Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 57 of 352
Found at i:18126513 original size:46 final size:45
Alignment explanation
Indices: 18126460--18126634 Score: 176
Period size: 46 Copynumber: 3.8 Consensus size: 45
18126450 TGTTTGGGCA
18126460 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-ATGCGAATG
* * *
18126506 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGATGCGAA-T--G
* *
18126551 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAT-GATGCGAATG
* * * * *
18126599 CCCGAGCTCATTGAGTTGAGTCTGAGTTCGCTTATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG
18126635 GGCGGGTTAC
Statistics
Matches: 107, Mismatches: 13, Indels: 19
0.77 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 4 0.04
46 58 0.54
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGATGCGAATG
Found at i:18126575 original size:47 final size:43
Alignment explanation
Indices: 18126456--18126584 Score: 152
Period size: 47 Copynumber: 2.8 Consensus size: 43
18126446 AGGATGTTTG
*
18126456 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAAT
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGATGAAT
* *
18126499 GCGAATGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAGATGTAACT
1 G-GCA--TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--GATG-AA-T
18126548 AGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT
1 -GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT
18126585 CATGGATGCG
Statistics
Matches: 72, Mismatches: 5, Indels: 13
0.80 0.06 0.14
Matches are distributed among these distances:
43 1 0.01
44 2 0.03
45 1 0.01
46 29 0.40
47 32 0.44
48 3 0.04
49 3 0.04
50 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (43 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGATGAAT
Found at i:18126615 original size:93 final size:93
Alignment explanation
Indices: 18126456--18126628 Score: 283
Period size: 93 Copynumber: 1.9 Consensus size: 93
18126446 AGGATGTTTG
* * * *
18126456 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGAATGCGAACGCCCGAACTCATTGAG
18126521 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
18126549 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGAATGCGAACGCCCGAACTCATTGAG
*
18126614 TTGAGTCTGAGTTCG
66 TTGAGTCCGAGTTCG
18126629 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGAATGCGAACGCCCGAACTCATTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:18128876 original size:15 final size:15
Alignment explanation
Indices: 18128850--18128910 Score: 68
Period size: 15 Copynumber: 4.0 Consensus size: 15
18128840 TTAAACTCAA
18128850 CACTTAATTTTTTTAG
1 CACTT-ATTTTTTTAG
* * *
18128866 TAATTATTTTTTTAA
1 CACTTATTTTTTTAG
*
18128881 CACTTATTTTTTCAG
1 CACTTATTTTTTTAG
*
18128896 CACTTAATTTTTTAG
1 CACTTATTTTTTTAG
18128911 TTTATCAAAC
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
15 33 0.92
16 3 0.08
ACGTcount: A:0.26, C:0.11, G:0.05, T:0.57
Consensus pattern (15 bp):
CACTTATTTTTTTAG
Found at i:18128906 original size:31 final size:31
Alignment explanation
Indices: 18128848--18128909 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 31
18128838 ACTTAAACTC
* *
18128848 AACACTTAATTTTTTTAGTAATTATTTTTTT
1 AACACTTAATTTTTTCAGCAATTATTTTTTT
* *
18128879 AACACTT-ATTTTTTCAGCACTTAATTTTTT
1 AACACTTAATTTTTTCAGCAATTATTTTTTT
18128909 A
1 A
18128910 GTTTATCAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
30 20 0.74
31 7 0.26
ACGTcount: A:0.29, C:0.11, G:0.03, T:0.56
Consensus pattern (31 bp):
AACACTTAATTTTTTCAGCAATTATTTTTTT
Found at i:18129142 original size:31 final size:31
Alignment explanation
Indices: 18129055--18129144 Score: 94
Period size: 30 Copynumber: 2.9 Consensus size: 31
18129045 ATGATCGAAG
* * *
18129055 TGATAGAATTTGTAAATATAGAGAATTAAAT
1 TGATAGAATTTGTAAATATTGAGGATAAAAT
* * *
18129086 TTATTGAATTTTTTAAA-ATT-AGGATAAAAT
1 TGATAGAA-TTTGTAAATATTGAGGATAAAAT
*
18129116 TGATAGAATGTGTAAATATTGAGGATAAA
1 TGATAGAATTTGTAAATATTGAGGATAAA
18129145 TATGTTATTA
Statistics
Matches: 46, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
29 6 0.13
30 17 0.37
31 16 0.35
32 7 0.15
ACGTcount: A:0.46, C:0.00, G:0.17, T:0.38
Consensus pattern (31 bp):
TGATAGAATTTGTAAATATTGAGGATAAAAT
Found at i:18136907 original size:24 final size:24
Alignment explanation
Indices: 18136880--18136927 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
18136870 CTTTAGGAGT
18136880 ATGTTTATTTTCTGTAATTGCTAA
1 ATGTTTATTTTCTGTAATTGCTAA
18136904 ATGTTTATTTTCTGTAATTGCTAA
1 ATGTTTATTTTCTGTAATTGCTAA
18136928 CATTCTGCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.08, G:0.12, T:0.54
Consensus pattern (24 bp):
ATGTTTATTTTCTGTAATTGCTAA
Found at i:18147659 original size:67 final size:68
Alignment explanation
Indices: 18147551--18147687 Score: 258
Period size: 67 Copynumber: 2.0 Consensus size: 68
18147541 CCATACCTCA
*
18147551 TAACAAAGAAGACACTTAATCTATCAACCACCACTTCTCTCTTTCAACTGATCTCTCTTA-GGAT
1 TAACAAAGAAGACACTTAATCTATCAACCACCACTTCTCTCTTTCAACTAATCTCTCTTAGGGAT
18147615 GTG
66 GTG
18147618 TAACAAAGAAGACACTTAATCTATCAACCACCACTTCTCTCTTTCAACTAATCTCTCTTAGGGAT
1 TAACAAAGAAGACACTTAATCTATCAACCACCACTTCTCTCTTTCAACTAATCTCTCTTAGGGAT
18147683 GTG
66 GTG
18147686 TA
1 TA
18147688 GTCGGTTAAC
Statistics
Matches: 68, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
67 59 0.87
68 9 0.13
ACGTcount: A:0.32, C:0.26, G:0.10, T:0.31
Consensus pattern (68 bp):
TAACAAAGAAGACACTTAATCTATCAACCACCACTTCTCTCTTTCAACTAATCTCTCTTAGGGAT
GTG
Found at i:18147826 original size:9 final size:9
Alignment explanation
Indices: 18147809--18147856 Score: 60
Period size: 9 Copynumber: 5.3 Consensus size: 9
18147799 ATTTGGTCGG
18147809 TTAACCGAA
1 TTAACCGAA
*
18147818 TTAATCGAA
1 TTAACCGAA
18147827 TTAACCGAA
1 TTAACCGAA
* *
18147836 TTACCCAAA
1 TTAACCGAA
*
18147845 TTAACAGAA
1 TTAACCGAA
18147854 TTA
1 TTA
18147857 CTTGTATAAA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.46, C:0.19, G:0.08, T:0.27
Consensus pattern (9 bp):
TTAACCGAA
Found at i:18148210 original size:18 final size:18
Alignment explanation
Indices: 18148166--18148201 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
18148156 TTCAGTTAAC
*
18148166 CGATCGATTAACCAAATT
1 CGATCGGTTAACCAAATT
18148184 CGATCGGTTAACCAAATT
1 CGATCGGTTAACCAAATT
18148202 TTTTCGGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (18 bp):
CGATCGGTTAACCAAATT
Found at i:18150411 original size:19 final size:20
Alignment explanation
Indices: 18150389--18150426 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
18150379 ATAAAAAAAT
*
18150389 TAAAATATTTTTAA-AAGTA
1 TAAAATAATTTTAATAAGTA
*
18150408 TAAATTAATTTTAATAAGT
1 TAAAATAATTTTAATAAGT
18150427 GTAATTTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (20 bp):
TAAAATAATTTTAATAAGTA
Found at i:18151158 original size:31 final size:32
Alignment explanation
Indices: 18151117--18151182 Score: 80
Period size: 34 Copynumber: 2.0 Consensus size: 32
18151107 TTTAAATTAA
*
18151117 TTAATTAGATA-AATATTATTTTATTAATATT
1 TTAATGAGATATAATATTATTTTATTAATATT
* *
18151148 TTAATGAGATATTTATTATTATTTTATTATTATT
1 TTAATGAGATA--TAATATTATTTTATTAATATT
18151182 T
1 T
18151183 ATTTAGTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
31 10 0.34
34 19 0.66
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (32 bp):
TTAATGAGATATAATATTATTTTATTAATATT
Found at i:18153372 original size:46 final size:46
Alignment explanation
Indices: 18153320--18153547 Score: 341
Period size: 46 Copynumber: 5.0 Consensus size: 46
18153310 GCTCTCTGAA
*
18153320 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
18153366 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
18153412 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
**
18153458 ATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * *
18153504 A-GAAAGTGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATGAAA-TGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
18153548 TCGAAGATAA
Statistics
Matches: 170, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 4 0.02
46 166 0.98
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.20
Consensus pattern (46 bp):
ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:18153726 original size:26 final size:24
Alignment explanation
Indices: 18153652--18153726 Score: 69
Period size: 26 Copynumber: 2.9 Consensus size: 24
18153642 GAATTGGTCA
*
18153652 TACAAAATGGTTGTATGAAATGTT
1 TACAAAATGGTTGTATGAAATATT
**
18153676 TACAAGAATTGGTCATATGGAAATATAT
1 TACAA-AA-TGGTTGTAT-GAAATAT-T
*
18153704 GTACAAAATAGTTGTATGAAATA
1 -TACAAAATGGTTGTATGAAATA
18153727 ATTAAGAAGA
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
24 5 0.12
25 2 0.05
26 13 0.32
27 12 0.30
28 3 0.08
29 5 0.12
ACGTcount: A:0.43, C:0.05, G:0.19, T:0.33
Consensus pattern (24 bp):
TACAAAATGGTTGTATGAAATATT
Found at i:18155109 original size:18 final size:18
Alignment explanation
Indices: 18155086--18155120 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
18155076 CCCTTTAACC
18155086 TTTTTTATTTTTATTAAT
1 TTTTTTATTTTTATTAAT
* *
18155104 TTTTTTGTTTTTTTTAA
1 TTTTTTATTTTTATTAA
18155121 CATCTACTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (18 bp):
TTTTTTATTTTTATTAAT
Found at i:18160512 original size:24 final size:24
Alignment explanation
Indices: 18160455--18160506 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
18160445 TTTCTAGAAG
* * *
18160455 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
18160479 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATTAGCATAATAT
18160503 ATTT
1 ATTT
18160507 GACATTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:18160517 original size:24 final size:24
Alignment explanation
Indices: 18160472--18160517 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
18160462 ATTTATGAGT
*
