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 119 of 352
Found at i:38145823 original size:7 final size:7
Alignment explanation
Indices: 38145811--38145853 Score: 50
Period size: 7 Copynumber: 5.6 Consensus size: 7
38145801 ATATATATTT
38145811 TTTTATA
1 TTTTATA
38145818 TTTTATA
1 TTTTATA
38145825 TTTTATA
1 TTTTATA
38145832 TTATTAAATA
1 TT-TT--ATA
38145842 TGTTTATA
1 T-TTTATA
38145850 TTTT
1 TTTT
38145854 TTATAAATCC
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
7 19 0.59
8 6 0.19
10 6 0.19
11 1 0.03
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (7 bp):
TTTTATA
Found at i:38145901 original size:22 final size:25
Alignment explanation
Indices: 38145876--38145924 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 25
38145866 TTATATTCTA
38145876 TATTGTTT-ATTT-TT-AATATCAT
1 TATTGTTTAATTTATTAAATATCAT
* *
38145898 TATTTTTTAATTTATTAAATTTCAT
1 TATTGTTTAATTTATTAAATATCAT
38145923 TA
1 TA
38145925 CCCTAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 7 0.32
23 4 0.18
24 2 0.09
25 9 0.41
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (25 bp):
TATTGTTTAATTTATTAAATATCAT
Found at i:38146963 original size:29 final size:28
Alignment explanation
Indices: 38146891--38146963 Score: 83
Period size: 29 Copynumber: 2.5 Consensus size: 28
38146881 AAAAAATTAA
* *
38146891 ATAGTTAAGTGACCATTTTATAACTTTTC
1 ATAGTT-AGTGACTATTTTATAACATTTC
*
38146920 ATAATTAGGTGACTATTTTATAACATTTC
1 ATAGTTA-GTGACTATTTTATAACATTTC
*
38146949 ATAGTTGAGTTACTA
1 ATAGTT-AGTGACTA
38146964 AAAACAATCA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
28 1 0.03
29 35 0.95
30 1 0.03
ACGTcount: A:0.33, C:0.11, G:0.12, T:0.44
Consensus pattern (28 bp):
ATAGTTAGTGACTATTTTATAACATTTC
Found at i:38152707 original size:40 final size:38
Alignment explanation
Indices: 38152662--38152780 Score: 121
Period size: 35 Copynumber: 3.2 Consensus size: 38
38152652 GAAAAGAAAA
38152662 CATGCCACTATTCTATTGATAATCTTATTCGCATGTTAAG
1 CATGCCACTA-TCTATT-ATAATCTTATTCGCATGTTAAG
38152702 CATGCCACTATACTA--AT--T-TTGATTCGCATGTTAAG
1 CATGCCACTAT-CTATTATAATCTT-ATTCGCATGTTAAG
*
38152737 CATGCCACTA--TATTA-AATAC-GATTCGCATGTTAAG
1 CATGCCACTATCTATTATAAT-CTTATTCGCATGTTAAG
38152772 CATGCCACT
1 CATGCCACT
38152781 GTACTAATTC
Statistics
Matches: 70, Mismatches: 1, Indels: 21
0.76 0.01 0.23
Matches are distributed among these distances:
32 2 0.03
34 3 0.04
35 49 0.70
37 2 0.03
39 1 0.01
40 13 0.19
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.35
Consensus pattern (38 bp):
CATGCCACTATCTATTATAATCTTATTCGCATGTTAAG
Found at i:38152734 original size:35 final size:35
Alignment explanation
Indices: 38152688--38152817 Score: 170
Period size: 35 Copynumber: 3.7 Consensus size: 35
38152678 TGATAATCTT
*
38152688 ATTCGCATGTTAAGCATGCCACTATACTAATTTTG
1 ATTCGCATGTTAAGCATGCCACTATACTAATTATG
* * *
38152723 ATTCGCATGTTAAGCATGCCACTATATTAAATACG
1 ATTCGCATGTTAAGCATGCCACTATACTAATTATG
* * *
38152758 ATTCGCATGTTAAGCATGCCACTGTACTAATTCTA
1 ATTCGCATGTTAAGCATGCCACTATACTAATTATG
* *
38152793 ATTCACATGTAAAGCATGCCTACTA
1 ATTCGCATGTTAAGCATGCC-ACTA
38152818 AAAATTCTAT
Statistics
Matches: 81, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
35 78 0.96
36 3 0.04
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.33
Consensus pattern (35 bp):
ATTCGCATGTTAAGCATGCCACTATACTAATTATG
Found at i:38159886 original size:30 final size:30
Alignment explanation
Indices: 38159838--38159896 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
38159828 TTTACTAGCC
* * *
38159838 TAAGGACAAATTTGTAATTATGTGAAAGTT
1 TAAGGACAAAATTATAATTATGTCAAAGTT
* *
38159868 TAAGGGCAAAATTATAATTTTGTCAAAGT
1 TAAGGACAAAATTATAATTATGTCAAAGT
38159897 ATGATTTATG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.41, C:0.05, G:0.19, T:0.36
Consensus pattern (30 bp):
TAAGGACAAAATTATAATTATGTCAAAGTT
Found at i:38160312 original size:48 final size:48
Alignment explanation
Indices: 38160241--38160482 Score: 180
Period size: 48 Copynumber: 5.1 Consensus size: 48
38160231 GGGATATGCA
38160241 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGTATCGAA-ATG
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGTATC-AATATG
* * * *
38160289 TGATCCCATGTAAGACCATGTCTGAGATATGACATTGGCATCAATATGAG
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGTATCAATAT--G
* * * *
38160339 TTAT-CC-TGTAAGACCATAG-CTGAG-C-T---ATCGGCT-TCGATATG
1 TGATCCCATGTAAGACCAT-GTCTGGGACATGGCATTGG-TATCAATATG
* * *
38160380 CATGATCCTATGTAAGACCATGTCTAGGACATGGCATTAGTATCAATATG
1 --TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGTATCAATATG
* ** ** *
38160430 TAATCCCATGTAAGACCATACCTGGGATTTGGCATTGGCATCAGACTATG
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGTATCA-A-TATG
38160480 TGA
1 TGA
38160483 ATGTGATTTC
Statistics
Matches: 150, Mismatches: 26, Indels: 34
0.71 0.12 0.16
Matches are distributed among these distances:
41 1 0.01
43 13 0.09
44 2 0.01
45 14 0.09
46 2 0.01
47 3 0.02
48 90 0.60
49 5 0.03
50 20 0.13
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (48 bp):
TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGTATCAATATG
Found at i:38165253 original size:48 final size:48
Alignment explanation
Indices: 38165182--38165522 Score: 212
Period size: 48 Copynumber: 7.4 Consensus size: 48
38165172 GGGATATGCA
*
38165182 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGTATCAAAATG
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGTATCAATATG
*
38165230 TGATCCCATGTAAGACCATG--T----C-T-GCATTCGTATCAATATG
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGTATCAATATG
* * * **
38165270 AG-TCATCGTGTAAGACCATAG-CTGGG-C-T---ATTGGCT-TTGATATG
1 TGATC-CCATGTAAGACCAT-GTCTGGGACATGGCATTGG-TATCAATATG
* * *
38165313 CATGATCCCGTGTAAGACCATGTCTGGGACATGTCATTGGTATCGAA-ATA
1 --TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGTATC-AATATG
* *
38165363 TGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCAATATG
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGTATCAATATG
* * * * *
38165411 AG-TCATCGTGTAAGACCATAG-CTGGG-C-T---ATCGGCT-TCGATATG
1 TGATC-CCATGTAAGACCAT-GTCTGGGACATGGCATTGG-TATCAATATG
* * *
38165454 CATGATCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCATCGATATG
1 --TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGTATCAATATG
38165504 TGATCCCAAT-TAAGACCAT
1 TGATCCC-ATGTAAGACCAT
38165523 ACTTCGGATA
Statistics
Matches: 229, Mismatches: 31, Indels: 66
0.70 0.10 0.20
Matches are distributed among these distances:
39 2 0.01
40 28 0.12
41 2 0.01
42 2 0.01
43 21 0.09
44 3 0.01
45 39 0.17
46 8 0.03
47 7 0.03
48 93 0.41
49 4 0.02
50 19 0.08
51 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (48 bp):
TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGTATCAATATG
Found at i:38165454 original size:141 final size:139
Alignment explanation
Indices: 38165174--38165545 Score: 533
Period size: 141 Copynumber: 2.7 Consensus size: 139
38165164 TAACGTTAGG
*
38165174 GATATGCATGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGTATCAAAATGTGATCCCAT
1 GATATGCATGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGTATCGAAATGTGATCCCAT
* *
38165239 GTAAGACCATG-T---C-T-GCATTCGTATCAATATGAGTCATCGTGTAAGACCATAGCTGGGCT
66 GTAAGACCATGCTGGACATGGCATTGGCATCAATATGAGTCATCGTGTAAGACCATAGCTGGGCT
* *
38165298 ATTGGCTTT
131 ATCGGCTTC
* * *
38165307 GATATGCATGATCCCGTGTAAGACCATGTCTGGGACATGTCATTGGTATCGAAATATGATCCCAT
1 GATATGCATGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGTATCGAAATGTGATCCCAT
38165372 GTAAGACCATGTCTAGGACATGGCATTGGCATCAATATGAGTCATCGTGTAAGACCATAGCTGGG
66 GTAAGACCATG-CT-GGACATGGCATTGGCATCAATATGAGTCATCGTGTAAGACCATAGCTGGG
38165437 CTATCGGCTTC
129 CTATCGGCTTC
* * *
38165448 GATATGCATGATCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCATCGATATGTGATCCCAA
1 GATATGCATGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGTATCGAAATGTGATCCC-A
* *
38165513 T-TAAGACCATACTTCGGATATGGCATTGGCATC
65 TGTAAGACCATGC-T-GGACATGGCATTGGCATC
38165546 CGACTATGTG
Statistics
Matches: 212, Mismatches: 17, Indels: 12
0.88 0.07 0.05
Matches are distributed among these distances:
133 72 0.34
135 1 0.00
139 1 0.00
140 2 0.01
141 134 0.63
142 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.28
Consensus pattern (139 bp):
GATATGCATGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGTATCGAAATGTGATCCCAT
GTAAGACCATGCTGGACATGGCATTGGCATCAATATGAGTCATCGTGTAAGACCATAGCTGGGCT
ATCGGCTTC
Found at i:38167475 original size:27 final size:27
Alignment explanation
Indices: 38167445--38167505 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 27
38167435 GGATGAAGTT
38167445 TAATTT-ACGAGCCTAGGGGCAAAAATG
1 TAATTTGAC-AGCCTAGGGGCAAAAATG
** *
38167472 TAATTTTGACAGTTTAGGGGCAAAATTG
1 TAA-TTTGACAGCCTAGGGGCAAAAATG
38167500 TAATTT
1 TAATTT
38167506 TTCCAAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
27 6 0.21
28 21 0.72
29 2 0.07
ACGTcount: A:0.34, C:0.10, G:0.23, T:0.33
Consensus pattern (27 bp):
TAATTTGACAGCCTAGGGGCAAAAATG
Found at i:38167851 original size:27 final size:27
Alignment explanation
Indices: 38167810--38167863 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
38167800 TGTCATGTGA
* *
38167810 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
38167837 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
38167864 GGTTGTACCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:38168329 original size:49 final size:50
Alignment explanation
Indices: 38168097--38168334 Score: 268
Period size: 49 Copynumber: 4.8 Consensus size: 50
38168087 TGAGTTCACG
*
38168097 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACC-GAATAATT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAG-ATAATTAGGTCGCA
** * * * * *
38168146 TGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAA-TTAGGTCGCA
* * * ** *
38168197 TGTGTAGCACTAAGCGCAGGCTACTATGTGTATCAGATGGTTAGGTC-AA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTAGGTCGCA
* *
38168246 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCGCA
1 -TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTAGGTCGCA
*
38168296 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
38168335 GCCTTGTCTA
Statistics
Matches: 155, Mismatches: 29, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
49 75 0.48
50 44 0.28
51 36 0.23
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.28
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTAGGTCGCA
Found at i:38172778 original size:16 final size:16
Alignment explanation
Indices: 38172757--38172790 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
38172747 TAATTAAAAG
38172757 AATTAAAAAGGGAAAT
1 AATTAAAAAGGGAAAT
38172773 AATTAAAAAGGGAAAT
1 AATTAAAAAGGGAAAT
38172789 AA
1 AA
38172791 GCCAAATTAG
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:0.65, C:0.00, G:0.18, T:0.18
Consensus pattern (16 bp):
AATTAAAAAGGGAAAT
Found at i:38173611 original size:27 final size:27
Alignment explanation
Indices: 38173581--38173634 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
