Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 38 of 187
Found at i:11099813 original size:9 final size:9
Alignment explanation
Indices: 11099799--11099843 Score: 67
Period size: 9 Copynumber: 5.1 Consensus size: 9
11099789 CATTTAAATA
11099799 AATAATTAT
1 AATAATTAT
11099808 AATAATTAT
1 AATAATTAT
11099817 AATAATTAT
1 AATAATTAT
11099826 -ATACA-TAT
1 AATA-ATTAT
11099834 AATAATTAT
1 AATAATTAT
11099843 A
1 A
11099844 TATATCTTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
8 7 0.21
9 26 0.79
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (9 bp):
AATAATTAT
Found at i:11100775 original size:45 final size:44
Alignment explanation
Indices: 11100711--11100806 Score: 131
Period size: 45 Copynumber: 2.2 Consensus size: 44
11100701 GAAATAAAGC
*
11100711 TGTAATAGAATAGAGGCGTAATAGTAATTCAAT-TGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGT-ATT-AATGTGTTTGGTTGAA
**
11100756 TGTAATGGAATAGAGGCGTAATAGTATTGTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGTATTAATGTGTTTGGTTGAA
*
11100800 TGGAATG
1 TGTAATG
11100807 ATGTTGTAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
43 1 0.02
44 21 0.46
45 24 0.52
ACGTcount: A:0.31, C:0.03, G:0.29, T:0.36
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGTATTAATGTGTTTGGTTGAA
Found at i:11100999 original size:29 final size:29
Alignment explanation
Indices: 11100967--11101101 Score: 72
Period size: 26 Copynumber: 5.1 Consensus size: 29
11100957 TAATAAAAAT
11100967 ATATAATTTAATAAAATTCTTAATATTAA
1 ATATAATTTAATAAAATTCTTAATATTAA
*
11100996 ATAT--TCTT-ATATGAA-T-TTAATA--AA
1 ATATAAT-TTAATA-AAATTCTTAATATTAA
* *
11101020 ATCATAA--T-ATATAATAC-T-ATA-TAA
1 AT-ATAATTTAATAAAATTCTTAATATTAA
*
11101044 -TATAATTTAA-AATAATTATT-AT-T-AA
1 ATATAATTTAATAA-AATTCTTAATATTAA
11101069 ATATAATTTAATAAAATTCTTAATATTAA
1 ATATAATTTAATAAAATTCTTAATATTAA
11101098 ATAT
1 ATAT
11101102 TCTTAAATGA
Statistics
Matches: 80, Mismatches: 7, Indels: 38
0.64 0.06 0.30
Matches are distributed among these distances:
22 4 0.05
23 6 0.08
24 13 0.16
25 8 0.10
26 25 0.31
27 9 0.11
28 5 0.06
29 10 0.12
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (29 bp):
ATATAATTTAATAAAATTCTTAATATTAA
Found at i:11101085 original size:102 final size:102
Alignment explanation
Indices: 11100967--11101171 Score: 374
Period size: 102 Copynumber: 2.0 Consensus size: 102
11100957 TAATAAAAAT
*
11100967 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTAATAAAATCATAATATAT
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATGAATTTAATAAAATCATAATATAT
*
11101032 AATACTATATAATATAATTTAAAATAATTATTATTAA
66 AATACTATAAAATATAATTTAAAATAATTATTATTAA
* *
11101069 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATGAATTTACTAAAATTATAATATAT
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATGAATTTAATAAAATCATAATATAT
11101134 AATACTATAAAATATAATTTAAAATAATTATTATTAA
66 AATACTATAAAATATAATTTAAAATAATTATTATTAA
11101171 A
1 A
11101172 AATATAATAT
Statistics
Matches: 99, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
102 99 1.00
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (102 bp):
ATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATGAATTTAATAAAATCATAATATAT
AATACTATAAAATATAATTTAAAATAATTATTATTAA
Found at i:11101230 original size:102 final size:102
Alignment explanation
Indices: 11100967--11101255 Score: 331
Period size: 102 Copynumber: 2.8 Consensus size: 102
11100957 TAATAAAAAT
* * * *
11100967 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTAATAAAA-TCATAATATA
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTAAAATGAATATACTAAAACT-ATAATATA
*
11101031 TAATACTATATAATATAATTTAAAATAATTATTATTAA
65 TAATACTATAAAATATAATTTAAAATAATTATTATTAA
* * *
11101069 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATGAATTTACTAAAATTATAATATAT
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTAAAATGAATATACTAAAACTATAATATAT
11101134 AATACTATAAAATATAATTTAAAATAATTATTATTAAAA
66 AATACTATAAAATATAATTTAAAATAATTATTATT--AA
* * * *
11101173 ATATAATATT-A-AATATTCTT-ATA-TGAAT-TTACTAAAATCATAATATA-TAATACTATAAA
1 ATATAAT-TTAATAAAATTCTTAATATTAAATATT-CTAAAAT--GAATATACTAAAACTAT--A
*
11101232 ATATATAATACTATAATATATAAT
60 ATATATAATACTATAAAATATAAT
11101256 ACTAGAAAGA
Statistics
Matches: 167, Mismatches: 11, Indels: 16
0.86 0.06 0.08
Matches are distributed among these distances:
100 2 0.01
101 10 0.06
102 105 0.63
103 14 0.08
104 34 0.20
105 2 0.01
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (102 bp):
ATATAATTTAATAAAATTCTTAATATTAAATATTCTAAAATGAATATACTAAAACTATAATATAT
AATACTATAAAATATAATTTAAAATAATTATTATTAA
Found at i:11101236 original size:17 final size:15
Alignment explanation
Indices: 11101212--11101259 Score: 78
Period size: 15 Copynumber: 3.1 Consensus size: 15
11101202 TACTAAAATC
11101212 ATAATATATAATACT
1 ATAATATATAATACT
11101227 ATAAAATATATAATACT
1 AT--AATATATAATACT
11101244 ATAATATATAATACT
1 ATAATATATAATACT
11101259 A
1 A
11101260 GAAAGATCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
15 16 0.52
17 15 0.48
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (15 bp):
ATAATATATAATACT
Found at i:11106835 original size:18 final size:18
Alignment explanation
Indices: 11106808--11106900 Score: 150
Period size: 18 Copynumber: 5.2 Consensus size: 18
11106798 TACGACCGTT
11106808 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
11106826 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
11106844 TACAGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
11106862 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
11106880 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
11106898 TAC
1 TAC
11106901 AGTAGTTGGG
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 68 1.00
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:11117689 original size:18 final size:19
Alignment explanation
Indices: 11117653--11117690 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
11117643 TTATATTATA
*
11117653 AAATATTTATTACTAATAT
1 AAATATTTATTAATAATAT
11117672 AAATATTT-TTAATAATAT
1 AAATATTTATTAATAATAT
11117690 A
1 A
11117691 TGAAGAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (19 bp):
AAATATTTATTAATAATAT
Found at i:11118198 original size:27 final size:27
Alignment explanation
Indices: 11118135--11118216 Score: 76
Period size: 27 Copynumber: 3.0 Consensus size: 27
11118125 TAATACAAAG
* * *
11118135 TAGTGACGCCTATCTTAGAGGCGGCAA
1 TAGTGATGCCTATCTGAGAGGCGCCAA
* *
11118162 TGGTGATGCCTATCTGAGAGGCGCCAT
1 TAGTGATGCCTATCTGAGAGGCGCCAA
* * *
11118189 TAGTGGTGCC-ATGTTGAGAGGCACCAA
1 TAGTGATGCCTAT-CTGAGAGGCGCCAA
11118216 T
1 T
11118217 GGTCTTATTT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
26 2 0.05
27 42 0.95
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (27 bp):
TAGTGATGCCTATCTGAGAGGCGCCAA
Found at i:11122260 original size:18 final size:19
Alignment explanation
Indices: 11122224--11122261 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
11122214 TTATATTATA
*
11122224 AAATATTTATTACTAATAT
1 AAATATTTATTAATAATAT
11122243 AAATATTT-TTAATAATAT
1 AAATATTTATTAATAATAT
11122261 A
1 A
11122262 TGAAGAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (19 bp):
AAATATTTATTAATAATAT
Found at i:11122769 original size:27 final size:27
Alignment explanation
Indices: 11122706--11122787 Score: 76
Period size: 27 Copynumber: 3.0 Consensus size: 27
11122696 TAATACAAAG
* * *
11122706 TAGTGACGCCTATCTTAGAGGCGGCAA
1 TAGTGATGCCTATCTGAGAGGCGCCAA
* *
11122733 TGGTGATGCCTATCTGAGAGGCGCCAT
1 TAGTGATGCCTATCTGAGAGGCGCCAA
* * *
11122760 TAGTGGTGCC-ATGTTGAGAGGCACCAA
1 TAGTGATGCCTAT-CTGAGAGGCGCCAA
11122787 T
1 T
11122788 GGTCTTATTT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
26 2 0.05
27 42 0.95
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (27 bp):
TAGTGATGCCTATCTGAGAGGCGCCAA
Found at i:11124123 original size:16 final size:15
Alignment explanation
Indices: 11124098--11124132 Score: 61
Period size: 16 Copynumber: 2.3 Consensus size: 15
11124088 AAAATCAAAC
11124098 AAAATTACATTATAT
1 AAAATTACATTATAT
11124113 AAAAGTTACATTATAT
1 AAAA-TTACATTATAT
11124129 AAAA
1 AAAA
11124133 ATTAAATGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.57, C:0.06, G:0.03, T:0.34
Consensus pattern (15 bp):
AAAATTACATTATAT
Found at i:11124313 original size:60 final size:60
Alignment explanation
Indices: 11124249--11124370 Score: 183
Period size: 60 Copynumber: 2.0 Consensus size: 60
11124239 ATACTAAACT
* * * * *
11124249 AAACACAACAATTTATAGCTTAATCCTAAATTACTAATAAATTAAATT-TTAAATAATTAC
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATT-AATTATAAAATAATTAC
11124309 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTATAAAATAATTAC
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTATAAAATAATTAC
11124369 AA
1 AA
11124371 TATTCATACA
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
59 4 0.07
60 52 0.93
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.32
Consensus pattern (60 bp):
AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTATAAAATAATTAC
Found at i:11124389 original size:21 final size:21
Alignment explanation
Indices: 11124358--11124444 Score: 151
Period size: 21 Copynumber: 4.2 Consensus size: 21
11124348 AATTAATTAT
11124358 AAAATAATTACAATATTCATAC
1 AAAA-AATTACAATATTCATAC
11124380 AAAAAATTACAATATTCATAC
1 AAAAAATTACAATATTCATAC
11124401 --AAAATTACAATATTCATAC
1 AAAAAATTACAATATTCATAC
11124420 AAAAAATTACAATATTCATAC
1 AAAAAATTACAATATTCATAC
11124441 AAAA
1 AAAA
11124445 TACTAATCCA
Statistics
Matches: 63, Mismatches: 0, Indels: 5
0.93 0.00 0.07
Matches are distributed among these distances:
19 19 0.30
21 40 0.63
22 4 0.06
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (21 bp):
AAAAAATTACAATATTCATAC
Found at i:11124408 original size:40 final size:40
Alignment explanation
Indices: 11124363--11124445 Score: 166
