGTT
7846491 ATGTCAAATTTATTTTGTCACAATATTTTGTCAAAATAAAAAATTCTGACAAATTTATTTAATCA
130 ATGTCAAATTTATTTTGTCACAATATTTTGTCAAAATAAAAAATTCTGACAAATTTATTTAATCA
7846556 AAA
195 AAA
* * * * * *
7846559 TAATAATTTATAACAAATATTAATTTCTCTTTCTAAAGAATTGTGACAAGTAATATTCTTTCACA
1 TAACAATTTATAACAAATATTAATTTCTCATTATAAAAAATTGTGACAAATAATATTATTTCACA
* * * *
7846624 ATAATAAATTGTAACAAAATGATTTA-TTCACAATAACACGT-TAAATTTAGTCAAAGTAAACAG
66 ATAACAAATTGTAACAAAATTATTTAGTT-ACAAT-A-ACGTATAAATTTAGTCAAAATAAAAAG
*
7846687 TTATGTCAAATTTATTTCT-TCTCAATATTTTGTCAAAAT-AAAAA-TCGTGACAAATTTATTTA
128 TTATGTCAAATTTATTT-TGTCACAATATTTTGTCAAAATAAAAAATTC-TGACAAATTTATTTA
7846749 ATCAAAA
191 ATCAAAA
* * *
7846756 TAACAATTTGTAACAAATATTAATTTCTCATTATAAAAAAATGTGACAAATAATATTTTTTCACA
1 TAACAATTTATAACAAATATTAATTTCTCATTATAAAAAATTGTGACAAATAATATTATTTCACA
7846821 ATAACAAATTGTAACAAAATTATTTAGT
66 ATAACAAATTGTAACAAAATTATTTAGT
7846849 CATAGTAAAA
Statistics
Matches: 252, Mismatches: 31, Indels: 13
0.85 0.10 0.04
Matches are distributed among these distances:
196 2 0.01
197 131 0.52
198 113 0.45
199 2 0.01
200 4 0.02
ACGTcount: A:0.46, C:0.10, G:0.06, T:0.38
Consensus pattern (197 bp):
TAACAATTTATAACAAATATTAATTTCTCATTATAAAAAATTGTGACAAATAATATTATTTCACA
ATAACAAATTGTAACAAAATTATTTAGTTACAATAACGTATAAATTTAGTCAAAATAAAAAGTTA
TGTCAAATTTATTTTGTCACAATATTTTGTCAAAATAAAAAATTCTGACAAATTTATTTAATCAA
AA
Found at i:7846838 original size:33 final size:33
Alignment explanation
Indices: 7846710--7846838 Score: 100
Period size: 33 Copynumber: 4.0 Consensus size: 33
7846700 ATTTCTTCTC
* * *
7846710 AATATTTTGTCAAAATAA-AAATCGTGACAAAT
1 AATATTTTATCAAAATAACAAATTGTAACAAAT
* * *
7846742 -TTATTTAATCAAAATAACAATTTGTAACAAAT
1 AATATTTTATCAAAATAACAAATTGTAACAAAT
* * * ** * * *
7846774 ATTAATTTCTCATTATAAAAAAATGTGACAAAT
1 AATATTTTATCAAAATAACAAATTGTAACAAAT
* *
7846807 AATATTTTTTCACAATAACAAATTGTAACAAA
1 AATATTTTATCAAAATAACAAATTGTAACAAA
7846839 ATTATTTAGT
Statistics
Matches: 72, Mismatches: 23, Indels: 3
0.73 0.23 0.03
Matches are distributed among these distances:
31 14 0.19
32 11 0.15
33 47 0.65
ACGTcount: A:0.50, C:0.10, G:0.05, T:0.35
Consensus pattern (33 bp):
AATATTTTATCAAAATAACAAATTGTAACAAAT
Found at i:7846946 original size:18 final size:18
Alignment explanation
Indices: 7846920--7846965 Score: 69
Period size: 17 Copynumber: 2.7 Consensus size: 18
7846910 TTGTTGTAAT
7846920 ATGTCTTTTTGTCAC-AA
1 ATGTCTTTTTGTCACGAA
7846937 ATGTCTTTTTGTCACGAA
1 ATGTCTTTTTGTCACGAA
*
7846955 ATCT-TTTTTGT
1 ATGTCTTTTTGT
7846966 TTGATGTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 22 0.81
18 5 0.19
ACGTcount: A:0.20, C:0.15, G:0.13, T:0.52
Consensus pattern (18 bp):
ATGTCTTTTTGTCACGAA
Found at i:7851051 original size:21 final size:22
Alignment explanation
Indices: 7851025--7851078 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
7851015 TGGAGCGTGG
*
7851025 GGGGAATCGGTA-CCGCCTCAT
1 GGGGAATCGGTACCCCCCTCAT
*
7851046 TGGGAATCGGTACCCCCCTCAT
1 GGGGAATCGGTACCCCCCTCAT
7851068 GGGGAATCGGT
1 GGGGAATCGGT
7851079 TCCCTAAGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 11 0.38
22 18 0.62
ACGTcount: A:0.19, C:0.28, G:0.33, T:0.20
Consensus pattern (22 bp):
GGGGAATCGGTACCCCCCTCAT
Found at i:7854057 original size:20 final size:18
Alignment explanation
Indices: 7854016--7854050 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
7854006 ATCAAAATAA
7854016 TAGGTGTGCAGTGGCTCC
1 TAGGTGTGCAGTGGCTCC
7854034 TAGGTGTGCAGTGGCTC
1 TAGGTGTGCAGTGGCTC
7854051 TCCTAGGAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.11, C:0.20, G:0.40, T:0.29
Consensus pattern (18 bp):
TAGGTGTGCAGTGGCTCC
Found at i:7858839 original size:8 final size:8
Alignment explanation
Indices: 7858828--7858856 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
7858818 AAAGTAATAA
7858828 AAATTAAT
1 AAATTAAT
7858836 AAATTAAT
1 AAATTAAT
7858844 AAATTAAT
1 AAATTAAT
7858852 AAATT
1 AAATT
7858857 TAAAATTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
AAATTAAT
Found at i:7858851 original size:26 final size:26
Alignment explanation
Indices: 7858794--7858854 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
7858784 CTTTAATATT
7858794 ATTAATAAAAAATAAAATAGTAAAAA
1 ATTAATAAAAAATAAAATAGTAAAAA
* * * *
7858820 AGTAATAAAAATTAATAA-ATTAATAA
1 ATTAATAAAAAATAA-AATAGTAAAAA
7858846 ATTAATAAA
1 ATTAATAAA
7858855 TTTAAAATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
26 27 0.93
27 2 0.07
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (26 bp):
ATTAATAAAAAATAAAATAGTAAAAA
Found at i:7866281 original size:17 final size:17
Alignment explanation
Indices: 7866259--7866323 Score: 121
Period size: 17 Copynumber: 3.8 Consensus size: 17
7866249 TTTAAAGGAG
7866259 CTAGTTTAATTAATGAA
1 CTAGTTTAATTAATGAA
*
7866276 CTAGTTTAATGAATGAA
1 CTAGTTTAATTAATGAA
7866293 CTAGTTTAATTAATGAA
1 CTAGTTTAATTAATGAA
7866310 CTAGTTTAATTAAT
1 CTAGTTTAATTAAT
