Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 123 of 427
Found at i:32508586 original size:20 final size:20
Alignment explanation
Indices: 32508561--32508663 Score: 68
Period size: 20 Copynumber: 5.0 Consensus size: 20
32508551 TATATATATT
32508561 TAAATAAATTTATTTTTTAA
1 TAAATAAATTTATTTTTTAA
* *
32508581 TAAATAAATCT-TTTTTGAA
1 TAAATAAATTTATTTTTTAA
* **
32508600 CAAATATTTTTAATTTTTTAA
1 TAAATAAATTT-ATTTTTTAA
* *
32508621 TTAATTCAAATTTTACTTTTT--
1 -TAAAT-AAA-TTTATTTTTTAA
32508642 TAAATAAAATATTATTTTTTAA
1 TAAAT-AAAT-TTATTTTTTAA
32508664 CTTTTAAATA
Statistics
Matches: 60, Mismatches: 15, Indels: 14
0.67 0.17 0.16
Matches are distributed among these distances:
19 15 0.25
20 25 0.42
21 7 0.12
22 3 0.05
23 7 0.12
24 3 0.05
ACGTcount: A:0.41, C:0.04, G:0.01, T:0.54
Consensus pattern (20 bp):
TAAATAAATTTATTTTTTAA
Found at i:32509030 original size:21 final size:21
Alignment explanation
Indices: 32509006--32509064 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 21
32508996 TTTTATATTA
*
32509006 TTAAAAATATATATTTAATAT
1 TTAAAAATATATATTTAAAAT
*
32509027 TT-AAAATA-ATATTCAAAAT
1 TTAAAAATATATATTTAAAAT
*
32509046 TTAAAAAAATA-ATTTAAAA
1 TTAAAAATATATATTTAAAA
32509065 ATAATATTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
19 11 0.34
20 18 0.56
21 3 0.09
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (21 bp):
TTAAAAATATATATTTAAAAT
Found at i:32509037 original size:23 final size:23
Alignment explanation
Indices: 32508979--32509038 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 23
32508969 AGGTCATATC
* * *
32508979 TTTAAAATATTTAAATATTTTATA
1 TTTAAAATA-ATATATATTTAATA
*
32509003 TTATTAAA-AATATATATTTAATA
1 TT-TAAAATAATATATATTTAATA
32509026 TTTAAAATAATAT
1 TTTAAAATAATAT
32509039 TCAAAATTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
22 4 0.14
23 18 0.62
24 3 0.10
25 4 0.14
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
TTTAAAATAATATATATTTAATA
Found at i:32509038 original size:12 final size:12
Alignment explanation
Indices: 32509021--32509078 Score: 50
Period size: 12 Copynumber: 5.1 Consensus size: 12
32509011 AATATATATT
*
32509021 TAATATTTAAAA
1 TAATATTAAAAA
*
32509033 TAATATTCAAAA
1 TAATATTAAAAA
* *
32509045 T-TTA-AAAAAA
1 TAATATTAAAAA
32509055 TAAT-TTAAAAA
1 TAATATTAAAAA
*
32509066 TAATATTTAAAA
1 TAATATTAAAAA
32509078 T
1 T
32509079 TTTAAAAAAT
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
10 5 0.14
11 12 0.33
12 19 0.53
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (12 bp):
TAATATTAAAAA
Found at i:32509047 original size:19 final size:19
Alignment explanation
Indices: 32509009--32509090 Score: 70
Period size: 19 Copynumber: 4.5 Consensus size: 19
32508999 TATATTATTA
*
32509009 AAAATATATATTTAATATTT
1 AAAATA-ATATTTAAAATTT
*
32509029 AAAATAATATTCAAAATTT
1 AAAATAATATTTAAAATTT
32509048 AAAA-AA-A--T--AATTT
1 AAAATAATATTTAAAATTT
32509061 AAAAATAATATTTAAAATTTT
1 -AAAATAATATTTAAAA-TTT
32509082 AAAA-AATAT
1 AAAATAATAT
32509091 ATATTATAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 17
0.72 0.04 0.24
Matches are distributed among these distances:
13 5 0.10
14 4 0.08
15 2 0.04
16 1 0.02
17 1 0.02
18 3 0.06
19 20 0.39
20 12 0.24
21 3 0.06
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (19 bp):
AAAATAATATTTAAAATTT