Period size: 40 Copynumber: 2.1 Consensus size: 40
11124353 ATTATAAAAT
11124363 AATTACAATATTCATACAAAAAATTACAATATTCATACAA
1 AATTACAATATTCATACAAAAAATTACAATATTCATACAA
11124403 AATTACAATATTCATACAAAAAATTACAATATTCATACAA
1 AATTACAATATTCATACAAAAAATTACAATATTCATACAA
11124443 AAT
1 AAT
11124446 ACTAATCCAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.30
Consensus pattern (40 bp):
AATTACAATATTCATACAAAAAATTACAATATTCATACAA
Found at i:11125402 original size:19 final size:19
Alignment explanation
Indices: 11125378--11125415 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
11125368 GAAAAGATAG
11125378 TAAATATAGATGAGTGTAT
1 TAAATATAGATGAGTGTAT
11125397 TAAATATAGATGAGTGTAT
1 TAAATATAGATGAGTGTAT
11125416 AATAATATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.21, T:0.37
Consensus pattern (19 bp):
TAAATATAGATGAGTGTAT
Found at i:11129984 original size:60 final size:60
Alignment explanation
Indices: 11129910--11130028 Score: 177
Period size: 60 Copynumber: 2.0 Consensus size: 60
11129900 ATACTAAACT
* * * * *
11129910 AAACACAACAATTTATAGCTTAATCCTAAATTACTAATAAATTAAATT-TTAAATAATTAC
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATT-AATTATAAAATAATTAC
11129970 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTATAAAATAATTA
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTATAAAATAATTA
11130029 TAATATTCAT
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
59 4 0.08
60 49 0.92
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.33
Consensus pattern (60 bp):
AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTATAAAATAATTAC
Found at i:11130052 original size:19 final size:19
Alignment explanation
Indices: 11130024--11130361 Score: 175
Period size: 19 Copynumber: 17.3 Consensus size: 19
11130014 ATTATAAAAT
*
11130024 AATTATAATATTCATACAA
1 AATTACAATATTCATACAA
11130043 AATTACAATATTCATACAAACA
1 AATTACAATATTCATAC--A-A
11130065 ATATTACAATATTCATACAA
1 A-ATTACAATATTCATACAA
11130085 AATTACAATATTCATACAAACA
1 AATTACAATATTCATAC--A-A
11130107 ATATTACAATATTCATACAA
1 A-ATTACAATATTCATACAA
*
11130127 AATTACAA-AAT--TACAA
1 AATTACAATATTCATACAA
* *** *
11130143 TATT-C-ATACAAAATAC-T
1 AATTACAATA-TTCATACAA
* **
11130160 AATCTAAAACTATAAATACAA
1 AAT-TACAA-TATTCATACAA
*
11130181 AATT---A-ATT-ATAAAA
1 AATTACAATATTCATACAA
* *
11130195 TAATTACAACATTCATAAAA
1 -AATTACAATATTCATACAA
11130215 AATTACAATATTCATACAAAA
1 AATTACAATATTCATAC--AA
*
11130236 AATTACACTATTCATACAA
1 AATTACAATATTCATACAA
* * *
11130255 AA-TACTA-ATCCAAAACTATA
1 AATTACAATATTC-ATAC-A-A
*
11130275 AA-TACAAAATTAATT-ATAAAA
1 AATTAC--AA-T-ATTCATACAA
11130296 TAATTACAATATTCATACAA
1 -AATTACAATATTCATACAA
*
11130316 AATTATAATATTCATACAAA
1 AATTACAATATTCATAC-AA
*
11130336 AAGTTACAATATACATACAA
1 AA-TTACAATATTCATACAA
11130356 AATTAC
1 AATTAC
11130362 CCATTGGCGC
Statistics
Matches: 255, Mismatches: 26, Indels: 76
0.71 0.07 0.21
Matches are distributed among these distances:
14 6 0.02
15 8 0.03
16 9 0.04
17 6 0.02
18 13 0.05
19 85 0.33
20 38 0.15
21 43 0.17
22 8 0.03
23 37 0.15
25 2 0.01
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.30
Consensus pattern (19 bp):
AATTACAATATTCATACAA
Found at i:11130070 original size:23 final size:23
Alignment explanation
Indices: 11130039--11130154 Score: 150
Period size: 23 Copynumber: 5.0 Consensus size: 23
11130029 TAATATTCAT
11130039 ACAAAATTACAATATTCATACAA
1 ACAAAATTACAATATTCATACAA
*
11130062 ACAATATTACAATATTCAT----
1 ACAAAATTACAATATTCATACAA
11130081 ACAAAATTACAATATTCATACAA
1 ACAAAATTACAATATTCATACAA
*
11130104 ACAATATTACAATATTCATACAAAA
1 ACAAAATTACAATATTCATAC--AA
11130129 TTACAAAATTACAATATTCATACAA
1 --ACAAAATTACAATATTCATACAA
11130154 A
1 A
11130155 ATACTAATCT
Statistics
Matches: 81, Mismatches: 4, Indels: 16
0.80 0.04 0.16
Matches are distributed among these distances:
19 18 0.22
23 39 0.48
25 4 0.05
27 20 0.25
ACGTcount: A:0.54, C:0.16, G:0.00, T:0.29
Consensus pattern (23 bp):
ACAAAATTACAATATTCATACAA
Found at i:11130078 original size:42 final size:42
Alignment explanation
Indices: 11130025--11130257 Score: 219
Period size: 42 Copynumber: 5.5 Consensus size: 42
11130015 TTATAAAATA
*
11130025 ATTATAATATTCATACAAAATTACAATATTCATACAAACAAT
1 ATTACAATATTCATACAAAATTACAATATTCATACAAACAAT
11130067 ATTACAATATTCATACAAAATTACAATATTCATACAAACAAT
1 ATTACAATATTCATACAAAATTACAATATTCATACAAACAAT
* *
11130109 ATTACAATATTCATACAAAATTACAAAATTACAATATTCATACAA-
1 ATTACAATATTCATACAAAATTACAATATT-C-ATA--CAAACAAT
* * * * * * *
11130154 AATACTAAT-CTAAAACTATAAA-TACAAAATTAATTA-TAA-AAT
1 ATTAC-AATATTCATAC-A-AAATTACAATATTCA-TACAAACAAT
* *
11130196 AATTACAACATTCATAAAAAATTACAATATTCATACAAA-AA-
1 -ATTACAATATTCATACAAAATTACAATATTCATACAAACAAT
*
11130237 ATTACACTATTCATACAAAAT
1 ATTACAATATTCATACAAAAT
11130258 ACTAATCCAA
Statistics
Matches: 156, Mismatches: 22, Indels: 28
0.76 0.11 0.14
Matches are distributed among these distances:
40 18 0.12
41 7 0.04
42 87 0.56
43 8 0.05
44 4 0.03
45 10 0.06
46 19 0.12
47 3 0.02
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.31
Consensus pattern (42 bp):
ATTACAATATTCATACAAAATTACAATATTCATACAAACAAT
Found at i:11130142 original size:27 final size:27
Alignment explanation
Indices: 11130080--11130156 Score: 117
Period size: 27 Copynumber: 3.0 Consensus size: 27
11130070 ACAATATTCA
11130080 TACAAAATTACAATATTCATAC--AA-
1 TACAAAATTACAATATTCATACAAAAT
*
11130104 -ACAATATTACAATATTCATACAAAAT
1 TACAAAATTACAATATTCATACAAAAT
11130130 TACAAAATTACAATATTCATACAAAAT
1 TACAAAATTACAATATTCATACAAAAT
11130157 ACTAATCTAA
Statistics
Matches: 47, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
23 20 0.43
25 2 0.04
27 25 0.53
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.30
Consensus pattern (27 bp):
TACAAAATTACAATATTCATACAAAAT
Found at i:11130259 original size:101 final size:101
Alignment explanation
Indices: 11130133--11130358 Score: 389
Period size: 101 Copynumber: 2.2 Consensus size: 101
11130123 ACAAAATTAC
*
11130133 AAAATTACAATATTCATACAAAATACTAATCTAAAACTATAAATACAAAATTAATTATAAAATAA
1 AAAATTACAATATTCATACAAAATACTAATCCAAAACTATAAATACAAAATTAATTATAAAATAA
11130198 TTACAACATTCATAAAAAATTACAATATTCATACAA
66 TTACAACATTCATAAAAAATTACAATATTCATACAA
*
11130234 AAAATTACACTATTCATACAAAATACTAATCCAAAACTATAAATACAAAATTAATTATAAAATAA
1 AAAATTACAATATTCATACAAAATACTAATCCAAAACTATAAATACAAAATTAATTATAAAATAA
* * *
11130299 TTACAATATTCATACAAAATTATAATATTCATACAA
66 TTACAACATTCATAAAAAATTACAATATTCATACAA
* *
11130335 AAAGTTACAATATACATACAAAAT
1 AAAATTACAATATTCATACAAAAT
11130359 TACCCATTGG
Statistics
Matches: 117, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
101 117 1.00
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (101 bp):
AAAATTACAATATTCATACAAAATACTAATCCAAAACTATAAATACAAAATTAATTATAAAATAA
TTACAACATTCATAAAAAATTACAATATTCATACAA
Found at i:11130410 original size:27 final size:27
Alignment explanation
Indices: 11130374--11130439 Score: 89
Period size: 27 Copynumber: 2.4 Consensus size: 27
11130364 ATTGGCGCCT
* *
11130374 CTCCCTATGAGGCACTTTTAATGGTGC
1 CTCCTTATGAGGCACCTTTAATGGTGC
*
11130401 CTCCTTATGAGGCGCCTTTAATGGTGC
1 CTCCTTATGAGGCACCTTTAATGGTGC
11130428 CT-CTCTATGAGG
1 CTCCT-TATGAGG
11130440 TGCCACTCGA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
26 2 0.06
27 33 0.94
ACGTcount: A:0.17, C:0.26, G:0.24, T:0.33
Consensus pattern (27 bp):
CTCCTTATGAGGCACCTTTAATGGTGC
Found at i:11130532 original size:20 final size:20
Alignment explanation
Indices: 11130502--11130542 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
11130492 TTTTTATTTA
11130502 ATTTTTTTAAAAAAA-TAAT
1 ATTTTTTTAAAAAAATTAAT
11130521 ATTTTATTTAAAAAAATTAAT
1 ATTTT-TTTAAAAAAATTAAT
11130542 A
1 A
11130543 ACTTTTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 5 0.25
20 10 0.50
21 5 0.25
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
ATTTTTTTAAAAAAATTAAT
Found at i:11130550 original size:20 final size:19
Alignment explanation
Indices: 11130505--11130550 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
11130495 TTATTTAATT
**
11130505 TTTTTAAAAAAATAATATT
1 TTTTTAAAAAAATAATAAC
11130524 TTATTTAAAAAAATTAATAAC
1 TT-TTTAAAAAAA-TAATAAC
11130545 TTTTTA
1 TTTTTA
11130551 TTCATTGACG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 2 0.09
20 14 0.61
21 7 0.30
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (19 bp):
TTTTTAAAAAAATAATAAC
Found at i:11132754 original size:18 final size:18
Alignment explanation
Indices: 11132731--11132814 Score: 150
Period size: 18 Copynumber: 4.7 Consensus size: 18
11132721 AAAATATGAG
*
11132731 AAATGATGTTCACATTTT
1 AAATGATGTTCACATTTC
11132749 AAATGATGTTCACATTTC
1 AAATGATGTTCACATTTC
11132767 AAATGATGTTCACATTTC
1 AAATGATGTTCACATTTC
*
11132785 AAATGATGTTCACATCTC
1 AAATGATGTTCACATTTC
11132803 AAATGATGTTCA
1 AAATGATGTTCA
11132815 AATTGATGGA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 64 1.00
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (18 bp):
AAATGATGTTCACATTTC
Found at i:11135476 original size:13 final size:13
Alignment explanation
Indices: 11135455--11135516 Score: 81
Period size: 13 Copynumber: 4.8 Consensus size: 13
11135445 ACACTCAAAT
11135455 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
* *
11135468 TTCTCAAAAGTAC
1 TTTTCAAAAGCAC
*
11135481 TTTTCCATAA-CAC
1 TTTT-CAAAAGCAC
11135494 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
11135507 TTTTCAAAAG
1 TTTTCAAAAG
11135517 TAATGAAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
12 4 0.10
13 33 0.80
14 4 0.10
ACGTcount: A:0.37, C:0.23, G:0.06, T:0.34
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:11137355 original size:30 final size:29
Alignment explanation
Indices: 11137319--11137381 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 29
11137309 TTAATATTAT
*
11137319 ATTACTTCATTTATTCTATATAAAAACTAA
1 ATTACTTCATTTATTCTA-AGAAAAACTAA
* * *
11137349 ATTACTTTATTTATTTTAAGAAAAATTAA