7866324 AAACCAACTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 46 1.00
ACGTcount: A:0.40, C:0.06, G:0.12, T:0.42
Consensus pattern (17 bp):
CTAGTTTAATTAATGAA
Found at i:7866420 original size:17 final size:17
Alignment explanation
Indices: 7866388--7866429 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
7866378 AATGCATAAC
* *
7866388 TAAATAAACTATATGCAT
1 TAAATGAACTACATGC-T
7866406 T-AATGAACTACATGCT
1 TAAATGAACTACATGCT
7866422 TAAATGAA
1 TAAATGAA
7866430 ATGTTTGCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 2 0.10
17 18 0.86
18 1 0.05
ACGTcount: A:0.48, C:0.12, G:0.10, T:0.31
Consensus pattern (17 bp):
TAAATGAACTACATGCT
Found at i:7868457 original size:21 final size:20
Alignment explanation
Indices: 7868424--7868540 Score: 87
Period size: 21 Copynumber: 5.8 Consensus size: 20
7868414 TTTTAAGGCA
7868424 CAAA-GGATCGATCCTTTTAC
1 CAAAGGGATCGATCCTTTT-C
* * *
7868444 CAAAGGGGTCGATCATTTTT
1 CAAAGGGATCGATCCTTTTC
**** *
7868464 CAAATATTTCGA-CCGTTATAC
1 CAAAGGGATCGATCC-TT-TTC
7868485 CAAAGGGATCGATCCTTTTC
1 CAAAGGGATCGATCCTTTTC
*
7868505 CACAAGGGATCGATCCTTTTGT
1 CA-AAGGGATCGATCCTTTT-C
7868527 C-AAGGGATCGATCC
1 CAAAGGGATCGATCC
7868541 CAAACTTATT
Statistics
Matches: 75, Mismatches: 16, Indels: 12
0.73 0.16 0.12
Matches are distributed among these distances:
19 1 0.01
20 31 0.41
21 40 0.53
22 3 0.04
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (20 bp):
CAAAGGGATCGATCCTTTTC
Found at i:7871759 original size:28 final size:28
Alignment explanation
Indices: 7871718--7871774 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
7871708 GCCGTTGGGG
* *
7871718 ATCAAAATAACCATTACTTGCACCTTTT
1 ATCAAAATAACCATTACATGCAACTTTT
* *
7871746 ATCAAATTAGCCATTACATGCAACTTTT
1 ATCAAAATAACCATTACATGCAACTTTT
7871774 A
1 A
7871775 GGGCACAAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.37, C:0.23, G:0.05, T:0.35
Consensus pattern (28 bp):
ATCAAAATAACCATTACATGCAACTTTT
Found at i:7871869 original size:20 final size:20
Alignment explanation
Indices: 7871822--7871875 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
7871812 TTTTATACCG
*
7871822 AAGGGATAAATCCTTTTCCA
1 AAGGGATCAATCCTTTTCCA
* *
7871842 AGAGGGATCAATCCTTTTGCT
1 A-AGGGATCAATCCTTTTCCA
*
7871863 AAGGGATCGATCC
1 AAGGGATCAATCC
7871876 CTTGAGCTAG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 12 0.41
21 17 0.59
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (20 bp):
AAGGGATCAATCCTTTTCCA
Found at i:7873970 original size:23 final size:23
Alignment explanation
Indices: 7873935--7873979 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
7873925 ATGTAGAAAT
* *
7873935 AGAGTTTTTCGGTTCTAGTAAAC
1 AGAGTTGTCCGGTTCTAGTAAAC
*
7873958 AGAGTTGTCCGGTTCTGGTAAA
1 AGAGTTGTCCGGTTCTAGTAAA
7873980 AGGGCTTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.24, C:0.13, G:0.27, T:0.36
Consensus pattern (23 bp):
AGAGTTGTCCGGTTCTAGTAAAC
Found at i:7877697 original size:23 final size:23
Alignment explanation
Indices: 7877671--7877750 Score: 79
Period size: 23 Copynumber: 3.4 Consensus size: 23
7877661 CACATAAAAA
* *
7877671 TGTCCCAAAGGACCATATAGTAT
1 TGTCCCAAAGGACCATGTAGAAT
** * *
7877694 TGTCCTGAAGGACCGTGTAGAAA
1 TGTCCCAAAGGACCATGTAGAAT
**
7877717 TGTCCTGAAGGACCATGTAGAAT
1 TGTCCCAAAGGACCATGTAGAAT
7877740 TGTCCCGAAAG
1 TGTCCC-AAAG
7877751 ATTATGTAGA
Statistics
Matches: 46, Mismatches: 10, Indels: 1
0.81 0.18 0.02
Matches are distributed among these distances:
23 43 0.93
24 3 0.07
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.24
Consensus pattern (23 bp):
TGTCCCAAAGGACCATGTAGAAT
Found at i:7877759 original size:46 final size:46
Alignment explanation
Indices: 7877668--7877761 Score: 107
Period size: 46 Copynumber: 2.0 Consensus size: 46
7877658 TGTCACATAA
* * * *
7877668 AAATGTCCCAAAGGACCATATAGTATTGTCCTGAAGGACCGTGTAG
1 AAATGTCCCAAAGGACCATATAGAATTGTCCCGAAAGACCATGTAG
** * **
7877714 AAATGTCCTGAAGGACCATGTAGAATTGTCCCGAAAGATTATGTAG
1 AAATGTCCCAAAGGACCATATAGAATTGTCCCGAAAGACCATGTAG
7877760 AA
1 AA
7877762 CCCTCGACTC
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.24
Consensus pattern (46 bp):
AAATGTCCCAAAGGACCATATAGAATTGTCCCGAAAGACCATGTAG
Found at i:7881582 original size:22 final size:22
Alignment explanation
Indices: 7881528--7881585 Score: 89
Period size: 22 Copynumber: 2.6 Consensus size: 22
7881518 GACATTAACA
7881528 CCATCAACATCTTCCATCAAGG
1 CCATCAACATCTTCCATCAAGG
* **
7881550 CCTTCGGCATCTTCCATCAAGG
1 CCATCAACATCTTCCATCAAGG
7881572 CCATCAACATCTTC
1 CCATCAACATCTTC
7881586 ATAATTTTGT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.26, C:0.38, G:0.10, T:0.26
Consensus pattern (22 bp):
CCATCAACATCTTCCATCAAGG
Found at i:7885821 original size:12 final size:12
Alignment explanation
Indices: 7885806--7885830 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7885796 CATTACTTAT
7885806 TTTATTATTCCA
1 TTTATTATTCCA