18160472 ATAATATATTTAGCATTTATTAGC
1 ATAATATATTTAGCATTGATTAGC
18160496 ATAATATATTT-GACATTGATTA
1 ATAATATATTTAG-CATTGATTA
18160518 AAATTAGGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.39, C:0.07, G:0.09, T:0.46
Consensus pattern (24 bp):
ATAATATATTTAGCATTGATTAGC
Found at i:18168976 original size:156 final size:155
Alignment explanation
Indices: 18168719--18169418 Score: 954
Period size: 156 Copynumber: 4.5 Consensus size: 155
18168709 AAATTAAAAC
* * *
18168719 GGAGAGCGTCAAACTTAAGTTATATCTGTAATCTGAAGGTCGCGTG-TCGATCCACGCTCACCGC
1 GGAGAGCGTCAGACTGAAGATATATCTGTAATCTGAAGGTCGCGTGTTCGATCCACGCTCACCGC
* ** **
18168783 A-ATTTT-TAATTTTTCCTTCATATTT-TGGGCTGCAACAGGTTAGCTCCCTTTTT-TGCAATTT
66 ATATTTTAT-ATTTTTCCTTCAT-TTTCTGGGCTGGAACAGGTTAG-TTTCTTTTTCTGCTCTTT
18168844 TAAAACACAAGCGGGGATAGCTCAGTTG
128 TAAAACACAAGCGGGGATAGCTCAGTTG
*
18168872 GGAGAGCGTCAGACTGAAGATTATATCTGTAATCTGAAGGTCGCGTGTTCAATCCACGCTCACCG
1 GGAGAGCGTCAGACTGAAGA-TATATCTGTAATCTGAAGGTCGCGTGTTCGATCCACGCTCACCG
*
18168937 CA-ATTTTCA-ATTTTTTCCTTCATATTT-TGGGCTGGAACAGGTTAG-TTCTTTTTTCGGCTCT
65 CATATTTT-ATA-TTTTTCCTTCAT-TTTCTGGGCTGGAACAGGTTAGTTTC-TTTTTCTGCTCT
* *
18168998 ATTAAATCACAAGCGGGGATAGCTCAGTTG
126 TTTAAAACACAAGCGGGGATAGCTCAGTTG
* *
18169028 GGAGAGCGTCAGACTGAAGATATACCTGTAATCTGAAGGTCGCGCGTTCGATCCACGCTCACCGC
1 GGAGAGCGTCAGACTGAAGATATATCTGTAATCTGAAGGTCGCGTGTTCGATCCACGCTCACCGC
* *
18169093 ATTATTTTATATTTTTCCTTCATTTTCTGGGGTGGAACAGGTTAATTTCTTTTTCTGCTCTTTCT
66 A-TATTTTATATTTTTCCTTCATTTTCTGGGCTGGAACAGGTTAGTTTCTTTTTCTGCTCTTT-T
** *
18169158 -AAAGTCAAGTGGGGATAGCTCAGTTG
129 AAAACACAAGCGGGGATAGCTCAGTTG
* *
18169184 GGAGAGCGTCAGACTGAAGATGTATCTGTAATCTGAAAGTCGCGTGTTCGATCCACGCTCACCGC
1 GGAGAGCGTCAGACTGAAGATATATCTGTAATCTGAAGGTCGCGTGTTCGATCCACGCTCACCGC
* * *
18169249 ATTATTTTATATTTTTCCTTCATTTTCTGGGGTGGAACAGGTTAGTTTCTTTTTCCGCTCTTTTT
66 A-TATTTTATATTTTTCCTTCATTTTCTGGGCTGGAACAGGTTAGTTTCTTTTTCTGCTCTTTTA
* ** *
18169314 ATAGTCTAGCGGGGATAGCTCAGTTG
130 AAACACAAGCGGGGATAGCTCAGTTG
*
18169340 GGAGAGCGTCAGACTGAAGATGTATCTGTAATCTGAAGGTCGCGTGTTCGATCCACGCTCACCGC
1 GGAGAGCGTCAGACTGAAGATATATCTGTAATCTGAAGGTCGCGTGTTCGATCCACGCTCACCGC
18169405 ATCATTTTAT-TTTT
66 AT-ATTTTATATTTT
18169419 CCAGGTTAGC
Statistics
Matches: 499, Mismatches: 33, Indels: 28
0.89 0.06 0.05
Matches are distributed among these distances:
153 17 0.03
154 27 0.05
155 81 0.16
156 364 0.73
157 10 0.02
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.35
Consensus pattern (155 bp):
GGAGAGCGTCAGACTGAAGATATATCTGTAATCTGAAGGTCGCGTGTTCGATCCACGCTCACCGC
ATATTTTATATTTTTCCTTCATTTTCTGGGCTGGAACAGGTTAGTTTCTTTTTCTGCTCTTTTAA
AACACAAGCGGGGATAGCTCAGTTG
Found at i:18169639 original size:18 final size:18
Alignment explanation
Indices: 18169618--18169653 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
18169608 CTCAATTATT
* *
18169618 AAATATTTAAAAATTAAA
1 AAATAATTAAAAACTAAA
18169636 AAATAATTAAAAACTAAA
1 AAATAATTAAAAACTAAA
18169654 TTTTTTAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (18 bp):
AAATAATTAAAAACTAAA
Found at i:18171664 original size:16 final size:15
Alignment explanation
Indices: 18171624--18171666 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
18171614 CCATTTTCAT
18171624 AGCCATATACAAAACA
1 AGCCA-ATACAAAACA
*
18171640 AGTCAAATACTAAAACA
1 AG-CCAATAC-AAAACA
18171657 AGCCAATACA
1 AGCCAATACA
18171667 TTTGGCCTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
15 1 0.04
16 12 0.52
17 10 0.43
ACGTcount: A:0.56, C:0.23, G:0.07, T:0.14
Consensus pattern (15 bp):
AGCCAATACAAAACA
Found at i:18180352 original size:46 final size:46
Alignment explanation
Indices: 18180299--18180572 Score: 406
Period size: 46 Copynumber: 6.0 Consensus size: 46
18180289 AGTGTGCTCT
*
18180299 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
18180345 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACTATGGCATC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
18180391 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
18180437 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** *
18180483 GTGATATGAAATGAACAAGACCATGGTTGAAAAATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
18180529 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
18180573 TCATGTCAAA
Statistics
Matches: 210, Mismatches: 17, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 1 0.00
46 209 1.00
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:18180989 original size:26 final size:26
Alignment explanation
Indices: 18180960--18181017 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
18180950 TCGAGAAAAT
18180960 AGATATATCAATATTGAATTTATATG
1 AGATATATCAATATTGAATTTATATG
*
18180986 AGATATATCAATGTTGAATTTATATG
1 AGATATATCAATATTGAATTTATATG
18181012 AGATAT
1 AGATAT
18181018 GTGCAAGTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.41, C:0.03, G:0.14, T:0.41
Consensus pattern (26 bp):
AGATATATCAATATTGAATTTATATG
Found at i:18185518 original size:14 final size:14
Alignment explanation
Indices: 18185481--18185582 Score: 57
Period size: 14 Copynumber: 7.4 Consensus size: 14
18185471 TGTTATTTCA
18185481 ATTTTGGTTTAGGG
1 ATTTTGGTTTAGGG
*
18185495 -TTTAGAGTTTAGGG
1 ATTTTG-GTTTAGGG
*
18185509 ATTTTGGTTTAGAG
1 ATTTTGGTTTAGGG
** *
18185523 -TTTTTATTTTGGG
1 ATTTTGGTTTAGGG
* **
18185536 TTTTTTATTTAGGG
1 ATTTTGGTTTAGGG
* * *
18185550 ATTCTAGTTTTGGGG
1 ATT-TTGGTTTAGGG
*
18185565 ATTTTAGTTTAGGG
1 ATTTTGGTTTAGGG
18185579 -TTTT
1 ATTTT
18185583 TAATTTGTGA
Statistics
Matches: 67, Mismatches: 17, Indels: 9
0.72 0.18 0.10
Matches are distributed among these distances:
13 17 0.25
14 36 0.54
15 14 0.21
ACGTcount: A:0.16, C:0.01, G:0.28, T:0.55
Consensus pattern (14 bp):
ATTTTGGTTTAGGG
Found at i:18185589 original size:28 final size:28
Alignment explanation
Indices: 18185481--18185619 Score: 100
Period size: 29 Copynumber: 4.9 Consensus size: 28
18185471 TGTTATTTCA
** * *
18185481 ATTTTGGTTTAGGGTTTAGAGTTTAGGG
1 ATTTTGGTTTAGGGTTTTTAATTTGGGG
* *
18185509 ATTTTGGTTTAGAGTTTTT-ATTTTGGG
1 ATTTTGGTTTAGGGTTTTTAATTTGGGG
* ** * * *
18185536 TTTTTTATTTAGGGATTCTAGTTTTGGGG
1 ATTTTGGTTTAGGGTTTTTA-ATTTGGGG
* *
18185565 ATTTTAGTTTAGGGTTTTTAATTTGTGAG
1 ATTTTGGTTTAGGGTTTTTAATTTG-GGG
** *
18185594 AAGTTGGTTTAGGGTTTTTTATTTGG
1 ATTTTGGTTTAGGGTTTTTAATTTGG
18185620 CTACGATTAG
Statistics
Matches: 84, Mismatches: 24, Indels: 6
0.74 0.21 0.05
Matches are distributed among these distances:
27 19 0.23
28 21 0.25
29 44 0.52
ACGTcount: A:0.17, C:0.01, G:0.29, T:0.54
Consensus pattern (28 bp):
ATTTTGGTTTAGGGTTTTTAATTTGGGG
Found at i:18185732 original size:61 final size:61
Alignment explanation
Indices: 18185629--18185743 Score: 140
Period size: 61 Copynumber: 1.9 Consensus size: 61
18185619 GCTACGATTA
* * * * * * *
18185629 GAAGAGGAGTTTTTGGTATTTTAGTTTTTTTGTTTTGTGTTTTCGATTTGGTTACTAAAAG
1 GAAGAGGAATTTTTGGTATTTTAGTTTCTTGGCTTAGGGTTTTCAATTTGGTTACTAAAAG
* * *
18185690 GAAGAGGAATTTTTGGTTTTTTGGTTTCTTGGCTTAGGGTTTTCAATTTTGTTA
1 GAAGAGGAATTTTTGGTATTTTAGTTTCTTGGCTTAGGGTTTTCAATTTGGTTA
18185744 GTGATAACGG
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
61 44 1.00
ACGTcount: A:0.18, C:0.04, G:0.25, T:0.52
Consensus pattern (61 bp):
GAAGAGGAATTTTTGGTATTTTAGTTTCTTGGCTTAGGGTTTTCAATTTGGTTACTAAAAG
Found at i:18186556 original size:22 final size:22
Alignment explanation
Indices: 18186531--18186581 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
18186521 AAAAAAATGA
18186531 GTTAGTGGTTTGATGATTAAGT
1 GTTAGTGGTTTGATGATTAAGT
*
18186553 GTTAGTGGTTTGATGATTACGT
1 GTTAGTGGTTTGATGATTAAGT
*
18186575 ATTAGTG
1 GTTAGTG
18186582 AAATTGTCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.22, C:0.02, G:0.31, T:0.45
Consensus pattern (22 bp):
GTTAGTGGTTTGATGATTAAGT
Found at i:18187624 original size:13 final size:13
Alignment explanation
Indices: 18187606--18187630 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18187596 ATTATAATAA
18187606 TATTTATTCTATC
1 TATTTATTCTATC
18187619 TATTTATTCTAT
1 TATTTATTCTAT
18187631 ACCTATATTA
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:0.24, C:0.12, G:0.00, T:0.64
Consensus pattern (13 bp):
TATTTATTCTATC
Found at i:18187760 original size:20 final size:21
Alignment explanation
Indices: 18187725--18187764 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
18187715 GCCAAAAATT
*
18187725 AAAAATTATTTTTAAAAATAA
1 AAAAATTATTTATAAAAATAA
18187746 AAAAATTA-TTATAAAAATA
1 AAAAATTATTTATAAAAATA
18187765 TTTATGATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (21 bp):
AAAAATTATTTATAAAAATAA
Found at i:18187969 original size:50 final size:50
Alignment explanation
Indices: 18187914--18188018 Score: 183
Period size: 50 Copynumber: 2.1 Consensus size: 50
18187904 GATTTCTTTT
* *
18187914 TATATAATATTTTTCCTACACCCGCAATTTGGATGTTGCATTTACTATAC
1 TATATAATATATTTCCTACACCCACAATTTGGATGTTGCATTTACTATAC
*
18187964 TATATAATATATTTCCTACACCCACAATTTGGATGTTGCATTTACTATAT
1 TATATAATATATTTCCTACACCCACAATTTGGATGTTGCATTTACTATAC
18188014 TATAT
1 TATAT
18188019 CATACTTACA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.09, T:0.43
Consensus pattern (50 bp):
TATATAATATATTTCCTACACCCACAATTTGGATGTTGCATTTACTATAC
Found at i:18188648 original size:21 final size:21
Alignment explanation
Indices: 18188624--18188666 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
18188614 ATTTAGTCAA
*
18188624 AGAGTTTATTAATATTACTAG
1 AGAGTTTATTAATAATACTAG
18188645 AGAGTTTATTAATAATACTAG
1 AGAGTTTATTAATAATACTAG
18188666 A
1 A
18188667 AATCCTATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.42, C:0.05, G:0.14, T:0.40
Consensus pattern (21 bp):
AGAGTTTATTAATAATACTAG
Found at i:18192642 original size:26 final size:27
Alignment explanation
Indices: 18192607--18192659 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 27
18192597 TATTTTTATG