Found at i:32509061 original size:13 final size:14
Alignment explanation
Indices: 32509043--32509077 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
32509033 TAATATTCAA
32509043 AATTTAAAAA-AAT
1 AATTTAAAAATAAT
32509056 AATTTAAAAATAAT
1 AATTTAAAAATAAT
32509070 -ATTTAAAA
1 AATTTAAAA
32509078 TTTTAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 18 0.86
14 3 0.14
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTTAAAAATAAT
Found at i:32509071 original size:33 final size:32
Alignment explanation
Indices: 32509025--32509089 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 32
32509015 TATATTTAAT
32509025 ATTTAAAATAATATTCAAAATTTAAAAAAATA
1 ATTTAAAATAATATTCAAAATTTAAAAAAATA
* *
32509057 ATTTAAAAATAATATTTAAAATTTTAAAAAATA
1 ATTT-AAAATAATATTCAAAATTTAAAAAAATA
32509090 TATATTATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 4 0.13
33 26 0.87
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (32 bp):
ATTTAAAATAATATTCAAAATTTAAAAAAATA
Found at i:32509188 original size:17 final size:17
Alignment explanation
Indices: 32509168--32509251 Score: 52
Period size: 19 Copynumber: 4.9 Consensus size: 17
32509158 AATAAACAAA
32509168 ATAAAATAAGAAAAAAT
1 ATAAAATAAGAAAAAAT
*
32509185 ATAAAACTTAAAAAAAAAT
1 ATAAAA--TAAGAAAAAAT
*
32509204 -TAAAGAAAAAGAAAAAAGT
1 AT-AA-AATAAGAAAAAA-T
32509223 -TAAAA-AA-ATAAAAA-
1 ATAAAATAAGA-AAAAAT
*
32509237 ATAAAGTAAGAAAAA
1 ATAAAATAAGAAAAA
32509252 CCAAAGCGTG
Statistics
Matches: 54, Mismatches: 4, Indels: 19
0.70 0.05 0.25
Matches are distributed among these distances:
15 5 0.09
16 13 0.24
17 9 0.17
18 11 0.20
19 14 0.26
20 2 0.04
ACGTcount: A:0.76, C:0.01, G:0.07, T:0.15
Consensus pattern (17 bp):
ATAAAATAAGAAAAAAT
Found at i:32509237 original size:19 final size:20
Alignment explanation
Indices: 32509193--32509250 Score: 59
Period size: 19 Copynumber: 3.0 Consensus size: 20
32509183 ATATAAAACT
32509193 TAAAAAAAAATTAAAGAAAA
1 TAAAAAAAAATTAAAGAAAA
* *
32509213 -AGAAAAAAGTTAAA-AAAA
1 TAAAAAAAAATTAAAGAAAA
*
32509231 TAAAAAATAAAGT-AAGAAAA
1 TAAAAAA-AAATTAAAGAAAA
32509251 ACCAAAGCGT
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
18 4 0.13
19 19 0.63
20 7 0.23
ACGTcount: A:0.78, C:0.00, G:0.09, T:0.14
Consensus pattern (20 bp):
TAAAAAAAAATTAAAGAAAA
Found at i:32512382 original size:30 final size:30
Alignment explanation
Indices: 32512346--32512505 Score: 222
Period size: 29 Copynumber: 5.5 Consensus size: 30
32512336 GACAAGATTG
* * * * *
32512346 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
32512376 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
32512404 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
32512433 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
32512463 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
32512492 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
32512506 GATTCACTAT
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.18
29 49 0.41
30 45 0.38
31 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:32512473 original size:59 final size:57
Alignment explanation
Indices: 32512346--32512505 Score: 223
Period size: 59 Copynumber: 2.8 Consensus size: 57
32512336 GACAAGATTG
* * * * * *
32512346 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATAGCACTAAGTGTGCGAGTCTGATTATATA