7885818 TTTATTATTCCA
1 TTTATTATTCCA
7885830 T
1 T
7885831 CATTAATCCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.16, G:0.00, T:0.60
Consensus pattern (12 bp):
TTTATTATTCCA
Found at i:7903151 original size:17 final size:17
Alignment explanation
Indices: 7903131--7903173 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
7903121 CATATGCATC
* *
7903131 AATGAACTACTTAATTA
1 AATGAACTACATAACTA
* *
7903148 AATGAAGTGCATAACTA
1 AATGAACTACATAACTA
7903165 AATGAACTA
1 AATGAACTA
7903174 TATGTATTAA
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.49, C:0.12, G:0.12, T:0.28
Consensus pattern (17 bp):
AATGAACTACATAACTA
Found at i:7903169 original size:51 final size:51
Alignment explanation
Indices: 7903114--7903210 Score: 124
Period size: 51 Copynumber: 1.9 Consensus size: 51
7903104 AACTTTATTG
* *
7903114 AATGAA-TCATATGCATCAATGAACTACTTAATTAAATGAAGTGCATAACTA
1 AATGAACT-ATATGCATCAATGAACTACATAATTAAATGAAATGCATAACTA
* * **
7903165 AATGAACTATATGTATTAATGAACTACATGTTTAAATGAAATGCAT
1 AATGAACTATATGCATCAATGAACTACATAATTAAATGAAATGCAT
7903211 GCTTTAATGA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
51 38 0.97
52 1 0.03
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.32
Consensus pattern (51 bp):
AATGAACTATATGCATCAATGAACTACATAATTAAATGAAATGCATAACTA
Found at i:7903185 original size:17 final size:17
Alignment explanation
Indices: 7903163--7903204 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
7903153 AGTGCATAAC
*
7903163 TAAATGAACTATATGTAT
1 TAAATGAACTACATGT-T
7903181 T-AATGAACTACATGTT
1 TAAATGAACTACATGTT
7903197 TAAATGAA
1 TAAATGAA
7903205 ATGCATGCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 2 0.09
17 19 0.86
18 1 0.05
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.36
Consensus pattern (17 bp):
TAAATGAACTACATGTT
Found at i:7903219 original size:17 final size:16
Alignment explanation
Indices: 7903165--7903225 Score: 50
Period size: 17 Copynumber: 3.6 Consensus size: 16
7903155 TGCATAACTA
* *
7903165 AATGAACTATATGTATT
1 AATGAAATACATGT-TT
*
7903182 AATGAACTACATGTTT
1 AATGAAATACATGTTT
*
7903198 AAATGAAATGCATGCTTT
1 -AATGAAATACATG-TTT
*
7903216 AATGAGATAC
1 AATGAAATAC
7903226 CAGGCATATT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
16 2 0.05
17 32 0.86
18 3 0.08
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.34
Consensus pattern (16 bp):
AATGAAATACATGTTT
Found at i:7916219 original size:25 final size:25
Alignment explanation
Indices: 7916190--7916260 Score: 94
Period size: 22 Copynumber: 3.0 Consensus size: 25
7916180 CTGAGTTAAT
7916190 TTCACTAATATTATATGTGTTAAAG
1 TTCACTAATATTATATGTGTTAAAG
*
7916215 TTCACTAGTA-T-TATGTGTT-AAG
1 TTCACTAATATTATATGTGTTAAAG
* *
7916237 TTCACTGATATGATATGTGTTAAA
1 TTCACTAATATTATATGTGTTAAA
7916261 TTTTACTAGT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
22 11 0.28
23 8 0.21
24 9 0.23
25 11 0.28
ACGTcount: A:0.32, C:0.08, G:0.15, T:0.44
Consensus pattern (25 bp):
TTCACTAATATTATATGTGTTAAAG
Found at i:7916240 original size:22 final size:23
Alignment explanation
Indices: 7916184--7916259 Score: 84
Period size: 24 Copynumber: 3.2 Consensus size: 23
7916174 ATAATTCTGA
* *
7916184 GTTAATTTCACTAATATTATATGT
1 GTTAAGTTCACTAGTA-TATATGT
7916208 GTTAAAGTTCACTAGTAT-TATGT
1 GTT-AAGTTCACTAGTATATATGT
7916231 GTTAAGTTCACT-GATATGATATGT
1 GTTAAGTTCACTAG-TAT-ATATGT
7916255 GTTAA
1 GTTAA
7916260 ATTTTACTAG
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
21 1 0.02
22 12 0.26
23 8 0.17
24 14 0.30
25 11 0.24
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.45
Consensus pattern (23 bp):
GTTAAGTTCACTAGTATATATGT
Found at i:7916241 original size:47 final size:49
Alignment explanation
Indices: 7916107--7916290 Score: 142
Period size: 50 Copynumber: 3.7 Consensus size: 49
7916097 TGTAAATACA
* * * * * * *
7916107 TGTTAAAATTGACTAGTGTAATTTTGTGTTAACTTCATTGATATGATATA
1 TGTTAAAGTTCACTAG-GTAATTATGTGTTAAGTTCACTAATATGATATG
* * * * * *
7916157 TATCT-AAGTTCA-TTGGTATAATTCTGAGTTAATTTCACTAATATTATATG
1 TGT-TAAAGTTCACTAGG--TAATTATGTGTTAAGTTCACTAATATGATATG
*
7916207 TGTTAAAGTTCACTA-GT-ATTATGTGTTAAGTTCACTGATATGATATG
1 TGTTAAAGTTCACTAGGTAATTATGTGTTAAGTTCACTAATATGATATG
* * *
7916254 TGTTAAATTTTACTAGTGTAATTATGTGATAAGTTCA
1 TGTTAAAGTTCACTAG-GTAATTATGTGTTAAGTTCA
7916291 ATGGCACAAT
Statistics
Matches: 105, Mismatches: 21, Indels: 16
0.74 0.15 0.11
Matches are distributed among these distances:
47 38 0.36
48 2 0.02
49 5 0.05
50 58 0.55
51 2 0.02
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.45
Consensus pattern (49 bp):
TGTTAAAGTTCACTAGGTAATTATGTGTTAAGTTCACTAATATGATATG
Found at i:7916378 original size:26 final size:25
Alignment explanation
Indices: 7916330--7916437 Score: 123
Period size: 26 Copynumber: 4.3 Consensus size: 25
7916320 TCAGTGGTGG
*
7916330 AATTATGTGTTAAGTTCAATAGTAT
1 AATTATGTGTTAAGTTCACTAGTAT
* *
