Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 93 of 211
Found at i:29145531 original size:75 final size:72
Alignment explanation
Indices: 29145403--29145577 Score: 226
Period size: 75 Copynumber: 2.4 Consensus size: 72
29145393 AAAATCACAT
* * *
29145403 ATAAACAACCATTAATAAAAC-TAATTTAATAAAAAATAAGTGGAACATAAATTCAATATCTAAA
1 ATAAACAACTATTAATAAAACATAA-TTAATAAAAAATAAGTAGAACATAAATTCAATATCCAAA
*
29145467 GACCAAAC
65 AACCAAAC
*
29145475 ATAAACAACTATTAATAAAACATAATTGATACACATAAATAAGTAGAACATAAATTCAATATCCA
1 ATAAACAACTATTAATAAAACATAATTAATA-A-A-AAATAAGTAGAACATAAATTCAATATCCA
*
29145540 AAAACTAAAC
63 AAAACCAAAC
* *
29145550 ATAAATAACTATTGATAAAAACATAATT
1 ATAAACAACTATTAAT-AAAACATAATT
29145578 CGCTTAAGCC
Statistics
Matches: 90, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
72 25 0.28
73 4 0.04
74 1 0.01
75 49 0.54
76 11 0.12
ACGTcount: A:0.57, C:0.13, G:0.05, T:0.25
Consensus pattern (72 bp):
ATAAACAACTATTAATAAAACATAATTAATAAAAAATAAGTAGAACATAAATTCAATATCCAAAA
ACCAAAC
Found at i:29146036 original size:18 final size:18
Alignment explanation
Indices: 29146013--29146060 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
29146003 TCCATCAATT
29146013 TGAACATCATTTGAAATG
1 TGAACATCATTTGAAATG
29146031 TGAACATCATTTGAAATG
1 TGAACATCATTTGAAATG
*
29146049 AGAACATCATTT
1 TGAACATCATTT
29146061 CTCATATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (18 bp):
TGAACATCATTTGAAATG
Found at i:29146837 original size:24 final size:24
Alignment explanation
Indices: 29146805--29146863 Score: 93
Period size: 24 Copynumber: 2.5 Consensus size: 24
29146795 AAAAAACAAT
*
29146805 ATAAAAAATTTAACTATATACATG
1 ATAAAAAATTAAACTATATACATG
29146829 ATAAAAAATTAAACTATATACATG
1 ATAAAAAATTAAACTATATACATG
*
29146853 A-ACAAAATTAA
1 ATAAAAAATTAA
29146864 GTCAATATCC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
23 9 0.27
24 24 0.73
ACGTcount: A:0.59, C:0.08, G:0.03, T:0.29
Consensus pattern (24 bp):
ATAAAAAATTAAACTATATACATG
Found at i:29149962 original size:21 final size:21
Alignment explanation
Indices: 29149936--29150024 Score: 56
Period size: 21 Copynumber: 4.1 Consensus size: 21
29149926 AGAGAGCAGT
29149936 GTAGCAGCAGAGCGAACCAGC
1 GTAGCAGCAGAGCGAACCAGC
* *
29149957 GTAGCAGTAAAG-GAAACCAGC
1 GTAGCAGCAGAGCG-AACCAGC
** * *
29149978 AAAG-AGCAAAGAGCAGAGAGCAGT
1 GTAGCAGC--AGAGC-GA-ACCAGC
*
29150002 GTAGCAGCAGAGGGAACCAGC
1 GTAGCAGCAGAGCGAACCAGC
29150023 GT
1 GT
29150025 CGTGTGGCTA
Statistics
Matches: 48, Mismatches: 13, Indels: 14
0.64 0.17 0.19
Matches are distributed among these distances:
20 3 0.06
21 25 0.52
22 5 0.10
23 5 0.10
24 7 0.15
25 3 0.06
ACGTcount: A:0.39, C:0.20, G:0.34, T:0.07
Consensus pattern (21 bp):
GTAGCAGCAGAGCGAACCAGC
Found at i:29162514 original size:20 final size:20
Alignment explanation
Indices: 29162491--29162605 Score: 110
Period size: 20 Copynumber: 5.7 Consensus size: 20
29162481 ATTACAAAAC
29162491 AAATTCAAAATAATTTTTAA
1 AAATTCAAAATAATTTTTAA
*
29162511 AAATTCAAAATAATTTTCAA
1 AAATTCAAAATAATTTTTAA
*
29162531 AAATTCAAAA-AATTTATAA
1 AAATTCAAAATAATTTTTAA
* *
29162550 AAATTAAAAAAAATATATTTTAAA
1 AAATT---CAAAATA-ATTTTTAA
*
29162574 AAATT-ATAATAA-TTTTAA
1 AAATTCAAAATAATTTTTAA
* *
29162592 AAAATCTAAATAAT
1 AAATTCAAAATAAT
29162606 ATATAAATAA
Statistics
Matches: 77, Mismatches: 11, Indels: 14
0.75 0.11 0.14
Matches are distributed among these distances:
18 9 0.12
19 18 0.23
20 34 0.44
22 4 0.05
23 1 0.01
24 11 0.14
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (20 bp):
AAATTCAAAATAATTTTTAA
Found at i:29165498 original size:19 final size:18
Alignment explanation
Indices: 29165476--29165515 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
29165466 CAAAGGTTTT
29165476 CATACGTTAGTAGGGTTCG
1 CATAC-TTAGTAGGGTTCG
**
29165495 CATACTTTTTAGGGTTCG
1 CATACTTAGTAGGGTTCG
29165513 CAT
1 CAT
29165516 GTAATAAGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.20, C:0.17, G:0.25, T:0.38
Consensus pattern (18 bp):
CATACTTAGTAGGGTTCG
Found at i:29167736 original size:41 final size:41
Alignment explanation
Indices: 29167675--29167829 Score: 220
Period size: 41 Copynumber: 3.8 Consensus size: 41
29167665 TTAATTAAAA
* * *
29167675 CAGATTCAACGGCACATAGCCTGCTAGACTTATAGCCTGATT
1 CAGA-TCACCGGCACGTAGCCTGCTAGACTTATAACCTGATT
* * **
29167717 CAGATCACCGACACGTAGCCTACTAGGTTTATAACCTGATT
1 CAGATCACCGGCACGTAGCCTGCTAGACTTATAACCTGATT
**
29167758 CAGATCACCGGCACGTAGCCTGCTAGGTTTATAACCTGATT
1 CAGATCACCGGCACGTAGCCTGCTAGACTTATAACCTGATT
29167799 CAGATCACCGGCACGTAGCCTGCTAGACTTA
1 CAGATCACCGGCACGTAGCCTGCTAGACTTA
29167830 AAGTCTGAAA
Statistics
Matches: 102, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
41 98 0.96
42 4 0.04
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (41 bp):
CAGATCACCGGCACGTAGCCTGCTAGACTTATAACCTGATT
Found at i:29175363 original size:41 final size:41
Alignment explanation
Indices: 29175318--29175463 Score: 220
Period size: 41 Copynumber: 3.6 Consensus size: 41
29175308 ATAGATTCAA
* * *
29175318 CGGCACATAGCCTACTAGACTTATAGCCTGATTCAGATCAC
1 CGGCACGTAGCCTGCTAGACTTATAACCTGATTCAGATCAC
**
29175359 CGGCACGTAGCCTGCTAGGTTTATAACCTGATTCAGATCAC
1 CGGCACGTAGCCTGCTAGACTTATAACCTGATTCAGATCAC
* **
29175400 CGGTACGTAGCCTGCTAGGTTTATAACCTGATTCAGATCAC
1 CGGCACGTAGCCTGCTAGACTTATAACCTGATTCAGATCAC
29175441 CGGCACGTAGCCTGCTAGACTTA
1 CGGCACGTAGCCTGCTAGACTTA
29175464 AAGTCTAAAA
Statistics
Matches: 96, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 96 1.00
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (41 bp):
CGGCACGTAGCCTGCTAGACTTATAACCTGATTCAGATCAC
Found at i:29184918 original size:30 final size:30
Alignment explanation
Indices: 29184883--29185123 Score: 329
Period size: 30 Copynumber: 7.9 Consensus size: 30
29184873 CTACATGTTT
* * *
29184883 TATATATTGCTGAATTAATTTGTATATGGATA
1 TATACATTGCCGAATTGATTTGTATATGG--A
* * *
29184915 TATATATTGCCGAATTGATTTATATATAGA
1 TATACATTGCCGAATTGATTTGTATATGGA
*
29184945 TATATATATAGCCGAATTGATTTGTATATGGA
1 TATACAT-T-GCCGAATTGATTTGTATATGGA
29184977 TATACATTGCCGAATTGATTTGTATATGGA
1 TATACATTGCCGAATTGATTTGTATATGGA
*
29185007 TATACATTGCTGAATTGATTTGTATATGGA
1 TATACATTGCCGAATTGATTTGTATATGGA
* * *
29185037 TATACATTACTGAATTGATTTGTATATGAA
1 TATACATTGCCGAATTGATTTGTATATGGA
*
29185067 TATACATTGCCGAAGTGATTTGTATATGGA
1 TATACATTGCCGAATTGATTTGTATATGGA
*
29185097 TATACATTGCTGAATTGATTTGTATAT
1 TATACATTGCCGAATTGATTTGTATAT
29185124 TTATGAGGTC
Statistics
Matches: 191, Mismatches: 16, Indels: 6
0.90 0.08 0.03
Matches are distributed among these distances:
30 138 0.72
31 2 0.01
32 51 0.27
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (30 bp):
TATACATTGCCGAATTGATTTGTATATGGA
Found at i:29186326 original size:37 final size:37
Alignment explanation
Indices: 29186285--29186379 Score: 93
Period size: 37 Copynumber: 2.6 Consensus size: 37
29186275 CATTACCTAT
* *
29186285 TGATATACCGACTAAAGCTCAACTGAGCGATATCTAC
1 TGATATACCGAATAAAGCTCAACTGAGAGATATCTAC
** * * * *
29186322 TGATATACTAAATAAAGCTCAATTGAGAGTTGTTTAC
1 TGATATACCGAATAAAGCTCAACTGAGAGATATCTAC
* *
29186359 TGATATGCCGAGT-AAGCTCAA
1 TGATATACCGAATAAAGCTCAA
29186380 TCAAGTATTA
Statistics
Matches: 46, Mismatches: 12, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
36 8 0.17
37 38 0.83
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (37 bp):
TGATATACCGAATAAAGCTCAACTGAGAGATATCTAC
Found at i:29188865 original size:22 final size:23
Alignment explanation
Indices: 29188805--29188872 Score: 70
Period size: 22 Copynumber: 3.0 Consensus size: 23
29188795 CTAAATCAAT
29188805 TCTAAATCGATTACTATGATTGA
1 TCTAAATCGATTACTATGATTGA
** **
29188828 T-TGTATAAATCT-CTATG-TTGA
1 TCTAAATCGAT-TACTATGATTGA
29188849 TCTAAATCGATTACTATGATTGA
1 TCTAAATCGATTACTATGATTGA
29188872 T
1 T
29188873 TGGAAAGGTT
Statistics
Matches: 33, Mismatches: 8, Indels: 8
0.67 0.16 0.16
Matches are distributed among these distances:
21 6 0.18
22 20 0.61
23 7 0.21
ACGTcount: A:0.32, C:0.12, G:0.13, T:0.43
Consensus pattern (23 bp):
TCTAAATCGATTACTATGATTGA
Found at i:29190247 original size:29 final size:29
Alignment explanation
Indices: 29190201--29190259 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
29190191 CTAGCCTTGG
* *
29190201 TCACAAATCTAAATGCACGATTAACCCAT
1 TCACAAATCTAAACGCACAATTAACCCAT
29190230 TCACAAATCTAAACGCACAATTAACCCAT
1 TCACAAATCTAAACGCACAATTAACCCAT
29190259 T
1 T
29190260 TTAGTCATGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.42, C:0.29, G:0.05, T:0.24
Consensus pattern (29 bp):
TCACAAATCTAAACGCACAATTAACCCAT
Found at i:29190321 original size:28 final size:28
Alignment explanation
Indices: 29190288--29190343 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
29190278 AATAACTTGG
*
29190288 ATTTTAATGCGTGATCTAATGTGAAAAT
1 ATTTTAATACGTGATCTAATGTGAAAAT
29190316 ATTTTAATACGTGATCTAATGTGAAAAT
1 ATTTTAATACGTGATCTAATGTGAAAAT
29190344 CTCAGCAAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.38, C:0.07, G:0.16, T:0.39
Consensus pattern (28 bp):
ATTTTAATACGTGATCTAATGTGAAAAT
Found at i:29190658 original size:5 final size:5
Alignment explanation
Indices: 29190648--29190676 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
29190638 AAATTAACCG
29190648 AATAA AATAA AATAA AATAA AATAA AATA
1 AATAA AATAA AATAA AATAA AATAA AATA
29190677 GGTGTTTTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AATAA
Found at i:29193136 original size:14 final size:14
Alignment explanation
Indices: 29193119--29193153 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
29193109 AATTATATCA
29193119 ATTTAATGAGATTT
1 ATTTAATGAGATTT
29193133 ATTTAATGAGATTT
1 ATTTAATGAGATTT
29193147 ATTTAAT
1 ATTTAAT
29193154 TCATGTTAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.51
Consensus pattern (14 bp):
ATTTAATGAGATTT
Found at i:29203979 original size:18 final size:16
Alignment explanation
Indices: 29203956--29203991 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 16
29203946 AAATGGCTTT
29203956 TAAAAGTATATTATAAAA
1 TAAAAGT-TATTA-AAAA
29203974 TAAAAGTTATTAAAAA
1 TAAAAGTTATTAAAAA
29203990 TA
1 TA
29203992 TATTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.33
17 5 0.28
18 7 0.39
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (16 bp):
TAAAAGTTATTAAAAA
Found at i:29204940 original size:5 final size:5
Alignment explanation
Indices: 29204927--29204971 Score: 51
Period size: 5 Copynumber: 9.6 Consensus size: 5
29204917 GAAAATGAAA
* *
29204927 AAAAG AAAAC AAAAC -AAAC AAAA- AAAAG AAAAC -AAAC AAAAC AAA
1 AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAA
29204972 CAGCTGCCCC
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
4 12 0.34
5 23 0.66
ACGTcount: A:0.82, C:0.13, G:0.04, T:0.00
Consensus pattern (5 bp):
AAAAC
Found at i:29204945 original size:9 final size:9
Alignment explanation
Indices: 29204933--29204973 Score: 64
Period size: 9 Copynumber: 4.6 Consensus size: 9
29204923 GAAAAAAAGA
29204933 AAACAAAAC
1 AAACAAAAC
*
29204942 AAACAAAAA
1 AAACAAAAC
*
29204951 AAAGAAAAC
1 AAACAAAAC
29204960 AAACAAAAC
1 AAACAAAAC
29204969 AAACA
1 AAACA
29204974 GCTGCCCCTC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.80, C:0.17, G:0.02, T:0.00
Consensus pattern (9 bp):
AAACAAAAC
Found at i:29204953 original size:23 final size:23
Alignment explanation
Indices: 29204924--29204971 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
29204914 GCCGAAAATG
29204924 AAAAAAAGAAAACAAA-ACAAACA
1 AAAAAAAGAAAACAAACA-AAACA
29204947 AAAAAAAGAAAACAAACAAAACA
1 AAAAAAAGAAAACAAACAAAACA
29204970 AA
1 AA
29204972 CAGCTGCCCC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 23 0.96
24 1 0.04
ACGTcount: A:0.83, C:0.12, G:0.04, T:0.00
Consensus pattern (23 bp):
AAAAAAAGAAAACAAACAAAACA
Found at i:29204958 original size:18 final size:19
Alignment explanation
Indices: 29204927--29204967 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
29204917 GAAAATGAAA
29204927 AAAAGAAAACAAAACAAAC
1 AAAAGAAAACAAAACAAAC
*
29204946 AAAA-AAAAGAAAACAAAC
1 AAAAGAAAACAAAACAAAC
29204964 AAAA
1 AAAA
29204968 CAAACAGCTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.83, C:0.12, G:0.05, T:0.00
Consensus pattern (19 bp):
AAAAGAAAACAAAACAAAC
Found at i:29205445 original size:44 final size:44
Alignment explanation
Indices: 29205392--29205496 Score: 129
Period size: 44 Copynumber: 2.4 Consensus size: 44
29205382 CCTTTATTTT
* * *
29205392 AATCCGCTCCATTGTAATCTCAGGGAAATAGGATTACTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAAATAAGATTACTGGCTTC
* * * * *
29205436 AATTTGCTCCGCTGTAATCTTAGGGAGATAAGATTTCTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAAATAAGATTACTGGCTTC
*
29205480 AATCTGCTCCACCGTAA
1 AATCTGCTCCACTGTAA
29205497 CAGCAGGGAG
Statistics
Matches: 50, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
44 50 1.00
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (44 bp):
AATCTGCTCCACTGTAATCTCAGGGAAATAAGATTACTGGCTTC
