Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000190.1 Hibiscus syriacus cultivar Beakdansim tig00000340_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: 14308945
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 44 of 62
Found at i:10242389 original size:21 final size:21
Alignment explanation
Indices: 10242299--10242411 Score: 72
Period size: 21 Copynumber: 5.2 Consensus size: 21
10242289 AATTTGCACT
*
10242299 GAAGTGCCACATATTTATCCC
1 GAAGTGCCACATATTTGTCCC
* *
10242320 AAAG-GATCACATAGGTTTG-CACC
1 GAAGTG-CCACATA--TTTGTC-CC
*
10242343 GAAGTGCCACATAAGTTTG-CATC
1 GAAGTGCCACAT-A-TTTGTC-CC
10242366 GAAGTGCCACATATTTGTCCC
1 GAAGTGCCACATATTTGTCCC
* *
10242387 GAAG-GACCACATAATTGTCTC
1 GAAGTG-CCACATATTTGTCCC
10242408 GAAG
1 GAAG
10242412 GACAACATAA
Statistics
Matches: 75, Mismatches: 9, Indels: 16
0.75 0.09 0.16
Matches are distributed among these distances:
20 2 0.03
21 35 0.47
22 3 0.04
23 33 0.44
24 2 0.03
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (21 bp):
GAAGTGCCACATATTTGTCCC
Found at i:10242412 original size:21 final size:21
Alignment explanation
Indices: 10242364--10242421 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
10242354 TAAGTTTGCA
*
10242364 TCGAAGTG-CCACATATTTGTC
1 TCGAAG-GACCACATAATTGTC
*
10242385 CCGAAGGACCACATAATTGTC
1 TCGAAGGACCACATAATTGTC
*
10242406 TCGAAGGACAACATAA
1 TCGAAGGACCACATAA
10242422 AACCCTCGAC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 1 0.03
21 31 0.97
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.22
Consensus pattern (21 bp):
TCGAAGGACCACATAATTGTC
Found at i:10245514 original size:22 final size:22
Alignment explanation
Indices: 10245482--10245542 Score: 95
Period size: 22 Copynumber: 2.8 Consensus size: 22
10245472 ATTTGAGATT
10245482 TGTCCCGAAGGACCTATGAATA
1 TGTCCCGAAGGACCTATGAATA
* *
10245504 TGTTCCGAAGGACCTATGAGTA
1 TGTCCCGAAGGACCTATGAATA
*
10245526 TGTCCCGAAAGACCTAT
1 TGTCCCGAAGGACCTAT
10245543 AAAACCCTCG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.25
Consensus pattern (22 bp):
TGTCCCGAAGGACCTATGAATA
Found at i:10256429 original size:21 final size:22
Alignment explanation
Indices: 10256405--10256499 Score: 74
Period size: 23 Copynumber: 4.3 Consensus size: 22
10256395 CACCGAAATG
10256405 CCACATA-TTTATC-CCGAAGGA
1 CCACATAGTTT-TCACCGAAGGA
*
10256426 CCACATAGGTTTGCACCGAAGTG-
1 CCACATA-GTTTTCACCGAAG-GA
* * *
10256449 CCATATAAGTTTTCACCAAAGTA
1 CCACAT-AGTTTTCACCGAAGGA
10256472 CCACATA-TTTATC-CCGAAGGA
1 CCACATAGTTT-TCACCGAAGGA
10256493 CCACATA
1 CCACATA
10256500 AAGCCTCTAC
Statistics
Matches: 59, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
21 23 0.39
22 4 0.07
23 30 0.51
24 2 0.03
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (22 bp):
CCACATAGTTTTCACCGAAGGA
Found at i:10258357 original size:14 final size:14
Alignment explanation
Indices: 10258322--10258357 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
10258312 AATTATAAAA
*
10258322 TATATTTACAATAT
1 TATATTTTCAATAT
10258336 TATATTTTCAATAT
1 TATATTTTCAATAT
10258350 TATATTTT
1 TATATTTT
10258358 AAAGAAGGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (14 bp):
TATATTTTCAATAT
Found at i:10259766 original size:117 final size:117
Alignment explanation
Indices: 10259586--10259887 Score: 491
Period size: 117 Copynumber: 2.6 Consensus size: 117
10259576 TTTTATATAT
* **
10259586 TTCCCC-GAAACATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCACGA-AGCTGAGGA
1 TTCCCCAGAACCATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCAC-ACAGCAAAGGA
* *
10259649 GCCTGCAGTAATAACGTCTCCATCCAGTCACTTCCATAACTACAATGTGTAGG
65 GCCTGCAGTAATAACGTCCCCATCCAGTCACTTCAATAACTACAATGTGTAGG
*
10259702 TTCCCCAGTACCATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCACACAGCAAAGGAG
1 TTCCCCAGAACCATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCACACAGCAAAGGAG
* * *
10259767 CCTGCAGTAATAACTTCCCCATCCAGTCACTTCAATCACTATAATGTGTAGG
66 CCTGCAGTAATAACGTCCCCATCCAGTCACTTCAATAACTACAATGTGTAGG
*
10259819 TTCCCCAGAACCATACACCCACCTGCACACCAGTAAGGACTTACCCTGAGCACACAGCAAAGGAG
1 TTCCCCAGAACCATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCACACAGCAAAGGAG
10259884 CCTG
66 CCTG
10259888 AAATACTTCC
Statistics
Matches: 173, Mismatches: 11, Indels: 3
0.93 0.06 0.02
Matches are distributed among these distances:
116 7 0.04
117 166 0.96
ACGTcount: A:0.31, C:0.34, G:0.16, T:0.19
Consensus pattern (117 bp):
TTCCCCAGAACCATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCACACAGCAAAGGAG
CCTGCAGTAATAACGTCCCCATCCAGTCACTTCAATAACTACAATGTGTAGG
Found at i:10260944 original size:29 final size:29
Alignment explanation
Indices: 10260839--10260943 Score: 142
Period size: 29 Copynumber: 3.6 Consensus size: 29
10260829 TTTTTAAAAT
* *
10260839 AATTACCAAAATAGCACCTTTTCGAATTA
1 AATTCCCAAAATATCACCTTTTCGAATTA
10260868 AATTCCCAAAATAGT-ACCTTTTCGAATTA
1 AATTCCCAAAATA-TCACCTTTTCGAATTA
* *
10260897 AATTCCCAGAATATCACCCATTTCGAATT-
1 AATTCCCAAAATATCA-CCTTTTCGAATTA
10260926 AATTCCCAAAATATCACC
1 AATTCCCAAAATATCACC
10260944 CGGTCAACGG
Statistics
Matches: 68, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
28 3 0.04
29 54 0.79
30 11 0.16
ACGTcount: A:0.39, C:0.25, G:0.06, T:0.30
Consensus pattern (29 bp):
AATTCCCAAAATATCACCTTTTCGAATTA
Found at i:10260974 original size:13 final size:13
Alignment explanation
Indices: 10260956--10260980 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10260946 GTCAACGGTC
10260956 GGGTCGGGTCAAT
1 GGGTCGGGTCAAT
10260969 GGGTCGGGTCAA
1 GGGTCGGGTCAA
10260981 AACCGGTCAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.16, G:0.48, T:0.20
Consensus pattern (13 bp):
GGGTCGGGTCAAT
Found at i:10267231 original size:117 final size:117
Alignment explanation
Indices: 10267051--10267352 Score: 457
Period size: 117 Copynumber: 2.6 Consensus size: 117
10267041 TTTTATATAT
* ** **
10267051 TTCCCCGAAA-CATACACCCACCTGCACAATAGTAAGGACTTACCCTAAGCACGA-AGCTGAGGA
1 TTCCCCAAAACCATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCAC-ACAGCAAAGGA
* *
10267114 GCCTGCAGTAATAACCTCTCCATCCAGTCGCTTCC-ATAACTACAATGTGTAGG
65 GCCTGCAGTAATAACCTCCCCATCCAGTCAC-TCCAATAACTACAATGTGTAGG
**
10267167 TTCCCCAGTACCATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCACACAGCAAAGGAG
1 TTCCCCAAAACCATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCACACAGCAAAGGAG
* *
10267232 CCTGCAGTAATAACTTCCCCATCCAGTCACTCCAATCACTACAATGTGTAGG
66 CCTGCAGTAATAACCTCCCCATCCAGTCACTCCAATAACTACAATGTGTAGG
*
10267284 TTCCCCAAAACCATACACCCACCTGCACACCAGTAAGGACTTACCCTGAGCACACAGCAAAGGAG
1 TTCCCCAAAACCATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCACACAGCAAAGGAG
10267349 CCTG
66 CCTG
10267353 AAATACTTCC
Statistics
Matches: 169, Mismatches: 14, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
116 11 0.07
117 158 0.93
ACGTcount: A:0.32, C:0.34, G:0.16, T:0.18
Consensus pattern (117 bp):
TTCCCCAAAACCATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCACACAGCAAAGGAG
CCTGCAGTAATAACCTCCCCATCCAGTCACTCCAATAACTACAATGTGTAGG
Found at i:10268370 original size:58 final size:57
Alignment explanation
Indices: 10268279--10268404 Score: 173
Period size: 58 Copynumber: 2.2 Consensus size: 57
10268269 CATTTTACAG
*
10268279 AAATAGCACCCTTTTAAAATAATTCCCAAAATAGCA-CCTTTTCGAATTAAATTCCCA
1 AAATAGCACCCTTTTAAAATAATTCCCAAAATAGCACCCATTTCGAATT-AATTCCCA
* * * *
10268336 AAATAGCACCTTTTTGAATTAAATTCCCATAATAGCACCCATTTCGAATTAATTCCCA
1 AAATAGCACCCTTTTAAAAT-AATTCCCAAAATAGCACCCATTTCGAATTAATTCCCA
*
10268394 AAATATCACCC
1 AAATAGCACCC
10268405 GGTCAACGGT
Statistics
Matches: 60, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
57 17 0.28
58 32 0.53
59 11 0.18
ACGTcount: A:0.39, C:0.25, G:0.06, T:0.30
Consensus pattern (57 bp):
AAATAGCACCCTTTTAAAATAATTCCCAAAATAGCACCCATTTCGAATTAATTCCCA
Found at i:10268404 original size:29 final size:29
Alignment explanation
Indices: 10268299--10268403 Score: 158
Period size: 29 Copynumber: 3.6 Consensus size: 29
10268289 CTTTTAAAAT
10268299 AATTCCCAAAATAGCACCTTTTCGAATTA
1 AATTCCCAAAATAGCACCTTTTCGAATTA
*
10268328 AATTCCCAAAATAGCACCTTTTTGAATTA
1 AATTCCCAAAATAGCACCTTTTCGAATTA
* *
10268357 AATTCCCATAATAGCACCCATTTCGAATT-
1 AATTCCCAAAATAGCA-CCTTTTCGAATTA
*
10268386 AATTCCCAAAATATCACC
1 AATTCCCAAAATAGCACC
10268404 CGGTCAACGG
Statistics
Matches: 69, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
28 2 0.03
29 57 0.83
30 10 0.14
ACGTcount: A:0.38, C:0.26, G:0.06, T:0.30
Consensus pattern (29 bp):
AATTCCCAAAATAGCACCTTTTCGAATTA
Found at i:10269956 original size:23 final size:27
Alignment explanation
Indices: 10269906--10269956 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 27
10269896 GCATTAAGGC
10269906 TTAACATAACTATAAAATTAAAATTTA
1 TTAACATAACTATAAAATTAAAATTTA
10269933 TTAA-ATAA-TAT-AAATT-AAATTTA
1 TTAACATAACTATAAAATTAAAATTTA
10269956 T
1 T
10269957 GATGAGTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
23 8 0.33
24 5 0.21
25 3 0.12
26 4 0.17
27 4 0.17
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (27 bp):
TTAACATAACTATAAAATTAAAATTTA
Found at i:10273872 original size:19 final size:19
Alignment explanation
Indices: 10273845--10273887 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
10273835 AAAACCAGAA
* *
10273845 CCCCAAGGGGGTATCGATT
1 CCCCTAGGGGGAATCGATT
*
10273864 CCCCTAGGGGGAATCGGTT
1 CCCCTAGGGGGAATCGATT
10273883 CCCCT
1 CCCCT
10273888 TCAAAGGGGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.16, C:0.33, G:0.30, T:0.21
Consensus pattern (19 bp):
CCCCTAGGGGGAATCGATT
Found at i:10273899 original size:23 final size:22
Alignment explanation
Indices: 10273848--10273919 Score: 87
Period size: 23 Copynumber: 3.4 Consensus size: 22
10273838 ACCAGAACCC
* *
10273848 CAAGGGGGTATCGATTCCCC-T
1 CAAGGGGGAATCGGTTCCCCTT
10273869 --AGGGGGAATCGGTTCCCCTT
1 CAAGGGGGAATCGGTTCCCCTT
*
10273889 CAAAGGGGGAATCGGTTGCCCTT
1 C-AAGGGGGAATCGGTTCCCCTT
10273912 CAAGGGGG
1 CAAGGGGG
10273920 TATCAATTCC
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
19 16 0.36
20 1 0.02
22 7 0.16
23 20 0.45
ACGTcount: A:0.19, C:0.24, G:0.36, T:0.21
Consensus pattern (22 bp):
CAAGGGGGAATCGGTTCCCCTT
Found at i:10280074 original size:19 final size:19
Alignment explanation