7916355 AATTATGTGTTAAAGTTTACTAGTAG
1 AATTATGTGTT-AAGTTCACTAGTAT
*
7916381 AATTGTGTGTTAGAGTTCAC-AGGTA-
1 AATTATGTGTTA-AGTTCACTA-GTAT
*
7916406 AA-TATGTGTTAAGTTCACTAGTGT
1 AATTATGTGTTAAGTTCACTAGTAT
7916430 AATTATGT
1 AATTATGT
7916438 AACACTTTCA
Statistics
Matches: 70, Mismatches: 7, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
23 9 0.13
24 11 0.16
25 20 0.29
26 30 0.43
ACGTcount: A:0.32, C:0.06, G:0.20, T:0.42
Consensus pattern (25 bp):
AATTATGTGTTAAGTTCACTAGTAT
Found at i:7918571 original size:16 final size:17
Alignment explanation
Indices: 7918545--7918576 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
7918535 CTTTATTTTA
7918545 TTTTAATTTAATCATTG
1 TTTTAATTTAATCATTG
7918562 TTTT-ATTTAATCATT
1 TTTTAATTTAATCATT
7918577 TATTTGAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.28, C:0.06, G:0.03, T:0.62
Consensus pattern (17 bp):
TTTTAATTTAATCATTG
Found at i:7922511 original size:34 final size:34
Alignment explanation
Indices: 7922447--7922516 Score: 83
Period size: 33 Copynumber: 2.1 Consensus size: 34
7922437 TTGAAATGAC
*
7922447 AAAAATTGTATAACAAAAAGAAGAAAAAAACATAA
1 AAAAATAGTATAACAAAAAGAAGAAAAAAACA-AA
7922482 AAAAATAG-ATAA-AAAAAG-AGAATAGAAAACAAA
1 AAAAATAGTATAACAAAAAGAAGAA-A-AAAACAAA
7922515 AA
1 AA
7922517 GGAAAAAAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
32 4 0.12
33 11 0.34
34 10 0.31
35 7 0.22
ACGTcount: A:0.74, C:0.04, G:0.10, T:0.11
Consensus pattern (34 bp):
AAAAATAGTATAACAAAAAGAAGAAAAAAACAAA
Found at i:7922531 original size:10 final size:10
Alignment explanation
Indices: 7922461--7922580 Score: 61
Period size: 10 Copynumber: 11.7 Consensus size: 10
7922451 ATTGTATAAC
7922461 AAAAAGAAGAA
1 AAAAAG-AGAA
* *
7922472 AAAAACATAAA
1 AAAAAGA-GAA
*
7922483 AAAATAGATAA
1 AAAA-AGAGAA
7922494 AAAAAGAGAA
1 AAAAAGAGAA
* * *
7922504 TAGAA-A-AC
1 AAAAAGAGAA
7922512 AAAAAG-GAA
1 AAAAAGAGAA
7922521 AAAAAGAGAA
1 AAAAAGAGAA
*
7922531 AAATAAGAAAA
1 AAA-AAGAGAA
7922542 AAAAAGA-AA
1 AAAAAGAGAA
7922551 GAAATGAAGAGAA
1 -AAA--AAGAGAA
*
7922564 AAGAAGA-AA
1 AAAAAGAGAA
7922573 AAGAAAGA
1 AA-AAAGA
7922581 AAACCGATCA
Statistics
Matches: 84, Mismatches: 14, Indels: 23
0.69 0.12 0.19
Matches are distributed among these distances:
8 4 0.05
9 14 0.17
10 30 0.36
11 26 0.31
12 8 0.10
13 2 0.02
ACGTcount: A:0.77, C:0.02, G:0.17, T:0.05
Consensus pattern (10 bp):
AAAAAGAGAA
Found at i:7922560 original size:22 final size:20
Alignment explanation
Indices: 7922519--7922583 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 20
7922509 AACAAAAAGG
7922519 AAAAAAAGAGAAAAATAAGAA
1 AAAAAAAGA-AAAAATAAGAA
*
7922540 AAAAAAAGAAAGAAATGAAGAG
1 AAAAAAAGAAA-AAAT-AAGAA
*
7922562 AAAAGAAGAAAAAGA-AAGAA
1 AAAAAAAGAAAAA-ATAAGAA
7922582 AA
1 AA
7922584 CCGATCAAGT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
20 8 0.21
21 15 0.39
22 15 0.39
ACGTcount: A:0.78, C:0.00, G:0.18, T:0.03
Consensus pattern (20 bp):
AAAAAAAGAAAAAATAAGAA
Found at i:7924212 original size:53 final size:53
Alignment explanation
Indices: 7924121--7924473 Score: 197
Period size: 56 Copynumber: 6.6 Consensus size: 53
7924111 CCCAATCGAT
* *
7924121 ATGAATTTGAAAGAAGCTAAGCCTAATTTTCAGGGGTTTCTTGATG-TTTCAA
1 ATGAATTTGAAAGAAGCTAAGCCTAATTTTCAGAGGTTTCTTAATGTTTTCAA
* * * *
7924173 ATGAATTTTGAAAGAATCTAATCCTATTTTTTAGAGGTTTCTTAATGTTTTCAA
1 ATGAA-TTTGAAAGAAGCTAAGCCTAATTTTCAGAGGTTTCTTAATGTTTTCAA
** * * * * * * *
7924227 AT-AAGTTT-TTAGAAACTAAGTCTGATTTTCAGAAGTTTATTGACATG--AT-GA
1 ATGAA-TTTGAAAGAAGCTAAGCCTAATTTTCAGAGGTTTCTT-A-ATGTTTTCAA
* * *
7924278 ATG-A-TT-AAAGAAGCTAAGCCTGATTTTCAGGGGTTTCTTAATGATTATTTCCA
1 ATGAATTTGAAAGAAGCTAAGCCTAATTTTCAGAGGTTTCTTAATG--T-TTTCAA
* * * * * * *
7924331 ATTAATTTTAAAGAAGCTAAACCTGATTTTTAGGGGTTTCTTGATGATTATTTTC-A
1 ATGAATTTGAAAGAAGCTAAGCCTAATTTTCAGAGGTTTCTT-A--A-TGTTTTCAA
* * * * **
7924387 ATGATTTTTCAAAGAAGCTAAGCTTAATTTTCAGGGGTTTCTTGGTGATTGTTTC-A
1 ATGA-ATTTGAAAGAAGCTAAGCCTAATTTTCAGAGGTTTCTTAATG--T-TTTCAA
*
7924443 ATGAATTTTTAAAGAAGCTAAGCCTAATTTT
1 ATGAA-TTTGAAAGAAGCTAAGCCTAATTTT
7924474 TAAGGGTTTC
Statistics
Matches: 233, Mismatches: 45, Indels: 42
0.73 0.14 0.13
Matches are distributed among these distances:
47 3 0.01
48 1 0.00
49 28 0.12
51 4 0.02
52 30 0.13
53 45 0.19
54 12 0.05
55 3 0.01
56 67 0.29
57 37 0.16
58 1 0.00
59 1 0.00
60 1 0.00
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (53 bp):
ATGAATTTGAAAGAAGCTAAGCCTAATTTTCAGAGGTTTCTTAATGTTTTCAA
Found at i:7924423 original size:57 final size:56
Alignment explanation
Indices: 7924282--7924491 Score: 269
Period size: 56 Copynumber: 3.7 Consensus size: 56
7924272 TGATGAATGA
* * * * *
7924282 TTAAAGAAGCTAAGCCTGATTTTCAGGGGTTTCTTAATGATTATTTCCAATTAATT
1 TTAAAGAAGCTAAGCCTAATTTTCAGGGGTTTCTTGATGATTATTTTCAATGATTT
* * *
7924338 TTAAAGAAGCTAAACCTGATTTTTAGGGGTTTCTTGATGATTATTTTCAATGATTT
1 TTAAAGAAGCTAAGCCTAATTTTCAGGGGTTTCTTGATGATTATTTTCAATGATTT
* * *