Found at i:29205505 original size:44 final size:44
Alignment explanation
Indices: 29205405--29205511 Score: 117
Period size: 44 Copynumber: 2.4 Consensus size: 44
29205395 CCGCTCCATT
* * * * * *
29205405 GTAATCTCAGGGAAATAGGATTACTGGCTTCAATTTGCTCCGCT
1 GTAATCGCAGGGAGATAAGATTACTGGCTTCAATCTGCTCCACC
** *
29205449 GTAATCTTAGGGAGATAAGATTTCTGGCTTCAATCTGCTCCACC
1 GTAATCGCAGGGAGATAAGATTACTGGCTTCAATCTGCTCCACC
29205493 GTAA-CAGCAGGGAGATAAG
1 GTAATC-GCAGGGAGATAAG
29205512 GTTCACCATT
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
43 1 0.02
44 52 0.98
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (44 bp):
GTAATCGCAGGGAGATAAGATTACTGGCTTCAATCTGCTCCACC
Found at i:29205673 original size:44 final size:44
Alignment explanation
Indices: 29205625--29205729 Score: 138
Period size: 44 Copynumber: 2.4 Consensus size: 44
29205615 CCTTTATTTT
* ** * *
29205625 AATCTGTTCCACTGTAATCTCAGGGAAATAGGATTGCTGGCTTC
1 AATCTGCTCCACTGTAATCTCAAAGAAATAAGATTGCTAGCTTC
* * *
29205669 AATCTGCTCTACTGTAATCTCAAAGAGATAAGATTTCTAGCTTC
1 AATCTGCTCCACTGTAATCTCAAAGAAATAAGATTGCTAGCTTC
29205713 AATCTGCTCCACTGTAA
1 AATCTGCTCCACTGTAA
29205730 CAGCATGGAG
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 52 1.00
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (44 bp):
AATCTGCTCCACTGTAATCTCAAAGAAATAAGATTGCTAGCTTC
Found at i:29205706 original size:233 final size:233
Alignment explanation
Indices: 29205299--29205935 Score: 1044
Period size: 233 Copynumber: 2.7 Consensus size: 233
29205289 TAAGATCTAT
*
29205299 AATTCTTCGGTCTATTCCA-TCGTAGTCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGT
1 AATTCTTCGGTCTATTCCACT-GTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGT
* * *
29205363 AACTTCAGAGAAATAAGATCCTTTATTTTAATCCGCTCCATTGTAATCTCAGGGAAATAGGATTA
65 AACTTCAGAGAAATAAGATCCTTTATTTTAATCTGTTCCACTGTAATCTCAGGGAAATAGGATTA
* * * *
29205428 CTGGCTTCAATTTGCTCCGCTGTAATCTTAGGGAGATAAGATTTCTGGCTTCAATCTGCTCCACC
130 CTGGCTTCAATCTGCTCCGCTGTAATCTCAGAGAGATAAGATTTCTAGCTTCAATCTGCTCCACC
*
29205493 GTAACAGCAGGGAGATAAGGTTCACCA-TTTCGGATTAGG
195 GTAACAGCAGGGAGATAAGATTCACCATTTTC-GATTAGG
* *
29205532 AATTCTTTGGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATGTGATCTACTCTACTGTA
1 AATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTA
*
29205597 ACTTCAGAGAAATAAGATCCTTTATTTTAATCTGTTCCACTGTAATCTCAGGGAAATAGGATTGC
66 ACTTCAGAGAAATAAGATCCTTTATTTTAATCTGTTCCACTGTAATCTCAGGGAAATAGGATTAC
** * *
29205662 TGGCTTCAATCTGCTCTACTGTAATCTCAAAGAGATAAGATTTCTAGCTTCAATCTGCTCCACTG
131 TGGCTTCAATCTGCTCCGCTGTAATCTCAGAGAGATAAGATTTCTAGCTTCAATCTGCTCCACCG
*
29205727 TAACAGCATGGAGATAAGATTCACCATTTTCGATTAGG
196 TAACAGCAGGGAGATAAGATTCACCATTTTCGATTAGG
* *
29205765 AATTCTTCGGTCTATTCCACAGTAATCTCAGGGAGATAACACCTGATGCGATCTACTCTACTGTA
1 AATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTA
*
29205830 ACTTCAGAGAGATAAGATCCTTTATTTTAATCTGTTCCACTGTAATCTCAGGGAAATAGGATTAC
66 ACTTCAGAGAAATAAGATCCTTTATTTTAATCTGTTCCACTGTAATCTCAGGGAAATAGGATTAC
* *
29205895 CGGCTTCAATCTGTTCCGCTGTAATCTCAGAGAGATAAGAT
131 TGGCTTCAATCTGCTCCGCTGTAATCTCAGAGAGATAAGAT
29205936 CTGTAATTCT
Statistics
Matches: 374, Mismatches: 28, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
233 369 0.99
234 5 0.01
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (233 bp):
AATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTA
ACTTCAGAGAAATAAGATCCTTTATTTTAATCTGTTCCACTGTAATCTCAGGGAAATAGGATTAC
TGGCTTCAATCTGCTCCGCTGTAATCTCAGAGAGATAAGATTTCTAGCTTCAATCTGCTCCACCG
TAACAGCAGGGAGATAAGATTCACCATTTTCGATTAGG
Found at i:29205741 original size:44 final size:44
Alignment explanation
Indices: 29205625--29205747 Score: 122
Period size: 44 Copynumber: 2.8 Consensus size: 44
29205615 CCTTTATTTT
* * ** * * * *
29205625 AATCTGTTCCACTGTAATCTCAGGGAAATAGGATTGCTGGCTTC
1 AATCTGCTCCACTGTAATCGCAAAGAGATAAGATTTCTAGCTTC
* *
29205669 AATCTGCTCTACTGTAATCTCAAAGAGATAAGATTTCTAGCTTC
1 AATCTGCTCCACTGTAATCGCAAAGAGATAAGATTTCTAGCTTC
**
29205713 AATCTGCTCCACTGTAA-CAGCATGGAGATAAGATT
1 AATCTGCTCCACTGTAATC-GCAAAGAGATAAGATT
29205748 CACCATTTTC
Statistics
Matches: 66, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
43 1 0.02
44 65 0.98
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (44 bp):
AATCTGCTCCACTGTAATCGCAAAGAGATAAGATTTCTAGCTTC
Found at i:29206091 original size:87 final size:87
Alignment explanation
Indices: 29205825--29206109 Score: 285
Period size: 87 Copynumber: 3.3 Consensus size: 87
29205815 ATCTACTCTA
* *
29205825 CTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTAATCTGTTCCACTGTAATCTCAGGGAAATAG
1 CTGTAATC-TCAGAGAGATAAGAT-CTTTTTTTTAATCTGTTCCACTGTAATCTCAGGGAAATAA
* *
29205889 GATTACCGGCTTCAATCTGTTCCG
64 GATTACTGGCTTCAATCTGCTCCG
* *** * * **
29205913 CTGTAATCTCAGAGAGATAAGATCTGTAATTCTTCGGTCTATTCCACCGTAATCTCAGGGCGATA
1 CTGTAATCTCAGAGAGATAAGATCT-T--TTTTTTAATCTGTTCCACTGTAATCTCAGGGAAATA
* * * * **
29205978 AGA--CCT-GATAT-GATCTACTCTA
63 AGATTACTGGCT-TCAATCTGCTCCG
*
29206000 CTGTAA-CTTCAGAGAGATAAGATCTTTTTTTTAATCTGCTCCACTGTAATCTCAGGGAAATAAG
1 CTGTAATC-TCAGAGAGATAAGATCTTTTTTTTAATCTGTTCCACTGTAATCTCAGGGAAATAAG
29206064 ATTACTGGCTTCAATCTGCTCCG
65 ATTACTGGCTTCAATCTGCTCCG
*
29206087 CTGTAATCTCAGGGAGATAAGAT
1 CTGTAATCTCAGAGAGATAAGAT
29206110 TTCTGGCTTC
Statistics
Matches: 152, Mismatches: 34, Indels: 23
0.73 0.16 0.11
Matches are distributed among these distances:
84 30 0.20
86 5 0.03
87 62 0.41
88 25 0.16
89 1 0.01
90 29 0.19
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (87 bp):
CTGTAATCTCAGAGAGATAAGATCTTTTTTTTAATCTGTTCCACTGTAATCTCAGGGAAATAAGA
TTACTGGCTTCAATCTGCTCCG
Found at i:29206145 original size:44 final size:44
Alignment explanation
Indices: 29205858--29206154 Score: 191
Period size: 44 Copynumber: 6.8 Consensus size: 44
29205848 CCTTTATTTT
* * * *
29205858 AATCTGTTCCACTGTAATCTCAGGGAAATAGGATTACCGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTGGCTTC
* * * * *
29205902 AATCTGTTCCGCTGTAATCTCAGAGAGATAAGATCTGTAAT-TCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGA--T-TACTGGCTTC
** ** * * * *
29205948 GGTCTATTCCACCGTAATCTCAGGGCGATAAGA--CCT-GATAT-
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTGGCT-TC
* * * * *** *
29205989 GATCTACTCTACTGTAA-CTTCAGAGAGATAAGA-T-CTTTTTTTT
1 AATCTGCTCCACTGTAATC-TCAGGGAGATAAGATTAC-TGGCTTC
*
29206032 AATCTGCTCCACTGTAATCTCAGGGAAATAAGATTACTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTGGCTTC
* *
29206076 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTGGCTTC
*
29206120 AATCTGCTCCACCGTAA-CAGT-AGGGAGATAAGATT
1 AATCTGCTCCACTGTAATC--TCAGGGAGATAAGATT
29206155 CACCATTTCC
Statistics
Matches: 199, Mismatches: 40, Indels: 28
0.75 0.15 0.10
Matches are distributed among these distances:
40 1 0.01
41 28 0.14
42 3 0.02
43 28 0.14
44 104 0.52
45 2 0.01
46 31 0.16
47 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (44 bp):
AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTGGCTTC
Found at i:29206240 original size:46 final size:45
Alignment explanation
Indices: 29206172--29206308 Score: 202
Period size: 46 Copynumber: 3.0 Consensus size: 45
29206162 TCCGATTAGG
** * *
29206172 AATTCTTCGATCTATTATACTGTAATCTTAAGGAGATAAGACCTGT
1 AATTCTTCG-TCTATTCCACTGTAATCTCAGGGAGATAAGACCTGT
*
29206218 AATTCTTCAGTCTATTCCACTGTAATCCCAGGGAGATAAGACCTGT
1 AATTCTTC-GTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGT
29206264 AATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTG
1 AATTCTTC-GTCTATTCCACTGTAATCTCAGGGAGATAAGACCTG
29206309 ATGCGATCTA
Statistics
Matches: 83, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
46 82 0.99
47 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (45 bp):
AATTCTTCGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGT
Found at i:29206381 original size:85 final size:85
Alignment explanation
Indices: 29206278--29206557 Score: 305
Period size: 85 Copynumber: 3.2 Consensus size: 85
29206268 CTTCGGTCTA
29206278 TTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATA
1 TTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATA
29206343 AGATCCTTTATTTTAATCCG
66 AGATCCTTTATTTTAATCCG
* * * * * * * * * *
29206363 TTCCACTGTAATCTCAGGGAAATAGGATTACCGGCTTCAACCTGCTTTGCTGTAA-TCTCAGAGA
1 TTCCACTGTAATCTCAGGGAGATA--A-GACCTGATGCGATCTACTCTACTGTAACT-TCAGAGA
* **
29206427 GATAAGAT--TTGTAATTCTTCAGTCTA
62 GATAAGATCCTT-T-ATT-TT-AATCCG
** *
29206453 TTCCACTGTAATCTTGGGGGGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATA
1 TTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATA
29206518 AGATCCTTTATTTTAATCCG
66 AGATCCTTTATTTTAATCCG
* *
29206538 TTCCACTATAATATCAGGGA
1 TTCCACTGTAATCTCAGGGA
29206558 AATAGGATTA
Statistics
Matches: 150, Mismatches: 34, Indels: 22
0.73 0.17 0.11
Matches are distributed among these distances:
85 41 0.27
86 4 0.03
87 39 0.26
88 39 0.26
89 4 0.03
90 23 0.15
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.33
Consensus pattern (85 bp):
TTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATA
AGATCCTTTATTTTAATCCG
Found at i:29206433 original size:88 final size:88
Alignment explanation
Indices: 29206314--29206610 Score: 277
Period size: 88 Copynumber: 3.4 Consensus size: 88
29206304 ACCTGATGCG
*
29206314 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGTTCCACTGTAATCTCA
1 ATCTGCTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGTTCCACTGTAATCTCA
29206379 GGGAAATAGGATTACCGGCTTCA
66 GGGAAATAGGATTACCGGCTTCA
* * * * **
29206402 ACCTGCTTTGCTGTAA-TCTCAGAGAGATAAGAT--TTGTAATTCTTCAGTCTATTCCACTGTAA
1 ATCTGCTCTACTGTAACT-TCAGAGAGATAAGATCCTT-T-ATT-TT-AATCCGTTCCACTGTAA
** ** * * * * *
29206464 TCTTGGGGGGATA--A-GACCTGATGCG
61 TCTCAGGGAAATAGGATTACCGGCTTCA
* * *
29206489 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGTTCCACTATAATATCA
1 ATCTGCTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGTTCCACTGTAATCTCA
*
29206554 GGGAAATAGGATTACTGGCTTCA
66 GGGAAATAGGATTACCGGCTTCA
**
29206577 ATCTGCTCCCCTGTAA-TCTCA-AGGAGATAAGATC
1 ATCTGCTCTACTGTAACT-TCAGA-GAGATAAGATC
29206611 TGTAATTCTT
Statistics
Matches: 158, Mismatches: 38, Indels: 26
0.71 0.17 0.12
Matches are distributed among these distances:
85 21 0.13
86 4 0.03
87 41 0.26
88 65 0.41
89 4 0.03
90 23 0.15
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.33
Consensus pattern (88 bp):
ATCTGCTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGTTCCACTGTAATCTCA
GGGAAATAGGATTACCGGCTTCA
Found at i:29206528 original size:175 final size:175
Alignment explanation
Indices: 29206237--29206632 Score: 632
Period size: 175 Copynumber: 2.3 Consensus size: 175
29206227 GTCTATTCCA
* * *
29206237 CTGTAATCCCAGGGAGATAAGACCTGTAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATA
1 CTGTAATCTCAGAGAGATAAGATCTGTAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATA
29206302 AGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGTTCC
66 AGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGTTCC
* * ***
29206367 ACTGTAATCTCAGGGAAATAGGATTACCGGCTTCAACCTGCTTTG
131 ACTATAATATCAGGGAAATAGGATTACCGGCTTCAACCTGCTCCC
* * ** *
29206412 CTGTAATCTCAGAGAGATAAGATTTGTAATTCTTCAGTCTATTCCACTGTAATCTTGGGGGGATA
1 CTGTAATCTCAGAGAGATAAGATCTGTAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATA
29206477 AGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGTTCC
66 AGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGTTCC
* *
29206542 ACTATAATATCAGGGAAATAGGATTACTGGCTTCAATCTGCTCCC
131 ACTATAATATCAGGGAAATAGGATTACCGGCTTCAACCTGCTCCC
*
29206587 CTGTAATCTCA-AGGAGATAAGATCTGTAATTCTTTGGTCTATTCCA
1 CTGTAATCTCAGA-GAGATAAGATCTGTAATTCTTCGGTCTATTCCA
29206633 TTGCTGACTA
Statistics
Matches: 202, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
174 1 0.00
175 201 1.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.33
Consensus pattern (175 bp):
CTGTAATCTCAGAGAGATAAGATCTGTAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATA
AGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGTTCC
ACTATAATATCAGGGAAATAGGATTACCGGCTTCAACCTGCTCCC
Found at i:29220568 original size:8 final size:8
Alignment explanation
Indices: 29220555--29220598 Score: 54
Period size: 8 Copynumber: 5.6 Consensus size: 8
29220545 TAAAATGGAC
29220555 TATTTTTT
1 TATTTTTT
29220563 TA-TTTTT
1 TATTTTTT
29220570 TATTTTTT
1 TATTTTTT
*
29220578 TATATTTT
1 TATTTTTT
* *
29220586 TGTTTATT
1 TATTTTTT
29220594 TATTT
1 TATTT
29220599 CTGATTTGGG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
7 7 0.23
8 23 0.77
ACGTcount: A:0.16, C:0.00, G:0.02, T:0.82
Consensus pattern (8 bp):
TATTTTTT
Found at i:29220575 original size:15 final size:15
Alignment explanation
Indices: 29220555--29220598 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
29220545 TAAAATGGAC
29220555 TATTTTTTTATTTTT
1 TATTTTTTTATTTTT
29220570 TATTTTTTTATATTTT
1 TATTTTTTTAT-TTTT
* *
29220586 TGTTTATTTATTT
1 TATTTTTTTATTT
29220599 CTGATTTGGG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
