Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 88 of 276
Found at i:27369645 original size:35 final size:35
Alignment explanation
Indices: 27369599--27369671 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
27369589 AACCATTAAA
27369599 AATATTACAAAACCTTTGCTCAAATGATTTAATAC
1 AATATTACAAAACCTTTGCTCAAATGATTTAATAC
27369634 AATATTACAAAACCTTTGCTCAAATGATTTAATAC
1 AATATTACAAAACCTTTGCTCAAATGATTTAATAC
27369669 AAT
1 AAT
27369672 CTCAAATATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.44, C:0.16, G:0.05, T:0.34
Consensus pattern (35 bp):
AATATTACAAAACCTTTGCTCAAATGATTTAATAC
Found at i:27376548 original size:18 final size:19
Alignment explanation
Indices: 27376525--27376568 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
27376515 TTCAAACAAA
27376525 AATTGAGAAGTTTA-AGAG
1 AATTGAGAAGTTTAGAGAG
27376543 AATTGAG-AGTTTAGAGAG
1 AATTGAGAAGTTTAGAGAG
*
27376561 AATAGAGA
1 AATTGAGA
27376569 GTTGGATTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 6 0.26
18 17 0.74
ACGTcount: A:0.45, C:0.00, G:0.30, T:0.25
Consensus pattern (19 bp):
AATTGAGAAGTTTAGAGAG
Found at i:27378100 original size:22 final size:20
Alignment explanation
Indices: 27378074--27378113 Score: 62
Period size: 22 Copynumber: 1.9 Consensus size: 20
27378064 AGAATTATTT
27378074 TAATTAATATTAATATATTTCA
1 TAATTAAT-TTAA-ATATTTCA
27378096 TAATTAATTTAAATATTT
1 TAATTAATTTAAATATTT
27378114 AATTTGAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.33
21 4 0.22
22 8 0.44
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (20 bp):
TAATTAATTTAAATATTTCA
Found at i:27379469 original size:28 final size:28
Alignment explanation
Indices: 27379429--27379484 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
27379419 AGGATAATAC
27379429 AATTCCCCTTGAGTACCAATGGTTGTGG
1 AATTCCCCTTGAGTACCAATGGTTGTGG
27379457 AATTCCCCTTGAGTACCAATGGTTGTGG
1 AATTCCCCTTGAGTACCAATGGTTGTGG
27379485 TACCAGTACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.32
Consensus pattern (28 bp):
AATTCCCCTTGAGTACCAATGGTTGTGG
Found at i:27380273 original size:12 final size:12
Alignment explanation
Indices: 27380253--27380309 Score: 55
Period size: 12 Copynumber: 4.9 Consensus size: 12
27380243 AGCAATAAAC
27380253 TAGCAACAAAAA
1 TAGCAACAAAAA
* *
27380265 TATCAAC-AAAG
1 TAGCAACAAAAA
27380276 TAGCAA-AAAAA
1 TAGCAACAAAAA
* * *
27380287 AAACAACTAAAA
1 TAGCAACAAAAA
27380299 TAGCAACAAAA
1 TAGCAACAAAA
27380310 TATGACCAAA
Statistics
Matches: 33, Mismatches: 10, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
11 15 0.45
12 18 0.55
ACGTcount: A:0.67, C:0.16, G:0.07, T:0.11
Consensus pattern (12 bp):
TAGCAACAAAAA
Found at i:27380286 original size:23 final size:23
Alignment explanation
Indices: 27380248--27380309 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
27380238 GAGTTAGCAA
* *
27380248 TAAACTAGCAACAAAAATATCAAC
1 TAAAATAGCAACAAAAA-AACAAC
* *
27380272 -AAAGTAGCAAAAAAAAAACAAC
1 TAAAATAGCAACAAAAAAACAAC
27380294 TAAAATAGCAACAAAA
1 TAAAATAGCAACAAAA
27380310 TATGACCAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
22 5 0.16
23 27 0.84
ACGTcount: A:0.66, C:0.16, G:0.06, T:0.11
Consensus pattern (23 bp):
TAAAATAGCAACAAAAAAACAAC
Found at i:27380309 original size:11 final size:11
Alignment explanation
Indices: 27380242--27380311 Score: 59
Period size: 11 Copynumber: 6.2 Consensus size: 11
27380232 CAAGGAGAGT
* *
27380242 TAGCAATAAAC
1 TAGCAACAAAA
27380253 TAGCAACAAAAA
1 TAGCAAC-AAAA
* *
27380265 TATCAACAAAG
1 TAGCAACAAAA
*
27380276 TAGCAAAAAAA
1 TAGCAACAAAA
* *
27380287 AAACAACTAAAA
1 TAGCAAC-AAAA
27380299 TAGCAACAAAA
1 TAGCAACAAAA
27380310 TA
1 TA
27380312 TGACCAAAAT
Statistics
Matches: 45, Mismatches: 12, Indels: 4
0.74 0.20 0.07
Matches are distributed among these distances:
11 27 0.60
12 18 0.40
ACGTcount: A:0.64, C:0.16, G:0.07, T:0.13
Consensus pattern (11 bp):
TAGCAACAAAA
Found at i:27383273 original size:27 final size:27
Alignment explanation
Indices: 27383233--27383310 Score: 111
Period size: 27 Copynumber: 2.9 Consensus size: 27
27383223 TGGCATTTTG
*
27383233 ATAAACTTTGTGGTGAAATCTGAAAGA
1 ATAAACTTTGTGGTGAACTCTGAAAGA
* * *
27383260 ATAAGCTTTATGGTGAACTCTAAAAGA
1 ATAAACTTTGTGGTGAACTCTGAAAGA
*
27383287 ATAACCTTTGTGGTGAACTCTGAA
1 ATAAACTTTGTGGTGAACTCTGAA
27383311 TAGATTGTCT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.31
Consensus pattern (27 bp):
ATAAACTTTGTGGTGAACTCTGAAAGA
Found at i:27389621 original size:21 final size:23
Alignment explanation
Indices: 27389563--27389621 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 23
27389553 AATTTATATT
*
27389563 TATA-ATAAAATAA-TTATATAA
1 TATATATAAAATAAGTTATAGAA
27389584 TATATATAAATATAAGTT-TAGAA
1 TATATATAAA-ATAAGTTATAGAA
27389607 TA-ATATAAAATAAGT
1 TATATATAAAATAAGT
27389622 AATTAATGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
21 10 0.29
22 12 0.35
23 10 0.29
24 2 0.06
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (23 bp):
TATATATAAAATAAGTTATAGAA
Found at i:27389882 original size:11 final size:12
Alignment explanation
Indices: 27389852--27389892 Score: 50
Period size: 11 Copynumber: 3.5 Consensus size: 12
27389842 ATATGTAAAA
*
27389852 ATAATATATAAT
1 ATAATAAATAAT
27389864 ATATATAAATAAT
1 ATA-ATAAATAAT
27389877 -TAATAAAT-AT
1 ATAATAAATAAT
27389887 ATAATA
1 ATAATA
27389893 CAAGTAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
10 2 0.08
11 11 0.42
12 5 0.19
13 8 0.31
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
ATAATAAATAAT
Found at i:27389900 original size:28 final size:28
Alignment explanation
Indices: 27389854--27389942 Score: 76
Period size: 28 Copynumber: 3.0 Consensus size: 28
27389844 ATGTAAAAAT
*
27389854 AATATATAATATATA-TAAATAAT-TAATA
1 AATATATAATACA-AGTAAA-AATATAATA
27389882 AATATATAATACAAGTAAAAATATAATA
1 AATATATAATACAAGTAAAAATATAATA
27389910 ATGATATATGAATAACAATGT-AAAATAGTAATA
1 A--ATATAT-AAT-ACAA-GTAAAAATA-TAATA
27389943 TTTTGTGAAA
Statistics
Matches: 52, Mismatches: 1, Indels: 11
0.81 0.02 0.17
Matches are distributed among these distances:
27 4 0.08
28 22 0.42
30 6 0.12
31 3 0.06
32 10 0.19
33 7 0.13
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.33
Consensus pattern (28 bp):
AATATATAATACAAGTAAAAATATAATA
Found at i:27389935 original size:32 final size:31
Alignment explanation
Indices: 27389883--27389942 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 31
27389873 TAATTAATAA
27389883 ATATATAATACAAGTAAAAATA-TAATAATG
1 ATATATAATACAAGTAAAAATAGTAATAATG
27389913 ATATATGAATAACAATGT-AAAATAGTAATA
1 ATATAT-AAT-ACAA-GTAAAAATAGTAATA
27389943 TTTTGTGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
30 6 0.23
31 3 0.12
32 10 0.38
33 7 0.27
ACGTcount: A:0.58, C:0.03, G:0.08, T:0.30
Consensus pattern (31 bp):
ATATATAATACAAGTAAAAATAGTAATAATG
Found at i:27389981 original size:12 final size:12
Alignment explanation
Indices: 27389964--27390081 Score: 75
Period size: 12 Copynumber: 9.7 Consensus size: 12
27389954 GTAATATATA
27389964 ATAAATAATAAT
1 ATAAATAATAAT
27389976 ATAAATAAT-AT
1 ATAAATAATAAT
*
27389987 ATAATAAAATAATT
1 ATAA-ATAATAA-T
27390001 ATATAATATATAAT
1 ATA-AATA-ATAAT
27390015 ATAAA-AATAAGGT
1 ATAAATAATAA--T
* *
27390028 -TAAAAAATAAA
1 ATAAATAATAAT
*
27390039 ACAAATAATAAT
1 ATAAATAATAAT
*
27390051 A-AAA-AATTTAT
1 ATAAATAA-TAAT
*
27390062 ATATATAATAAT
1 ATAAATAATAAT
*
27390074 AGAAATAA
1 ATAAATAA
27390082 ATATATAGGG
Statistics
Matches: 83, Mismatches: 11, Indels: 24
0.70 0.09 0.20
Matches are distributed among these distances:
10 2 0.02
11 17 0.20
12 38 0.46
13 11 0.13
14 10 0.12
15 5 0.06
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (12 bp):
ATAAATAATAAT
Found at i:27389984 original size:26 final size:26
Alignment explanation
Indices: 27389955--27390088 Score: 106
Period size: 23 Copynumber: 5.3 Consensus size: 26
27389945 TTGTGAAAAG
27389955 TAATATATAATAAATAATAATATAAA
1 TAATATATAATAAATAATAATATAAA
*
27389981 TAATATATAAT-AA-AATAAT-TATA
1 TAATATATAATAAATAATAATATAAA
*
27390004 TAATATATAATATAAAAATAAGGT-TAAA
1 TAATATATAATA-AATAATAA--TATAAA
* *
27390032 -AA-ATAAAACAAATAATAATA-AAA
1 TAATATATAATAAATAATAATATAAA
* * *
27390055 -AATTTAT-ATATATAATAATAGAAA
1 TAATATATAATAAATAATAATATAAA
27390079 TAAATATATA
1 T-AATATATA
27390089 GGGTTAGATT
Statistics
Matches: 87, Mismatches: 10, Indels: 21
0.74 0.08 0.18
Matches are distributed among these distances:
23 31 0.36
24 11 0.13
25 11 0.13
26 28 0.32
27 2 0.02
28 4 0.05
ACGTcount: A:0.64, C:0.01, G:0.02, T:0.33
Consensus pattern (26 bp):
TAATATATAATAAATAATAATATAAA
Found at i:27389990 original size:23 final size:26
Alignment explanation
Indices: 27389955--27390088 Score: 54
Period size: 26 Copynumber: 5.3 Consensus size: 26
27389945 TTGTGAAAAG
27389955 TAATATATAATAAATAATA-AT-ATAAA
1 TAATATAT-AT-AATAATATATAATAAA
*
27389981 TAATATATAATAAAATAATTATATAATATA
1 TAATATAT-AT--AATAA-TATATAATAAA
* ** *
27390011 TAATATA-AAAATAAGGT-TAAAAAA
1 TAATATATATAATAATATATAATAAA
* *
27390035 TAA-A-ACA-AATAATA-ATAAAAAA
1 TAATATATATAATAATATATAATAAA
* *
27390057 TTTATATATATAATAATAGA-AATAAA
1 -TAATATATATAATAATATATAATAAA
27390083 T-ATATA
1 TAATATA
27390089 GGGTTAGATT
Statistics
Matches: 86, Mismatches: 11, Indels: 24
0.71 0.09 0.20
Matches are distributed among these distances:
22 13 0.15
23 4 0.05
24 14 0.16
25 4 0.05
26 28 0.33
27 7 0.08
28 3 0.03
29 2 0.02
30 11 0.13
ACGTcount: A:0.64, C:0.01, G:0.02, T:0.33
Consensus pattern (26 bp):
TAATATATATAATAATATATAATAAA