32512404 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAG-CTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTG---ATTATATA
32512463 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
32512506 GATTCACTAT
Statistics
Matches: 93, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 20 0.22
59 51 0.55
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTGATTATATA
Found at i:32520301 original size:30 final size:30
Alignment explanation
Indices: 32520265--32520424 Score: 222
Period size: 29 Copynumber: 5.5 Consensus size: 30
32520255 GACAAGATTG
* * * * *
32520265 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
32520295 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
32520323 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
32520352 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
32520382 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
32520411 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
32520425 GATTCACTAT
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.18
29 49 0.41
30 45 0.38
31 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:32520392 original size:59 final size:57
Alignment explanation
Indices: 32520265--32520424 Score: 223
Period size: 59 Copynumber: 2.8 Consensus size: 57
32520255 GACAAGATTG
* * * * * *
32520265 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATAGCACTAAGTGTGCGAGTCTGATTATATA
32520323 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAG-CTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTG---ATTATATA
32520382 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
32520425 GATTCACTAT
Statistics
Matches: 93, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 20 0.22
59 51 0.55
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTGATTATATA
Found at i:32527510 original size:39 final size:40
Alignment explanation
Indices: 32527332--32527514 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
32527322 CCGCACCAAG
* * * * * * * *
32527332 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * *
32527372 GCCTTCGGGTCTTAGCCCGGATTTAACAACTGGCACGAA-T
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCAC-AATT
*
32527412 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * * *
32527452 GCCTTCGGGTCTTAACCCGGATATAATTTC-AGCATAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* *
32527491 GTCTTCGGGGCTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
32527515 CATTCAATTT
Statistics
Matches: 121, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
39 31 0.26
40 88 0.73
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
Found at i:32533143 original size:240 final size:241
Alignment explanation
Indices: 32532656--32533232 Score: 1088
Period size: 240 Copynumber: 2.4 Consensus size: 241
32532646 TCTAGGTGGN
32532656 CTATATACTTTGAATCTTTAAAATATTTAAAATAAACTTGG-GAGAAGGTCAGCTATTGTTGTAA
1 CTATATACTTTGAATCTTTAAAATATTTAAAATAAACTTGGAGAGAAGGTCAGCTATTGTTGTAA
32532720 TTTTAATGGACAAGCAAGCTATATGGTAATAAATATTCAATAGTAAATGAGTTGGATAGAATTTT
66 TTTTAATGGACAAGCAAGCTATATGGTAATAAATATTCAATAGTAAATGAGTTGGATAGAATTTT
32532785 TTTCAAGTATTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCC
131 TTTCAAGTATTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCC
*