7924394 TTCAAAGAAGCTAAGCTTAATTTTCAGGGGTTTCTTGGTGATT-GTTTCAATGAATTT
1 TT-AAAGAAGCTAAGCCTAATTTTCAGGGGTTTCTTGATGATTATTTTCAATG-ATTT
* * *
7924451 TTAAAGAAGCTAAGCCTAATTTTTAAGGGTTTCTTTATGAT
1 TTAAAGAAGCTAAGCCTAATTTTCAGGGGTTTCTTGATGAT
7924492 AAATGTAAAC
Statistics
Matches: 135, Mismatches: 17, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
56 94 0.70
57 41 0.30
ACGTcount: A:0.29, C:0.10, G:0.18, T:0.42
Consensus pattern (56 bp):
TTAAAGAAGCTAAGCCTAATTTTCAGGGGTTTCTTGATGATTATTTTCAATGATTT
Found at i:7924424 original size:113 final size:113
Alignment explanation
Indices: 7924284--7924491 Score: 310
Period size: 113 Copynumber: 1.8 Consensus size: 113
7924274 ATGAATGATT
* *
7924284 AAAGAAGCTAAGCCTGATTTTCAGGGGTTTCTTAATGATTATTTCCAATTAA-TTTTAAAGAAGC
1 AAAGAAGCTAAGCCTAATTTTCAGGGGTTTCTTAATGATTATTT-CAATGAATTTTTAAAGAAGC
* *
7924348 TAAACCTGATTTTTAGGGGTTTCTTGATGATTATTTTCAATGATTTTTC
65 TAAACCTAATTTTTAAGGGTTTCTTGATGATTATTTTCAATGATTTTTC
* ** *
7924397 AAAGAAGCTAAGCTTAATTTTCAGGGGTTTCTTGGTGATTGTTTCAATGAATTTTTAAAGAAGCT
1 AAAGAAGCTAAGCCTAATTTTCAGGGGTTTCTTAATGATTATTTCAATGAATTTTTAAAGAAGCT
* *
7924462 AAGCCTAATTTTTAAGGGTTTCTTTATGAT
66 AAACCTAATTTTTAAGGGTTTCTTGATGAT
7924492 AAATGTAAAC
Statistics
Matches: 84, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
112 6 0.07
113 78 0.93
ACGTcount: A:0.29, C:0.11, G:0.18, T:0.42
Consensus pattern (113 bp):
AAAGAAGCTAAGCCTAATTTTCAGGGGTTTCTTAATGATTATTTCAATGAATTTTTAAAGAAGCT
AAACCTAATTTTTAAGGGTTTCTTGATGATTATTTTCAATGATTTTTC
Found at i:7924998 original size:242 final size:242
Alignment explanation
Indices: 7924544--7925120 Score: 678
Period size: 242 Copynumber: 2.4 Consensus size: 242
7924534 AGGGTTTCTT
* * * * * **
7924544 GATGAGTAAGTCCATCGGGCCATCAGTAAGACCTTCGGGCATGATGTTTTCATATGATTTTTGAA
1 GATGA-TAAGTCCTTTGGGCCATCCGTAAGACCTTCGGCCATGATATTTTCATATGATTTTCAAA
* * * * * *
7924609 AAATGAGAAAGCGATTTCCAAATTTTTTCATTTAAATCTTTTCTGAAAGATTGGTTTTTCTTGAA
65 AAATGAGAAAGCAATTTCCAAAGTTTCTCATTCAAATCTTTTCTAAAAGATTGATTTTTCTTGAA
*** *
7924674 AAGTAAGAAATTTTTTTCCAAAGTTTCTTACTAAATAAGTCTTTCGAGCCATCAGTAAATCATTC
130 AAGTAAGAAACGATTTTCCAAAGTTTCTTACTAAATAAGTCCTTCGAGCCATCAGTAAATCATTC
* * * *
7924739 TAGTATGATGCTTAAATCCTTCGGGTTATTTATAAGTCTTTTGAGCAA
195 TAGCATGATGCTTAAATCCTTCGGGTCATCTATAAGTCTTTCGAGCAA
7924787 GATGATAAGTCCTTTGGGCCATCCGTAAGACCTTCGGCCA-GAATATTTTCATATGATTTTCAAA
1 GATGATAAGTCCTTTGGGCCATCCGTAAGACCTTCGGCCATG-ATATTTTCATATGATTTTCAAA
*
7924851 AAATGAGAAAGCAATTTCCAAAGTTTCTCATTCGAATCTTTTCTAAAAGATTGATTTTTCTTGAA
65 AAATGAGAAAGCAATTTCCAAAGTTTCTCATTCAAATCTTTTCTAAAAGATTGATTTTTCTTGAA
* * *
7924916 AAGTAAGAAAGCGATTTT-CAAAGTTTCTTACTGAGTAAGTCCTTCGGGCCATCAG-AAAGTC-T
130 AAGTAAGAAA-CGATTTTCCAAAGTTTCTTACTAAATAAGTCCTTCGAGCCATCAGTAAA-TCAT
* * *
7924978 TTTGAGCATGATGTTTAAATCCTTCGGGTCATCTATAAGTCTTTCGAGTAA
193 TCT-AGCATGATGCTTAAATCCTTCGGGTCATCTATAAGTCTTTCGAGCAA
* * * * * * * * **
7925029 GATTATAAGACCTTTGGGTCATCCATAAGACCTTTGGGCAAGATGTTTTCACGTGATTTT-AGAA
1 GATGATAAGTCCTTTGGGCCATCCGTAAGACCTTCGGCCATGATATTTTCATATGATTTTCA-AA
* * * * *
7925093 TAGTAAGAAAACGATTTCCAAAGTTTCT
65 AAATGAGAAAGCAATTTCCAAAGTTTCT
7925121 TACTTAGTTC
Statistics
Matches: 286, Mismatches: 42, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
241 8 0.03
242 268 0.94
243 10 0.03
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.36
Consensus pattern (242 bp):
GATGATAAGTCCTTTGGGCCATCCGTAAGACCTTCGGCCATGATATTTTCATATGATTTTCAAAA
AATGAGAAAGCAATTTCCAAAGTTTCTCATTCAAATCTTTTCTAAAAGATTGATTTTTCTTGAAA
AGTAAGAAACGATTTTCCAAAGTTTCTTACTAAATAAGTCCTTCGAGCCATCAGTAAATCATTCT
AGCATGATGCTTAAATCCTTCGGGTCATCTATAAGTCTTTCGAGCAA
Found at i:7925553 original size:18 final size:18
Alignment explanation
Indices: 7925526--7925560 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
7925516 ACACCCAAAT
*
7925526 CAAACTCCAAACTAGACC
1 CAAACCCCAAACTAGACC
7925544 CAAACCCCAAACTAGAC
1 CAAACCCCAAACTAGAC
7925561 TCAACCCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.46, C:0.40, G:0.06, T:0.09
Consensus pattern (18 bp):
CAAACCCCAAACTAGACC
Found at i:7930366 original size:27 final size:27
Alignment explanation
Indices: 7930309--7930366 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
7930299 CCAAAATGTT
*** * **
7930309 TGAATTATTTTTTATATTCTAAATGTT
1 TGAATTATTTTTTATATAAAAAAGGGG
7930336 TGAATTATTTTTTATATAAAAAAGGGG
1 TGAATTATTTTTTATATAAAAAAGGGG
7930363 TGAA
1 TGAA
7930367 GTATAGGTTT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.36, C:0.02, G:0.14, T:0.48
Consensus pattern (27 bp):
TGAATTATTTTTTATATAAAAAAGGGG
Found at i:7930962 original size:24 final size:24
Alignment explanation
Indices: 7930935--7930982 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
7930925 TGCAGTATCG
* *
7930935 ATACTCCAAGCCCAAGTACTAATA
1 ATACTCCAAGCCCAAATACCAATA
7930959 ATACTCCAAGCCCAAATACCAATA
1 ATACTCCAAGCCCAAATACCAATA
7930983 CTCCTTGGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.44, C:0.31, G:0.06, T:0.19