Found at i:27390016 original size:7 final size:7
Alignment explanation
Indices: 27389955--27390017 Score: 67
Period size: 7 Copynumber: 9.0 Consensus size: 7
27389945 TTGTGAAAAG
27389955 TAATATA
1 TAATATA
*
27389962 TAATAAA
1 TAATATA
27389969 TAATA-A
1 TAATATA
*
27389975 T-ATAAA
1 TAATATA
27389981 TAATATA
1 TAATATA
*
27389988 TAATAAAA
1 TAAT-ATA
27389996 TAATTATA
1 TAA-TATA
27390004 TAATATA
1 TAATATA
27390011 TAATATA
1 TAATATA
27390018 AAAATAAGGT
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
5 3 0.06
6 4 0.08
7 30 0.62
8 10 0.21
9 1 0.02
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (7 bp):
TAATATA
Found at i:27393849 original size:41 final size:39
Alignment explanation
Indices: 27393804--27393911 Score: 123
Period size: 41 Copynumber: 2.7 Consensus size: 39
27393794 CAACCCATGT
*
27393804 TTATCTTCTCCTCTTTTTAAATTATTTTTCAATAACC-AATA
1 TTATCTT-TCCT-TTTTTAAATTATTTTTCAACAACCGAA-A
*
27393845 TTATCTTTTCCTTTTCTAAATTATTTTTTCAACAACCTGAAA
1 TTATC-TTTCCTTTTTTAAATTA-TTTTTCAACAACC-GAAA
27393887 TTATCTTT--TTTTTTAAATTATTTTT
1 TTATCTTTCCTTTTTTAAATTATTTTT
27393912 TTCTAGGATA
Statistics
Matches: 60, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
38 5 0.08
39 11 0.18
40 10 0.17
41 24 0.40
42 8 0.13
43 2 0.03
ACGTcount: A:0.27, C:0.16, G:0.01, T:0.56
Consensus pattern (39 bp):
TTATCTTTCCTTTTTTAAATTATTTTTCAACAACCGAAA
Found at i:27393911 original size:39 final size:39
Alignment explanation
Indices: 27393815--27393912 Score: 130
Period size: 39 Copynumber: 2.5 Consensus size: 39
27393805 TATCTTCTCC
*
27393815 TCTTTTTAAATTA-TTTTTCAATAACCAATATTATCTTT
1 TCTTTTTAAATTATTTTTTCAACAACCAATATTATCTTT
27393853 TCCTTTTCTAAATTATTTTTTCAACAACCTGAA-ATTATCTTT
1 T-CTTTT-TAAATTATTTTTTCAACAACC--AATATTATCTTT
27393895 T-TTTTTAAATTATTTTTT
1 TCTTTTTAAATTATTTTTT
27393913 TCTAGGATAA
Statistics
Matches: 54, Mismatches: 1, Indels: 9
0.84 0.02 0.14
Matches are distributed among these distances:
38 1 0.02
39 18 0.33
40 11 0.20
41 12 0.22
42 10 0.19
43 2 0.04
ACGTcount: A:0.29, C:0.13, G:0.01, T:0.57
Consensus pattern (39 bp):
TCTTTTTAAATTATTTTTTCAACAACCAATATTATCTTT
Found at i:27397675 original size:23 final size:19
Alignment explanation
Indices: 27397652--27397689 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
27397642 TCACTGTCAC
*
27397652 CCACTGTAATCAAATTTGT
1 CCACCGTAATCAAATTTGT
27397671 CCACCGTAATCAAATTTGT
1 CCACCGTAATCAAATTTGT
27397690 TAATAACTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.34
Consensus pattern (19 bp):
CCACCGTAATCAAATTTGT
Found at i:27399379 original size:19 final size:19
Alignment explanation
Indices: 27399344--27399422 Score: 117
Period size: 19 Copynumber: 4.2 Consensus size: 19
27399334 AGATTACAAG
27399344 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
*
27399365 ATCATATTTAAGATTG--T
1 ATCATATCTAAGATTGCAT
27399382 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
27399401 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
27399420 ATC
1 ATC
27399423 CTTAAAGATT
Statistics
Matches: 54, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
17 16 0.30
19 30 0.56
20 1 0.02
21 7 0.13
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.39
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:27399399 original size:36 final size:38
Alignment explanation
Indices: 27399344--27399416 Score: 123
Period size: 36 Copynumber: 2.0 Consensus size: 38
27399334 AGATTACAAG
*
27399344 ATCATATCTTCAAGATTGCATATCATATTTAAGATTGT
1 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGT
27399382 ATCATATC-T-AAGATTGCATATCATATCTAAGATTG
1 ATCATATCTTCAAGATTGCATATCATATCTAAGATTG
27399417 CATATCCTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
36 25 0.74
37 1 0.03
38 8 0.24
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.40
Consensus pattern (38 bp):
ATCATATCTTCAAGATTGCATATCATATCTAAGATTGT
Found at i:27399431 original size:36 final size:35
Alignment explanation
Indices: 27399345--27399432 Score: 108
Period size: 36 Copynumber: 2.4 Consensus size: 35
27399335 GATTACAAGA
*
27399345 TCATATCTTCAAGATTGCATATCATATTTAAGATTG
1 TCATATCTT-AAGATTGCATATCATATCTAAGATTG
27399381 TATCATATC-TAAGATTGCATATCATATCTAAGATTG
1 --TCATATCTTAAGATTGCATATCATATCTAAGATTG
27399417 -CATATCCTTAAAGATT
1 TCATAT-CTT-AAGATT
27399433 ATATTTCCAT
Statistics
Matches: 46, Mismatches: 1, Indels: 8
0.84 0.02 0.15
Matches are distributed among these distances:
33 5 0.11
34 1 0.02
35 1 0.02
36 31 0.67
37 1 0.02
38 7 0.15
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (35 bp):
TCATATCTTAAGATTGCATATCATATCTAAGATTG
Found at i:27400477 original size:19 final size:19
Alignment explanation
Indices: 27400453--27400531 Score: 117
Period size: 19 Copynumber: 4.2 Consensus size: 19
27400443 AATCTTTAAG
27400453 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
27400472 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
27400491 GATA--CAACCTTAGATAT
1 GATATGCAATCTTAGATAT
27400508 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
27400529 GAT
1 GAT
27400532 CTTGTAATCT
Statistics
Matches: 54, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
17 16 0.30
19 29 0.54
21 9 0.17
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.34
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:27400483 original size:36 final size:36
Alignment explanation
Indices: 27400443--27400530 Score: 110
Period size: 36 Copynumber: 2.4 Consensus size: 36
27400433 ATGGAAATAT
*
27400443 AATCTTTAAGGATATG-CAATCTTAGATATGATATGC
1 AATCTTTAA-GATATGACAACCTTAGATATGATATGC
27400479 AATC-TT-AGATATGATACAACCTTAGATATGATATGC
1 AATCTTTAAGATATG--ACAACCTTAGATATGATATGC
*
27400515 AATCTTGAAGATATGA
1 AATCTTTAAGATATGA
27400531 TCTTGTAATC
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
33 6 0.13
34 1 0.02
35 2 0.04
36 28 0.62
37 1 0.02
38 7 0.16
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (36 bp):
AATCTTTAAGATATGACAACCTTAGATATGATATGC
Found at i:27402883 original size:22 final size:23
Alignment explanation
Indices: 27402841--27402883 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
27402831 AGAGATAACT
*
27402841 TGTAATCTTAGAAGATATGATAA
1 TGTAATATTAGAAGATATGATAA
*
27402864 TGTAATATTAG-AGATTTGAT
1 TGTAATATTAGAAGATATGAT
27402884 TTGTAGATAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.40, C:0.02, G:0.19, T:0.40
Consensus pattern (23 bp):
TGTAATATTAGAAGATATGATAA
Found at i:27408859 original size:49 final size:49
Alignment explanation
Indices: 27408802--27409035 Score: 351
Period size: 49 Copynumber: 4.7 Consensus size: 49
27408792 AAGCAATGGT
* *
27408802 AGTATATCTGCAAATCAGTGGTGGCTTGTCTATAAAATTTATCAGTGGC
1 AGTATATCTGCAAATCAGTGGTGGCTTGTCCACAAAATTTATCAGTGGC
*
27408851 AGTATATCTGAAAATCAGTGGTGGCTTGTCCACAAAATTTATCAGTGGC
1 AGTATATCTGCAAATCAGTGGTGGCTTGTCCACAAAATTTATCAGTGGC
* * *
27408900 AATATATCTGCAAATCAGTGGTAGCTTGTCCACAAAATTTATCAATGGC
1 AGTATATCTGCAAATCAGTGGTGGCTTGTCCACAAAATTTATCAGTGGC
* * *
27408949 AGTATATCTACATATCAGTGGTGCCTTGTCCACAAAAGTATTATCAGTGGC
1 AGTATATCTGCAAATCAGTGGTGGCTTGTCCACAAAA-T-TTATCAGTGGC
* *
27409000 AGTTTATCTGCAAATCAATGGTGGCTTGTCCACAAA
1 AGTATATCTGCAAATCAGTGGTGGCTTGTCCACAAA
27409036 TGGTATTTCA
Statistics
Matches: 165, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
49 123 0.75
50 1 0.01
51 41 0.25
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.32
Consensus pattern (49 bp):
AGTATATCTGCAAATCAGTGGTGGCTTGTCCACAAAATTTATCAGTGGC
Found at i:27413932 original size:27 final size:27
Alignment explanation
Indices: 27413858--27413921 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
27413848 ACTTCTCTGA
27413858 GTTTACTGTCTA-AATAGG-CTACCTCAT
1 GTTTACTGTC-ACAAT-GGACTACCTCAT
*
27413885 GTTTACTGTCACAATGGACTACCTCGT
1 GTTTACTGTCACAATGGACTACCTCAT
27413912 GTTTACTGTC
1 GTTTACTGTC
27413922 CTAGTGGACT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
26 3 0.09
27 31 0.91
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.38
Consensus pattern (27 bp):
GTTTACTGTCACAATGGACTACCTCAT
Found at i:27421272 original size:4 final size:4
Alignment explanation
Indices: 27421263--27421292 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
27421253 AGCAAACGTG
27421263 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AG
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AG
27421293 GGAGTCTGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:27430796 original size:24 final size:26
Alignment explanation
Indices: 27430769--27430820 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 26
27430759 ATAACTGAAA
*
27430769 ATAAAATTGTT-ATTTA-ATACATTG
1 ATAAAATTATTAATTTATATACATTG
* *
27430793 ATAATATTATTAATTTATTTACATTG
1 ATAAAATTATTAATTTATATACATTG
27430819 AT
1 AT
27430821 TTTGTAGTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 9 0.39
25 5 0.22
26 9 0.39
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.50
Consensus pattern (26 bp):
ATAAAATTATTAATTTATATACATTG
Found at i:27431479 original size:24 final size:27
Alignment explanation
Indices: 27431424--27431481 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 27
27431414 GTAAAATTAC
*
27431424 TTAATTATTATTTGAAATTATTTTATTG
1 TTAA-TATTATTTGAAATTATTTCATTG
*
27431452 TTAATATTA-TTG-AATT-TTTCATTT
1 TTAATATTATTTGAAATTATTTCATTG
27431476 TTAATA
1 TTAATA
27431482 ATGGTTACAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 12 0.43
25 4 0.14
26 3 0.11
27 5 0.18
28 4 0.14
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (27 bp):