18192607 TAATATTTTGAAA-T-AAAAAAATAAT
1 TAATATTTTGAAATTAAAAAAAATAAT
18192632 TAATAGTTTTGAAATTAAAAAAAATAAT
1 TAATA-TTTTGAAATTAAAAAAAATAAT
18192660 GTTATAAGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
25 5 0.20
26 8 0.32
27 1 0.04
28 11 0.44
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (27 bp):
TAATATTTTGAAATTAAAAAAAATAAT
Found at i:18196777 original size:132 final size:132
Alignment explanation
Indices: 18196554--18196823 Score: 468
Period size: 132 Copynumber: 2.0 Consensus size: 132
18196544 TCCAAATGTG
* *
18196554 AGTTGTCCTCAACAGAGTTGTTTTCAATGTATAGGTTGTTCTGAATTAGAGTTGTTCAATGGTGA
1 AGTTGTCCTCAACAGAGTTGTTTTCAATGTAAAGGTTGTTCTGAATAAGAGTTGTTCAATGGTGA
18196619 TACTTTTATTGACAAAGCTTGTTCTGAATAATGACTCTTTCAAAAAAACACAATTGTTCTAAATA
66 TACTTTTATTGACAAAGCTTGTTCTGAATAATGACTCTTTCAAAAAAACACAATTGTTCTAAATA
18196684 CA
131 CA
* * *
18196686 AGTTGTCCTCGATAGAGTTGTTTTCAATGTAAAGGTTGTTCTGAATAAGAGTTGTTCAGTGGTGA
1 AGTTGTCCTCAACAGAGTTGTTTTCAATGTAAAGGTTGTTCTGAATAAGAGTTGTTCAATGGTGA
* * *
18196751 TACTTTTTTTTACAAAGCTTGTTCTGAATAATGACTCTTTCAAAAAAACACAATTGTTTTAAATA
66 TACTTTTATTGACAAAGCTTGTTCTGAATAATGACTCTTTCAAAAAAACACAATTGTTCTAAATA
18196816 CA
131 CA
18196818 AGTTGT
1 AGTTGT
18196824 TCCAAACAAT
Statistics
Matches: 130, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 130 1.00
ACGTcount: A:0.31, C:0.13, G:0.17, T:0.39
Consensus pattern (132 bp):
AGTTGTCCTCAACAGAGTTGTTTTCAATGTAAAGGTTGTTCTGAATAAGAGTTGTTCAATGGTGA
TACTTTTATTGACAAAGCTTGTTCTGAATAATGACTCTTTCAAAAAAACACAATTGTTCTAAATA
CA
Found at i:18198482 original size:126 final size:126
Alignment explanation
Indices: 18198141--18198474 Score: 515
Period size: 126 Copynumber: 2.7 Consensus size: 126
18198131 GGTATTAGAA
* * *
18198141 AAAATGCTTCAAGCAGGATGCACTGCCAGCAAATTTTTTGGAAAAAGCTCCCACGTGGACGCTCT
1 AAAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTTTTGGAAAAAGCTCCCACGTGGACGCTCT
* *
18198206 TTTACTACAGTAGTTCGTAGAAAAATAATTCTGAGTAGACATTTCTGAACAAATAGTGTCG
66 TTTGCTACAGTAGTTCGTAGAAAAATAATTCTGAGTAGACATTTCTGAACAAATAATGTCG
* * ** * *
18198267 GAAACGCTTCAAGCAGGATGCACTGTCAACAAAATTTCGGGAAAAAGCTCCCACGTGGATGCACT
1 AAAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTTTTGGAAAAAGCTCCCACGTGGACGCTCT
* * *
18198332 TTTGCTACAGTGGTTCGTAGAAAAATAATTCTGAGTAGACGTTTCTGAACAAATAATTTCG
66 TTTGCTACAGTAGTTCGTAGAAAAATAATTCTGAGTAGACATTTCTGAACAAATAATGTCG
* * *
18198393 AAAACGCTTCAAGCAGGATGCACTGTTAGTAAAATTTTTGGAAAAAGCTCCGACGTGGACGCTCT
1 AAAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTTTTGGAAAAAGCTCCCACGTGGACGCTCT
18198458 TTTGCTACAGTAGTTCG
66 TTTGCTACAGTAGTTCG
18198475 AAAAAAAAAA
Statistics
Matches: 184, Mismatches: 24, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
126 184 1.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.27
Consensus pattern (126 bp):
AAAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTTTTGGAAAAAGCTCCCACGTGGACGCTCT
TTTGCTACAGTAGTTCGTAGAAAAATAATTCTGAGTAGACATTTCTGAACAAATAATGTCG
Found at i:18202008 original size:18 final size:18
Alignment explanation
Indices: 18201966--18202008 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
18201956 GACTAGGAAA
* *
18201966 AGAAAACATATAAGGGTT
1 AGAATACATATAAGGGCT
*
18201984 AGGATACATATAAGGGCT
1 AGAATACATATAAGGGCT
18202002 AGAATAC
1 AGAATAC
18202009 GCACCTGACA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.47, C:0.09, G:0.23, T:0.21
Consensus pattern (18 bp):
AGAATACATATAAGGGCT
Found at i:18203600 original size:23 final size:23
Alignment explanation
Indices: 18203565--18203608 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
18203555 ATAAAACAAA
*
18203565 AATTAATTAAAAT-TGCATAAATT
1 AATTAATGAAAATAT-CATAAATT
*
18203588 AATTAATGCAAATATCATAAA
1 AATTAATGAAAATATCATAAA
18203609 CGAAAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 17 0.94
24 1 0.06
ACGTcount: A:0.55, C:0.07, G:0.05, T:0.34
Consensus pattern (23 bp):
AATTAATGAAAATATCATAAATT
Found at i:18203677 original size:48 final size:47
Alignment explanation
Indices: 18203603--18203736 Score: 164
Period size: 48 Copynumber: 2.8 Consensus size: 47
18203593 ATGCAAATAT
* * *
18203603 CATAAACGAAAAAAA-ACCAAGTAGTATTGAAATTGTAATTATAA-TTG
1 CATAAATGAAAAAAATATCAAATAGTATTGAAATT-TAATTA-AATTTG
*
18203650 CATAAATGAATAAAATATCAAATAGTATTGCAAATTTAATTAAATTTG
1 CATAAATGAAAAAAATATCAAATAGTATTG-AAATTTAATTAAATTTG
* *
18203698 CATAAATTAAAAAAATATCGAATAGTATTGAAAATTTAA
1 CATAAATGAAAAAAATATCAAATAGTATTG-AAATTTAA
18203737 AATTATCACT
Statistics
Matches: 76, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
47 15 0.20
48 56 0.74
49 5 0.07
ACGTcount: A:0.52, C:0.07, G:0.10, T:0.31
Consensus pattern (47 bp):
CATAAATGAAAAAAATATCAAATAGTATTGAAATTTAATTAAATTTG
Found at i:18210084 original size:23 final size:24
Alignment explanation
Indices: 18210058--18210107 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 24
18210048 TGATCTTTAA
18210058 ATTTTA-AATTATTTAGTGATAAT
1 ATTTTAGAATTATTTAGTGATAAT
*
18210081 A-TTTAGGATTATTTAGTGATAAT
1 ATTTTAGAATTATTTAGTGATAAT
18210104 ATTT
1 ATTT
18210108 AGGAAAAATC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 4 0.17
23 18 0.75
24 2 0.08
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (24 bp):
ATTTTAGAATTATTTAGTGATAAT
Found at i:18210085 original size:13 final size:13
Alignment explanation
Indices: 18210067--18210109 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
18210057 AATTTTAAAT
18210067 TATTTAGTGATAA
1 TATTTAGTGATAA
18210080 TATTTAG-GAT--
1 TATTTAGTGATAA
18210090 TATTTAGTGATAA
1 TATTTAGTGATAA
18210103 TATTTAG
1 TATTTAG
18210110 GAAAAATCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 7 0.26
11 3 0.11
12 3 0.11
13 14 0.52
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.49
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:18210108 original size:23 final size:23
Alignment explanation
Indices: 18210065--18210111 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
18210055 TAAATTTTAA
18210065 ATTATTTAGTGATAATATTTAGG
1 ATTATTTAGTGATAATATTTAGG
18210088 ATTATTTAGTGATAATATTTAGG
1 ATTATTTAGTGATAATATTTAGG
18210111 A
1 A
18210112 AAAATCTAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.36, C:0.00, G:0.17, T:0.47
Consensus pattern (23 bp):
ATTATTTAGTGATAATATTTAGG
Found at i:18214917 original size:4 final size:4
Alignment explanation
Indices: 18214908--18214937 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
18214898 CTACGTTTGA
18214908 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
18214938 TATATAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:18220007 original size:6 final size:6
Alignment explanation
Indices: 18219993--18220116 Score: 94
Period size: 6 Copynumber: 20.7 Consensus size: 6
18219983 TAATAGTATG
* * ** * *
18219993 ATAAGA ATAATA ATAATA GTGGTA ATAATA CTAATA ATAATA ATAACA
1 ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA
* *
18220041 ATACTA ATTAA-A ATAATA ATAATA ATAATA ATAGA-A ATAATA ATATTA
1 ATAATA A-TAATA ATAATA ATAATA ATAATA ATA-ATA ATAATA ATAATA
* *
18220089 GA-AATA TTAATA A-ACATA ATAATG ATAA
1 -ATAATA ATAATA ATA-ATA ATAATA ATAA
18220117 ATATAAAACT
Statistics
Matches: 92, Mismatches: 18, Indels: 16
0.73 0.14 0.13
Matches are distributed among these distances:
5 5 0.05
6 82 0.89
7 5 0.05
ACGTcount: A:0.60, C:0.03, G:0.06, T:0.31
Consensus pattern (6 bp):
ATAATA
Found at i:18220010 original size:9 final size:9
Alignment explanation
Indices: 18219993--18220116 Score: 94
Period size: 9 Copynumber: 13.8 Consensus size: 9
18219983 TAATAGTATG
*
18219993 ATAAGAATA
1 ATAATAATA
18220002 ATAATAATA
1 ATAATAATA
* **
18220011 GTGGTAATA
1 ATAATAATA
*
18220020 ATACTAATA
1 ATAATAATA
18220029 ATAATAATA
1 ATAATAATA
* *
18220038 ACAATACTA
1 ATAATAATA
18220047 ATTAA-AATA
1 A-TAATAATA
18220056 ATAATAATA
1 ATAATAATA
18220065 ATAATAATA
1 ATAATAATA
18220074 GA-AATAATA
1 -ATAATAATA
*
18220083 ATATTAGA-A
1 ATAATA-ATA
*
18220092 ATATTAATA
1 ATAATAATA
18220101 A-ACATAATA
1 ATA-ATAATA
*
18220110 ATGATAA
1 ATAATAA
18220117 ATATAAAACT
Statistics
Matches: 92, Mismatches: 15, Indels: 16
0.75 0.12 0.13
Matches are distributed among these distances:
8 6 0.07
9 82 0.89
10 4 0.04
ACGTcount: A:0.60, C:0.03, G:0.06, T:0.31
Consensus pattern (9 bp):
ATAATAATA
Found at i:18220033 original size:15 final size:15
Alignment explanation
Indices: 18220000--18220101 Score: 89
Period size: 15 Copynumber: 6.8 Consensus size: 15
18219990 ATGATAAGAA
* *
18220000 TAATAATAATAGTGG
1 TAATAATAATAATAG
* *
18220015 TAATAATACTAATAA
1 TAATAATAATAATAG
* *
18220030 TAATAATAACAATAC
1 TAATAATAATAATAG
*
18220045 TAATTAA-AATAATAA
1 TAA-TAATAATAATAG
18220060 TAATAATAATAATAG
1 TAATAATAATAATAG
* *
18220075 AAATAATAATATTAG
1 TAATAATAATAATAG
* *
18220090 AAATATTAATAA
1 TAATAATAATAA
18220102 ACATAATAAT
Statistics
Matches: 71, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
14 3 0.04
15 65 0.92
16 3 0.04
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.32
Consensus pattern (15 bp):
TAATAATAATAATAG
Found at i:18221757 original size:44 final size:44
Alignment explanation
Indices: 18221631--18221881 Score: 134
Period size: 44 Copynumber: 5.7 Consensus size: 44
18221621 CTTCGATTTG
* * * *
18221631 CTCCACTGCTACTTCAGGGAGATAAGATCTACAATCTTAAATCTG
1 CTCCACTACTGCTT-AGGGAGATAAGATCTACAATCTTTAATCTA
* * * * * *
18221676 CTTCC-CTACTTCCTCGGGAAGATAAGAT-TCGCCATCTTTGATCTA
1 C-TCCACTACTGCTTAGGG-AGATAAGATCT-ACAATCTTTAATCTA
* ** *
18221721 CTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTT
1 CTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTTAATCTA
* * * *** *
18221765 CTCCACTACTGCTCAGGGAAATAAG-GCTACTGGCTTAAATCTA
1 CTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTTAATCTA
* * * ** * *
18221808 CTTCC-CTACTACCTCGGGAAGATAAGAT-TCACCGTCTTCAATCTG