32532850 ATTATATTTTACGGCTCGATATAAGGCAACCCATCAGGTTTCCAGC
196 ATTATATCTTACGGCTCGATATAAGGCAACCCATCAGGTTTCCAGC
*
32532896 C-ATATACTTTGAATCTTTAAAATATTTACAATAAACTTGGAGAGAAGGTCAGCTATTGTTGTAA
1 CTATATACTTTGAATCTTTAAAATATTTAAAATAAACTTGGAGAGAAGGTCAGCTATTGTTGTAA
32532960 TTTTAATGGACAAGCAAGCTATATGGTAATAAATATTCAATAGTAAATGAGTTGGATAGAA-TTT
66 TTTTAATGGACAAGCAAGCTATATGGTAATAAATATTCAATAGTAAATGAGTTGGATAGAATTTT
32533024 TTTCAAGTATTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCC
131 TTTCAAGTATTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCC
*
32533089 ATTATATCTTACGGCTCGATATAAGGCAACCCGTCAGGTTTCCAGC
196 ATTATATCTTACGGCTCGATATAAGGCAACCCATCAGGTTTCCAGC
*
32533135 CTATATACTTTGAATCTTTAAAATATTTAAAATAAGCTTGGAGAGAAGGTCAGCTATTGTTGTAA
1 CTATATACTTTGAATCTTTAAAATATTTAAAATAAACTTGGAGAGAAGGTCAGCTATTGTTGTAA
*
32533200 TTTTAATGGACAAGCAAGCTACATGGTAATAAA
66 TTTTAATGGACAAGCAAGCTATATGGTAATAAA
32533233 ATTAATTCAT
Statistics
Matches: 329, Mismatches: 6, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
239 151 0.46
240 178 0.54
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.35
Consensus pattern (241 bp):
CTATATACTTTGAATCTTTAAAATATTTAAAATAAACTTGGAGAGAAGGTCAGCTATTGTTGTAA
TTTTAATGGACAAGCAAGCTATATGGTAATAAATATTCAATAGTAAATGAGTTGGATAGAATTTT
TTTCAAGTATTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCC
ATTATATCTTACGGCTCGATATAAGGCAACCCATCAGGTTTCCAGC
Found at i:32533292 original size:10 final size:10
Alignment explanation
Indices: 32533277--32533327 Score: 54
Period size: 10 Copynumber: 5.4 Consensus size: 10
32533267 AAATATAAAA
32533277 ACTTATTCAT
1 ACTTATTCAT
32533287 ACTTATTC--
1 ACTTATTCAT
** *
32533295 A-TTATAAAA
1 ACTTATTCAT
32533304 ACTTATTCAT
1 ACTTATTCAT
32533314 ACTTATTCAT
1 ACTTATTCAT
32533324 ACTT
1 ACTT
32533328 CAAATAATAA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
7 4 0.12
8 1 0.03
9 1 0.03
10 27 0.82
ACGTcount: A:0.35, C:0.18, G:0.00, T:0.47
Consensus pattern (10 bp):
ACTTATTCAT
Found at i:32533301 original size:27 final size:27
Alignment explanation
Indices: 32533270--32533323 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
32533260 TTGAATCAAA
32533270 TATAAAAACTTATTCATACTTATTCAT
1 TATAAAAACTTATTCATACTTATTCAT
32533297 TATAAAAACTTATTCATACTTATTCAT
1 TATAAAAACTTATTCATACTTATTCAT
32533324 ACTTCAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (27 bp):
TATAAAAACTTATTCATACTTATTCAT
Found at i:32533396 original size:22 final size:23
Alignment explanation
Indices: 32533371--32533418 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
32533361 GTTCAAGTTT
32533371 ATTTAAA-GGCT-CAAATTCATAC
1 ATTTAAAGGGCTGC-AATTCATAC
32533393 ATTTAAAGGGCTGCAATTCATAC
1 ATTTAAAGGGCTGCAATTCATAC
32533416 ATT
1 ATT
32533419 AGATTAATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
22 7 0.29
23 16 0.67
24 1 0.04
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (23 bp):
ATTTAAAGGGCTGCAATTCATAC
Found at i:32536926 original size:19 final size:19
Alignment explanation
Indices: 32536878--32536933 Score: 78
Period size: 19 Copynumber: 3.0 Consensus size: 19
32536868 GGTCGTCCAC
*
32536878 TCAGAGTCTTCAATGGCA-
1 TCAGAGTCTTCAACGGCAG
*
32536896 TCAGATTCTTCAACGGCAG
1 TCAGAGTCTTCAACGGCAG
*
32536915 TCGGAGTCTTCAACGGCAG
1 TCAGAGTCTTCAACGGCAG