1 ATTACTTCATTTATTCTAAGAAAAACTAA
11137378 ATTA
1 ATTA
11137382 ATCCTAATCT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 13 0.45
30 16 0.55
ACGTcount: A:0.44, C:0.08, G:0.02, T:0.46
Consensus pattern (29 bp):
ATTACTTCATTTATTCTAAGAAAAACTAA
Found at i:11141907 original size:21 final size:21
Alignment explanation
Indices: 11141881--11141921 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
11141871 ATCTGCTCAA
* *
11141881 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
11141902 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
11141922 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:11146465 original size:24 final size:24
Alignment explanation
Indices: 11146438--11146488 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
11146428 ATACTCCGAG
11146438 AATTCTTAAAATAAAAATCATAAT
1 AATTCTTAAAATAAAAATCATAAT
* * * *
11146462 AATTTTTAAAATGAAAATTATGAT
1 AATTCTTAAAATAAAAATCATAAT
11146486 AAT
1 AAT
11146489 CAAATTGTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.37
Consensus pattern (24 bp):
AATTCTTAAAATAAAAATCATAAT
Found at i:11154243 original size:36 final size:31
Alignment explanation
Indices: 11154175--11154238 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
11154165 ATGTTTGTCG
11154175 AATTGTGGAATGTGATGTTGATGTGACAAGT
1 AATTGTGGAATGTGATGTTGATGTGACAAGT
11154206 AATTGTGGAATGTGATGTTGATGTGACAAGT
1 AATTGTGGAATGTGATGTTGATGTGACAAGT
11154237 AA
1 AA
11154239 AGTAAGTGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.31, C:0.03, G:0.31, T:0.34
Consensus pattern (31 bp):
AATTGTGGAATGTGATGTTGATGTGACAAGT
Found at i:11162997 original size:19 final size:18
Alignment explanation
Indices: 11162944--11162988 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
11162934 TCTTTTTAAT
* * *
11162944 TATTTTTATAAAATTTTG
1 TATTTTTTTACAATTTTA
*
11162962 TATTTTTTTACGATTTTA
1 TATTTTTTTACAATTTTA
11162980 TATTTTTTT
1 TATTTTTTT
11162989 TCTAATTTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.24, C:0.02, G:0.04, T:0.69
Consensus pattern (18 bp):
TATTTTTTTACAATTTTA
Found at i:11163035 original size:19 final size:20
Alignment explanation
Indices: 11162991--11163039 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
11162981 ATTTTTTTTC
* *
11162991 TAATTTTTAATAAATTTTAA
1 TAATTTTTATTAAATGTTAA
*
11163011 -ATTTTTTATTAAA-GTTAA
1 TAATTTTTATTAAATGTTAA
11163029 TAATTTTTATT
1 TAATTTTTATT
11163040 TTTATAATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 4 0.17
19 20 0.83
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (20 bp):
TAATTTTTATTAAATGTTAA
Found at i:11167746 original size:27 final size:27
Alignment explanation
Indices: 11167689--11167749 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
11167679 CCACTGCTGT
* **
11167689 TGATGTTGTTGCTGTTGCAGATGATGA
1 TGATGATGTTGCTGTTGCAGAAAATGA
** *
11167716 TGATGATGTTGCTGTTGTTGAAAATGG
1 TGATGATGTTGCTGTTGCAGAAAATGA
11167743 TGATGAT
1 TGATGAT
11167750 TCTGCACCAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.21, C:0.05, G:0.33, T:0.41
Consensus pattern (27 bp):
TGATGATGTTGCTGTTGCAGAAAATGA
Found at i:11175903 original size:18 final size:19
Alignment explanation
Indices: 11175880--11175924 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
11175870 TCATTCTTTC
11175880 ACTCACAATGCTTTTAA-T
1 ACTCACAATGCTTTTAACT
* *
11175898 ACTCACCATGTTTTTAACT
1 ACTCACAATGCTTTTAACT
11175917 -CTCACAAT
1 ACTCACAAT
11175925 ATTTTGATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 22 0.96
19 1 0.04
ACGTcount: A:0.31, C:0.27, G:0.04, T:0.38
Consensus pattern (19 bp):
ACTCACAATGCTTTTAACT
Found at i:11191863 original size:27 final size:26
Alignment explanation
Indices: 11191833--11191908 Score: 73
Period size: 26 Copynumber: 2.8 Consensus size: 26
11191823 AGAGATGGAA
11191833 GCCTTTATGGCAAATCTTGTAAAGAA-G
1 GCCTTTATGGCAAA-CTT-TAAAGAATG
* **
11191860 GCCTTTGTGGCGCACTTTAAAGAATG
1 GCCTTTATGGCAAACTTTAAAGAATG
* *
11191886 ACCTTTATGGCAACCTTCTAAAG
1 GCCTTTATGGCAAACTT-TAAAG
11191909 GAAACACCTC
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
25 7 0.18
26 16 0.41
27 16 0.41
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (26 bp):
GCCTTTATGGCAAACTTTAAAGAATG
Found at i:11194225 original size:28 final size:29
Alignment explanation
Indices: 11194184--11194239 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 29
11194174 ATTGAACCAA
11194184 ATTTTTCTTAAATTTTTAATAATTTTTTT
1 ATTTTTCTTAAATTTTTAATAATTTTTTT
*
11194213 ATTTTT-TTAAATTTTTAATGATTTTTT
1 ATTTTTCTTAAATTTTTAATAATTTTTT
11194240 AATCGAATTG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 20 0.77
29 6 0.23
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.70
Consensus pattern (29 bp):
ATTTTTCTTAAATTTTTAATAATTTTTTT
Found at i:11202583 original size:42 final size:42
Alignment explanation
Indices: 11202531--11202630 Score: 173
Period size: 42 Copynumber: 2.4 Consensus size: 42
11202521 GATCTTGGTA
* **
11202531 TCGCACACTTAGTGCCCGTTATTCGACATCGTCATTTTTGTT
1 TCGCACACTTAGTGCCCGTTATTCAACATCGTCATTTTAATT
11202573 TCGCACACTTAGTGCCCGTTATTCAACATCGTCATTTTAATT
1 TCGCACACTTAGTGCCCGTTATTCAACATCGTCATTTTAATT
11202615 TCGCACACTTAGTGCC
1 TCGCACACTTAGTGCC
11202631 ATTCGTATAG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 55 1.00
ACGTcount: A:0.20, C:0.28, G:0.15, T:0.37
Consensus pattern (42 bp):
TCGCACACTTAGTGCCCGTTATTCAACATCGTCATTTTAATT
Found at i:11204560 original size:17 final size:18
Alignment explanation
Indices: 11204528--11204561 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
11204518 ATTTTCTTTT
11204528 CAATTTATACCCTAATTC
1 CAATTTATACCCTAATTC
*
11204546 CAATTTA-ATCCTAATT
1 CAATTTATACCCTAATT
11204562 AACTCATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.35, C:0.24, G:0.00, T:0.41
Consensus pattern (18 bp):
CAATTTATACCCTAATTC
Found at i:11204937 original size:14 final size:15
Alignment explanation
Indices: 11204905--11204943 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
11204895 TCAAACCTTA
11204905 ATTTTT-TTTCTTCT
1 ATTTTTCTTTCTTCT
11204919 ATTTTTCTTTCTT-T
1 ATTTTTCTTTCTTCT
*
11204933 CTTTTTCTTTC
1 ATTTTTCTTTC
11204944 CCCTGTTTCG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 17 0.74
15 6 0.26
ACGTcount: A:0.05, C:0.18, G:0.00, T:0.77
Consensus pattern (15 bp):
ATTTTTCTTTCTTCT
Found at i:11204982 original size:16 final size:16
Alignment explanation
Indices: 11204963--11204995 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
11204953 GAATGGTCTC
*
11204963 TGTTTCTTTTCTTCTT
1 TGTTTCTTTTATTCTT
11204979 TGTTTCTTTTATTCTT
1 TGTTTCTTTTATTCTT
11204995 T
1 T
11204996 TACTTTATTT
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:0.03, C:0.15, G:0.06, T:0.76
Consensus pattern (16 bp):
TGTTTCTTTTATTCTT
Found at i:11205364 original size:3 final size:3
Alignment explanation
Indices: 11205356--11205406 Score: 88
Period size: 3 Copynumber: 17.7 Consensus size: 3
11205346 AACGTATTTC
11205356 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT- ATA ATA ATA ATA AT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
11205402 ATA AT
1 ATA AT
11205407 TTATGATTTA
Statistics
Matches: 46, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 4 0.09
3 42 0.91
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:11205419 original size:26 final size:26
Alignment explanation
Indices: 11205356--11205406 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
11205346 AACGTATTTC
11205356 ATAATAATAATAATAATAATAATAATA
1 ATAAT-ATAATAATAATAATAATAATA
11205383 ATAATATAATAATAATAAT-ATAAT
1 ATAATATAATAATAATAATAATAAT
11205407 TTATGATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 5 0.21
26 14 0.58
27 5 0.21
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (26 bp):
ATAATATAATAATAATAATAATAATA
Found at i:11210737 original size:20 final size:21
Alignment explanation
Indices: 11210714--11210754 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
11210704 ATATGTGTAC
11210714 ATATATAAATTAT-AAAATAA
1 ATATATAAATTATGAAAATAA
*
11210734 ATATATAGATTATGAAAATAA
1 ATATATAAATTATGAAAATAA
11210755 TGATCACATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (21 bp):
ATATATAAATTATGAAAATAA
Found at i:11211585 original size:22 final size:22
Alignment explanation
Indices: 11211536--11211585 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
11211526 TATTATTCGT
*
11211536 TTGTAAAAAATAATAAATATAA
1 TTGTAAAAAATAATAAATAAAA
* *
11211558 TAGTAAAATA-AATAAATAAAAA
1 TTGTAAAAAATAATAAAT-AAAA
11211580 TTGTAA
1 TTGTAA
11211586 CTATCAACCT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 7 0.30
22 16 0.70
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (22 bp):
TTGTAAAAAATAATAAATAAAA
Found at i:11213642 original size:43 final size:43
Alignment explanation
Indices: 11213559--11213765 Score: 265
Period size: 43 Copynumber: 4.9 Consensus size: 43
11213549 TAGGGTTACC
* * * *
11213559 GAGATTACGTGTAAGACCTTATCTGAGATA-TGGCATCGATAT
1 GAGATTTCGTGTAAGACCATGTCTGGGATATTGGCATCGATAT
* *
11213601 GAGACTTCGTGTAAGACCATGTCTGGGACATTGGCATCGATAT
1 GAGATTTCGTGTAAGACCATGTCTGGGATATTGGCATCGATAT
*
11213644 GTGATTTCGTGTAAGACCATGTCTGGGATATTGGCATCGATAT
1 GAGATTTCGTGTAAGACCATGTCTGGGATATTGGCATCGATAT
* * * * *
11213687 GTGATTTCGTCTAAGACCATGGCTGGGTTATTGGCATCGATAC
1 GAGATTTCGTGTAAGACCATGTCTGGGATATTGGCATCGATAT
* * *
11213730 GAGATTACATGTAAGACCATATCTGGGATA-TGGCAT
1 GAGATTTCGTGTAAGACCATGTCTGGGATATTGGCAT
11213766 TGTTACAGTA
Statistics
Matches: 144, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
42 30 0.21
43 114 0.79
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.31
Consensus pattern (43 bp):
GAGATTTCGTGTAAGACCATGTCTGGGATATTGGCATCGATAT
Found at i:11215627 original size:43 final size:43
Alignment explanation
Indices: 11215544--11215750 Score: 265
Period size: 43 Copynumber: 4.9 Consensus size: 43
11215534 TAGGGTTACC
* * * *