TTAATATTATTTGAAATTATTTCATTG
Found at i:27431522 original size:24 final size:22
Alignment explanation
Indices: 27431490--27431536 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
27431480 TAATGGTTAC
*
27431490 ATATGTTAATTATATGAAATAAAA
1 ATATGTTAA-TAAAT-AAATAAAA
*
27431514 ATATTTTAATAAATAAATAAAA
1 ATATGTTAATAAATAAATAAAA
27431536 A
1 A
27431537 ATGCGATACT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 9 0.43
23 4 0.19
24 8 0.38
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (22 bp):
ATATGTTAATAAATAAATAAAA
Found at i:27439695 original size:9 final size:9
Alignment explanation
Indices: 27439681--27439706 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
27439671 ATAGAAAAAG
27439681 AAAATATGT
1 AAAATATGT
27439690 AAAATATGT
1 AAAATATGT
27439699 AAAATATG
1 AAAATATG
27439707 GGGAGGGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.12, T:0.31
Consensus pattern (9 bp):
AAAATATGT
Found at i:27447759 original size:24 final size:24
Alignment explanation
Indices: 27447732--27447780 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
27447722 GCTGTTTATT
27447732 TGTAGTTATCTCCTGAACAACCTG
1 TGTAGTTATCTCCTGAACAACCTG
*
27447756 TGTAGTTATTTCCTGAACAACCTG
1 TGTAGTTATCTCCTGAACAACCTG
27447780 T
1 T
27447781 TTAAATATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.37
Consensus pattern (24 bp):
TGTAGTTATCTCCTGAACAACCTG
Found at i:27447789 original size:24 final size:24
Alignment explanation
Indices: 27447742--27447790 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
27447732 TGTAGTTATC
**
27447742 TCCTGAACAACCTGTGTAGTTATT
1 TCCTGAACAACCTGTGTAAATATT
*
27447766 TCCTGAACAACCTGTTTAAATATT
1 TCCTGAACAACCTGTGTAAATATT
27447790 T
1 T
27447791 TGATATTGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.39
Consensus pattern (24 bp):
TCCTGAACAACCTGTGTAAATATT
Found at i:27450732 original size:208 final size:202
Alignment explanation
Indices: 27450332--27450759 Score: 678
Period size: 213 Copynumber: 2.0 Consensus size: 202
27450322 TGTAAATTAC
27450332 TTTTTTATCATATCAATTTTTTACGTAAGTTATTTTACAAAAGGACATAATTGGAAAAAAAATTA
1 TTTTTTATCA-ATCAATTTTTTACGTAAGTTATTTTACAAAAGGACATAATTGGAAAAAAAATTA
27450397 GAATCAATCATTTCCTTTACTTTCCATAGTTGAACCAAACAAAGATTGTAAATATTACTTTAGTA
65 GAATCAATCATTTCCTTTACTTTCCATAGTTGAACCAAACAAAGATTGTAAATATTACTTTAGTA
*
27450462 ATTTTAGCTATCTAAACAAAATAAACATGCATAATATCCTTTCTTTAATCCTCCTTTCTTTTCCT
130 ATTTTAGCTATCCAAACAAAATAAACATGCATAATATCCTTTCTTTAA--CTCC-TTCTTTTCCT
27450527 TTCCTTTATAA
192 TTCCTTTATAA
27450538 TTTTTTATC-ATCAATTTTTTACGTAAGTTATTTTACAAAAGGACATAATTGGGAAAAAAAAACA
1 TTTTTTATCAATCAATTTTTTACGTAAGTTATTTTACAAAAGGACATAATT-GG--AAAAAAA-A
27450602 TTAGAATCAATCATTTCCTTTACTTTCCATAGTTGAACCAAACAAAGATTGTAAATATTACTTTA
62 TTAGAATCAATCATTTCCTTTACTTTCCATAGTTGAACCAAACAAAGATTGTAAATATTAC--T-
*
27450667 CTTCAGTAATTTTAGCTATCCAAACAAAATAAACATGCATAATATCCTTTCTTTAATCCTCTTTT
124 -TT-AGTAATTTTAGCTATCCAAACAAAATAAACATGCATAATATCCTTTCTTTAA--CTC-CTT
27450732 CTTTTCCTTTCCTTTATAA
184 CTTTTCCTTTCCTTTATAA
*
27450751 TTATTTATC
1 TTTTTTATC
27450760 CAAACCTAGG
Statistics
Matches: 209, Mismatches: 3, Indels: 13
0.93 0.01 0.06
Matches are distributed among these distances:
204 41 0.20
205 2 0.01
206 9 0.04
207 7 0.03
208 62 0.30
210 1 0.00
212 2 0.01
213 85 0.41
ACGTcount: A:0.36, C:0.16, G:0.07, T:0.41
Consensus pattern (202 bp):
TTTTTTATCAATCAATTTTTTACGTAAGTTATTTTACAAAAGGACATAATTGGAAAAAAAATTAG
AATCAATCATTTCCTTTACTTTCCATAGTTGAACCAAACAAAGATTGTAAATATTACTTTAGTAA
TTTTAGCTATCCAAACAAAATAAACATGCATAATATCCTTTCTTTAACTCCTTCTTTTCCTTTCC
TTTATAA
Found at i:27461273 original size:41 final size:41
Alignment explanation
Indices: 27461228--27461309 Score: 137
Period size: 41 Copynumber: 2.0 Consensus size: 41
27461218 GTCCACAAAT
* *
27461228 ATCAACCCTTCTTCACCATCCCTATTCTTATGAAATAGCAC
1 ATCAACCCTTCTTCACCATCCCTATTCTTACGAAAGAGCAC
*
27461269 ATCAACCCTTCTTCACCATCCCTGTTCTTACGAAAGAGCAC
1 ATCAACCCTTCTTCACCATCCCTATTCTTACGAAAGAGCAC
27461310 TATCGAATTG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.28, C:0.35, G:0.07, T:0.29
Consensus pattern (41 bp):
ATCAACCCTTCTTCACCATCCCTATTCTTACGAAAGAGCAC
Found at i:27465442 original size:20 final size:21
Alignment explanation
Indices: 27465417--27465456 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
27465407 CCTGTCAATA
27465417 CCAATTC-ATTTCCAAATACG
1 CCAATTCAATTTCCAAATACG
*
27465437 CCAATTCAATTTCCACATAC
1 CCAATTCAATTTCCAAATAC
27465457 ACATCTCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.35, C:0.33, G:0.03, T:0.30
Consensus pattern (21 bp):
CCAATTCAATTTCCAAATACG
Found at i:27466117 original size:30 final size:30
Alignment explanation
Indices: 27466081--27466222 Score: 196
Period size: 30 Copynumber: 4.7 Consensus size: 30
27466071 ATAGTTGCCT
* *
27466081 ACACAAGTTGGCATTATAATTGAATTGCTC
1 ACACAAGCTGACATTATAATTGAATTGCTC
* *
27466111 ACACAAGCTGACATTATAA-TCAGATTGCTT
1 ACACAAGCTGACATTATAATTGA-ATTGCTC
* *
27466141 AAACAAGCTAACATTATAATTGAATTGCTC
1 ACACAAGCTGACATTATAATTGAATTGCTC
27466171 ACACAAGCTGACATTATAATTGAATTGCTC
1 ACACAAGCTGACATTATAATTGAATTGCTC
* *
27466201 AGACAAGCTGGCATTATAATTG
1 ACACAAGCTGACATTATAATTG
27466223 TGGTTCCTGT
Statistics
Matches: 98, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
29 2 0.02
30 94 0.96
31 2 0.02
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.30
Consensus pattern (30 bp):
ACACAAGCTGACATTATAATTGAATTGCTC
Found at i:27469869 original size:33 final size:34
Alignment explanation
Indices: 27469832--27469913 Score: 78
Period size: 33 Copynumber: 2.4 Consensus size: 34
27469822 AACGAACAAT
27469832 ACCATGGTTGGACTAAGGCAATGTTT-ACGTAAG
1 ACCATGGTTGGACTAAGGCAATGTTTAACGTAAG
* * * * *
27469865 ACCATAGTAAGG-CTATGGCAGTTTTTCAAACGTAAG
1 ACCATGGT-TGGACTAAGGCAATGTTT--AACGTAAG
27469901 ACCATGGTTGGAC
1 ACCATGGTTGGAC
27469914 CATGGCAGAG
Statistics
Matches: 37, Mismatches: 7, Indels: 7
0.73 0.14 0.14
Matches are distributed among these distances:
33 18 0.49
34 2 0.05
35 2 0.05
36 15 0.41
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (34 bp):
ACCATGGTTGGACTAAGGCAATGTTTAACGTAAG
Found at i:27472590 original size:20 final size:20
Alignment explanation
Indices: 27472548--27472596 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
27472538 ACCAAAAATC
27472548 CAAAGTATCAATACCCCTAT
1 CAAAGTATCAATACCCCTAT
* ** *
27472568 CAAGGTATCAATACCTTTCT
1 CAAAGTATCAATACCCCTAT
27472588 CAAAGTATC
1 CAAAGTATC
27472597 GGTACATTTG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.37, C:0.27, G:0.08, T:0.29
Consensus pattern (20 bp):
CAAAGTATCAATACCCCTAT
Found at i:27473853 original size:17 final size:17
Alignment explanation
Indices: 27473833--27473883 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
27473823 AATTTAATTC
27473833 ATTTATTTATTTTTCAT
1 ATTTATTTATTTTTCAT
*
27473850 ATTTATTTA-TTTTCTTT
1 ATTTATTTATTTTTC-AT
*
27473867 ATTTATTT-TTTATCAT
1 ATTTATTTATTTTTCAT
27473883 A
1 A
27473884 ATCTAGGATT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
16 7 0.24
17 22 0.76
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.71
Consensus pattern (17 bp):
ATTTATTTATTTTTCAT
Found at i:27473867 original size:13 final size:13
Alignment explanation
Indices: 27473851--27473875 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27473841 ATTTTTCATA
27473851 TTTATTTATTTTC
1 TTTATTTATTTTC
27473864 TTTATTTATTTT
1 TTTATTTATTTT
27473876 TTATCATAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTATTTATTTTC
Found at i:27474230 original size:6 final size:6
Alignment explanation
Indices: 27474205--27474246 Score: 50
Period size: 6 Copynumber: 6.8 Consensus size: 6
27474195 TATAGATACG
*
27474205 ATTTTT AATTTTT -TTATTT ATTTTT ATTTCT ATTTTT ATTTT
1 ATTTTT -ATTTTT ATT-TTT ATTTTT ATTTTT ATTTTT ATTTT
27474247 CTTTTTAGGT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
5 2 0.06
6 21 0.68
7 8 0.26
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (6 bp):
ATTTTT
Found at i:27474238 original size:12 final size:11
Alignment explanation
Indices: 27474215--27474253 Score: 53
Period size: 12 Copynumber: 3.5 Consensus size: 11
27474205 ATTTTTAATT
27474215 TTTTTA-TTTA
1 TTTTTATTTTA
27474225 TTTTTATTTCTA
1 TTTTTATTT-TA
*
27474237 TTTTTATTTTC
1 TTTTTATTTTA
27474248 TTTTTA
1 TTTTTA
27474254 GGTCGTTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
10 6 0.23
11 9 0.35
12 11 0.42
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:27488687 original size:23 final size:23
Alignment explanation
Indices: 27488661--27488715 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 23
27488651 AGTGCATTTT
27488661 TCACTTGCACCAAAGTGTCACTA
1 TCACTTGCACCAAAGTGTCACTA
* * * *
27488684 TCACTGGCACTATAGTGTCACTT
1 TCACTTGCACCAAAGTGTCACTA
27488707 TCACTTGCA
1 TCACTTGCA
27488716 TCGAAGTGCC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.25, C:0.29, G:0.15, T:0.31
Consensus pattern (23 bp):
TCACTTGCACCAAAGTGTCACTA
Found at i:27490568 original size:2 final size:2
Alignment explanation
Indices: 27490557--27490596 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
27490547 TAATTTTCAC
27490557 CT CT -T CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
27490597 CTATTTCTCA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:27493678 original size:15 final size:15
Alignment explanation
Indices: 27493642--27493678 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
27493632 CTCATTTGAA
*
27493642 GGAGTTAGAATTCTT
1 GGAGTTGGAATTCTT