1 C-TCCACTACTGCTTAGGG-AGATAAGATCT-ACAATCTTTAATCTA
* *
18221853 CTCCACTATTGCTCAGGGAGATAAGATCT
1 CTCCACTACTGCTTAGGGAGATAAGATCT
18221882 GTGAATTAAC
Statistics
Matches: 151, Mismatches: 44, Indels: 22
0.70 0.20 0.10
Matches are distributed among these distances:
43 20 0.13
44 69 0.46
45 59 0.39
46 3 0.02
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (44 bp):
CTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTTAATCTA
Found at i:18234105 original size:5 final size:5
Alignment explanation
Indices: 18234097--18234121 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
18234087 TAGAATTTTG
18234097 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
18234122 GAATTTATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:18234211 original size:6 final size:6
Alignment explanation
Indices: 18234200--18234323 Score: 58
Period size: 6 Copynumber: 20.7 Consensus size: 6
18234190 TAATAGTATG
* ** * * * *
18234200 ATAATA ATAATA GTGGTA ATAATA CTAATA CTAACA ATAATA ATAACA
1 ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA
* * * * *
18234248 ATACTA CTTAA-A ATAATA GTAATA GTAATA ATAGA-A ATAATA ATATTA
1 ATAATA -ATAATA ATAATA ATAATA ATAATA ATA-ATA ATAATA ATAATA
* *
18234296 GA-AATA TTAATA A-ACATA ATAATG ATAA
1 -ATAATA ATAATA ATA-ATA ATAATA ATAA
18234324 ATATAAAACT
Statistics
Matches: 87, Mismatches: 23, Indels: 16
0.69 0.18 0.13
Matches are distributed among these distances:
5 5 0.06
6 77 0.89
7 5 0.06
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.31
Consensus pattern (6 bp):
ATAATA
Found at i:18234271 original size:21 final size:21
Alignment explanation
Indices: 18234216--18234292 Score: 61
Period size: 21 Copynumber: 3.7 Consensus size: 21
18234206 ATAATAGTGG
*
18234216 TAATAATACTAATACTAACAA
1 TAATAATAATAATACTAACAA
*
18234237 TAATAATAACAATACT-ACTTAA
1 TAATAATAATAATACTAAC--AA
* * *
18234259 -AATAATAGTAATAGTAATAA
1 TAATAATAATAATACTAACAA
18234279 TAGA-AATAATAATA
1 TA-ATAATAATAATA
18234293 TTAGAAATAT
Statistics
Matches: 44, Mismatches: 7, Indels: 10
0.72 0.11 0.16
Matches are distributed among these distances:
20 4 0.09
21 36 0.82
22 4 0.09
ACGTcount: A:0.58, C:0.08, G:0.04, T:0.30
Consensus pattern (21 bp):
TAATAATAATAATACTAACAA
Found at i:18234277 original size:15 final size:15
Alignment explanation
Indices: 18234259--18234308 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
18234249 TACTACTTAA
* *
18234259 AATAATAGTAATAGT
1 AATAATAGAAATAAT
18234274 AATAATAGAAATAAT
1 AATAATAGAAATAAT
* *
18234289 AATATTAGAAATATT
1 AATAATAGAAATAAT
18234304 AATAA
1 AATAA
18234309 ACATAATAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (15 bp):
AATAATAGAAATAAT
Found at i:18236095 original size:43 final size:43
Alignment explanation
Indices: 18236024--18236115 Score: 157
Period size: 43 Copynumber: 2.1 Consensus size: 43
18236014 AATTTTAAAA
* *
18236024 AAATGATTGATTACACTGGTGGCGCCATTCTATATGGCTCCACT
1 AAAT-ATTGATTACACTGATGGCACCATTCTATATGGCTCCACT
18236068 AAATATTGATTACACTGATGGCACCATTCTATATGGCTCCACT
1 AAATATTGATTACACTGATGGCACCATTCTATATGGCTCCACT
18236111 AAATA
1 AAATA
18236116 AAATAACATT
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
43 42 0.91
44 4 0.09
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (43 bp):
AAATATTGATTACACTGATGGCACCATTCTATATGGCTCCACT
Found at i:18237061 original size:23 final size:22
Alignment explanation
Indices: 18237014--18237093 Score: 72
Period size: 23 Copynumber: 3.4 Consensus size: 22
18237004 TTATTTTTAA
* *
18237014 AAAAATATTTAATAAATGTATAT
1 AAAAATATTT-ATAAATTTAAAT
18237037 AAAAATATTTATAAATATTAAAT
1 AAAAATATTTATAAAT-TTAAAT
*
18237060 AATAAA-ATTAAATAAATTTTAAAT
1 AA-AAATATT-TATAAA-TTTAAAT
18237084 ATAAAATATT
1 A-AAAATATT
18237094 AATCAATAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
22 6 0.12
23 19 0.40
24 18 0.38
25 5 0.10
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (22 bp):
AAAAATATTTATAAATTTAAAT
Found at i:18237087 original size:13 final size:13
Alignment explanation
Indices: 18237046--18237095 Score: 52
Period size: 14 Copynumber: 3.9 Consensus size: 13
18237036 TAAAAATATT
18237046 TATAAATATTAAA
1 TATAAATATTAAA
18237059 TAATAAA-ATT-AA
1 T-ATAAATATTAAA
*
18237071 -ATAAATTTTAAA
1 TATAAATATTAAA
18237083 TATAAAATATTAA
1 TAT-AAATATTAA
18237096 TCAATAATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
10 5 0.17
11 2 0.07
12 4 0.13
13 6 0.20
14 13 0.43
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TATAAATATTAAA
Found at i:18238061 original size:13 final size:15
Alignment explanation
Indices: 18238037--18238068 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
18238027 AATTACCTTA
18238037 AAAAATTAAAATAT-
1 AAAAATTAAAATATC
18238051 AAAAATT-AAATATC
1 AAAAATTAAAATATC
18238065 AAAA
1 AAAA
18238069 CTGAAATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 6 0.35
14 11 0.65
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (15 bp):
AAAAATTAAAATATC
Found at i:18243464 original size:240 final size:240
Alignment explanation
Indices: 18243041--18243521 Score: 962
Period size: 240 Copynumber: 2.0 Consensus size: 240
18243031 CGCAAGAAGA
18243041 AAGACAAGCAGATTATGGCCAAGGGAAGGAGATATTGAAACAAGAGGTGTAGATTTATTTATTTA
1 AAGACAAGCAGATTATGGCCAAGGGAAGGAGATATTGAAACAAGAGGTGTAGATTTATTTATTTA
18243106 TTTATTTTTGCCTCCTTTTTGAGATGTCAATGATCGCGGTAATCTTGGACTAGCTTAATCATGTT
66 TTTATTTTTGCCTCCTTTTTGAGATGTCAATGATCGCGGTAATCTTGGACTAGCTTAATCATGTT
18243171 GAGAAGGGATTGTAACTCTTGTAGTGTCGAAACGAGTTTCCATCCCACCTACAAATTGCCAGAAT
131 GAGAAGGGATTGTAACTCTTGTAGTGTCGAAACGAGTTTCCATCCCACCTACAAATTGCCAGAAT
18243236 AATGTCAACTTACTTTTGGATGTTGGTTAACTTACAAGATGTGAT
196 AATGTCAACTTACTTTTGGATGTTGGTTAACTTACAAGATGTGAT
18243281 AAGACAAGCAGATTATGGCCAAGGGAAGGAGATATTGAAACAAGAGGTGTAGATTTATTTATTTA
1 AAGACAAGCAGATTATGGCCAAGGGAAGGAGATATTGAAACAAGAGGTGTAGATTTATTTATTTA
18243346 TTTATTTTTGCCTCCTTTTTGAGATGTCAATGATCGCGGTAATCTTGGACTAGCTTAATCATGTT
66 TTTATTTTTGCCTCCTTTTTGAGATGTCAATGATCGCGGTAATCTTGGACTAGCTTAATCATGTT
18243411 GAGAAGGGATTGTAACTCTTGTAGTGTCGAAACGAGTTTCCATCCCACCTACAAATTGCCAGAAT
131 GAGAAGGGATTGTAACTCTTGTAGTGTCGAAACGAGTTTCCATCCCACCTACAAATTGCCAGAAT
18243476 AATGTCAACTTACTTTTGGATGTTGGTTAACTTACAAGATGTGAT
196 AATGTCAACTTACTTTTGGATGTTGGTTAACTTACAAGATGTGAT
18243521 A
1 A
18243522 CTTAGGTCCA
Statistics
Matches: 241, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
240 241 1.00
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.34
Consensus pattern (240 bp):
AAGACAAGCAGATTATGGCCAAGGGAAGGAGATATTGAAACAAGAGGTGTAGATTTATTTATTTA
TTTATTTTTGCCTCCTTTTTGAGATGTCAATGATCGCGGTAATCTTGGACTAGCTTAATCATGTT
GAGAAGGGATTGTAACTCTTGTAGTGTCGAAACGAGTTTCCATCCCACCTACAAATTGCCAGAAT
AATGTCAACTTACTTTTGGATGTTGGTTAACTTACAAGATGTGAT
Found at i:18245840 original size:17 final size:17
Alignment explanation
Indices: 18245798--18245845 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
18245788 TTTATTGCAT
*
18245798 TTTATTTTTGTTTTTAG
1 TTTATTTTTGTTTTTAA
18245815 TTTAATTTTTGTTTTCTAA
1 TTT-ATTTTTGTTTT-TAA
18245834 TTT-TTTTTGTTT
1 TTTATTTTTGTTT
18245846 ATTTCTGGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 12 0.43
18 11 0.39
19 5 0.18
ACGTcount: A:0.12, C:0.02, G:0.08, T:0.77
Consensus pattern (17 bp):
TTTATTTTTGTTTTTAA
Found at i:18253462 original size:20 final size:20
Alignment explanation
Indices: 18253437--18253503 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
18253427 ATTTTGATAA
18253437 ACATGATATGTATGATATAC
1 ACATGATATGTATGATATAC
* * *
18253457 ACATGACACGTATGATATGC
1 ACATGATATGTATGATATAC
*
18253477 ACATGATATTTATGATATAC
1 ACATGATATGTATGATATAC
18253497 ACATGAT
1 ACATGAT
18253504 GTATTCATAA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATAC
Found at i:18257038 original size:38 final size:39
Alignment explanation
Indices: 18256970--18257046 Score: 129
Period size: 38 Copynumber: 2.0 Consensus size: 39
18256960 GGCGGAGTTG
18256970 CAAGTAAGACCGACTTGGGTAGAACAGATTAAGAAGCAA
1 CAAGTAAGACCGACTTGGGTAGAACAGATTAAGAAGCAA
* *
18257009 CAAGTATGACCGACTT-GGTAGATCAGATTAAGAAGCAA
1 CAAGTAAGACCGACTTGGGTAGAACAGATTAAGAAGCAA
18257047 AGTTGAGACG
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
38 21 0.58
39 15 0.42
ACGTcount: A:0.42, C:0.16, G:0.25, T:0.18
Consensus pattern (39 bp):
CAAGTAAGACCGACTTGGGTAGAACAGATTAAGAAGCAA
Found at i:18260433 original size:23 final size:24
Alignment explanation
Indices: 18260348--18260491 Score: 213
Period size: 23 Copynumber: 6.0 Consensus size: 24
18260338 GGAGGAAGTG
18260348 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
18260372 GATAAAGGGCTTATGCCCCAGTTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
*
18260397 GAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
18260421 TAAAA-GGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
18260444 TAAAAGGGCTT-TGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
18260467 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 TAAAAG-GGCTTATGCC-CCAGTTAT
18260492 ATGATAAAGC
Statistics
Matches: 112, Mismatches: 3, Indels: 9
0.90 0.02 0.07
Matches are distributed among these distances:
23 42 0.38
24 38 0.34
25 32 0.29
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:18260449 original size:47 final size:47
Alignment explanation
Indices: 18260348--18260472 Score: 207
Period size: 47 Copynumber: 2.6 Consensus size: 47
18260338 GGAGGAAGTG
*
18260348 TAAAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT--TAAAAGGCTTATGCCCCAGTTAT
*
18260397 GAAAAGGGCTTATGCCCCAGTTATTAAAAGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTATTAAAAGGCTTATGCCCCAGTTAT
18260444 TAAAAGGGCTT-TGCCCCAGTTATTAAAAG
1 TAAAAGGGCTTATGCCCCAGTTATTAAAAG
18260473 AGGCTAGGCC
Statistics
Matches: 73, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
46 18 0.25
47 32 0.44
49 23 0.32