11215544 GAGATTACGTGTAAGACCTTATCTGAGATA-TGGCATCGATAT
1 GAGATTTCGTGTAAGACCATGTCTGGGATATTGGCATCGATAT
* *
11215586 GAGACTTCGTGTAAGACCATGTCTGGGACATTGGCATCGATAT
1 GAGATTTCGTGTAAGACCATGTCTGGGATATTGGCATCGATAT
*
11215629 GTGATTTCGTGTAAGACCATGTCTGGGATATTGGCATCGATAT
1 GAGATTTCGTGTAAGACCATGTCTGGGATATTGGCATCGATAT
* * * * *
11215672 GTGATTTCGTCTAAGACCATGGCTGGGTTATTGGCATCGATAC
1 GAGATTTCGTGTAAGACCATGTCTGGGATATTGGCATCGATAT
* * *
11215715 GAGATTACATGTAAGACCATATCTGGGATA-TGGCAT
1 GAGATTTCGTGTAAGACCATGTCTGGGATATTGGCAT
11215751 TGTTACAGTA
Statistics
Matches: 144, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
42 30 0.21
43 114 0.79
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.31
Consensus pattern (43 bp):
GAGATTTCGTGTAAGACCATGTCTGGGATATTGGCATCGATAT
Found at i:11224182 original size:38 final size:38
Alignment explanation
Indices: 11224116--11224200 Score: 95
Period size: 38 Copynumber: 2.3 Consensus size: 38
11224106 AAATTCACAT
* *
11224116 TTCAATTC-AATTTCATTTTTTCACTTTCAA-TC-ATAA
1 TTCAATTCAAAATTCATTTTTCCACTTTCAAGTCAAT-A
*
11224152 TTCAATTCAAAATTCACTTTTTCCATTTTCAAGTCAATA
1 TTCAATTCAAAATTCA-TTTTTCCACTTTCAAGTCAATA
*
11224191 TTCATTTCAA
1 TTCAATTCAA
11224201 TTCCACACAT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
36 8 0.20
37 6 0.15
38 13 0.32
39 12 0.29
40 2 0.05
ACGTcount: A:0.32, C:0.20, G:0.01, T:0.47
Consensus pattern (38 bp):
TTCAATTCAAAATTCATTTTTCCACTTTCAAGTCAATA
Found at i:11224520 original size:17 final size:18
Alignment explanation
Indices: 11224488--11224521 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
11224478 ATTTTCTTTT
11224488 CAATTTATACCCTAATTC
1 CAATTTATACCCTAATTC
*
11224506 CAATTTA-ATCCTAATT
1 CAATTTATACCCTAATT
11224522 AACTCATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.35, C:0.24, G:0.00, T:0.41
Consensus pattern (18 bp):
CAATTTATACCCTAATTC
Found at i:11224897 original size:14 final size:15
Alignment explanation
Indices: 11224865--11224903 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
11224855 TCAAACCTTA
11224865 ATTTTT-TTTCTTCT
1 ATTTTTCTTTCTTCT
11224879 ATTTTTCTTTCTT-T
1 ATTTTTCTTTCTTCT
*
11224893 CTTTTTCTTTC
1 ATTTTTCTTTC
11224904 CCCTGTTTCG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 17 0.74
15 6 0.26
ACGTcount: A:0.05, C:0.18, G:0.00, T:0.77
Consensus pattern (15 bp):
ATTTTTCTTTCTTCT
Found at i:11226110 original size:133 final size:134
Alignment explanation
Indices: 11225863--11226130 Score: 511
Period size: 133 Copynumber: 2.0 Consensus size: 134
11225853 TGGTTGGTGA
11225863 TCCGATTTAAGCCTAGTAAAGCGAGTAACCATCCAATTCGAAAAGGCTTGAACCCACGCTTCATT
1 TCCGATTTAAGCCTAGTAAAGCGAGTAACCATCCAATTCGAAAAGGCTTGAACCCACGCTTCATT
11225928 CCCCAAAGCACGATCAAGACGCTCAAAAGTCCCCGCTCTTTGCCAAGTAAACGAAGGACCATTAA
66 CCCCAAAGCACGATCAAGACGCTCAAAAGTCCCCGCTCTTTGCCAAGTAAACGAAGGACCATTAA
11225993 AACC
131 AACC
*
11225997 TCCGATTT-AGCCTAGTAAGGCGAGTAACCATCCAATTCGAAAAGGCTTGAACCCACGCTTCATT
1 TCCGATTTAAGCCTAGTAAAGCGAGTAACCATCCAATTCGAAAAGGCTTGAACCCACGCTTCATT
*
11226061 CCCCAAAGCACGATCAAGACGCTCAAAAGTCCCTGCTCTTTGCCAAGTAAACGAAGGACCATTAA
66 CCCCAAAGCACGATCAAGACGCTCAAAAGTCCCCGCTCTTTGCCAAGTAAACGAAGGACCATTAA
11226126 AACC
131 AACC
11226130 T
1 T
11226131 AAGTCATGAA
Statistics
Matches: 132, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
133 124 0.94
134 8 0.06
ACGTcount: A:0.34, C:0.29, G:0.17, T:0.20
Consensus pattern (134 bp):
TCCGATTTAAGCCTAGTAAAGCGAGTAACCATCCAATTCGAAAAGGCTTGAACCCACGCTTCATT
CCCCAAAGCACGATCAAGACGCTCAAAAGTCCCCGCTCTTTGCCAAGTAAACGAAGGACCATTAA
AACC
Found at i:11236951 original size:31 final size:31
Alignment explanation
Indices: 11236916--11236978 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
11236906 ATAAAACACC
11236916 TGAATTTCCCACCTAACTGGACCTCCACCAT
1 TGAATTTCCCACCTAACTGGACCTCCACCAT
11236947 TGAATTTCCCACCTAACTGGACCTCCACCAT
1 TGAATTTCCCACCTAACTGGACCTCCACCAT
11236978 T
1 T
11236979 CTTCTAGCTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.25, C:0.38, G:0.10, T:0.27
Consensus pattern (31 bp):
TGAATTTCCCACCTAACTGGACCTCCACCAT
Found at i:11237801 original size:15 final size:15
Alignment explanation
Indices: 11237781--11237810 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
11237771 GAACAAGGAT
11237781 CAGTGAGGGAATGGA
1 CAGTGAGGGAATGGA
11237796 CAGTGAGGGAATGGA
1 CAGTGAGGGAATGGA
11237811 TTTAAAGCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.07, G:0.47, T:0.13
Consensus pattern (15 bp):
CAGTGAGGGAATGGA
Found at i:11250725 original size:20 final size:21
Alignment explanation
Indices: 11250693--11250740 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
11250683 GATAAAAAAT
* *
11250693 AAAAATCAATAAAA-TTTATAG
1 AAAAAT-ATTAAAATTTTATAA
11250714 AAAAATATTAAAATTTTATAA
1 AAAAATATTAAAATTTTATAA
11250735 AAAAAT
1 AAAAAT
11250741 TTATGGAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 6 0.25
21 18 0.75
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (21 bp):
AAAAATATTAAAATTTTATAA
Found at i:11250750 original size:33 final size:33
Alignment explanation
Indices: 11250703--11250771 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
11250693 AAAAATCAAT
*
11250703 AAAATTTATAGAAAAATATTAAAATTTTATAAA
1 AAAATTTATAGAAAAATATTAAAAATTTATAAA
* *
11250736 AAAATTTATGGAAAAATATTAAAAATTTATTAA
1 AAAATTTATAGAAAAATATTAAAAATTTATAAA
11250769 AAA
1 AAA
11250772 TAGAAAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (33 bp):
AAAATTTATAGAAAAATATTAAAAATTTATAAA
Found at i:11250759 original size:21 final size:19
Alignment explanation
Indices: 11250734--11250877 Score: 83
Period size: 21 Copynumber: 7.1 Consensus size: 19
11250724 AAATTTTATA
11250734 AAAAAATTTATGGAAAAATAT
1 AAAAAATTTAT--AAAAATAT
* *
11250755 TAAAAATTTATTAAAAATAG
1 AAAAAATTTA-TAAAAATAT
*
11250775 AAAAAAATTATAAAAATAT
1 AAAAAATTTATAAAAATAT
** *
11250794 AAAAAAAATATAAAATATTGT
1 AAAAAATTTATAAAA-A-TAT
*
11250815 AAAGAATTTATAAAGAACT-T
1 AAAAAATTTATAAA-AA-TAT
* ***
11250835 GTAATTTTTTATAAAAATAGT
1 -AAAAAATTTATAAAAATA-T
11250856 AAAAAATTTTATAAAACATAT
1 AAAAAA-TTTATAAAA-ATAT
11250877 A
1 A
11250878 GTAATATAGA
Statistics
Matches: 95, Mismatches: 19, Indels: 18
0.72 0.14 0.14
Matches are distributed among these distances:
19 23 0.24
20 21 0.22
21 46 0.48
22 5 0.05
ACGTcount: A:0.60, C:0.01, G:0.06, T:0.33
Consensus pattern (19 bp):
AAAAAATTTATAAAAATAT
Found at i:11250799 original size:20 final size:20
Alignment explanation
Indices: 11250730--11250808 Score: 74
Period size: 20 Copynumber: 4.0 Consensus size: 20
11250720 ATTAAAATTT
*
11250730 TATAAAAAAATTTATGGAAAAA
1 TATAAAAAAAATTAT--AAAAA
* *
11250752 TAT-TAAAAATTTATTAAAAA
1 TATAAAAAAAATTA-TAAAAA
*
11250772 TA-GAAAAAAATTATAAAAA
1 TATAAAAAAAATTATAAAAA
11250791 TATAAAAAAAA-TATAAAA
1 TATAAAAAAAATTATAAAA
11250809 TATTGTAAAG
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
19 15 0.30
20 22 0.44
21 9 0.18
22 4 0.08
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (20 bp):
TATAAAAAAAATTATAAAAA
Found at i:11251462 original size:49 final size:49
Alignment explanation
Indices: 11251398--11251507 Score: 118
Period size: 49 Copynumber: 2.2 Consensus size: 49
11251388 AATTTTTATG
* *
11251398 AATTTTAGATTTCTTTACAT-TTTTTATAATTTTCTTACGA-CTTTAT-AA
1 AATTTTAAATTTCTTTACATATTTCT-TAATTTT-TTACGATCTTTATAAA
* * *
11251446 AATTTTATAATTTCTTTTCATATTTCTTAATTTTTTATGATTTTTATAAA
1 AATTTTA-AATTTCTTTACATATTTCTTAATTTTTTACGATCTTTATAAA
*
11251496 AATTTTCAATTT
1 AATTTTAAATTT
11251508 TTATGATTTT
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
48 12 0.23
49 28 0.54
50 12 0.23
ACGTcount: A:0.30, C:0.08, G:0.03, T:0.59
Consensus pattern (49 bp):
AATTTTAAATTTCTTTACATATTTCTTAATTTTTTACGATCTTTATAAA
Found at i:11254825 original size:12 final size:11
Alignment explanation
Indices: 11254804--11254839 Score: 54
Period size: 12 Copynumber: 3.1 Consensus size: 11
11254794 TTAATACATG
11254804 ATATAAAAATA
1 ATATAAAAATA
11254815 ATATCAAAAATA
1 ATAT-AAAAATA
11254827 ATATGAAAAATA
1 ATAT-AAAAATA
11254839 A
1 A
11254840 ATTAATACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 4 0.17
12 19 0.83
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.25
Consensus pattern (11 bp):
ATATAAAAATA
Found at i:11254984 original size:16 final size:16
Alignment explanation
Indices: 11254963--11255000 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
11254953 ATTCAATAAA
11254963 AATACACCTCTAATCC
1 AATACACCTCTAATCC
*
11254979 AATACACCTCTAATCT
1 AATACACCTCTAATCC
11254995 AATACA
1 AATACA
11255001 GCGAACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (16 bp):
AATACACCTCTAATCC
Found at i:11261644 original size:28 final size:28
Alignment explanation
Indices: 11261613--11261666 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
11261603 AAAGGCCGTT
11261613 TTTTTTCAA-AATTTACCGAAATGGGCGG
1 TTTTTT-AATAATTTACCGAAATGGGCGG
* *
11261641 TTTTTTAATTATTTACCGGAATGGGC
1 TTTTTTAATAATTTACCGAAATGGGC
11261667 TATTTTTCGC
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:0.26, C:0.13, G:0.20, T:0.41
Consensus pattern (28 bp):
TTTTTTAATAATTTACCGAAATGGGCGG
Found at i:11262663 original size:30 final size:29
Alignment explanation
Indices: 11262596--11262663 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
11262586 GATTTCGTGG
*
11262596 AAAATGGCCCATTCCGGTAAATAATTAAA
1 AAAACGGCCCATTCCGGTAAATAATTAAA
* * *
11262625 AAACCGGCCCATTTCGGTAAAT-TTTGAAAA
1 AAAACGGCCCATTCCGGTAAATAATT--AAA
11262655 AAAACGGCC
1 AAAACGGCC
11262664 TTTTTTGGTT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
28 2 0.06
29 19 0.59
30 11 0.34
ACGTcount: A:0.41, C:0.21, G:0.16, T:0.22
Consensus pattern (29 bp):
AAAACGGCCCATTCCGGTAAATAATTAAA
Found at i:11266805 original size:16 final size:16
Alignment explanation
Indices: 11266784--11266815 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
11266774 GTAGAACTTC
11266784 GCCAAAACTGTGGAGT
1 GCCAAAACTGTGGAGT
11266800 GCCAAAACTGTGGAGT