Indices: 10280036--10280074 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
10280026 ATATATAAAA
* *
10280036 TTTAAATTGAATCAATTTT
1 TTTAAATTGAAACAAGTTT
*
10280055 TTTAAATTGAAACGAGTTT
1 TTTAAATTGAAACAAGTTT
10280074 T
1 T
10280075 GCTCACCATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.36, C:0.05, G:0.10, T:0.49
Consensus pattern (19 bp):
TTTAAATTGAAACAAGTTT
Found at i:10280124 original size:26 final size:26
Alignment explanation
Indices: 10280095--10280147 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
10280085 TTTGATATGA
*
10280095 TAGAAAGTTTTCATTTTCTAAGATTT
1 TAGAAAGTTTTAATTTTCTAAGATTT
*
10280121 TAGAAAGTTTTAATTTTCTAATATTT
1 TAGAAAGTTTTAATTTTCTAAGATTT
10280147 T
1 T
10280148 TTTATTAAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.32, C:0.06, G:0.09, T:0.53
Consensus pattern (26 bp):
TAGAAAGTTTTAATTTTCTAAGATTT
Found at i:10280704 original size:60 final size:60
Alignment explanation
Indices: 10280559--10280704 Score: 197
Period size: 60 Copynumber: 2.4 Consensus size: 60
10280549 TAATTATTAT
** * *
10280559 AAGTTACAAAATAATCCCCTGACTATAAAGTGATATTTTATTGAGTCCATCGACTATTAA
1 AAGTTACAAAATGGTCCCCTGACTATAAAGCGATATTTTATTGAGTCCATCGACTATCAA
* * *
10280619 AAGTTACATAATGGTCCCCTAACTATAGAA-CGATATTTTGTTGAGTCCATCGACTATCAA
1 AAGTTACAAAATGGTCCCCTGACTATA-AAGCGATATTTTATTGAGTCCATCGACTATCAA
10280679 AAGTTACAAAATGGTCACCC-GACTAT
1 AAGTTACAAAATGGTC-CCCTGACTAT
10280705 TCATATGTTT
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
60 70 0.93
61 5 0.07
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.31
Consensus pattern (60 bp):
AAGTTACAAAATGGTCCCCTGACTATAAAGCGATATTTTATTGAGTCCATCGACTATCAA
Found at i:10281292 original size:16 final size:16
Alignment explanation
Indices: 10281271--10281301 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10281261 GTCGAGTGTA
*
10281271 GATGAGCACCATTAAT
1 GATGAGCACAATTAAT
10281287 GATGAGCACAATTAA
1 GATGAGCACAATTAA
10281302 ATTAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.16, G:0.19, T:0.23
Consensus pattern (16 bp):
GATGAGCACAATTAAT
Found at i:10281326 original size:15 final size:15
Alignment explanation
Indices: 10281302--10281344 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
10281292 GCACAATTAA
*
10281302 ATTAATTTATAAAAT
1 ATTAAATTATAAAAT
*
10281317 ATTAAATTATAAATT
1 ATTAAATTATAAAAT
*
10281332 ACTAAATATATAA
1 ATTAAAT-TATAA
10281345 TTATAAATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
15 19 0.79
16 5 0.21
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (15 bp):
ATTAAATTATAAAAT
Found at i:10281329 original size:7 final size:7
Alignment explanation
Indices: 10281308--10281354 Score: 51
Period size: 7 Copynumber: 6.4 Consensus size: 7
10281298 TTAAATTAAT
10281308 TTATAAA
1 TTATAAA
*
10281315 ATATTAAA
1 TTA-TAAA
10281323 TTATAAA
1 TTATAAA
10281330 TTACTAAA
1 TTA-TAAA
10281338 -TATATAA
1 TTATA-AA
10281345 TTATAAA
1 TTATAAA
10281352 TTA
1 TTA
10281355 GTTAAAATCT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
6 2 0.06
7 18 0.53
8 14 0.41
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (7 bp):
TTATAAA
Found at i:10281346 original size:15 final size:14
Alignment explanation
Indices: 10281308--10281354 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 14
10281298 TTAAATTAAT
*
10281308 TTATAAAATATTAAA
1 TTATAAATTA-TAAA
10281323 TTATAAATTACTAAA
1 TTATAAATTA-TAAA
10281338 -TATATAATTATAAA
1 TTATA-AATTATAAA
10281352 TTA
1 TTA
10281355 GTTAAAATCT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 8 0.29
15 20 0.71
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (14 bp):
TTATAAATTATAAA
Found at i:10281346 original size:22 final size:22
Alignment explanation
Indices: 10281313--10281354 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
10281303 TTAATTTATA
10281313 AAATATTAAATTATAAATTACT
1 AAATATTAAATTATAAATTACT
10281335 AAATA-TATAATTATAAATTA
1 AAATATTA-AATTATAAATTA
10281355 GTTAAAATCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 2 0.11
22 17 0.89
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
AAATATTAAATTATAAATTACT
Found at i:10283153 original size:6 final size:6
Alignment explanation
Indices: 10283137--10283174 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
10283127 AAATCTAATA
* *
10283137 TAAAA- TAAAAT TAAAAT TAAAAT TAAAAA AAAAAT TAA
1 TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAA
10283175 TCGGGTACCC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
5 5 0.18
6 23 0.82
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (6 bp):
TAAAAT
Found at i:10284401 original size:23 final size:23
Alignment explanation
Indices: 10284371--10284429 Score: 118
Period size: 23 Copynumber: 2.6 Consensus size: 23
10284361 GCATAGGTAG
10284371 TGCATCGATACACACGTAAGAGA
1 TGCATCGATACACACGTAAGAGA
10284394 TGCATCGATACACACGTAAGAGA
1 TGCATCGATACACACGTAAGAGA
10284417 TGCATCGATACAC
1 TGCATCGATACAC
10284430 TATAGAGTGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.19
Consensus pattern (23 bp):
TGCATCGATACACACGTAAGAGA
Found at i:10287379 original size:29 final size:29
Alignment explanation
Indices: 10287347--10287408 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
10287337 ATCAACAAAT
* * * *
10287347 TATTAAAAGTTATAAAATTATCATCCGAC
1 TATTAAAAGTTACAAAATGATCACCCAAC
*
10287376 TATTAGAAGTTACAAAATGATCACCCAAC
1 TATTAAAAGTTACAAAATGATCACCCAAC
10287405 TATT
1 TATT
10287409 CATATGTTTC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (29 bp):
TATTAAAAGTTACAAAATGATCACCCAAC
Found at i:10287625 original size:29 final size:29
Alignment explanation
Indices: 10287593--10287664 Score: 108
Period size: 29 Copynumber: 2.5 Consensus size: 29
10287583 GCCCCGCTCC
* * *
10287593 TTTAATATTTACACTTAGAACCCTATTCT
1 TTTAATCTTTACAATTAGAACCCCATTCT
*
10287622 TTTAATCTTTACAATTAGGACCCCATTCT
1 TTTAATCTTTACAATTAGAACCCCATTCT
10287651 TTTAATCTTTACAA
1 TTTAATCTTTACAA
10287665 CTATGGTCCC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.31, C:0.21, G:0.04, T:0.44
Consensus pattern (29 bp):
TTTAATCTTTACAATTAGAACCCCATTCT
Found at i:10288733 original size:20 final size:20
Alignment explanation
Indices: 10288708--10288745 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
10288698 TAAATGACTG
10288708 GGGGTATCGGTACCATCCAT
1 GGGGTATCGGTACCATCCAT
10288728 GGGGTATCGGTACCATCC
1 GGGGTATCGGTACCATCC
10288746 GAGCATTATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.18, C:0.26, G:0.32, T:0.24
Consensus pattern (20 bp):
GGGGTATCGGTACCATCCAT
Found at i:10290941 original size:13 final size:13
Alignment explanation
Indices: 10290923--10290956 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
10290913 ATGGGCATGT
*
10290923 TTTGAAAACTATG
1 TTTGAAAACAATG
10290936 TTTGAAAACAATG
1 TTTGAAAACAATG
10290949 TTTGAAAA
1 TTTGAAAA
10290957 ATTAATAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.44, C:0.06, G:0.15, T:0.35
Consensus pattern (13 bp):
TTTGAAAACAATG
Found at i:10295362 original size:22 final size:21
Alignment explanation
Indices: 10295320--10295359 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
10295310 AAGACTATTT
10295320 TCATTTTTCAATTTTGAAATA
1 TCATTTTTCAATTTTGAAATA
**
10295341 TCATTTTTGTATTTTGAAA
1 TCATTTTTCAATTTTGAAA
10295360 ATAAAGTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.55
Consensus pattern (21 bp):
TCATTTTTCAATTTTGAAATA
Found at i:10300638 original size:13 final size:13
Alignment explanation
Indices: 10300616--10300648 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
10300606 ATTATTTTTA
10300616 TTTC-TTTTTGTT
1 TTTCATTTTTGTT
10300628 TTTCATTTTTGTT
1 TTTCATTTTTGTT
10300641 TTT-ATTTT
1 TTTCATTTT
10300649 ATTTAATTCC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.06, C:0.06, G:0.06, T:0.82
Consensus pattern (13 bp):
TTTCATTTTTGTT
Found at i:10300683 original size:9 final size:9
Alignment explanation
Indices: 10300600--10300741 Score: 50
Period size: 9 Copynumber: 16.0 Consensus size: 9
10300590 ATTATATATA
10300600 TATTTTA-T
1 TATTTTATT
10300608 TATTTTTATT
1 TA-TTTTATT
*
10300618 TCTTTT-TGT
1 TATTTTAT-T
*
10300627 T-TTTCATT
1 TATTTTATT
10300635 T-TTGTT-TT
1 TATT-TTATT
10300643 TATTTTATT
1 TATTTTATT
**
10300652 TAATTCCA-T
1 T-ATTTTATT
10300661 TATTTTATTT
1 TATTTTA-TT
10300671 TATTTTATT
1 TATTTTATT
* *
10300680 TATTTTCTA
1 TATTTTATT
*
10300689 T-TTTTAGGT
1 TATTTTA-TT
10300698 T-TTTTATT
1 TATTTTATT
*
10300706 T-TTTAATT
1 TATTTTATT
* *
10300714 TGTTTAATTT
1 TATTTTA-TT
*
10300724 TTTTTTATT
1 TATTTTATT
*
10300733 AATTTTATT
1 TATTTTATT
10300742 ACTTTTTCCT
Statistics
Matches: 103, Mismatches: 18, Indels: 25
0.71 0.12 0.17
Matches are distributed among these distances:
8 32 0.31
9 50 0.49
10 21 0.20
ACGTcount: A:0.18, C:0.04, G:0.04, T:0.75
Consensus pattern (9 bp):
TATTTTATT
Found at i:10308603 original size:21 final size:21
Alignment explanation
Indices: 10308579--10308631 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
10308569 GGGTTATAGT
10308579 AGAAGAAATTAGGGGAGGATC
1 AGAAGAAATTAGGGGAGGATC
* *
10308600 AGAAGAATTTGGGGGAGGATC
1 AGAAGAAATTAGGGGAGGATC
10308621 -GAACGAAATTA
1 AGAA-GAAATTA
10308632 AGGATTAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 3 0.11
21 24 0.89
ACGTcount: A:0.42, C:0.06, G:0.36, T:0.17
Consensus pattern (21 bp):
AGAAGAAATTAGGGGAGGATC
Found at i:10313816 original size:21 final size:21
Alignment explanation
Indices: 10313792--10313834 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
10313782 AGGGTTACAG
10313792 CAGAAGAAATTAGGGGAAGAT
1 CAGAAGAAATTAGGGGAAGAT
* * *
10313813 CAGAAGAATTTGGGGGAGGAT
1 CAGAAGAAATTAGGGGAAGAT
10313834 C
1 C
10313835 GAACGGAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.07, G:0.37, T:0.16
Consensus pattern (21 bp):
CAGAAGAAATTAGGGGAAGAT
Found at i:10315340 original size:66 final size:67
Alignment explanation
Indices: 10315137--10315350 Score: 210
Period size: 66 Copynumber: 3.2 Consensus size: 67
10315127 TTAGGAAATT
* * *
10315137 GTTTCACTTGAAACATAACAT-TGAGA-T-TGTTTCCCTTGAAACAAAGTTTTGTCTTTCTTGAG
1 GTTTC-CTTGAAACATAAAATATGTGAGTATGTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAG
10315199 ACA
65 ACA
* * ***