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (47 bp):
TAAAAGGGCTTATGCCCCAGTTATTAAAAGGCTTATGCCCCAGTTAT
Found at i:18268347 original size:20 final size:20
Alignment explanation
Indices: 18268281--18268347 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
18268271 ATTTTGATAA
*
18268281 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
18268301 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
*
18268321 ACATGATATGTATGATATGT
1 ACATGATATGTATGATATGC
18268341 ACATGAT
1 ACATGAT
18268348 GTATTCATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.34, C:0.10, G:0.21, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:18268440 original size:25 final size:25
Alignment explanation
Indices: 18268395--18268567 Score: 204
Period size: 24 Copynumber: 7.2 Consensus size: 25
18268385 TGGGGAAGTA
18268395 AAAGGGCTTAT---CCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
18268417 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
18268442 AAAGGGCTTATGCCCCAGTTAT-AT
1 AAAGGGCTTATGCCCCAGTTATGAT
*
18268466 AAAGGGCTTATG-CCCAGTTATTA-
1 AAAGGGCTTATGCCCCAGTTATGAT
*
18268489 AAAGGGCTTATGCCCCAGTTATTA-
1 AAAGGGCTTATGCCCCAGTTATGAT
*
18268513 AAAGGGCTT-TGCCCCAGTTATTA-
1 AAAGGGCTTATGCCCCAGTTATGAT
*
18268536 AAAGAGGC-TAGGCCTCCAGTTATATGAT
1 AAAG-GGCTTATGCC-CCAG-T-TATGAT
18268564 AAAG
1 AAAG
18268568 CAGCTATGCT
Statistics
Matches: 138, Mismatches: 2, Indels: 16
0.88 0.01 0.10
Matches are distributed among these distances:
22 11 0.08
23 40 0.29
24 41 0.30
25 37 0.27
26 1 0.01
27 4 0.03
28 4 0.03
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (25 bp):
AAAGGGCTTATGCCCCAGTTATGAT
Found at i:18268472 original size:24 final size:25
Alignment explanation
Indices: 18268393--18268560 Score: 207
Period size: 23 Copynumber: 7.0 Consensus size: 25
18268383 GATGGGGAAG
18268393 TAAAAGGGCTTAT---CCAGTTATGA
1 TAAAAGGGCTTATGCCCCAGTTAT-A
18268416 T-AAAGGGCTTATGCCCCAGTTATGA
1 TAAAAGGGCTTATGCCCCAGTTAT-A
18268441 T-AAAGGGCTTATGCCCCAGTTATA
1 TAAAAGGGCTTATGCCCCAGTTATA
18268465 T-AAAGGGCTTATG-CCCAGTTAT-
1 TAAAAGGGCTTATGCCCCAGTTATA
18268487 TAAAAGGGCTTATGCCCCAGTTAT-
1 TAAAAGGGCTTATGCCCCAGTTATA
18268511 TAAAAGGGCTT-TGCCCCAGTTAT-
1 TAAAAGGGCTTATGCCCCAGTTATA
*
18268534 TAAAAGAGGC-TAGGCCTCCAGTTATA
1 TAAAAG-GGCTTATGCC-CCAGTTATA
18268560 T
1 T
18268561 GATAAAGCAG
Statistics
Matches: 135, Mismatches: 1, Indels: 15
0.89 0.01 0.10
Matches are distributed among these distances:
22 12 0.09
23 41 0.30
24 40 0.30
25 41 0.30
26 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (25 bp):
TAAAAGGGCTTATGCCCCAGTTATA
Found at i:18268493 original size:47 final size:48
Alignment explanation
Indices: 18268393--18268560 Score: 224
Period size: 47 Copynumber: 3.5 Consensus size: 48
18268383 GATGGGGAAG
18268393 TAAAAGGGCTTAT---CCAGTTATGATAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT-ATAAAGGGCTTATGCCCCAGTTAT
*
18268439 GATAAAGGGCTTATGCCCCAGTTATATAAAGGGCTTATG-CCCAGTTAT
1 TA-AAAGGGCTTATGCCCCAGTTATATAAAGGGCTTATGCCCCAGTTAT
18268487 TAAAAGGGCTTATGCCCCAGTTAT-TAAAAGGGCTT-TGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTATAT-AAAGGGCTTATGCCCCAGTTAT
*
18268534 TAAAAGAGGC-TAGGCCTCCAGTTATAT
1 TAAAAG-GGCTTATGCC-CCAGTTATAT
18268561 GATAAAGCAG
Statistics
Matches: 110, Mismatches: 3, Indels: 15
0.86 0.02 0.12
Matches are distributed among these distances:
46 4 0.04
47 62 0.56
48 21 0.19
49 15 0.14
50 8 0.07
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (48 bp):
TAAAAGGGCTTATGCCCCAGTTATATAAAGGGCTTATGCCCCAGTTAT
Found at i:18268786 original size:31 final size:31
Alignment explanation
Indices: 18268748--18268811 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
18268738 ACTTTACAGT
18268748 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
18268779 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
18268810 AA
1 AA
18268812 TGTGAAAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:18269502 original size:14 final size:14
Alignment explanation
Indices: 18269483--18269510 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
18269473 CTTCAGATTC
18269483 GGCCATAACGTCTA
1 GGCCATAACGTCTA
18269497 GGCCATAACGTCTA
1 GGCCATAACGTCTA
18269511 AATAATTACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (14 bp):
GGCCATAACGTCTA
Found at i:18272666 original size:6 final size:6
Alignment explanation
Indices: 18272579--18272646 Score: 59
Period size: 6 Copynumber: 11.5 Consensus size: 6
18272569 CCATTTATCA
** * *
18272579 TTTATT TTTA-T TTCCTT TTTA-T TTTATT TTTAGT TTTATT TATATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
* *
18272625 TTTATG TTTATT GTTATGT TTT
1 TTTATT TTTATT TTTAT-T TTT
18272647 TAGACTTCTT
Statistics
Matches: 47, Mismatches: 12, Indels: 5
0.73 0.19 0.08
Matches are distributed among these distances:
5 8 0.17
6 36 0.77
7 3 0.06
ACGTcount: A:0.16, C:0.03, G:0.06, T:0.75
Consensus pattern (6 bp):
TTTATT
Found at i:18272680 original size:12 final size:12
Alignment explanation
Indices: 18272663--18272688 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
18272653 TCTTTTATTT
18272663 TTATATTTTGAA
1 TTATATTTTGAA
18272675 TTATATTTTGAA
1 TTATATTTTGAA
18272687 TT
1 TT
18272689 GTTATGGTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (12 bp):
TTATATTTTGAA
Found at i:18274651 original size:20 final size:20
Alignment explanation
Indices: 18274626--18274665 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
18274616 AGCACACAGA
18274626 GAAGAACG-AAGAAATTACTC
1 GAAGAACGCAA-AAATTACTC
18274646 GAAGAACGCAAAAATTACTC
1 GAAGAACGCAAAAATTACTC
18274666 AGCCGTCAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 17 0.89
21 2 0.11
ACGTcount: A:0.50, C:0.17, G:0.17, T:0.15
Consensus pattern (20 bp):
GAAGAACGCAAAAATTACTC
Found at i:18280378 original size:43 final size:44
Alignment explanation
Indices: 18280242--18280413 Score: 167
Period size: 43 Copynumber: 4.0 Consensus size: 44
18280232 ACATAGGATC
* * * * *
18280242 CGATATGTGTTTTCTTGTAAGACCACGTCTAGGA-TGTTGGCAT
1 CGATATTTGATTTCGTGTAAGACCATGTCTAGGACAGTTGGCAT
* *
18280285 CGACT-TATGATTTACGTGTAAGACCATGTCTAGGACA-TCGGCAT
1 CGA-TATTTGATTT-CGTGTAAGACCATGTCTAGGACAGTTGGCAT
* *
18280329 CG-TATTTGATTTTGTGTAAGACCATGTCTGGGACAG-TGGCAT
1 CGATATTTGATTTCGTGTAAGACCATGTCTAGGACAGTTGGCAT
* * * *
18280371 CGATATTTGATTACATGTAAAACCATGTCTGGGAC-GTTGGCAT
1 CGATATTTGATTTCGTGTAAGACCATGTCTAGGACAGTTGGCAT
18280414 TGTACGAGCT
Statistics
Matches: 108, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
42 30 0.28
43 50 0.46
44 28 0.26
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (44 bp):
CGATATTTGATTTCGTGTAAGACCATGTCTAGGACAGTTGGCAT
Found at i:18285399 original size:19 final size:19
Alignment explanation
Indices: 18285339--18285399 Score: 51
Period size: 18 Copynumber: 3.4 Consensus size: 19
18285329 TATTAGTTTC
18285339 AATACATGCATCTAATA-ATA
1 AATACATGCATCT--TAGATA
*
18285359 AAT--ATGTATC-TAG-TA
1 AATACATGCATCTTAGATA
*
18285374 CATACATGCATCTTAGATA
1 AATACATGCATCTTAGATA
18285393 AATACAT
1 AATACAT
18285400 TCATGCATGA
Statistics
Matches: 32, Mismatches: 4, Indels: 11
0.68 0.09 0.23
Matches are distributed among these distances:
15 6 0.19
17 6 0.19
18 9 0.28
19 8 0.25
20 3 0.09
ACGTcount: A:0.44, C:0.15, G:0.08, T:0.33
Consensus pattern (19 bp):
AATACATGCATCTTAGATA
Found at i:18297421 original size:13 final size:13
Alignment explanation
Indices: 18297403--18297428 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18297393 GTAAAGTTTC
18297403 AAATATTGTTAAG
1 AAATATTGTTAAG
18297416 AAATATTGTTAAG
1 AAATATTGTTAAG
18297429 TAACGATAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.38
Consensus pattern (13 bp):
AAATATTGTTAAG
Found at i:18297759 original size:21 final size:21
Alignment explanation
Indices: 18297735--18297775 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
18297725 ATAACATAAC
*
18297735 ATAATCAAGTTGTAA-GAAGTT
1 ATAAT-AAGTTGCAATGAAGTT
18297756 ATAATAAGTTGCAATGAAGT
1 ATAATAAGTTGCAATGAAGT
18297776 GGGAAGAACC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.44, C:0.05, G:0.20, T:0.32
Consensus pattern (21 bp):
ATAATAAGTTGCAATGAAGTT
Found at i:18302224 original size:30 final size:30
Alignment explanation
Indices: 18302159--18302226 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
18302149 CGATGGACAT
* * *
18302159 GAAGATGAAGACGAAGCTGATGGTTGAGAT
1 GAAGATGAAGACGAAGCTGAAGGTGGAGAC
* *
18302189 AAAGATGAAGATGAAGAC-GAAGGTGGAGAC
1 GAAGATGAAGACGAAG-CTGAAGGTGGAGAC
18302219 GAAGATGA
1 GAAGATGA
18302227 GCACGAGGGT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
30 30 0.97
31 1 0.03
ACGTcount: A:0.43, C:0.06, G:0.37, T:0.15
Consensus pattern (30 bp):
GAAGATGAAGACGAAGCTGAAGGTGGAGAC
Found at i:18304838 original size:27 final size:27
Alignment explanation
Indices: 18304807--18304860 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
18304797 GATCCGTCAA
*
18304807 CTGCATCTGCTACTCTTTCTTCCTCAC
1 CTGCATCTGCTACTCATTCTTCCTCAC
*
18304834 CTGCATCTTCTACTCATTCTTCCTCAC
1 CTGCATCTGCTACTCATTCTTCCTCAC
18304861 ATGTATCTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.13, C:0.41, G:0.06, T:0.41
Consensus pattern (27 bp):
CTGCATCTGCTACTCATTCTTCCTCAC
Found at i:18304868 original size:27 final size:27
Alignment explanation
Indices: 18304808--18304869 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
18304798 ATCCGTCAAC
* * *
18304808 TGCATCTGCTACTCTTTCTTCCTCACC
1 TGCATCTTCTACTCATTCTTCCTCACA
18304835 TGCATCTTCTACTCATTCTTCCTCACA
1 TGCATCTTCTACTCATTCTTCCTCACA
*
18304862 TGTATCTT
1 TGCATCTT
18304870 TTTTTTTGGC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.15, C:0.35, G:0.06, T:0.44
Consensus pattern (27 bp):
TGCATCTTCTACTCATTCTTCCTCACA
Found at i:18309713 original size:15 final size:15
Alignment explanation