27493657 GGAGTTGGAATTCTT
1 GGAGTTGGAATTCTT
27493672 GGAGTTG
1 GGAGTTG
27493679 CTAGCTTATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.22, C:0.05, G:0.35, T:0.38
Consensus pattern (15 bp):
GGAGTTGGAATTCTT
Found at i:27504983 original size:16 final size:16
Alignment explanation
Indices: 27504962--27504996 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
27504952 TCTTCATCTG
27504962 AAACCTAATTGAAACA
1 AAACCTAATTGAAACA
27504978 AAACCTAATTGAAACA
1 AAACCTAATTGAAACA
27504994 AAA
1 AAA
27504997 ATAACATATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.60, C:0.17, G:0.06, T:0.17
Consensus pattern (16 bp):
AAACCTAATTGAAACA
Found at i:27507431 original size:14 final size:15
Alignment explanation
Indices: 27507398--27507437 Score: 57
Period size: 14 Copynumber: 2.7 Consensus size: 15
27507388 AATTATCCTT
27507398 TTTTTTCTT-TTTCC
1 TTTTTTCTTCTTTCC
27507412 TATTTTTCTTCTTT-C
1 T-TTTTTCTTCTTTCC
27507427 TTTTTTCTTCT
1 TTTTTTCTTCT
27507438 CTATTATTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 11 0.46
15 10 0.42
16 3 0.12
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTTTCTTCTTTCC
Found at i:27515786 original size:98 final size:98
Alignment explanation
Indices: 27515657--27515852 Score: 320
Period size: 98 Copynumber: 2.0 Consensus size: 98
27515647 CAAAATAGAA
* *
27515657 GCAAGAGTGCATTTGACATATTAGACTTGTGTGACTCAATCCTGTTAGATCCAGCCTGAAAAGTT
1 GCAAGAGTGCATTTGACATATCAGACTTGTGTGACTCAATCCTGTTAGATCCAGCCTGAAAAGAT
* * *
27515722 CTATGTGCAGAAGTTGTATTCGTATAGGACTAT
66 CAATGTGCACAAGTTGTATTCGTATAGAACTAT
* * *
27515755 GCAAGAGTTCATTTGACATGTCAGACTTGTGTGACTCAATCCTGTTTGATCCAGCCTGAAAAGAT
1 GCAAGAGTGCATTTGACATATCAGACTTGTGTGACTCAATCCTGTTAGATCCAGCCTGAAAAGAT
27515820 CAATGTGCACAAGTTGTATTCGTATAGAACTAT
66 CAATGTGCACAAGTTGTATTCGTATAGAACTAT
27515853 ACTTCTTCTA
Statistics
Matches: 90, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
98 90 1.00
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.32
Consensus pattern (98 bp):
GCAAGAGTGCATTTGACATATCAGACTTGTGTGACTCAATCCTGTTAGATCCAGCCTGAAAAGAT
CAATGTGCACAAGTTGTATTCGTATAGAACTAT
Found at i:27518557 original size:16 final size:16
Alignment explanation
Indices: 27518536--27518590 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
27518526 AGAACTTTTA
27518536 AAAATTTAAAAAATTT
1 AAAATTTAAAAAATTT
* *
27518552 AAAATTAATAAAAATAT
1 AAAATTTA-AAAAATTT
*
27518569 -AGATTATAAAAAA-TT
1 AAAATT-TAAAAAATTT
27518584 AAAATTT
1 AAAATTT
27518591 TATTTGACTT
Statistics
Matches: 30, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
15 2 0.07
16 20 0.67
17 8 0.27
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.35
Consensus pattern (16 bp):
AAAATTTAAAAAATTT
Found at i:27524069 original size:21 final size:21
Alignment explanation
Indices: 27524036--27524075 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
27524026 CTATTTTTTT
*
27524036 AAAATCTTATTC-ATTTTTAA
1 AAAATATTATTCAATTTTTAA
27524056 AAAATATTATTTCAATTTTT
1 AAAATATTA-TTCAATTTTT
27524076 GACATAAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 3 0.18
22 6 0.35
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (21 bp):
AAAATATTATTCAATTTTTAA
Found at i:27524096 original size:24 final size:23
Alignment explanation
Indices: 27524064--27524118 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 23
27524054 AAAAAATATT
* *
27524064 ATTTCAATTT-TTGACATAAACTTA
1 ATTTTAATTTGTTGAAATAAA--TA
*
27524088 ATTTTAATTTGTTTAAATAAATA
1 ATTTTAATTTGTTGAAATAAATA
27524111 ATTTTAAT
1 ATTTTAAT
27524119 ACATATTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 10 0.37
24 9 0.33
25 8 0.30
ACGTcount: A:0.40, C:0.05, G:0.04, T:0.51
Consensus pattern (23 bp):
ATTTTAATTTGTTGAAATAAATA
Found at i:27527108 original size:17 final size:18
Alignment explanation
Indices: 27527069--27527107 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
27527059 AAGTAATATT
27527069 AAAATAAATGATGTTTAA
1 AAAATAAATGATGTTTAA
27527087 AAAATAAATGATGTTTAA
1 AAAATAAATGATGTTTAA
27527105 AAA
1 AAA
27527108 TTGCAGATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.59, C:0.00, G:0.10, T:0.31
Consensus pattern (18 bp):
AAAATAAATGATGTTTAA
Found at i:27537286 original size:19 final size:19
Alignment explanation
Indices: 27537262--27537301 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
27537252 ATTAATTTTG
27537262 ATCAAATAAAATTA-AATTA
1 ATCAAAT-AAATTATAATTA
*
27537281 ATCAAATTAATTATAATTA
1 ATCAAATAAATTATAATTA
27537300 AT
1 AT
27537302 ATGATATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (19 bp):
ATCAAATAAATTATAATTA
Found at i:27537891 original size:58 final size:63
Alignment explanation
Indices: 27537764--27537893 Score: 164
Period size: 58 Copynumber: 2.1 Consensus size: 63
27537754 TCTTGATAGT
* * *
27537764 ATTTATTAATTTAATATTAAAGTGATTAAATTTAATATTTATCTTGTAGATAAATATTATTTTA
1 ATTTAATAATTTAATATTAAAGT-ATTAAATCTAATATTTATCTTGTAGATAAATATTATATTA
*
27537828 ATTTAATAGATTTAATATTAAA-T-TT-AATCTAATATTTATC-T-T-GATAACTATTATATTA
1 ATTTAATA-ATTTAATATTAAAGTATTAAATCTAATATTTATCTTGTAGATAAATATTATATTA
27537886 ATTTAATA
1 ATTTAATA
27537894 TTAAAATGAT
Statistics
Matches: 61, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
58 22 0.36
59 1 0.02
60 1 0.02
61 14 0.23
62 2 0.03
64 8 0.13
65 13 0.21
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.51
Consensus pattern (63 bp):
ATTTAATAATTTAATATTAAAGTATTAAATCTAATATTTATCTTGTAGATAAATATTATATTA
Found at i:27537906 original size:58 final size:57
Alignment explanation
Indices: 27537710--27537914 Score: 170
Period size: 56 Copynumber: 3.6 Consensus size: 57
27537700 TCCAAAAATA
* ** * * *
27537710 ATATTATTTTAATAGTTTTAATATTAAATTTAATTTAAT-GCGTATCTTGAT-AGTATT
1 ATATTAATTTAATA-TTAAAATATTAAATTTAATATAATATC-TATCTTGATAAATATT
* * * *
27537767 -TATTAATTTAATATTAAAGTGATTAAATTTAATAT-TTATCT-TGTAGATAAATATT
1 ATATTAATTTAATATTAAAAT-ATTAAATTTAATATAATATCTATCTTGATAAATATT
* * * * *
27537822 ATTTTAATTTAATAGATT-TAATATTAAATTTAATCTAATATTTATCTTGATAACTATT
1 ATATTAATTTAAT--ATTAAAATATTAAATTTAATATAATATCTATCTTGATAAATATT
*
27537880 ATATTAATTTAATATTAAAATGATTAAGTTTAATA
1 ATATTAATTTAATATTAAAAT-ATTAAATTTAATA
27537915 ATAGTTGAAC
Statistics
Matches: 115, Mismatches: 23, Indels: 19
0.73 0.15 0.12
Matches are distributed among these distances:
54 5 0.04
55 11 0.10
56 53 0.46
57 9 0.08
58 37 0.32
ACGTcount: A:0.40, C:0.03, G:0.06, T:0.50
Consensus pattern (57 bp):
ATATTAATTTAATATTAAAATATTAAATTTAATATAATATCTATCTTGATAAATATT
Found at i:27540152 original size:47 final size:47
Alignment explanation
Indices: 27540098--27540191 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
27540088 AAAATTTCAA
27540098 GAGTTGTGATATTTTATTAATTGTTGCTGCAGTTGGGTAGAAGATTC
1 GAGTTGTGATATTTTATTAATTGTTGCTGCAGTTGGGTAGAAGATTC
*
27540145 GAGTTGTGATATTTTATTAATTGTTGCTGTAGTTGGGTAGAAGATTC
1 GAGTTGTGATATTTTATTAATTGTTGCTGCAGTTGGGTAGAAGATTC
27540192 TAGAGCACAC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.23, C:0.05, G:0.28, T:0.44
Consensus pattern (47 bp):
GAGTTGTGATATTTTATTAATTGTTGCTGCAGTTGGGTAGAAGATTC
Found at i:27540900 original size:19 final size:19
Alignment explanation
Indices: 27540858--27540900 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
27540848 TTTCAAAAAG
*
27540858 TATTATATTAATTTTAATT
1 TATTTTATTAATTTTAATT
*
27540877 AATTTTATTAA-TTTAATTT
1 TATTTTATTAATTTTAA-TT
27540896 TATTT
1 TATTT
27540901 GATCAAAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
TATTTTATTAATTTTAATT
Found at i:27546393 original size:72 final size:71
Alignment explanation
Indices: 27546310--27546452 Score: 268
Period size: 72 Copynumber: 2.0 Consensus size: 71
27546300 TTATATTTAA
27546310 ATTGCTGAATTATAATCTTGAGATTTCATTAAATTTATTTCATACGAGCTTACTAAGCTATAAAG
1 ATTGCTGAATTATAATCTTGAGATTTCATTAAATTTATTTCATACGAGCTTAC-AAGCTATAAAG
27546375 CTTACTT
65 CTTACTT
*
27546382 ATTGCTGAATTATAATCTTGAGATTTCATTAAGTTTATTTCATACGAGCTTACAAGCTATAAAGC
1 ATTGCTGAATTATAATCTTGAGATTTCATTAAATTTATTTCATACGAGCTTACAAGCTATAAAGC
27546447 TTACTT
66 TTACTT
27546453 TGTGTATTTC
Statistics
Matches: 70, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
71 18 0.26
72 52 0.74
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.41
Consensus pattern (71 bp):
ATTGCTGAATTATAATCTTGAGATTTCATTAAATTTATTTCATACGAGCTTACAAGCTATAAAGC
TTACTT
Found at i:27546729 original size:2 final size:2
Alignment explanation
Indices: 27546722--27546796 Score: 150
Period size: 2 Copynumber: 37.5 Consensus size: 2
27546712 ATTATGTATA
27546722 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
27546764 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
27546797 TTATGCCTTG
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 73 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:27553438 original size:69 final size:71
Alignment explanation
Indices: 27553354--27553489 Score: 195
Period size: 69 Copynumber: 1.9 Consensus size: 71
27553344 TCGAAAAAAT
* * * *
27553354 TAATCACTTTAATATTAAATTAATATAAT-AT-TTATCAAGACAAATATTAGATTTAATTTAATA
1 TAATCACTTTAATATTAAATTAATAAAATAATATTAACAAGACAAATATTAAATTAAATTTAATA
27553417 TTAAGA
66 TTAAGA
* * *
27553423 TAATCACTTTAATATTAAATTAATAAAATAATATTAAGAAGATAAGTATTAAATTAAATTTAATA
1 TAATCACTTTAATATTAAATTAATAAAATAATATTAACAAGACAAATATTAAATTAAATTTAATA
27553488 TT
66 TT
27553490 GAACTATTAA
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
69 28 0.48
70 2 0.03
71 28 0.48
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.41
Consensus pattern (71 bp):