1 GCCAAAACTGTGGAGT
11266816 TCCACTCCAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.19, G:0.31, T:0.19
Consensus pattern (16 bp):
GCCAAAACTGTGGAGT
Found at i:11272105 original size:17 final size:16
Alignment explanation
Indices: 11272074--11272107 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
11272064 AAATATTATG
11272074 AAATAAAAACAAACAA
1 AAATAAAAACAAACAA
*
11272090 AAATAAACATCAAACAA
1 AAATAAA-AACAAACAA
11272107 A
1 A
11272108 CGCTATCCTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.76, C:0.15, G:0.00, T:0.09
Consensus pattern (16 bp):
AAATAAAAACAAACAA
Found at i:11272787 original size:11 final size:11
Alignment explanation
Indices: 11272771--11272802 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
11272761 CAACGTTTAG
*
11272771 AAAAGAAATAT
1 AAAAGAAACAT
11272782 AAAAGAAACAT
1 AAAAGAAACAT
11272793 AAAAGAAACA
1 AAAAGAAACA
11272803 AGTGGAAAGT
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:0.75, C:0.06, G:0.09, T:0.09
Consensus pattern (11 bp):
AAAAGAAACAT
Found at i:11277415 original size:3 final size:3
Alignment explanation
Indices: 11277407--11277462 Score: 103
Period size: 3 Copynumber: 18.7 Consensus size: 3
11277397 CTCTTAGATT
*
11277407 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
11277455 TTC TTC TT
1 TTC TTC TT
11277463 TTTATAGGGT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
TTC
Found at i:11279358 original size:18 final size:20
Alignment explanation
Indices: 11279335--11279375 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
11279325 GTTTATCTAT
11279335 AAGATAA-ACATTAA-ATTA
1 AAGATAACACATTAATATTA
11279353 AAGATAATCACATTAATATTA
1 AAGATAA-CACATTAATATTA
11279374 AA
1 AA
11279376 TGAATAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.35
20 7 0.35
21 6 0.30
ACGTcount: A:0.59, C:0.07, G:0.05, T:0.29
Consensus pattern (20 bp):
AAGATAACACATTAATATTA
Found at i:11281046 original size:15 final size:15
Alignment explanation
Indices: 11281022--11281053 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
11281012 TATGCATGCA
*
11281022 AAATATAAAAGACAT
1 AAATACAAAAGACAT
11281037 AAATACAAAAGACAT
1 AAATACAAAAGACAT
11281052 AA
1 AA
11281054 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:11285840 original size:43 final size:43
Alignment explanation
Indices: 11285773--11285925 Score: 131
Period size: 43 Copynumber: 3.6 Consensus size: 43
11285763 TATTTTCGTT
*
11285773 TAAGACCATGTCTGGGA-TGTTGGCATCGACTTGTGTATACGTG
1 TAAGACCATGTCTGGGACAGTTGGCATCGA-TTGTGTATACGTG
* **
11285816 TAAGACCATGTCTGGGACAG-TGGCATCG-TAGT-TGATTTGTG
1 TAAGACCATGTCTGGGACAGTTGGCATCGATTGTGT-ATACGTG
* * * * *
11285857 TACGACCCTGTCTGGGACAG-TGGCTTTGATATGTG-ATTACATG
1 TAAGACCATGTCTGGGACAGTTGGCATCGAT-TGTGTA-TACGTG
*
11285900 TAAGACCACGTCTGGGAC-GTTGGCAT
1 TAAGACCATGTCTGGGACAGTTGGCAT
11285926 TGAACAAGCC
Statistics
Matches: 87, Mismatches: 16, Indels: 14
0.74 0.14 0.12
Matches are distributed among these distances:
40 1 0.01
41 32 0.37
42 3 0.03
43 50 0.57
44 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.31
Consensus pattern (43 bp):
TAAGACCATGTCTGGGACAGTTGGCATCGATTGTGTATACGTG
Found at i:11286115 original size:16 final size:17
Alignment explanation
Indices: 11286086--11286117 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
11286076 TGAATTGATG
11286086 ATATGAAGTTATGTGAA
1 ATATGAAGTTATGTGAA
11286103 ATATGAA-TTATGTGA
1 ATATGAAGTTATGTGA
11286118 TTGCATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.38
Consensus pattern (17 bp):
ATATGAAGTTATGTGAA
Found at i:11289584 original size:15 final size:15
Alignment explanation
Indices: 11289559--11289593 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
11289549 GACTCTATTT
*
11289559 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
11289573 TAATTAATATTAAGA
1 TAATTAATATTAAGA
11289588 TAATTA
1 TAATTA
11289594 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:11291759 original size:50 final size:50
Alignment explanation
Indices: 11291562--11291761 Score: 188
Period size: 50 Copynumber: 4.0 Consensus size: 50
11291552 TTTAACTATT
* * **
11291562 ATCATT-CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATAA
1 ATCATTCCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCA
* * * * * * *
11291611 AACTTTCCGGTTCACGTAGTAGCCCGCACATAGTACTACATATGTGATCGA
1 ATCATTCCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGA-CCA
* * * * * *
11291662 AGC-TATCGGGTACGCATAGTAGCCTGCACATAGTACTACACATGTGACCT
1 ATCAT-TCCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCA
* * *
11291712 TTCATTCCGGTACACGTAGTATCCTTCACATAGTACTACACACGTGACCA
1 ATCATTCCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCA
11291762 TCACTTTCAC
Statistics
Matches: 119, Mismatches: 28, Indels: 7
0.77 0.18 0.05
Matches are distributed among these distances:
49 4 0.03
50 75 0.63
51 40 0.34
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (50 bp):
ATCATTCCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCA
Found at i:11293244 original size:23 final size:23
Alignment explanation
Indices: 11293218--11293292 Score: 116
Period size: 23 Copynumber: 3.3 Consensus size: 23
11293208 ATAAGTGCCA
11293218 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
11293241 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
11293263 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
11293286 CACTGAT
1 CACTGAT
11293293 CAATAACACT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
22 20 0.43
23 26 0.57
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:11298398 original size:50 final size:50
Alignment explanation
Indices: 11298342--11298529 Score: 160
Period size: 50 Copynumber: 3.7 Consensus size: 50
11298332 TATCATTCGA
* *
11298342 TACACGTAGTAACCTTCACATAGTACTACACACATGATAAAACTTTCCGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACATGATAAAACTTTCCGG
* * ** * * * *
11298392 TTCACGTAGTAGCCTGCACATAGTACTACATATGTGATCGAAGCTATCGGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACATGAT-AAAACTTTCCGG
* * *** ***** *
11298443 TACGCATAGTAGCCTGCACATAGTACTACACATGCGACCTTTCATTCCGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACATGATAAAACTTTCCGG
* *
11298493 TACACGTAGTATCCTTCACATAGTACTACACACATGA
1 TACACGTAGTAGCCTGCACATAGTACTACACACATGA
11298530 CCATCACTTT
Statistics
Matches: 107, Mismatches: 30, Indels: 2
0.77 0.22 0.01
Matches are distributed among these distances:
50 67 0.63
51 40 0.37
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (50 bp):
TACACGTAGTAGCCTGCACATAGTACTACACACATGATAAAACTTTCCGG
Found at i:11299848 original size:23 final size:23
Alignment explanation
Indices: 11299822--11299897 Score: 100
Period size: 23 Copynumber: 3.3 Consensus size: 23
11299812 ATAAGTGCAA
*
11299822 CACTGATATGTAGCCGAAGCTAT
1 CACTGATATGTAGCCGAAGCTAC
* *
11299845 CACTGTTATGTAGTCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
11299868 CACTGA-AGCGTAGCCGAAGCTAC
1 CACTGATA-TGTAGCCGAAGCTAC
11299891 CACTGAT
1 CACTGAT
11299898 CAATAACACT
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
22 1 0.02
23 44 0.98
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:11300075 original size:50 final size:50
Alignment explanation
Indices: 11299998--11300185 Score: 160
Period size: 50 Copynumber: 3.7 Consensus size: 50
11299988 GTAACACTGA
* *
11299998 TACACGTAGTAACCTTCACATAGTACTACACACATGATAAAACTTTCCGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACATGATAAAACTTTCCGG
* * ** * * * *
11300048 TTCACGTAGTAGCCTGCACATAGTACTACATATGTGATCGAAGCTATCGGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACATGAT-AAAACTTTCCGG
* * *** ***** *
11300099 TACGCATAGTAGCCTGCACATAGTACTACACATGCGACCTTTCATTCCGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACATGATAAAACTTTCCGG
* *
11300149 TACACGTAGTATCCTTCACATAGTACTACACACATGA
1 TACACGTAGTAGCCTGCACATAGTACTACACACATGA
11300186 CCATCACTTT
Statistics
Matches: 107, Mismatches: 30, Indels: 2
0.77 0.22 0.01
Matches are distributed among these distances:
50 67 0.63
51 40 0.37
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (50 bp):
TACACGTAGTAGCCTGCACATAGTACTACACACATGATAAAACTTTCCGG
Found at i:11310702 original size:23 final size:23
Alignment explanation
Indices: 11310675--11310719 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
11310665 GAAAAATATT
11310675 AAATATATATA-TTTTTATTTTTA
1 AAATATA-ATAGTTTTTATTTTTA
11310698 AAATATAATAGTTTTTTATTTT
1 AAATATAATAG-TTTTTATTTT
11310720 AAGTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 3 0.15
23 7 0.35
24 10 0.50
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (23 bp):
AAATATAATAGTTTTTATTTTTA
Found at i:11310830 original size:9 final size:9
Alignment explanation
Indices: 11310816--11310843 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
11310806 TTTTGTTACA
11310816 ACAATTAAT
1 ACAATTAAT
11310825 ACAATTAAT
1 ACAATTAAT
11310834 ACAATTAAT
1 ACAATTAAT
11310843 A
1 A
11310844 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:11310891 original size:59 final size:56
Alignment explanation
Indices: 11310819--11310955 Score: 180
Period size: 50 Copynumber: 2.5 Consensus size: 56
11310809 TGTTACAACA
11310819 ATTAATACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGAT
1 ATTAATACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGAT
11310875 -TT--T---ATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTT
1 ATTAATACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGA---T
*
11310928 ATTACA-ACAATTAATACAATTAACAATT
1 ATTA-ATACAATTAATACAATTAATAATT
11310956 AATAATTTGA
Statistics
Matches: 70, Mismatches: 1, Indels: 17
0.80 0.01 0.19
Matches are distributed among these distances:
50 46 0.66
53 2 0.03
54 2 0.03
55 2 0.03
59 18 0.26
ACGTcount: A:0.47, C:0.08, G:0.04, T:0.41
Consensus pattern (56 bp):
ATTAATACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGAT
Found at i:11310903 original size:50 final size:50
Alignment explanation
Indices: 11310828--11310943 Score: 216
Period size: 50 Copynumber: 2.3 Consensus size: 50
11310818 AATTAATACA
11310828 ATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTT
1 ATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTT
11310878 ATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTT
1 ATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTT
11310928 ATTACA-ACAATTAATA
1 ATTA-ATACAATTAATA
11310944 CAATTAACAA
Statistics
Matches: 65, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
50 64 0.98
51 1 0.02
ACGTcount: A:0.46, C:0.07, G:0.05, T:0.42
Consensus pattern (50 bp):
ATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTT
Found at i:11310987 original size:16 final size:16
Alignment explanation
Indices: 11310966--11311007 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
11310956 AATAATTTGA
*
11310966 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
11310982 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
11310998 TAGTTTTAAT
1 TAATTTTAAT
11311008 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:11310991 original size:22 final size:22
Alignment explanation
Indices: 11310981--11311042 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 22
11310971 TTACTAACAA
* * *
11310981 TTAATTTTAATAACAATTAGTT
1 TTAATTTTAATAAAAAATAATT
*
11311003 TTAATTTTATTAAAAAATAATT
1 TTAATTTTAATAAAAAATAATT
*
11311025 TTAATTTTAATTAAAAAT
1 TTAATTTTAATAAAAAAT
11311043 GGGCCGGGCC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (22 bp):
TTAATTTTAATAAAAAATAATT
Found at i:11311302 original size:2 final size:2
Alignment explanation
Indices: 11311295--11311323 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
11311285 AAAATACTTT
11311295 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
11311324 ATATATATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:11313573 original size:14 final size:14
Alignment explanation
Indices: 11313554--11313580 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
11313544 TTAGTCGTAT
11313554 TTTAGTTAGTCATG
1 TTTAGTTAGTCATG
11313568 TTTAGTTAGTCAT
1 TTTAGTTAGTCAT
11313581 ATTGTTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.07, G:0.19, T:0.52
Consensus pattern (14 bp):
TTTAGTTAGTCATG
Found at i:11314473 original size:11 final size:11
Alignment explanation
Indices: 11314457--11314482 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
11314447 CTGGTCACGC
11314457 CAAATAGTTAA
1 CAAATAGTTAA
11314468 CAAATAGTTAA
1 CAAATAGTTAA
11314479 CAAA
1 CAAA
11314483 AAATTCATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.58, C:0.12, G:0.08, T:0.23
Consensus pattern (11 bp):
CAAATAGTTAA
Found at i:11315682 original size:43 final size:43
Alignment explanation
Indices: 11315619--11315706 Score: 122
Period size: 43 Copynumber: 2.0 Consensus size: 43
11315609 ATCATGGAGA
* * *** *
11315619 ATAAATTTGATCGTCGATAAAAGGTTTTATCACTTTGAGCAAG
1 ATAAATTTAATCGTCAATAAAAGGAACTATCACTTTAAGCAAG
11315662 ATAAATTTAATCGTCAATAAAAGGAACTATCACTTTAAGCAAG
1 ATAAATTTAATCGTCAATAAAAGGAACTATCACTTTAAGCAAG
11315705 AT
1 AT
11315707 CGTGCTGATA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (43 bp):
ATAAATTTAATCGTCAATAAAAGGAACTATCACTTTAAGCAAG
Found at i:11315986 original size:7 final size:7
Alignment explanation
Indices: 11315976--11316008 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
11315966 CTTTTGTATT
11315976 TTTTTAC
1 TTTTTAC
11315983 TTTTTAC
1 TTTTTAC
11315990 TTTTTAC
1 TTTTTAC
11315997 TTTTTAC
1 TTTTTAC
11316004 TTTTT
1 TTTTT
11316009 CAAATTTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTTAC
Found at i:11316687 original size:4 final size:4
Alignment explanation
Indices: 11316678--11316710 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
11316668 TGAGGAATGT
11316678 TACA TACA TACA TACA TACA TACA TACA TACA T
1 TACA TACA TACA TACA TACA TACA TACA TACA T
11316711 CCATCCATCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.27
Consensus pattern (4 bp):
TACA
Found at i:11318290 original size:24 final size:27
Alignment explanation
Indices: 11318261--11318324 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 27
11318251 TCACTAAGTA
11318261 CAAAGTGCAAAT-A-AT-GATAAGCAC
1 CAAAGTGCAAATAATATCGATAAGCAC
*
11318285 CGAAGTGCAAAATAATATCGATAAGCAC
1 CAAAGTGC-AAATAATATCGATAAGCAC
*
11318313 CAAAGTGTAAAT
1 CAAAGTGCAAAT
11318325 TTTTACAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
24 7 0.21
25 4 0.12
26 1 0.03
27 6 0.18
28 15 0.45
ACGTcount: A:0.48, C:0.16, G:0.17, T:0.19
Consensus pattern (27 bp):
CAAAGTGCAAATAATATCGATAAGCAC
Found at i:11328660 original size:32 final size:30
Alignment explanation
Indices: 11328624--11328691 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
11328614 TTTGTTTATT
11328624 TAAAATATAAAAATATAATATAATTAATAAAA
1 TAAAATATAAAAATATAAT-TAA-TAATAAAA
* *
11328656 T-AAA-ATAAAAATATACTTTATAATAAAA
1 TAAAATATAAAAATATAATTAATAATAAAA
*
11328684 TAATATAT
1 TAAAATAT
11328692 TTATATATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
28 9 0.29
29 4 0.13
30 14 0.45
31 3 0.10
32 1 0.03
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.34
Consensus pattern (30 bp):
TAAAATATAAAAATATAATTAATAATAAAA
Found at i:11328686 original size:28 final size:30
Alignment explanation
Indices: 11328630--11328686 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
11328620 TATTTAAAAT
11328630 ATAAAAATATAATATAATTAATAAAATAAA
1 ATAAAAATATAATATAATTAATAAAATAAA
* *
11328660 ATAAAAATATACT-TTA-TAATAAAATAA
1 ATAAAAATATAATATAATTAATAAAATAA
11328687 TATATTTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 11 0.44
29 2 0.08
30 12 0.48
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (30 bp):
ATAAAAATATAATATAATTAATAAAATAAA
Found at i:11330375 original size:70 final size:70
Alignment explanation
Indices: 11330262--11330395 Score: 232
Period size: 70 Copynumber: 1.9 Consensus size: 70
11330252 ATAAAAAAAC
*
11330262 AATTTATTCATTTTTTGGGAAAATTGTAAATAAATATATTATTGATGTAAAAATACAATACAATA
1 AATTTATTCATTTTTTGGGAAAATTGTAAATAAATAGATTATTGATGTAAAAATACAATACAATA
11330327 CAAAT
66 CAAAT
* * *
11330332 AATTTATTCATTTTTTTGGTAAATTGTAAATAAATAGATTATTGATGTAAAAATATAATACAAT
1 AATTTATTCATTTTTTGGGAAAATTGTAAATAAATAGATTATTGATGTAAAAATACAATACAAT
11330396 TATTTTTAAT
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
70 60 1.00
ACGTcount: A:0.46, C:0.04, G:0.09, T:0.41
Consensus pattern (70 bp):
AATTTATTCATTTTTTGGGAAAATTGTAAATAAATAGATTATTGATGTAAAAATACAATACAATA
CAAAT
Found at i:11330711 original size:6 final size:6
Alignment explanation
Indices: 11330702--11330779 Score: 68
Period size: 6 Copynumber: 13.0 Consensus size: 6
11330692 TTCAGGCTCA
* * * *
11330702 TCATCT TCATCT TCATCT TCATCT CCAGC- TCTACCT TCATCT TGATCT
1 TCATCT TCATCT TCATCT TCATCT TCATCT TC-ATCT TCATCT TCATCT
* * * *
11330750 TGATCT TGATCT TGATCT TGATCT TCATCT
1 TCATCT TCATCT TCATCT TCATCT TCATCT
11330780 CTAACATTAT
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
5 1 0.02
6 60 0.95
7 2 0.03
ACGTcount: A:0.17, C:0.29, G:0.08, T:0.46
Consensus pattern (6 bp):
TCATCT
Found at i:11330798 original size:6 final size:6
Alignment explanation
Indices: 11330740--11330779 Score: 71
Period size: 6 Copynumber: 6.7 Consensus size: 6
11330730 CTCTACCTTC
*
11330740 ATCTTG ATCTTG ATCTTG ATCTTG ATCTTG ATCTTC ATCT
1 ATCTTG ATCTTG ATCTTG ATCTTG ATCTTG ATCTTG ATCT
11330780 CTAACATTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.17, C:0.20, G:0.12, T:0.50
Consensus pattern (6 bp):
ATCTTG
Found at i:11334698 original size:17 final size:17
Alignment explanation
Indices: 11334667--11334706 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
11334657 TGACATTTTT
11334667 AAAATTATGAAAATAAA
1 AAAATTATGAAAATAAA
11334684 ATAAATTAT-AAAATAAA
1 A-AAATTATGAAAATAAA
11334701 AAAATT
1 AAAATT
11334707 GAGAGAAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.23
17 10 0.45
18 7 0.32
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.28
Consensus pattern (17 bp):
AAAATTATGAAAATAAA
Found at i:11344101 original size:37 final size:38
Alignment explanation
Indices: 11344042--11344121 Score: 117
Period size: 37 Copynumber: 2.1 Consensus size: 38
11344032 TTTCAATTTA
* * *
11344042 TTACTTCGGATTTATTCGATGAGGCACTGGGTGCCAAC
1 TTACTTCAGATTTAATCGATGAGACACTGGGTGCCAAC
*
11344080 TTACTTCAG-TTTAATCGATGAGACACTGGGTGCCAAT
1 TTACTTCAGATTTAATCGATGAGACACTGGGTGCCAAC
11344117 TTACT
1 TTACT
11344122 ACTTCGAATT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
37 30 0.79
38 8 0.21
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.34
Consensus pattern (38 bp):
TTACTTCAGATTTAATCGATGAGACACTGGGTGCCAAC
Found at i:11347745 original size:11 final size:11
Alignment explanation
Indices: 11347728--11347771 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
11347718 AATCATTTAA
11347728 TAATAAAATAT
1 TAATAAAATAT
* *
11347739 TACTAAAAATCT
1 TAAT-AAAATAT
11347751 TAATAAAATAT
1 TAATAAAATAT
*
11347762 TAATTAAATA
1 TAATAAAATA
11347772 ACATTTATCT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
11 18 0.67
12 9 0.33
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (11 bp):
TAATAAAATAT
Found at i:11350536 original size:23 final size:22
Alignment explanation
Indices: 11350496--11350539 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
11350486 AAAATATAAA
*
11350496 ATATAAAAATATATATATGTAC
1 ATATAAAAAAATATATATGTAC
11350518 ATATAAGAAAAATATATATGTA
1 ATATAA-AAAAATATATATGTA
11350540 TGTGAATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.34
Consensus pattern (22 bp):
ATATAAAAAAATATATATGTAC
Found at i:11350676 original size:36 final size:36
Alignment explanation
Indices: 11350636--11350711 Score: 84
Period size: 36 Copynumber: 2.1 Consensus size: 36
11350626 TGAAACATAG
*
11350636 AAAATATATAAAAGTATGT-GTATATATATAT-TTATA