10315202 GTTTCTCTTGAAACAAATTAAAATCTTTGAGTCCATTTCCCTTGAAACAAAGTTTT-TCTCTCTT
1 GTTTC-CTTGAAAC--A-TAAAATATGTGAGTATGTTTCCCTTGAAACAAAGTTTTGTCTCTCTT
*
10315266 -AAAGCA
62 GAGA-CA
**
10315272 GTTTCCCTTGAAACA-CCAATATGTGAGTATGTTTCCCTTGAAACAAA-TTTTGTCTCTCTTGAG
1 GTTT-CCTTGAAACATAAAATATGTGAGTATGTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAG
10315335 ACA
65 ACA
10315338 GTTT-CTTGAAACA
1 GTTTCCTTGAAACA
10315351 AATCCCTAAA
Statistics
Matches: 123, Mismatches: 16, Indels: 21
0.77 0.10 0.13
Matches are distributed among these distances:
64 9 0.07
65 17 0.14
66 39 0.32
67 3 0.02
68 6 0.05
69 5 0.04
70 22 0.18
71 22 0.18
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (67 bp):
GTTTCCTTGAAACATAAAATATGTGAGTATGTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGA
CA
Found at i:10315605 original size:131 final size:132
Alignment explanation
Indices: 10315384--10315695 Score: 376
Period size: 131 Copynumber: 2.4 Consensus size: 132
10315374 CCTCATTGCA
* * *
10315384 TAGGAACTGTGTCATCCACCGACTAGACCTCCTCATCATGTAGGAACCGTGACACCACTAGATAA
1 TAGGAACTGTGTCATCCACCGACTAGACCTCCTCATCACGTAAGAGCCGTGACACCACTAGATAA
* ***
10315449 CCATCCATCCTCATCACGTAAGAATCGTGTTATCA-TCCCTAATTTTGG-CATGCCATCCTCATC
66 CCAGCCATCCTCATCACGTAAGAATCGTGTTATCACTCCCTAAAGATGGCCATG-CATCCTCATC
10315512 ACG
130 ACG
* ** * * * * *
10315515 TTGGAACTGTGTCATATACCGACTAGACCTTCTTATCACGTAAGAGGCGTGTCACCCCTAGATAA
1 TAGGAACTGTGTCATCCACCGACTAGACCTCCTCATCACGTAAGAGCCGTGACACCACTAGATAA
* * * * **
10315580 CCAGCCGTCCTTATCGCGTAGGAATCGTGTTATCACCCTCCCTAAAGATGGCCATGTGTCCTCAT
66 CCAGCCATCCTCATCACGTAAGAATCGTGTTATCA--CTCCCTAAAGATGGCCATGCATCCTCAT
10315645 CACG
129 CACG
* *
10315649 TAGGAACGGTGTCATCCACCGACCAGACCTCCTCATCACGTAAGAGC
1 TAGGAACTGTGTCATCCACCGACTAGACCTCCTCATCACGTAAGAGC
10315696 TGTTTCATCC
Statistics
Matches: 148, Mismatches: 29, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
131 84 0.57
134 60 0.41
135 4 0.03
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.25
Consensus pattern (132 bp):
TAGGAACTGTGTCATCCACCGACTAGACCTCCTCATCACGTAAGAGCCGTGACACCACTAGATAA
CCAGCCATCCTCATCACGTAAGAATCGTGTTATCACTCCCTAAAGATGGCCATGCATCCTCATCA
CG
Found at i:10317167 original size:15 final size:15
Alignment explanation
Indices: 10317143--10317172 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10317133 TTTTTGATTT
10317143 TGTTACTTTATTTTA
1 TGTTACTTTATTTTA
*
10317158 TGTTATTTTATTTTA
1 TGTTACTTTATTTTA
10317173 ATCATTGAGC
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:0.20, C:0.03, G:0.07, T:0.70
Consensus pattern (15 bp):
TGTTACTTTATTTTA
Found at i:10318777 original size:21 final size:21
Alignment explanation
Indices: 10318752--10318796 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
10318742 CAGAGTTAGT
*
10318752 GGAGGACGCAAGTGGGGTTGA
1 GGAGGACGCAAGCGGGGTTGA
10318773 GGAGGACGCAAGCGGGGTTGA
1 GGAGGACGCAAGCGGGGTTGA
10318794 GGA
1 GGA
10318797 TGGGTAAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.24, C:0.11, G:0.53, T:0.11
Consensus pattern (21 bp):
GGAGGACGCAAGCGGGGTTGA
Found at i:10319921 original size:15 final size:15
Alignment explanation
Indices: 10319882--10319932 Score: 61
Period size: 15 Copynumber: 3.3 Consensus size: 15
10319872 AATTTTTTAA
10319882 TTTAATTACT-TAAC
1 TTTAATTACTCTAAC
10319896 TTTCAAATTACTCCTAA-
1 TTT--AATTACT-CTAAC
10319913 TTTAATTACTCTAAC
1 TTTAATTACTCTAAC
10319928 TTTAA
1 TTTAA
10319933 AATTTATTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
14 7 0.22
15 12 0.38
16 7 0.22
17 3 0.09
18 3 0.09
ACGTcount: A:0.35, C:0.18, G:0.00, T:0.47
Consensus pattern (15 bp):
TTTAATTACTCTAAC
Found at i:10321099 original size:11 final size:11
Alignment explanation
Indices: 10321083--10321120 Score: 67
Period size: 11 Copynumber: 3.5 Consensus size: 11
10321073 GATTTAGAAA
10321083 TGAGTATGGGT
1 TGAGTATGGGT
10321094 TGAGTATGGGT
1 TGAGTATGGGT
*
10321105 TAAGTATGGGT
1 TGAGTATGGGT
10321116 TGAGT
1 TGAGT
10321121 TGGTCATGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.21, C:0.00, G:0.42, T:0.37
Consensus pattern (11 bp):
TGAGTATGGGT
Found at i:10321959 original size:65 final size:66
Alignment explanation
Indices: 10321855--10321985 Score: 255
Period size: 65 Copynumber: 2.0 Consensus size: 66
10321845 AGGTTCCACT
10321855 GGTATTTCTTCGAGTAAAAGACCTGAAGATTTCAGTTTAGATGCAACATTCAGAGGACC-AGTTC
1 GGTATTTCTTCGAGTAAAAGACCTGAAGATTTCAGTTTAGATGCAACATTCAGAGGACCAAGTTC
10321919 A
66 A
10321920 GGTATTTCTTCGAGTAAAAGACCTGAAGATTTCAGTTTAGATGCAACATTCAGAGGACCAAGTTC
1 GGTATTTCTTCGAGTAAAAGACCTGAAGATTTCAGTTTAGATGCAACATTCAGAGGACCAAGTTC
10321985 A
66 A
10321986 AGGGATCGAA
Statistics
Matches: 65, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
65 59 0.91
66 6 0.09
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (66 bp):
GGTATTTCTTCGAGTAAAAGACCTGAAGATTTCAGTTTAGATGCAACATTCAGAGGACCAAGTTC
A
Found at i:10322806 original size:81 final size:81
Alignment explanation
Indices: 10322693--10323270 Score: 897
Period size: 81 Copynumber: 7.1 Consensus size: 81
10322683 AAGCATTTAG
* * *
10322693 TCTTTTACTAAAAGGGATTTAACCTTTCATCTAACTGGCATGATTGAAACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGC
10322758 ACAACTAGGCAATTAA
66 ACAACTAGGCAATTAA
*
10322774 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACATTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGC
*
10322839 ACAGCTAGGCAATTAA
66 ACAACTAGGCAATTAA
* *
10322855 TCTTTTACTCTAAGGTATTTAACCTTTCATCTAACTGGCATGATTAACACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGC
*
10322920 ACAACTAGGAAATTAA
66 ACAACTAGGCAATTAA
*
10322936 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGCTGGCATGATTGACACCTTTATGTCAAA
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAA---CTGGCATGATTGACACCTTTCTGTCAAA
*
10323001 TGCACAGCTAGGCAATTAA
63 TGCACAACTAGGCAATTAA
* * *
10323020 TCTTTTAATCAAAGGTATTTAACCTTTC-TCTAATTGGTATGATTGACACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGC
*
10323084 ACAACTAGACAATTAA
66 ACAACTAGGCAATTAA
* * * *
10323100 TCTTTTACCCAAAGGTATTTAACATTTCATCTAACTGGCATAATTGGCACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGC
* * * *
10323165 ATAGCTAGACAATTTA
66 ACAACTAGGCAATTAA
**
10323181 TCTTTTACTCAAATATATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGC
*
10323246 ACATCTAGGCAATTAA
66 ACAACTAGGCAATTAA
10323262 TCTTTTACT
1 TCTTTTACT
10323271 TTAAAACATT
Statistics
Matches: 452, Mismatches: 41, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
80 67 0.15
81 310 0.69
83 5 0.01
84 70 0.15
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.36
Consensus pattern (81 bp):
TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGC
ACAACTAGGCAATTAA
Found at i:10324740 original size:23 final size:21
Alignment explanation
Indices: 10324713--10324756 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 21
10324703 TATCAAAATC
10324713 ATGATC-TAGTAGTATATTGTAAA
1 ATGATCAT-GTAGT-TATT-TAAA
10324736 ATGATCATGTAGTTATTTAAA
1 ATGATCATGTAGTTATTTAAA
10324757 TCACATGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 4 0.20
22 4 0.20
23 11 0.55
24 1 0.05
ACGTcount: A:0.39, C:0.05, G:0.16, T:0.41
Consensus pattern (21 bp):
ATGATCATGTAGTTATTTAAA
Found at i:10331482 original size:16 final size:16
Alignment explanation
Indices: 10331461--10331494 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
10331451 ATTTTATGAG
10331461 TAGACTCTGTTTACAT
1 TAGACTCTGTTTACAT
10331477 TAGACTCTGTTTACAT
1 TAGACTCTGTTTACAT
10331493 TA
1 TA
10331495 TGACATCGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.26, C:0.18, G:0.12, T:0.44
Consensus pattern (16 bp):
TAGACTCTGTTTACAT
Found at i:10332627 original size:23 final size:21
Alignment explanation
Indices: 10332600--10332659 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
10332590 ACTTAAAATT
*
10332600 TGTCCCGAAGGACCACACTTATA
1 TGTCCCGAAGGACCACA--TAAA
** *
10332623 TGTCCATAAAGACCACATAAA
1 TGTCCCGAAGGACCACATAAA
*
10332644 TATCCCGAAGGACCAC
1 TGTCCCGAAGGACCAC
10332660 TCCTTAAGGA
Statistics
Matches: 29, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
21 15 0.52
23 14 0.48
ACGTcount: A:0.37, C:0.30, G:0.15, T:0.18
Consensus pattern (21 bp):
TGTCCCGAAGGACCACATAAA
Found at i:10333559 original size:24 final size:24
Alignment explanation
Indices: 10333515--10333564 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
10333505 ATAAAGAACC
*
10333515 AAAATAAACTTAAATATACCATTA
1 AAAATAAACTTAAACATACCATTA
*
10333539 AAAATAAAGTTTAAACA-ACCATTA
1 AAAATAAA-CTTAAACATACCATTA
10333563 AA
1 AA
10333565 TCAACCACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 17 0.74
25 6 0.26
ACGTcount: A:0.60, C:0.12, G:0.02, T:0.26
Consensus pattern (24 bp):
AAAATAAACTTAAACATACCATTA
Found at i:10343152 original size:9 final size:9
Alignment explanation
Indices: 10343140--10343169 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
10343130 GTAAAAACAG
10343140 TAAATAAAA
1 TAAATAAAA
10343149 TAAATAAAA
1 TAAATAAAA
10343158 TAAATAAAA
1 TAAATAAAA
10343167 TAA
1 TAA
10343170 GAAGAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (9 bp):
TAAATAAAA
Found at i:10343699 original size:24 final size:24
Alignment explanation
Indices: 10343655--10343704 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
10343645 ATAAAGAAGC
10343655 AAAATAAACTTAAATATACCATTA
1 AAAATAAACTTAAATATACCATTA
*
10343679 AAAATAAAGTTTAAATA-ACCATTA
1 AAAATAAA-CTTAAATATACCATTA
10343703 AA
1 AA
10343705 TCAACCACCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 17 0.71
25 7 0.29
ACGTcount: A:0.60, C:0.10, G:0.02, T:0.28
Consensus pattern (24 bp):
AAAATAAACTTAAATATACCATTA
Found at i:10353584 original size:3 final size:3
Alignment explanation
Indices: 10353576--10353618 Score: 52
Period size: 3 Copynumber: 14.3 Consensus size: 3
10353566 GAGAAGATCC
* *
10353576 CTT CTT CTT CTT CTT C-T CATT CTT CTT CTC CTT CTT CCT CTT C
1 CTT CTT CTT CTT CTT CTT C-TT CTT CTT CTT CTT CTT CTT CTT C
10353619 AACTCCTTCC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
2 2 0.06
3 30 0.88
4 2 0.06
ACGTcount: A:0.02, C:0.40, G:0.00, T:0.58
Consensus pattern (3 bp):
CTT
Found at i:10363677 original size:15 final size:15
Alignment explanation
Indices: 10363640--10363683 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