Consensus pattern (24 bp):
ATACTCCAAGCCCAAATACCAATA
Found at i:7932113 original size:18 final size:18
Alignment explanation
Indices: 7932090--7932140 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 18
7932080 CCTGTCATGA
7932090 AAGTTCATGTTATGATAT
1 AAGTTCATGTTATGATAT
** *
7932108 AAGTTC---TTACCATAA
1 AAGTTCATGTTATGATAT
7932123 AAGTTCATGTTATGATAT
1 AAGTTCATGTTATGATAT
7932141 GTTCACTATG
Statistics
Matches: 24, Mismatches: 6, Indels: 6
0.67 0.17 0.17
Matches are distributed among these distances:
15 12 0.50
18 12 0.50
ACGTcount: A:0.35, C:0.10, G:0.14, T:0.41
Consensus pattern (18 bp):
AAGTTCATGTTATGATAT
Found at i:7945272 original size:22 final size:22
Alignment explanation
Indices: 7945242--7945288 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
7945232 GACCTGACCA
* *
7945242 ACCCGACCCGACCCGACCGTTG
1 ACCCAACCCAACCCGACCGTTG
7945264 ACCCAACCCAACCCGACCGTTG
1 ACCCAACCCAACCCGACCGTTG
7945286 ACC
1 ACC
7945289 GTTGACTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.23, C:0.51, G:0.17, T:0.09
Consensus pattern (22 bp):
ACCCAACCCAACCCGACCGTTG
Found at i:7945277 original size:27 final size:24
Alignment explanation
Indices: 7945227--7945281 Score: 74
Period size: 27 Copynumber: 2.2 Consensus size: 24
7945217 GAACCGGTCT
*
7945227 GACCCGACCTGACCAACCCGACCC
1 GACCCGACCTGACCAACCCAACCC
7945251 GACCCGACCGTTGACCCAACCCAACCC
1 GACCCGACC--TGA-CCAACCCAACCC
7945278 GACC
1 GACC
7945282 GTTGACCGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 9 0.33
26 3 0.11
27 15 0.56
ACGTcount: A:0.25, C:0.53, G:0.16, T:0.05
Consensus pattern (24 bp):
GACCCGACCTGACCAACCCAACCC
Found at i:7957605 original size:14 final size:14
Alignment explanation
Indices: 7957586--7957615 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
7957576 TGTATTCAGA
7957586 TAACCTTACTCATG
1 TAACCTTACTCATG
7957600 TAACCTTACTCATG
1 TAACCTTACTCATG
7957614 TA
1 TA
7957616 TTCAGATTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.37
Consensus pattern (14 bp):
TAACCTTACTCATG
Found at i:7960161 original size:16 final size:15
Alignment explanation
Indices: 7960135--7960184 Score: 55
Period size: 16 Copynumber: 3.2 Consensus size: 15
7960125 TTAACATTTT
*
7960135 AAAAGAAAATAAAGA
1 AAAATAAAATAAAGA
*
7960150 AAACTTAAAATATAAGA
1 AAA-ATAAAATA-AAGA
*
7960167 AAAATAAATTAAAGA
1 AAAATAAAATAAAGA
7960182 AAA
1 AAA
7960185 TAATAACTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 10 0.34
16 12 0.41
17 7 0.24
ACGTcount: A:0.74, C:0.02, G:0.08, T:0.16
Consensus pattern (15 bp):
AAAATAAAATAAAGA
Found at i:7966335 original size:17 final size:17
Alignment explanation
Indices: 7966313--7966349 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
7966303 TGATATGACC
7966313 GCAACCTAAAAATAGAA
1 GCAACCTAAAAATAGAA
*
7966330 GCAACCTAAAAATAGTA
1 GCAACCTAAAAATAGAA
7966347 GCA
1 GCA
7966350 TTACCCTGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.54, C:0.19, G:0.14, T:0.14
Consensus pattern (17 bp):
GCAACCTAAAAATAGAA
Found at i:7968597 original size:2 final size:2
Alignment explanation
Indices: 7968590--7968621 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
7968580 TCACATTGTC
7968590 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7968622 CAAATTTTAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7970674 original size:2 final size:2
Alignment explanation
Indices: 7970667--7970703 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
7970657 ATAATACTAA
7970667 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7970704 AGCAATCCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7975694 original size:48 final size:48
Alignment explanation
Indices: 7975617--7975731 Score: 149
Period size: 48 Copynumber: 2.4 Consensus size: 48
7975607 CTTGATCCAG
* * * *
7975617 TTTTAGGCACCTCTAGCAAAGCAAACAAATTCAGTCGAATAGAGCCAA
1 TTTTGGGCACCTATAGCAAAGCAAACAAATTCAGTCGAATACAACCAA
* * * *
7975665 TTTTGGGCACCTTTAGCAAAGCGAGCAAATTCAGTCGACTACAACCAA
1 TTTTGGGCACCTATAGCAAAGCAAACAAATTCAGTCGAATACAACCAA
*
7975713 TTTTGGGTACCTATAGCAA
1 TTTTGGGCACCTATAGCAA
7975732 GATAATTTTT
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 58 1.00
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (48 bp):
TTTTGGGCACCTATAGCAAAGCAAACAAATTCAGTCGAATACAACCAA
Found at i:7976341 original size:18 final size:18
Alignment explanation
Indices: 7976306--7976340 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
7976296 AAATAATTAC
7976306 TAAAAATAAATAGAAAAA
1 TAAAAATAAATAGAAAAA
7976324 TAAAAATAAA-AGAAAAA
1 TAAAAATAAATAGAAAAA
7976341 AATCAACAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.80, C:0.00, G:0.06, T:0.14
Consensus pattern (18 bp):
TAAAAATAAATAGAAAAA
Found at i:7981312 original size:15 final size:15
Alignment explanation
Indices: 7981291--7981328 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