32536934 AAGGATATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
18 16 0.48
19 17 0.52
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Consensus pattern (19 bp):
TCAGAGTCTTCAACGGCAG
Found at i:32536989 original size:18 final size:18
Alignment explanation
Indices: 32536966--32537000 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
32536956 GGGGAAATAT
32536966 TTAGGGATTAGGGGAAAG
1 TTAGGGATTAGGGGAAAG
*
32536984 TTAGGGATTTGGGGAAA
1 TTAGGGATTAGGGGAAA
32537001 TTTGGGTGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.43, T:0.26
Consensus pattern (18 bp):
TTAGGGATTAGGGGAAAG
Found at i:32537995 original size:15 final size:14
Alignment explanation
Indices: 32537954--32537997 Score: 61
Period size: 15 Copynumber: 3.0 Consensus size: 14
32537944 GAAATTTATT
*
32537954 TTTAGGGTTTACAAA
1 TTTAGGGTTTA-TAA
32537969 TTTAGGGTTTATAA
1 TTTAGGGTTTATAA
32537983 TTTAGGGTATTATAA
1 TTTAGGGT-TTATAA
32537998 GGGTTTAAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
14 10 0.37
15 17 0.63
ACGTcount: A:0.32, C:0.02, G:0.20, T:0.45
Consensus pattern (14 bp):
TTTAGGGTTTATAA
Found at i:32538206 original size:29 final size:29
Alignment explanation
Indices: 32538168--32538223 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
32538158 AGAGTTTAGA
*
32538168 TCATGGGTTATGATTTAGGGATTAGGCGG
1 TCATCGGTTATGATTTAGGGATTAGGCGG
*
32538197 TCATCGGTTATGATTTAGGGGTTAGGC
1 TCATCGGTTATGATTTAGGGATTAGGC
32538224 TTCATATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.20, C:0.09, G:0.36, T:0.36
Consensus pattern (29 bp):
TCATCGGTTATGATTTAGGGATTAGGCGG
Found at i:32538951 original size:41 final size:40
Alignment explanation
Indices: 32538746--32538962 Score: 226
Period size: 41 Copynumber: 5.3 Consensus size: 40
32538736 ATAATAAATA
* * *
32538746 TTAGCGGCGTTTTTACA-AAAACGCCACTATAGCTCAACCTT
1 TTAGCGGCGTTTTGA-ATAAAACGCCACTATTGCTC-AGCTT
* * * *
32538787 TT-GTGGCGTTTGGACCTAAAGCGCCACTATAT-CTCAGCTTT
1 TTAGCGGCGTTTTGA-ATAAAACGCCACTAT-TGCTCAGC-TT
* *
32538828 TTA-CGGCGTTTTGAATAAAACGCCACTATTTCTCAGTTT
1 TTAGCGGCGTTTTGAATAAAACGCCACTATTGCTCAGCTT
* * *
32538867 TTTGCGGCGTTTTGAATAAAAACGCCACTATTACTCAGTTT
1 TTAGCGGCGTTTTGAAT-AAAACGCCACTATTGCTCAGCTT
32538908 TTAGCGGCGTTTTGAATGAAAACGCCACTATTGCTCAGCTT
1 TTAGCGGCGTTTTGAAT-AAAACGCCACTATTGCTCAGCTT
*
32538949 TTAGTGGCGTTTTG
1 TTAGCGGCGTTTTG
32538963 TTTCAAACGC
Statistics
Matches: 150, Mismatches: 19, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
39 5 0.03
40 43 0.29
41 102 0.68
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (40 bp):
TTAGCGGCGTTTTGAATAAAACGCCACTATTGCTCAGCTT
Found at i:32538971 original size:81 final size:80
Alignment explanation
Indices: 32538746--32538973 Score: 241
Period size: 81 Copynumber: 2.8 Consensus size: 80
32538736 ATAATAAATA
* * * * *
32538746 TTAGCGGCGTTTTTACA-AAAACGCCACTATAGCTCAACCTTTTGTGGCGTTTGGACCTA-AAGC
1 TTAGCGGCGTTTTGA-ATAAAACGCCACTATTGCTC-AGCTTTTGTGGCGTTTTGA--TACAAAC
32538809 GCCACTATATCTCAGCTTT
62 GCCACTATATCTCAGCTTT
* * * *
32538828 TTA-CGGCGTTTTGAATAAAACGCCACTATTTCTCAGTTTTTTGCGGCGTTTTGAATAAAAACGC
1 TTAGCGGCGTTTTGAATAAAACGCCACTATTGCTCAG-CTTTTGTGGCGTTTTG-ATACAAACGC
32538892 CACTAT-TACTCAG-TTT
64 CACTATAT-CTCAGCTTT
* *
32538908 TTAGCGGCGTTTTGAATGAAAACGCCACTATTGCTCAGCTTTTAGTGGCGTTTTGTTTCAAACGC
1 TTAGCGGCGTTTTGAAT-AAAACGCCACTATTGCTCAGCTTTT-GTGGCGTTTTGATACAAACGC