10363630 GGATTAGACA
10363640 AAGAAGAAGAGAAAAG
1 AAGAA-AAGAGAAAAG
*
10363656 AAAAAAAGA-AAAATG
1 AAGAAAAGAGAAAA-G
10363671 AAGAAAAGAGAAA
1 AAGAAAAGAGAAA
10363684 GGAACTCACT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
14 4 0.17
15 13 0.54
16 7 0.29
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.02
Consensus pattern (15 bp):
AAGAAAAGAGAAAAG
Found at i:10364759 original size:27 final size:24
Alignment explanation
Indices: 10364697--10364759 Score: 67
Period size: 27 Copynumber: 2.6 Consensus size: 24
10364687 GTCATAACCA
10364697 TTTT-TTTG-AAAAAACAATTAAT
1 TTTTATTTGAAAAAAACAATTAAT
* *
10364719 TATTATTTTAAAAAAACAATTATGACT
1 TTTTATTTGAAAAAAACAATTA--A-T
10364746 TTTTATTTGAAAAA
1 TTTTATTTGAAAAA
10364760 TTGGACATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
22 3 0.09
23 3 0.09
24 12 0.38
26 1 0.03
27 13 0.41
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (24 bp):
TTTTATTTGAAAAAAACAATTAAT
Found at i:10366377 original size:3 final size:3
Alignment explanation
Indices: 10366369--10366398 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
10366359 AATTAATGAT
10366369 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
10366399 TGGCTGAACG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:10366882 original size:110 final size:110
Alignment explanation
Indices: 10366708--10366986 Score: 346
Period size: 110 Copynumber: 2.5 Consensus size: 110
10366698 GGGAGATGAA
*
10366708 ACTCGAGAAATCTTTGGAAAACGGGTCTGCTCCACTCTT-TCTTTAGGGAGTATAGGACTCGAGA
1 ACTCGAGAAATCTTTGGAAAACGGGTCTGCTCC-CTCTTCT-TTTAGGGAGTATAGGACTAGAGA
* * *
10366772 AATCTTCAAAAAATGGGT-TCGCTCCCTCTTCTTTTAGAGAGTATATG
64 AATCTTCAAAAAACGGGTAT-GCTCCCTCTTCTTTCAGAGAGTATAGG
* * *
10366819 TCTCGAGAGATCTTTGGAAAACGGGTCTGCTCCCTCTTCTTTTAGGGAGTATATGACTAGAGAAA
1 ACTCGAGAAATCTTTGGAAAACGGGTCTGCTCCCTCTTCTTTTAGGGAGTATAGGACTAGAGAAA
* * * *
10366884 TCTTCGAAAAACGGGTATGTTCTCTCTTCTTTCAGGGAGTATAGG
66 TCTTCAAAAAACGGGTATGCTCCCTCTTCTTTCAGAGAGTATAGG
* * ** * * * *
10366929 ACTCGAAAAATATTCAGAAGATGGGTTTGCTCCCTCTTCTTTCAGGGAGTATAGGACT
1 ACTCGAGAAATCTTTGGAAAACGGGTCTGCTCCCTCTTCTTTTAGGGAGTATAGGACT
10366987 TGAAAAATTG
Statistics
Matches: 144, Mismatches: 22, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
110 111 0.77
111 33 0.23
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (110 bp):
ACTCGAGAAATCTTTGGAAAACGGGTCTGCTCCCTCTTCTTTTAGGGAGTATAGGACTAGAGAAA
TCTTCAAAAAACGGGTATGCTCCCTCTTCTTTCAGAGAGTATAGG
Found at i:10366963 original size:165 final size:166
Alignment explanation
Indices: 10366670--10366981 Score: 425
Period size: 165 Copynumber: 1.9 Consensus size: 166
10366660 TCAATTTTTT
* * * * *
10366670 AAAACGAGTCTTCTCCACTCTTCTTTTAGGGAGATGAAACTCGAGAAATCTTTGGAAAACGGGTC
1 AAAACGAGTCTGCTCCACTCTTCTTTTAGGGAGATGAAACTAGAGAAATCTTCGAAAAACGGGTA
* *
10366735 TGCTCCACTCTTTCTTTAGGGAGTATAGGACTCGAGAAATCTTCAAAAAATGGGTTCGCTCCCTC
66 TGCTCCACTCTTTCTTTAGGGAGTATAGGACTCGAAAAATATTCAAAAAATGGGTTCGCTCCCTC
*
10366800 TTCTTTTAGAGAGTATATGTCTCGAGAGATCTTTGG
131 TTCTTTCAGAGAGTATATGTCTCGAGAGATCTTTGG
* *
10366836 AAAACGGGTCTGCTCC-CTCTTCTTTTAGGGAGTAT-ATGACTAGAGAAATCTTCGAAAAACGGG
1 AAAACGAGTCTGCTCCACTCTTCTTTTAGGGAG-ATGA-AACTAGAGAAATCTTCGAAAAACGGG
* * * * *
10366899 TATG-TTCTCTC-TTCTTTCAGGGAGTATAGGACTCGAAAAATATTCAGAAGATGGGTTTGCTCC
64 TATGCTCCACTCTTTCTTT-AGGGAGTATAGGACTCGAAAAATATTCAAAAAATGGGTTCGCTCC
*
10366962 CTCTTCTTTCAGGGAGTATA
128 CTCTTCTTTCAGAGAGTATA
10366982 GGACTTGAAA
Statistics
Matches: 127, Mismatches: 16, Indels: 7
0.85 0.11 0.05
Matches are distributed among these distances:
164 6 0.05
165 80 0.63
166 41 0.32
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (166 bp):
AAAACGAGTCTGCTCCACTCTTCTTTTAGGGAGATGAAACTAGAGAAATCTTCGAAAAACGGGTA
TGCTCCACTCTTTCTTTAGGGAGTATAGGACTCGAAAAATATTCAAAAAATGGGTTCGCTCCCTC
TTCTTTCAGAGAGTATATGTCTCGAGAGATCTTTGG
Found at i:10366994 original size:55 final size:55
Alignment explanation
Indices: 10366670--10366986 Score: 311
Period size: 55 Copynumber: 5.7 Consensus size: 55
10366660 TCAATTTTTT
* * * * **
10366670 AAAACGAGTCTTCTCCACTCTTCTTTTAGGGAG-AT-GAAACTCGAGAAATCTTTGG
1 AAAACGGGTCTGCTCC-CTCTTCTTTCAGGGAGTATAG-GACTCGAGAAATCTTCAG
*
10366725 AAAACGGGTCTGCTCCACTCTTTCTTT-AGGGAGTATAGGACTCGAGAAATCTTCAA
1 AAAACGGGTCTGCTCC-CTC-TTCTTTCAGGGAGTATAGGACTCGAGAAATCTTCAG
* * * * * * **
10366781 AAAATGGGT-TCGCTCCCTCTTCTTTTAGAGAGTATATGTCTCGAGAGATCTTTGG
1 AAAACGGGTCT-GCTCCCTCTTCTTTCAGGGAGTATAGGACTCGAGAAATCTTCAG
* * *
10366836 AAAACGGGTCTGCTCCCTCTTCTTTTAGGGAGTATATGACTAGAGAAATCTTC-G
1 AAAACGGGTCTGCTCCCTCTTCTTTCAGGGAGTATAGGACTCGAGAAATCTTCAG
* * * * *
10366890 AAAAACGGGTATGTTCTCTCTTCTTTCAGGGAGTATAGGACTCGAAAAATATTCAG
1 -AAAACGGGTCTGCTCCCTCTTCTTTCAGGGAGTATAGGACTCGAGAAATCTTCAG
* * *
10366946 AAGATGGGTTTGCTCCCTCTTCTTTCAGGGAGTATAGGACT
1 AAAACGGGTCTGCTCCCTCTTCTTTCAGGGAGTATAGGACT
10366987 TGAAAAATTG
Statistics
Matches: 221, Mismatches: 33, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
54 7 0.03
55 176 0.80
56 37 0.17
57 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.32
Consensus pattern (55 bp):
AAAACGGGTCTGCTCCCTCTTCTTTCAGGGAGTATAGGACTCGAGAAATCTTCAG
Found at i:10367115 original size:37 final size:37
Alignment explanation
Indices: 10366993--10367262 Score: 341
Period size: 37 Copynumber: 7.4 Consensus size: 37
10366983 GACTTGAAAA
**
10366993 ATTGATTTTCTTCACTACTCTTCTATGAAGGC-TAAG
1 ATTGATTTTCTTCACTACTCTTCCGTGAAGGCTTAAG
* *
10367029 ATTGATTTTCTTCACTACTC-TCTGTGAAGGCTTACG
1 ATTGATTTTCTTCACTACTCTTCCGTGAAGGCTTAAG
* *
10367065 ATTAATTTTCTTCACTACTCTTCCGTGAAGGCTTGAG
1 ATTGATTTTCTTCACTACTCTTCCGTGAAGGCTTAAG
* * * * * *
10367102 ATTGACTTGCTTCACTACTTTTCCGTTAAAGCTTAAT
1 ATTGATTTTCTTCACTACTCTTCCGTGAAGGCTTAAG
* *
10367139 ATTGA-CTTCTTCACTACTCTTCCGTGAAGGCTTAAT
1 ATTGATTTTCTTCACTACTCTTCCGTGAAGGCTTAAG
* *
10367175 ATTGATTTTCTTCACTACTAATT-CGTGAAGGCTTATG
1 ATTGATTTTCTTCACTACT-CTTCCGTGAAGGCTTAAG
**
10367212 ATTGATTTGATTCACTACTCTTCCGTGAAGGCTTAAG
1 ATTGATTTTCTTCACTACTCTTCCGTGAAGGCTTAAG
10367249 ATTGATTTTCTTCA
1 ATTGATTTTCTTCA
10367263 AAGATCGAAC
Statistics
Matches: 200, Mismatches: 29, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
35 10 0.05
36 75 0.38
37 113 0.56
38 2 0.01
ACGTcount: A:0.23, C:0.20, G:0.15, T:0.42
Consensus pattern (37 bp):
ATTGATTTTCTTCACTACTCTTCCGTGAAGGCTTAAG
Found at i:10367152 original size:73 final size:73
Alignment explanation
Indices: 10366993--10367262 Score: 323
Period size: 73 Copynumber: 3.7 Consensus size: 73
10366983 GACTTGAAAA
** * *
10366993 ATTGATTTTCTTCACTACTCTTCTATGAAGGC-TAAGATTGATTTTCTTCACTAC-TCTCTGTGA
1 ATTGA-TTTCTTCACTACTCTTCCGTGAAGGCTTAAGATTGATTTTCTTCACTACTTTTCCGTGA
**
10367056 AGGCTTACG
65 AGGCTTAAT
* * * * *
10367065 ATTAATTTTCTTCACTACTCTTCCGTGAAGGCTTGAGATTGACTTGCTTCACTACTTTTCCGTTA
1 ATTGA-TTTCTTCACTACTCTTCCGTGAAGGCTTAAGATTGATTTTCTTCACTACTTTTCCGTGA
*
10367130 AAGCTTAAT
65 AGGCTTAAT
* * *
10367139 ATTGACTTCTTCACTACTCTTCCGTGAAGGCTTAATATTGATTTTCTTCACTACTAATT-CGTGA
1 ATTGATTTCTTCACTACTCTTCCGTGAAGGCTTAAGATTGATTTTCTTCACTACT-TTTCCGTGA
10367203 AGGCTT-AT
65 AGGCTTAAT
*
10367211 GATTGATTTGATTCACTACTCTTCCGTGAAGGCTTAAGATTGATTTTCTTCA
1 -ATTGATTT-CTTCACTACTCTTCCGTGAAGGCTTAAGATTGATTTTCTTCA
10367263 AAGATCGAAC
Statistics
Matches: 169, Mismatches: 24, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
72 31 0.18
73 80 0.47
74 58 0.34
ACGTcount: A:0.23, C:0.20, G:0.15, T:0.42
Consensus pattern (73 bp):
ATTGATTTCTTCACTACTCTTCCGTGAAGGCTTAAGATTGATTTTCTTCACTACTTTTCCGTGAA
GGCTTAAT
Found at i:10367186 original size:110 final size:110
Alignment explanation
Indices: 10367003--10367262 Score: 321
Period size: 110 Copynumber: 2.4 Consensus size: 110
10366993 ATTGATTTTC
** * * * *
10367003 TTCACTACTCTTCTATGAAGGC-TAAGATTGATTTTCTTCACTACTCTCTGTGAAGGCTTACGAT
1 TTCACTACTCTTCCGTGAAAGCTTAAGATTGATCTTCTTCACTACTCTCCGTGAAGGCTTAAGAT
* *
10367067 TAATTTTCTTCACTACT-CTTCCGTGAAGGCTTGA-GATTGACTTGC
66 TAATTTTCTTCACTACTAATT-CGTGAAGGCTT-ATGATTGACTTGA
* * * *
10367112 TTCACTACTTTTCCGTTAAAGCTTAATATTGA-CTTCTTCACTACTCTTCCGTGAAGGCTTAATA
1 TTCACTACTCTTCCGTGAAAGCTTAAGATTGATCTTCTTCACTACTC-TCCGTGAAGGCTTAAGA
* *
10367176 TTGATTTTCTTCACTACTAATTCGTGAAGGCTTATGATTGATTTGA
65 TTAATTTTCTTCACTACTAATTCGTGAAGGCTTATGATTGACTTGA
* *
10367222 TTCACTACTCTTCCGTGAAGGCTTAAGATTGATTTTCTTCA
1 TTCACTACTCTTCCGTGAAAGCTTAAGATTGATCTTCTTCA
10367263 AAGATCGAAC
Statistics
Matches: 127, Mismatches: 19, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
109 31 0.24
110 87 0.69
111 9 0.07
ACGTcount: A:0.23, C:0.21, G:0.15, T:0.41
Consensus pattern (110 bp):
TTCACTACTCTTCCGTGAAAGCTTAAGATTGATCTTCTTCACTACTCTCCGTGAAGGCTTAAGAT
TAATTTTCTTCACTACTAATTCGTGAAGGCTTATGATTGACTTGA
Found at i:10368525 original size:14 final size:14
Alignment explanation
Indices: 10368506--10368550 Score: 63
Period size: 14 Copynumber: 3.1 Consensus size: 14
10368496 GAACCCACCT
10368506 TTTTTTCTCTTTAC
1 TTTTTTCTCTTTAC
*
10368520 TTTTTTTCTCTTTTC
1 -TTTTTTCTCTTTAC
*
10368535 TTTTTTTTCTTTAC
1 TTTTTTCTCTTTAC
10368549 TT
1 TT
10368551 CAGGAAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
14 14 0.52
15 13 0.48
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTTTTCTCTTTAC
Found at i:10368526 original size:16 final size:15
Alignment explanation
Indices: 10368504--10368550 Score: 78
Period size: 15 Copynumber: 3.2 Consensus size: 15
10368494 TCGAACCCAC
10368504 CTTTTTTTCTCTTTA
1 CTTTTTTTCTCTTTA
*
10368519 CTTTTTTTCTCTTTT
1 CTTTTTTTCTCTTTA
10368534 CTTTTTTT-TCTTTA
1 CTTTTTTTCTCTTTA
10368548 CTT
1 CTT
10368551 CAGGAAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
14 8 0.27
15 22 0.73
ACGTcount: A:0.04, C:0.19, G:0.00, T:0.77
Consensus pattern (15 bp):
CTTTTTTTCTCTTTA
Found at i:10381588 original size:134 final size:132
Alignment explanation
Indices: 10381391--10381722 Score: 371
Period size: 131 Copynumber: 2.5 Consensus size: 132
10381381 ATTCCTACGC
* * * * *
10381391 GATGAGGAGATCTGGTCAGTGGATGACACGATTTCTACGCGATGAGGATGATTGGCCATCTTTAG
1 GATGAGGAGGTCTGGTCGGTGGATGACACGGTTTCTACGTGATGAGGATGATAGGCCATCTTTAG
*
10381456 GAAGGATGATAACACGATACCTATGCGATGAAGACGAATGGCTATCT-AGGGGTGACAAGGCTCC
66 G--GGATGATAACACGATACCTACGCGATGAAGACGAATGGCTATCTGA-GGGTGACAAGGCTCC