Indices: 18309693--18309730 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
18309683 ATTGAAATAA
18309693 ATAAGTTTCTAGCAT
1 ATAAGTTTCTAGCAT
18309708 ATAAGTTTCTAGCAT
1 ATAAGTTTCTAGCAT
18309723 ATAAGTTT
1 ATAAGTTT
18309731 AGTTATAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.42
Consensus pattern (15 bp):
ATAAGTTTCTAGCAT
Found at i:18314087 original size:46 final size:46
Alignment explanation
Indices: 18313906--18314087 Score: 258
Period size: 46 Copynumber: 4.0 Consensus size: 46
18313896 TTTGACATGA
* * * * * *
18313906 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*** *
18313952 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
18313998 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
18314044 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
18314088 AGAGCACACT
Statistics
Matches: 124, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 4 0.03
46 120 0.97
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:18318007 original size:22 final size:22
Alignment explanation
Indices: 18317974--18318017 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
18317964 ATTTCATGCA
18317974 CGCATATCACTTTTACACCTTT
1 CGCATATCACTTTTACACCTTT
*
18317996 CGCATGAT-ACTTTTACATCTTT
1 CGCAT-ATCACTTTTACACCTTT
18318018 ACAATTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 18 0.90
23 2 0.10
ACGTcount: A:0.23, C:0.27, G:0.07, T:0.43
Consensus pattern (22 bp):
CGCATATCACTTTTACACCTTT
Found at i:18319168 original size:46 final size:46
Alignment explanation
Indices: 18319108--18319335 Score: 332
Period size: 46 Copynumber: 5.0 Consensus size: 46
18319098 TTTGACATGA
* * * * * * *
18319108 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGC
* *** *
18319154 TGCCATGGTATCTTTCAACCATGGTATTGTTCATTTCATATCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
18319200 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
18319246 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
18319292 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
18319336 AGAGCACACT
Statistics
Matches: 167, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 4 0.02
46 163 0.98
ACGTcount: A:0.22, C:0.25, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
Found at i:18322276 original size:24 final size:25
Alignment explanation
Indices: 18322223--18322270 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
18322213 TTAGCCCTCT
* *
18322223 CGAGCTTCCCGTTATATGGTTCTTG
1 CGAGCTTCCCGTTATATAGCTCTTG
18322248 CGAGCTTCCCGTTA-ATAGCTCTT
1 CGAGCTTCCCGTTATATAGCTCTT
18322271 TGGAGCATCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.15, C:0.27, G:0.21, T:0.38
Consensus pattern (25 bp):
CGAGCTTCCCGTTATATAGCTCTTG
Found at i:18324297 original size:37 final size:37
Alignment explanation
Indices: 18324235--18324306 Score: 87
Period size: 37 Copynumber: 1.9 Consensus size: 37
18324225 ATTATTATGG
18324235 TATTGAATTGAATAAAAATTCGTGAATTATT-AGTGAT
1 TATTGAATTGAATAAAAATTCGTGAA-TATTGAGTGAT
*
18324272 TATTGATATTGAAT-AGAATAT-GTGAATATTGAGTG
1 TATTGA-ATTGAATAAAAAT-TCGTGAATATTGAGTG
18324307 GAAAATTGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
36 4 0.13
37 19 0.61
38 8 0.26
ACGTcount: A:0.39, C:0.01, G:0.19, T:0.40
Consensus pattern (37 bp):
TATTGAATTGAATAAAAATTCGTGAATATTGAGTGAT
Found at i:18324844 original size:18 final size:18
Alignment explanation
Indices: 18324787--18324846 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
18324777 GACTGTCTGC
* * *
18324787 TACTGAATAATTGACTGT
1 TACTGAATAAATGAATAT
* * *
18324805 TACAGAATAAACGATTGA-
1 TACTGAATAAATGAAT-AT
18324823 TACTGAATAAATGAATAT
1 TACTGAATAAATGAATAT
18324841 TACTGA
1 TACTGA
18324847 TTAACCAATT
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
17 1 0.03
18 31 0.97
ACGTcount: A:0.43, C:0.10, G:0.15, T:0.32
Consensus pattern (18 bp):
TACTGAATAAATGAATAT
Found at i:18332230 original size:34 final size:34
Alignment explanation
Indices: 18332185--18332258 Score: 105
Period size: 35 Copynumber: 2.1 Consensus size: 34
18332175 TTGCATCTAA
* *
18332185 ATGTTGTTTTAATATTG-TAGAAAAATGTATTATT
1 ATGTTGATTTAAAATTGTTA-AAAAATGTATTATT
18332219 ATGTTGATTTAAAATTGTTTAAAAAATGTATTATT
1 ATGTTGATTTAAAATTG-TTAAAAAATGTATTATT
18332254 ATGTT
1 ATGTT
18332259 ATGTTACACA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
34 15 0.42
35 19 0.53
36 2 0.06
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (34 bp):
ATGTTGATTTAAAATTGTTAAAAAATGTATTATT
Found at i:18338191 original size:16 final size:16
Alignment explanation
Indices: 18338156--18338196 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 16
18338146 ATGTGAATAA
18338156 TATTATTTAAAATTAC
1 TATTATTTAAAATTAC
18338172 TATT-TTTAAAATT--
1 TATTATTTAAAATTAC
18338185 TATTA-TTAAAAT
1 TATTATTTAAAAT
18338197 AAAATTGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 11 0.46
15 9 0.38
16 4 0.17
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (16 bp):
TATTATTTAAAATTAC
Found at i:18338244 original size:22 final size:22
Alignment explanation
Indices: 18338204--18338259 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
18338194 AATAAAATTG
*
18338204 AAATATTAAA-TA-ATTTATTA
1 AAATAATAAATTATATTTATTA
18338224 AAATAATAAATTATATTTATTA
1 AAATAATAAATTATATTTATTA
* * *
18338246 TATTAATAATTTAT
1 AAATAATAAATTAT
18338260 TATATGACTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 9 0.30
21 2 0.07
22 19 0.63
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AAATAATAAATTATATTTATTA
Found at i:18339634 original size:46 final size:46
Alignment explanation
Indices: 18339567--18339659 Score: 159
Period size: 46 Copynumber: 2.0 Consensus size: 46
18339557 GAGAGAGGTG
* *
18339567 TTAGTACATAACGTGTGAATAGTAATTGTGCTACCTCAGGCTTATA
1 TTAGTACATAACGTGTGAATAGTAATTGAGCTACCTAAGGCTTATA
*
18339613 TTAGTACATGACGTGTGAATAGTAATTGAGCTACCTAAGGCTTATA
1 TTAGTACATAACGTGTGAATAGTAATTGAGCTACCTAAGGCTTATA
18339659 T
1 T
18339660 GGCCCTTACC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.34
Consensus pattern (46 bp):
TTAGTACATAACGTGTGAATAGTAATTGAGCTACCTAAGGCTTATA
Found at i:18343337 original size:8 final size:8
Alignment explanation
Indices: 18343326--18343361 Score: 54
Period size: 8 Copynumber: 4.2 Consensus size: 8
18343316 TTATTTTTTT
18343326 AAAAAATA
1 AAAAAATA
18343334 AAAAAATA
1 AAAAAATA
18343342 AAAAAATAA
1 AAAAAAT-A
18343351 ATAAAAATA
1 A-AAAAATA
18343360 AA
1 AA
18343362 GATTTATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 16 0.62
9 4 0.15
10 6 0.23
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (8 bp):
AAAAAATA
Found at i:18343347 original size:16 final size:18
Alignment explanation
Indices: 18343326--18343361 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
18343316 TTATTTTTTT
18343326 AAAAAAT-AA-AAAAATA
1 AAAAAATAAATAAAAATA
18343342 AAAAAATAAATAAAAATA
1 AAAAAATAAATAAAAATA
18343360 AA
1 AA
18343362 GATTTATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.39
17 2 0.11
18 9 0.50
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (18 bp):
AAAAAATAAATAAAAATA
Found at i:18343921 original size:21 final size:20
Alignment explanation
Indices: 18343899--18343938 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
18343889 TTTTTTTTTA
*
18343899 TATATATTTT-TTAAAAAAT
1 TATAAATTTTGTTAAAAAAT
*
18343918 TATAAATTTTGTTATAAAAT
1 TATAAATTTTGTTAAAAAAT
18343938 T
1 T
18343939 TTTATATGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (20 bp):
TATAAATTTTGTTAAAAAAT
Found at i:18345619 original size:10 final size:10
Alignment explanation
Indices: 18345596--18345643 Score: 53
Period size: 10 Copynumber: 4.9 Consensus size: 10
18345586 AATTTAGGAT
18345596 TTTAT-TTTA
1 TTTATCTTTA
*
18345605 ATTATCTTTA
1 TTTATCTTTA
18345615 TTTATCTTTA
1 TTTATCTTTA
* * *
18345625 ATTATATGTA
1 TTTATCTTTA
18345635 TTTATCTTT
1 TTTATCTTT
18345644 TTAGAATTTA
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
9 4 0.13
10 26 0.87
ACGTcount: A:0.25, C:0.06, G:0.02, T:0.67
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:18345624 original size:20 final size:20
Alignment explanation
Indices: 18345596--18345643 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
18345586 AATTTAGGAT
* *
18345596 TTTAT-TTTAATTATCTTTA
1 TTTATCTTTAATTATATGTA
18345615 TTTATCTTTAATTATATGTA
1 TTTATCTTTAATTATATGTA
18345635 TTTATCTTT
1 TTTATCTTT
18345644 TTAGAATTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.25, C:0.06, G:0.02, T:0.67
Consensus pattern (20 bp):
TTTATCTTTAATTATATGTA
Found at i:18348055 original size:5 final size:5
Alignment explanation
Indices: 18348045--18348075 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
18348035 TCTTAAATTT
18348045 TAAAA TAAAA TAAAA TAAAA TAAAA GTAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA -TAAAA
18348076 CATATAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.19
Consensus pattern (5 bp):
TAAAA
Found at i:18349492 original size:29 final size:30
Alignment explanation
Indices: 18349421--18349492 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 30
18349411 GTTAATAATT
* * *
18349421 TATAAGAATTAGATCAAATCAAAATTTCATG
1 TATAA-AATTATATAAAATCAAAATTTCATA
*
18349452 TATAAAACTATATAAAATC-AAATTTCATA
1 TATAAAATTATATAAAATCAAAATTTCATA
*
18349481 TATATAATTATA
1 TATAAAATTATA
18349493 CACTAAATTA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 19 0.54
30 11 0.31
31 5 0.14
ACGTcount: A:0.51, C:0.08, G:0.04, T:0.36
Consensus pattern (30 bp):
TATAAAATTATATAAAATCAAAATTTCATA
Found at i:18354007 original size:12 final size:11
Alignment explanation
Indices: 18353990--18354028 Score: 51
Period size: 12 Copynumber: 3.3 Consensus size: 11
18353980 TCAATGATTA
18353990 TATTTTTTTTGT
1 TATTTTTTTT-T
18354002 TATTTTTATTTT
1 TATTTTT-TTTT
18354014 TATTCTTTTTTT
1 TATT-TTTTTTT
18354026 TAT
1 TAT