32538973 C
64 C
32538974 GCTAATGTTT
Statistics
Matches: 124, Mismatches: 14, Indels: 17
0.80 0.09 0.11
Matches are distributed among these distances:
80 11 0.09
81 80 0.65
82 33 0.27
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (80 bp):
TTAGCGGCGTTTTGAATAAAACGCCACTATTGCTCAGCTTTTGTGGCGTTTTGATACAAACGCCA
CTATATCTCAGCTTT
Found at i:32542945 original size:19 final size:19
Alignment explanation
Indices: 32542921--32542958 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
32542911 GAAATGAATA
*
32542921 ATTTCAGGCAAATAGGTTG
1 ATTTCAAGCAAATAGGTTG
32542940 ATTTCAAGCAAATAGGTTG
1 ATTTCAAGCAAATAGGTTG
32542959 GCAATCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.32
Consensus pattern (19 bp):
ATTTCAAGCAAATAGGTTG
Found at i:32543233 original size:2 final size:2
Alignment explanation
Indices: 32543226--32543261 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
32543216 GTAGCTAAAT
32543226 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
32543262 CATAAACAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:32544170 original size:6 final size:7
Alignment explanation
Indices: 32544159--32544184 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
32544149 CTTTTTCTTC
32544159 ATTTTTT
1 ATTTTTT
32544166 ATTTTTT
1 ATTTTTT
32544173 ATTTTTT
1 ATTTTTT
32544180 ATTTT
1 ATTTT
32544185 GGGTTGTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
ATTTTTT
Found at i:32545354 original size:22 final size:25
Alignment explanation
Indices: 32545329--32545381 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 25
32545319 TCGGCCTTGT
*
32545329 TTTTTCCT-TTCC-TCATTT-TATC
1 TTTTTCCTCTTCCAACATTTCTATC
*
32545351 -TTTTCCTCTTCCAACTTTTCTATC
1 TTTTTCCTCTTCCAACATTTCTATC
32545375 TTTTTCC
1 TTTTTCC
32545382 CCAGTTCTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
21 7 0.28
22 4 0.16
23 4 0.16
24 4 0.16
25 6 0.24
ACGTcount: A:0.09, C:0.30, G:0.00, T:0.60
Consensus pattern (25 bp):
TTTTTCCTCTTCCAACATTTCTATC
Found at i:32548556 original size:11 final size:11
Alignment explanation
Indices: 32548540--32548572 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
32548530 ATATAATTTT
*
32548540 TAAATATATAA
1 TAAATAAATAA
32548551 TAAATAAATAA
1 TAAATAAATAA
32548562 TAAATAAATAA
1 TAAATAAATAA
32548573 ACAGTTTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (11 bp):
TAAATAAATAA
Found at i:32548558 original size:15 final size:15
Alignment explanation
Indices: 32548540--32548573 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
32548530 ATATAATTTT
32548540 TAAAT-ATATAATAAA
1 TAAATAATA-AATAAA
32548555 TAAATAATAAATAAA
1 TAAATAATAAATAAA
32548570 TAAA
1 TAAA
32548574 CAGTTTATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 15 0.83
16 3 0.17
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
TAAATAATAAATAAA
Found at i:32548684 original size:20 final size:19
Alignment explanation
Indices: 32548659--32548702 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
32548649 AAAAGGAAAT
* *
32548659 AAATAAATGGGTAAATAAA
1 AAATAAAAGGCTAAATAAA
32548678 GAAATAAAAGGCTAAATAAA
1 -AAATAAAAGGCTAAATAAA
32548698 AAATA
1 AAATA
32548703 TAACAAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.66, C:0.02, G:0.14, T:0.18
Consensus pattern (19 bp):