TAATCACTTTAATATTAAATTAATAAAATAATATTAACAAGACAAATATTAAATTAAATTTAATA
TTAAGA
Found at i:27568606 original size:29 final size:29
Alignment explanation
Indices: 27568520--27568620 Score: 85
Period size: 29 Copynumber: 3.5 Consensus size: 29
27568510 ACACTTTCTG
** *
27568520 TTCTAATAATGCACTTCATTGCCACTCTG
1 TTCTAATAATGCACTTCGGTGCCACTCTA
* * * ****
27568549 TTATGATAAAGCACTTCGGTGTTGTTCTA
1 TTCTAATAATGCACTTCGGTGCCACTCTA
*
27568578 TTCTAATATTGCACTTCGGTGCCACTCTA
1 TTCTAATAATGCACTTCGGTGCCACTCTA
* *
27568607 TTCTATTACTGCAC
1 TTCTAATAATGCAC
27568621 CTAAGTGCAA
Statistics
Matches: 52, Mismatches: 20, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
29 52 1.00
ACGTcount: A:0.23, C:0.24, G:0.14, T:0.40
Consensus pattern (29 bp):
TTCTAATAATGCACTTCGGTGCCACTCTA
Found at i:27575143 original size:19 final size:19
Alignment explanation
Indices: 27575099--27575143 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
27575089 CTCGTTAATG
*
27575099 ATGTTTGATTAGTGGAACC
1 ATGTGTGATTAGTGGAACC
* *
27575118 ATATGTGATTAGTGGAATC
1 ATGTGTGATTAGTGGAACC
27575137 ATGTGTG
1 ATGTGTG
27575144 CATGAAAGAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.38
Consensus pattern (19 bp):
ATGTGTGATTAGTGGAACC
Found at i:27581645 original size:98 final size:98
Alignment explanation
Indices: 27581476--27581663 Score: 254
Period size: 98 Copynumber: 1.9 Consensus size: 98
27581466 TTAAGTAAAC
** *
27581476 TGTTTGAATGGAATTACGATCGTAAATTGATGAACTCAAAATAAGTTTTTCATGATCATAAATCA
1 TGTTTGAATGGAATTACGATCGTAAATCAACGAACTCAAAATAAGTTTTTCATGATCATAAATCA
* *
27581541 ATGAACTAAAGCTGTGATCGTAAATAAAAAAAT
66 ATGAACTAAAGCTGCGATAGTAAATAAAAAAAT
* * * **
27581574 TGTTTGAAT-GAAGTTACGTTCGTAAATCAACGAACTCTAAATGAGTTGTTT-ATGATTGTAAAT
1 TGTTTGAATGGAA-TTACGATCGTAAATCAACGAACTCAAAATAAGTT-TTTCATGATCATAAAT
27581637 CAATGAACTAAAGCTGCGATAGTAAAT
64 CAATGAACTAAAGCTGCGATAGTAAAT
27581664 CAACGAGCTT
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
97 3 0.04
98 72 0.92
99 3 0.04
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.32
Consensus pattern (98 bp):
TGTTTGAATGGAATTACGATCGTAAATCAACGAACTCAAAATAAGTTTTTCATGATCATAAATCA
ATGAACTAAAGCTGCGATAGTAAATAAAAAAAT
Found at i:27585730 original size:5 final size:5
Alignment explanation
Indices: 27585720--27585752 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
27585710 ATTCATTGGG
*
27585720 CCCGA CCCGA CCCGA CCCGA CCCGG CCCG- CCCG
1 CCCGA CCCGA CCCGA CCCGA CCCGA CCCGA CCCG
27585753 TATTTATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.12, C:0.64, G:0.24, T:0.00
Consensus pattern (5 bp):
CCCGA
Found at i:27585942 original size:30 final size:30
Alignment explanation
Indices: 27585908--27585967 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
27585898 ACTTAACAAG
*
27585908 CAAATACCTCTAAAATAATAATAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
** *
27585938 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
27585968 TAATAAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.58, C:0.12, G:0.02, T:0.28
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:27596670 original size:51 final size:51
Alignment explanation
Indices: 27596613--27596718 Score: 169
Period size: 51 Copynumber: 2.1 Consensus size: 51
27596603 GCCTTCAAAG
* *
27596613 TTTACATGTTCTATCAATTTGGTATTGATTTAATAAATTTATC-CAACAATA
1 TTTACATATTCTATCAATTTGGTATTGATTTAATAAATTTAGCTC-ACAATA
*
27596664 TTTACATATTCTATCAATTTGGTCTTGATTTAATAAATTTAGCTCACAATA
1 TTTACATATTCTATCAATTTGGTATTGATTTAATAAATTTAGCTCACAATA
27596715 TTTA
1 TTTA
27596719 TACTTTTTGT
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
51 50 0.98
52 1 0.02
ACGTcount: A:0.34, C:0.12, G:0.08, T:0.46
Consensus pattern (51 bp):
TTTACATATTCTATCAATTTGGTATTGATTTAATAAATTTAGCTCACAATA
Found at i:27602909 original size:6 final size:6
Alignment explanation
Indices: 27602900--27602928 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
27602890 TATAAATTTA
27602900 AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
27602929 ACCTTCATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:27618694 original size:20 final size:20
Alignment explanation
Indices: 27618669--27618716 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
27618659 GCTTGTATGG
27618669 GATTGCACTTCGGTGCCTT-T
1 GATTGCACTTCGGTG-CTTCT
*
27618689 GATTGCACTTTGGTGCTTCT
1 GATTGCACTTCGGTGCTTCT
27618709 GATTGCAC
1 GATTGCAC
27618717 ATTTGTGCCT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 3 0.12
20 23 0.88
ACGTcount: A:0.12, C:0.23, G:0.25, T:0.40
Consensus pattern (20 bp):
GATTGCACTTCGGTGCTTCT
Found at i:27624443 original size:17 final size:17
Alignment explanation
Indices: 27624421--27624454 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
27624411 GAAAGTGTAA
27624421 ATAATTGTAAGCTACAG
1 ATAATTGTAAGCTACAG
27624438 ATAATTGTAAGCTACAG
1 ATAATTGTAAGCTACAG
27624455 TGATAACTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (17 bp):
ATAATTGTAAGCTACAG
Found at i:27625256 original size:45 final size:44
Alignment explanation
Indices: 27625187--27625383 Score: 145
Period size: 45 Copynumber: 4.4 Consensus size: 44
27625177 TTGTCGTAAA
27625187 TCATATTCGTATAAT-TTTTGTTTAGCATATGAAGAAATATTTTT
1 TCATATTCGTATAATATTTT-TTTAGCATATGAAGAAATATTTTT
* *
27625231 TCCATATTTGTATAATATTTTTTTAGCAGT-TGATGAAA-ATTTTT
1 T-CATATTCGTATAATATTTTTTTAGCA-TATGAAGAAATATTTTT
* * * * * * * *
27625275 TTAGTATTTGCAAAATATTTGTTTAGCGTCTTAAGAAATATCTTGTT
1 TCA-TATTCGTATAATATTTTTTTAGCATATGAAGAAATAT-TT-TT
* * *
27625322 TC-TATTCGTATAA-ATTTTTTTTATCA-ATTGATGAAATATTGTT
1 TCATATTCGTATAATA-TTTTTTTAGCATA-TGAAGAAATATTTTT
*
27625365 TCAATATTGGTATAATATT
1 TC-ATATTCGTATAATATT
27625384 CGTATAAAAT
Statistics
Matches: 119, Mismatches: 21, Indels: 25
0.72 0.13 0.15
Matches are distributed among these distances:
43 6 0.05
44 36 0.30
45 66 0.55
46 8 0.07
47 3 0.03
ACGTcount: A:0.31, C:0.07, G:0.12, T:0.50
Consensus pattern (44 bp):
TCATATTCGTATAATATTTTTTTAGCATATGAAGAAATATTTTT
Found at i:27625294 original size:22 final size:21
Alignment explanation
Indices: 27625221--27625300 Score: 56
Period size: 22 Copynumber: 3.7 Consensus size: 21
27625211 GCATATGAAG
*
27625221 AAATATTTTTTCCA-TATTTGTA
1 AAATATTTTTT-TAGTATTTG-A
* * *
27625243 TAATATTTTTTTAGCAGTTGA
1 AAATATTTTTTTAGTATTTGA
27625264 TGAAA-ATTTTTTTAGTATTTGCA
1 --AAATATTTTTTTAGTATTTG-A
*
27625287 AAATATTTGTTTAG
1 AAATATTTTTTTAG
27625301 CGTCTTAAGA
Statistics
Matches: 45, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
21 5 0.11
22 37 0.82
23 3 0.07
ACGTcount: A:0.31, C:0.05, G:0.11, T:0.53
Consensus pattern (21 bp):
AAATATTTTTTTAGTATTTGA
Found at i:27625455 original size:44 final size:44
Alignment explanation
Indices: 27625406--27625497 Score: 114
Period size: 44 Copynumber: 2.1 Consensus size: 44
27625396 GTCTAGCATG
*
27625406 TTAAGAAAAAAAATTTTATACTTGTATA-ATACTTGTTTACCATA
1 TTAAGAAAAAAAATTTTATACTCGTA-AGATACTTGTTTACCATA
* * * * *
27625450 TTAAGAAATAAATTTTTTTACTCGTAAGATATTTGTTTACCATG
1 TTAAGAAAAAAAATTTTATACTCGTAAGATACTTGTTTACCATA
27625494 TTAA
1 TTAA
27625498 AGAATATTTG
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
43 1 0.02
44 40 0.98
ACGTcount: A:0.39, C:0.09, G:0.09, T:0.43
Consensus pattern (44 bp):
TTAAGAAAAAAAATTTTATACTCGTAAGATACTTGTTTACCATA
Found at i:27625525 original size:20 final size:20
Alignment explanation
Indices: 27625500--27625573 Score: 80
Period size: 20 Copynumber: 3.5 Consensus size: 20
27625490 CATGTTAAAG
27625500 AATATTTGTTTTACTCATAT
1 AATATTTGTTTTACTCATAT
27625520 AATATTTG-TTTA-TCATATT
1 AATATTTGTTTTACTCATA-T
27625539 AAGGAATATTTGTTTTACTCATAT
1 ----AATATTTGTTTTACTCATAT
*
27625563 AACATTTGTTT
1 AATATTTGTTT
27625574 ACCATTTTTC
Statistics
Matches: 46, Mismatches: 1, Indels: 14
0.75 0.02 0.23
Matches are distributed among these distances:
18 5 0.11
19 5 0.11
20 18 0.39
23 8 0.17
24 5 0.11
25 5 0.11
ACGTcount: A:0.31, C:0.08, G:0.08, T:0.53
Consensus pattern (20 bp):
AATATTTGTTTTACTCATAT
Found at i:27625525 original size:43 final size:43
Alignment explanation
Indices: 27625430--27625578 Score: 187
Period size: 43 Copynumber: 3.4 Consensus size: 43
27625420 TTTATACTTG
* *
27625430 TATAATACTTGTTTACCATATT-AAGAAATAAATTT-TTTTACTCG
1 TATAATATTTGTTTACCATATTAAAG-AAT--ATTTGTTTTACTCA
*
27625474 TA-AGATATTTGTTTACCATGTTAAAGAATATTTGTTTTACTCA
1 TATA-ATATTTGTTTACCATATTAAAGAATATTTGTTTTACTCA
* *
27625517 TATAATATTTGTTTATCATATTAAGGAATATTTGTTTTACTCA
1 TATAATATTTGTTTACCATATTAAAGAATATTTGTTTTACTCA
*
27625560 TATAACATTTGTTTACCAT
1 TATAATATTTGTTTACCAT
27625579 TTTTCAAAAT
Statistics
Matches: 93, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
42 4 0.04
43 64 0.69
44 22 0.24
45 3 0.03
ACGTcount: A:0.34, C:0.10, G:0.09, T:0.48
Consensus pattern (43 bp):
TATAATATTTGTTTACCATATTAAAGAATATTTGTTTTACTCA
Found at i:27625550 original size:23 final size:24
Alignment explanation
Indices: 27625474--27625562 Score: 88
Period size: 23 Copynumber: 4.0 Consensus size: 24
27625464 TTTTTACTCG
*
27625474 TAAG-ATATTTG-TTTAC-CATGT
1 TAAGAATATTTGTTTTACTCATAT
27625495 TAAAGAATATTTGTTTTACTCATA-
1 T-AAGAATATTTGTTTTACTCATAT
27625519 T---AATATTTG-TTTA-TCATAT
1 TAAGAATATTTGTTTTACTCATAT
27625538 TAAGGAATATTTGTTTTACTCATAT
1 TAA-GAATATTTGTTTTACTCATAT
27625563 AACATTTGTT
Statistics
Matches: 56, Mismatches: 1, Indels: 18
0.75 0.01 0.24
Matches are distributed among these distances:
18 5 0.09
19 5 0.09
20 8 0.14
21 1 0.02
22 3 0.05
23 15 0.27
24 10 0.18
25 9 0.16
ACGTcount: A:0.33, C:0.08, G:0.10, T:0.49