1 AAAAT-TA-AAAAATATGTAGTATATATATATATTATA
* *
11350672 AAAATTAAAAAATGTGTACGTATATGTATATATTATA
1 AAAATTAAAAAATATGTA-GTATATATATATATTATA
11350709 AAA
1 AAA
11350712 CGTATGTATG
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
34 8 0.24
35 2 0.06
36 16 0.47
37 8 0.24
ACGTcount: A:0.51, C:0.01, G:0.09, T:0.38
Consensus pattern (36 bp):
AAAATTAAAAAATATGTAGTATATATATATATTATA
Found at i:11351271 original size:23 final size:22
Alignment explanation
Indices: 11351227--11351306 Score: 90
Period size: 22 Copynumber: 3.6 Consensus size: 22
11351217 TAAAGGATAT
* *
11351227 TTACAAATTAAATC-TCTAAGA
1 TTACAAATCATATCTTCTAAGA
11351248 TTACAAAATCATATCTTCTAAGA
1 TTAC-AAATCATATCTTCTAAGA
* *
11351271 TTGCATATCATATCTTCTAAGA
1 TTACAAATCATATCTTCTAAGA
* *
11351293 TTGCATATCATATC
1 TTACAAATCATATC
11351307 AAAGATTGCA
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
21 4 0.08
22 39 0.74
23 10 0.19
ACGTcount: A:0.39, C:0.17, G:0.06, T:0.38
Consensus pattern (22 bp):
TTACAAATCATATCTTCTAAGA
Found at i:11351313 original size:19 final size:19
Alignment explanation
Indices: 11351264--11351339 Score: 107
Period size: 19 Copynumber: 3.8 Consensus size: 19
11351254 AATCATATCT
11351264 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
11351283 TCTTCTAAGATTGCATATCATA
1 ---TCTAAGATTGCATATCATA
*
11351305 TCAAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
11351324 TTTAAGATTGCATATC
1 TCTAAGATTGCATATC
11351340 CTTGAAGATT
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
19 32 0.63
22 19 0.37
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:11355605 original size:19 final size:19
Alignment explanation
Indices: 11355564--11355605 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
11355554 TTTAAAAAAT
*
11355564 AATTTTTATAATTTTTTTG
1 AATTTTTATAATTTTTTTA
*
11355583 AATTTTTA-ATTTTTTTATA
1 AATTTTTATAATTTTTT-TA
11355602 AATT
1 AATT
11355606 AATTAAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (19 bp):
AATTTTTATAATTTTTTTA
Found at i:11364445 original size:72 final size:72
Alignment explanation
Indices: 11364328--11364583 Score: 485
Period size: 72 Copynumber: 3.6 Consensus size: 72
11364318 ACAACTTGAC
*
11364328 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
11364393 ACTAACA
66 ACTAACA
11364400 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
11364465 ACTAACA
66 ACTAACA
**
11364472 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCAAATAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
11364537 ACTAACA
66 ACTAACA
11364544 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
11364584 AATAATAATA
Statistics
Matches: 181, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
72 181 1.00
ACGTcount: A:0.43, C:0.24, G:0.06, T:0.27
Consensus pattern (72 bp):
AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
ACTAACA
Found at i:11364592 original size:3 final size:3
Alignment explanation
Indices: 11364584--11364627 Score: 72
Period size: 3 Copynumber: 14.7 Consensus size: 3
11364574 ATTACATCCA
11364584 AAT AAT AAT AAT CAA- AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
11364628 AACATGTGAT
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
2 2 0.05
3 35 0.90
4 2 0.05
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:11368963 original size:72 final size:72
Alignment explanation
Indices: 11368846--11369029 Score: 359
Period size: 72 Copynumber: 2.6 Consensus size: 72
11368836 ACAACTTGAC
*
11368846 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
11368911 ACTAACA
66 ACTAACA
11368918 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
11368983 ACTAACA
66 ACTAACA
11368990 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
11369030 AATAATAATA
Statistics
Matches: 111, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 111 1.00
ACGTcount: A:0.42, C:0.24, G:0.07, T:0.28
Consensus pattern (72 bp):
AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
ACTAACA
Found at i:11369038 original size:3 final size:3
Alignment explanation
Indices: 11369030--11369073 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
11369020 ATTACATCCA
11369030 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
11369074 AACATGTGAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:11378583 original size:21 final size:21
Alignment explanation
Indices: 11378544--11378584 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
11378534 ATATTTAATT
**
11378544 AATTTTTAAAATTTTAAACAA
1 AATTTTTAAAATTAAAAACAA
11378565 AATTTTTAAAATTAAAAACA
1 AATTTTTAAAATTAAAAACA
11378585 TTAAAACTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (21 bp):
AATTTTTAAAATTAAAAACAA
Found at i:11379510 original size:60 final size:58
Alignment explanation
Indices: 11379437--11379554 Score: 148
Period size: 60 Copynumber: 2.0 Consensus size: 58
11379427 CTTTTGATGG
* *
11379437 TGGGTGATAAAAAAAGACAAAATTA-AATAGTTGGGTGACAATTTTGTAACTTTTCATAGC
1 TGGGTGATAAAAAAAG--AAAATTACAATAGTGGGGTGACAATTTTGCAACTTTT-ATAGC
* * *
11379497 TGGGTGATCAAAAAAGAAATTTACTAATAGTGGGGTGACCATTTTGCAACTTTTATAG
1 TGGGTGATAAAAAAAGAAAATTAC-AATAGTGGGGTGACAATTTTGCAACTTTTATAG
11379555 TTGAATGGCC
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
58 6 0.12
59 4 0.08
60 41 0.80
ACGTcount: A:0.37, C:0.09, G:0.21, T:0.32
Consensus pattern (58 bp):
TGGGTGATAAAAAAAGAAAATTACAATAGTGGGGTGACAATTTTGCAACTTTTATAGC
Found at i:11379570 original size:60 final size:57
Alignment explanation
Indices: 11379462--11379582 Score: 127
Period size: 60 Copynumber: 2.1 Consensus size: 57
11379452 GACAAAATTA
* * ** *
11379462 AATAGTTGGGTGACAATTTTGTAACTTTTCATAGCTGGGTGATCAAAAAAGAAATTTACT
1 AATAGTGGGGTGACAATTTTGCAACTTTTCATAGCTGAATGACCAAAAAA-AAA--TACT
* * *
11379522 AATAGTGGGGTGACCATTTTGCAACTTTT-ATAGTTGAATGGCCAAAAAAAAAATACT
1 AATAGTGGGGTGACAATTTTGCAACTTTTCATAGCTGAATGACC-AAAAAAAAATACT
11379579 AATA
1 AATA
11379583 ATTAGGTGAC
Statistics
Matches: 52, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
57 8 0.15
59 12 0.23
60 32 0.62
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (57 bp):
AATAGTGGGGTGACAATTTTGCAACTTTTCATAGCTGAATGACCAAAAAAAAATACT
Found at i:11385321 original size:114 final size:114
Alignment explanation
Indices: 11385120--11385665 Score: 887
Period size: 114 Copynumber: 4.8 Consensus size: 114
11385110 AGCATTAGTT
** * * * **
11385120 GCGTTTTCCAAAAAGCGCCGC-AAACAACCTAAGCCCAACGACGCCGTTTTCTTAGCTTTTGGGG
1 GCGTTTTTGAAAAAGCGCCGCAAAAAAACATAAGCCCAACGACGCCGTTTTGTGGGCTTTTGGGG
* * *
11385184 ATTTAGCGGCATTTTTAATAAAGCGCCGCTAATGGTCAGGGCTTTAGCG
66 ATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGGTCAGGGATTTAGCG
** * *
11385233 GCGTTTTTGAGGAAGCGCCGCAAAAAAACATAAGCCTAACGATGCCGTTTTGTGGGCTTTTGGGG
1 GCGTTTTTGAAAAAGCGCCGCAAAAAAACATAAGCCCAACGACGCCGTTTTGTGGGCTTTTGGGG
11385298 ATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGGTCAGGGATTTAGCG
66 ATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGGTCAGGGATTTAGCG
* *
11385347 GCGTTTTTGAAAAAGCGCCGCAAAAAAACATAAGCCCAACGACGTCGTTTTGTGGGCTTTTGGTG
1 GCGTTTTTGAAAAAGCGCCGCAAAAAAACATAAGCCCAACGACGCCGTTTTGTGGGCTTTTGGGG
11385412 ATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGGTCAGGGATTTAGCG
66 ATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGGTCAGGGATTTAGCG
* *
11385461 GCGTTTTTGAAAAAGCGCCGCAAAAAAACATAAGCCCAACGACGTCGTTTTGTGGGCTTTTGGTG
1 GCGTTTTTGAAAAAGCGCCGCAAAAAAACATAAGCCCAACGACGCCGTTTTGTGGGCTTTTGGGG
*
11385526 ATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGGTCAGTGATTTAGCG
66 ATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGGTCAGGGATTTAGCG
*
11385575 GCGTTTTTGAGAAAGCGCCGCAAAAAAACATAAGCCCAACGACGCCGTTTTGTGGGCTTTTGGGG
1 GCGTTTTTGAAAAAGCGCCGCAAAAAAACATAAGCCCAACGACGCCGTTTTGTGGGCTTTTGGGG
* *
11385640 ATTTAGTGACGTTTTTAAGAAAGCGC
66 ATTTAGCGGCGTTTTTAAGAAAGCGC
11385666 TGCAAAAAAC
Statistics
Matches: 406, Mismatches: 26, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
113 17 0.04
114 389 0.96
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (114 bp):
GCGTTTTTGAAAAAGCGCCGCAAAAAAACATAAGCCCAACGACGCCGTTTTGTGGGCTTTTGGGG
ATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGGTCAGGGATTTAGCG
Found at i:11385700 original size:72 final size:72
Alignment explanation
Indices: 11385566--11385793 Score: 332
Period size: 72 Copynumber: 3.2 Consensus size: 72
11385556 AATGGTCAGT
* *
11385566 GATTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACATAAGCCCAACGACGCCGTTTTGTGGG
1 GATTTAGCGGCGTTTTTAAGAAAGCGCAGC-AAAAAACATAAGCCCAACGACGCCGTTTTGTGGG
11385631 CTTTTGGG
65 CTTTTGGG
* * * *
11385639 GATTTAGTGACGTTTTTAAGAAAGCGCTGCAAAAAACATAAGCCCAACGACGCTGTTTTGTGGGC
1 GATTTAGCGGCGTTTTTAAGAAAGCGCAGCAAAAAACATAAGCCCAACGACGCCGTTTTGTGGGC
*
11385704 TTTCGGG
66 TTTTGGG
* * * *
11385711 GATTTAGCGGCGTTTTTAAGAAAGCGCAGTAAAAAACATAAGCCAAATGACGCCGTTTTGTGAG-
1 GATTTAGCGGCGTTTTTAAGAAAGCGCAGCAAAAAACATAAGCCCAACGACGCCGTTTTGTGGGC
11385775 TTTTCGGG
66 TTTT-GGG
11385783 GATTTAGCGGC
1 GATTTAGCGGC
11385794 CAAAAAAATA
Statistics
Matches: 139, Mismatches: 15, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
71 3 0.02
72 110 0.79
73 26 0.19
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.27
Consensus pattern (72 bp):
GATTTAGCGGCGTTTTTAAGAAAGCGCAGCAAAAAACATAAGCCCAACGACGCCGTTTTGTGGGC
TTTTGGG
Found at i:11385965 original size:14 final size:14
Alignment explanation
Indices: 11385946--11385993 Score: 87
Period size: 14 Copynumber: 3.4 Consensus size: 14
11385936 TAAGGCCGGT
*
11385946 TTAGGGAGTATGGA
1 TTAGGGATTATGGA
11385960 TTAGGGATTATGGA
1 TTAGGGATTATGGA
11385974 TTAGGGATTATGGA
1 TTAGGGATTATGGA
11385988 TTAGGG
1 TTAGGG
11385994 GTTGGAATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
14 33 1.00
ACGTcount: A:0.27, C:0.00, G:0.40, T:0.33
Consensus pattern (14 bp):
TTAGGGATTATGGA
Found at i:11385969 original size:7 final size:7
Alignment explanation
Indices: 11385946--11385993 Score: 60