AAATAAAAGGCTAAATAAA
Found at i:32549127 original size:15 final size:15
Alignment explanation
Indices: 32549107--32549139 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
32549097 AAAAACTTCA
32549107 TTTCCCCTTTATTTT
1 TTTCCCCTTTATTTT
*
32549122 TTTCCCCTTTGTTTT
1 TTTCCCCTTTATTTT
32549137 TTT
1 TTT
32549140 AAAGAAATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.03, C:0.24, G:0.03, T:0.70
Consensus pattern (15 bp):
TTTCCCCTTTATTTT
Found at i:32553674 original size:17 final size:19
Alignment explanation
Indices: 32553654--32553695 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
32553644 CATAATTAAG
*
32553654 ATAAAT-AAAA-TAGAATA
1 ATAAATAAAAATTAGAACA
32553671 ATAAATCAAAAATTAGAACA
1 ATAAAT-AAAAATTAGAACA
32553691 ATAAA
1 ATAAA
32553696 GAAGATAGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 6 0.29
19 4 0.19
20 11 0.52
ACGTcount: A:0.69, C:0.05, G:0.05, T:0.21
Consensus pattern (19 bp):
ATAAATAAAAATTAGAACA
Found at i:32557593 original size:30 final size:30
Alignment explanation
Indices: 32557559--32557619 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
32557549 TCTTTAATAC
*
32557559 AAACTTTGGAAAAATTACATTTTTGCCCCT
1 AAACTTTGGAAAAATTACACTTTTGCCCCT
* * *
32557589 AAACTTTTGCATAATTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACACTTTTGCCCCT
32557619 A
1 A
32557620 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACACTTTTGCCCCT
Found at i:32559270 original size:16 final size:15
Alignment explanation
Indices: 32559249--32559278 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
32559239 TTTTTAAATA
32559249 TTTTTTATTTCTTTAT
1 TTTTTTATTT-TTTAT
32559265 TTTTTTATTTTTTA
1 TTTTTTATTTTTTA
32559279 ATAATTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.13, C:0.03, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTTTATTTTTTAT
Found at i:32562938 original size:2 final size:2
Alignment explanation
Indices: 32562931--32562957 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
32562921 TTTTTGAAAT
32562931 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
32562958 GCATAAATTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:32564335 original size:18 final size:18
Alignment explanation
Indices: 32564293--32564337 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
32564283 TTTTCAAAAT
32564293 AAATTT-TA-AAATTCAA
1 AAATTTATATAAATTCAA
*
32564309 AATATTTATATAAATTCTA
1 AA-ATTTATATAAATTCAA
32564328 AAATTTATAT
1 AAATTTATAT
32564338 TTTTTAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 2 0.08
17 4 0.16
18 10 0.40
19 9 0.36
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (18 bp):
AAATTTATATAAATTCAA
Found at i:32564345 original size:16 final size:17
Alignment explanation
Indices: 32564326--32564359 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
32564316 ATATAAATTC
*
32564326 TAAAATTTAT-ATTTTT
1 TAAAAATTATAATTTTT
32564342 TAAAAATTATAATTTTT
1 TAAAAATTATAATTTTT
32564359 T
1 T
32564360 TTAAAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TAAAAATTATAATTTTT
Found at i:32566917 original size:51 final size:51
Alignment explanation
Indices: 32566857--32566959 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
32566847 GGAATTTGAA
32566857 GTAAGGTACTATAACCTGTATGTTTAGATCCTGCAAGCATAAAAGTCACCT