15 13 0.50
16 13 0.50
ACGTcount: A:0.16, C:0.00, G:0.02, T:0.82
Consensus pattern (15 bp):
TATTTTTTTATTTTT
Found at i:29220923 original size:12 final size:12
Alignment explanation
Indices: 29220906--29220935 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
29220896 ACAAAATCTG
29220906 AATTTAATTTCC
1 AATTTAATTTCC
*
29220918 AATTTAATTTCT
1 AATTTAATTTCC
29220930 AATTTA
1 AATTTA
29220936 TTTATGTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.53
Consensus pattern (12 bp):
AATTTAATTTCC
Found at i:29223017 original size:24 final size:24
Alignment explanation
Indices: 29222983--29223043 Score: 95
Period size: 24 Copynumber: 2.5 Consensus size: 24
29222973 GCTGCCGAAT
* *
29222983 TTTAAAGGATGTATAATGCTTTCC
1 TTTAAATGATGTATAATGCTCTCC
29223007 TTTAAATGATGTATAATGCTCTCC
1 TTTAAATGATGTATAATGCTCTCC
*
29223031 TTTAATTGATGTA
1 TTTAAATGATGTA
29223044 ACAACCCCTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.30, C:0.11, G:0.15, T:0.44
Consensus pattern (24 bp):
TTTAAATGATGTATAATGCTCTCC
Found at i:29230240 original size:27 final size:27
Alignment explanation
Indices: 29230202--29230286 Score: 77
Period size: 27 Copynumber: 3.1 Consensus size: 27
29230192 AAATGTTGTT
**
29230202 AAATGATAGAAATA-TCCTCGATGGGTA
1 AAATGATAGAAATACTCC-CGAAAGGTA
29230229 AAATGACT-GAAATACTCCCGAAAGGTA
1 AAATGA-TAGAAATACTCCCGAAAGGTA
* * *
29230256 AAATAATCGAAATAC-CCCTATAAGGTA
1 AAATGATAGAAATACTCCCGA-AAGGTA
29230283 AAAT
1 AAAT
29230287 TACCGTAATG
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
26 5 0.10
27 41 0.82
28 4 0.08
ACGTcount: A:0.46, C:0.15, G:0.16, T:0.22
Consensus pattern (27 bp):
AAATGATAGAAATACTCCCGAAAGGTA
Found at i:29230300 original size:27 final size:27
Alignment explanation
Indices: 29230225--29230311 Score: 86
Period size: 27 Copynumber: 3.2 Consensus size: 27
29230215 ATCCTCGATG
* * *
29230225 GGTAAAATGACTGAAATACTCCCGA-AA
1 GGTAAAATAACCGAAATAC-CCCTATAA
*
29230252 GGTAAAATAATCGAAATACCCCTATAA
1 GGTAAAATAACCGAAATACCCCTATAA
* * * *
29230279 GGTAAAATTACCGTAATGCCCCTATAG
1 GGTAAAATAACCGAAATACCCCTATAA
29230306 GGTAAA
1 GGTAAA
29230312 TGACTAATTT
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
26 4 0.08
27 46 0.92
ACGTcount: A:0.43, C:0.18, G:0.17, T:0.22
Consensus pattern (27 bp):
GGTAAAATAACCGAAATACCCCTATAA
Found at i:29236449 original size:16 final size:16
Alignment explanation
Indices: 29236411--29236451 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
29236401 TATGGGAGCT
*
29236411 TACATGAATGGCTGGA
1 TACATGGATGGCTGGA
29236427 TACATGGATGGCTGGA
1 TACATGGATGGCTGGA
*
29236443 TTCATGGAT
1 TACATGGAT
29236452 ATGGCCTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.27, C:0.12, G:0.32, T:0.29
Consensus pattern (16 bp):
TACATGGATGGCTGGA
Found at i:29238133 original size:23 final size:23
Alignment explanation
Indices: 29238103--29238149 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
29238093 TTACCAGTCG
29238103 AGCATTAAAATGGCATCATACAA
1 AGCATTAAAATGGCATCATACAA
29238126 AGCATTAAAATGGCATCATACAA
1 AGCATTAAAATGGCATCATACAA
29238149 A
1 A
29238150 ACTCTATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.49, C:0.17, G:0.13, T:0.21
Consensus pattern (23 bp):
AGCATTAAAATGGCATCATACAA
Found at i:29242842 original size:28 final size:28
Alignment explanation
Indices: 29242809--29242865 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
29242799 TATGGAAAGT
*
29242809 ATGAATTCAATAGCTTTATGTTCTTGTA
1 ATGAATTCAATAGCTTTATGTTCATGTA
29242837 ATGAATTCAATAGCTTTATGTTCATGTA
1 ATGAATTCAATAGCTTTATGTTCATGTA
29242865 A
1 A
29242866 ACTATCTTAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.44
Consensus pattern (28 bp):
ATGAATTCAATAGCTTTATGTTCATGTA
Found at i:29253081 original size:19 final size:19
Alignment explanation
Indices: 29253057--29253093 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
29253047 TATATATAAA
*
29253057 AATATTAAATAATAATTAC
1 AATATTAAAAAATAATTAC
29253076 AATATTAAAAAATAATTA
1 AATATTAAAAAATAATTA
29253094 TACGTACATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (19 bp):
AATATTAAAAAATAATTAC
Found at i:29253130 original size:4 final size:4
Alignment explanation
Indices: 29253121--29253187 Score: 55
Period size: 4 Copynumber: 16.8 Consensus size: 4
29253111 ATATGTTTTA
* * * *
29253121 AAAT AAAT AAAT AAAT AAAT AAAA ACAAC AAAT ATAT ATAT AAAT AAA-
1 AAAT AAAT AAAT AAAT AAAT AAAT A-AAT AAAT AAAT AAAT AAAT AAAT
* * *
29253169 AACT AATT AAAA AAAT AAA
1 AAAT AAAT AAAT AAAT AAA
29253188 AGAAATAATT
Statistics
Matches: 51, Mismatches: 10, Indels: 4
0.78 0.15 0.06
Matches are distributed among these distances:
3 2 0.04
4 46 0.90
5 3 0.06
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:29253624 original size:19 final size:21
Alignment explanation
Indices: 29253586--29253626 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
29253576 TCTTTTTTAA
*
29253586 AATCGTAAATAAGTAAAAAAT
1 AATCGTAAATAAGAAAAAAAT
29253607 AATCG-AAA-AAGAAAAAAAT
1 AATCGTAAATAAGAAAAAAAT
29253626 A
1 A
29253627 GTAAGCCACC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 11 0.58
20 3 0.16
21 5 0.26
ACGTcount: A:0.68, C:0.05, G:0.10, T:0.17
Consensus pattern (21 bp):
AATCGTAAATAAGAAAAAAAT
Found at i:29253894 original size:19 final size:19
Alignment explanation
Indices: 29253820--29253894 Score: 114
Period size: 19 Copynumber: 3.8 Consensus size: 19
29253810 AATCATATCT
* *
29253820 TCTAAGATTACATATTATA
1 TCTAAGATTGCATATCATA
29253839 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
29253860 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
29253879 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
29253895 CTCGAAGATT
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
19 34 0.65
21 18 0.35
ACGTcount: A:0.37, C:0.15, G:0.09, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:29253904 original size:17 final size:18
Alignment explanation
Indices: 29253823--29253904 Score: 58
Period size: 19 Copynumber: 4.3 Consensus size: 18
29253813 CATATCTTCT
* * *
29253823 AAGATTACATATTATATCT
1 AAGATTGCATATCA-ATCG
*
29253842 AAGATTGCATATATCATATCT
1 AAGATTGC--ATATCA-ATCG
*
29253863 AAGATTGCATATCATATCT
1 AAGATTGCATATCA-ATCG
*
29253882 AAGATTGCATATC-CTCG
1 AAGATTGCATATCAATCG
29253899 AAGATT
1 AAGATT
29253905 ATGTTTCCAT
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
17 8 0.14
19 31 0.54
21 18 0.32
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.37
Consensus pattern (18 bp):
AAGATTGCATATCAATCG
Found at i:29254607 original size:217 final size:219
Alignment explanation
Indices: 29254245--29254715 Score: 646
Period size: 217 Copynumber: 2.2 Consensus size: 219
29254235 TTTTTTAATA
* * * * * **
29254245 TGCCCCACTGCAATTTCAGGGGGATAAGACTTGCTTTCTTGAGTCTGCTCCACTGCAACTTCAGG
1 TGCCTCACTGCAACTTCAGGAGGATAAGACTTGATTACTTGAGTCTGCTCCACAACAACTTCAGG
* * **
29254310 GAGATAAGACTCAATGTGATCTACTCTACTGCAACTTTAGAGAGATAAGATCTGTGGTTTTAATC
66 GAGATAAGACTCAATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATC
* * * * ** * *
29254375 CGCTCCACTGCAACTTCAGGGAGACATGATT-T-GTTTATTTAGTATGCCCCACTGCAACTTCAG
131 CACTCCACTGCAACTTCAAGAAGACAGGATTATCGGCT-TTAACT-TGCCCCACTGCAACTTCAG
*
29254438 GGAGATAAGATTTGCCATCTTCAGTC
194 GGAAATAAGATTTGCCATCTTCAGTC
29254464 TGCCTCACTGCAACTTCAGGAGGATAAGACTTGATTACTT-AGTCTGCTCCACAACAACTTCAGG
1 TGCCTCACTGCAACTTCAGGAGGATAAGACTTGATTACTTGAGTCTGCTCCACAACAACTTCAGG
* *
29254528 GAGATAAGACT-AGATGCGATCTGCTCT-CTGTAACTTCAGAGAGATAAGATCTAAGGTTTTAAT
66 GAGATAAGACTCA-ATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAAT
* * *
29254591 CCACTCCACTGCAACTTCAAGAAGATAGGATTATCGGCTTTAACTTGCTCCATTGCAACTTCAGG
130 CCACTCCACTGCAACTTCAAGAAGACAGGATTATCGGCTTTAACTTGCCCCACTGCAACTTCAGG
*
29254656 GAAATAAGATTTGTCATCTTCAGTC
195 GAAATAAGATTTGCCATCTTCAGTC
29254681 TGCCTCACTGCAACTTCAGGAGGATAAGACTTGAT
1 TGCCTCACTGCAACTTCAGGAGGATAAGACTTGAT
29254716 GCGATCTGCT
Statistics
Matches: 223, Mismatches: 26, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
217 136 0.61
218 50 0.22
219 37 0.17
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (219 bp):
TGCCTCACTGCAACTTCAGGAGGATAAGACTTGATTACTTGAGTCTGCTCCACAACAACTTCAGG
GAGATAAGACTCAATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATC
CACTCCACTGCAACTTCAAGAAGACAGGATTATCGGCTTTAACTTGCCCCACTGCAACTTCAGGG
AAATAAGATTTGCCATCTTCAGTC
Found at i:29254817 original size:217 final size:216
Alignment explanation
Indices: 29254368--29255213 Score: 809
Period size: 217 Copynumber: 3.9 Consensus size: 216
29254358 GATCTGTGGT
* * ** * *
29254368 TTTAATCC-GCTCCACTGCAACTTCAGGGAGACATGATTTGTTTAT-TT-AGTATGCCCCACTGC
1 TTTAA-CCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-CCATCTTCAGTCTGCCTCACTGC
*
29254430 AACTTCAGG-GAGATAAGATTTGCCATCTTCAGTCTGC-CTCACTGCAACTTCAGGAGGATAAGA
64 AACTTCAGGAG-GATAAGACTTG-CATCTTCAGTCTGCTC-CACTGCAACTTCAGGAGGATAAGA
* * * * ** * * * *** * *
29254493 CTTGATTACTTAGTCTGCTCCACAACAACTTCAGGGAGATAAGA-CTA-GATGCGATCTGCT-CT
126 CTAGA-TGC-GA-TCTGCT-CTCTGCAACTTCAGAGAGATAAGATCAAGGTTTTAATCCGCTCCA
** * * *
29254555 CTGTAACTTCA-GAGAGATAAGATCTA-AGGT
187 CTACAACTTCAGGA-AGATAGGAT-TATCGGC
* * * * * * * *
29254585 TTTAATCC-ACTCCACTGCAACTTCAAGAAGATAGGATTATCGGC-T-TTAACT-TG-CTCCATT
1 TTTAA-CCTGCTCCACTGCAACTTCAGGGAGATAAGATT-T-GCCATCTTCAGTCTGCCT-CACT
* *
29254645 GCAACTTCAGG-GAAATAAGATTTGTCATCTTCAGTCTGC-CTCACTGCAACTTCAGGAGGATAA
62 GCAACTTCAGGAG-GATAAGACTTG-CATCTTCAGTCTGCTC-CACTGCAACTTCAGGAGGATAA
* * *
29254708 GACTTGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATTCAAGGTTTTAATCCACTCTAC
124 GACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGA-TCAAGGTTTTAATCCGCTCCAC
*
29254773 TACAACTTTAGGAAGATAGGATTATCGGC
188 TACAACTTCAGGAAGATAGGATTATCGGC
* *
29254802 TTTAACCTGCTCCACTACAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTACCTCACTGCAA
1 TTTAACCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAA
* * * *
29254867 CTTCAGGAGGATAAGACTTGCTTGTTTAGTCTGCTCCATTGCAACTTCAGG-GAGATAAGACTAG
66 CTTCAGGAGGATAAGACTTGCATCTTCAGTCTGCTCCACTGCAACTTCAGGAG-GATAAGACTAG
* *
29254931 ATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATC-TGTGATTTTAATCCGCTCCACTGCAA
130 ATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCAAG-G-TTTTAATCCGCTCCACTACAA
* *
29254995 CTTCAGGGAGATAGGATTGTCGGC
193 CTTCAGGAAGATAGGATTATCGGC
* * * *
29255019 TTGAATCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGTCATCTTCAGTCTGCCTCACTGCAA
1 TTTAACCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAA
*
29255084 CTTCAGGAGGATAAGACTTGCTTACTT-AGTCTGCTCCACTGCAACTTCAAGGA-GATAAGACTA
66 CTTCAGGAGGATAAGACTTGCAT-CTTCAGTCTGCTCCACTGCAACTTC-AGGAGGATAAGACTA
*
29255147 GATGTGAT-TGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCTCCACTACAA
129 GATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGAT-CAAGGTTTTAATCCGCTCCACTACAA
29255211 CTT
193 CTT
29255214 TAGGGAGACA
Statistics
Matches: 536, Mismatches: 68, Indels: 51
0.82 0.10 0.08
Matches are distributed among these distances:
213 20 0.04
214 6 0.01
215 6 0.01
216 72 0.13
217 392 0.73
218 36 0.07
219 4 0.01
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (216 bp):
TTTAACCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAA
CTTCAGGAGGATAAGACTTGCATCTTCAGTCTGCTCCACTGCAACTTCAGGAGGATAAGACTAGA
TGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCAAGGTTTTAATCCGCTCCACTACAACTT
CAGGAAGATAGGATTATCGGC
Found at i:29254875 original size:390 final size:390
Alignment explanation
Indices: 29254281--29255103 Score: 1172
Period size: 390 Copynumber: 2.1 Consensus size: 390
29254271 AGACTTGCTT
* ** *
29254281 TCTTGAGTCTG-CTCCACTGCAACTTCAGG-GAGATAAGACTCAATGTGATCTACTCTACTGCAA
1 TCTTCAGTCTGCCT-CACTGCAACTTCAGGAG-GATAAGACTTGATGCGATCTACTCTACTGCAA
* ** * * * *
29254344 CTTTAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGACATGATTTGT
64 CTTCAGAGAGATAAGATCTAAGGTTTTAATCCACTCCACTACAACTTCAGGAAGACAGGATTTG-
* ** * *
29254409 TTATTTAGTATGCCCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTG
128 TGATTTAACATGCCCCACTACAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTACCTCACTG
29254474 CAACTTCAGGAGGATAAGACTTGATTACTTAGTCTGCTCCACAACAACTTCAGGGAGATAAGACT
193 CAACTTCAGGAGGATAAGACTTGATTACTTAGTCTGCTCCACAACAACTTCAGGGAGATAAGACT
* *
29254539 AGATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCACTCCACTGCA
258 AGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGATTTTAATCCACTCCACTGCA
* * *
29254604 ACTTCAAGAAGATAGGATTATCGGCTTTAA-CTTGCTCCATTGCAACTTCAGGGAAATAAGATTT
323 ACTTCAAGAAGATAGGATTATCGGCTTGAATC-TGCTCCACTGCAACCTCAGGGAAATAAGATTT
29254668 GTCA
387 GTCA
*
29254672 TCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGATGCGATCTGCTCT-CTGCAACT
1 TCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGATGCGATCTACTCTACTGCAACT
* * *
29254736 TCAGAGAGATAAGAT-TCAAGGTTTTAATCCACTCTACTACAACTTTAGGAAGATAGGATTATCG
66 TCAGAGAGATAAGATCT-AAGGTTTTAATCCACTCCACTACAACTTCAGGAAGACAGGATT-T-G