38173571 TGCCATGTGA
* *
38173581 AATTGAATGACAAATTATTGTTACATG
1 AATTGAATGACAAATTACTATTACATG
**
38173608 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGACAAATTACTATTACATG
38173635 GGTTGTACCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.41, C:0.07, G:0.13, T:0.39
Consensus pattern (27 bp):
AATTGAATGACAAATTACTATTACATG
Found at i:38174031 original size:50 final size:51
Alignment explanation
Indices: 38173917--38174052 Score: 193
Period size: 50 Copynumber: 2.7 Consensus size: 51
38173907 ATTGGTCGCA
* ** * *
38173917 TGTGTAGCACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAAATAACTTAGATCAAG
* * *
38173968 TGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAAAT-AGTTAGATCAAG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAAATAACTTAGATCAAG
38174018 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCA
38174053 GATATCCTTG
Statistics
Matches: 75, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
50 42 0.56
51 33 0.44
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (51 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAAATAACTTAGATCAAG
Found at i:38176965 original size:25 final size:25
Alignment explanation
Indices: 38176937--38176994 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
38176927 AGCTCGTATA
*
38176937 AGCTTACCGATACTCAGCTTGCATG
1 AGCTTACCGATACTCAGCTTGCAGG
* * * *
38176962 AGCTTACTGTTATTCAGCTTGGAGG
1 AGCTTACCGATACTCAGCTTGCAGG
38176987 AGCTTACC
1 AGCTTACC
38176995 ATTTATAGCT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.31
Consensus pattern (25 bp):
AGCTTACCGATACTCAGCTTGCAGG
Found at i:38177495 original size:17 final size:17
Alignment explanation
Indices: 38177473--38177513 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
38177463 ATAGTTATTC
38177473 GGAAGCTCATTAAAGTT
1 GGAAGCTCATTAAAGTT
* *
38177490 GGAAGCTCGTTCAAGTT
1 GGAAGCTCATTAAAGTT
*
38177507 AGAAGCT
1 GGAAGCT
38177514 TGTCAAAGCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.27
Consensus pattern (17 bp):
GGAAGCTCATTAAAGTT
Found at i:38178113 original size:14 final size:15
Alignment explanation
Indices: 38178091--38178126 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
38178081 TCAACCATGT
*
38178091 GTGAAACACGACCA-
1 GTGACACACGACCAG
38178105 GTGACACACGACCAG
1 GTGACACACGACCAG
38178120 GTGACAC
1 GTGACAC
38178127 GGCTGTGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.36, C:0.31, G:0.25, T:0.08
Consensus pattern (15 bp):
GTGACACACGACCAG
Found at i:38178324 original size:42 final size:42
Alignment explanation
Indices: 38178173--38178323 Score: 221
Period size: 42 Copynumber: 3.6 Consensus size: 42
38178163 GTCAAGCTGT
* *
38178173 TACACGGCCTGGCACATAGGCGTGTAAGGTTACTTCGAAGTG
1 TACACGGCCTGGCACACAGGCGTGTAAGGTTACTTCGAAGGG
*
38178215 TACACGGCCTGGCACATAGGCGTGTAAGGTTACTTCGAAGGG
1 TACACGGCCTGGCACACAGGCGTGTAAGGTTACTTCGAAGGG
* * *
38178257 TACACGGCCTGGTACACAGGCGTGTGAGGTTACTTCAAAGGG
1 TACACGGCCTGGCACACAGGCGTGTAAGGTTACTTCGAAGGG
* * *
38178299 TACACGACTTGGCACACGGGCGTGT
1 TACACGGCCTGGCACACAGGCGTGT
38178324 GGCTTGGCTG
Statistics
Matches: 100, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 100 1.00
ACGTcount: A:0.23, C:0.23, G:0.32, T:0.22
Consensus pattern (42 bp):
TACACGGCCTGGCACACAGGCGTGTAAGGTTACTTCGAAGGG
Found at i:38186951 original size:38 final size:38
Alignment explanation
Indices: 38186838--38187001 Score: 184
Period size: 38 Copynumber: 4.3 Consensus size: 38
38186828 ATATTCGATG
* * *
38186838 TATATCCGGGTTAAATCCTGCAGACTTCGTACTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* * * *
38186876 TATATCTGGGCTTAAAGACCCGCAGGGTTCGTGCTGGTAA
1 TATATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTAT
* *
38186916 AATATCCGGGTTAAATCCCGTAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* * * *
38186954 TATATCAGGGATAAATCCCGCAGGCCTAGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
*
38186992 TATATTCGGG
1 TATATCCGGG
38187002 CCTTCGTGCT
Statistics
Matches: 103, Mismatches: 21, Indels: 4
0.80 0.16 0.03
Matches are distributed among these distances:
38 68 0.66
39 10 0.10
40 25 0.24
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.30
Consensus pattern (38 bp):
TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
Found at i:38187071 original size:43 final size:43
Alignment explanation
Indices: 38186994--38187075 Score: 119
Period size: 43 Copynumber: 1.9 Consensus size: 43
38186984 GCTGGTATTA
* * * **
38186994 TATTCGGGCCTTCGTGCTTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCAGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGATGTG
38187037 TATTCAGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGA
1 TATTCAGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGA
38187076 AATGATATGT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.13, C:0.24, G:0.33, T:0.29
Consensus pattern (43 bp):
TATTCAGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGATGTG
Found at i:38187459 original size:45 final size:45
Alignment explanation
Indices: 38187392--38187499 Score: 116
Period size: 45 Copynumber: 2.4 Consensus size: 45
38187382 TTGACTTGAT
* * *
38187392 TATTCGGGCCTTTGAACTTAGCAAACTATAATACCGGTGAGA-T-A
1 TATTCGGGCCTTCGAGCCTAGCAAACTATAATACCGGTGA-ACTGA
** *
38187436 CTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAACTGA
1 -TATTCGGGCCTTCGAGCCTAGCAAACTATAATACCGGTGAACTGA
38187482 TATT-GGGCC-TCGAGCCTA
1 TATTCGGGCCTTCGAGCCTA
38187500 ACAGGCGAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
43 9 0.16
44 6 0.11
45 39 0.71
46 1 0.02
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (45 bp):
TATTCGGGCCTTCGAGCCTAGCAAACTATAATACCGGTGAACTGA
Found at i:38189061 original size:25 final size:24
Alignment explanation
Indices: 38189028--38189079 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
38189018 TGGAGGACAT
* *
38189028 TACCATTTATAGCTCGTAAGAGCA
1 TACCATTTAGAGATCGTAAGAGCA
*
38189052 TACCGATTTAGAGATCGTATGAGCA
1 TACC-ATTTAGAGATCGTAAGAGCA
38189077 TAC
1 TAC
38189080 ACGTACAGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 4 0.17
25 20 0.83
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (24 bp):
TACCATTTAGAGATCGTAAGAGCA
Found at i:38192023 original size:46 final size:44
Alignment explanation
Indices: 38191826--38192023 Score: 137
Period size: 46 Copynumber: 4.3 Consensus size: 44
38191816 GTCATTTGTG
* *
38191826 TGAGCTAGTGTAAGACCATGTCTGGACATGGCTTTGGCATTGAGACA
1 TGAGCTAGTGTAAGA-CATGTCTGGACAT-GCTTCGAC-TTGAGACA
* * * * * *
38191873 AGTGCTAGTGTAAGACATGTCTAGGACATGCATCAACCTCAGGACA
1 TGAGCTAGTGTAAGACATGTCT-GGACATGCTTCGACTTGA-GACA
* * * * * *
38191919 TAAGCCAGTGTAAGACATGTCTTGGACATGCGTCGGCTACGAGATGA
1 TGAGCTAGTGTAAGACATGTC-TGGACATGCTTCGACT-TGAGA-CA
* * *
38191966 TG-GTTAGTGTAAGCCATGTCTGGGACATGGCTTCGACTTGAGATA
1 TGAGCTAGTGTAAGACATGTCT-GGACAT-GCTTCGACTTGAGACA
*
38192011 TGAGCTAATGTAA
1 TGAGCTAGTGTAA
38192024 ATTTGTGTCT
Statistics
Matches: 114, Mismatches: 29, Indels: 17
0.71 0.18 0.11
Matches are distributed among these distances:
45 6 0.05
46 78 0.68
47 30 0.26
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (44 bp):
TGAGCTAGTGTAAGACATGTCTGGACATGCTTCGACTTGAGACA
Found at i:38193041 original size:28 final size:28
Alignment explanation
Indices: 38193000--38193064 Score: 121
Period size: 28 Copynumber: 2.3 Consensus size: 28
38192990 CACGGGCTAG
38193000 GACACGGGCATGTCATGGCCGTGTGAAT
1 GACACGGGCATGTCATGGCCGTGTGAAT
*
38193028 GACACGGGCGTGTCATGGCCGTGTGAAT
1 GACACGGGCATGTCATGGCCGTGTGAAT
38193056 GACACGGGC
1 GACACGGGC
38193065 TATAGACACG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.20, C:0.23, G:0.38, T:0.18
Consensus pattern (28 bp):
GACACGGGCATGTCATGGCCGTGTGAAT
Found at i:38209151 original size:14 final size:15
Alignment explanation
Indices: 38209114--38209159 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
38209104 ATATATATGA
*
38209114 ATTAGTAATAAATTAT
1 ATTA-TAATTAATTAT
38209130 ATTA-AATTAATT-T
1 ATTATAATTAATTAT
38209143 ATTATAATTATATTAT
1 ATTATAATTA-ATTAT
38209159 A
1 A
38209160 AGATATTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
13 5 0.19
14 12 0.46
15 3 0.12
16 6 0.23
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (15 bp):
ATTATAATTAATTAT
Found at i:38209345 original size:21 final size:22
Alignment explanation
Indices: 38209321--38209361 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
38209311 TAAATAAAAA
*
38209321 AAAG-AAATGAAAAAGAGAAAC
1 AAAGCAAACGAAAAAGAGAAAC
*
38209342 AAAGCAAACGAAACAGAGAA
1 AAAGCAAACGAAAAAGAGAA
38209362 GAACAGGGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.68, C:0.10, G:0.20, T:0.02
Consensus pattern (22 bp):
AAAGCAAACGAAAAAGAGAAAC
Found at i:38210620 original size:17 final size:18
Alignment explanation
Indices: 38210580--38210621 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
38210570 TGAATATTTT
*
38210580 ACTGTTATTGAATTACTG
1 ACTGTTATTGAATGACTG
*
38210598 ATTGTTATTG-ATGACTG
1 ACTGTTATTGAATGACTG
38210615 ACTGTTA
1 ACTGTTA
38210622 CTAAAATGGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.26, C:0.10, G:0.19, T:0.45
Consensus pattern (18 bp):
ACTGTTATTGAATGACTG
Found at i:38214558 original size:8 final size:8
Alignment explanation
Indices: 38214547--38214580 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
38214537 CCTTCCTTCC
38214547 TTTCTTTA
1 TTTCTTTA
38214555 TTTCTTTA
1 TTTCTTTA
38214563 TTT-TTTA
1 TTTCTTTA
38214570 TTTCTTTA
1 TTTCTTTA
38214578 TTT
1 TTT
38214581 TTCTCTTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 7 0.28
8 18 0.72
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.79
Consensus pattern (8 bp):
TTTCTTTA
Found at i:38214571 original size:15 final size:15
Alignment explanation
Indices: 38214551--38214582 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
38214541 CCTTCCTTTC
38214551 TTTATTTCTTTATTT
1 TTTATTTCTTTATTT
38214566 TTTATTTCTTTATTT
1 TTTATTTCTTTATTT
38214581 TT
1 TT
38214583 CTCTTAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTATTTCTTTATTT
Found at i:38216729 original size:21 final size:21
Alignment explanation
Indices: 38216673--38216735 Score: 81
Period size: 22 Copynumber: 2.9 Consensus size: 21
38216663 AGCCGGCTAT
* *
38216673 GCACTAAACCTGAAGAACACTG
1 GCACT-AACCTAAATAACACTG
*
38216695 GCACTAGGCCTAAATAACACTG
1 GCACTA-ACCTAAATAACACTG
38216717 GCACTAACCTAAATAACAC
1 GCACTAACCTAAATAACAC
38216736 CGATACTAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
21 13 0.36
22 23 0.64
ACGTcount: A:0.41, C:0.29, G:0.14, T:0.16
Consensus pattern (21 bp):
GCACTAACCTAAATAACACTG
Found at i:38216743 original size:21 final size:21
Alignment explanation
Indices: 38216703--38216744 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
38216693 TGGCACTAGG
* *
38216703 CCTAAATAACACTGGCACTAA
1 CCTAAATAACACCGACACTAA
*
38216724 CCTAAATAACACCGATACTAA
1 CCTAAATAACACCGACACTAA
38216745 GTCTGCTAGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.45, C:0.29, G:0.07, T:0.19
Consensus pattern (21 bp):
CCTAAATAACACCGACACTAA