10381520 TACAT
128 TACAT
* * * * *
10381525 GATGAGGAGGTCTGGTCGGTGGATGTCATGGTTTATACTTGATGAGAATGATAGGCCATCTTTA-
1 GATGAGGAGGTCTGGTCGGTGGATGACACGGTTTCTACGTGATGAGGATGATAGGCCATCTTTAG
* * * * * * * * * *
10381589 GGGATGATAACATGGTTCCTACGTGATGAGGATGACTGGTTATCTGAGGTTGACATGGCTCCTAC
66 GGGATGATAACACGATACCTACGCGATGAAGACGAATGGCTATCTGAGGGTGACAAGGCTCCTAC
10381654 AT
131 AT
* * * * * * *
10381656 GATGGGGAGGTCTGGTTGGGGGATGACACGGTTCCTACGTGATGAGGACGGTAGGCCATATTTAG
1 GATGAGGAGGTCTGGTCGGTGGATGACACGGTTTCTACGTGATGAGGATGATAGGCCATCTTTAG
10381721 GG
66 GG
10381723 ATCATGGTTT
Statistics
Matches: 163, Mismatches: 33, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
131 105 0.64
132 3 0.02
133 1 0.01
134 54 0.33
ACGTcount: A:0.25, C:0.15, G:0.33, T:0.27
Consensus pattern (132 bp):
GATGAGGAGGTCTGGTCGGTGGATGACACGGTTTCTACGTGATGAGGATGATAGGCCATCTTTAG
GGGATGATAACACGATACCTACGCGATGAAGACGAATGGCTATCTGAGGGTGACAAGGCTCCTAC
AT
Found at i:10381966 original size:36 final size:36
Alignment explanation
Indices: 10381896--10382022 Score: 114
Period size: 36 Copynumber: 3.5 Consensus size: 36
10381886 AGAACTTGTG
* * * *
10381896 TTTTAAAGAAAAAATGTCTTAAGCAAGACGAAATTTA
1 TTTT-AAGAGAAATTGTCTCAAGCAAGACAAAATTTA
* * *
10381933 TTTTGAGAGAAATTGTCTCAAGCGAGACAAAATTTG
1 TTTTAAGAGAAATTGTCTCAAGCAAGACAAAATTTA
* * * *
10381969 TTTTTAGAGAAAACTGTCTTAAGCAAGACAAAA--AA
1 TTTTAAGAG-AAATTGTCTCAAGCAAGACAAAATTTA
*
10382004 TTTTAAGAAAAATTGTCTC
1 TTTTAAGAGAAATTGTCTC
10382023 TAGTGAGACG
Statistics
Matches: 72, Mismatches: 17, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
34 8 0.11
35 7 0.10
36 33 0.46
37 24 0.33
ACGTcount: A:0.43, C:0.10, G:0.16, T:0.31
Consensus pattern (36 bp):
TTTTAAGAGAAATTGTCTCAAGCAAGACAAAATTTA
Found at i:10381987 original size:73 final size:73
Alignment explanation
Indices: 10381891--10382031 Score: 178
Period size: 71 Copynumber: 1.9 Consensus size: 73
10381881 ACTTCAGAAC
** * *
10381891 TTGTGTTTTAAAGAAAAAATGTCTTAAGCAAGACGAAATTTATTTTGAGAGAAATTGTCTCAAGC
1 TTGTGTTTTAAAGAAAAAATGTCTTAAGCAAGAC-AAA-AAATTTTAAGAAAAATTGTCTCAAGC
10381956 GAGACAAAAT
64 GAGACAAAAT
* * * *
10381966 TTGT-TTTTAGAG-AAAACTGTCTTAAGCAAGACAAAAAATTTTAAGAAAAATTGTCTCTAGTGA
1 TTGTGTTTTAAAGAAAAAATGTCTTAAGCAAGACAAAAAATTTTAAGAAAAATTGTCTCAAGCGA
10382029 GAC
66 GAC
10382032 GACGCTTTGT
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
71 25 0.43
72 3 0.05
73 19 0.33
74 7 0.12
75 4 0.07
ACGTcount: A:0.41, C:0.10, G:0.18, T:0.31
Consensus pattern (73 bp):
TTGTGTTTTAAAGAAAAAATGTCTTAAGCAAGACAAAAAATTTTAAGAAAAATTGTCTCAAGCGA
GACAAAAT
Found at i:10381998 original size:37 final size:37
Alignment explanation
Indices: 10381891--10382001 Score: 125
Period size: 36 Copynumber: 3.0 Consensus size: 37
10381881 ACTTCAGAAC
* *
10381891 TTGTGTTTTAAAGAAAAAATGTCTTAAGCAAGACGAAAT
1 TTGT-TTTTAGAG-AAAAATGTCTTAAGCAAGACAAAAT
* * * * *
10381930 TTATTTTGAGAG-AAATTGTCTCAAGCGAGACAAAAT
1 TTGTTTTTAGAGAAAAATGTCTTAAGCAAGACAAAAT
*
10381966 TTGTTTTTAGAGAAAACTGTCTTAAGCAAGACAAAA
1 TTGTTTTTAGAGAAAAATGTCTTAAGCAAGACAAAA
10382002 AATTTTAAGA
Statistics
Matches: 59, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
36 30 0.51
37 20 0.34
38 6 0.10
39 3 0.05
ACGTcount: A:0.41, C:0.10, G:0.18, T:0.31
Consensus pattern (37 bp):
TTGTTTTTAGAGAAAAATGTCTTAAGCAAGACAAAAT
Found at i:10382060 original size:71 final size:73
Alignment explanation
Indices: 10381912--10382061 Score: 162
Period size: 71 Copynumber: 2.1 Consensus size: 73
10381902 AGAAAAAATG
** * * *
10381912 TCTTAAGCAAGACGAAATTTATTTTGAGAGAAATTGTCTCAAGCGAGACAAAATTTGTTTTTAGA
1 TCTTAAGCAAGACGAAATAAATTTTAAGAAAAATTGTCTCAAGCGAGACAAAATTTGTTTTGAGA
**
10381977 GAAAACTG
66 GAAAACAA
* * ***
10381985 TCTTAAGCAAGAC-AAA-AAATTTTAAGAAAAATTGTCTCTAGTGAGACGACGCTTTGTTTTGAG
1 TCTTAAGCAAGACGAAATAAATTTTAAGAAAAATTGTCTCAAGCGAGAC-AAAATTTGTTTTGAG
10382048 AG-AAACAA
65 AGAAAACAA
10382056 TCTTAA
1 TCTTAA
10382062 AGGCGACAAA
Statistics
Matches: 64, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
71 35 0.55
72 16 0.25
73 13 0.20
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.31
Consensus pattern (73 bp):
TCTTAAGCAAGACGAAATAAATTTTAAGAAAAATTGTCTCAAGCGAGACAAAATTTGTTTTGAGA
GAAAACAA
Found at i:10383232 original size:16 final size:16
Alignment explanation
Indices: 10383207--10383250 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 16
10383197 TTGCATGTGC
*
10383207 TTCTTGTCTTCTTTTT
1 TTCTTTTCTTCTTTTT
*
10383223 TTCTTTTCTT-TTGTT
1 TTCTTTTCTTCTTTTT
10383238 TTCTTTT-TTCTTT
1 TTCTTTTCTTCTTT
10383251 CTTCTTTTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
14 2 0.08
15 13 0.54
16 9 0.38
ACGTcount: A:0.00, C:0.16, G:0.05, T:0.80
Consensus pattern (16 bp):
TTCTTTTCTTCTTTTT
Found at i:10383249 original size:30 final size:31
Alignment explanation
Indices: 10383216--10383298 Score: 77
Period size: 30 Copynumber: 2.8 Consensus size: 31
10383206 CTTCTTGTCT
* **
10383216 TCTTTTTTTC-TTTTCTTTTG-TTTTCTTTTT
1 TCTTTTCTTCTTTTTC-TTTGCTTTTCTAATT
10383246 TC-TTTCTTCTTTTTCTTTGCTTTTCTAATT
1 TCTTTTCTTCTTTTTCTTTGCTTTTCTAATT
* *
10383276 TCTTTGCTT-TTTCTCTTTG-TTTT
1 TCTTTTCTTCTTTTTCTTTGCTTTT
10383299 GATTTGATCT
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
29 14 0.31
30 26 0.58
31 5 0.11
ACGTcount: A:0.02, C:0.17, G:0.05, T:0.76
Consensus pattern (31 bp):
TCTTTTCTTCTTTTTCTTTGCTTTTCTAATT
Found at i:10386136 original size:25 final size:24
Alignment explanation
Indices: 10386075--10386136 Score: 76
Period size: 22 Copynumber: 2.6 Consensus size: 24
10386065 TGTCATAACC
*
10386075 ATTTTTTTGAAAAAACAATTAATT
1 ATTTTTTTTAAAAAACAATTAATT
10386099 ATTTTTTTT--AAAACAATT-ATT
1 ATTTTTTTTAAAAAACAATTAATT
10386120 ACTTTTTATTTAAAAAA
1 A-TTTTT-TTTAAAAAA
10386137 TTGGCTATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
21 4 0.12
22 14 0.42
23 3 0.09
24 8 0.24
25 4 0.12
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.50
Consensus pattern (24 bp):
ATTTTTTTTAAAAAACAATTAATT
Found at i:10391268 original size:29 final size:31
Alignment explanation
Indices: 10391235--10391301 Score: 86
Period size: 29 Copynumber: 2.2 Consensus size: 31
10391225 ATCCGGTCTC
*
10391235 TATAATA-GAGGGATTAAATTGAT-CAA-TTT
1 TATAATAGGA-GGATTAAATTAATACAACTTT
*
10391264 TATAATAGGAGGATTAAATTAATATAACTTT
1 TATAATAGGAGGATTAAATTAATACAACTTT
10391295 TATAATA
1 TATAATA
10391302 AAGAGATCTG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 19 0.58
30 4 0.12
31 10 0.30
ACGTcount: A:0.45, C:0.03, G:0.13, T:0.39
Consensus pattern (31 bp):
TATAATAGGAGGATTAAATTAATACAACTTT
Found at i:10397233 original size:90 final size:89
Alignment explanation
Indices: 10397113--10397279 Score: 289
Period size: 90 Copynumber: 1.9 Consensus size: 89
10397103 TAATCCTGAA
* * * *
10397113 TATTTAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATTCCTAATATGAT
1 TATTAAATTCCAAATAATTAAATATAGATTTAATTAATTTGAAATAATAAAA-CCCTAATATGAT
10397178 TAGGGTAACTTGGATATAAGAGGAT
65 TAGGGTAACTTGGATATAAGAGGAT
10397203 TATTAAATTCCAAATAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATT
1 TATTAAATTCCAAATAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATT
10397268 AGGGTAACTTGG
66 AGGGTAACTTGG
10397280 CTTTAAAAGA
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
89 24 0.33
90 49 0.67
ACGTcount: A:0.44, C:0.06, G:0.11, T:0.38
Consensus pattern (89 bp):
TATTAAATTCCAAATAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATT
AGGGTAACTTGGATATAAGAGGAT
Found at i:10404025 original size:90 final size:89
Alignment explanation
Indices: 10403909--10404081 Score: 292
Period size: 90 Copynumber: 1.9 Consensus size: 89
10403899 TAATCCCAAA
* *
10403909 TATTTAATTTCAATTAATTAAATATAGATCTAATTAATTTGAAATAATAAAATCCCTAATATGAT
1 TATTAAATTCCAATTAATTAAATATAGATCTAATTAATTTGAAATAATAAAA-CCCTAATATGAT
10403974 TAGGGTAACATGGATATAAGAGGAT
65 TAGGGTAACATGGATATAAGAGGAT
*
10403999 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATT
1 TATTAAATTCCAATTAATTAAATATAGATCTAATTAATTTGAAATAATAAAACCCTAATATGATT
* *
10404064 AGGGTAACTTGGCTATAA
66 AGGGTAACATGGATATAA
10404082 AAGAGTGTGT
Statistics
Matches: 78, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
89 29 0.37
90 49 0.63
ACGTcount: A:0.45, C:0.08, G:0.11, T:0.37
Consensus pattern (89 bp):
TATTAAATTCCAATTAATTAAATATAGATCTAATTAATTTGAAATAATAAAACCCTAATATGATT
AGGGTAACATGGATATAAGAGGAT
Found at i:10405679 original size:21 final size:20
Alignment explanation
Indices: 10405651--10405689 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
10405641 CACTGCAGGA
10405651 ATTTATGGCCTT-AACAAAAG
1 ATTTATGG-CTTCAACAAAAG
10405671 ATTTCATGGCTTCAACAAA
1 ATTT-ATGGCTTCAACAAA
10405690 GACTTTGATG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.38, C:0.18, G:0.13, T:0.31
Consensus pattern (20 bp):
ATTTATGGCTTCAACAAAAG
Found at i:10414729 original size:2 final size:2
Alignment explanation
Indices: 10414722--10414755 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
10414712 GATTATAAGC
10414722 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
10414756 TAATTTTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10422134 original size:20 final size:20
Alignment explanation
Indices: 10422109--10422245 Score: 166
Period size: 20 Copynumber: 6.8 Consensus size: 20
10422099 TTTCTCACGA
*
10422109 ATTTGTAAAGCCTCCGGGTT
1 ATTTGTAAAGCCTCCGGGTC
* *
10422129 ATTTGTAAAGACTTCGGGTC
1 ATTTGTAAAGCCTCCGGGTC
*
10422149 ATTTGTAAAGCCTCCGAGTC
1 ATTTGTAAAGCCTCCGGGTC
* *
10422169 ATTTGTAAAGTCTCCGGGTT
1 ATTTGTAAAGCCTCCGGGTC
* **
10422189 ATTTGTAAAACCTTTGGGTC
1 ATTTGTAAAGCCTCCGGGTC
* *
10422209 ATTTGTAAAGCCTTCGGGTA
1 ATTTGTAAAGCCTCCGGGTC
*
10422229 ATTTGTAAATCCTCCGG
1 ATTTGTAAAGCCTCCGG
10422246 ATGATATGTT
Statistics
Matches: 98, Mismatches: 19, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 98 1.00
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.36
Consensus pattern (20 bp):
ATTTGTAAAGCCTCCGGGTC
Found at i:10422186 original size:60 final size:60
Alignment explanation
Indices: 10422108--10422245 Score: 199
Period size: 60 Copynumber: 2.3 Consensus size: 60
10422098 ATTTCTCACG
*
10422108 AATTTGTAAAGCCTCCGGGTTATTTGTAAAGA-CTTCGGGTCATTTGTAAAGCCTCCGAGT
1 AATTTGTAAAGTCTCCGGGTTATTTGTAAA-ACCTTCGGGTCATTTGTAAAGCCTCCGAGT