* * *
29254800 -GCTTTAACCTGCTCCACTACAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTACCTCACTG
128 TGATTTAACATGCCCCACTACAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTACCTCACTG
* ** ***
29254864 CAACTTCAGGAGGATAAGACTTGCTTGTTTAGTCTGCTCCATTGCAACTTCAGGGAGATAAGACT
193 CAACTTCAGGAGGATAAGACTTGATTACTTAGTCTGCTCCACAACAACTTCAGGGAGATAAGACT
** *
29254929 AGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGCTCCACTGCA
258 AGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGATTTTAATCCACTCCACTGCA
* * * *
29254994 ACTTCAGGGAGATAGGATTGTCGGCTTGAATCTGCTCCACTGCAACCTCAGGGAGATAAGATTTG
323 ACTTCAAGAAGATAGGATTATCGGCTTGAATCTGCTCCACTGCAACCTCAGGGAAATAAGATTTG
29255059 TCA
388 TCA
29255062 TCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTG
1 TCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTG
29255104 CTTACTTAGT
Statistics
Matches: 385, Mismatches: 41, Indels: 13
0.88 0.09 0.03
Matches are distributed among these distances:
389 1 0.00
390 332 0.86
391 48 0.12
392 4 0.01
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (390 bp):
TCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGATGCGATCTACTCTACTGCAACT
TCAGAGAGATAAGATCTAAGGTTTTAATCCACTCCACTACAACTTCAGGAAGACAGGATTTGTGA
TTTAACATGCCCCACTACAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTACCTCACTGCAA
CTTCAGGAGGATAAGACTTGATTACTTAGTCTGCTCCACAACAACTTCAGGGAGATAAGACTAGA
TGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGATTTTAATCCACTCCACTGCAACT
TCAAGAAGATAGGATTATCGGCTTGAATCTGCTCCACTGCAACCTCAGGGAAATAAGATTTGTCA
Found at i:29254885 original size:173 final size:173
Alignment explanation
Indices: 29254518--29254886 Score: 598
Period size: 173 Copynumber: 2.1 Consensus size: 173
29254508 TGCTCCACAA
* *
29254518 CAACTTCAGG-GAGATAAGACTAGATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTAA
1 CAACTTCAGGAG-GATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAA
* * * *
29254582 GGTTTTAATCCACTCCACTGCAACTTCAAGAAGATAGGATTATCGGCTTTAACTTGCTCCATTGC
65 GGTTTTAATCCACTCCACTACAACTTCAAGAAGATAGGATTATCGGCTTTAACCTGCTCCACTAC
* *
29254647 AACTTCAGGGAAATAAGATTTGTCATCTTCAGTCTGCCTCACTG
130 AACTTCAGGGAAATAAGATTTGCCATCTTCAGTCTACCTCACTG
29254691 CAACTTCAGGAGGATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGAT-TCAA
1 CAACTTCAGGAGGATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCT-AA
* * *
29254755 GGTTTTAATCCACTCTACTACAACTTTAGGAAGATAGGATTATCGGCTTTAACCTGCTCCACTAC
65 GGTTTTAATCCACTCCACTACAACTTCAAGAAGATAGGATTATCGGCTTTAACCTGCTCCACTAC
*
29254820 AACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTACCTCACTG
130 AACTTCAGGGAAATAAGATTTGCCATCTTCAGTCTACCTCACTG
29254864 CAACTTCAGGAGGATAAGACTTG
1 CAACTTCAGGAGGATAAGACTTG
29254887 CTTGTTTAGT
Statistics
Matches: 182, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
172 1 0.01
173 180 0.99
174 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (173 bp):
CAACTTCAGGAGGATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAG
GTTTTAATCCACTCCACTACAACTTCAAGAAGATAGGATTATCGGCTTTAACCTGCTCCACTACA
ACTTCAGGGAAATAAGATTTGCCATCTTCAGTCTACCTCACTG
Found at i:29254913 original size:44 final size:44
Alignment explanation
Indices: 29254249--29255182 Score: 410
Period size: 44 Copynumber: 21.6 Consensus size: 44
29254239 TTAATATGCC
* * * *
29254249 CCACTGCAATTTCAGG-GGGATAAGACTTGCTTTCTTGAGTCTGCT
1 CCACTGCAACTTCAGGAGAGATAAGACTTGATGT-TT-AGTCTGCT
** * *
29254294 CCACTGCAACTTCAGG-GAGATAAGACTCAATG-TGA-TCTACT
1 CCACTGCAACTTCAGGAGAGATAAGACTTGATGTTTAGTCTGCT
* * * * *
29254335 CTACTGCAACTTTA-GAGAGATAAGATCTGTGGT-TTTAATCCGCT
1 CCACTGCAACTTCAGGAGAGATAAGA-CT-TGATGTTTAGTCTGCT
* * * * * * *
29254379 CCACTGCAACTTCAGG-GAGACATGATTTGTTTATTTAGTATGCC
1 CCACTGCAACTTCAGGAGAGATAAGACTTG-ATGTTTAGTCTGCT
* * *
29254423 CCACTGCAACTTCAGG-GAGATAAGATTTGCCATCTTCAGTCTGC-
1 CCACTGCAACTTCAGGAGAGATAAGACTTG--ATGTTTAGTCTGCT
29254467 CTCACTGCAACTTCAGGAG-GATAAGACTTGAT-TACTTAGTCTGCT
1 C-CACTGCAACTTCAGGAGAGATAAGACTTGATGT--TTAGTCTGCT
** * **
29254512 CCACAACAACTTCAGG-GAGATAAGACTAGATG-CGA-TCTGCT
1 CCACTGCAACTTCAGGAGAGATAAGACTTGATGTTTAGTCTGCT
* * * * * **
29254553 -CTCTGTAACTTCA-GAGAGATAAGA-TCTAAGGTTTTAATCCACT
1 CCACTGCAACTTCAGGAGAGATAAGACT-TGATG-TTTAGTCTGCT
* * *
29254596 CCACTGCAACTTCAAGA-AGATAGGA-TT-ATCGGCTTTA-ACTTGCT
1 CCACTGCAACTTCAGGAGAGATAAGACTTGAT--G-TTTAGTC-TGCT
* * * * *
29254640 CCATTGCAACTTCAGG-GAAATAAGATTTGTCATCTTCAGTCTGC-
1 CCACTGCAACTTCAGGAGAGATAAGACTTG--ATGTTTAGTCTGCT
**
29254684 CTCACTGCAACTTCAGGAG-GATAAGACTTGATG-CGA-TCTGCT
1 C-CACTGCAACTTCAGGAGAGATAAGACTTGATGTTTAGTCTGCT
* * * * **
29254726 -CTCTGCAACTTCA-GAGAGATAAGA-TTCAAGGTTTTAATCCACT
1 CCACTGCAACTTCAGGAGAGATAAGACTT-GATG-TTTAGTCTGCT
* * * * **
29254769 CTACTACAACTTTAGGA-AGATAGGA-TT-ATCGGCTTTAACCTGCT
1 CCACTGCAACTTCAGGAGAGATAAGACTTGAT--G-TTTAGTCTGCT
* * * * *
29254813 CCACTACAACTTCAGG-GAGATAAGATTTGCCATCTTCAGTCTAC-
1 CCACTGCAACTTCAGGAGAGATAAGACTTG--ATGTTTAGTCTGCT
*
29254857 CTCACTGCAACTTCAGGAG-GATAAGACTTGCTTGTTTAGTCTGCT
1 C-CACTGCAACTTCAGGAGAGATAAGACTTG-ATGTTTAGTCTGCT
* * **
29254902 CCATTGCAACTTCAGG-GAGATAAGACTAGATG-CGA-TCTGCT
1 CCACTGCAACTTCAGGAGAGATAAGACTTGATGTTTAGTCTGCT
* * *
29254943 -CTCTGCAACTTCA-GAGAGATAAGATCTGTGAT-TTTAATCCGCT
1 CCACTGCAACTTCAGGAGAGATAAGA-CT-TGATGTTTAGTCTGCT
* * *
29254986 CCACTGCAACTTCAGG-GAGATAGGA-TTG-TCGGCTTGAATCTGCT
1 CCACTGCAACTTCAGGAGAGATAAGACTTGAT--G-TTTAGTCTGCT
* * * *
29255030 CCACTGCAACCTCAGG-GAGATAAGATTTGTCATCTTCAGTCTGC-
1 CCACTGCAACTTCAGGAGAGATAAGACTTG--ATGTTTAGTCTGCT
*
29255074 CTCACTGCAACTTCAGGAG-GATAAGACTTGCT-TACTTAGTCTGCT
1 C-CACTGCAACTTCAGGAGAGATAAGACTTGATGT--TTAGTCTGCT
* * *
29255119 CCACTGCAACTTCAAG-GAGATAAGACTAGATG-TGA-T-TGCT
1 CCACTGCAACTTCAGGAGAGATAAGACTTGATGTTTAGTCTGCT
*
29255159 -CTCTGCAACTTCA-GAGAGATAAGA
1 CCACTGCAACTTCAGGAGAGATAAGA
29255183 TCCAAGGTTT
Statistics
Matches: 681, Mismatches: 132, Indels: 158
0.70 0.14 0.16
Matches are distributed among these distances:
38 1 0.00
39 29 0.04
40 67 0.10
41 48 0.07
42 21 0.03
43 31 0.05
44 307 0.45
45 167 0.25
46 5 0.01
48 5 0.01
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (44 bp):
CCACTGCAACTTCAGGAGAGATAAGACTTGATGTTTAGTCTGCT
Found at i:29254989 original size:173 final size:172
Alignment explanation
Indices: 29254518--29255012 Score: 529
Period size: 173 Copynumber: 2.9 Consensus size: 172
29254508 TGCTCCACAA
* *
29254518 CAACTTCAGG-GAGATAAGACTAGATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTAA
1 CAACTTCAGGAG-GATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATC-AA
* ** * * * * * * *
29254582 GGTTTTAATCCACTCCACTGCAACTTCAAGAAGATAGGATTATCGGCTTTAACTTGCTCCATTGC
64 GGATGCAATCCACTCTACTACAACTTCAGGAAGATAAGATTATCGACTTTAACCTGCTCCACTGC
* * *
29254647 AACTTCAGGGAAATAAGATTTGTCATCTTCAGTCTGCCTCACTG
129 AACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTACCTCACTG
29254691 CAACTTCAGGAGGATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATTCAAG
1 CAACTTCAGGAGGATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGA-TCAAG
* ** * * * *
29254756 GTTTTAATCCACTCTACTACAACTTTAGGAAGATAGGATTATCGGCTTTAACCTGCTCCACTACA
65 GATGCAATCCACTCTACTACAACTTCAGGAAGATAAGATTATCGACTTTAACCTGCTCCACTGCA
29254821 ACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTACCTCACTG
130 ACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTACCTCACTG
* ** *
29254864 CAACTTCAGGAGGATAAGACTTGCTTGTTTAGTCTGCTC-CATTGCAACTTCAGGGAGATAAGA-
1 CAACTTCAGGAGGATAAGACTTG-ATG-CGA-TCTGCTCTC--TGCAACTTCAGAGAGATAAGAT
* * ** * * *
29254927 CTA-GATGCGATCTGCTCT-CTGCAACTTCA-GAGAGATAAGATCTGT-GATTTTAATCC-GCTC
61 CAAGGATGCAATCCACTCTACTACAACTTCAGGA-AGATAAGAT-TATCGACTTTAA-CCTGCTC
*
29254987 CACTGCAACTTCAGGGAGATAGGATT
123 CACTGCAACTTCAGGGAGATAAGATT
29255013 GTCGGCTTGA
Statistics
Matches: 281, Mismatches: 31, Indels: 20
0.85 0.09 0.06
Matches are distributed among these distances:
172 2 0.01
173 230 0.82
174 18 0.06
175 4 0.01
176 7 0.02
177 20 0.07
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (172 bp):
CAACTTCAGGAGGATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCAAGG
ATGCAATCCACTCTACTACAACTTCAGGAAGATAAGATTATCGACTTTAACCTGCTCCACTGCAA
CTTCAGGGAGATAAGATTTGCCATCTTCAGTCTACCTCACTG
Found at i:29255245 original size:217 final size:217
Alignment explanation
Indices: 29254677--29255246 Score: 842
Period size: 217 Copynumber: 2.6 Consensus size: 217
29254667 TGTCATCTTC
*
29254677 AGTCTGC-CTCACTGCAACTTC-AGGAGGATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAG
1 AGTCTGCTC-CACTGCAACTTCAAGGA-GATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAG
* * * * * *
29254740 AGAGATAAGATTCAAGGTTTTAATCCACTCTACTACAACTTTAGGAAGATAGGATTATCGGCTTT
64 AGAGATAAGATCCAAGGTTTTAATCCGCTCCACTACAACTTTAGGGAGATAGGATTGTCGGCTTA
* *
29254805 AACCTGCTCCACTACAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTACCTCACTGCAACTT
129 AATCTGCTCCACTACAACCTCAGGGAGATAAGATTTGCCATCTTCAGTCTACCTCACTGCAACTT
**
29254870 CAGGAGGATAAGACTTGCTTGTTT
194 CAGGAGGATAAGACTTGCTTACTT
* *
29254894 AGTCTGCTCCATTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAG
1 AGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAG
*** * * * *
29254959 AGATAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGTCGGCTTGAA
66 AGATAAGATCCAAGGTTTTAATCCGCTCCACTACAACTTTAGGGAGATAGGATTGTCGGCTTAAA
* * *
29255024 TCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGTCATCTTCAGTCTGCCTCACTGCAACTTCA
131 TCTGCTCCACTACAACCTCAGGGAGATAAGATTTGCCATCTTCAGTCTACCTCACTGCAACTTCA
29255089 GGAGGATAAGACTTGCTTACTT
196 GGAGGATAAGACTTGCTTACTT
*
29255111 AGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTAGATGTGAT-TGCTCTCTGCAACTTCAGAG
1 AGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAG
* *
29255175 AGATAAGATCCAAGGTTTTAATCCGCTCCACTACAACTTTAGGGAGACATGGCTTGGT-GGCTTA
66 AGATAAGATCCAAGGTTTTAATCCGCTCCACTACAACTTTAGGGAGATA-GGATT-GTCGGCTTA
29255239 AATCTGCT
129 AATCTGCT
29255247 TCCCACTATC
Statistics
Matches: 315, Mismatches: 34, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
216 62 0.20
217 247 0.78
218 6 0.02
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (217 bp):
AGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAG
AGATAAGATCCAAGGTTTTAATCCGCTCCACTACAACTTTAGGGAGATAGGATTGTCGGCTTAAA
TCTGCTCCACTACAACCTCAGGGAGATAAGATTTGCCATCTTCAGTCTACCTCACTGCAACTTCA
GGAGGATAAGACTTGCTTACTT
Found at i:29255392 original size:132 final size:132
Alignment explanation
Indices: 29255215--29255625 Score: 669
Period size: 132 Copynumber: 3.1 Consensus size: 132
29255205 CTACAACTTT
* *
29255215 AGGGAGACATGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATATGATTTGTCGTC
1 AGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCGTC
* *
29255280 TTCGATCTGCTCTACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGC
66 TTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGC
29255345 TC
131 TC
*
29255347 AGGGAGACAAGGCTTGGTGCCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCGTC
1 AGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCGTC
* * *
29255412 TTCAATCTTCTCCACTATTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGC
66 TTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGC
29255477 TC
131 TC
* * * *
29255479 AGGGAGACAAGGCTTGGGGGCTTAAATCTGCTTCCCATTATCTTGGAAAGATAAGATTTTTCATC
1 AGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCGTC
* * * * *
29255544 CTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACGATCCTCAACCTACTCCACTGTTGC
66 TTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGC
29255609 TC
131 TC
29255611 AGGGAGACAAGGCTT
1 AGGGAGACAAGGCTT
29255626 AGTGTTTCAC
Statistics
Matches: 259, Mismatches: 20, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
132 259 1.00
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (132 bp):
AGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCGTC
TTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGC
TC
Found at i:29257801 original size:28 final size:28
Alignment explanation
Indices: 29257739--29257835 Score: 133
Period size: 28 Copynumber: 3.5 Consensus size: 28
29257729 TATTAAGTCT
*
29257739 GCACACTCAGTGCTATATAATC-AACTC
1 GCACACTTAGTGCTATATAATCAAACTC
29257766 GCACACTTAGTGCTATATAATCAAACTC
1 GCACACTTAGTGCTATATAATCAAACTC
* * * *
29257794 GCACACTTAGTGCTGTACAATTTAAACCC
1 GCACACTTAGTGCTATATAA-TCAAACTC
29257823 GCACACTTAGTGC
1 GCACACTTAGTGC
29257836 CAATCTCATG
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 21 0.33
28 23 0.37
29 19 0.30
ACGTcount: A:0.32, C:0.28, G:0.13, T:0.27
Consensus pattern (28 bp):
GCACACTTAGTGCTATATAATCAAACTC
Found at i:29258299 original size:12 final size:12
Alignment explanation
Indices: 29258282--29258308 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
29258272 TGGGCATACT
29258282 TATGTATATATA
1 TATGTATATATA
29258294 TATGTATATATA
1 TATGTATATATA
29258306 TAT
1 TAT
29258309 ACTTCGGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (12 bp):
TATGTATATATA
Found at i:29266149 original size:27 final size:26