7981281 TATATAATAT
7981291 AAGAAAAAAAGA-AA
1 AAGAAAAAAAGAGAA
*
7981305 ACAGAAAAAAATAGAA
1 A-AGAAAAAAAGAGAA
7981321 AAGAAAAA
1 AAGAAAAA
7981329 GAAAACGAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 1 0.05
15 17 0.81
16 3 0.14
ACGTcount: A:0.82, C:0.03, G:0.13, T:0.03
Consensus pattern (15 bp):
AAGAAAAAAAGAGAA
Found at i:7981333 original size:11 final size:11
Alignment explanation
Indices: 7981297--7981375 Score: 70
Period size: 11 Copynumber: 6.8 Consensus size: 11
7981287 ATATAAGAAA
7981297 AAAAGAAAACAG
1 AAAAGAAAA-AG
*
7981309 AAAA-AAATAG
1 AAAAGAAAAAG
7981319 AAAAGAAAAAG
1 AAAAGAAAAAG
*
7981330 AAAACGAAGAAAA
1 AAAA-GAA-AAAG
7981343 AATATAGAAAAAG
1 AA-A-AGAAAAAG
*
7981356 AAAAGAAAAAA
1 AAAAGAAAAAG
*
7981367 AAAACAAAA
1 AAAAGAAAA
7981376 TACTGAGAGA
Statistics
Matches: 56, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
10 6 0.11
11 27 0.48
12 8 0.14
13 10 0.18
14 4 0.07
15 1 0.02
ACGTcount: A:0.80, C:0.04, G:0.13, T:0.04
Consensus pattern (11 bp):
AAAAGAAAAAG
Found at i:7981342 original size:37 final size:37
Alignment explanation
Indices: 7981291--7981374 Score: 100
Period size: 37 Copynumber: 2.3 Consensus size: 37
7981281 TATATAATAT
*
7981291 AAGAAAA-AAAGAAAACAGA-AAAAAATAGAAAAGAAA
1 AAGAAAACAAAGAAAAAAGATAAAAAA-AGAAAAGAAA
* * *
7981327 AAGAAAACGAAGAAAAAATATAGAAAAAGAAAAGAAA
1 AAGAAAACAAAGAAAAAAGATAAAAAAAGAAAAGAAA
*
7981364 AAAAAAACAAA
1 AAGAAAACAAA
7981375 ATACTGAGAG
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
36 7 0.17
37 28 0.70
38 5 0.12
ACGTcount: A:0.80, C:0.04, G:0.13, T:0.04
Consensus pattern (37 bp):
AAGAAAACAAAGAAAAAAGATAAAAAAAGAAAAGAAA
Found at i:7981350 original size:31 final size:27
Alignment explanation
Indices: 7981294--7981364 Score: 97
Period size: 31 Copynumber: 2.4 Consensus size: 27
7981284 ATAATATAAG
7981294 AAAAAAAGAAAACAGAAAAAAATAGAA
1 AAAAAAAGAAAACAGAAAAAAATAGAA
7981321 AAGAAAAAGAAAACGAAGAAAAAATATAGAA
1 AA-AAAAAGAAAAC--AGAAAAAA-ATAGAA
7981352 AAAGAAAAGAAAA
1 AAA-AAAAGAAAA
7981365 AAAAAACAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
27 2 0.05
28 11 0.28
30 9 0.23
31 17 0.44
ACGTcount: A:0.79, C:0.03, G:0.14, T:0.04
Consensus pattern (27 bp):
AAAAAAAGAAAACAGAAAAAAATAGAA
Found at i:7985276 original size:40 final size:40
Alignment explanation
Indices: 7985221--7985303 Score: 157
Period size: 40 Copynumber: 2.1 Consensus size: 40
7985211 TGGAGGTTTA
*
7985221 TAATACACTTTGGTGTATATGGTGGGCACGGCCTTATGTG
1 TAATACACTTTGGTGTATATGGTGGGCACGACCTTATGTG
7985261 TAATACACTTTGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTTGGTGTATATGGTGGGCACGACCTTATGTG
7985301 TAA
1 TAA
7985304 CACTATGATG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.23, C:0.14, G:0.28, T:0.35
Consensus pattern (40 bp):
TAATACACTTTGGTGTATATGGTGGGCACGACCTTATGTG
Found at i:7985505 original size:46 final size:46
Alignment explanation
Indices: 7985406--7985577 Score: 215
Period size: 46 Copynumber: 3.8 Consensus size: 46
7985396 GGTAAACATG
* * *
7985406 AAAATAAGCTTATGAGCTTAT-GGAAT-AATGGCAAGTATATTGGT
1 AAAATAAGCTTACGAGCTTATGGGATTAAATGGTAAGTATATTGGT
* *
7985450 AAAATAAGCTTACGAGCTTATGGGATTAAATTGTAGGTATATTGGT
1 AAAATAAGCTTACGAGCTTATGGGATTAAATGGTAAGTATATTGGT
* * *
7985496 AAAATAAGCTTACGAGCTTATGGAATTAAATGGTAAGTGTTTTGGT
1 AAAATAAGCTTACGAGCTTATGGGATTAAATGGTAAGTATATTGGT
* * * *
7985542 AAAATAATCTTACAAGCATATAGGA-TAAATGGTAAG
1 AAAATAAGCTTACGAGCTTATGGGATTAAATGGTAAG
7985578 AGATTTTATA
Statistics
Matches: 111, Mismatches: 15, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
44 20 0.18
45 15 0.14
46 76 0.68
ACGTcount: A:0.39, C:0.07, G:0.22, T:0.32
Consensus pattern (46 bp):
AAAATAAGCTTACGAGCTTATGGGATTAAATGGTAAGTATATTGGT
Found at i:7985516 original size:90 final size:91
Alignment explanation
Indices: 7985406--7985571 Score: 237
Period size: 92 Copynumber: 1.8 Consensus size: 91
7985396 GGTAAACATG
* * *
7985406 AAAATAAGCTTATGAGCTTATGGAA-T-AATGGCAAGTATATTGGTAAAATAAGCTTACGAGCTT
1 AAAATAAGCTTACGAGCTTATGGAATTAAATGGCAAGTATATTGGTAAAATAAGCTTACAAGCAT
*
7985469 ATGGGATTAAATTGTAGGTATATTGGT
66 ATAGGA-TAAATTGTAGGTATATTGGT
* * * *
7985496 AAAATAAGCTTACGAGCTTATGGAATTAAATGGTAAGTGTTTTGGTAAAATAATCTTACAAGCAT
1 AAAATAAGCTTACGAGCTTATGGAATTAAATGGCAAGTATATTGGTAAAATAAGCTTACAAGCAT
7985561 ATAGGATAAAT
66 ATAGGATAAAT
7985572 GGTAAGAGAT
Statistics
Matches: 66, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
90 24 0.36
91 6 0.09
92 36 0.55
ACGTcount: A:0.39, C:0.07, G:0.21, T:0.33
Consensus pattern (91 bp):
AAAATAAGCTTACGAGCTTATGGAATTAAATGGCAAGTATATTGGTAAAATAAGCTTACAAGCAT
ATAGGATAAATTGTAGGTATATTGGT
Found at i:7994239 original size:27 final size:29
Alignment explanation
Indices: 7994209--7994275 Score: 86
Period size: 29 Copynumber: 2.4 Consensus size: 29
7994199 ATATAATATA
7994209 AGAAAAAAATAGAAAAC-A-GAAAAAAAT
1 AGAAAAAAATAGAAAACGATGAAAAAAAT
7994236 AGAAAAGAAA-AGAAAACGATGAAAAAAAT