18354029 CTAAGTTCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 19 0.76
13 6 0.24
ACGTcount: A:0.13, C:0.03, G:0.03, T:0.82
Consensus pattern (11 bp):
TATTTTTTTTT
Found at i:18354011 original size:18 final size:18
Alignment explanation
Indices: 18353990--18354028 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
18353980 TCAATGATTA
* *
18353990 TATTTTTTTTGTTATTTT
1 TATTTTTATTCTTATTTT
*
18354008 TATTTTTATTCTTTTTTT
1 TATTTTTATTCTTATTTT
18354026 TAT
1 TAT
18354029 CTAAGTTCAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.13, C:0.03, G:0.03, T:0.82
Consensus pattern (18 bp):
TATTTTTATTCTTATTTT
Found at i:18355753 original size:30 final size:30
Alignment explanation
Indices: 18355682--18355754 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
18355672 GATATAAGAA
18355682 TTTAAAATAAATAGAAAAATAAAAATAAAT
1 TTTAAAATAAATAGAAAAATAAAAATAAAT
** * * * * *
18355712 AATATATTAAATAGCAATATAAAAATGAAT
1 TTTAAAATAAATAGAAAAATAAAAATAAAT
18355742 TTTAAAATAAATA
1 TTTAAAATAAATA
18355755 CTATAAAGTT
Statistics
Matches: 32, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.30
Consensus pattern (30 bp):
TTTAAAATAAATAGAAAAATAAAAATAAAT
Found at i:18355777 original size:16 final size:15
Alignment explanation
Indices: 18355751--18355790 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
18355741 TTTTAAAATA
18355751 AATACTATAAAGTTAAT
1 AATA-TATAAAG-TAAT
18355768 AATATATAAAGTAAT
1 AATATATAAAGTAAT
18355783 ACATATAT
1 A-ATATAT
18355791 CAATTTACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.23
16 13 0.59
17 4 0.18
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.35
Consensus pattern (15 bp):
AATATATAAAGTAAT
Found at i:18355946 original size:32 final size:32
Alignment explanation
Indices: 18355874--18355946 Score: 78
Period size: 32 Copynumber: 2.2 Consensus size: 32
18355864 AATAAAAATG
* * *
18355874 ATAAAATAGGGTTTTTATAGGAAATAAATTAT
1 ATAAAATAGGATTTTTAAAGGAAATAAATTAC
18355906 ATATAAATA-GATTTTTAAAGGAAA-AATATTTAC
1 ATA-AAATAGGATTTTTAAAGGAAATAA-A-TTAC
18355939 ATAAAATA
1 ATAAAATA
18355947 ATATAACATC
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
31 2 0.06
32 22 0.63
33 11 0.31
ACGTcount: A:0.52, C:0.01, G:0.11, T:0.36
Consensus pattern (32 bp):
ATAAAATAGGATTTTTAAAGGAAATAAATTAC
Found at i:18358078 original size:23 final size:23
Alignment explanation
Indices: 18358045--18358129 Score: 66
Period size: 23 Copynumber: 3.6 Consensus size: 23
18358035 TATTATTACT
18358045 TTTTAAA-TAATAAAATATATAA
1 TTTTAAATTAATAAAATATATAA
*
18358067 TTTTAAATTAATATTAATAT-TAA
1 TTTTAAATTAATA-AAATATATAA
** * *
18358090 CATTAAATTAATGTTAAAATGTATAC
1 TTTTAAATTAA---TAAAATATATAA
18358116 TTTTAACATTAATA
1 TTTTAA-ATTAATA
18358130 TAAGAAACCT
Statistics
Matches: 48, Mismatches: 8, Indels: 12
0.71 0.12 0.18
Matches are distributed among these distances:
22 7 0.15
23 17 0.35
24 7 0.15
25 4 0.08
26 8 0.17
27 5 0.10
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (23 bp):
TTTTAAATTAATAAAATATATAA
Found at i:18358089 original size:17 final size:17
Alignment explanation
Indices: 18358058--18358107 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
18358048 TAAATAATAA
*
18358058 AATATATAATTTTAAATT
1 AATAT-TAATATTAAATT
18358076 AATATTAATATTAACATT
1 AATATTAATATTAA-ATT
*
18358094 AA-ATTAATGTTAAA
1 AATATTAATATTAAA
18358108 ATGTATACTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 1 0.03
17 18 0.62
18 10 0.34
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (17 bp):
AATATTAATATTAAATT
Found at i:18358253 original size:24 final size:24
Alignment explanation
Indices: 18358226--18358277 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
18358216 TTACAATTTT
18358226 ATATTAA-ATATATAAAATAACAAA
1 ATATTAATATATA-AAAATAACAAA
* * *
18358250 ATATTACTATTTAAAAATAATAAA
1 ATATTAATATATAAAAATAACAAA
18358274 ATAT
1 ATAT
18358278 ATAACTTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 20 0.83
25 4 0.17
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (24 bp):
ATATTAATATATAAAAATAACAAA
Found at i:18358848 original size:15 final size:13
Alignment explanation
Indices: 18358818--18358851 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
18358808 AAATGATAGC
*
18358818 AAAAATAGAGAGA
1 AAAAAAAGAGAGA
*
18358831 AAAAAAAGAGAGT
1 AAAAAAAGAGAGA
18358844 AAAAAAAG
1 AAAAAAAG
18358852 CAAGAAAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.06
Consensus pattern (13 bp):
AAAAAAAGAGAGA
Found at i:18360282 original size:85 final size:85
Alignment explanation
Indices: 18360139--18360317 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
18360129 GGCCGGCCAT
18360139 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
18360204 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
18360224 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
18360289 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
18360309 GGGCATGGG
1 GAGCATGGG
18360318 CAATAAAATA
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.37, C:0.08, G:0.28, T:0.26
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:18362564 original size:47 final size:47
Alignment explanation
Indices: 18362510--18362919 Score: 667
Period size: 47 Copynumber: 8.6 Consensus size: 47
18362500 GTATATTTGA
*
18362510 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGCG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
* *
18362557 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
18362604 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTG
18362653 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
* *
18362700 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
18362747 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTG
18362796 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
* * * * * *
18362843 ATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
* *
18362890 ATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGAATGTGAAAGTGTATATATGTGATAAG
18362920 TCCCGAAGGG
Statistics
Matches: 340, Mismatches: 19, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
47 250 0.74
49 90 0.26
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
Found at i:18362642 original size:96 final size:94
Alignment explanation
Indices: 18362510--18362919 Score: 667
Period size: 96 Copynumber: 4.3 Consensus size: 94
18362500 GTATATTTGA
*
18362510 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGCGATGAATGTGAAAGTGTAT
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
18362575 ATATGTGATAAGGCCGAATGGCCAATGTG
66 ATATGTGATAAGGCCGAATGGCCAATGTG
18362604 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
1 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
* *
18362669 ATATATGTGATAAGGCCTAATGGCCGATGTG
64 ATATATGTGATAAGGCCGAATGGCCAATGTG
* *
18362700 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTAT
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--T
* *
18362765 ATATATGTGATAAGGCCTAATGGCCGATGTG
64 ATATATGTGATAAGGCCGAATGGCCAATGTG
18362796 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
* * * *
18362861 ATATGTGACAGGGCCGAGTGGCCAACGTG
66 ATATGTGATAAGGCCGAATGGCCAATGTG
* *
18362890 ATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGAATGTGAAAGTGTATATATGTGATAAG
18362920 TCCCGAAGGG
Statistics
Matches: 297, Mismatches: 15, Indels: 8
0.93 0.05 0.03
Matches are distributed among these distances:
94 114 0.38
96 183 0.62
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (94 bp):
ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
ATATGTGATAAGGCCGAATGGCCAATGTG
Found at i:18362673 original size:143 final size:143
Alignment explanation
Indices: 18362510--18362919 Score: 752
Period size: 143 Copynumber: 2.9 Consensus size: 143
18362500 GTATATTTGA
*
18362510 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGCGATGAATGTGAAAGTGTAT
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
18362575 ATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCT
66 ATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCT
18362640 AATGGCCGATGTG
131 AATGGCCGATGTG
18362653 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
18362718 ATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCT
66 ATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCT
18362783 AATGGCCGATGTG
131 AATGGCCGATGTG
18362796 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
* * * * *
18362861 ATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
66 ATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
18362920 TCCCGAAGGG
Statistics
Matches: 261, Mismatches: 6, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
141 10 0.04
142 1 0.00
143 250 0.96
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (143 bp):
ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
ATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCT
AATGGCCGATGTG
Found at i:18363088 original size:37 final size:37
Alignment explanation
Indices: 18363038--18363182 Score: 236
Period size: 37 Copynumber: 3.9 Consensus size: 37
18363028 CCGAGCTCTA
* *
18363038 AAGACCCGATGACTACGTGTGGAGAGTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
*
18363075 AAGACCCGATGACTACGTGTGGAGATTTTGCCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
18363112 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
* * *
18363149 AAGACCCGATAACTTCGTGTGGAGATTTCGTCCG
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCG
18363183 AGCTAAAGGT
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 101 1.00
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
Found at i:18364112 original size:70 final size:70
Alignment explanation
Indices: 18363999--18364139 Score: 273
Period size: 70 Copynumber: 2.0 Consensus size: 70
18363989 CAAGCCCACT
18363999 ATGGTTGGGGATTTCCTGCGTGGATGAAAATAAAAGGGGTGAGTTTGAGGAAACTCAGTGTGTAA