Alignment explanation
Indices: 29266132--29266201 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 26
29266122 ATATTAAGTC
29266132 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATAT-ATCAACT
*
29266159 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATAT-ATC-AACT
*
29266187 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
29266202 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (26 bp):
CGCACACTCAGTGCTATATATCAACT
Found at i:29266195 original size:28 final size:28
Alignment explanation
Indices: 29266132--29266229 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
29266122 ATATTAAGTC
*
29266132 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
29266159 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
29266187 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
29266216 CGCACACTTAGTGC
1 CGCACACTTAGTGC
29266230 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:29266693 original size:12 final size:12
Alignment explanation
Indices: 29266676--29266702 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
29266666 TGGGCATACT
29266676 TATGTATATATA
1 TATGTATATATA
29266688 TATGTATATATA
1 TATGTATATATA
29266700 TAT
1 TAT
29266703 ACTTCGGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (12 bp):
TATGTATATATA
Found at i:29274373 original size:18 final size:21
Alignment explanation
Indices: 29274338--29274383 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 21
29274328 CCTTTTTTAA
29274338 AATCGTAAATAAGTAAAAAAT
1 AATCGTAAATAAGTAAAAAAT
29274359 AATCG-AAA-AAG-AAAAAA-
1 AATCGTAAATAAGTAAAAAAT
*
29274376 AATAGTAA
1 AATCGTAA
29274384 GCCACCTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
17 4 0.17
18 8 0.35
19 3 0.13
20 3 0.13
21 5 0.22
ACGTcount: A:0.67, C:0.04, G:0.11, T:0.17
Consensus pattern (21 bp):
AATCGTAAATAAGTAAAAAAT
Found at i:29274376 original size:19 final size:21
Alignment explanation
Indices: 29274338--29274376 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
29274328 CCTTTTTTAA
*
29274338 AATCGTAAATAAGTAAAAAAT
1 AATCGTAAATAAGAAAAAAAT
29274359 AATCG-AAA-AAGAAAAAAA
1 AATCGTAAATAAGAAAAAAA
29274377 ATAGTAAGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.69, C:0.05, G:0.10, T:0.15
Consensus pattern (21 bp):
AATCGTAAATAAGAAAAAAAT
Found at i:29274576 original size:22 final size:21
Alignment explanation
Indices: 29274541--29274598 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
29274531 TAAGGGTATC
* * *
29274541 TACAAATTAAATCTCTGAGAT
1 TACAAATCATATCTCTAAGAT
29274562 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
*
29274585 TACATATCATATCT
1 TACAAATCATATCT
29274599 AAGATTGCTT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
21 4 0.13
22 17 0.55
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:29274614 original size:21 final size:19
Alignment explanation
Indices: 29274577--29274651 Score: 123
Period size: 19 Copynumber: 3.8 Consensus size: 19
29274567 AATCATATCT
*
29274577 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
29274596 TCTAAGATTGCTTATATCATA
1 TCTAAGATTGC--ATATCATA
29274617 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
29274636 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
29274652 CTCGAAGATT
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
19 34 0.64
21 19 0.36
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:29278795 original size:47 final size:47
Alignment explanation
Indices: 29278625--29279119 Score: 633
Period size: 47 Copynumber: 10.4 Consensus size: 47
29278615 CCTTTCGGGA
* * * * * * * *
29278625 CTTATCACATTTATGCACTTTCACATCCATTACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
29278672 CTGTGTCAC-TATATACAACTTTCACATTCATCACATCGGCCATTAGGC
1 CT-TATCACATATATAC-ACTTTCACATTCATCACATCGGCCATTAGGC
*
29278720 CTTATACACATATATACACTTTCACATTCATCGCATCGGCCATTAGGC
1 CTTAT-CACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29278768 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
29278815 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
29278862 C-TATCACACATATACACTTTCACATTCATCATCATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCA-CATCGGCCATTAGGC
* *
29278909 CTTATTACATATATACATACACTTTCACATTCATCACATCGAGCTATTAGGC
1 CTTA-T-CACATAT--ATACACTTTCACATTCATCACATCG-GCCATTAGGC
* * *
29278961 CTTATTACACATATACACTTTCACATTCATC-CA-CGTCGCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGC-CATTAGGC
*
29279007 CTTATCACATTACATACAC-TTCACATTCATCACAATCGGCCATTAGGC
1 CTTATCACA-TATATACACTTTCACATTCATCAC-ATCGGCCATTAGGC
* *
29279055 CTTATTACATATATACACTTTCACATTCATCACATCGGCTA-TAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
29279101 CTTATCACACATATACACT
1 CTTATCACATATATACACT
29279120 CTCTTGGCTG
Statistics
Matches: 399, Mismatches: 32, Indels: 35
0.86 0.07 0.08
Matches are distributed among these distances:
45 1 0.00
46 79 0.20
47 137 0.34
48 122 0.31
49 11 0.03
50 9 0.02
51 6 0.02
52 34 0.09
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:29279112 original size:240 final size:240
Alignment explanation
Indices: 29278684--29279119 Score: 740
Period size: 240 Copynumber: 1.8 Consensus size: 240
29278674 GTGTCACTAT
29278684 ATACAACTTTCACATTCATCACATCGGCCATTAGGCCTTATACACATATATACACTTTCACATTC
1 ATACAACTTTCACATTCATCACATCGGCCATTAGGCCTTATACACA-ATATACACTTTCACATTC
*
29278749 ATCGCATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG
65 ATCGCATCGGCCATTAGGCCTTATCACATACATACACTTTCACATTCATCACATCGGCCATTAGG
29278814 CCTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTATCACACATATACAC
130 CCTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTATCACACATATACAC
29278879 TTTCACATTCATCATCATCGGCTATTAGGCCTTATTACATATATAC
195 TTTCACATTCATCATCATCGGCTATTAGGCCTTATTACATATATAC
*
29278925 ATAC-ACTTTCACATTCATCACATCGAGCTATTAGGCCTTATTACAC-ATATACACTTTCACATT
1 ATACAACTTTCACATTCATCACATCG-GCCATTAGGCCTTA-TACACAATATACACTTTCACATT
*
29278988 CATC-CA-CGTCGCATTAGGCCTTATCACATTACATACAC-TTCACATTCATCACAATCGGCCAT
64 CATCGCATCGGC-CATTAGGCCTTATCACA-TACATACACTTTCACATTCATCAC-ATCGGCCAT
29279050 TAGGCCTTATTACATATATACACTTTCACATTCATCACATCGGCTA-TAGGCCTTATCACACATA
126 TAGGCCTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGCC-TATCACACATA
29279114 TACACT
190 TACACT
29279120 CTCTTGGCTG
Statistics
Matches: 186, Mismatches: 3, Indels: 13
0.92 0.01 0.06
Matches are distributed among these distances:
238 3 0.02
239 39 0.21
240 122 0.66
241 17 0.09
242 5 0.03
ACGTcount: A:0.31, C:0.29, G:0.08, T:0.32
Consensus pattern (240 bp):
ATACAACTTTCACATTCATCACATCGGCCATTAGGCCTTATACACAATATACACTTTCACATTCA
TCGCATCGGCCATTAGGCCTTATCACATACATACACTTTCACATTCATCACATCGGCCATTAGGC
CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTATCACACATATACACT
TTCACATTCATCATCATCGGCTATTAGGCCTTATTACATATATAC
Found at i:29283415 original size:91 final size:94
Alignment explanation
Indices: 29283255--29283492 Score: 317
Period size: 91 Copynumber: 2.6 Consensus size: 94
29283245 AAATGATAGT
* * *
29283255 ATGGCGTAATGGCTGATGTGATGAATGTGAAAGTGTAATATATATGTGATAAGGCCTAATGGCCG
1 ATGGCCTAATGGCCGATGTGATGAA-GTGAAAGTGTAATATATATGTGATAAGGCCTAATGGCCA
29283320 ATGTGATGAATGTGAAAGTGTATATATGTG
65 ATGTGATGAATGTGAAAGTGTATATATGTG
29283350 ATGGCCTAATGGCCGATGTGATGAA-TGAAAGTGT-ATATAT-TGTGATAAGGCCTAATGGCCAA
1 ATGGCCTAATGGCCGATGTGATGAAGTGAAAGTGTAATATATATGTGATAAGGCCTAATGGCCAA
29283412 TGTGATGAATGTGAAAGTGTATATATGTG
66 TGTGATGAATGTGAAAGTGTATATATGTG
* * * * * *
29283441 ACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGT-ATA-A-ATGTGATAAG
1 --ATGGCCTAATGGCCGATGTGAT-GAAGTGAAAGTGTAATATATATGTGATAAG
29283493 TCCCGAAGGG
Statistics
Matches: 129, Mismatches: 9, Indels: 11
0.87 0.06 0.07
Matches are distributed among these distances:
91 50 0.39
92 6 0.05
93 26 0.20
94 12 0.09
95 35 0.27
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (94 bp):
ATGGCCTAATGGCCGATGTGATGAAGTGAAAGTGTAATATATATGTGATAAGGCCTAATGGCCAA
TGTGATGAATGTGAAAGTGTATATATGTG
Found at i:29283464 original size:47 final size:47
Alignment explanation
Indices: 29283261--29283492 Score: 301
Period size: 47 Copynumber: 4.9 Consensus size: 47
29283251 TAGTATGGCG
**
29283261 TAATGGCTGATGTGATGAATGTGAAAGTGTAATATATATGTGATAAGGCC
1 TAATGGCCAATGTGATGAATGTGAAAGTG---TATATATGTGATAAGGCC
*
29283311 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT--GGCC
1 TAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
*
29283356 TAATGGCCGATGTGATGAA--TGAAAGTGTATATATTGTGATAAGGCC
1 TAATGGCCAATGTGATGAATGTGAAAGTGTATATA-TGTGATAAGGCC
* *
29283402 TAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCC
1 TAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* * * * *
29283449 GAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 TAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAG
29283493 TCCCGAAGGG
Statistics
Matches: 166, Mismatches: 11, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
43 14 0.08
44 6 0.04
45 23 0.14
46 22 0.13
47 59 0.36
48 14 0.08
50 28 0.17
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
TAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
Found at i:29284919 original size:40 final size:40
Alignment explanation
Indices: 29284875--29285198 Score: 437
Period size: 40 Copynumber: 8.2 Consensus size: 40
29284865 GGCTAAATCT
29284875 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
1 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
*
29284915 CGAAGAGCATTTGTGCTAGTGATGTATCCGGACTAAGTTC
1 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
*
29284955 CGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTTC
1 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
* * *
29284995 CAAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTTC
1 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
29285035 CGAAGAGCATTCGTGCTAGTGATGTATCCGG-CTAAG-TC
1 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
29285073 TCGAAGAGCATTCGTGCTAGTGATGTATCC-GACTAAGTT-
1 -CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
* **
29285112 -GAAGAGCATTCGTGCTAGTGATATATCCGTG-CTAA-ACC
1 CGAAGAGCATTCGTGCTAGTGATGTATCCG-GACTAAGTTC
* * * * * * * *
29285150 CGAAGAGCATTTGTGCTCGTGTTATATCTGGGCTAGGTCC
1 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
29285190 CGAAGAGCA
1 CGAAGAGCA
29285199 ATCATGCTGG
Statistics
Matches: 259, Mismatches: 16, Indels: 18
0.88 0.05 0.06
Matches are distributed among these distances:
37 27 0.10
38 8 0.03
39 68 0.26
40 156 0.60
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (40 bp):
CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
Found at i:29285416 original size:25 final size:25
Alignment explanation
Indices: 29285375--29285426 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
29285365 TGTGTAATAA
29285375 TGAATGAATAAGAGCACTATGTGTG
1 TGAATGAATAAGAGCACTATGTGTG
* *
29285400 TGAATG-ATTAGAGGCACTGTGTGTG
1 TGAATGAATAAGA-GCACTATGTGTG
29285425 TG
1 TG
29285427 CGAATTCCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.29, C:0.08, G:0.33, T:0.31
Consensus pattern (25 bp):
TGAATGAATAAGAGCACTATGTGTG
Found at i:29288978 original size:47 final size:47
Alignment explanation
Indices: 29288878--29289160 Score: 431
Period size: 47 Copynumber: 5.9 Consensus size: 47
29288868 TAGTATGGCG
*
29288878 TAATGGCTGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
29288927 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
*
29288974 TAATGGCCGATGTGATGAATGCGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
*
29289023 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTTATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* *
29289070 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* * * * * *
29289117 GAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
29289161 TCCGAAGGGC
Statistics
Matches: 217, Mismatches: 15, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
47 143 0.66
49 74 0.34
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
Found at i:29289042 original size:96 final size:96
Alignment explanation
Indices: 29288878--29289160 Score: 453
Period size: 96 Copynumber: 3.0 Consensus size: 96
29288868 TAGTATGGCG
*
29288878 TAATGGCTGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
29288943 GAATGTGAAAGTGTATATATGTGATAAGGCC
66 GAATGTGAAAGTGTATATATGTGATAAGGCC
*
29288974 TAATGGCCGATGTGATGAATGCGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
*
29289039 GAATGTGAAAGTGTATATATGTTATAAGGCC
66 GAATGTGAAAGTGTATATATGTGATAAGGCC
* * * * * *
29289070 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCAACGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
* *
29289133 GGATGTGAAAGTGTATAAATGTGATAAG
66 GAATGTGAAAGTGTATATATGTGATAAG
29289161 TCCGAAGGGC
Statistics
Matches: 174, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
94 53 0.30
96 121 0.70
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (96 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