1 AGAAAA-AAATAGAAAACGATGAAAAAAAT
* *
7994265 ATAGAAAAATA
1 AGAAAAAAATA
7994276 AAATAAAAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
27 13 0.38
28 7 0.21
29 14 0.41
ACGTcount: A:0.75, C:0.03, G:0.13, T:0.09
Consensus pattern (29 bp):
AGAAAAAAATAGAAAACGATGAAAAAAAT
Found at i:7994251 original size:17 final size:17
Alignment explanation
Indices: 7994209--7994241 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
7994199 ATATAATATA
7994209 AGAAAAAAATAGAAAAC
1 AGAAAAAAATAGAAAAC
7994226 AGAAAAAAATAGAAAA
1 AGAAAAAAATAGAAAA
7994242 GAAAAGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.79, C:0.03, G:0.12, T:0.06
Consensus pattern (17 bp):
AGAAAAAAATAGAAAAC
Found at i:7998036 original size:10 final size:10
Alignment explanation
Indices: 7998015--7998063 Score: 57
Period size: 11 Copynumber: 4.9 Consensus size: 10
7998005 ATTTCATTAT
7998015 ATTTT-TTT-
1 ATTTTATTTC
7998023 ATTTTATTTC
1 ATTTTATTTC
7998033 ATTTTATTTTC
1 ATTTTA-TTTC
*
7998044 GTTTTATTTC
1 ATTTTATTTC
7998054 TATTTTATTT
1 -ATTTTATTT
7998064 TTTAGCAAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
8 5 0.14
9 3 0.09
10 10 0.29
11 17 0.49
ACGTcount: A:0.16, C:0.06, G:0.02, T:0.76
Consensus pattern (10 bp):
ATTTTATTTC
Found at i:7998057 original size:6 final size:5
Alignment explanation
Indices: 7998019--7998064 Score: 56
Period size: 5 Copynumber: 8.8 Consensus size: 5
7998009 CATTATATTT
* *
7998019 TTTTA TTTTA TTTCA TTTTA TTTTCG TTTTA TTTCTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTT-A TTTTA TTT-TA TTTTA TTTT
7998065 TTAGCAAACT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
5 26 0.74
6 9 0.26
ACGTcount: A:0.15, C:0.07, G:0.02, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:7998058 original size:22 final size:21
Alignment explanation
Indices: 7998024--7998064 Score: 73
Period size: 22 Copynumber: 1.9 Consensus size: 21
7998014 TATTTTTTTA
7998024 TTTTATTTCATTTTATTTTCG
1 TTTTATTTCATTTTATTTTCG
7998045 TTTTATTTCTATTTTATTTT
1 TTTTATTTC-ATTTTATTTT
7998065 TTAGCAAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.15, C:0.07, G:0.02, T:0.76
Consensus pattern (21 bp):
TTTTATTTCATTTTATTTTCG
Found at i:8000422 original size:21 final size:21
Alignment explanation
Indices: 8000376--8000425 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
8000366 AGTTTAAAAA
8000376 GTTTTAAG-TGTTTTAATTAG
1 GTTTTAAGATGTTTTAATTAG
*
8000396 GATTTAAGATGTTTTAACTT-G
1 GTTTTAAGATGTTTTAA-TTAG
*
8000417 TTTTTAAGA
1 GTTTTAAGA
8000426 ATTTAAAGGC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 7 0.28
21 16 0.64
22 2 0.08
ACGTcount: A:0.28, C:0.02, G:0.18, T:0.52
Consensus pattern (21 bp):
GTTTTAAGATGTTTTAATTAG
Found at i:8001004 original size:17 final size:17
Alignment explanation
Indices: 8000979--8001012 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
8000969 CTTTATCCCA
*
8000979 ATTTATTTATTTTATTT
1 ATTTATTTATTTAATTT
*
8000996 ATTTGTTTATTTAATTT
1 ATTTATTTATTTAATTT
8001013 TTATCTCATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (17 bp):
ATTTATTTATTTAATTT
Found at i:8001610 original size:6 final size:5
Alignment explanation
Indices: 8001602--8001653 Score: 50
Period size: 5 Copynumber: 9.8 Consensus size: 5
8001592 TTCATTATAT
* * *
8001602 TTTTA TTTTA TTTTA TTTCA TTTTCA TTTTCG TTTTA TTTTTA TTTTG
1 TTTTA TTTTA TTTTA TTTTA TTTT-A TTTT-A TTTTA -TTTTA TTTTA
8001650 TTTT
1 TTTT
8001654 TTAGCAAACT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
5 25 0.62
6 15 0.38
ACGTcount: A:0.13, C:0.06, G:0.04, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:8001637 original size:12 final size:11
Alignment explanation
Indices: 8001602--8001653 Score: 54
Period size: 11 Copynumber: 4.8 Consensus size: 11
8001592 TTCATTATAT
8001602 TTTTATTTT-A
1 TTTTATTTTCA
8001612 TTTTA-TTTCA
1 TTTTATTTTCA
*
8001622 TTTTCATTTTCG
1 TTTT-ATTTTCA
*
8001634 TTTTATTTTTA
1 TTTTATTTTCA
*
8001645 TTTTGTTTT
1 TTTTATTTT
8001654 TTAGCAAACT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
9 3 0.09
10 10 0.29
11 14 0.40
12 8 0.23
ACGTcount: A:0.13, C:0.06, G:0.04, T:0.77
Consensus pattern (11 bp):
TTTTATTTTCA
Found at i:8001821 original size:28 final size:28
Alignment explanation
Indices: 8001739--8001832 Score: 79
Period size: 28 Copynumber: 3.5 Consensus size: 28
8001729 TAACGAAAAA
* * *
8001739 AACAGTACAGAAAAACTGACTTGGTTTG
1 AACAGTGCAAAAAAACTGATTTGGTTTG
** ** *
8001767 AATTGTGC-AAAAAA---ATTTGAATAG
1 AACAGTGCAAAAAAACTGATTTGGTTTG
8001791 AACAGTGCAAAAAAACTGATTTGGTTTG
1 AACAGTGCAAAAAAACTGATTTGGTTTG
*
8001819 AACAGTGCAGAAAA
1 AACAGTGCAAAAAA
8001833 TGCACAGCAT
Statistics
Matches: 48, Mismatches: 14, Indels: 8
0.69 0.20 0.11
Matches are distributed among these distances:
24 12 0.25
25 6 0.12
27 5 0.10
28 25 0.52
ACGTcount: A:0.45, C:0.11, G:0.20, T:0.24
Consensus pattern (28 bp):
AACAGTGCAAAAAAACTGATTTGGTTTG
Done.