Found at i:38216767 original size:38 final size:38
Alignment explanation
Indices: 38216716--38216812 Score: 115
Period size: 38 Copynumber: 2.6 Consensus size: 38
38216706 AAATAACACT
* *
38216716 GGCACTAA-CCTAAATAACACCGATACTAAGTCTGCTA
1 GGCACTAAGCCTAAATAACACCGACACTAAGCCTGCTA
** * * *
38216753 GGCACTCGGCCTAAATATCACTGGCACTAAGCCTGCTA
1 GGCACTAAGCCTAAATAACACCGACACTAAGCCTGCTA
*
38216791 GGCACTAAGCCTGAATAACACC
1 GGCACTAAGCCTAAATAACACC
38216813 TCATTTGAAT
Statistics
Matches: 47, Mismatches: 12, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
37 6 0.13
38 41 0.87
ACGTcount: A:0.33, C:0.30, G:0.18, T:0.20
Consensus pattern (38 bp):
GGCACTAAGCCTAAATAACACCGACACTAAGCCTGCTA
Found at i:38225547 original size:44 final size:46
Alignment explanation
Indices: 38225427--38225656 Score: 162
Period size: 49 Copynumber: 4.8 Consensus size: 46
38225417 TCGGCGTAGA
38225427 GATGAGTGCCAGTGTAAGACGTGTCTGGGACATGCATCGGCCTCAAT
1 GATG-GTGCCAGTGTAAGACGTGTCTGGGACATGCATCGGCCTCAAT
38225474 GATGGTAGCCAGTGTAAGACGTGTCTGGGACATGCATCGG-CT-AA-
1 GATGGT-GCCAGTGTAAGACGTGTCTGGGACATGCATCGGCCTCAAT
* * * * * * * *
38225518 GCTTTGTGCTAGTGTAAGACATGTTTGGGACATGTATCAGCACT-TAT
1 G-ATGGTGCCAGTGTAAGACGTGTCTGGGACATGCATCGGC-CTCAAT
* * * * * * *
38225565 ACACGAGAGCTAGTGTAAGACCATGTCTGGGACACGGCATCGGCCTCGAT
1 -GATG-GTGCCAGTGTAAGA-CGTGTCTGGGACA-TGCATCGGCCTCAAT
* * * *
38225615 GAAGATAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGG
1 GATGGT-GCCAGTGTAAGA-CGTGTCTGGGACAT-GCATCGG
38225657 TAACTTAACC
Statistics
Matches: 148, Mismatches: 23, Indels: 22
0.77 0.12 0.11
Matches are distributed among these distances:
44 29 0.20
45 5 0.03
46 7 0.05
47 37 0.25
48 13 0.09
49 49 0.33
50 8 0.05
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.24
Consensus pattern (46 bp):
GATGGTGCCAGTGTAAGACGTGTCTGGGACATGCATCGGCCTCAAT
Found at i:38226506 original size:55 final size:55
Alignment explanation
Indices: 38226402--38226507 Score: 158
Period size: 55 Copynumber: 1.9 Consensus size: 55
38226392 CTTAAACTTT
* **
38226402 TAAGTCAGTATTGTCCATGGGTAGGCCACATGGGCATGTGCCATAGCCGTGTCTA
1 TAAGTCAGTATTGTCCACGGGTAGGCCACACAGGCATGTGCCATAGCCGTGTCTA
* * *
38226457 TAAGTCAGTATTGTCCACGGGTAGGCCACACAGGCGTGTGTCATGGCCGTG
1 TAAGTCAGTATTGTCCACGGGTAGGCCACACAGGCATGTGCCATAGCCGTG
38226508 CCTTAAAGTT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
55 45 1.00
ACGTcount: A:0.21, C:0.23, G:0.31, T:0.25
Consensus pattern (55 bp):
TAAGTCAGTATTGTCCACGGGTAGGCCACACAGGCATGTGCCATAGCCGTGTCTA
Found at i:38229438 original size:21 final size:21
Alignment explanation
Indices: 38229412--38229460 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
38229402 GACTAAATCG
38229412 TAAAAGTTATAAAATTTGTCA
1 TAAAAGTTATAAAATTTGTCA
38229433 TAAAAGTTATAAAATTTGTCA
1 TAAAAGTTATAAAATTTGTCA
38229454 TAAAAGT
1 TAAAAGT
38229461 GTGTTTTAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.49, C:0.04, G:0.10, T:0.37
Consensus pattern (21 bp):
TAAAAGTTATAAAATTTGTCA
Found at i:38236513 original size:43 final size:42
Alignment explanation
Indices: 38236466--38236563 Score: 108
Period size: 42 Copynumber: 2.3 Consensus size: 42
38236456 CCCAGACGTA
* **
38236466 GTCTTACATGTAATTCA-ATATCGATGCCTCTATCCCAGACAGG
1 GTCTTACATGTAATT-AGATA-CGATACCGATATCCCAGACAGG
* * *
38236509 GTCTTACATGAAATTAGATACGATACCGATGTCCCAGACATG
1 GTCTTACATGTAATTAGATACGATACCGATATCCCAGACAGG
*
38236551 GTCTTATATGTAA
1 GTCTTACATGTAA
38236564 ATCTCAATTG
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
42 29 0.63
43 17 0.37
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (42 bp):
GTCTTACATGTAATTAGATACGATACCGATATCCCAGACAGG
Found at i:38236554 original size:42 final size:43
Alignment explanation
Indices: 38236449--38236601 Score: 116
Period size: 43 Copynumber: 3.6 Consensus size: 43
38236439 AAGTACAATG
* * * * *
38236449 CCGACGTCCCAGACGTAGTCTTACATGTAATTCAATATCGATG
1 CCGATGTCCCAGACATGGTCTTACATGAAATTCAATATCGATA
** * *
38236492 CCTCTATCCCAGACAGGGTCTTACATGAAATT-AGATA-CGATA
1 CCGATGTCCCAGACATGGTCTTACATGAAATTCA-ATATCGATA
* **
38236534 CCGATGTCCCAGACATGGTCTTATATGTAAATCTCAAT-T-GAGG
1 CCGATGTCCCAGACATGGTCTTACATG-AAAT-TCAATATCGATA
* * *
38236577 CCTATGTCCCAGAAACGGTCTTACA
1 CCGATGTCCCAGACATGGTCTTACA
38236602 CGATGTCTCA
Statistics
Matches: 85, Mismatches: 20, Indels: 10
0.74 0.17 0.09
Matches are distributed among these distances:
42 27 0.32
43 54 0.64
44 3 0.04
45 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.27
Consensus pattern (43 bp):
CCGATGTCCCAGACATGGTCTTACATGAAATTCAATATCGATA
Found at i:38244135 original size:85 final size:85
Alignment explanation
Indices: 38243992--38244170 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
38243982 GGCCGGCCAT
38243992 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
38244057 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
38244077 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
38244142 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
38244162 GGGCATGGG
1 GAGCATGGG
38244171 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:38245484 original size:47 final size:47
Alignment explanation
Indices: 38245433--38245774 Score: 414
Period size: 47 Copynumber: 7.1 Consensus size: 47
38245423 TTAGGATTTT
* * *
38245433 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
**
38245480 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA--C--ATGCATATGTGTGATAAGGCCGAATGGCCA
* * *
38245531 ATGTGATGAATGTGAACCTGTATATATCTATACGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATG--CATA--TGT--GTGATAAGGCCGAATGGCCA
*
38245584 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * *
38245631 ATGTGATGAATGTGAACATGCGTATGTTTGATAAGGTCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * *
38245678 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGATTGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * * * *
38245725 ATGTGATGAATGTGAACATGAATATATGTGGTAAGGCTGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
38245772 ATG
1 ATG
38245775 CGAAACGTGT
Statistics
Matches: 259, Mismatches: 26, Indels: 20
0.85 0.09 0.07
Matches are distributed among these distances:
47 166 0.64
49 8 0.03
51 46 0.18
53 39 0.15
ACGTcount: A:0.31, C:0.12, G:0.29, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
Found at i:38245684 original size:22 final size:22
Alignment explanation
Indices: 38245610--38245684 Score: 55
Period size: 24 Copynumber: 3.3 Consensus size: 22
38245600 CATGCGTATG
*
38245610 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGTCGAATGGCCAA
* **
38245632 TGTGATGAATGT-GAACAT-GCGTA
1 TGTGAT-AAGGTCG-A-ATGGCCAA
38245655 TGTTTGATAAGGTCGAATGGCCAA
1 TG--TGATAAGGTCGAATGGCCAA
38245679 TGTGAT
1 TGTGAT
38245685 GAATGTGAAC
Statistics
Matches: 39, Mismatches: 7, Indels: 14
0.65 0.12 0.23
Matches are distributed among these distances:
22 11 0.28
23 11 0.28
24 12 0.31
25 5 0.13
ACGTcount: A:0.29, C:0.12, G:0.31, T:0.28
Consensus pattern (22 bp):
TGTGATAAGGTCGAATGGCCAA
Found at i:38245845 original size:141 final size:139
Alignment explanation
Indices: 38245433--38245823 Score: 311
Period size: 141 Copynumber: 2.7 Consensus size: 139
38245423 TTAGGATTTT
* ** * * * *
38245433 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGAATATATGTGATAAGGCCGAATGGCCAATGCGA-GAACGTGAA--
*** * * * * *
38245498 CGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCTGTATATATCTATA
63 C--ATGCGTATGT-TGATAAAGCCAAATGGCCAATGTGATGAATGTCAACATG--CATA--TAT-
*
38245563 CGTGATAAGGCCGAATGGCCA
120 -GAGATAAGGCCGAATGGCCA
** * * *
38245584 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGAATATATGTGATAAGGCCGAATGGCCAATGCGA-GAACGTGAACA
* * * *
38245649 TGCGTATGTTTGATAAGGTCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGG
65 TGCGTATG-TTGATAAAGCCAAATGGCCAATGTGATGAATGTCAACATGCATATATGAGATAAGG
*
38245714 CCGATTGGCCA
129 CCGAATGGCCA
* * *
38245725 ATGTGATGAATGTGAACATGAATATATGTGGTAAGGCTGAATGGCTAATGCGA-AACGTGTATGA
1 ATGTGATGAATGTGAACATGAATATATGTGATAAGGCCGAATGGCCAATGCGAGAACGTG-A--A
* * *
38245789 GATG-GATATG-TGGTAAAGCCAAATGGCTAATGTGA
63 CATGCG-TATGTTGATAAAGCCAAATGGCCAATGTGA
38245824 GATATGTACA
Statistics
Matches: 211, Mismatches: 24, Indels: 21
0.82 0.09 0.08
Matches are distributed among these distances:
139 5 0.02
140 21 0.10
141 65 0.31
142 8 0.04
143 3 0.01
145 3 0.01
147 43 0.20
148 1 0.00
149 1 0.00
151 61 0.29
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.27
Consensus pattern (139 bp):
ATGTGATGAATGTGAACATGAATATATGTGATAAGGCCGAATGGCCAATGCGAGAACGTGAACAT
GCGTATGTTGATAAAGCCAAATGGCCAATGTGATGAATGTCAACATGCATATATGAGATAAGGCC
GAATGGCCA
Found at i:38246033 original size:37 final size:37
Alignment explanation
Indices: 38245983--38246128 Score: 247
Period size: 37 Copynumber: 3.9 Consensus size: 37
38245973 GGAAATATAT
*
38245983 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
38246020 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
38246057 TCCAGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * *
38246094 TCCGGGTAAGACCCGATAACTTCATGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
38246129 CGTCTGAGCT
Statistics
Matches: 103, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 103 1.00
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:38247666 original size:40 final size:40
Alignment explanation
Indices: 38247383--38247654 Score: 409
Period size: 40 Copynumber: 6.8 Consensus size: 40
38247373 GAGAATTGAG
*
38247383 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* *
38247423 AGTGATGTATCCGGGCTAAGTCCCGAGGATCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
*
38247463 AGTAATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
*
38247503 AGTGATATATCTGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* * *
38247543 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* ** *
38247583 AGTGATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* * *
38247623 GGTGTTATATCCGGGCTAGGTCCCGAGGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCA
38247655 ATCATGCTGG
Statistics
Matches: 208, Mismatches: 24, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 208 1.00
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
Found at i:38247937 original size:58 final size:56
Alignment explanation
Indices: 38247866--38247973 Score: 144
Period size: 58 Copynumber: 1.9 Consensus size: 56
38247856 CGAATGATTA
* * *
38247866 GAGGCACTGTGTGTGCAAATTCTTTTAACCGAGCACTATGTGTGCGAAATCGGTAATT
1 GAGGCACTATGTGTGCAAATTC-TTCAACCAAGCACTAT-TGTGCGAAATCGGTAATT
* * *
38247924 GAGGCACTATGTGTGCGAGTTCTTCAACCAAGCACTATTGTGCGAGATCG
1 GAGGCACTATGTGTGCAAATTCTTCAACCAAGCACTATTGTGCGAAATCG
38247974 ATCAGTGGGC
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
56 11 0.25
57 14 0.32
58 19 0.43
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (56 bp):
GAGGCACTATGTGTGCAAATTCTTCAACCAAGCACTATTGTGCGAAATCGGTAATT
Found at i:38247994 original size:57 final size:59
Alignment explanation
Indices: 38247866--38247999 Score: 145
Period size: 57 Copynumber: 2.4 Consensus size: 59