GAATGTGAAAGTGTATATATGTGATAAGGCC
Found at i:29299656 original size:138 final size:138
Alignment explanation
Indices: 29299506--29300064 Score: 870
Period size: 138 Copynumber: 4.1 Consensus size: 138
29299496 AGAGAACACA
* * **
29299506 AATATACTTAATATATGAATTTAATTCATACAAAATATTAATTCTATATATTTTATTGAATTTAT
1 AATATAATTAATATATGAATTTAATTCATACAAAATATTAATTGTATATATTTTACCGAATTTAT
*
29299571 TAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTT
66 TAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTCTT
29299636 TTGGAAAG
131 TTGGAAAG
* * *
29299644 AATATAATTAATATATGAATTTAATTCATACAAAATATTAATTATATCTATTTTACCCAATTTAT
1 AATATAATTAATATATGAATTTAATTCATACAAAATATTAATTGTATATATTTTACCGAATTTAT
* * * * *
29299709 TAATATAAATAGTTATATTAATTAATGTCGGTCAAAATAAAAAAGACATGAAAATGAATATTATT
66 TAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTCTT
29299774 TTGGAAAG
131 TTGGAAAG
* *
29299782 AATATAATTAATATATGAATTTGATTTATACAAAATATTAATTGTATATATTTTACCGAATTTAT
1 AATATAATTAATATATGAATTTAATTCATACAAAATATTAATTGTATATATTTTACCGAATTTAT
* * *
29299847 TAATATAAAAAATTATATTAATTAATTTCGGTTAAAATATAAAAGACATGAAAATTAATATTCTT
66 TAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTCTT
*
29299912 TTAGAAAG
131 TTGGAAAG
* ** *
29299920 AATATAATTAATATATGAAATCGATTCATACAAAATATTAATTGTATATGTTTTACCGAATTTAT
1 AATATAATTAATATATGAATTTAATTCATACAAAATATTAATTGTATATATTTTACCGAATTTAT
* *
29299985 TAATATAAACAGTTATATTAATTAATTTTGGTCAAAATATAAAAGACAT-AAAA-AAATATTCTT
66 TAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTCTT
29300048 TTGGAAAG
131 TTGGAAAG
*
29300056 GATATAATT
1 AATATAATT
29300065 CATTTTTCTA
Statistics
Matches: 385, Mismatches: 36, Indels: 2
0.91 0.09 0.00
Matches are distributed among these distances:
136 24 0.06
137 4 0.01
138 357 0.93
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.40
Consensus pattern (138 bp):
AATATAATTAATATATGAATTTAATTCATACAAAATATTAATTGTATATATTTTACCGAATTTAT
TAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTCTT
TTGGAAAG
Found at i:29300162 original size:76 final size:75
Alignment explanation
Indices: 29300082--29300253 Score: 222
Period size: 76 Copynumber: 2.3 Consensus size: 75
29300072 CTAACTTTTC
* *
29300082 ATTAATAAGAGAATAATCCTATATTC-TTTTAAAAATAATATAATTATTTTTTTCTAACTTTCTA
1 ATTAATAAG-GAATAATCCTATATTCTTTTTAAAAATAATATAATT-CTTTTTTCTAACTTTCCA
29300146 ATTGTCC-TCTCT
64 ATTG-CCGTCTCT
* ** * *
29300158 ATTAACAAGGGAATAATCCTATATTCTTTTTGGAAATAATATAATTCTTTTTTCTAATTTTCCAT
1 ATTAATAA-GGAATAATCCTATATTCTTTTTAAAAATAATATAATTCTTTTTTCTAACTTTCCAA
29300223 TTGCCGTCTCT
65 TTGCCGTCTCT
29300234 ATTAATAAGGAAATAATCCT
1 ATTAATAAGG-AATAATCCT
29300254 GGTTTTCCTT
Statistics
Matches: 84, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
75 4 0.05
76 62 0.74
77 18 0.21
ACGTcount: A:0.34, C:0.14, G:0.07, T:0.45
Consensus pattern (75 bp):
ATTAATAAGGAATAATCCTATATTCTTTTTAAAAATAATATAATTCTTTTTTCTAACTTTCCAAT
TGCCGTCTCT
Found at i:29300601 original size:150 final size:150
Alignment explanation
Indices: 29300390--29300687 Score: 553
Period size: 150 Copynumber: 2.0 Consensus size: 150
29300380 GAGAAAGTGG
* *
29300390 CTGTTCGTTGGACTATGTAGAGGCCGAGATGTTTTCGTTGCAGCTTGGAATGGACATTGAATTAG
1 CTGTTCGTTGGACTATGTAGAGGCCAAGATGTTTTCGTTGCAGCTTCGAATGGACATTGAATTAG
29300455 CAACATCCTTTCAACATTT-CAGGTAAATAAGGTACATTTTCAACCCTATTTGAACCTAATTCGT
66 CAACATCCTTTCAACATTTCCA-GTAAATAAGGTACATTTTCAACCCTATTTGAACCTAATTCGT
29300519 TCCTCGTACATAGATCCTTGA
130 TCCTCGTACATAGATCCTTGA
29300540 CTGTTCGTTGGACTATGTAGAGGCCAAGATGTTTTCGTTGCAGCTTCGAATGGACATTGAATTAG
1 CTGTTCGTTGGACTATGTAGAGGCCAAGATGTTTTCGTTGCAGCTTCGAATGGACATTGAATTAG
29300605 CAACATCCTTTCAACATTTCCAGTAAATAAGGTACATTTTCAACCCTATTTGAACCTAATTCGTT
66 CAACATCCTTTCAACATTTCCAGTAAATAAGGTACATTTTCAACCCTATTTGAACCTAATTCGTT
*
29300670 CCTCGTGCATAGATCCTT
131 CCTCGTACATAGATCCTT
29300688 AGTTGTCGAT
Statistics
Matches: 144, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
150 142 0.99
151 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (150 bp):
CTGTTCGTTGGACTATGTAGAGGCCAAGATGTTTTCGTTGCAGCTTCGAATGGACATTGAATTAG
CAACATCCTTTCAACATTTCCAGTAAATAAGGTACATTTTCAACCCTATTTGAACCTAATTCGTT
CCTCGTACATAGATCCTTGA
Found at i:29306992 original size:140 final size:138
Alignment explanation
Indices: 29306731--29307156 Score: 629
Period size: 140 Copynumber: 3.1 Consensus size: 138
29306721 GAGAACATAG
*
29306731 ATATATTTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATT
* * * * *
29306796 AATATAAACAATTGTATTAACTAATTTCGTTCAAAATATAAAAT-ACATGAAAATTAATATTATT
66 AATATAAATAATTATATTAATTAATTTCGATCAAAATAT-AAATGACATGAAAATTAATATTCTT
29306860 TTGGAAAGA
130 TTGGAAAGA
* * *
29306869 GTATAATTAATATATATGAATCTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTTA
1 ATATAATT-A-ATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTA
* * * * * *
29306934 TTAATAAAAATAATTATTTTAATTAATTTTGGTCAAAATATAATTGACATGGAAATTAATATTCT
64 TTAATATAAATAATTATATTAATTAATTTCGATCAAAATATAAATGACATGAAAATTAATATTCT
29306999 TTTGGAAAGA
129 TTTGGAAAGA
* *
29307009 ATATAATTAATATATGAATTTGATTCATAAAAAAATTATTAATTGTATATATTTTACTGAATTTA
1 ATATAATTAATATATGAATTTGATTCAT-ACAAAA-TATTAATTGTATATATTTTACCGAATTTA
*
29307074 TTAATATAAATAATTATATTAATTAATTTCGATCAAAATATAAAAGACATGAAAATTAATATTCT
64 TTAATATAAATAATTATATTAATTAATTTCGATCAAAATATAAATGACATGAAAATTAATATTCT
*
29307139 TTTAGAAAGA
129 TTTGGAAAGA
29307149 ATATAATT
1 ATATAATT
29307157 CCTTTTTCTA
Statistics
Matches: 256, Mismatches: 27, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
138 24 0.09
139 10 0.04
140 222 0.87
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.42
Consensus pattern (138 bp):
ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATT
AATATAAATAATTATATTAATTAATTTCGATCAAAATATAAATGACATGAAAATTAATATTCTTT
TGGAAAGA
Found at i:29310361 original size:15 final size:15
Alignment explanation
Indices: 29310332--29310393 Score: 52
Period size: 15 Copynumber: 3.9 Consensus size: 15
29310322 ATGTTTCAGT
* *
29310332 AAGATTGAAAGAGAA
1 AAGAGTGAAAAAGAA
*
29310347 ATGAGTGAAAAAGAAA
1 AAGAGTGAAAAAG-AA
29310363 AAGAGACTGAAAAAGAA
1 AAGAG--TGAAAAAGAA
* *
29310380 ACGGGTGAAAAAGA
1 AAGAGTGAAAAAGA
29310394 CGGAAGTGAA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
15 19 0.50
16 6 0.16
17 5 0.13
18 8 0.21
ACGTcount: A:0.60, C:0.03, G:0.27, T:0.10
Consensus pattern (15 bp):
AAGAGTGAAAAAGAA
Found at i:29311109 original size:45 final size:45
Alignment explanation
Indices: 29311060--29311203 Score: 159
Period size: 45 Copynumber: 3.2 Consensus size: 45
29311050 TCAGTCACGA
* *
29311060 TCTTATTTATTTTTGACATCA-TGTCATAGTGTCTTTCAACTATAG
1 TCTTATTCATTTCTGACAT-AGTGTCATAGTGTCTTTCAACTATAG
** *
29311105 TCTTATTCATTTCTGGTATAGTGTCATAGTGTCTTTCAACTATGG
1 TCTTATTCATTTCTGACATAGTGTCATAGTGTCTTTCAACTATAG
* * * *
29311150 TCTTATTCATTTC-CAGTATAGT-TCCATAGTGTCTTTTAACTATGG
1 TCTTATTCATTTCTGA-CATAGTGT-CATAGTGTCTTTCAACTATAG
29311195 TCTTATTCA
1 TCTTATTCA
29311204 ATTTTCAAGC
Statistics
Matches: 88, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
44 2 0.02
45 86 0.98
ACGTcount: A:0.22, C:0.17, G:0.13, T:0.48
Consensus pattern (45 bp):
TCTTATTCATTTCTGACATAGTGTCATAGTGTCTTTCAACTATAG
Found at i:29311162 original size:21 final size:21
Alignment explanation
Indices: 29311093--29311162 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
29311083 TCATAGTGTC
*
29311093 TTTCAACTATAGTCTTATTCA
1 TTTCAACTATGGTCTTATTCA
*** *
29311114 TTTCTGGTATAGTGTCATAGTGTC-
1 TTTCAACTAT-G-GTCTTA-T-TCA
29311138 TTTCAACTATGGTCTTATTCA
1 TTTCAACTATGGTCTTATTCA
29311159 TTTC
1 TTTC
29311163 CAGTATAGTT
Statistics
Matches: 35, Mismatches: 9, Indels: 10
0.65 0.17 0.19
Matches are distributed among these distances:
20 2 0.06
21 12 0.34
22 5 0.14
23 6 0.17
24 8 0.23
25 2 0.06
ACGTcount: A:0.21, C:0.17, G:0.13, T:0.49
Consensus pattern (21 bp):
TTTCAACTATGGTCTTATTCA
Found at i:29314335 original size:75 final size:75
Alignment explanation
Indices: 29314231--29314411 Score: 272
Period size: 75 Copynumber: 2.4 Consensus size: 75
29314221 CACTTATTAA
* * * *
29314231 AAAAGAAAATAAGGATTATTCCCTAATTAATAGGGAAGGCAAATAAAAAGTTAGAAAAATGAATT
1 AAAAGAATAT-AGGATTATTCCCTTATTAATAGAGAAAGCAAATAAAAAGTTAGAAAAATGAATT
*
29314296 ATATTCTTTCC
65 ATATACTTTCC
* * *
29314307 AAAAGAATATAGGATCATTCCCTTATTAATAGAGAAAGCAAATGAAAAGTTAGAAAAATGAATTG
1 AAAAGAATATAGGATTATTCCCTTATTAATAGAGAAAGCAAATAAAAAGTTAGAAAAATGAATTA
29314372 TATACTTTCC
66 TATACTTTCC
*
29314382 AAAAGAATATAGGATTATTCCCTTGTTAAT
1 AAAAGAATATAGGATTATTCCCTTATTAAT
29314412 GGAACGTTAG
Statistics
Matches: 95, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
75 86 0.91
76 9 0.09
ACGTcount: A:0.46, C:0.10, G:0.14, T:0.29
Consensus pattern (75 bp):
AAAAGAATATAGGATTATTCCCTTATTAATAGAGAAAGCAAATAAAAAGTTAGAAAAATGAATTA
TATACTTTCC
Found at i:29314677 original size:138 final size:138
Alignment explanation
Indices: 29314429--29315126 Score: 1207
Period size: 138 Copynumber: 5.1 Consensus size: 138
29314419 TAGAAAAATG
*
29314429 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTATTTTATATTTTGACCTAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTATTTTATATTTTGACCGAAATTAATTAA
*
29314494 TATAACTGTTTATATTAATAAATTCAGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
66 TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
*
29314559 CAAATATT
131 CATATATT
* *
29314567 AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTATTTTATATTTTGATCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTATTTTATATTTTGACCGAAATTAATTAA
*
29314632 TATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
66 TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
29314697 CATATATT
131 CATATATT
* *
29314705 AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTATTTTATATTTTGATCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTATTTTATATTTTGACCGAAATTAATTAA
29314770 TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
66 TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
29314835 CATATATT
131 CATATATT
* *
29314843 CATTATATTCTTTCCAAAAGAATATTAATTTCCATATATTTTATATTTTGACCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTATTTTATATTTTGACCGAAATTAATTAA
* * * * * **
29314908 TATAACTATTTATATTAAGAAATTCGATAAAATATATACAATTAATACTATGTATGAATCATCTT
66 TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
*
29314973 TATATATT
131 CATATATT
* *
29314981 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTGATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTATTTTATATTTTGACCGAAATTAATTAA
*
29315046 TATAACTGTTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
66 TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
29315111 CATATATT
131 CATATATT
29315119 AATTATAT
1 AATTATAT
29315127 CTATGTTCTC
Statistics
Matches: 528, Mismatches: 32, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
138 528 1.00
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.45
Consensus pattern (138 bp):
AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTATTTTATATTTTGACCGAAATTAATTAA
TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
CATATATT
Found at i:29316204 original size:20 final size:20
Alignment explanation
Indices: 29316158--29316204 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
29316148 AGCTCGTTTC
*
29316158 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* * *
29316178 CAACTCATTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
29316198 CAGCTCA
1 CAGCTCA
29316205 ATCTTAACCC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.34, G:0.13, T:0.23
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:29317792 original size:10 final size:9
Alignment explanation
Indices: 29317747--29317782 Score: 54
Period size: 10 Copynumber: 3.8 Consensus size: 9
29317737 AGAAGTGAGC
29317747 AAAAAAAGA
1 AAAAAAAGA
29317756 AAAAAAAGTA
1 AAAAAAAG-A
29317766 AAAAAAAGA
1 AAAAAAAGA
29317775 ACAAAAAA
1 A-AAAAAA
29317783 AAAGTGAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 10 0.40
10 15 0.60
ACGTcount: A:0.86, C:0.03, G:0.08, T:0.03
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:29320007 original size:79 final size:81
Alignment explanation
Indices: 29319871--29320055 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
29319861 TTGAATGATG
* *
29319871 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
29319935 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
29319950 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
29320012 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
29320030 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
29320056 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:29320069 original size:40 final size:40
Alignment explanation
Indices: 29319872--29320055 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
29319862 TGAATGATGT
* * * *
29319872 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
29319912 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