Period size: 7 Copynumber: 6.9 Consensus size: 7
11385936 TAAGGCCGGT
11385946 TTAGGGA
1 TTAGGGA
* *
11385953 GTATGGA
1 TTAGGGA
11385960 TTAGGGA
1 TTAGGGA
*
11385967 TTATGGA
1 TTAGGGA
11385974 TTAGGGA
1 TTAGGGA
*
11385981 TTATGGA
1 TTAGGGA
11385988 TTAGGG
1 TTAGGG
11385994 GTTGGAATTT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.27, C:0.00, G:0.40, T:0.33
Consensus pattern (7 bp):
TTAGGGA
Found at i:11386612 original size:101 final size:100
Alignment explanation
Indices: 11386393--11386758 Score: 398
Period size: 101 Copynumber: 3.5 Consensus size: 100
11386383 TATAAAAAAC
* * *
11386393 AAAATAAAAAAATTTTAGCAGAGCAAAACGGCGTCATTTTGTTCAAAATGAAATAATATTTTGTG
1 AAAATAAAAAAA-ATTAGCATAGCAAAACGGCGTCATTTTGTTCAAAATG--A-AATA----GCG
**
11386458 GCGTTTTTATGGAAAACGCCGCAAAAAATAAATCAATTT-TAA
58 GCGTTTTTATAAAAAACGCCGCAAAAAATAAATCAATTTATAA
* * *
11386500 AGAAATAAAAAAAATCTGGCATAGAAAAACGGTGTCATTTTGTTCAAAATGAAATAGCGGCGTTT
1 A-AAATAAAAAAAAT-TAGCATAGCAAAACGGCGTCATTTTGTTCAAAATGAAATAGCGGCGTTT
11386565 TTGAT-AAAAACGCCGCAAAAAATAAATCAATTTAGTAA
64 TT-ATAAAAAACGCCGCAAAAAATAAATCAATTTA-TAA
* *
11386603 AAAATAAAAAAAATTTGCATAGCAAAACGGCGTCATTTTGTTCAAAATGAAATCGCGGCGTTTTT
1 AAAATAAAAAAAATTAGCATAGCAAAACGGCGTCATTTTGTTCAAAATGAAATAGCGGCGTTTTT
*
11386668 ATAAAAAAACGCCGC-AAAAATAAATCAAATTATAAA
66 AT-AAAAAACGCCGCAAAAAATAAATCAATTTAT-AA
* * *
11386704 AAACAAAATAAAAAATTTTTAGAATAGCAAAACGGCGT-AGTTTTGTTCGAAATGA
1 AAA-ATAA-AAAAAA---TTAGCATAGCAAAACGGCGTCA-TTTTGTTCAAAATGA
11386759 GATTTTTTTG
Statistics
Matches: 229, Mismatches: 16, Indels: 29
0.84 0.06 0.11
Matches are distributed among these distances:
100 3 0.01
101 105 0.46
102 29 0.13
103 10 0.04
105 5 0.02
106 33 0.14
107 2 0.01
108 42 0.18
ACGTcount: A:0.46, C:0.12, G:0.15, T:0.27
Consensus pattern (100 bp):
AAAATAAAAAAAATTAGCATAGCAAAACGGCGTCATTTTGTTCAAAATGAAATAGCGGCGTTTTT
ATAAAAAACGCCGCAAAAAATAAATCAATTTATAA
Found at i:11386855 original size:149 final size:145
Alignment explanation
Indices: 11386719--11387208 Score: 684
Period size: 149 Copynumber: 3.4 Consensus size: 145
11386709 AAATAAAAAA
* * * *
11386719 TTTT-TAGAATAGCAAAACGGCGTAGTTTTGTTCGAAATGAGATTTTTTTGCGGCGTTTTTATGA
1 TTTTATAGCATAGCAAAACGGCGTAGTTTTATTCAAAATGAAATTTTTTTGCGGCGTTTTTATGA
*
11386783 GAAACGCCGCTAAAGGTAAGCAATAGCGGCGTTTTTGTAAAAAACGCAACAAAATAATTTTACTT
66 -AAACGCCGCTAAAGGTAAGCAATAGCGGCGTTTTTGTAAAAAACGCCACAAAATAATTTTACTT
11386848 TTAAAAAATAGCCCCC
130 TTAAAAAATAGCCCCC
*
11386864 TTTTAGCATAGCATAGCAAAACGGCGTAGTTTTATTCAAAAT-AAAATTTTTT-----G-----A
1 TTTT---ATAGCATAGCAAAACGGCGTAGTTTTATTCAAAATGAAATTTTTTTGCGGCGTTTTTA
11386918 --AAAACGCCGCTAAAGGTAAGCAATAGCGGCGTTTTTGTAAAAAACGCCACAAAATAATTTTAC
63 TGAAAACGCCGCTAAAGGTAAGCAATAGCGGCGTTTTTGTAAAAAACGCCACAAAATAATTTTAC
11386981 TTTTAAAAAATAGCCCCC
128 TTTTAAAAAATAGCCCCC
11386999 TTTTAGCATAGCATAGCAAAACGGCGTAGTTTTATTCAAAATGAAATTTTTTTGCGGCGTTTTTA
1 TTTT---ATAGCATAGCAAAACGGCGTAGTTTTATTCAAAATGAAATTTTTTTGCGGCGTTTTTA
* * *
11387064 TGAAAAACGCCGCTAAAGGTAAGCAATAGTGACGTTTTTGTAAAAAACGCCACAAAATAATTTTG
63 TG-AAAACGCCGCTAAAGGTAAGCAATAGCGGCGTTTTTGTAAAAAACGCCACAAAATAATTTTA
11387129 CTTTTAAAAAATAGCCCCC
127 CTTTTAAAAAATAGCCCCC
* *
11387148 TTTTAGCATAGCATAGCAAAACAGCGTAGTTTTATTCAAAATAAAATTTTTTTGCGGCGTT
1 TTTT---ATAGCATAGCAAAACGGCGTAGTTTTATTCAAAATGAAATTTTTTTGCGGCGTT
11387209 AAAGGTAAGC
Statistics
Matches: 315, Mismatches: 12, Indels: 32
0.88 0.03 0.09
Matches are distributed among these distances:
135 121 0.38
136 10 0.03
138 1 0.00
141 1 0.00
143 1 0.00
145 4 0.01
146 1 0.00
148 8 0.03
149 168 0.53
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.32
Consensus pattern (145 bp):
TTTTATAGCATAGCAAAACGGCGTAGTTTTATTCAAAATGAAATTTTTTTGCGGCGTTTTTATGA
AAACGCCGCTAAAGGTAAGCAATAGCGGCGTTTTTGTAAAAAACGCCACAAAATAATTTTACTTT
TAAAAAATAGCCCCC
Found at i:11386931 original size:135 final size:135
Alignment explanation
Indices: 11386774--11387704 Score: 1237
Period size: 135 Copynumber: 6.6 Consensus size: 135
11386764 TTTTGCGGCG
* *
11386774 TTTTTATGAGAAACGCCGCTAAAGGTAAGCAATAGCGGCGTTTTTGTAAAAAACGCAACAAAATA
1 TTTTT-TGAAAAACGCCGCTAAAGGTAAGCAATAGCGGCGTTTTTGTAAAAAACGCCACAAAATA
11386839 ATTTTACTTTTAAAAAATAGCCCCCTTTTAGCATAGCATAGCAAAACGGCGTAGTTTTATTCAAA
65 ATTTTACTTTTAAAAAATAGCCCCCTTTTAGCATAGCATAGCAAAACGGCGTAGTTTTATTCAAA
11386904 ATAAAA
130 ATAAAA
11386910 TTTTTTGAAAAACGCCGCTAAAGGTAAGCAATAGCGGCGTTTTTGTAAAAAACGCCACAAAATAA
1 TTTTTTGAAAAACGCCGCTAAAGGTAAGCAATAGCGGCGTTTTTGTAAAAAACGCCACAAAATAA
11386975 TTTTACTTTTAAAAAATAGCCCCCTTTTAGCATAGCATAGCAAAACGGCGTAGTTTTATTCAAAA
66 TTTTACTTTTAAAAAATAGCCCCCTTTTAGCATAGCATAGCAAAACGGCGTAGTTTTATTCAAAA
*
11387040 TGAAATTTTTTTGCGGCG
131 T-AAA------------A
* *
11387058 TTTTTATGAAAAACGCCGCTAAAGGTAAGCAATAGTGACGTTTTTGTAAAAAACGCCACAAAATA
1 TTTTT-TGAAAAACGCCGCTAAAGGTAAGCAATAGCGGCGTTTTTGTAAAAAACGCCACAAAATA
* *
11387123 ATTTTGCTTTTAAAAAATAGCCCCCTTTTAGCATAGCATAGCAAAACAGCGTAGTTTTATTCAAA
65 ATTTTACTTTTAAAAAATAGCCCCCTTTTAGCATAGCATAGCAAAACGGCGTAGTTTTATTCAAA
11387188 ATAAAA
130 ATAAAA
* * * *
11387194 TTTTTTTG-----CGGCGTTAAAGGTAAGCCATAGCGACGTTTTTGTAAAAAACGCCACAAAATA
1 -TTTTTTGAAAAACGCCGCTAAAGGTAAGCAATAGCGGCGTTTTTGTAAAAAACGCCACAAAATA
11387254 ATTTTACTTTTAAAAAATAGCCCCCTTTTAGCATAGCATAGCAAAACGGCGTAGTTTTATTCAAA
65 ATTTTACTTTTAAAAAATAGCCCCCTTTTAGCATAGCATAGCAAAACGGCGTAGTTTTATTCAAA
*
11387319 ATGAAA
130 ATAAAA
11387325 TTTTTTGAAAAACGCCGCTAAAGGTAAGCAATAGCGGCGTTTTTGTAAAAAACGCCACAAAATAA
1 TTTTTTGAAAAACGCCGCTAAAGGTAAGCAATAGCGGCGTTTTTGTAAAAAACGCCACAAAATAA
11387390 TTTTACTTTTAAAAAATAGCCCCCTTTTAGCATAGCATAGCAAAACGGCGTAGTTTTATTCAAAA
66 TTTTACTTTTAAAAAATAGCCCCCTTTTAGCATAGCATAGCAAAACGGCGTAGTTTTATTCAAAA
11387455 TAAAA
131 TAAAA
11387460 TTTTTTTGCGGCGTTTGCGTAAAAACGCCGCTAAAGGTAAGCAATAGCGGCGTTTTTGTAAAAAA
1 ----TTT------TTT--G-AAAAACGCCGCTAAAGGTAAGCAATAGCGGCGTTTTTGTAAAAAA
**
11387525 CGCCACAAAATAATTTTACTTTTAAAAAATAGCCCCCTTTTAGCATAGCATAGCAAAACGGTATA
53 CGCCACAAAATAATTTTACTTTTAAAAAATAGCCCCCTTTTAGCATAGCATAGCAAAACGGCGTA
*
11387590 GTTTTGTTCAAAATAAAAA
118 GTTTTATTCAAAAT-AAAA
* *
11387609 CTTTTGCGGCGTTTTTATAAAAAACGCCGCTAAAGGTAAGCAATAGCGACG-TTTT-TAAAGAAC
1 -----------TTTTT-TGAAAAACGCCGCTAAAGGTAAGCAATAGCGGCGTTTTTGTAAA-AA-
* *
11387672 ACGCCACAAAAATAATTTCACTTTAAAAAAATA
52 ACGCCAC-AAAATAATTTTACTTTTAAAAAATA
11387705 CCGCCATTTT
Statistics
Matches: 719, Mismatches: 31, Indels: 77
0.87 0.04 0.09
Matches are distributed among these distances:
130 7 0.01
131 116 0.16
135 242 0.34
136 10 0.01
137 5 0.01
139 3 0.00
145 3 0.00
146 4 0.01
147 7 0.01
148 167 0.23
149 149 0.21
150 2 0.00
151 1 0.00
156 3 0.00
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.30
Consensus pattern (135 bp):
TTTTTTGAAAAACGCCGCTAAAGGTAAGCAATAGCGGCGTTTTTGTAAAAAACGCCACAAAATAA
TTTTACTTTTAAAAAATAGCCCCCTTTTAGCATAGCATAGCAAAACGGCGTAGTTTTATTCAAAA
TAAAA
Found at i:11387600 original size:148 final size:148
Alignment explanation
Indices: 11387332--11387704 Score: 590
Period size: 148 Copynumber: 2.5 Consensus size: 148
11387322 AAATTTTTTG
11387332 AAAAACGCCGCTAAAGGTAAGCAATAGCGGCGTTTTTGTAAAAAACGCCACAAAATAATTTTACT
1 AAAAACGCCGCTAAAGGTAAGCAATAGCGGCGTTTTTGTAAAAAACGCCACAAAATAATTTTACT
* *
11387397 TTTAAAAAATAGCCCCCTTTTAGCATAGCATAGCAAAACGGCGTAGTTTTATTCAAAATAAAATT
66 TTTAAAAAATAGCCCCCTTTTAGCATAGCATAGCAAAACGGCATAGTTTTATTCAAAATAAAA-A
* *
11387462 TTTTTGCGGCGTTTGCGT-
130 CTTTTGCGGCGTTTGCATA
11387480 AAAAACGCCGCTAAAGGTAAGCAATAGCGGCGTTTTTGTAAAAAACGCCACAAAATAATTTTACT
1 AAAAACGCCGCTAAAGGTAAGCAATAGCGGCGTTTTTGTAAAAAACGCCACAAAATAATTTTACT
* *
11387545 TTTAAAAAATAGCCCCCTTTTAGCATAGCATAGCAAAACGGTATAGTTTTGTTCAAAATAAAAAC
66 TTTAAAAAATAGCCCCCTTTTAGCATAGCATAGCAAAACGGCATAGTTTTATTCAAAATAAAAAC
**
11387610 TTTTGCGGCGTTTTTATA
131 TTTTGCGGCGTTTGCATA
* *
11387628 AAAAACGCCGCTAAAGGTAAGCAATAGCGACG-TTTT-TAAAGAACACGCCACAAAAATAATTTC
1 AAAAACGCCGCTAAAGGTAAGCAATAGCGGCGTTTTTGTAAA-AA-ACGCCAC-AAAATAATTTT
*
11387691 ACTTTAAAAAAATA
63 ACTTTTAAAAAATA
11387705 CCGCCATTTT
Statistics
Matches: 210, Mismatches: 11, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
146 4 0.02
147 20 0.10
148 163 0.78
149 23 0.11
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.28
Consensus pattern (148 bp):
AAAAACGCCGCTAAAGGTAAGCAATAGCGGCGTTTTTGTAAAAAACGCCACAAAATAATTTTACT
TTTAAAAAATAGCCCCCTTTTAGCATAGCATAGCAAAACGGCATAGTTTTATTCAAAATAAAAAC
TTTTGCGGCGTTTGCATA
Found at i:11389038 original size:15 final size:15
Alignment explanation
Indices: 11389018--11389047 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11389008 CTTATAGGTT
*
11389018 TAAATTATTATATAG
1 TAAATTAGTATATAG
11389033 TAAATTAGTATATAG
1 TAAATTAGTATATAG
11389048 AATCATCGCT
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:0.47, C:0.00, G:0.10, T:0.43
Consensus pattern (15 bp):
TAAATTAGTATATAG
Found at i:11391293 original size:12 final size:12
Alignment explanation
Indices: 11391273--11391305 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
11391263 TTGTTTCAGG
11391273 TTGTATTATTAA
1 TTGTATTATTAA
*
11391285 TTGTGTTATTAA
1 TTGTATTATTAA
11391297 TT-TATTATT
1 TTGTATTATT
11391306 TTAAATTCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 6 0.32
12 13 0.68
ACGTcount: A:0.27, C:0.00, G:0.09, T:0.64
Consensus pattern (12 bp):
TTGTATTATTAA
Found at i:11391620 original size:43 final size:43
Alignment explanation
Indices: 11391555--11391661 Score: 142
Period size: 43 Copynumber: 2.5 Consensus size: 43
11391545 GTTTTTTAAG
* * * *
11391555 TCATGATCTTTAGTGGCATTTGTGACAAAAGTGTCGCTAAAGC
1 TCATGGTCTTTAGCGGCGTTTGTGACAAAAGCGTCGCTAAAGC
* * * *
11391598 TCATGGTTTTTAGCGGCGTTTGTGACAGACGCGTCGCTAAAGG
1 TCATGGTCTTTAGCGGCGTTTGTGACAAAAGCGTCGCTAAAGC
11391641 TCATGGTCTTTAGCGGCGTTT
1 TCATGGTCTTTAGCGGCGTTT
11391662 TTCGCATAAA
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 55 1.00
ACGTcount: A:0.21, C:0.18, G:0.28, T:0.34
Consensus pattern (43 bp):
TCATGGTCTTTAGCGGCGTTTGTGACAAAAGCGTCGCTAAAGC
Done.