38247856 CGAATGATTA
* * * *
38247866 GAGGCACT-GTGTGTGCAAATTCTTTTAACCGAGCACTATGTGTGCGAAATCGGTAATT
1 GAGGCACTAGTGTGTGCAAATTCTTTCAACCAAGCACTATGTGTGCGAAATCGATAAGT
* * * *
38247924 GAGGCACTA-TGTGTGCGAGTTC-TTCAACCAAGCACTAT-TGTGCGAGATCGATCAGT
1 GAGGCACTAGTGTGTGCAAATTCTTTCAACCAAGCACTATGTGTGCGAAATCGATAAGT
38247980 G-GGCACTAAGTGTGTG-AAAT
1 GAGGCACT-AGTGTGTGCAAAT
38248000 GAGATTCATG
Statistics
Matches: 63, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
55 6 0.10
56 18 0.29
57 20 0.32
58 19 0.30
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (59 bp):
GAGGCACTAGTGTGTGCAAATTCTTTCAACCAAGCACTATGTGTGCGAAATCGATAAGT
Found at i:38249561 original size:84 final size:85
Alignment explanation
Indices: 38249417--38249594 Score: 331
Period size: 84 Copynumber: 2.1 Consensus size: 85
38249407 GGCCGGCCAT
38249417 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
*
38249482 GTAATGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
38249502 GAGCATGGGTGGACAAGATGTTATGGCT-AAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
38249566 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
38249586 GGGCATGGG
1 GAGCATGGG
38249595 CAATAAAATA
Statistics
Matches: 91, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
84 63 0.69
85 28 0.31
ACGTcount: A:0.37, C:0.08, G:0.28, T:0.27
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:38250905 original size:47 final size:47
Alignment explanation
Indices: 38250854--38251209 Score: 507
Period size: 47 Copynumber: 7.4 Consensus size: 47
38250844 TTAGGATTTT
* *
38250854 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*** *
38250901 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGACGAATGGCCA
1 ATGTGATGAATGTGAA--C--ATGCGTATGTGTGATAAGGCCGAATGGCCA
*
38250952 ATGTGATGAATGTGAACATGCGTATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*** *
38250999 ATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-C---ATGCGTATGTGTGATAAGGCCGAATGGCCA
38251050 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
38251097 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* * *
38251144 ATGTGATGAATGT-AACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
38251190 ATGTGATGAATGTGAACATG
1 ATGTGATGAATGTGAACATG
38251210 AATATATATG
Statistics
Matches: 279, Mismatches: 21, Indels: 18
0.88 0.07 0.06
Matches are distributed among these distances:
46 43 0.15
47 148 0.53
48 1 0.00
49 2 0.01
50 1 0.00
51 84 0.30
ACGTcount: A:0.31, C:0.12, G:0.30, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
Found at i:38250965 original size:98 final size:98
Alignment explanation
Indices: 38250854--38251206 Score: 563
Period size: 98 Copynumber: 3.7 Consensus size: 98
38250844 TTAGGATTTT
* *
38250854 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
*
38250919 CGTATATATATGTGTGATAAGGACGAATGGCCA
66 CGTATATATATGTGTGATAAGGCCGAATGGCCA
*
38250952 ATGTGATGAATGTGAACATGCGTATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
* *
38251017 TGTATATATATGCGTGATAAGGCCGAATGGCCA
66 CGTATATATATGTGTGATAAGGCCGAATGGCCA
38251050 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA--
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
***
38251113 C--ATGCGTATGTGTGATAAGGCCGAATGGCCA
66 CGTATATATATGTGTGATAAGGCCGAATGGCCA
* * *
38251144 ATGTGATGAATGT-AACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
38251207 ATGAATATAT
Statistics
Matches: 239, Mismatches: 15, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
93 46 0.19
94 39 0.16
98 154 0.64
ACGTcount: A:0.31, C:0.12, G:0.30, T:0.26
Consensus pattern (98 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
CGTATATATATGTGTGATAAGGCCGAATGGCCA
Found at i:38251003 original size:145 final size:142
Alignment explanation
Indices: 38250854--38251206 Score: 512
Period size: 145 Copynumber: 2.5 Consensus size: 142
38250844 TTAGGATTTT
* * *
38250854 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-C
*
38250919 CGTATATATATGTGTGATAAGGACGAATGGCCAATGTGATGAATGTGAACATGCGTATGCGTGAT
65 C--ATACATATGTGTGATAAGGACGAATGGCCAATGTGATGAATGTGAACATGCGTATGCGTGAT
38250984 AAGGCCGAATGGCCA
128 AAGGCCGAATGGCCA
** *
38250999 ATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
1 ATGTGATGAATGTGAA-C---ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
* * * *
38251064 AA-CATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGA
62 AACCATACATATGTGTGATAAGGACGAATGGCCAATGTGATGAATGTGAACATGCGTATGCGTGA
38251128 TAAGGCCGAATGGCCA
127 TAAGGCCGAATGGCCA
* *
38251144 ATGTGATGAATGT-AACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
38251207 ATGAATATAT
Statistics
Matches: 187, Mismatches: 16, Indels: 14
0.86 0.07 0.06
Matches are distributed among these distances:
140 41 0.22
143 1 0.01
144 2 0.01
145 100 0.53
146 1 0.01
147 1 0.01
149 41 0.22
ACGTcount: A:0.31, C:0.12, G:0.30, T:0.26
Consensus pattern (142 bp):
ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
ATACATATGTGTGATAAGGACGAATGGCCAATGTGATGAATGTGAACATGCGTATGCGTGATAAG
GCCGAATGGCCA
Found at i:38251077 original size:23 final size:23
Alignment explanation
Indices: 38251050--38251124 Score: 57
Period size: 23 Copynumber: 3.2 Consensus size: 23
38251040 CGAATGGCCA
38251050 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
* * **
38251073 ATGTG-TGATAAG-G-CCGAATGGCCA
1 ATGTGATGA-ATGTGAAC--AT-GCGT
38251097 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
38251120 ATGTG
1 ATGTG
38251125 TGATAAGGCC
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
21 1 0.03
22 4 0.11
23 16 0.43
24 11 0.30
25 4 0.11
26 1 0.03
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.28
Consensus pattern (23 bp):
ATGTGATGAATGTGAACATGCGT
Found at i:38251309 original size:140 final size:139
Alignment explanation
Indices: 38250854--38251295 Score: 428
Period size: 145 Copynumber: 3.1 Consensus size: 139
38250844 TTAGGATTTT
* * * * * *
38250854 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAACC
1 ATGTGATGAATGT-AACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
* * * * * *
38250919 CGTATATATATGTGTGATAAGGACGAATGGCCAATGTGATGAATGTGAACATGCGTATGCGTGAT
65 TG-A-ATATA--TATGATAAGGCCGAATGGCCAATGCGA-GAACGTGAACATGCGTATGTGTGAT
* *
38250984 AAGGCCGAATGGCCA
125 AAAGCCAAATGGCCA
* * *
38250999 ATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
1 ATGTGATGAATGT-AACATG--CATATAT--GAGATAAGGCCGAATGGCCAATGTGATGAATGTG
** * * * *
38251064 AACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGAT
61 AACATGAATATATATGATAAGGCCGAATGGCCAATGCGA-GAACGTGAACATGCGTATGTGTGAT
* *
38251129 AAGGCCGAATGGCCA
125 AAAGCCAAATGGCCA
38251144 ATGTGATGAATGTAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACAT
1 ATGTGATGAATGTAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACAT
* * *
38251209 GAATATATATGGTAAGG-CGAATGGCTAATGCGA-AACGTGTATGAGATG-GATATGTG-G-TAA
66 GAATATATATGATAAGGCCGAATGGCCAATGCGAGAACGTG-A--ACATGCG-TATGTGTGATAA
*
38251269 AGCCAAATGGCTA
127 AGCCAAATGGCCA
38251282 ATGTGA-GATATGTA
1 ATGTGATGA-ATGTA
38251296 CGAGATGTGT
Statistics
Matches: 260, Mismatches: 28, Indels: 25
0.83 0.09 0.08
Matches are distributed among these distances:
137 7 0.03
138 25 0.10
139 16 0.06
140 60 0.23
142 6 0.02
144 5 0.02
145 97 0.37
147 7 0.03
149 37 0.14
ACGTcount: A:0.32, C:0.12, G:0.30, T:0.26
Consensus pattern (139 bp):
ATGTGATGAATGTAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACAT
GAATATATATGATAAGGCCGAATGGCCAATGCGAGAACGTGAACATGCGTATGTGTGATAAAGCC
AAATGGCCA
Found at i:38251530 original size:35 final size:36
Alignment explanation
Indices: 38251447--38251590 Score: 236
Period size: 37 Copynumber: 4.0 Consensus size: 36
38251437 GGAAATATAT
38251447 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT-TG
38251484 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT-
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTG
38251519 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGA-TTTG
* * *
38251556 TCCGGGTAAGACCCGATAACTTCATGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
38251591 CGTCTGAGCT
Statistics
Matches: 102, Mismatches: 3, Indels: 5
0.93 0.03 0.05
Matches are distributed among these distances:
35 32 0.31
36 7 0.07
37 63 0.62
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (36 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTG
Found at i:38251563 original size:72 final size:72
Alignment explanation
Indices: 38251446--38251590 Score: 254
Period size: 72 Copynumber: 2.0 Consensus size: 72
38251436 TGGAAATATA
* *
38251446 TTCCGGGTAAGACCCGATGACTACGTGTGGAGATTATGTCCGGGTAAGACCCGATGACTACGTGT
1 TTCCGGGTAAGACCCGATGACTACGTGTGGAGATTATGTCCGGGTAAGACCCGATAACTACATGT
38251511 GGAGATT
66 GGAGATT
* *
38251518 TTCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGTAAGACCCGATAACTTCATGT
1 TTCCGGGTAAGACCCGATGACTACGTGTGGAGATTATGTCCGGGTAAGACCCGATAACTACATGT
38251583 GGAGATT
66 GGAGATT
38251590 T
1 T
38251591 CGTCTGAGCT
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
72 69 1.00
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.27
Consensus pattern (72 bp):
TTCCGGGTAAGACCCGATGACTACGTGTGGAGATTATGTCCGGGTAAGACCCGATAACTACATGT
GGAGATT
Found at i:38277380 original size:30 final size:30
Alignment explanation
Indices: 38277340--38277399 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
38277330 TGAAAAATAC
*
38277340 TACAAGAACTAATTATTGAGATACATCTTG
1 TACAAGAACTAACTATTGAGATACATCTTG
*
38277370 TACAATAACTAACTATTGAGATACATCTTG
1 TACAAGAACTAACTATTGAGATACATCTTG
38277400 GGTAGATACT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (30 bp):
TACAAGAACTAACTATTGAGATACATCTTG
Found at i:38278882 original size:2 final size:2
Alignment explanation
Indices: 38278875--38278979 Score: 113
Period size: 2 Copynumber: 53.0 Consensus size: 2
38278865 TCATTATAGT
* * * *
38278875 AG AG AG AG AG AG AG AG AG AG AG AG GG AG AG AG GG GG AG GG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
* * * *
38278917 AG GG AG AG AG GG AG AG AG GG AG AG AG AG AG -G GG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
* *
38278958 AG AG AG AA AG AA AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG
38278980 TGTGTGTGAG
Statistics
Matches: 85, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
1 1 0.01
2 84 0.99
ACGTcount: A:0.44, C:0.00, G:0.56, T:0.00
Consensus pattern (2 bp):
AG
Found at i:38279959 original size:27 final size:27
Alignment explanation
Indices: 38279915--38279981 Score: 116
Period size: 27 Copynumber: 2.4 Consensus size: 27
38279905 CTGATTTTCG
38279915 ATAGTTTGGTTTTTCGCTTACCCTGCCGT
1 ATAG-TTGG-TTTTCGCTTACCCTGCCGT
38279944 ATAGTTGGTTTTCGCTTACCCTGCCGT
1 ATAGTTGGTTTTCGCTTACCCTGCCGT
38279971 ATAGTTGGTTT
1 ATAGTTGGTTT
38279982 GTATGGATTA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
27 30 0.79
28 4 0.11
29 4 0.11
ACGTcount: A:0.12, C:0.21, G:0.22, T:0.45
Consensus pattern (27 bp):
ATAGTTGGTTTTCGCTTACCCTGCCGT
Found at i:38282436 original size:18 final size:18
Alignment explanation
Indices: 38282413--38282447 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