29319952 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
29319990 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
29320031 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
29320056 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:29320077 original size:79 final size:79
Alignment explanation
Indices: 29319924--29320088 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
29319914 GGACTAAGAT
* * **
29319924 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
29319989 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
29320003 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
29320066 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
29320082 CCGAAGG
1 CCGAAGG
29320089 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:29327941 original size:79 final size:81
Alignment explanation
Indices: 29327805--29327989 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
29327795 TTGAATGATG
* *
29327805 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
29327869 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
29327884 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
29327946 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
29327964 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
29327990 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:29328003 original size:40 final size:40
Alignment explanation
Indices: 29327806--29327989 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
29327796 TGAATGATGT
* * * *
29327806 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
29327846 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
29327886 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
29327924 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
29327965 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
29327990 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:29328011 original size:79 final size:79
Alignment explanation
Indices: 29327858--29328022 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
29327848 GGACTAAGAT
* * **
29327858 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
29327923 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
29327937 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
29328000 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
29328016 CCGAAGG
1 CCGAAGG
29328023 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:29345787 original size:26 final size:26
Alignment explanation
Indices: 29345753--29345803 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
29345743 AAGTGTTTTA
29345753 AAACTGATACATGCTATGATATTCTT
1 AAACTGATACATGCTATGATATTCTT
* *
29345779 AAACTGATATATGTTATGATATTCT
1 AAACTGATACATGCTATGATATTCT
29345804 GGAACTACTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (26 bp):
AAACTGATACATGCTATGATATTCTT
Found at i:29345809 original size:26 final size:26
Alignment explanation
Indices: 29345753--29345809 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
29345743 AAGTGTTTTA
*
29345753 AAACTGATACATGCTATGATATTCTT
1 AAACTGATACATGCTATGATATTCTG
* *
29345779 AAACTGATATATGTTATGATATTCTG
1 AAACTGATACATGCTATGATATTCTG
*
29345805 GAACT
1 AAACT
29345810 ACTGCAGGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.39
Consensus pattern (26 bp):
AAACTGATACATGCTATGATATTCTG
Found at i:29354612 original size:22 final size:22
Alignment explanation
Indices: 29354587--29354631 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
29354577 ATTATGATGA
29354587 TTGATATG-ATGAGATTTATATT
1 TTGATATGTATGAGA-TTATATT
*
29354609 TTGATATGTATGTGATTATATT
1 TTGATATGTATGAGATTATATT
29354631 T
1 T
29354632 GTGTTTATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.29, C:0.00, G:0.18, T:0.53
Consensus pattern (22 bp):
TTGATATGTATGAGATTATATT
Found at i:29355803 original size:82 final size:82
Alignment explanation
Indices: 29355661--29355826 Score: 287
Period size: 82 Copynumber: 2.0 Consensus size: 82
29355651 TGTACTAAAA
29355661 CTAAGCTTCGATCCCAAAGCATCTTGCAAACTCTTCCAAAATCTCAAAGTAAATAACTGATCCTT
1 CTAAGCTTCGATCCCAAAGCATCTTGCAAACTCTTCCAAAATCTCAAAGTAAATAACTGATCCTT
29355726 ATCTGAAATAATCAAAC
66 ATCTGAAATAATCAAAC
* * **
29355743 CTAAGCTTCGATCCCAAAGCTTCTTGTAAACTCTTCCAAAATCTCAAAGTAAATCGCTGATCCTT
1 CTAAGCTTCGATCCCAAAGCATCTTGCAAACTCTTCCAAAATCTCAAAGTAAATAACTGATCCTT
*
29355808 CTCTGAAATAATCAAAC
66 ATCTGAAATAATCAAAC
29355825 CT
1 CT
29355827 GGAACCCCAT
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
82 79 1.00
ACGTcount: A:0.36, C:0.27, G:0.09, T:0.28
Consensus pattern (82 bp):
CTAAGCTTCGATCCCAAAGCATCTTGCAAACTCTTCCAAAATCTCAAAGTAAATAACTGATCCTT
ATCTGAAATAATCAAAC
Found at i:29357186 original size:50 final size:50
Alignment explanation
Indices: 29357080--29357270 Score: 247
Period size: 50 Copynumber: 3.7 Consensus size: 50
29357070 GGGAATGAGA
*
29357080 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C-CT-AG---ATGAGAGG
* **
29357136 TCCCATGTAAGACCATGTCAGGGACATGGTGTTGGCACCTAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTAGATGAGAGG
* *
29357186 TCACATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTAGATGAGAGG
* * *
29357236 TCCCATGTAAGACCATGTCTGAGATATGACATTGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGG
29357271 TAGTACAGAA
Statistics
Matches: 122, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
50 84 0.69
53 2 0.02
54 1 0.01
55 1 0.01
56 34 0.28
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.24
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTAGATGAGAGG
Found at i:29357514 original size:12 final size:12
Alignment explanation
Indices: 29357497--29357537 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
29357487 GCAAGGGAGG
29357497 AGTAAGTAAGCA
1 AGTAAGTAAGCA
*
29357509 AGTAAGTAACCA
1 AGTAAGTAAGCA
* *
29357521 AGTAAGTGAGTA
1 AGTAAGTAAGCA
29357533 AGTAA
1 AGTAA
29357538 AGAAGCGAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.49, C:0.07, G:0.24, T:0.20
Consensus pattern (12 bp):
AGTAAGTAAGCA
Found at i:29364603 original size:56 final size:50
Alignment explanation
Indices: 29364527--29364715 Score: 191
Period size: 50 Copynumber: 3.7 Consensus size: 50
29364517 ATGAGATCCA
* * *
29364527 ATGTAAGACGATGTTTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCCC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATGAGAGGTCCC
* *
29364583 ATGTAAGACCATGTCAGGGACATGGCGTTGGCACCGAGATGAGAGGTCCC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCC
** * * **
29364633 CCGTAAGACCATGTGTGGGACATGGCA-TGCGCACCGATATGAGAACTCCC
1 ATGTAAGACCATGTCTGGGACATGGCATTG-GCACCGAGATGAGAGGTCCC
* *
29364683 ATGTAAGACCATATCTGGGATATGGCATTGGCA
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCA
29364716 GTACAGAAAA
Statistics
Matches: 113, Mismatches: 18, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
49 2 0.02
50 76 0.67
51 2 0.02
53 3 0.03
55 1 0.01
56 29 0.26
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (50 bp):
ATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCC
Found at i:29364981 original size:12 final size:12
Alignment explanation
Indices: 29364964--29365002 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
29364954 ATGAGTTATT
29364964 TAAGTAAGCAAG
1 TAAGTAAGCAAG
*
29364976 TAAGTAAACAAG
1 TAAGTAAGCAAG
* *
29364988 TAAGTGAGTAAG
1 TAAGTAAGCAAG
29365000 TAA
1 TAA
29365003 AGAAGCGAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.51, C:0.05, G:0.23, T:0.21
Consensus pattern (12 bp):
TAAGTAAGCAAG
Found at i:29373192 original size:27 final size:28
Alignment explanation
Indices: 29373108--29373257 Score: 196
Period size: 27 Copynumber: 5.4 Consensus size: 28
29373098 GAGATTGGCG
* * * *
29373108 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
* *
29373137 CTAAGTGTGCGAGTTTGATTGTGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
* *
29373165 CTAAGTGTGCGAG-TTGATTATGTTGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
29373192 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
29373220 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
29373247 CTGAGTGTGCG
1 CTAAGTGTGCG
29373258 GACTTAATAT
Statistics
Matches: 111, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
27 49 0.44
28 47 0.42
29 15 0.14
ACGTcount: A:0.25, C:0.12, G:0.29, T:0.34
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:29373199 original size:55 final size:55
Alignment explanation
Indices: 29373133--29373257 Score: 205
Period size: 55 Copynumber: 2.3 Consensus size: 55
29373123 TAAATTGTAC
* * *
29373133 AGCACTAAGTGTGCGAGTTTGATTGTGTAGCACTAAGTGTGCGAGTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTGATTATAT
*
29373188 TGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTGATTATAT
*
29373243 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
29373258 GACTTAATAT
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
55 64 1.00
ACGTcount: A:0.25, C:0.12, G:0.30, T:0.34
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTGATTATAT
Found at i:29381505 original size:27 final size:28
Alignment explanation
Indices: 29381424--29381573 Score: 214
Period size: 27 Copynumber: 5.4 Consensus size: 28
29381414 GAGATTGGCG
* * * *
29381424 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
29381453 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
29381481 CTAAGTGTGCGAG-TTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
29381508 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
29381536 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
29381563 CTGAGTGTGCG
1 CTAAGTGTGCG
29381574 GACTTAATAT
Statistics
Matches: 113, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
27 51 0.45
28 47 0.42
29 15 0.13
ACGTcount: A:0.26, C:0.12, G:0.29, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:29381514 original size:55 final size:55
Alignment explanation
Indices: 29381449--29381573 Score: 223
Period size: 55 Copynumber: 2.3 Consensus size: 55
29381439 TAAATTGTAC
* *
29381449 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTGATTATAT
29381504 AGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTGATTATAT
*
29381559 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
29381574 GACTTAATAT
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 67 1.00
ACGTcount: A:0.26, C:0.12, G:0.29, T:0.33
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTGATTATAT
Found at i:29389845 original size:27 final size:28
Alignment explanation
Indices: 29389764--29389913 Score: 196
Period size: 27 Copynumber: 5.4 Consensus size: 28
29389754 GAGATTTGCG
* * * *
29389764 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
* * *
29389793 CTATGTGTGCGAGTTTGATTGTGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
29389821 CTAAGTGTGCGAG-TTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
29389848 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
29389876 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
29389903 CTGAGTGTGCG
1 CTAAGTGTGCG
29389914 GACTTAATAT
Statistics
Matches: 111, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
27 50 0.45
28 47 0.42
29 14 0.13
ACGTcount: A:0.25, C:0.12, G:0.29, T:0.34
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:29389856 original size:55 final size:55
Alignment explanation
Indices: 29389789--29389913 Score: 205
Period size: 55 Copynumber: 2.3 Consensus size: 55
29389779 TAAATTGTAC
* * * *
29389789 AGCACTATGTGTGCGAGTTTGATTGTGTAGCACTAAGTGTGCGAGTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTGATTATAT
29389844 AGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTGATTATAT
*
29389899 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
29389914 GACTTAATAT
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 65 1.00
ACGTcount: A:0.25, C:0.12, G:0.30, T:0.34
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTGATTATAT
Found at i:29390894 original size:201 final size:201
Alignment explanation
Indices: 29390549--29390951 Score: 788
Period size: 201 Copynumber: 2.0 Consensus size: 201
29390539 TAAACTTTTA
*
29390549 GCCATGCGAAAATGGCATAAATGTTCGGTTGGATTTGGTTTTATAACGTTAGGTCGTAAGTCTTG
1 GCCATGCGAAAATAGCATAAATGTTCGGTTGGATTTGGTTTTATAACGTTAGGTCGTAAGTCTTG
*
29390614 GTAATTCGATTTTTTTATGCCATATGTCATGGCTGATTAATTTTGTTGTTAAGATTCATGATATG
66 GTAATTCGATTTTTTTATGCCATATGTCATGGCTGATTAATTTTGGTGTTAAGATTCATGATATG
29390679 GCAATAGTGTAGTAGGGAGATGTTTGACAATGATTAGCCTTTGGTATGGCTAGTCATGATTATAA
131 GCAATAGTGTAGTAGGGAGATGTTTGACAATGATTAGCCTTTGGTATGGCTAGTCATGATTATAA
29390744 TTTTGT
196 TTTTGT
29390750 GCCATGCGAAAATAGCATAAATGTTCGGTTGGATTTGGTTTTATAACGTTAGGTCGTAAGTCTTG
1 GCCATGCGAAAATAGCATAAATGTTCGGTTGGATTTGGTTTTATAACGTTAGGTCGTAAGTCTTG
29390815 GTAATTCGATTTTTTTATGCCATATGTCATGGCTGATTAATTTTGGTGTTAAGATTCATGATATG
66 GTAATTCGATTTTTTTATGCCATATGTCATGGCTGATTAATTTTGGTGTTAAGATTCATGATATG
29390880 GCAATAGTGTAGTAGGGAGATGTTTGACAATGATTAGCCTTTGGTATGGCTAGTCATGATTATAA