Consensus pattern (24 bp):
TAAGAATATTTGTTTTACTCATAT
Found at i:27625610 original size:21 final size:23
Alignment explanation
Indices: 27625577--27625618 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
27625567 TTTGTTTACC
27625577 ATTTTTCAAAATA-TTATTTAAT
1 ATTTTTCAAAATATTTATTTAAT
*
27625599 ATTTTT-ATAATATTTATTTA
1 ATTTTTCAAAATATTTATTTA
27625619 GCATCAGAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (23 bp):
ATTTTTCAAAATATTTATTTAAT
Found at i:27627223 original size:37 final size:38
Alignment explanation
Indices: 27627136--27627224 Score: 108
Period size: 38 Copynumber: 2.4 Consensus size: 38
27627126 AACAGTAGAT
* * *
27627136 ATGCCTAACATGTATTCAGTTCAACACTAGCAGTGGAC
1 ATGCATAACATGTATTCAATTCAACACTAGCAATGGAC
* * * *
27627174 ATGCTTAACATGTATTCAATTCAACATTGGCAAT-GTC
1 ATGCATAACATGTATTCAATTCAACACTAGCAATGGAC
27627211 ATGCATAACATGTA
1 ATGCATAACATGTA
27627225 CTCAGTAGGG
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
37 15 0.34
38 29 0.66
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (38 bp):
ATGCATAACATGTATTCAATTCAACACTAGCAATGGAC
Found at i:27629757 original size:13 final size:13
Alignment explanation
Indices: 27629735--27629767 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
27629725 AAGGATTTGT
27629735 TTAT-TAAACTAA
1 TTATCTAAACTAA
27629747 TTATCTAAACTAA
1 TTATCTAAACTAA
*
27629760 TTAACTAA
1 TTATCTAA
27629768 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:27632690 original size:6 final size:5
Alignment explanation
Indices: 27632660--27632760 Score: 82
Period size: 6 Copynumber: 19.0 Consensus size: 5
27632650 ATATGTCTTT
*
27632660 TAAAA TAAAA T--AA TAAAA TTGAAA TGAAAA TGAAAA TAAAAA TCAAAA
1 TAAAA TAAAA TAAAA TAAAA -TAAAA T-AAAA T-AAAA T-AAAA T-AAAA
*
27632708 GAAAAA TAAAAA TAAAA TAAAA TAAAA TAAAA TAAAAA TAAGAA T-AAA
1 -TAAAA T-AAAA TAAAA TAAAA TAAAA TAAAA T-AAAA TAA-AA TAAAA
27632756 TAAAA
1 TAAAA
27632761 AATAGGAGGA
Statistics
Matches: 81, Mismatches: 6, Indels: 18
0.77 0.06 0.17
Matches are distributed among these distances:
3 3 0.04
4 3 0.04
5 35 0.43
6 40 0.49
ACGTcount: A:0.75, C:0.01, G:0.05, T:0.19
Consensus pattern (5 bp):
TAAAA
Found at i:27634816 original size:22 final size:23
Alignment explanation
Indices: 27634788--27634830 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
27634778 TTGTCACTGG
27634788 CACGCCCGTGGTTTT-CTATCCC
1 CACGCCCGTGGTTTTCCTATCCC
*
27634810 CACGCCCGTGTTTTTCCTATC
1 CACGCCCGTGGTTTTCCTATC
27634831 AAGTTCACCC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.09, C:0.40, G:0.16, T:0.35
Consensus pattern (23 bp):
CACGCCCGTGGTTTTCCTATCCC
Found at i:27638986 original size:13 final size:13
Alignment explanation
Indices: 27638968--27638993 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
27638958 GCTCCGCAGG
27638968 GACACGCCCGTGT
1 GACACGCCCGTGT
27638981 GACACGCCCGTGT
1 GACACGCCCGTGT
27638994 TCTATTACTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.38, G:0.31, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:27647305 original size:18 final size:18
Alignment explanation
Indices: 27647269--27647305 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
27647259 TATTTTAAGG
* *
27647269 TTAGGGTTTAAGGTTTTT
1 TTAGGGTTTAAGATATTT
27647287 TTAGGGTTTAAGATATTT
1 TTAGGGTTTAAGATATTT
27647305 T
1 T
27647306 GAAAGTGTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.00, G:0.24, T:0.54
Consensus pattern (18 bp):
TTAGGGTTTAAGATATTT
Found at i:27648713 original size:26 final size:26
Alignment explanation
Indices: 27648677--27648786 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
27648667 TGATACAAAT
27648677 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
27648703 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
27648729 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* * *
27648755 TGATAGTGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
27648781 TGATAA
1 TGATAA
27648787 GAATTTCATG
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:27650421 original size:27 final size:27
Alignment explanation
Indices: 27650380--27650519 Score: 174
Period size: 27 Copynumber: 5.2 Consensus size: 27
27650370 GAGGAAGCGT
*
27650380 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
27650407 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
27650434 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* * *
27650461 TCTGGTGGCTTTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
27650489 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
27650515 TCTGG
1 TCTGG
27650520 CAGCCATGCT
Statistics
Matches: 100, Mismatches: 12, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
26 5 0.05
27 81 0.81
28 14 0.14
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:27650465 original size:54 final size:55
Alignment explanation
Indices: 27650380--27650519 Score: 194
Period size: 54 Copynumber: 2.6 Consensus size: 55
27650370 GAGGAAGCGT
* * *
27650380 TCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* * *
27650434 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTTTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* *
27650489 TCTGGTGACTCTGTCACAT-TATCTGTTCTGG
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGG
27650520 CAGCCATGCT
Statistics
Matches: 77, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
54 59 0.77
55 18 0.23
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.36
Consensus pattern (55 bp):
TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
Found at i:27650605 original size:19 final size:22
Alignment explanation
Indices: 27650581--27650620 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
27650571 CTCTCCACAC
27650581 GGTGTA-A-GGTTGG-TATGGG
1 GGTGTATACGGTTGGATATGGG
27650600 GGTGTATACGGTTGGATATGG
1 GGTGTATACGGTTGGATATGG
27650621 TTGGGTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.17, C:0.03, G:0.47, T:0.33
Consensus pattern (22 bp):
GGTGTATACGGTTGGATATGGG
Found at i:27655179 original size:19 final size:19
Alignment explanation
Indices: 27655148--27655193 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
27655138 AACGACATAG
*
27655148 TTGAGAGACTTGAGAGGGT
1 TTGAGAGACTTGAGAGAGT
* *
27655167 TTGTGAGAGTTGAGAGAGT
1 TTGAGAGACTTGAGAGAGT
27655186 TTGAGAGA
1 TTGAGAGA
27655194 AGGATGTGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.28, C:0.02, G:0.41, T:0.28
Consensus pattern (19 bp):
TTGAGAGACTTGAGAGAGT
Found at i:27655185 original size:9 final size:9
Alignment explanation
Indices: 27655146--27655193 Score: 51
Period size: 9 Copynumber: 5.1 Consensus size: 9
27655136 AAAACGACAT
27655146 AGTTGAGAG
1 AGTTGAGAG
*
27655155 ACTTGAGAG
1 AGTTGAGAG
* *
27655164 GGTTTGTGAG
1 AG-TTGAGAG
27655174 AGTTGAGAG
1 AGTTGAGAG
27655183 AGTTTGAGAG
1 AG-TTGAGAG
27655193 A
1 A
27655194 AGGATGTGAA
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
9 16 0.52
10 15 0.48
ACGTcount: A:0.29, C:0.02, G:0.42, T:0.27
Consensus pattern (9 bp):
AGTTGAGAG
Found at i:27663257 original size:21 final size:21
Alignment explanation
Indices: 27663233--27663277 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
27663223 ATTAAACCCC
27663233 AAACCCCAAA-TCATAGACCAT
1 AAACCCCAAATTC-TAGACCAT
*
27663254 AAACCCTAAATTCTAGACCAT
1 AAACCCCAAATTCTAGACCAT
27663275 AAA
1 AAA
27663278 TTTACACCCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.49, C:0.29, G:0.04, T:0.18
Consensus pattern (21 bp):
AAACCCCAAATTCTAGACCAT
Found at i:27665681 original size:87 final size:84
Alignment explanation
Indices: 27665511--27665884 Score: 447
Period size: 87 Copynumber: 4.4 Consensus size: 84
27665501 TCTGCAATAC
*
27665511 TTTAACCTGTTACCCTACTGCTTAGGGGGTTAAGGCGCA-TCTTCGATCTGCTCCACTACTGCTT
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCG-AGTCTTCGATCTGCTCCACTACTGCTT
*
27665575 AGGGAGATAAGATCCGTAAT
65 AGGGAGATAAGATCTGTAAT
* * * * * * *
27665595 TTTGACCTGTTACCCTACTGTTTAGGGGTTTAAGGTGAGTCGTCGTTGATCTGTTCCGCTACTGC
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTC-T--TCGATCTGCTCCACTACTGC
*
27665660 TTAGGCAGATAAGATCTGTAAT
63 TTAGGGAGATAAGATCTGTAAT
* * * *
27665682 TTTAACCTGTTACCCTACTGCTTAGGGGGTTAAGGCTAGTCGTCGTCGATCTGTTCCGCTACTGC
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTC-T--TCGATCTGCTCCACTACTGC
*
27665747 TTAAGGAGATAAGATCTG----
63 TTAGGGAGATAAGATCTGTAAT
* * *
27665765 -TGAACCTGTTA-CCTCACTGCTTAGAGGATTAAGGCGAGTCTTCGATCTACTCCACTACTGCTT
1 TTTAACCTGTTACCCT-ACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTT
* *
27665828 AGGGAGATAAGATCTGCAAA
65 AGGGAGATAAGATCTGTAAT
27665848 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCG
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCG
27665885 CTGAATTTTG
Statistics
Matches: 252, Mismatches: 27, Indels: 22
0.84 0.09 0.07
Matches are distributed among these distances:
79 34 0.13
81 4 0.02
82 32 0.13
83 1 0.00
84 65 0.26
85 4 0.02
87 112 0.44
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.32
Consensus pattern (84 bp):
TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTA
GGGAGATAAGATCTGTAAT
Found at i:27665701 original size:43 final size:42
Alignment explanation
Indices: 27665566--27665707 Score: 124
Period size: 43 Copynumber: 3.3 Consensus size: 42
27665556 ATCTGCTCCA
*
27665566 CTACTGCTTAGGGAGATAAGATCCGTAATTTTGACCTGTTACC
1 CTACTGCTTA-GGAGATAAGATCAGTAATTTTGACCTGTTACC
* * * * * ** * *
27665609 CTACTGTTTAGGGGTTTAAGGTGAGTCGTCGTTGATCTGTT-CC
1 CTACTGCTTAGGAG-ATAAGATCAGTAAT-TTTGACCTGTTACC