38282403 CAAATATTCT
38282413 TTAAAAATTAAAAAAATC
1 TTAAAAATTAAAAAAATC
* *
38282431 TTAAAATTTAAATAAAT
1 TTAAAAATTAAAAAAAT
38282448 TTTTATGATT
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:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (18 bp):
TTAAAAATTAAAAAAATC
Found at i:38282590 original size:21 final size:21
Alignment explanation
Indices: 38282551--38282590 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
38282541 TCCTGAATTT
*
38282551 TTTAAATAATTATAGAAAATA
1 TTTAAATAATTATAAAAAATA
38282572 TTTAAA-AATTATCAAAAAA
1 TTTAAATAATTAT-AAAAAA
38282591 ATTATTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.35
Consensus pattern (21 bp):
TTTAAATAATTATAAAAAATA
Found at i:38282720 original size:21 final size:21
Alignment explanation
Indices: 38282679--38282723 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
38282669 TGATTTTTTA
*
38282679 AAATAATTATTAAATACTATT
1 AAATAATTATTAAAAACTATT
*
38282700 AAATAATTA-TAGAAAATTATT
1 AAATAATTATTA-AAAACTATT
38282721 AAA
1 AAA
38282724 AAAATATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (21 bp):
AAATAATTATTAAAAACTATT
Found at i:38282830 original size:21 final size:21
Alignment explanation
Indices: 38282787--38282826 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
38282777 TTGTTGTATA
*
38282787 TATTAATGAATTATAAACAAT
1 TATTAATGAATTATAAAAAAT
38282808 TATTAA-GAATTATAAAAAA
1 TATTAATGAATTATAAAAAA
38282827 ATTAATAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (21 bp):
TATTAATGAATTATAAAAAAT
Found at i:38283036 original size:14 final size:13
Alignment explanation
Indices: 38283013--38283109 Score: 57
Period size: 13 Copynumber: 7.8 Consensus size: 13
38283003 CCAATTATGT
38283013 TATT-TATATATA
1 TATTATATATATA
38283025 TATGTATATATATA
1 TAT-TATATATATA
*
38283039 TATTAT-TTTATA
1 TATTATATATATA
38283051 TATTAT-T-T-TA
1 TATTATATATATA
* *
38283061 T-TTTTATCT-TCA
1 TATTATATATAT-A
*
38283073 TATTAT-TTTATA
1 TATTATATATATA
*
38283085 TTATCATATATATA
1 -TATTATATATATA
*
38283099 TATTATCTATA
1 TATTATATATA
38283110 GTAATATATA
Statistics
Matches: 68, Mismatches: 8, Indels: 17
0.73 0.09 0.18
Matches are distributed among these distances:
9 3 0.04
10 4 0.06
11 3 0.04
12 20 0.29
13 22 0.32
14 16 0.24
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.60
Consensus pattern (13 bp):
TATTATATATATA
Found at i:38283065 original size:18 final size:18
Alignment explanation
Indices: 38283006--38283109 Score: 74
Period size: 17 Copynumber: 5.8 Consensus size: 18
38282996 TCATTTTCCA
* *
38283006 ATTATGTTATTTATATAT
1 ATTATTTTATATATATAT
*
38283024 A-TA-TGTATATATATAT
1 ATTATTTTATATATATAT
38283040 ATTATTTTATATAT-TAT
1 ATTATTTTATATATATAT
* *
38283057 TTTATTTT-TATCT-TCAT
1 ATTATTTTATATATAT-AT
38283074 ATTATTTTATATTATCATAT
1 ATTATTTTATA-TAT-ATAT
* *
38283094 ATATATATTATCTATA
1 AT-TATTTTATATATA
38283110 GTAATATATA
Statistics
Matches: 68, Mismatches: 10, Indels: 15
0.73 0.11 0.16
Matches are distributed among these distances:
16 16 0.24
17 23 0.34
18 11 0.16
19 3 0.04
20 7 0.10
21 8 0.12
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.60
Consensus pattern (18 bp):
ATTATTTTATATATATAT
Found at i:38286508 original size:9 final size:9
Alignment explanation
Indices: 38286494--38286532 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
38286484 TCTCTCCTGG
38286494 TTCTTTTTT
1 TTCTTTTTT
*
38286503 TTCTTTTCT
1 TTCTTTTTT
*
38286512 TTCTTTTTC
1 TTCTTTTTT
*
38286521 TACTTTTTT
1 TTCTTTTTT
38286530 TTC
1 TTC
38286533 ATACTTCTTT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (9 bp):
TTCTTTTTT
Found at i:38286540 original size:29 final size:26
Alignment explanation
Indices: 38286495--38286555 Score: 70
Period size: 29 Copynumber: 2.2 Consensus size: 26
38286485 CTCTCCTGGT
*
38286495 TCTTTTTTTTCTTTTCTTTCTT-TTTC
1 TCTTTTTTTTCTCTTCTTT-TTCTTTC
38286521 TACTTTTTTTTCATACTTCTTTTTCTTTC
1 T-CTTTTTTTTC-T-CTTCTTTTTCTTTC
38286550 TCTTTT
1 TCTTTT
38286556 ATCAATCATT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
26 1 0.03
27 10 0.33
28 8 0.27
29 11 0.37
ACGTcount: A:0.05, C:0.20, G:0.00, T:0.75
Consensus pattern (26 bp):
TCTTTTTTTTCTCTTCTTTTTCTTTC
Found at i:38286545 original size:13 final size:12
Alignment explanation
Indices: 38286512--38286546 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
38286502 TTTCTTTTCT
38286512 TTCTTTTTCTAC
1 TTCTTTTTCTAC
*
38286524 TTTTTTTTCATAC
1 TTCTTTTTC-TAC
38286537 TTCTTTTTCT
1 TTCTTTTTCT
38286547 TTCTCTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.09, C:0.20, G:0.00, T:0.71
Consensus pattern (12 bp):
TTCTTTTTCTAC
Found at i:38290982 original size:26 final size:26
Alignment explanation
Indices: 38290946--38290998 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
38290936 CTAAAAAAGT
*
38290946 TACTACGTAAGAACACACCGTTTGTG
1 TACTACGTAAGAACACACCATTTGTG
*
38290972 TACTGCGTAAGAACACACCATTTGTG
1 TACTACGTAAGAACACACCATTTGTG
38290998 T
1 T
38290999 CGTCTGAAGA
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:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (26 bp):
TACTACGTAAGAACACACCATTTGTG
Found at i:38297584 original size:27 final size:27
Alignment explanation
Indices: 38297554--38297751 Score: 236
Period size: 27 Copynumber: 7.3 Consensus size: 27
38297544 TACTGAAATG
*
38297554 CCCTCGATTTGTAAAATTACCATTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
* * * *
38297581 CCCTTGATTTATAGAATTACCGTTTCA
1 CCCTCGATTTATAAAATTACCATTTTA
*
38297608 CCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
*
38297635 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
* * **
38297662 CCCTCGATTTACAGAATTACTGTTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
* * *
38297689 CCCTGGCTTTACAAAATTACCATTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
* *
38297716 CCCTC-AGTTTAAAAAATTACCGTTTTA
1 CCCTCGA-TTTATAAAATTACCATTTTA
38297743 CCCTCGATT
1 CCCTCGATT
38297752 GTGAAATTAC
Statistics
Matches: 145, Mismatches: 24, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
27 144 0.99
28 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.39
Consensus pattern (27 bp):
CCCTCGATTTATAAAATTACCATTTTA
Found at i:38297671 original size:81 final size:81
Alignment explanation
Indices: 38297554--38297751 Score: 290
Period size: 81 Copynumber: 2.4 Consensus size: 81
38297544 TACTGAAATG
* * *
38297554 CCCTCGATTTGTAAAATTACCATTTTACCCTTGATTTATAGAATTACCGTTTCACCCTCGATTTA
1 CCCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTA
38297619 CAAAATTACCATTTTA
66 CAAAATTACCATTTTA
* * * * *
38297635 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACTGTTTTACCCTGGCTTTA
1 CCCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTA
38297700 CAAAATTACCATTTTA
66 CAAAATTACCATTTTA
* *
38297716 CCCTC-AGTTTAAAAAATTACCGTTTTACCCTCGATT
1 CCCTCGA-TTTATAAAATTACCATTTTACCCTCGATT
38297752 GTGAAATTAC
Statistics
Matches: 105, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
80 1 0.01
81 104 0.99
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.39
Consensus pattern (81 bp):
CCCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTA
CAAAATTACCATTTTA
Found at i:38297794 original size:27 final size:27
Alignment explanation
Indices: 38297755--38297901 Score: 82
Period size: 27 Copynumber: 5.4 Consensus size: 27
38297745 CTCGATTGTG
**
38297755 AAATTACTGAAATACCCCT-GTAGGATA
1 AAATTACCAAAATACCCCTAGTAGG-TA
* * **
38297782 TAATTACCAAAATACTCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTAGGTA
* * **
38297809 AAATTACCAAAATACCCTTAATTTGTA
1 AAATTACCAAAATACCCCTAGTAGGTA
* * * ** *
38297836 AAAGTACCGAAATACCACTAGTTTGTG
1 AAATTACCAAAATACCCCTAGTAGGTA
* * **
38297863 AAATTACCGAAATA-CCCTCAATTTGTA
1 AAATTACCAAAATACCCCT-AGTAGGTA
38297890 AAATTACCAAAA
1 AAATTACCAAAA
38297902 CACCTCTGAT
Statistics
Matches: 97, Mismatches: 21, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
26 3 0.03
27 91 0.94
28 3 0.03
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.29
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTAGTAGGTA
Found at i:38297849 original size:54 final size:54
Alignment explanation
Indices: 38297786--38297934 Score: 171
Period size: 54 Copynumber: 2.8 Consensus size: 54
38297776 AGGATATAAT
*
38297786 TACCAAAATACTC-CTAGTTTGTAAAATTACCAAAATACCCTTAATTTGTAAAAG
1 TACCAAAATAC-CACTAGTTTGTAAAATTACCAAAATACCCTCAATTTGTAAAAG
* * * *
38297840 TACCGAAATACCACTAGTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAAT
1 TACCAAAATACCACTAGTTTGTAAAATTACCAAAATACCCTCAATTTGTAAAAG
* *
38297894 TACCAAAACACCTCT-GATTTAG-AAAATTA-CAGAAATACCCT
1 TACCAAAATACCACTAG-TTT-GTAAAATTACCA-AAATACCCT
38297935 TGACTTTCTA
Statistics
Matches: 81, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
53 3 0.04
54 77 0.95
55 1 0.01
ACGTcount: A:0.42, C:0.21, G:0.09, T:0.29
Consensus pattern (54 bp):
TACCAAAATACCACTAGTTTGTAAAATTACCAAAATACCCTCAATTTGTAAAAG
Found at i:38297913 original size:27 final size:27
Alignment explanation
Indices: 38297783--38297923 Score: 112
Period size: 27 Copynumber: 5.2 Consensus size: 27
38297773 TGTAGGATAT
* *
38297783 AATTACCAAAATA-CTCCTAGTTTGTAA
1 AATTACCAAAACACCT-CTAATTTGTAA
*
38297810 AATTACCAAAATACC-CTTAATTTGTAA
1 AATTACCAAAACACCTC-TAATTTGTAA
* * * * * *
38297837 AAGTACCGAAATACCACTAGTTTGTGA
1 AATTACCAAAACACCTCTAATTTGTAA
38297864 AATTACCGAAATAC-CCTC-AATTTGTAA
1 AATTACC-AAA-ACACCTCTAATTTGTAA
*
38297891 AATTACCAAAACACCTCTGATTTAG-AA
1 AATTACCAAAACACCTCTAATTT-GTAA
38297918 AATTAC
1 AATTAC
38297924 AGAAATACCC
Statistics
Matches: 94, Mismatches: 12, Indels: 16
0.77 0.10 0.13
Matches are distributed among these distances:
25 2 0.02
26 8 0.09
27 75 0.80
28 8 0.09
29 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.30
Consensus pattern (27 bp):
AATTACCAAAACACCTCTAATTTGTAA
Found at i:38297929 original size:81 final size:81
Alignment explanation
Indices: 38297783--38297932 Score: 198
Period size: 81 Copynumber: 1.9 Consensus size: 81
38297773 TGTAGGATAT
* * *
38297783 AATTACCAAAATACTCCTAGTTTGTAAAATTACCAAAATACCCTTAATTTGTAAAAGTACCGAAA
1 AATTACCAAAATACTCCTAATTTGTAAAATTACCAAAACACCCTTAATTTGTAAAAGTACAGAAA
38297848 TACCACTAGTTTGTGA
66 TACCACTAGTTTGTGA
* * *
38297864 AATTACCGAAATAC-CCTCAATTTGTAAAATTACCAAAACA-CCTCTGATTTAG-AAAATTACAG
1 AATTACCAAAATACTCCT-AATTTGTAAAATTACCAAAACACCCT-TAATTT-GTAAAAGTACAG
38297926 AAATACC
63 AAATACC
38297933 CTTGACTTTC
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
80 6 0.10
81 53 0.88
82 1 0.02
ACGTcount: A:0.43, C:0.20, G:0.09, T:0.29
Consensus pattern (81 bp):
AATTACCAAAATACTCCTAATTTGTAAAATTACCAAAACACCCTTAATTTGTAAAAGTACAGAAA
TACCACTAGTTTGTGA
Found at i:38297957 original size:29 final size:27
Alignment explanation
Indices: 38297911--38297996 Score: 84
Period size: 27 Copynumber: 3.1 Consensus size: 27
38297901 ACACCTCTGA
* * *
38297911 TTTAGAAAATTACAGAAATACCCTTGAC
1 TTTACAAAATTATAGAAATACCCTTG-G
* *
38297939 TTT-CTAAAAATTATAGAAATGCCATTGG
1 TTTAC--AAAATTATAGAAATACCCTTGG
*
38297967 TTTACAAAATTATTGAAATACCCTTGG