* * * *
10422168 CATTTGTAAAGTCTCCGGGTTATTTGTAAAACCTTTGGGTCATTTGTAAAGCCTTCGGGT
1 AATTTGTAAAGTCTCCGGGTTATTTGTAAAACCTTCGGGTCATTTGTAAAGCCTCCGAGT
10422228 AATTTGTAAA-TCCTCCGG
1 AATTTGTAAAGT-CTCCGG
10422246 ATGATATGTT
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
59 2 0.03
60 68 0.97
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.36
Consensus pattern (60 bp):
AATTTGTAAAGTCTCCGGGTTATTTGTAAAACCTTCGGGTCATTTGTAAAGCCTCCGAGT
Found at i:10422359 original size:43 final size:42
Alignment explanation
Indices: 10422309--10422404 Score: 115
Period size: 42 Copynumber: 2.3 Consensus size: 42
10422299 ATCTCCATGG
*
10422309 AAGAGTAGTTGAATTAA-CTCAACCTCGAATCTGATCTTCACAA
1 AAGAGTAG-TGAAGTAATC-CAACCTCGAATCTGATCTTCACAA
* * *
10422352 AAGAGTAGTGGAGTAATCCAACCTCGAGTCTGATCTTCAC-G
1 AAGAGTAGTGAAGTAATCCAACCTCGAATCTGATCTTCACAA
*
10422393 AAGAGTGGTGAA
1 AAGAGTAGTGAA
10422405 ACAGATTCTT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
41 10 0.22
42 27 0.59
43 9 0.20
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (42 bp):
AAGAGTAGTGAAGTAATCCAACCTCGAATCTGATCTTCACAA
Found at i:10422487 original size:33 final size:35
Alignment explanation
Indices: 10422450--10422524 Score: 82
Period size: 36 Copynumber: 2.2 Consensus size: 35
10422440 AAGAGTAGTG
*
10422450 AAGTA-AAGAG-ATGCAAATTCAACCTTCACGGAA
1 AAGTAGAAGAGAATGCAAATTCAACCTGCACGGAA
** *
10422483 AAGTAGTGGAGTAATGCAAATTCAGCCTGCACGGAA
1 AAGTAGAAGAG-AATGCAAATTCAACCTGCACGGAA
*
10422519 GAGTAG
1 AAGTAG
10422525 TGAAGCAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
33 5 0.15
34 3 0.09
36 26 0.76
ACGTcount: A:0.40, C:0.16, G:0.25, T:0.19
Consensus pattern (35 bp):
AAGTAGAAGAGAATGCAAATTCAACCTGCACGGAA
Found at i:10422488 original size:41 final size:36
Alignment explanation
Indices: 10422460--10422529 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
10422450 AAGTAAAGAG
* *
10422460 ATGCAAATTCAACCTTCACGGAAAAGTAGTGGAGTA
1 ATGCAAATTCAACCTGCACGGAAAAGTAGTGAAGTA
* *
10422496 ATGCAAATTCAGCCTGCACGGAAGAGTAGTGAAG
1 ATGCAAATTCAACCTGCACGGAAAAGTAGTGAAG
10422530 CAAATCATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.37, C:0.17, G:0.26, T:0.20
Consensus pattern (36 bp):
ATGCAAATTCAACCTGCACGGAAAAGTAGTGAAGTA
Found at i:10422778 original size:19 final size:18
Alignment explanation
Indices: 10422754--10422791 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
10422744 AGTGGCGTTT
10422754 ATATTA-TATATATTATACA
1 ATATTATTAT-TATT-TACA
10422773 ATATTATTATTATTTACA
1 ATATTATTATTATTTACA
10422791 A
1 A
10422792 AGCTCAAAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.28
19 10 0.56
20 3 0.17
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (18 bp):
ATATTATTATTATTTACA
Found at i:10431461 original size:20 final size:20
Alignment explanation
Indices: 10431436--10431601 Score: 197
Period size: 20 Copynumber: 8.3 Consensus size: 20
10431426 TTTCTCACAA
10431436 ATTTGTAAAGCCTCCGGGTC
1 ATTTGTAAAGCCTCCGGGTC
** *
10431456 ATTTGTAAATACTCTGGGTC
1 ATTTGTAAAGCCTCCGGGTC
10431476 ATTTGTAAAGCCTCCGGGTC
1 ATTTGTAAAGCCTCCGGGTC
* *
10431496 ATTTGTAAAGTCTCCGGGTT
1 ATTTGTAAAGCCTCCGGGTC
*
10431516 ATTTGTAAAACCTCCGGGTC
1 ATTTGTAAAGCCTCCGGGTC
* *
10431536 ATTTATAAAGCCTCCGGGTT
1 ATTTGTAAAGCCTCCGGGTC
* ** *
10431556 ATTTGTAAAACCTTTGGGTA
1 ATTTGTAAAGCCTCCGGGTC
* * *
10431576 ATTTGTAAATCCTTCGGGTG
1 ATTTGTAAAGCCTCCGGGTC
10431596 ATTTGT
1 ATTTGT
10431602 TAGTCTTTCG
Statistics
Matches: 124, Mismatches: 22, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 124 1.00
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.37
Consensus pattern (20 bp):
ATTTGTAAAGCCTCCGGGTC
Found at i:10431734 original size:42 final size:42
Alignment explanation
Indices: 10431645--10431752 Score: 130
Period size: 42 Copynumber: 2.5 Consensus size: 42
10431635 CCATTTGTAA
*
10431645 GATCTCCACGAAAGAGTAGTGGAATCAAATCAACCTCGAATCT
1 GATCTTCACGAAAGAGTAGT-GAATCAAATCAACCTCGAATCT
* *
10431688 GATCTTCACGAAAGAGTAGTGAAGT--AATACAACCTCGAGTTT
1 GATCTTCACGAAAGAGTAGTGAA-TCAAAT-CAACCTCGAATCT
* *
10431730 GATCTTCACGGAGGAGTAGTGAA
1 GATCTTCACGAAAGAGTAGTGAA
10431753 ACAGATTCTT
Statistics
Matches: 58, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
41 3 0.05
42 35 0.60
43 20 0.34
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (42 bp):
GATCTTCACGAAAGAGTAGTGAATCAAATCAACCTCGAATCT
Found at i:10431831 original size:41 final size:36
Alignment explanation
Indices: 10431774--10431877 Score: 127
Period size: 36 Copynumber: 2.8 Consensus size: 36
10431764 TTAAGTCATT
* *
10431774 TTCAACCTTCATGGAAGAGTAGTGAAGTAAAGAGATGGAAA
1 TTCAACCTTCACGGAAGAGTAGTGAAGT----A-ATGCAAA
*
10431815 TTCAACCTTCACGGAAGAGTAGTGGAGTAATGCAAA
1 TTCAACCTTCACGGAAGAGTAGTGAAGTAATGCAAA
*
10431851 TTCAGCCTTCACGGAAGAGTAGTGAAG
1 TTCAACCTTCACGGAAGAGTAGTGAAG
10431878 CAAATCATTT
Statistics
Matches: 58, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
36 31 0.53
37 1 0.02
41 26 0.45
ACGTcount: A:0.37, C:0.14, G:0.27, T:0.22
Consensus pattern (36 bp):
TTCAACCTTCACGGAAGAGTAGTGAAGTAATGCAAA
Found at i:10446884 original size:17 final size:18
Alignment explanation
Indices: 10446864--10446905 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 18
10446854 CGAATCAATT
10446864 CGAGCAAC-TTTTTTTAA
1 CGAGCAACATTTTTTTAA
10446881 CGAGCAACAATTTTTTTAA
1 CGAGCAAC-ATTTTTTTAA
10446900 CGAGCA
1 CGAGCA
10446906 CGAGTCAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 8 0.35
19 15 0.65
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.33
Consensus pattern (18 bp):
CGAGCAACATTTTTTTAA
Found at i:10451182 original size:2 final size:2
Alignment explanation
Indices: 10451175--10451211 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
10451165 AATGTACTGT
10451175 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10451212 CAAAATTATT
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:10451853 original size:22 final size:24
Alignment explanation
Indices: 10451828--10451883 Score: 66
Period size: 22 Copynumber: 2.5 Consensus size: 24
10451818 AAAACGTTTC
*
10451828 ATAAAGACATAA-A-AAATGTGTT
1 ATAAAGACATAAGATAAATGTCTT
*
10451850 ATAAAGACAGAAGATAAATGTCTT
1 ATAAAGACATAAGATAAATGTCTT
10451874 A-AAA-ACATAA
1 ATAAAGACATAA
10451884 TTATCAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 16 0.55
23 4 0.14
24 9 0.31
ACGTcount: A:0.57, C:0.07, G:0.12, T:0.23
Consensus pattern (24 bp):
ATAAAGACATAAGATAAATGTCTT
Found at i:10455451 original size:17 final size:17
Alignment explanation
Indices: 10455429--10455464 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
10455419 TGGATTAAAG
10455429 CTCGATGCAAGCTCGAA
1 CTCGATGCAAGCTCGAA
*
10455446 CTCGATTCAAGCTCGAA
1 CTCGATGCAAGCTCGAA
10455463 CT
1 CT
10455465 TAAGCTAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (17 bp):
CTCGATGCAAGCTCGAA
Found at i:10456812 original size:28 final size:28
Alignment explanation
Indices: 10456771--10456840 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 28
10456761 CATAATCGGA
*
10456771 TTAAGGGCTTAGGGATTAAGGATTATGGT
1 TTAA-GGCTTAGGGATTAAGGATTAAGGT
* * *
10456800 TTAAGGCTTAGGGCTTAGGGTTTAAGGT
1 TTAAGGCTTAGGGATTAAGGATTAAGGT
*
10456828 TTAAGGTTTAGGG
1 TTAAGGCTTAGGG
10456841 TTCATTACAA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
28 32 0.89
29 4 0.11
ACGTcount: A:0.24, C:0.04, G:0.36, T:0.36
Consensus pattern (28 bp):
TTAAGGCTTAGGGATTAAGGATTAAGGT
Found at i:10456823 original size:21 final size:21
Alignment explanation
Indices: 10456786--10456842 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
10456776 GGCTTAGGGA
* *
10456786 TTAAGGATTATGGTTTAAGGC
1 TTAAGGCTTAGGGTTTAAGGC
* *
10456807 TTAGGGCTTAGGGTTTAAGGT
1 TTAAGGCTTAGGGTTTAAGGC
*
10456828 TTAAGGTTTAGGGTT
1 TTAAGGCTTAGGGTT
10456843 CATTACAAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.23, C:0.04, G:0.33, T:0.40
Consensus pattern (21 bp):
TTAAGGCTTAGGGTTTAAGGC
Found at i:10456834 original size:7 final size:7
Alignment explanation
Indices: 10456786--10456842 Score: 51
Period size: 7 Copynumber: 8.1 Consensus size: 7
10456776 GGCTTAGGGA
*
10456786 TTAAGGA
1 TTAAGGT
*
10456793 TTATGGT
1 TTAAGGT
*
10456800 TTAAGGC
1 TTAAGGT
* *
10456807 TTAGGGC
1 TTAAGGT
*
10456814 TTAGGGT
1 TTAAGGT
10456821 TTAAGGT
1 TTAAGGT
10456828 TTAAGGT
1 TTAAGGT
*
10456835 TTAGGGT
1 TTAAGGT
10456842 T
1 T
10456843 CATTACAAAT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 42 1.00
ACGTcount: A:0.23, C:0.04, G:0.33, T:0.40
Consensus pattern (7 bp):
TTAAGGT
Found at i:10456837 original size:14 final size:14
Alignment explanation
Indices: 10456779--10456842 Score: 65
Period size: 14 Copynumber: 4.6 Consensus size: 14
10456769 GATTAAGGGC
* *
10456779 TTAGGGATTAAGGA
1 TTAGGGTTTAAGGT
* *
10456793 TTATGGTTTAAGGC
1 TTAGGGTTTAAGGT
* *
10456807 TTAGGGCTTAGGGT
1 TTAGGGTTTAAGGT
*
10456821 TTAAGGTTTAAGGT
1 TTAGGGTTTAAGGT
10456835 TTAGGGTT
1 TTAGGGTT
10456843 CATTACAAAT
Statistics
Matches: 39, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
14 39 1.00
ACGTcount: A:0.23, C:0.03, G:0.34, T:0.39
Consensus pattern (14 bp):
TTAGGGTTTAAGGT
Found at i:10457940 original size:20 final size:19
Alignment explanation
Indices: 10457910--10457950 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
10457900 TGATTCATAT
10457910 AAAAATAAAT-ATTTAATTA
1 AAAAATAAATAATTT-ATTA
10457929 AAAAATATAATAATTTATTA
1 AAAAATA-AATAATTTATTA
10457949 AA
1 AA
10457951 TATTTAATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.35
20 9 0.45
21 4 0.20
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAAATAAATAATTTATTA
Found at i:10461020 original size:2 final size:2
Alignment explanation
Indices: 10461013--10461048 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
10461003 AATCCCTAAG
10461013 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10461049 AATTATTAGG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:10465339 original size:2 final size:2
Alignment explanation
Indices: 10465332--10465359 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
10465322 GAGAAGAGGC
10465332 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
10465360 AACTTTCGGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10466412 original size:2 final size:2