* *
27665652 GCTACTGCTTAGGCAGATAAGATCTGTAATTTTAACCTGTTACC
1 -CTACTGCTTAGG-AGATAAGATCAGTAATTTTGACCTGTTACC
27665696 CTACTGCTTAGG
1 CTACTGCTTAGG
27665708 GGGTTAAGGC
Statistics
Matches: 73, Mismatches: 21, Indels: 10
0.70 0.20 0.10
Matches are distributed among these distances:
42 3 0.04
43 39 0.53
44 30 0.41
45 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.35
Consensus pattern (42 bp):
CTACTGCTTAGGAGATAAGATCAGTAATTTTGACCTGTTACC
Found at i:27665746 original size:44 final size:44
Alignment explanation
Indices: 27665517--27665749 Score: 121
Period size: 43 Copynumber: 5.4 Consensus size: 44
27665507 ATACTTTAAC
*
27665517 CTGTTACCCTACTGCTTAGGGGGTTAAGGC--G-CATC-TTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCTAGTCGTCGTT-GAT
* * * * * ** * *
27665558 CTGCT-CCACTACTGCTTAGGGAGATAA-GATCCGTAAT-TTTGAC
1 CTGTTACC-CTACTGCTTAGGGGGTTAAGGCT-AGTCGTCGTTGAT
* *
27665601 CTGTTACCCTACTGTTTAGGGGTTTAAGG-TGAGTCGTCGTTGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCT-AGTCGTCGTTGAT
** * * ** * * *
27665645 CTGTT-CCGCTACTGCTTAGGCAGATAAGATCT-GTAAT-TTTAAC
1 CTGTTACC-CTACTGCTTAGGGGGTTAAG-GCTAGTCGTCGTTGAT
*
27665688 CTGTTACCCTACTGCTTAGGGGGTTAAGGCTAGTCGTCGTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCTAGTCGTCGTTGAT
27665732 CTGTT-CCGCTACTGCTTA
1 CTGTTACC-CTACTGCTTA
27665750 AGGAGATAAG
Statistics
Matches: 138, Mismatches: 38, Indels: 29
0.67 0.19 0.14
Matches are distributed among these distances:
40 3 0.02
41 21 0.15
42 2 0.01
43 58 0.42
44 53 0.38
46 1 0.01
ACGTcount: A:0.19, C:0.22, G:0.24, T:0.34
Consensus pattern (44 bp):
CTGTTACCCTACTGCTTAGGGGGTTAAGGCTAGTCGTCGTTGAT
Found at i:27665859 original size:166 final size:166
Alignment explanation
Indices: 27665498--27665885 Score: 478
Period size: 166 Copynumber: 2.3 Consensus size: 166
27665488 TCTGAAGGCC
*
27665498 AGATCTGCAATACTTTAACCTGTTACCCTACTGCTTAGGGGGTTAAGGCGCATCTTCGATCTGCT
1 AGATCTGCAA-A-TTTAACCTGTTACCCTACTGCTTAGGGGGTTAAGGCGCATCGTCGATCTGCT
* * * *
27665563 CCACTACTGCTTAGGGAGATAAGATCCGTAATTTTGACCTGTTACCCTACTGTTTAGGGGTTTAA
64 CCACTACTGCTTAAGGAGATAAGATCCGTAA---T-ACCTGTTACCCTACTGCTTAGAGGATTAA
* * ** *
27665628 GGTGAGTCGTCGTTGATCTGTTCCGCTACTGCTTAGGCAGATA
125 GGCGAGTCGTC-TCGATCTACTCCACTACTGCTTAGGCAGATA
* * * *
27665671 AGATCTGTAATTTTAACCTGTTACCCTACTGCTTAGGGGGTTAAGGCTAGTCGTCGTCGATCTGT
1 AGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGGTTAAGGC--G-CATCGTCGATCTGC
* * *
27665736 TCCGCTACTGCTTAAGGAGATAAGATCTGTGA-ACCTGTTA-CCTCACTGCTTAGAGGATTAAGG
63 TCCACTACTGCTTAAGGAGATAAGATCCGTAATACCTGTTACCCT-ACTGCTTAGAGGATTAAGG
*
27665799 CGAGTC-T-TCGATCTACTCCACTACTGCTTAGGGAGATA
127 CGAGTCGTCTCGATCTACTCCACTACTGCTTAGGCAGATA
*
27665837 AGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGC
1 AGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGGTTAAGGCGC
27665886 TGAATTTTGT
Statistics
Matches: 190, Mismatches: 21, Indels: 18
0.83 0.09 0.08
Matches are distributed among these distances:
163 1 0.01
164 1 0.01
166 70 0.37
168 4 0.02
169 29 0.15
171 36 0.19
173 10 0.05
174 39 0.21
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (166 bp):
AGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGGTTAAGGCGCATCGTCGATCTGCTCC
ACTACTGCTTAAGGAGATAAGATCCGTAATACCTGTTACCCTACTGCTTAGAGGATTAAGGCGAG
TCGTCTCGATCTACTCCACTACTGCTTAGGCAGATA
Found at i:27666836 original size:25 final size:23
Alignment explanation
Indices: 27666814--27666916 Score: 111
Period size: 24 Copynumber: 4.3 Consensus size: 23
27666804 GGCCTCTCCA
27666814 TTTTTCTTTTTTTCTTTTTTCTC
1 TTTTTCTTTTTTTCTTTTTTCTC
27666837 TTTTTTCTCTTTTTTCTTTTTTCTCTC
1 -TTTTTCT-TTTTTTC-TTTTT-TCTC
*
27666864 TTTTTCTTTTCTTT-TTCTTT-TC
1 TTTTTCTTTT-TTTCTTTTTTCTC
* *
27666886 TTTTTCTTTTCTTCTTTTTTTTTC
1 TTTTTCTTTTTTTC-TTTTTTCTC
27666910 TTTTTCT
1 TTTTTCT
27666917 GAAATAGAAG
Statistics
Matches: 69, Mismatches: 3, Indels: 14
0.80 0.03 0.16
Matches are distributed among these distances:
21 2 0.03
22 12 0.17
23 6 0.09
24 20 0.29
25 10 0.14
26 15 0.22
27 4 0.06
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (23 bp):
TTTTTCTTTTTTTCTTTTTTCTC
Found at i:27666840 original size:16 final size:16
Alignment explanation
Indices: 27666814--27666905 Score: 95
Period size: 17 Copynumber: 5.8 Consensus size: 16
27666804 GGCCTCTCCA
27666814 TTTTTCTTTTTT-TCTT
1 TTTTTCTTTTTTCTC-T
27666830 TTTTCTCTTTTTTCTCT
1 TTTT-TCTTTTTTCTCT
27666847 TTTTTCTTTTTTCTCT
1 TTTTTCTTTTTTCTCT
27666863 CTTTTTCTTTTCTT-T-T
1 -TTTTTCTTTT-TTCTCT
27666879 TCTTTTC-TTTTTCT-T
1 T-TTTTCTTTTTTCTCT
*
27666894 TTCTTCTTTTTT
1 TTTTTCTTTTTT
27666906 TTTCTTTTTC
Statistics
Matches: 68, Mismatches: 1, Indels: 15
0.81 0.01 0.18
Matches are distributed among these distances:
14 6 0.09
15 12 0.18
16 22 0.32
17 24 0.35
18 4 0.06
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTTCTTTTTTCTCT
Found at i:27666840 original size:17 final size:17
Alignment explanation
Indices: 27666814--27666914 Score: 98
Period size: 19 Copynumber: 5.6 Consensus size: 17
27666804 GGCCTCTCCA
27666814 TTTTTCTTTTTT-TCTT
1 TTTTTCTTTTTTCTCTT
27666830 TTTTCTCTTTTTTCTC-T
1 TTTT-TCTTTTTTCTCTT
27666847 TTTTTCTTTTTTCTCTCTT
1 TTTTTC-TTTTT-TCTCTT
* *
27666866 TTTCTTTTCTTTTTCTTTT
1 TTT-TTCT-TTTTTCTCTT
*
27666885 CTTTTTCTTTTCTTCTTTT
1 -TTTTTCTTTT-TTCTCTT
27666904 TTTTTCTTTTT
1 TTTTTCTTTTT
27666915 CTGAAATAGA
Statistics
Matches: 73, Mismatches: 3, Indels: 17
0.78 0.03 0.18
Matches are distributed among these distances:
16 6 0.08
17 19 0.26
18 19 0.26
19 20 0.27
20 9 0.12
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTTCTTTTTTCTCTT
Found at i:27666851 original size:11 final size:10
Alignment explanation
Indices: 27666820--27666914 Score: 79
Period size: 10 Copynumber: 9.3 Consensus size: 10
27666810 TCCATTTTTC
27666820 TTTTTTTC-T
1 TTTTTTTCTT
*
27666829 TTTTTCTCTT
1 TTTTTTTCTT
*
27666839 TTTTCTCTTTTT
1 TTTT-T-TTCTT
*
27666851 TCTTTTTTCTC
1 T-TTTTTTCTT
*
27666862 TCTTTTTCTT
1 TTTTTTTCTT
27666872 TTCTTTTTCTT
1 TT-TTTTTCTT
27666883 TTCTTTTTC--
1 TT-TTTTTCTT
*
27666892 TTTTCTTCTT
1 TTTTTTTCTT
27666902 TTTTTTTCTT
1 TTTTTTTCTT
27666912 TTT
1 TTT
27666915 CTGAAATAGA
Statistics
Matches: 69, Mismatches: 10, Indels: 13
0.75 0.11 0.14
Matches are distributed among these distances:
8 5 0.07
9 9 0.13
10 25 0.36
11 22 0.32
12 5 0.07
13 3 0.04
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:27666906 original size:16 final size:15
Alignment explanation
Indices: 27666814--27666916 Score: 102
Period size: 16 Copynumber: 6.5 Consensus size: 15
27666804 GGCCTCTCCA
27666814 TTTTTCTTTTTTTCTT
1 TTTTTC-TTTTTTCTT
27666830 TTTTCTCTTTTTTCTCT
1 TTTT-TCTTTTTTCT-T
27666847 TTTTTCTTTTTTCTCT
1 TTTTTCTTTTTTCT-T
27666863 CTTTTTCTTTTCTT-TT
1 -TTTTTCTTTT-TTCTT
27666879 TCTTTTC-TTTTTCTT
1 T-TTTTCTTTTTTCTT
* *
27666894 TTCTTCTTTTTTTTT
1 TTTTTCTTTTTTCTT
27666909 CTTTTTCT
1 -TTTTTCT
27666917 GAAATAGAAG
Statistics
Matches: 76, Mismatches: 3, Indels: 16
0.80 0.03 0.17
Matches are distributed among these distances:
14 6 0.08
15 14 0.18
16 36 0.47
17 18 0.24
18 2 0.03
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTTCTTTTTTCTT
Found at i:27672444 original size:35 final size:35
Alignment explanation
Indices: 27672389--27672632 Score: 470
Period size: 35 Copynumber: 6.9 Consensus size: 35
27672379 TCATATCTTT
27672389 TAAGATTGTATATCATATCTAAGATTGCAATCATATC
1 TAAGATTG--TATCATATCTAAGATTGCAATCATATC
27672426 TAAGATTGTATCATATCTAAGATTGCAATCATATC
1 TAAGATTGTATCATATCTAAGATTGCAATCATATC
27672461 TAAGATTGTATCATATCTAAGATTGCAATCATATC
1 TAAGATTGTATCATATCTAAGATTGCAATCATATC
27672496 TAAGATTGTATCATATCTAAGATTGCAATCATATC
1 TAAGATTGTATCATATCTAAGATTGCAATCATATC
27672531 TAAGATTGTATCATATCTAAGATTGCAATCATATC
1 TAAGATTGTATCATATCTAAGATTGCAATCATATC
27672566 TAAGATTGTATCATATCTAAGATTGCAATCATATC
1 TAAGATTGTATCATATCTAAGATTGCAATCATATC
27672601 TAAGATTGTATCATATCTAAGATTGCAATCAT
1 TAAGATTGTATCATATCTAAGATTGCAATCAT
27672633 CGTTTTTTTT
Statistics
Matches: 207, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
35 199 0.96
37 8 0.04
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.37
Consensus pattern (35 bp):
TAAGATTGTATCATATCTAAGATTGCAATCATATC
Found at i:27672804 original size:21 final size:21
Alignment explanation
Indices: 27672763--27672814 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
27672753 TATAAAACAA
* *
27672763 TAAACCCCAAACCCCAGACTC
1 TAAACCCTAAACCCCAAACTC
*
27672784 TAAACCCTAAACCCTAAACTC
1 TAAACCCTAAACCCCAAACTC
* *
27672805 AAAACTCTAA
1 TAAACCCTAA
27672815 TCACAATATA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.44, C:0.38, G:0.02, T:0.15
Consensus pattern (21 bp):
TAAACCCTAAACCCCAAACTC
Found at i:27672886 original size:14 final size:14
Alignment explanation
Indices: 27672869--27672900 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
27672859 CCATAGACAT
*
27672869 TAAACCTTAAATCA
1 TAAACCCTAAATCA
27672883 TAAACCCTAAATCA
1 TAAACCCTAAATCA
27672897 TAAA
1 TAAA
27672901 ATAAATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.53, C:0.22, G:0.00, T:0.25
Consensus pattern (14 bp):
TAAACCCTAAATCA
Found at i:27673060 original size:40 final size:40
Alignment explanation
Indices: 27672980--27673205 Score: 175
Period size: 40 Copynumber: 5.4 Consensus size: 40
27672970 TGGTCAACTT
* * * **
27672980 TTTTGCGGCGTTTTCTGAAAAGCGTCGCTAATGCAAGATC
1 TTTTGCGGCGTTTTTTAAAAAGCGCCGCTAATGCTCGATC
*
27673020 TTTTGCGGCGTTTTTTAAAAAGCGCCGCTAATTCTCGATC
1 TTTTGCGGCGTTTTTTAAAAAGCGCCGCTAATGCTCGATC