131 GCAATAGTGTAGTAGGGAGATGTTTGACAATGATTAGCCTTTGGTATGGCTAGTCATGATTATAA
29390945 TTTTGT
196 TTTTGT
29390951 G
1 G
29390952 ATATGTATGA
Statistics
Matches: 200, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
201 200 1.00
ACGTcount: A:0.26, C:0.10, G:0.25, T:0.40
Consensus pattern (201 bp):
GCCATGCGAAAATAGCATAAATGTTCGGTTGGATTTGGTTTTATAACGTTAGGTCGTAAGTCTTG
GTAATTCGATTTTTTTATGCCATATGTCATGGCTGATTAATTTTGGTGTTAAGATTCATGATATG
GCAATAGTGTAGTAGGGAGATGTTTGACAATGATTAGCCTTTGGTATGGCTAGTCATGATTATAA
TTTTGT
Found at i:29399992 original size:50 final size:51
Alignment explanation
Indices: 29399865--29399995 Score: 192
Period size: 51 Copynumber: 2.6 Consensus size: 51
29399855 AAAGGTCGCA
* * *
29399865 TGTGTAGTACTATGTGCAGGCTACTACGCGTACCAGATAGCTTCAATCACG
1 TGTGTAGTACTATGTGCAGGCTACTACGTGAACCAGAAAGCTTCAATCACG
**
29399916 TGTGTAGTACTATGTGCAGGCTACTACGTGAACCAGAAAG-TTTGATCACG
1 TGTGTAGTACTATGTGCAGGCTACTACGTGAACCAGAAAGCTTCAATCACG
* *
29399966 TGTGTAGTACTATGTGAAGGCCACTACGTG
1 TGTGTAGTACTATGTGCAGGCTACTACGTG
29399996 TATCGAATGA
Statistics
Matches: 73, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
50 36 0.49
51 37 0.51
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (51 bp):
TGTGTAGTACTATGTGCAGGCTACTACGTGAACCAGAAAGCTTCAATCACG
Found at i:29399992 original size:101 final size:101
Alignment explanation
Indices: 29399810--29399993 Score: 242
Period size: 101 Copynumber: 1.8 Consensus size: 101
29399800 AAAGTGATGG
* * ** * * *
29399810 TCACGTGTGTAGTACTATGTGTAGGCTACTACATGTACTGGAATGAAAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACATGAACCAGAAAGAAAGATCACATGTGTAGTAC
* *
29399875 TATGTGCAGGCTACTACGCGTACCAGATAGCTTCAA
66 TATGTGAAGGCCACTACGCGTACCAGATAGCTTCAA
* *** *
29399911 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGAACCAGAAAGTTTGATCACGTGTGTAGTAC
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACATGAACCAGAAAGAAAGATCACATGTGTAGTAC
29399976 TATGTGAAGGCCACTACG
66 TATGTGAAGGCCACTACG
29399994 TGTATCGAAT
Statistics
Matches: 69, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
101 69 1.00
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (101 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACATGAACCAGAAAGAAAGATCACATGTGTAGTAC
TATGTGAAGGCCACTACGCGTACCAGATAGCTTCAA
Found at i:29413420 original size:39 final size:39
Alignment explanation
Indices: 29413241--29413417 Score: 210
Period size: 39 Copynumber: 4.5 Consensus size: 39
29413231 AACATGTCTT
* * * *
29413241 TGAGTATTACGACATATGCTTGAATGTTATGTGATCGTA
1 TGAGTATTGCGATATATGCTTGAATGTTATGTAATCATA
*
29413280 TGAGTATTGCGATATATGCTTGAATGTTACGTAATCATA
1 TGAGTATTGCGATATATGCTTGAATGTTATGTAATCATA
* * * *
29413319 TGAGTATTGCAATATGTGCTTGAACGTTATGTAATTATA
1 TGAGTATTGCGATATATGCTTGAATGTTATGTAATCATA
* * * *
29413358 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
1 TGAGTATTGCGATATATGCTTGAATGTTATGTAATCATA
* * *
29413397 TGTGTAATGTGATATATGCTT
1 TGAGTATTGCGATATATGCTT
29413418 AAAAGTGAAT
Statistics
Matches: 120, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 120 1.00
ACGTcount: A:0.29, C:0.07, G:0.21, T:0.42
Consensus pattern (39 bp):
TGAGTATTGCGATATATGCTTGAATGTTATGTAATCATA
Found at i:29418260 original size:31 final size:31
Alignment explanation
Indices: 29418222--29418283 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
29418212 TAGAGTTCTA
*
29418222 TTAGTTAAAGGTATCAATTAACTATGAAACT
1 TTAGTTAAAGGTATAAATTAACTATGAAACT
29418253 TTAGTTAAAGGTATAAATTAACTATGAAACT
1 TTAGTTAAAGGTATAAATTAACTATGAAACT
29418284 CTAAATTGGA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.35
Consensus pattern (31 bp):
TTAGTTAAAGGTATAAATTAACTATGAAACT
Found at i:29426270 original size:79 final size:82
Alignment explanation
Indices: 29426159--29426343 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
29426149 GCTACTCGTT
* *
29426159 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
29426222 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
29426239 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
29426302 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
29426319 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
29426344 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:29426343 original size:40 final size:40
Alignment explanation
Indices: 29426140--29426343 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
29426130 CGGAATTTAA
** *
29426140 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
29426180 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
29426220 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
29426259 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
29426299 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
29426339 CCGGA
1 CCGGA
29426344 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:29434210 original size:79 final size:82
Alignment explanation
Indices: 29434099--29434283 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
29434089 GCTACTCGTT
* *
29434099 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
29434162 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
29434179 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
29434242 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
29434259 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
29434284 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:29434283 original size:40 final size:40
Alignment explanation
Indices: 29434080--29434283 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
29434070 CGGAATTTAA
** *
29434080 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
29434120 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
29434160 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
29434199 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
29434239 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
29434279 CCGGA
1 CCGGA
29434284 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:29436767 original size:35 final size:36
Alignment explanation
Indices: 29436720--29436796 Score: 129
Period size: 35 Copynumber: 2.2 Consensus size: 36
29436710 ATTGTCATTT
*
29436720 TCAATAATTTCAATATCCAACAAGCTTAAAACATAA
1 TCAATAAATTCAATATCCAACAAGCTTAAAACATAA
*
29436756 T-AATAAATTCAATATCCAACAAGGTTAAAACATAA
1 TCAATAAATTCAATATCCAACAAGCTTAAAACATAA
29436791 TCAATA
1 TCAATA
29436797 TCTAACAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
35 33 0.87
36 5 0.13
ACGTcount: A:0.52, C:0.17, G:0.04, T:0.27
Consensus pattern (36 bp):
TCAATAAATTCAATATCCAACAAGCTTAAAACATAA
Found at i:29439383 original size:10 final size:10
Alignment explanation
Indices: 29439368--29439393 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
29439358 TCATTAAGTG
29439368 CTAACAAATA
1 CTAACAAATA
29439378 CTAACAAATA
1 CTAACAAATA
29439388 CTAACA
1 CTAACA
29439394 GATCAGTAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.58, C:0.23, G:0.00, T:0.19
Consensus pattern (10 bp):
CTAACAAATA
Found at i:29441696 original size:8 final size:8
Alignment explanation
Indices: 29441683--29441708 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
29441673 ATTGATAGAG
29441683 AGGAATGA
1 AGGAATGA
29441691 AGGAATGA
1 AGGAATGA
29441699 AGGAATGA
1 AGGAATGA
29441707 AG
1 AG
29441709 AAGGAGAGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.38, T:0.12
Consensus pattern (8 bp):
AGGAATGA
Found at i:29443379 original size:28 final size:28
Alignment explanation
Indices: 29443332--29443395 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
29443322 CCTATATAGT
* *
29443332 AACAGT-ACTGTGTGGGCCTTAGCCCAA
1 AACAGTAACAGTGAGGGCCTTAGCCCAA
29443359 AACAGTAACAGTGAGGGCCTTAGCCCAA
1 AACAGTAACAGTGAGGGCCTTAGCCCAA
**
29443387 TGCAGTAAC
1 AACAGTAAC
29443396 CAGTACAGTG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 6 0.19
28 26 0.81
ACGTcount: A:0.31, C:0.25, G:0.25, T:0.19
Consensus pattern (28 bp):
AACAGTAACAGTGAGGGCCTTAGCCCAA
Found at i:29443764 original size:27 final size:27
Alignment explanation
Indices: 29443734--29444013 Score: 265
Period size: 27 Copynumber: 10.4 Consensus size: 27
29443724 TCATCTCCTA
*
29443734 GGGGTATATCAATCATTTTACCCTAT-G
1 GGGGTATTTCAATCATTTTACCCT-TCG
*
29443761 GGGGTATTTCAGTCATTTTACCCTTCG
1 GGGGTATTTCAATCATTTTACCCTTCG
29443788 GGGGTATTTCAATCATTTTACCCTTCG
1 GGGGTATTTCAATCATTTTACCCTTCG
* * *
29443815 GGGGTATTTTAGTCATTTTACCCTTTG
1 GGGGTATTTCAATCATTTTACCCTTCG
* ** *
29443842 AGGGTATTTTGATCATGTTACCCTTCG
1 GGGGTATTTCAATCATTTTACCCTTCG
* * * *
29443869 AGGGTATTTCGATCATTTTATCCTTCA
1 GGGGTATTTCAATCATTTTACCCTTCG
* * *
29443896 AGGGTATTTCGATCATTTTACCTTTCG
1 GGGGTATTTCAATCATTTTACCCTTCG
* *** **
29443923 TGGGTATTTTGGTCATTTTACCCTTTA
1 GGGGTATTTCAATCATTTTACCCTTCG
* ** * * *
29443950 AGGGTATTTCGGTCCTTTTATCCTTTG
1 GGGGTATTTCAATCATTTTACCCTTCG
* *
29443977 GGGGTATTTCAGTCATTTTACCCTTCA
1 GGGGTATTTCAATCATTTTACCCTTCG
*
29444004 AGGGTATTTC
1 GGGGTATTTC
29444014 TTTCATTTGC
Statistics
Matches: 216, Mismatches: 36, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
26 1 0.00
27 215 1.00
ACGTcount: A:0.18, C:0.19, G:0.20, T:0.44
Consensus pattern (27 bp):
GGGGTATTTCAATCATTTTACCCTTCG
Found at i:29443792 original size:54 final size:54
Alignment explanation
Indices: 29443735--29444013 Score: 337
Period size: 54 Copynumber: 5.2 Consensus size: 54
29443725 CATCTCCTAG
* * **
29443735 GGGTATATCAATCATTTTACCCTAT-GGGGGTATTTCAGTCATTTTACCCTTCGG
1 GGGTATTTCGATCATTTTACCCT-TCGGGGGTATTTCAGTCATTTTACCCTTCAA
* * **
29443789 GGGTATTTCAATCATTTTACCCTTCGGGGGTATTTTAGTCATTTTACCCTTTGA
1 GGGTATTTCGATCATTTTACCCTTCGGGGGTATTTCAGTCATTTTACCCTTCAA
* * * *
29443843 GGGTATTTTGATCATGTTACCCTTCGAGGGTATTTC-GATCATTTTATCCTTCAA
1 GGGTATTTCGATCATTTTACCCTTCGGGGGTATTTCAG-TCATTTTACCCTTCAA
* * ** *
29443897 GGGTATTTCGATCATTTTACCTTTCGTGGGTATTTTGGTCATTTTACCCTTTAA
1 GGGTATTTCGATCATTTTACCCTTCGGGGGTATTTCAGTCATTTTACCCTTCAA
* * * *
29443951 GGGTATTTCGGTCCTTTTATCCTTTGGGGGTATTTCAGTCATTTTACCCTTCAA
1 GGGTATTTCGATCATTTTACCCTTCGGGGGTATTTCAGTCATTTTACCCTTCAA
29444005 GGGTATTTC
1 GGGTATTTC
29444014 TTTCATTTGC
Statistics
Matches: 194, Mismatches: 28, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
53 2 0.01
54 191 0.98
55 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.20, T:0.44
Consensus pattern (54 bp):
GGGTATTTCGATCATTTTACCCTTCGGGGGTATTTCAGTCATTTTACCCTTCAA
Found at i:29444021 original size:81 final size:81
Alignment explanation
Indices: 29443734--29444012 Score: 328
Period size: 81 Copynumber: 3.4 Consensus size: 81
29443724 TCATCTCCTA
* * * ** *
29443734 GGGGTATATCAATCATTTTACCCTAT-GGGGGTATTTCAGTCATTTTACCCTTCGGGGGTATTTC
1 GGGGTATTTCAGTCATTTTACCCT-TCGAGGGTATTTTGGTCATTTTACCCTTCGAGGGTATTTC
* *
29443798 AATCATTTTACCCTTCG
65 GATCATTTTATCCTTCG
* * * *
29443815 GGGGTATTTTAGTCATTTTACCCTTTGAGGGTATTTTGATCATGTTACCCTTCGAGGGTATTTCG
1 GGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTTGGTCATTTTACCCTTCGAGGGTATTTCG
*
29443880 ATCATTTTATCCTTCA
66 ATCATTTTATCCTTCG
* * * **
29443896 AGGGTATTTC-GATCATTTTACCTTTCGTGGGTATTTTGGTCATTTTACCCTTTAAGGGTATTTC
1 GGGGTATTTCAG-TCATTTTACCCTTCGAGGGTATTTTGGTCATTTTACCCTTCGAGGGTATTTC
* * *
29443960 GGTCCTTTTATCCTTTG
65 GATCATTTTATCCTTCG
*
29443977 GGGGTATTTCAGTCATTTTACCCTTCAAGGGTATTT
1 GGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTT
29444013 CTTTCATTTG
Statistics
Matches: 166, Mismatches: 29, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
80 2 0.01
81 163 0.98
82 1 0.01
ACGTcount: A:0.18, C:0.18, G:0.20, T:0.44
Consensus pattern (81 bp):
GGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTTGGTCATTTTACCCTTCGAGGGTATTTCG
ATCATTTTATCCTTCG
Found at i:29444688 original size:14 final size:14
Alignment explanation
Indices: 29444669--29444710 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
29444659 ATAGGGCTAG
29444669 AAAAGAATA-AGAGA
1 AAAAGAA-AGAGAGA
29444683 AAAAGAAAGAGAGA
1 AAAAGAAAGAGAGA
*
29444697 AAGAG-AAGAGAGA
1 AAAAGAAAGAGAGA
29444710 A
1 A
29444711 TTCGACAACA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 10 0.38
14 16 0.62
ACGTcount: A:0.69, C:0.00, G:0.29, T:0.02
Consensus pattern (14 bp):
AAAAGAAAGAGAGA
Found at i:29444707 original size:13 final size:12
Alignment explanation
Indices: 29444677--29444710 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
29444667 AGAAAAGAAT
*
29444677 AAGAGAAAAAGA
1 AAGAGAGAAAGA
29444689 AAGAGAGAAAGA
1 AAGAGAGAAAGA
29444701 GAAGAGAGAA
1 -AAGAGAGAA
29444711 TTCGACAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (12 bp):
AAGAGAGAAAGA
Found at i:29448371 original size:16 final size:16
Alignment explanation
Indices: 29448350--29448380 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
29448340 TTATTTTTGT
29448350 TGGAATAATTTCATGC
1 TGGAATAATTTCATGC
29448366 TGGAATAATTTCATG
1 TGGAATAATTTCATG
29448381 TGTCTAGCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (16 bp):
TGGAATAATTTCATGC
Done.