1 ATGGTTGGGGATTTCCTGCGTGGATGAAAATAAAAGGGGTGAGTTTGAGGAAACTCAGTGTGTAA
18364064 GGAAA
66 GGAAA
*
18364069 ATGGTTGGGGATTTCCTGCGTGGATGAAAATAAAAGGGGTGAGTTTGAGGAAACTCGGTGTGTAA
1 ATGGTTGGGGATTTCCTGCGTGGATGAAAATAAAAGGGGTGAGTTTGAGGAAACTCAGTGTGTAA
18364134 GGAAA
66 GGAAA
18364139 A
1 A
18364140 CTCATTCAAA
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 70 1.00
ACGTcount: A:0.31, C:0.07, G:0.36, T:0.26
Consensus pattern (70 bp):
ATGGTTGGGGATTTCCTGCGTGGATGAAAATAAAAGGGGTGAGTTTGAGGAAACTCAGTGTGTAA
GGAAA
Found at i:18366143 original size:26 final size:26
Alignment explanation
Indices: 18366113--18366168 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
18366103 TGAAATTCCC
18366113 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
18366139 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
18366165 ATCA
1 ATCA
18366169 ATTTGTATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:18367521 original size:24 final size:24
Alignment explanation
Indices: 18367465--18367562 Score: 83
Period size: 24 Copynumber: 4.0 Consensus size: 24
18367455 CCACAGCTTG
* * *
18367465 TATGAGCTTACCGATATATCAGCTCG
1 TATGAGCTTACTG-T-TTTCAGCTCA
*
18367491 TAAGAGCTTACTGTTTTCAGCTCA
1 TATGAGCTTACTGTTTTCAGCTCA
* *
18367515 T-TGGAGCTTACCG-TTTCAGCTCG
1 TAT-GAGCTTACTGTTTTCAGCTCA
*
18367538 TATGAGCTTACTGTTCATCAGCTCA
1 TATGAGCTTACTGTT-TTCAGCTCA
18367563 GGACGAACTT
Statistics
Matches: 58, Mismatches: 10, Indels: 9
0.75 0.13 0.12
Matches are distributed among these distances:
23 19 0.33
24 20 0.34
25 8 0.14
26 11 0.19
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.35
Consensus pattern (24 bp):
TATGAGCTTACTGTTTTCAGCTCA
Found at i:18367535 original size:23 final size:23
Alignment explanation
Indices: 18367465--18367562 Score: 81
Period size: 23 Copynumber: 4.0 Consensus size: 23
18367455 CCACAGCTTG
* *
18367465 TATGAGCTTACCGATATATCAGCTCG
1 TATGAGCTTACTG-T-T-TCAGCTCA
*
18367491 TAAGAGCTTACTGTTTTCAGCTCA
1 TATGAGCTTACTG-TTTCAGCTCA
* *
18367515 T-TGGAGCTTACCGTTTCAGCTCG
1 TAT-GAGCTTACTGTTTCAGCTCA
18367538 TATGAGCTTACTGTTCATCAGCTCA
1 TATGAGCTTACTGTT--TCAGCTCA
18367563 GGACGAACTT
Statistics
Matches: 59, Mismatches: 9, Indels: 9
0.77 0.12 0.12
Matches are distributed among these distances:
23 21 0.36
24 18 0.31
25 8 0.14
26 12 0.20
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.35
Consensus pattern (23 bp):
TATGAGCTTACTGTTTCAGCTCA
Found at i:18367545 original size:47 final size:51
Alignment explanation
Indices: 18367468--18367562 Score: 144
Period size: 47 Copynumber: 1.9 Consensus size: 51
18367458 CAGCTTGTAT
*
18367468 GAGCTTACCGATATATCAGCTCGTAAGAGCTTACTGTT-TTCAGCTCATTG
1 GAGCTTACCGATATATCAGCTCGTAAGAGCTTACTGTTCATCAGCTCATTG
*
18367518 GAGCTTACCG-T-T-TCAGCTCGTATGAGCTTACTGTTCATCAGCTCA
1 GAGCTTACCGATATATCAGCTCGTAAGAGCTTACTGTTCATCAGCTCA
18367563 GGACGAACTT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
47 22 0.52
48 9 0.21
49 1 0.02
50 10 0.24
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (51 bp):
GAGCTTACCGATATATCAGCTCGTAAGAGCTTACTGTTCATCAGCTCATTG
Found at i:18370130 original size:69 final size:70
Alignment explanation
Indices: 18370008--18370145 Score: 233
Period size: 69 Copynumber: 2.0 Consensus size: 70
18369998 AAATTTATAA
* * *
18370008 AATAATCATTCTATTTAACTTTATTTTTTTCACTTTATTATTTTGAATTTTTGAATATTTTCATT
1 AATAATCATTCTATTTAACCTTATTTTTTTCACTTTATTATCTAGAATTTTTGAATATTTTCATT
18370073 TTTAC
66 TTTAC
*
18370078 AATAATCATTTTATTTAACCTTA-TTTTTTCACTTTATTATCTAGAATTTTTGAATATTTTCATT
1 AATAATCATTCTATTTAACCTTATTTTTTTCACTTTATTATCTAGAATTTTTGAATATTTTCATT
18370142 TTTA
66 TTTA
18370146 TATTAGTTAG
Statistics
Matches: 64, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
69 43 0.67
70 21 0.33
ACGTcount: A:0.28, C:0.10, G:0.03, T:0.59
Consensus pattern (70 bp):
AATAATCATTCTATTTAACCTTATTTTTTTCACTTTATTATCTAGAATTTTTGAATATTTTCATT
TTTAC
Found at i:18370996 original size:21 final size:21
Alignment explanation
Indices: 18370970--18371025 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
18370960 AACAGCGGTG
*
18370970 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
* *
18370991 GCGGTGAGATTGGATATTGTA
1 GCGGTGAGATTAGATACTGTA
18371012 GCGGTGAGATTAGA
1 GCGGTGAGATTAGA
18371026 AACAGCGGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.25, C:0.07, G:0.38, T:0.30
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:18374423 original size:12 final size:13
Alignment explanation
Indices: 18374404--18374429 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18374394 GATTGAGTAC
18374404 CAAAAAAATTAAG
1 CAAAAAAATTAAG
18374417 CAAAAAAATTAAG
1 CAAAAAAATTAAG
18374430 GGTTCATTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.08, G:0.08, T:0.15
Consensus pattern (13 bp):
CAAAAAAATTAAG
Found at i:18374769 original size:12 final size:12
Alignment explanation
Indices: 18374752--18374783 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
18374742 CTTGGAATCG
18374752 CCGATTTTTTTA
1 CCGATTTTTTTA
18374764 CCGATTTTTTTA
1 CCGATTTTTTTA
*
18374776 CCAATTTT
1 CCGATTTT
18374784 AGTGAGAACG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.19, C:0.19, G:0.06, T:0.56
Consensus pattern (12 bp):
CCGATTTTTTTA
Found at i:18374950 original size:25 final size:26
Alignment explanation
Indices: 18374922--18374981 Score: 67
Period size: 25 Copynumber: 2.5 Consensus size: 26
18374912 GAATATGCTG
18374922 AGAAGAGAAG-ATGAAGAACGGAAGA
1 AGAAGAGAAGAATGAAGAACGGAAGA
*
18374947 AGAA-A-AAGGAATGAAGAACGGATGA
1 AGAAGAGAA-GAATGAAGAACGGAAGA
18374972 AG--GAGAAGAA
1 AGAAGAGAAGAA
18374982 GCCTTACCTG
Statistics
Matches: 30, Mismatches: 1, Indels: 9
0.75 0.03 0.22
Matches are distributed among these distances:
23 2 0.07
24 6 0.20
25 22 0.73
ACGTcount: A:0.57, C:0.03, G:0.35, T:0.05
Consensus pattern (26 bp):
AGAAGAGAAGAATGAAGAACGGAAGA
Found at i:18375061 original size:12 final size:12
Alignment explanation
Indices: 18375044--18375070 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
18375034 GCAACCCAAG
18375044 GGGAAGGGGAAA
1 GGGAAGGGGAAA
18375056 GGGAAGGGGAAA
1 GGGAAGGGGAAA
18375068 GGG
1 GGG
18375071 GAGAAGAAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.37, C:0.00, G:0.63, T:0.00
Consensus pattern (12 bp):
GGGAAGGGGAAA
Found at i:18381306 original size:3 final size:3
Alignment explanation
Indices: 18381292--18381337 Score: 67
Period size: 3 Copynumber: 15.7 Consensus size: 3
18381282 GGACCCTTCT
* *
18381292 TTA TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTT TTA TTT TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
18381338 CGTAATAATA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (3 bp):
TTA
Found at i:18386174 original size:75 final size:73
Alignment explanation
Indices: 18386054--18386444 Score: 428
Period size: 75 Copynumber: 5.3 Consensus size: 73
18386044 TGAACCATGA
* * * * * ** *
18386054 CTCCATTTTGAGACGCTTGC--TGATTTCTAAGATCTTCTTGGAGCCAGCTGTTGGTAAAGCAGA
1 CTCCATTTTGAGAAGCTTGCGATCATTTCTATGATCTTCTTGAAACCAATTGTTGGTAAAG-AGG
18386117 CACCATTGG
65 CACCATTGG
* * * * *
18386126 CTCCATTTTGAGAAGCTTGTCGGTCATTTCTTTGATCTTCTTGAAGCCAGTTGTTGGGAAAAGAG
1 CTCCATTTTGAGAAGCTTG-CGATCATTTCTATGATCTTCTTGAAACCAATTGTT-GGTAAAGAG
* *
18386191 ACACCAATGG
64 GCACCATTGG
* * *
18386201 CTCCATTTTGAGAAGCTTGCTGATGATTTCTAAGATCTTCTTGAAACCAATTGTTTGTAAAAGAG
1 CTCCATTTTGAGAAGCTTGC-GATCATTTCTATGATCTTCTTGAAACCAATTGTTGGT-AAAGAG
*
18386266 GCTCCATTGG
64 GCACCATTGG
* * * *
18386276 CTCCTTTTTGAGCAGCTTGGTGATCATTT-TGATGATCTTCTTGAAACCAACTGTTGGTAAAAGA
1 CTCCATTTTGAGAAGCTT-GCGATCATTTCT-ATGATCTTCTTGAAACCAATTGTTGGT-AAAGA
18386340 GGCACCATTGG
63 GGCACCATTGG
* * *
18386351 CTCCATTTCGAGAAGCTTGCTGATCATTTCTATGATCTTCTTGAAACCAATTGTAGGGAAAAGAG
1 CTCCATTTTGAGAAGCTTGC-GATCATTTCTATGATCTTCTTGAAACCAATTGT-TGGTAAAGAG
*
18386416 GCACCATTTG
64 GCACCATTGG
18386426 CTCCATTTTGAGAAGCTTG
1 CTCCATTTTGAGAAGCTTG
18386445 GTCTTGCTGA
Statistics
Matches: 272, Mismatches: 36, Indels: 19
0.83 0.11 0.06
Matches are distributed among these distances:
72 18 0.07
73 1 0.00
74 4 0.01
75 239 0.88
76 10 0.04
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (73 bp):
CTCCATTTTGAGAAGCTTGCGATCATTTCTATGATCTTCTTGAAACCAATTGTTGGTAAAGAGGC
ACCATTGG
Found at i:18386228 original size:150 final size:148
Alignment explanation
Indices: 18386054--18386444 Score: 484
Period size: 150 Copynumber: 2.6 Consensus size: 148
18386044 TGAACCATGA
* * * **
18386054 CTCCATTTTGAGACGCTTGC---TGATTTCTAAGATCTTCTTGGAGCCAGCTGTTGGTAAAGCAG
1 CTCCATTTTGAGAAGCTTGCTGATGATTTCTAAGATCTTCTTGAAACCAATTGTTGGTAAAG-AG
* * * * **
18386116 ACACCATTGGCTCCATTTTGAGAAGCTTGTCGGTCATTTCT-TTGATCTTCTTGAAGCCAGTTGT
65 GCACCATTGGCTCCATTTTGAGAAGCTTGT-GATCATTT-TGATGATCTTCTTGAAACCAACTGT
18386180 TGGGAAAAGAGACACCAATGG
128 TGGGAAAAGAGACACCAATGG
*
18386201 CTCCATTTTGAGAAGCTTGCTGATGATTTCTAAGATCTTCTTGAAACCAATTGTTTGTAAAAGAG
1 CTCCATTTTGAGAAGCTTGCTGATGATTTCTAAGATCTTCTTGAAACCAATTGTTGGT-AAAGAG
* * *
18386266 GCTCCATTGGCTCCTTTTTGAGCAGCTTGGTGATCATTTTGATGATCTTCTTGAAACCAACTGTT
65 GCACCATTGGCTCCATTTTGAGAAGCTT-GTGATCATTTTGATGATCTTCTTGAAACCAACTGTT
* * *
18386331 GGTAAAAGAGGCACCATTGG
129 GGGAAAAGAGACACCAATGG
* * * * *
18386351 CTCCATTTCGAGAAGCTTGCTGATCATTTCTATGATCTTCTTGAAACCAATTGTAGGGAAAAGAG
1 CTCCATTTTGAGAAGCTTGCTGATGATTTCTAAGATCTTCTTGAAACCAATTGT-TGGTAAAGAG
*
18386416 GCACCATTTGCTCCATTTTGAGAAGCTTG
65 GCACCATTGGCTCCATTTTGAGAAGCTTG
18386445 GTCTTGCTGA
Statistics
Matches: 209, Mismatches: 28, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
147 19 0.09
149 2 0.01
150 181 0.87
151 7 0.03
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (148 bp):
CTCCATTTTGAGAAGCTTGCTGATGATTTCTAAGATCTTCTTGAAACCAATTGTTGGTAAAGAGG
CACCATTGGCTCCATTTTGAGAAGCTTGTGATCATTTTGATGATCTTCTTGAAACCAACTGTTGG
GAAAAGAGACACCAATGG
Done.