* * * * * *
27673060 TATTGCTGCGTTTTTCAAAAAGAGCCG-TAATACCGTCGTTTTGCTAAAC
1 TTTTGCGGCGTTTTTTAAAAAGCGCCGCTAAT---G-C----T-C-GATC
* *
27673109 TTTTCTGCGGCATTTTCTAAAAAGCGCCGCTAATGCTCGATC
1 -TTT-TGCGGCGTTTTTTAAAAAGCGCCGCTAATGCTCGATC
* * *
27673151 TTTAGCGGCATTTTTCAAAAAGCGCCGCTAATGCTCGATC
1 TTTTGCGGCGTTTTTTAAAAAGCGCCGCTAATGCTCGATC
*
27673191 TTTAGCGGCGTTTTT
1 TTTTGCGGCGTTTTT
27673206 CACAAAAACG
Statistics
Matches: 148, Mismatches: 25, Indels: 26
0.74 0.13 0.13
Matches are distributed among these distances:
39 4 0.03
40 105 0.71
41 3 0.02
42 2 0.01
43 2 0.01
44 1 0.01
47 1 0.01
48 2 0.01
49 3 0.02
50 2 0.01
51 19 0.13
52 4 0.03
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.35
Consensus pattern (40 bp):
TTTTGCGGCGTTTTTTAAAAAGCGCCGCTAATGCTCGATC
Found at i:27673202 original size:131 final size:132
Alignment explanation
Indices: 27672962--27673212 Score: 362
Period size: 131 Copynumber: 1.9 Consensus size: 132
27672952 CAACAAACGA
* * * * * * *
27672962 CGTCGTTTTGGTCAACTTTTTTGCGGCGTTTTCTGAAAAGCGTCGCTAATGCAAGATCTTTTGCG
1 CGTCGTTTTGCTAAACTTTTCTGCGGCATTTTCTAAAAAGCGCCGCTAATGCAAGATCTTTAGCG
* * * *
27673027 GCGTTTTTTAAAAAGCGCCGCTAATTCTCGATCTATTGCTGCGTTTTTCA-AAAAGAGCCGTAAT
66 GCATTTTTCAAAAAGCGCCGCTAATGCTCGATCTATTGCGGCGTTTTTCACAAAAGAGCCGTAAT
27673091 AC
131 AC
**
27673093 CGTCGTTTTGCTAAACTTTTCTGCGGCATTTTCTAAAAAGCGCCGCTAATGCTCGATCTTTAGCG
1 CGTCGTTTTGCTAAACTTTTCTGCGGCATTTTCTAAAAAGCGCCGCTAATGCAAGATCTTTAGCG
27673158 GCATTTTTCAAAAAGCGCCGCTAATGCTCGATCT-TTAGCGGCGTTTTTCACAAAA
66 GCATTTTTCAAAAAGCGCCGCTAATGCTCGATCTATT-GCGGCGTTTTTCACAAAA
27673213 ACGCCACTAT
Statistics
Matches: 105, Mismatches: 13, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
130 2 0.02
131 99 0.94
132 4 0.04
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (132 bp):
CGTCGTTTTGCTAAACTTTTCTGCGGCATTTTCTAAAAAGCGCCGCTAATGCAAGATCTTTAGCG
GCATTTTTCAAAAAGCGCCGCTAATGCTCGATCTATTGCGGCGTTTTTCACAAAAGAGCCGTAAT
AC
Found at i:27673206 original size:40 final size:40
Alignment explanation
Indices: 27673115--27673217 Score: 163
Period size: 40 Copynumber: 2.5 Consensus size: 40
27673105 AAACTTTTCT
27673115 GCGGCA-TTTTCTAAAAAGCGCCGCTAATGCTCGATCTTTA
1 GCGGCATTTTTC-AAAAAGCGCCGCTAATGCTCGATCTTTA
27673155 GCGGCATTTTTCAAAAAGCGCCGCTAATGCTCGATCTTTA
1 GCGGCATTTTTCAAAAAGCGCCGCTAATGCTCGATCTTTA
* *
27673195 GCGGCGTTTTTCACAAAAACGCC
1 GCGGCATTTTTCA-AAAAGCGCC
27673218 ACTATAGCTC
Statistics
Matches: 59, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
40 46 0.78
41 13 0.22
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.28
Consensus pattern (40 bp):
GCGGCATTTTTCAAAAAGCGCCGCTAATGCTCGATCTTTA
Found at i:27691117 original size:17 final size:18
Alignment explanation
Indices: 27691083--27691118 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
27691073 CGATTCAAAG
*
27691083 TAAATAAATTATTAAAAA
1 TAAAAAAATTATTAAAAA
27691101 TAAAAAAATTA-TAAAAA
1 TAAAAAAATTATTAAAAA
27691118 T
1 T
27691119 TGTTCAACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAAAAATTATTAAAAA
Found at i:27693413 original size:13 final size:13
Alignment explanation
Indices: 27693395--27693428 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
27693385 GGGCCCACAC
27693395 GCCCGTGTGGGTT
1 GCCCGTGTGGGTT
27693408 GCCCGTGTGGGTT
1 GCCCGTGTGGGTT
27693421 GCCCGTGT
1 GCCCGTGT
27693429 AAGCCTAGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.00, C:0.26, G:0.44, T:0.29
Consensus pattern (13 bp):
GCCCGTGTGGGTT
Found at i:27694748 original size:15 final size:15
Alignment explanation
Indices: 27694730--27694776 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
27694720 ACAGATGATA
27694730 TAACAAAAGATATTT
1 TAACAAAAGATATTT
*
27694745 TAAC-AATGATA---
1 TAACAAAAGATATTT
27694756 TAACAAAAGATATTT
1 TAACAAAAGATATTT
27694771 TAACAA
1 TAACAA
27694777 TCTCTTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
11 4 0.15
12 6 0.23
14 6 0.23
15 10 0.38
ACGTcount: A:0.55, C:0.09, G:0.06, T:0.30
Consensus pattern (15 bp):
TAACAAAAGATATTT
Found at i:27694753 original size:26 final size:26
Alignment explanation
Indices: 27694724--27694777 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
27694714 ACTGGGACAG
27694724 ATGATATAACAAAAGATATTTTAACA
1 ATGATATAACAAAAGATATTTTAACA
27694750 ATGATATAACAAAAGATATTTTAACA
1 ATGATATAACAAAAGATATTTTAACA
27694776 AT
1 AT
27694778 CTCTTTTTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.54, C:0.07, G:0.07, T:0.31
Consensus pattern (26 bp):
ATGATATAACAAAAGATATTTTAACA
Found at i:27695680 original size:36 final size:36
Alignment explanation
Indices: 27695640--27695712 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
27695630 ATATATTGAA
*
27695640 AACATGTATTTTCAAGATAGTGAGCTAAAAGTTGGT
1 AACATGTATTTTAAAGATAGTGAGCTAAAAGTTGGT
27695676 AACATGTATTTTAAAGATAGTGAGCTAAAAGTTGGT
1 AACATGTATTTTAAAGATAGTGAGCTAAAAGTTGGT
27695712 A
1 A
27695713 TGTTGGGTAC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.38, C:0.07, G:0.22, T:0.33
Consensus pattern (36 bp):
AACATGTATTTTAAAGATAGTGAGCTAAAAGTTGGT
Found at i:27696524 original size:8 final size:8
Alignment explanation
Indices: 27696511--27696543 Score: 66
Period size: 8 Copynumber: 4.1 Consensus size: 8
27696501 ATTAAAAATC
27696511 ATTTAATT
1 ATTTAATT
27696519 ATTTAATT
1 ATTTAATT
27696527 ATTTAATT
1 ATTTAATT
27696535 ATTTAATT
1 ATTTAATT
27696543 A
1 A
27696544 ATTGATTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
ATTTAATT
Found at i:27696551 original size:16 final size:16
Alignment explanation
Indices: 27696513--27696552 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
27696503 TAAAAATCAT
*
27696513 TTAATTATTTAATTAT
1 TTAATTATTTAATTAA
27696529 TTAATTATTTAATTAA
1 TTAATTATTTAATTAA
*
27696545 TTGATTAT
1 TTAATTAT
27696553 ATGAGCAAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (16 bp):
TTAATTATTTAATTAA
Found at i:27698479 original size:22 final size:22
Alignment explanation
Indices: 27698424--27698486 Score: 74
Period size: 21 Copynumber: 2.9 Consensus size: 22
27698414 AATTGCTTTT
*
27698424 TATTAATAAAAAATTGTTTAGA
1 TATTAATAAAAAATTATTTAGA
* *
27698446 T-TTAACATAAAATTATTTAGA
1 TATTAATAAAAAATTATTTAGA
*
27698467 TATTAATACAAAAAATATTT
1 TATTAATA-AAAAATTATTT
27698487 TTAATATATT
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
21 18 0.55
22 6 0.18
23 9 0.27
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (22 bp):
TATTAATAAAAAATTATTTAGA
Found at i:27703162 original size:22 final size:23
Alignment explanation
Indices: 27703131--27703176 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 23
27703121 ATATTGTAAC
*
27703131 TGAATATTATATATTATATTAAT
1 TGAATATTATATAATATATTAAT
27703154 TGAA-ATTATATAATATATTAAT
1 TGAATATTATATAATATATTAAT
27703176 T
1 T
27703177 TCGTTTATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (23 bp):
TGAATATTATATAATATATTAAT
Found at i:27705027 original size:17 final size:17
Alignment explanation
Indices: 27704988--27705037 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
27704978 TAACACGTGG
*
27704988 TAAAAAAATAAAATATTC
1 TAAAAAAATAAAAT-TTA
*
27705006 T-AAAATATAAAATTTA
1 TAAAAAAATAAAATTTA
*
27705022 TAAAAAAATATAATTT
1 TAAAAAAATAAAATTT
27705038 TTTACATAGA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
16 3 0.11
17 23 0.85
18 1 0.04
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (17 bp):
TAAAAAAATAAAATTTA
Found at i:27705092 original size:31 final size:32
Alignment explanation
Indices: 27705051--27705113 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
27705041 ACATAGAGAA
*
27705051 TGAATTTGGACAA-TAATTGTCCAAGTTCATT
1 TGAATCTGGACAACTAATTGTCCAAGTTCATT
* **
27705082 TGAATCTGGACAACTATTTGTTTAAGTTCATT
1 TGAATCTGGACAACTAATTGTCCAAGTTCATT
27705114 CTAAACATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
31 12 0.44
32 15 0.56
ACGTcount: A:0.30, C:0.13, G:0.16, T:0.41
Consensus pattern (32 bp):
TGAATCTGGACAACTAATTGTCCAAGTTCATT
Found at i:27707467 original size:13 final size:13
Alignment explanation
Indices: 27707449--27707474 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
27707439 GCTCGGCAGG
27707449 GACACGCCCGTGT
1 GACACGCCCGTGT
27707462 GACACGCCCGTGT
1 GACACGCCCGTGT
27707475 ACGATTACTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.38, G:0.31, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:27710621 original size:20 final size:20
Alignment explanation
Indices: 27710592--27710636 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
27710582 AGCACATGTA
* *
27710592 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
*
27710612 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
27710632 TTCAT
1 TTCAT
27710637 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:27711433 original size:42 final size:41
Alignment explanation
Indices: 27711308--27711433 Score: 137
Period size: 42 Copynumber: 3.0 Consensus size: 41
27711298 GATTGTTACA
* * * * *
27711308 AATATACTAGCACATAAGTGCATCATTGGATAAATCGAAGCA
1 AATATACTGGCACGTAAGTGCATCATTAGATAAACCGAAG-T
* *
27711350 AATATACTGACACGTAAATGCATCACTTA-ATAAACCGAAGT
1 AATATACTGGCACGTAAGTGCATCA-TTAGATAAACCGAAGT
* *
27711391 AATCATACTGGCACGTAAGTGCATCATCAGATAAACCAAAGT
1 AAT-ATACTGGCACGTAAGTGCATCATTAGATAAACCGAAGT
27711433 A
1 A
27711434 TAACCCATAC
Statistics
Matches: 70, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
41 5 0.07
42 63 0.90
43 2 0.03
ACGTcount: A:0.43, C:0.19, G:0.15, T:0.23
Consensus pattern (41 bp):
AATATACTGGCACGTAAGTGCATCATTAGATAAACCGAAGT
Done.