1 TTTACAAAATTATAGAAATACCCTTGG
38297994 TTT
1 TTT
38297997 GTAGATTTAC
Statistics
Matches: 47, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
27 22 0.47
28 6 0.13
29 19 0.40
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (27 bp):
TTTACAAAATTATAGAAATACCCTTGG
Found at i:38298961 original size:25 final size:24
Alignment explanation
Indices: 38298923--38298989 Score: 98
Period size: 25 Copynumber: 2.7 Consensus size: 24
38298913 AGGAAGTGCT
*
38298923 AAAAGGGCTCTGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTACC
*
38298947 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTACC
38298972 AGAAAGGGCTTTGCCCCA
1 A-AAAGGGCTTTGCCCCA
38298990 AATATTAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
24 1 0.03
25 38 0.97
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.22
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTACC
Found at i:38299199 original size:42 final size:42
Alignment explanation
Indices: 38299140--38299231 Score: 175
Period size: 42 Copynumber: 2.2 Consensus size: 42
38299130 TAGTCTCCCC
*
38299140 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
38299182 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
38299224 AAATGGGC
1 AAATGGGC
38299232 CTAAGGGCCA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.33
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:38299300 original size:31 final size:31
Alignment explanation
Indices: 38299260--38299338 Score: 106
Period size: 31 Copynumber: 2.6 Consensus size: 31
38299250 ACAGTAAAGG
*
38299260 CTTCGGCCCAGTGATATGATTTATGAAAAAA
1 CTTCAGCCCAGTGATATGATTTATGAAAAAA
* **
38299291 CTTCAGCCCAGTGATATGATTTATGGAAAGG
1 CTTCAGCCCAGTGATATGATTTATGAAAAAA
*
38299322 CTTCAACCCAGT-ATATG
1 CTTCAGCCCAGTGATATG
38299339 TCAAGACTAA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 5 0.12
31 38 0.88
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (31 bp):
CTTCAGCCCAGTGATATGATTTATGAAAAAA
Found at i:38301618 original size:27 final size:27
Alignment explanation
Indices: 38301587--38301784 Score: 236
Period size: 27 Copynumber: 7.3 Consensus size: 27
38301577 TTATGAAATG
**
38301587 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* * *
38301614 CCCTCGATTTATAGAATTACCGTTTCA
1 CCCTCGATTTACAGAATTACCATTTTA
* *
38301641 CCCTCGATTTACAAAATTACCGTTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
*
38301668 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* *
38301695 CCCTCGATTTACAGAATTATCGTTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* * *
38301722 CCCTAGATTTACAAAATTACAATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* *
38301749 CCCTC-AGTTTAAAAAATTACCATTTTA
1 CCCTCGA-TTTACAGAATTACCATTTTA
*
38301776 CCTTCGATT
1 CCCTCGATT
38301785 GTGAAATTAT
Statistics
Matches: 148, Mismatches: 21, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
26 1 0.01
27 146 0.99
28 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (27 bp):
CCCTCGATTTACAGAATTACCATTTTA
Found at i:38301683 original size:81 final size:81
Alignment explanation
Indices: 38301587--38301784 Score: 290
Period size: 81 Copynumber: 2.4 Consensus size: 81
38301577 TTATGAAATG
* * *
38301587 CCCTCGATTTGTAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTAGATTTA
**
38301652 CAAAATTACCGTTTTA
66 CAAAATTACAATTTTA
* *
38301668 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTATCGTTTTACCCTAGATTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTAGATTTA
38301733 CAAAATTACAATTTTA
66 CAAAATTACAATTTTA
* * *
38301749 CCCTC-AGTTTAAAAAATTACCATTTTACCTTCGATT
1 CCCTCGA-TTTATAGAATTACCATTTTACCCTCGATT
38301785 GTGAAATTAT
Statistics
Matches: 106, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
80 1 0.01
81 105 0.99
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (81 bp):
CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTAGATTTA
CAAAATTACAATTTTA
Found at i:38301846 original size:27 final size:27
Alignment explanation
Indices: 38301816--38301939 Score: 153
Period size: 27 Copynumber: 4.6 Consensus size: 27
38301806 TGTAGGATAG
38301816 AATTACCAAAATACCCCTAATTTGTAA
1 AATTACCAAAATACCCCTAATTTGTAA
* *
38301843 AATTACCAAAATACCCCTAGTTTGGAA
1 AATTACCAAAATACCCCTAATTTGTAA
* *
38301870 AATTACCGAAATA-CCCTCAAATTGTAA
1 AATTACCAAAATACCCCT-AATTTGTAA
* **
38301897 AATTACCAAAATACCTCTAATTTACAA
1 AATTACCAAAATACCCCTAATTTGTAA
38301924 AATTA-CAGAAATACCC
1 AATTACCA-AAATACCC
38301940 TTGACTTTCT
Statistics
Matches: 82, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
26 6 0.07
27 73 0.89
28 3 0.04
ACGTcount: A:0.45, C:0.23, G:0.06, T:0.27
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAATTTGTAA
Found at i:38301926 original size:54 final size:55
Alignment explanation
Indices: 38301816--38301940 Score: 173
Period size: 54 Copynumber: 2.3 Consensus size: 55
38301806 TGTAGGATAG
* * * **
38301816 AATTACCAAAATACCC-CTAATTTGTAAAATTACCAAAATACCCCTAGTTTGGAA
1 AATTACCGAAATACCCTCTAAATTGTAAAATTACCAAAATACCCCTAATTTACAA
*
38301870 AATTACCGAAATACCCTC-AAATTGTAAAATTACCAAAATACCTCTAATTTACAA
1 AATTACCGAAATACCCTCTAAATTGTAAAATTACCAAAATACCCCTAATTTACAA
*
38301924 AATTACAGAAATACCCT
1 AATTACCGAAATACCCT
38301941 TGACTTTCTA
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
54 62 0.98
55 1 0.02
ACGTcount: A:0.45, C:0.22, G:0.06, T:0.27
Consensus pattern (55 bp):
AATTACCGAAATACCCTCTAAATTGTAAAATTACCAAAATACCCCTAATTTACAA
Found at i:38301957 original size:29 final size:27
Alignment explanation
Indices: 38301917--38302002 Score: 102
Period size: 27 Copynumber: 3.1 Consensus size: 27
38301907 ATACCTCTAA
*
38301917 TTTACAAAATTACAGAAATACCCTTGAC
1 TTTACAAAATTACAGAAATACCCTTG-G
* *
38301945 TTT-CTAAAAATTATAGAAATACCATTGG
1 TTTAC--AAAATTACAGAAATACCCTTGG
*
38301973 TTTACAAAATTACTGAAATACCCTTGG
1 TTTACAAAATTACAGAAATACCCTTGG
38302000 TTT
1 TTT
38302003 GTAGATTTAC
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
27 23 0.47
28 6 0.12
29 20 0.41
ACGTcount: A:0.40, C:0.16, G:0.09, T:0.35
Consensus pattern (27 bp):
TTTACAAAATTACAGAAATACCCTTGG
Found at i:38302968 original size:25 final size:24
Alignment explanation
Indices: 38302930--38302999 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 24
38302920 AGGAAGTGCT
*
38302930 AAAAGGGCTCTGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTACC
*
38302954 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTACC
38302979 AGAAAGGGCTTTGCCCCAGTT
1 A-AAAGGGCTTTGCCCCAGTT
38303000 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
24 1 0.02
25 41 0.98
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTACC
Found at i:38303012 original size:24 final size:24
Alignment explanation
Indices: 38302929--38303012 Score: 98
Period size: 25 Copynumber: 3.4 Consensus size: 24
38302919 GAGGAAGTGC
* *
38302929 TAAAAGGGCTCTGCCCCAGTTTACC
1 TAAAAGGGCTTTGCCCCAGTTTA-T
*
38302954 GAAAAGGGCTTTGCCCCAGTTTAT
1 TAAAAGGGCTTTGCCCCAGTTTAT
*
38302978 CAGAAAGGGCTTTGCCCCAG-TTAT
1 TA-AAAGGGCTTTGCCCCAGTTTAT
38303002 TAAAAGAGGCT
1 TAAAAG-GGCT
38303013 AGGCCTCCAG
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
23 4 0.08
24 10 0.19
25 38 0.73
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (24 bp):
TAAAAGGGCTTTGCCCCAGTTTAT
Found at i:38303211 original size:42 final size:42
Alignment explanation
Indices: 38303147--38303280 Score: 214
Period size: 42 Copynumber: 3.2 Consensus size: 42
38303137 TAGTCTCCCC
*
38303147 AAATTGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
* *
38303189 AAATGGGCTTGCATACATTCATTAAAATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
** *
38303231 AAATGGGCTTTTATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
38303273 AAATGGGC
1 AAATGGGC
38303281 CTAAGGGCCA
Statistics
Matches: 84, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 84 1.00
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
Found at i:38303345 original size:31 final size:31
Alignment explanation
Indices: 38303309--38303418 Score: 150
Period size: 31 Copynumber: 3.6 Consensus size: 31
38303299 AGAGTAAAGG
*
38303309 CTTTGGCCTAGTGATATGATTTATGAAAACA
1 CTTTGGCCCAGTGATATGATTTATGAAAACA
**
38303340 CTTTGGCCCAGTGATATGATTTATGAAAAGG
1 CTTTGGCCCAGTGATATGATTTATGAAAACA
* **
38303371 CTTTGGCCCAGTGATATGATTTATGGAAAGG
1 CTTTGGCCCAGTGATATGATTTATGAAAACA
*
38303402 CTTCGGCCCAGT-ATATG
1 CTTTGGCCCAGTGATATG
38303419 TCAAGACTAA
Statistics
Matches: 74, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
30 5 0.07
31 69 0.93
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (31 bp):
CTTTGGCCCAGTGATATGATTTATGAAAACA
Found at i:38329476 original size:26 final size:26
Alignment explanation
Indices: 38329447--38329506 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 26
38329437 TCCCTTTGAA
* * *
38329447 TCATTCGATATTTTGCACACTAAGTG
1 TCATTCAATATCTCGCACACTAAGTG
38329473 TCATTCTCAATATCTCGCACACTAAGTG
1 TCA-T-TCAATATCTCGCACACTAAGTG
*
38329501 CCATTC
1 TCATTC
38329507 TCAATATTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 5 0.18
27 2 0.07
28 21 0.75
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.35
Consensus pattern (26 bp):
TCATTCAATATCTCGCACACTAAGTG
Found at i:38329492 original size:28 final size:28
Alignment explanation
Indices: 38329461--38329532 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
38329451 TCGATATTTT
*
38329461 GCACACTAAGTGTCATTCTCAATATCTC
1 GCACACTAAGTGCCATTCTCAATATCTC
*
38329489 GCACACTAAGTGCCATTCTCAATATTTC
1 GCACACTAAGTGCCATTCTCAATATCTC
* * *
38329517 GTACACTGAGTACCAT
1 GCACACTAAGTGCCAT
38329533 ATTTGATTGC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.31
Consensus pattern (28 bp):
GCACACTAAGTGCCATTCTCAATATCTC
Found at i:38332235 original size:30 final size:30
Alignment explanation
Indices: 38332201--38332261 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
38332191 TCCTTAACTC
38332201 AAACTTTTGCAAAATTACAATTTTGCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
* * * *
38332231 AAACTTTTGCATATTTAGACTTTTGCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
38332261 A
1 A
38332262 GGCTCGAGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACAATTTTGCCCCT
Found at i:38351711 original size:27 final size:26
Alignment explanation
Indices: 38351671--38351782 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
38351661 AGGAAGCGTC
*
38351671 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
* *
38351698 CTGGCGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
38351725 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* * *
38351753 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
38351779 CTGG
1 CTGG
38351783 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 7 0.09
27 50 0.68
28 17 0.23
ACGTcount: A:0.16, C:0.25, G:0.23, T:0.36
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:38351775 original size:54 final size:54
Alignment explanation
Indices: 38351671--38351782 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
38351661 AGGAAGCGTC
*
38351671 CTGGTGGCTATGCCACAATTATCTGATCTGGCGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGCGACTCTGCCACATATATCTGTT
* * * *
38351725 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGCGACTCTGCCACATATATCTGTT
38351779 CTGG
1 CTGG
38351783 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 35 0.67
55 17 0.33
ACGTcount: A:0.16, C:0.25, G:0.23, T:0.36
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGCGACTCTGCCACATATATCTGTT
Found at i:38354483 original size:17 final size:17
Alignment explanation
Indices: 38354461--38354497 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
38354451 ACTCATTATT
38354461 TATTCAT-AACCTAAATA
1 TATTCATCAACC-AAATA
38354478 TATTCATCAACCAAATA
1 TATTCATCAACCAAATA
38354495 TAT
1 TAT
38354498 CTAATTTATC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (17 bp):
TATTCATCAACCAAATA
Found at i:38364718 original size:27 final size:28
Alignment explanation
Indices: 38364660--38364839 Score: 169
Period size: 27 Copynumber: 6.7 Consensus size: 28
38364650 ACCAAATTAC
* * *
38364660 CAAAATTCCCAAAATA-CCTTTGATTAG
1 CAAAATTACCAAAATACCCCTTGATTTG
38364687 CAAAATTACCAAAATACCCCTTG-TTTG
1 CAAAATTACCAAAATACCCCTTGATTTG
* *
38364714 TAAAATTACCAAAATACCCC-TGGTTTG
1 CAAAATTACCAAAATACCCCTTGATTTG
* *
38364741 TAAATTTTACC--AATA-CCCTTGATTTG
1 CAAA-ATTACCAAAATACCCCTTGATTTG
* * * **
38364767 TAAAATTATCGAAATACCCC-CAATTTG
1 CAAAATTACCAAAATACCCCTTGATTTG
*
38364794 CAAAATTACCAAAATACCTC-TGATTTG
1 CAAAATTACCAAAATACCCCTTGATTTG
*
38364821 CAAAATTACTAAAATACCC
1 CAAAATTACCAAAATACCC
38364840 TTATAGGGTA
Statistics
Matches: 128, Mismatches: 18, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
25 7 0.05
26 16 0.12
27 92 0.72
28 13 0.10
ACGTcount: A:0.39, C:0.23, G:0.07, T:0.31
Consensus pattern (28 bp):
CAAAATTACCAAAATACCCCTTGATTTG
Found at i:38364767 original size:53 final size:53
Alignment explanation
Indices: 38364686--38364839 Score: 161
Period size: 53 Copynumber: 2.9 Consensus size: 53
38364676 CCTTTGATTA
***
38364686 GCAAAATTACCAAAATACCCCTTG-TTTGTAAAATTACCAAAATACCCCTGGTTT
1 GCAAAATTACC-AAATA-CCCTTGATTTGTAAAATTACCAAAATACCCCCAATTT
* * * *
38364740 GTAAATTTTACC-AATACCCTTGATTTGTAAAATTATCGAAATACCCCCAATTT
1 GCAAA-ATTACCAAATACCCTTGATTTGTAAAATTACCAAAATACCCCCAATTT
* *
38364793 GCAAAATTACCAAAATA-CCTCTGATTTGCAAAATTACTAAAATACCC
1 GCAAAATTACC-AAATACCCT-TGATTTGTAAAATTACCAAAATACCC
38364840 TTATAGGGTA
Statistics
Matches: 82, Mismatches: 13, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
52 11 0.13
53 36 0.44
54 30 0.37
55 5 0.06
ACGTcount: A:0.39, C:0.23, G:0.08, T:0.31
Consensus pattern (53 bp):
GCAAAATTACCAAATACCCTTGATTTGTAAAATTACCAAAATACCCCCAATTT
Found at i:38364799 original size:80 final size:80
Alignment explanation
Indices: 38364672--38364820 Score: 199
Period size: 80 Copynumber: 1.9 Consensus size: 80
38364662 AAATTCCCAA
* *** * *
38364672 AATACCTTTGATTAGCAAAATTACCAAAATACCCCTTGTTTGTAAAATTACCAAAATACCCCTGG
1 AATACCCTTGATTAGCAAAATTACCAAAATACCCCCAATTTGCAAAATTACCAAAATACCCCTGA
38364737 TTTGTAAATTTTACC
66 TTTGTAAATTTTACC
* * * * *
38364752 AATACCCTTGATTTGTAAAATTATCGAAATACCCCCAATTTGCAAAATTACCAAAATACCTCTGA
1 AATACCCTTGATTAGCAAAATTACCAAAATACCCCCAATTTGCAAAATTACCAAAATACCCCTGA
38364817 TTTG
66 TTTG
38364821 CAAAATTACT
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
80 58 1.00
ACGTcount: A:0.37, C:0.21, G:0.09, T:0.33
Consensus pattern (80 bp):
AATACCCTTGATTAGCAAAATTACCAAAATACCCCCAATTTGCAAAATTACCAAAATACCCCTGA
TTTGTAAATTTTACC
Found at i:38364854 original size:27 final size:27
Alignment explanation
Indices: 38364824--38364919 Score: 129
Period size: 27 Copynumber: 3.6 Consensus size: 27
38364814 TGATTTGCAA
* *
38364824 AATTACTAAAATACCCTTATAGGGTAG
1 AATTACCAAAATACCCTTGTAGGGTAG
* *
38364851 AATTACCGAAATACCCTTGTAGGGTAA
1 AATTACCAAAATACCCTTGTAGGGTAG
* *
38364878 AAATACTAAAATACCCTTGTAGGGTAG
1 AATTACCAAAATACCCTTGTAGGGTAG
*
38364905 AATTACCGAAATACC
1 AATTACCAAAATACC
38364920 TTTTGGTTGA
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 58 1.00
ACGTcount: A:0.41, C:0.18, G:0.16, T:0.26
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGTAGGGTAG
Found at i:38374002 original size:27 final size:27
Alignment explanation
Indices: 38373971--38374148 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
38373961 TAAATTGTAC
38373971 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
38373998 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
38374024 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
38374052 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
38374080 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
38374107 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
38374134 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
38374149 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:38374085 original size:82 final size:81
Alignment explanation
Indices: 38373972--38374127 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
38373962 AAATTGTACA
* *
38373972 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
38374036 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
38374053 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
38374118 TGCGAGTTGA
65 TGCGAATTGA
38374128 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:38374139 original size:82 final size:81
Alignment explanation
Indices: 38373968--38374148 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
38373958 GATTAAATTG
* *
38373968 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
38374033 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
38374049 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
38374113 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
38374131 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
38374149 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:38398064 original size:17 final size:17
Alignment explanation
Indices: 38398042--38398078 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
38398032 ACTCATTATT
38398042 TATTCAT-AACCTAAATA
1 TATTCATCAACC-AAATA
38398059 TATTCATCAACCAAATA
1 TATTCATCAACCAAATA
38398076 TAT
1 TAT
38398079 CTAATTTATC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (17 bp):
TATTCATCAACCAAATA
Found at i:38399659 original size:56 final size:56
Alignment explanation
Indices: 38399522--38399660 Score: 233
Period size: 56 Copynumber: 2.5 Consensus size: 56
38399512 TCCCAGATAG
* * *
38399522 GGTCTTACTCGCACACATTTATCGAAGTCACATATCGATGCCAACGTATAAAACGT
1 GGTCTTACTCGCACACATATATCGATGTCACATATCGATGCCAACCTATAAAACGT
*
38399578 GGTCTTACTCTCACACATATATCGATGTCACATATCGATGCCAACCTATAAAACGT
1 GGTCTTACTCGCACACATATATCGATGTCACATATCGATGCCAACCTATAAAACGT
*
38399634 GGTCTTACTCGCACATATATATCGATG
1 GGTCTTACTCGCACACATATATCGATG
38399661 CCATGGTCTT
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 77 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCGATGTCACATATCGATGCCAACCTATAAAACGT
Found at i:38414260 original size:41 final size:40
Alignment explanation
Indices: 38414215--38414347 Score: 142
Period size: 41 Copynumber: 3.2 Consensus size: 40
38414205 TGAGGCATGT
* * *
38414215 ATGTGCATTTCAAGGGTATCGAAGTAC-GATCAGGGGAACGC
1 ATGTGCATTTCAGGGGTA-CGAAGTACAAAT-AGGGGAACAC
* *
38414256 ATGTGCATTTCAGGGGTACTGAAGTACAAATAGGGGCACAT
1 ATGTGCATTTCAGGGGTAC-GAAGTACAAATAGGGGAACAC
* * * *
38414297 ATGTGTATTTCAGGGGTACCGAAGTACAAATAGGAGCACAT
1 ATGTGCATTTCAGGGGTA-CGAAGTACAAATAGGGGAACAC
38414338 ATGTGCATTT
1 ATGTGCATTT
38414348 AAGAGAATAA
Statistics
Matches: 81, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
40 1 0.01
41 77 0.95
42 3 0.04
ACGTcount: A:0.31, C:0.15, G:0.29, T:0.26
Consensus pattern (40 bp):
ATGTGCATTTCAGGGGTACGAAGTACAAATAGGGGAACAC
Found at i:38415213 original size:12 final size:12
Alignment explanation
Indices: 38415196--38415223 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
38415186 GGTCTAATTA
38415196 TCATTTAAAGTT
1 TCATTTAAAGTT
38415208 TCATTTAAAGTT
1 TCATTTAAAGTT
38415220 TCAT
1 TCAT
38415224 AGCTACTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.32, C:0.11, G:0.07, T:0.50
Consensus pattern (12 bp):
TCATTTAAAGTT
Found at i:38418448 original size:50 final size:49
Alignment explanation
Indices: 38418321--38418564 Score: 213
Period size: 50 Copynumber: 4.9 Consensus size: 49
38418311 CAAAGCTCTC
* * * **
38418321 TGGTACGCATAGTAGCCTGCATTTAGTACTACACATACGACCTAACAATT
1 TGGTACACATAATAGCCTGCACTTAGTACTACACATGTGACCTAACAA-T
* * * *
38418371 TGGT--ACGTAATAGCCTGCACTTGGTACTACACACGTGACCTAACCAT
1 TGGTACACATAATAGCCTGCACTTAGTACTACACATGTGACCTAACAAT
** * * *** *
38418418 TGGATACATGTAATAGCCTGCACTTAGTACTACACACGTTATAGAAGCTAT
1 TGG-TACACATAATAGCCTGCACTTAGTACTACACATGTGACCTAA-CAAT
* * * **
38418469 TGGGTACGCATAGTAGCCTGCATTTAGTACTACACATGCAACCTAACAAT
1 T-GGTACACATAATAGCCTGCACTTAGTACTACACATGTGACCTAACAAT
* *
38418519 CTAGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAA
1 -TGGTACACATAATAGCCTGCACTTAGTACTACACATGTGACCTAA
38418565 AACCGTCTTA
Statistics
Matches: 155, Mismatches: 33, Indels: 12
0.77 0.17 0.06
Matches are distributed among these distances:
47 4 0.03
48 34 0.22
50 79 0.51
51 36 0.23
52 2 0.01
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (49 bp):
TGGTACACATAATAGCCTGCACTTAGTACTACACATGTGACCTAACAAT
Found at i:38418580 original size:50 final size:50
Alignment explanation
Indices: 38418328--38418610 Score: 159
Period size: 50 Copynumber: 5.6 Consensus size: 50
38418318 CTCTGGTACG
* ** ** *
38418328 CATAGTAGCCTGCATTTAGTACTACACATACGACCTAACAATTTGGT--A
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAACCTAGTAAA
* * * * * * * *
38418376 CGTAATAGCCTGCACTTGGTACTACACACGTGACCTAAC--CATTGGATA
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAACCTAGTAAA
* * * * * **
38418424 CATGTAATAGCCTGCACTTAGTACTACACACGTTA--T-AGAAGCTATTGGGTACG
1 CA--TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAACCTA----GTAAA
* ** * *
38418477 CATAGTAGCCTGCATTTAGTACTACACATGCAACCTAACAATCTAGTACA
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAACCTAGTAAA
**
38418527 CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAA-AACCGTCTTAAA
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAACC-TAGTAAA
* *
38418577 CATATAGTAGCCTGCACATAGTACTGCACATGTG
1 C--ATAGTAGCCTGCACTTAGTACTACACATGTG
38418611 TTCTCACAAT
Statistics
Matches: 181, Mismatches: 38, Indels: 28
0.73 0.15 0.11
Matches are distributed among these distances:
46 2 0.01
47 1 0.01
48 35 0.19
49 4 0.02
50 73 0.40
51 26 0.14
52 29 0.16
53 5 0.03
54 6 0.03
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (50 bp):
CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAACCTAGTAAA
Found at i:38422593 original size:28 final size:28
Alignment explanation
Indices: 38422561--38422688 Score: 175
Period size: 29 Copynumber: 4.5 Consensus size: 28
38422551 ATAGTAAGTC
*
38422561 CGCACACTTAGTGTTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
38422589 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGC-TATATAATCAAACT
38422618 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* ** * *
38422646 TGCACACTTAGTGCTATGCAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
38422675 CGCACACTTAGTGC
1 CGCACACTTAGTGC
38422689 CAATCTCATG
Statistics
Matches: 89, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
28 44 0.49
29 45 0.51
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:38422651 original size:57 final size:57
Alignment explanation
Indices: 38422560--38422688 Score: 188
Period size: 57 Copynumber: 2.3 Consensus size: 57
38422550 TATAGTAAGT
*
38422560 CCGCACACTTAGTGTTATATAATCAAACTCGCACACTTAGTGCT-TACATAATCAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACA-AATCAAAC
* * * * *
38422617 TCGCACACTTAGTGCTATATAATCAAACTTGCACACTTAGTGCTATGCAATTTAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAAATCAAAC
38422674 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
38422689 CAATCTCATG
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
57 61 0.95
58 3 0.05
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (57 bp):
CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAAATCAAAC
Found at i:38428522 original size:41 final size:40
Alignment explanation
Indices: 38428387--38428531 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
38428377 CTCGCACAAG
* * * * * *
38428387 GCCTTCGGGTCTTAACCCAGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
38428427 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * * *
38428467 GCCTTC-AGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
38428508 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
38428532 CATTCGAGTA
Statistics
Matches: 89, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
39 2 0.02
40 58 0.65
41 27 0.30
42 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:38433890 original size:28 final size:28
Alignment explanation
Indices: 38433858--38433985 Score: 175
Period size: 29 Copynumber: 4.5 Consensus size: 28
38433848 ATAGTAAGTC
*
38433858 CGCACACTTAGTGTTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
38433886 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGC-TATATAATCAAACT
38433915 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* ** * *
38433943 TGCACACTTAGTGCTATGCAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
38433972 CGCACACTTAGTGC
1 CGCACACTTAGTGC
38433986 CAATCTCATG
Statistics
Matches: 89, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
28 44 0.49
29 45 0.51
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:38433948 original size:57 final size:57
Alignment explanation
Indices: 38433857--38433985 Score: 188
Period size: 57 Copynumber: 2.3 Consensus size: 57
38433847 TATAGTAAGT
*
38433857 CCGCACACTTAGTGTTATATAATCAAACTCGCACACTTAGTGCT-TACATAATCAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACA-AATCAAAC
* * * * *
38433914 TCGCACACTTAGTGCTATATAATCAAACTTGCACACTTAGTGCTATGCAATTTAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAAATCAAAC
38433971 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
38433986 CAATCTCATG
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
57 61 0.95
58 3 0.05
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (57 bp):
CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAAATCAAAC
Found at i:38436186 original size:15 final size:15
Alignment explanation
Indices: 38436152--38436211 Score: 75
Period size: 15 Copynumber: 4.0 Consensus size: 15
38436142 TATAGATAAC
* * *
38436152 AAGAAAACCAGGATT
1 AAGAAATCCAAGATA
*
38436167 AAGAAGTCCAAGATA
1 AAGAAATCCAAGATA
*
38436182 GAGAAATCCAAGATA
1 AAGAAATCCAAGATA
38436197 AAGAAATCCAAGATA
1 AAGAAATCCAAGATA
38436212 CAATATCATA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 38 1.00
ACGTcount: A:0.55, C:0.13, G:0.18, T:0.13
Consensus pattern (15 bp):
AAGAAATCCAAGATA
Found at i:38440135 original size:101 final size:100
Alignment explanation
Indices: 38439924--38440162 Score: 282
Period size: 101 Copynumber: 2.4 Consensus size: 100
38439914 AACCGAAGCT
* * * * *
38439924 ATCTAGTACACATAGTATCCTGCACTTAGTACTGCACACATGACCTAACAATCTGGTACACGTAG
1 ATCTAGTACACATAGTAGCCTGCACTTAGTACTACACACATGACCGAACAATCGGGTACACATAG
* * * * *
38439989 TAGCCTGCACTTAGTACTCCACACGTGTCCTAACC
66 TAGCCTACACTTAGTACTACACACGCGACCTAACA
* * * * * * **
38440024 ATC-GGATACACGTAGTAGCATGCACTTAGTACTACACACGTGATCGAAGCTATCGGGTATGCAT
1 ATCTAG-TACACATAGTAGCCTGCACTTAGTACTACACACATGACCGAA-CAATCGGGTACACAT
*
38440088 AGTAGCCTACACTTAGTACTACACATGCGACCTAACA
64 AGTAGCCTACACTTAGTACTACACACGCGACCTAACA
38440125 ATCTAGTACACATAGTAGCCTGCACTTAGTACTACACA
1 ATCTAGTACACATAGTAGCCTGCACTTAGTACTACACA
38440163 TGTGTTCTCA
Statistics
Matches: 114, Mismatches: 22, Indels: 5
0.81 0.16 0.04
Matches are distributed among these distances:
99 1 0.01
100 38 0.33
101 74 0.65
102 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (100 bp):
ATCTAGTACACATAGTAGCCTGCACTTAGTACTACACACATGACCGAACAATCGGGTACACATAG
TAGCCTACACTTAGTACTACACACGCGACCTAACA
Found at i:38440163 original size:50 final size:50
Alignment explanation
Indices: 38439924--38440166 Score: 263
Period size: 50 Copynumber: 4.8 Consensus size: 50
38439914 AACCGAAGCT
* * * **
38439924 ATCTAGTACACATAGTATCCTGCACTTAGTACTGCACACATGACCTAACA
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACA
* * * * *
38439974 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTCCACACGTGTCCTAACC
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACA
* * * * * *
38440024 ATC-GGATACACGTAGTAGCATGCACTTAGTACTACACACGTGATCGAAGCT
1 ATCTGG-TACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAA-CA
* ** * *
38440075 ATCGGGTATGCATAGTAGCCTACACTTAGTACTACACATGCGACCTAACA
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACA
*
38440125 ATCTAGTACACATAGTAGCCTGCACTTAGTACTACACATGTG
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTG
38440167 TTCTCACAAC
Statistics
Matches: 161, Mismatches: 29, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
49 2 0.01
50 120 0.75
51 37 0.23
52 2 0.01
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (50 bp):
ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACA
Found at i:38440469 original size:11 final size:11
Alignment explanation
Indices: 38440453--38440479 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
38440443 ATCAACTACT
38440453 TCATGGGTACA
1 TCATGGGTACA
38440464 TCATGGGTACA
1 TCATGGGTACA
38440475 TCATG
1 TCATG
38440480 TTCCCATACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.30
Consensus pattern (11 bp):
TCATGGGTACA
Found at i:38454584 original size:40 final size:40
Alignment explanation
Indices: 38454521--38454665 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
38454511 CATTTGAATG
* *
38454521 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTTGA-T
* * *
38454561 TTATCCGGGCTAAGACCCAAAGGCATTTGTGCAAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTTGAT
* * *
38454601 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTTGAT
* *
38454641 ATACCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
38454666 ATTGTGCTTG
Statistics
Matches: 93, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
40 90 0.97
41 3 0.03
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTTGAT
Found at i:38454655 original size:80 final size:80
Alignment explanation
Indices: 38454521--38454672 Score: 207
Period size: 80 Copynumber: 1.9 Consensus size: 80
38454511 CATTTGAATG
* * * * *
38454521 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGACCCAAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTGACTATACCCGGGCTAAGACCCAAAGGCA
*
38454586 TTTGTGCAAGTTGAT
66 ATTGTGCAAGTTGAT
* * *
38454601 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATACCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAG-TGACTATACCCGGGCTAAGACCCAAAGGC
38454665 AATTGTGC
65 AATTGTGC
38454673 TTGTGGTTAT
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
80 60 0.97
81 2 0.03
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTGACTATACCCGGGCTAAGACCCAAAGGCA
ATTGTGCAAGTTGAT
Found at i:38454684 original size:80 final size:80
Alignment explanation
Indices: 38454521--38454692 Score: 204
Period size: 80 Copynumber: 2.2 Consensus size: 80
38454511 CATTTGAATG
* * * * *
38454521 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGACCCAAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTGACTATACCCGGGCTAAGACCCAAAGGCA
* *
38454586 TTTGTGCAAGTTGAT
66 ATTGTGCAAGTGGAT
* * *
38454601 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATACCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAG-TGACTATACCCGGGCTAAGACCCAAAGGC
** *
38454665 AATTGTGCTTGTGGTT
65 AATTGTGCAAGTGGAT
38454681 ATATCC-GGCTAA
1 ATATCCGGGCTAA
38454693 ATTTCGAAGA
Statistics
Matches: 78, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
79 6 0.08
80 70 0.90
81 2 0.03
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTGACTATACCCGGGCTAAGACCCAAAGGCA
ATTGTGCAAGTGGAT
Found at i:38468788 original size:39 final size:40
Alignment explanation
Indices: 38468744--38468836 Score: 134
Period size: 41 Copynumber: 2.3 Consensus size: 40
38468734 TTACAAAATA
* *
38468744 TTATCTAATTACACA-TTTTTGTACAAAATTGATAATATT
1 TTATCTAATTACACATTTTTTGTACAAAATTCATAACATT
* *
38468783 TTATCTAGTTACACATTTTTTTTTACAAAATTCATAACATT
1 TTATCTAATTACACA-TTTTTTGTACAAAATTCATAACATT
38468824 TTATCTAATTACA
1 TTATCTAATTACA
38468837 AAATATTTTC
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
39 14 0.30
41 33 0.70
ACGTcount: A:0.37, C:0.13, G:0.03, T:0.47
Consensus pattern (40 bp):
TTATCTAATTACACATTTTTTGTACAAAATTCATAACATT
Found at i:38473370 original size:18 final size:18
Alignment explanation
Indices: 38473347--38473382 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
38473337 AAGTAAGTTC
38473347 GTTCGGTTTGTAATTTAA
1 GTTCGGTTTGTAATTTAA
38473365 GTTCGGTTTGTAATTTAA
1 GTTCGGTTTGTAATTTAA
38473383 TATCTATATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.06, G:0.22, T:0.50
Consensus pattern (18 bp):
GTTCGGTTTGTAATTTAA
Found at i:38475816 original size:39 final size:39
Alignment explanation
Indices: 38475757--38476011 Score: 348
Period size: 39 Copynumber: 6.5 Consensus size: 39
38475747 TATAATTATA
* * *
38475757 CCCTGTTGTACTTCGATACCCTTGAATGCACATACGTGC
1 CCCTGTTGTACTTTGGTACCCCTGAATGCACATACGTGC
* * * *
38475796 CCTTGTTGTACTTCGGTACCCCTAAACGCACATACGTGC
1 CCCTGTTGTACTTTGGTACCCCTGAATGCACATACGTGC
* ** *
38475835 CCCTCTTGTACTTCAGTACCCATGAATGCACATACGTGC
1 CCCTGTTGTACTTTGGTACCCCTGAATGCACATACGTGC
38475874 CCCTGTTGTACTTTGGTACCCCTGAATGCACATACGTGC
1 CCCTGTTGTACTTTGGTACCCCTGAATGCACATACGTGC
* * * * *
38475913 CCCTGTTGTACTTTAGTACCCCTAAACGCAAATACGTTC
1 CCCTGTTGTACTTTGGTACCCCTGAATGCACATACGTGC
* *
38475952 CCCTATTGTACTTTGGTACCCCTGAATGCACATATGTGC
1 CCCTGTTGTACTTTGGTACCCCTGAATGCACATACGTGC
38475991 CCCTGTTGTACTTTGGTACCC
1 CCCTGTTGTACTTTGGTACCC
38476012 ATGATTCACA
Statistics
Matches: 188, Mismatches: 28, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 188 1.00
ACGTcount: A:0.20, C:0.31, G:0.17, T:0.31
Consensus pattern (39 bp):
CCCTGTTGTACTTTGGTACCCCTGAATGCACATACGTGC
Done.