Alignment explanation
Indices: 10466405--10466437 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
10466395 CAGTCATACG
10466405 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 A
10466438 AATCCATATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10466695 original size:31 final size:31
Alignment explanation
Indices: 10466629--10466716 Score: 99
Period size: 31 Copynumber: 2.9 Consensus size: 31
10466619 GAAGGACCTA
** *
10466629 TCCATATGT-TCCGAAGAACATAGGT-AACTG
1 TCCATATGTCTCAAAAG-ACATAGGTAAATTG
* *
10466659 TCCATATGTCTCGAAAGACATATGTAAATTG
1 TCCATATGTCTCAAAAGACATAGGTAAATTG
*
10466690 TCCATATGTCTTAAAAGACATAGGTAA
1 TCCATATGTCTCAAAAGACATAGGTAA
10466717 TGTAACCCCC
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
30 16 0.33
31 33 0.67
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (31 bp):
TCCATATGTCTCAAAAGACATAGGTAAATTG
Found at i:10467508 original size:24 final size:24
Alignment explanation
Indices: 10467478--10467591 Score: 115
Period size: 24 Copynumber: 4.8 Consensus size: 24
10467468 AAACATAATT
*
10467478 CATGTCAAGTATCATATCAAAATC
1 CATGTCAAGTATCAGATCAAAATC
* * *
10467502 CAGGTCAAGTATCAGATCAGAATA
1 CATGTCAAGTATCAGATCAAAATC
* * *
10467526 CAAGTTAAGTATAAGATCAAAATC
1 CATGTCAAGTATCAGATCAAAATC
* *
10467550 CATGTC-AGATATAAGATCATAATC
1 CATGTCAAG-TATCAGATCAAAATC
*
10467574 CATATCAAGTATCA-ATCA
1 CATGTCAAGTATCAGATCA
10467592 GAATTCAAAT
Statistics
Matches: 74, Mismatches: 14, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
23 6 0.08
24 66 0.89
25 2 0.03
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.26
Consensus pattern (24 bp):
CATGTCAAGTATCAGATCAAAATC
Found at i:10467626 original size:72 final size:72
Alignment explanation
Indices: 10467474--10467626 Score: 159
Period size: 72 Copynumber: 2.1 Consensus size: 72
10467464 ATTAAAACAT
* * * * *
10467474 AATTCATGTCAAGTATCATATCAAAATCCAGGTCAAGTATCAGATCAGAATACAAGTTAAGTATA
1 AATTCATGTCAAGTATAAGATCAAAATCCAGATCAAGTATCAGATCAGAATACAAATTAAGAATA
*
10467539 AGATCAA
66 AGATAAA
* * * *
10467546 AATCCATGTC-AGATATAAGATCATAATCCATATCAAGTATCA-ATCAGAATTCAAATTGAA-AA
1 AATTCATGTCAAG-TATAAGATCAAAATCCAGATCAAGTATCAGATCAGAATACAAATT-AAGAA
*
10467608 TCAGATAAA
64 TAAGATAAA
10467617 ATATTCATGT
1 A-ATTCATGT
10467627 GAGTAGGGAA
Statistics
Matches: 66, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
71 24 0.36
72 42 0.64
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (72 bp):
AATTCATGTCAAGTATAAGATCAAAATCCAGATCAAGTATCAGATCAGAATACAAATTAAGAATA
AGATAAA
Found at i:10472009 original size:35 final size:35
Alignment explanation
Indices: 10471961--10472034 Score: 114
Period size: 35 Copynumber: 2.1 Consensus size: 35
10471951 CATCACGTCC
* *
10471961 AGTAAGGCCCTGAGCACAAAGCCGAA-GAGCCTGCA
1 AGTAAGGCACTGAGCACAAAGCC-AAGGAGCCTCCA
10471996 AGTAAGGCACTGAGCACAAAGCCAAGGAGCCTCCA
1 AGTAAGGCACTGAGCACAAAGCCAAGGAGCCTCCA
10472031 AGTA
1 AGTA
10472035 TTCTTCCTCC
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
34 2 0.06
35 34 0.94
ACGTcount: A:0.36, C:0.27, G:0.27, T:0.09
Consensus pattern (35 bp):
AGTAAGGCACTGAGCACAAAGCCAAGGAGCCTCCA
Found at i:10472123 original size:24 final size:24
Alignment explanation
Indices: 10472110--10472223 Score: 142
Period size: 24 Copynumber: 4.8 Consensus size: 24
10472100 AAACATAATT
*
10472110 CATGTCAAGTATCATATCAAAATC
1 CATGTCAAGTATCAGATCAAAATC
* * *
10472134 CAGGTCAAGTATCAGATCAGAATA
1 CATGTCAAGTATCAGATCAAAATC
* *
10472158 CAAGTCAAGTATCAGATCAAAATT
1 CATGTCAAGTATCAGATCAAAATC
*
10472182 CATGTC-AGATATCAGATCAGAATC
1 CATGTCAAG-TATCAGATCAAAATC
10472206 CATGTCAAGTATCA-ATCA
1 CATGTCAAGTATCAGATCA
10472224 GTATTCAAAT
Statistics
Matches: 78, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
23 6 0.08
24 70 0.90
25 2 0.03
ACGTcount: A:0.41, C:0.19, G:0.14, T:0.25
Consensus pattern (24 bp):
CATGTCAAGTATCAGATCAAAATC
Found at i:10478113 original size:16 final size:16
Alignment explanation
Indices: 10478092--10478124 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
10478082 CACATGAGGA
10478092 TTATTTTCTTTTCATT
1 TTATTTTCTTTTCATT
*
10478108 TTATTTTCTTTTTATT
1 TTATTTTCTTTTCATT
10478124 T
1 T
10478125 ACTGTTTTTA
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:0.12, C:0.09, G:0.00, T:0.79
Consensus pattern (16 bp):
TTATTTTCTTTTCATT
Found at i:10480856 original size:22 final size:22
Alignment explanation
Indices: 10480833--10480875 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
10480823 GTCGTGAGTG
*
10480833 TTTATTTGTTTATTTTTATTTGT
1 TTTATTT-TTTATCTTTATTTGT
10480856 TTTATTTTTTATCTTTATTT
1 TTTATTTTTTATCTTTATTT
10480876 TTAATATTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.14, C:0.02, G:0.05, T:0.79
Consensus pattern (22 bp):
TTTATTTTTTATCTTTATTTGT
Found at i:10480861 original size:15 final size:14
Alignment explanation
Indices: 10480833--10480878 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
10480823 GTCGTGAGTG
10480833 TTTATTTGTTTATT
1 TTTATTTGTTTATT
10480847 TTTATTTGTTTTATT
1 TTTATTTG-TTTATT
* *
10480862 TTT-TATCTTTATT
1 TTTATTTGTTTATT
10480875 TTTA
1 TTTA
10480879 ATATTAGTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 9 0.32
14 10 0.36
15 9 0.32
ACGTcount: A:0.15, C:0.02, G:0.04, T:0.78
Consensus pattern (14 bp):
TTTATTTGTTTATT
Found at i:10480883 original size:22 final size:23
Alignment explanation
Indices: 10480831--10480883 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 23
10480821 TTGTCGTGAG
*
10480831 TGTT-TATTTGTTTATTTTTATT
1 TGTTATATTTGTTTATCTTTATT
*
10480853 TGTTTTATTT-TTTATCTTTATT
1 TGTTATATTTGTTTATCTTTATT
10480875 T-TTAATATT
1 TGTT-ATATT
10480884 AGTTATTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 2 0.07
22 20 0.74
23 5 0.19
ACGTcount: A:0.17, C:0.02, G:0.06, T:0.75
Consensus pattern (23 bp):
TGTTATATTTGTTTATCTTTATT
Found at i:10482829 original size:16 final size:16
Alignment explanation
Indices: 10482798--10482842 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
10482788 TATCTCGTAT
10482798 CATATAACATGT-ATCA
1 CATAT-ACATGTAATCA
*
10482814 CTTATACATGTAATCA
1 CATATACATGTAATCA
10482830 CATATATCATGTA
1 CATATA-CATGTA
10482843 TACATTCCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 6 0.24
16 13 0.52
17 6 0.24
ACGTcount: A:0.40, C:0.18, G:0.07, T:0.36
Consensus pattern (16 bp):
CATATACATGTAATCA
Found at i:10487606 original size:31 final size:31
Alignment explanation
Indices: 10487538--10487625 Score: 101
Period size: 31 Copynumber: 2.9 Consensus size: 31
10487528 GAAAGACCTA
10487538 TCCATATGT-TCCG-AAGAACATAGGT-AACTG
1 TCCATATGTCT-CGAAAG-ACATAGGTAAACTG
* *
10487568 TCCATATGTCTCGAAAGACATAGGTAAATTT
1 TCCATATGTCTCGAAAGACATAGGTAAACTG
* *
10487599 TCCATATGTCTCGAAAGATATACGTAA
1 TCCATATGTCTCGAAAGACATAGGTAA
10487626 CCCTCGACTC
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
30 19 0.37
31 32 0.63
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (31 bp):
TCCATATGTCTCGAAAGACATAGGTAAACTG
Found at i:10487785 original size:16 final size:16
Alignment explanation
Indices: 10487754--10487798 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
10487744 TATCTCGTAT
10487754 CATATAACATGT-ATCA
1 CATAT-ACATGTAATCA
*
10487770 CTTATACATGTAATCA
1 CATATACATGTAATCA
10487786 CATATATCATGTA
1 CATATA-CATGTA
10487799 TGCATTCCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 6 0.24
16 13 0.52
17 6 0.24
ACGTcount: A:0.40, C:0.18, G:0.07, T:0.36
Consensus pattern (16 bp):
CATATACATGTAATCA
Found at i:10493555 original size:31 final size:31
Alignment explanation
Indices: 10493338--10493540 Score: 370
Period size: 31 Copynumber: 6.5 Consensus size: 31
10493328 AGGGTCGAGG
10493338 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
10493369 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
10493400 ATTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
10493431 GTTTACCTATGTTCTTAGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
10493462 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
10493493 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
10493524 GATTACCTAGGTTCTTC
1 GTTTACCTATGTTCTTC
10493541 AGAATCTATG
Statistics
Matches: 166, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 166 1.00
ACGTcount: A:0.20, C:0.19, G:0.22, T:0.39
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:10494061 original size:21 final size:21
Alignment explanation
Indices: 10494036--10494078 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
10494026 AAAGAATATA
10494036 TTGTATAA-GCTCTGAATAATT
1 TTGTA-AATGCTCTGAATAATT
* *
10494057 TTGTAAATGTTTTGAATAATT
1 TTGTAAATGCTCTGAATAATT
10494078 T
1 T
10494079 AAATGTTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.33, C:0.05, G:0.14, T:0.49
Consensus pattern (21 bp):
TTGTAAATGCTCTGAATAATT
Found at i:10496624 original size:19 final size:18
Alignment explanation
Indices: 10496600--10496702 Score: 80
Period size: 19 Copynumber: 5.9 Consensus size: 18
10496590 AGAATATCCA
10496600 GGGGGTA-CAGATTCCCCT
1 GGGGGTATC-GATTCCCCT
10496618 GGGGGGTATCGATTCCCC-
1 -GGGGGTATCGATTCCCCT
*
10496636 --GGG-AACAGATTCCCCT
1 GGGGGTATC-GATTCCCCT
10496652 GGGGGGTATCGATTCCCC-
1 -GGGGGTATCGATTCCCCT
*
10496670 --GGG-AACAGATTCCCCT
1 GGGGGTATC-GATTCCCCT
10496686 GGGGGTATCGATTCCCC
1 GGGGGTATCGATTCCCC
10496703 CTAAATAAAA
Statistics
Matches: 68, Mismatches: 4, Indels: 25
0.70 0.04 0.26
Matches are distributed among these distances:
14 4 0.06
15 22 0.32
18 11 0.16
19 28 0.41
20 3 0.04
ACGTcount: A:0.17, C:0.29, G:0.33, T:0.21
Consensus pattern (18 bp):
GGGGGTATCGATTCCCCT
Found at i:10496648 original size:15 final size:15
Alignment explanation
Indices: 10496628--10496684 Score: 53
Period size: 15 Copynumber: 3.5 Consensus size: 15
10496618 GGGGGGTATC
10496628 GATTCCCCGGGAACA
1 GATTCCCCGGGAACA
*
10496643 GATTCCCCTGGGGGGTATC-
1 GATTCCCC----GGG-AACA
10496662 GATTCCCCGGGAACA
1 GATTCCCCGGGAACA
10496677 GATTCCCC
1 GATTCCCC
10496685 TGGGGGTATC
Statistics
Matches: 34, Mismatches: 2, Indels: 12
0.71 0.04 0.25
Matches are distributed among these distances:
14 2 0.06
15 19 0.56
19 11 0.32
20 2 0.06
ACGTcount: A:0.19, C:0.33, G:0.28, T:0.19
Consensus pattern (15 bp):
GATTCCCCGGGAACA
Found at i:10496695 original size:33 final size:34
Alignment explanation
Indices: 10496606--10496702 Score: 187
Period size: 34 Copynumber: 2.9 Consensus size: 34
10496596 TCCAGGGGGT
10496606 ACAGATTCCCCTGGGGGGTATCGATTCCCCGGGA
1 ACAGATTCCCCTGGGGGGTATCGATTCCCCGGGA
10496640 ACAGATTCCCCTGGGGGGTATCGATTCCCCGGGA
1 ACAGATTCCCCTGGGGGGTATCGATTCCCCGGGA
10496674 ACAGATTCCCCT-GGGGGTATCGATTCCCC
1 ACAGATTCCCCTGGGGGGTATCGATTCCCC
10496703 CTAAATAAAA
Statistics
Matches: 63, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
33 17 0.27
34 46 0.73
ACGTcount: A:0.18, C:0.31, G:0.30, T:0.22
Consensus pattern (34 bp):
ACAGATTCCCCTGGGGGGTATCGATTCCCCGGGA
Found at i:10496763 original size:20 final size:20
Alignment explanation
Indices: 10496738--10496802 Score: 80
Period size: 20 Copynumber: 3.3 Consensus size: 20
10496728 CATTAAACCG
10496738 GTTTAAGTTATTAACATCAA
1 GTTTAAGTTATTAACATCAA
* **
10496758 GTTTAAATTCATTAA-A-CCG
1 GTTTAAGTT-ATTAACATCAA
10496777 GTTTAAGTTATTAACATCAA
1 GTTTAAGTTATTAACATCAA
10496797 GTTTAA
1 GTTTAA
10496803 AGTTTAGGCT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
18 5 0.14
19 10 0.28
20 16 0.44
21 5 0.14
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.40
Consensus pattern (20 bp):
GTTTAAGTTATTAACATCAA
Found at i:10496779 original size:39 final size:39
Alignment explanation
Indices: 10496725--10496803 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
10496715 ATGGAATTTT
10496725 ATTCATTAAACCGGTTTAAGTTATTAACATCAAGTTTAA
1 ATTCATTAAACCGGTTTAAGTTATTAACATCAAGTTTAA
10496764 ATTCATTAAACCGGTTTAAGTTATTAACATCAAGTTTAA
1 ATTCATTAAACCGGTTTAAGTTATTAACATCAAGTTTAA
10496803 A
1 A
10496804 GTTTAGGCTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.39, C:0.13, G:0.10, T:0.38
Consensus pattern (39 bp):
ATTCATTAAACCGGTTTAAGTTATTAACATCAAGTTTAA
Found at i:10497729 original size:31 final size:31
Alignment explanation
Indices: 10497691--10497908 Score: 357
Period size: 31 Copynumber: 7.0 Consensus size: 31
10497681 AGGGTCGAGG
*
10497691 GTTTACCTATGTTCTTCGGGACATATGGATT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
10497722 GTTTACCTATGTTCTTCAGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
10497753 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
10497784 GTTTACCTATGTTCTTAGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
10497815 ATTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
10497846 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * *
10497877 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
10497908 G
1 G
10497909 GTCCTTCGGG
Statistics
Matches: 176, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
31 175 0.99
32 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.39
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:10504986 original size:2 final size:2
Alignment explanation
Indices: 10504979--10505005 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
10504969 CTGCAGATTA
10504979 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 A
10505006 CTCTGTAACC
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10509769 original size:15 final size:15
Alignment explanation
Indices: 10509751--10509795 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
10509741 GATCCGACCC
*
10509751 GACCCGTTGACCGTT
1 GACCCGTTGACCATT
10509766 GACCCGTTGACCATT
1 GACCCGTTGACCATT
10509781 GACCGACGTTGACCA
1 GACC--CGTTGACCA
10509796 CTATTGACCA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 18 0.67
17 9 0.33
ACGTcount: A:0.20, C:0.33, G:0.24, T:0.22
Consensus pattern (15 bp):
GACCCGTTGACCATT
Found at i:10514747 original size:43 final size:43
Alignment explanation
Indices: 10514681--10515096 Score: 657
Period size: 43 Copynumber: 9.8 Consensus size: 43
10514671 TTAATTACCG
*
10514681 TTACAGTTCCCCCAGGTCCCTTTGTTGTGTGCAAGGGTAAGCC
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
* *
10514724 TTACAGTTCCCCCAGGTCTCTTTGTTGTGTGCAAGGGTAAGCC
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
10514767 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
*
10514810 TTACAGTTTCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
10514853 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
10514896 TTACAGTTCCCCCAGGTCCC-TT--TGTGTGCAA-GGT-AGCC
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
* * *
10514934 TTACAGTTCCCTCATGTCCCTTTACTGTGTGCAAGGGTAAGCC
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
10514977 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
* * *
10515020 TTACAGTT-TCCCAGGTTCCTTTGTTGTGTGCAAGGGTAAGCC
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
* * *
10515062 TTACAGTTTCCCCAGG-CTCTTTTGCTATGTGCAAG
1 TTACAGTTCCCCCAGGTC-CCTTTGCTGTGTGCAAG
10515097 TATAAGACCT
Statistics
Matches: 348, Mismatches: 18, Indels: 14
0.92 0.05 0.04
Matches are distributed among these distances:
38 22 0.06
39 5 0.01
40 9 0.03
41 9 0.03
42 44 0.13
43 259 0.74
ACGTcount: A:0.17, C:0.28, G:0.25, T:0.31
Consensus pattern (43 bp):
TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
Found at i:10520044 original size:42 final size:43
Alignment explanation
Indices: 10519985--10520214 Score: 383
Period size: 42 Copynumber: 5.6 Consensus size: 43
10519975 GTGCAAGGGT
10519985 CAGTTCCCCCAGGTCCCTTTGCTGTGTGCAA-GGTAAGCCTTA
1 CAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTA
10520027 CAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTA
1 CAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTA
10520070 C-GTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTA
1 CAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTA
10520112 CAGTTCCCCCAGGTCCC-TTGCTGTGTGCAAGGGTAAGCCTTA
1 CAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTA
10520154 CAGTT--CCCAGGT-CC-TTGCTGTGTGCAAGGGTAAGCC-TA
1 CAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTA
10520192 CAGTT-CCCCAGGT--CTTTGCTGTG
1 CAGTTCCCCCAGGTCCCTTTGCTGTG
10520215 CAAGTATAAG
Statistics
Matches: 184, Mismatches: 0, Indels: 11
0.94 0.00 0.06
Matches are distributed among these distances:
38 8 0.04
39 39 0.21
40 7 0.04
42 103 0.56
43 27 0.15
ACGTcount: A:0.16, C:0.30, G:0.26, T:0.28
Consensus pattern (43 bp):
CAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTA
Found at i:10522257 original size:13 final size:13
Alignment explanation
Indices: 10522239--10522269 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
10522229 ACCCGATCCG
*
10522239 ACCCGACCCGTTT
1 ACCCGACCCGTTA
10522252 ACCCGACCCGTTA
1 ACCCGACCCGTTA
10522265 ACCCG
1 ACCCG
10522270 TTGACCGTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.19, C:0.48, G:0.16, T:0.16
Consensus pattern (13 bp):
ACCCGACCCGTTA
Found at i:10525254 original size:43 final size:43
Alignment explanation
Indices: 10525039--10525494 Score: 716
Period size: 43 Copynumber: 10.8 Consensus size: 43
10525029 GGATTAATCG
*
10525039 TTACAGTT--CCCAGGTCTCTTTGCTGTGTGCAAGGGTAAGCC
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
*
10525080 TTACAGTT--CCCAGGTCTCTTTGCTGTGTGCAAGGGTAAGCC
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
10525121 TTACAGTTCCCCCA-GTCCCTTTGCTGTGTGCAAGGGTAAGCC
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
*
10525163 TTACAGTTCCCCCAGGTCCCTTTGCTG-GTACAAGGGTAAGCC
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
*
10525205 TTACAGTTCCCCCAGGTCCCTTTGATGTGTGCAAGGGTAAGCC
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
10525248 TTACAGTTCCCCCA-GT-CCTTTGCTGTGTGCAAGGGTAAGCC
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
* * *
10525289 TTACAGTTCCCTCATGTCCCTTTACTGTGTGCAAGGGTAAGCC
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
*
10525332 TTACAGTTCCCCCAGGTCTCTTTGCTGTGTGCAAGGGTAAGCC
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
10525375 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
* *
10525418 TTACAGTT-TCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCC
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
* * *
10525460 TTACAGTTTCCCCAGG-CTCTTTTGCTATGTGCAAG
1 TTACAGTTCCCCCAGGTC-CCTTTGCTGTGTGCAAG
10525495 TATAAGACCT
Statistics
Matches: 389, Mismatches: 18, Indels: 14
0.92 0.04 0.03
Matches are distributed among these distances:
41 86 0.22
42 125 0.32
43 178 0.46
ACGTcount: A:0.17, C:0.28, G:0.25, T:0.30
Consensus pattern (43 bp):
TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
Found at i:10525324 original size:127 final size:127
Alignment explanation
Indices: 10525039--10525494 Score: 744
Period size: 127 Copynumber: 3.6 Consensus size: 127
10525029 GGATTAATCG
*
10525039 TTACAGTT-CCCAGGTCTCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTT--CCCAGGTCTCTTT
1 TTACAGTTCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTCCCCCAGGTCTCTTT
10525101 GCTGTGTGCAAGGGTAAGCCTTACAGTTCCCCCAGTCCCTTTGCTGTGTGCAAGGGTAAGCC
66 GCTGTGTGCAAGGGTAAGCCTTACAGTTCCCCCAGTCCCTTTGCTGTGTGCAAGGGTAAGCC
* *
10525163 TTACAGTTCCCCCAGGTCCCTTTGCTG-GTACAAGGGTAAGCCTTACAGTTCCCCCAGGTCCCTT
1 TTACAGTT-CCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTCCCCCAGGTCTCTT
*
10525227 TGATGTGTGCAAGGGTAAGCCTTACAGTTCCCCCAGT-CCTTTGCTGTGTGCAAGGGTAAGCC
65 TGCTGTGTGCAAGGGTAAGCCTTACAGTTCCCCCAGTCCCTTTGCTGTGTGCAAGGGTAAGCC
* *
10525289 TTACAGTTCCCTCATGTCCCTTTACTGTGTGCAAGGGTAAGCCTTACAGTTCCCCCAGGTCTCTT
1 TTACAGTTCCC-CAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTCCCCCAGGTCTCTT
10525354 TGCTGTGTGCAAGGGTAAGCCTTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
65 TGCTGTGTGCAAGGGTAAGCCTTACAGTTCCCCCA-GTCCCTTTGCTGTGTGCAAGGGTAAGCC
* * *
10525418 TTACAGTTTCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCAGG-CTCTTT
1 TTACAGTTCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTCCCCCAGGTCTC-TT
*
10525482 TGCTATGTGCAAG
65 TGCTGTGTGCAAG
10525495 TATAAGACCT
Statistics
Matches: 308, Mismatches: 15, Indels: 14
0.91 0.04 0.04
Matches are distributed among these distances:
124 8 0.03
125 25 0.08
126 62 0.20
127 119 0.39
128 59 0.19
129 35 0.11
ACGTcount: A:0.17, C:0.28, G:0.25, T:0.30
Consensus pattern (127 bp):
TTACAGTTCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTCCCCCAGGTCTCTTT
GCTGTGTGCAAGGGTAAGCCTTACAGTTCCCCCAGTCCCTTTGCTGTGTGCAAGGGTAAGCC
Done.