1 GTAAGGTACTATAACCTGTATGTTTAGATCCTGCAAGCATAAAAGTCACCT
32566908 GTAAGGTACTATAACCTGTATGTTTAGATCCTGCAAGCATAAAAGTCACCT
1 GTAAGGTACTATAACCTGTATGTTTAGATCCTGCAAGCATAAAAGTCACCT
32566959 G
1 G
32566960 AAAATTGGGA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.29
Consensus pattern (51 bp):
GTAAGGTACTATAACCTGTATGTTTAGATCCTGCAAGCATAAAAGTCACCT
Found at i:32571666 original size:21 final size:23
Alignment explanation
Indices: 32571635--32571687 Score: 76
Period size: 21 Copynumber: 2.4 Consensus size: 23
32571625 AAAAATATTG
32571635 TAAAA-TAATTTTTAT-AA-TTT
1 TAAAATTAATTTTTATAAATTTT
32571655 TAAAATTAATTTTTATAAATTTT
1 TAAAATTAATTTTTATAAATTTT
32571678 TAAAAATTAA
1 T-AAAATTAA
32571688 AAAATTAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 5 0.17
21 10 0.34
22 2 0.07
23 4 0.14
24 8 0.28
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
TAAAATTAATTTTTATAAATTTT
Found at i:32572474 original size:43 final size:43
Alignment explanation
Indices: 32572409--32572491 Score: 132
Period size: 43 Copynumber: 1.9 Consensus size: 43
32572399 AAAAAAACCT
* *
32572409 CTAAAGACCATGACTTTGAGCGGCGCTTTTTTTACAAACGTTG
1 CTAAAGACCATGACTTTGAGCGGCGCTTTTCTCACAAACGTTG
32572452 CTAAAGACCATGACCTTT-AGCGGCGCTTTTCTCACAAACG
1 CTAAAGACCATGA-CTTTGAGCGGCGCTTTTCTCACAAACG
32572492 CCGCTAAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
43 33 0.89
44 4 0.11
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (43 bp):
CTAAAGACCATGACTTTGAGCGGCGCTTTTCTCACAAACGTTG
Found at i:32572513 original size:43 final size:43
Alignment explanation
Indices: 32572421--32572513 Score: 105
Period size: 43 Copynumber: 2.1 Consensus size: 43
32572411 AAAGACCATG
* * ** * *
32572421 ACTTTGAGCGGCGCTTTTTTTACAAACGTTGCTAAAGACCATGA
1 ACTTT-AGCGGCGCTTTTCTCACAAACGCCGCTAAAAACCATAA
* *
32572465 CCTTTAGCGGCGCTTTTCTCACAAACGCCGCTAAAAATCATAA
1 ACTTTAGCGGCGCTTTTCTCACAAACGCCGCTAAAAACCATAA
32572508 ACTTTA
1 ACTTTA
32572514 AAAAAATTAT
Statistics
Matches: 40, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
43 36 0.90
44 4 0.10
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (43 bp):
ACTTTAGCGGCGCTTTTCTCACAAACGCCGCTAAAAACCATAA
Found at i:32572539 original size:19 final size:22
Alignment explanation
Indices: 32572524--32572571 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
32572514 AAAAAATTAT
32572524 TTTATTT-TA-ATTAAATAATA
1 TTTATTTCTATATTAAATAATA
*
32572544 TTTATTTCTATATTAAATATTA
1 TTTATTTCTATATTAAATAATA
32572566 TATTAT
1 T-TTAT
32572572 GTTTAATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 7 0.29
21 2 0.08
22 11 0.46
23 4 0.17
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (22 bp):
TTTATTTCTATATTAAATAATA
Found at i:32574950 original size:23 final size:23
Alignment explanation
Indices: 32574918--32574961 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
32574908 GATGGATCTG
32574918 CTTAAACAAAAACAAGTAGTCCT
1 CTTAAACAAAAACAAGTAGTCCT
* *
32574941 CTTAAGCAAAAACAATTAGTC
1 CTTAAACAAAAACAAGTAGTC
32574962 AGTAGATTGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.48, C:0.20, G:0.09, T:0.23
Consensus pattern (23 bp):
CTTAAACAAAAACAAGTAGTCCT
Found at i:32576634 original size:9 final size:9
Alignment explanation
Indices: 32576617--32576656 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
32576607 GCTTGTTTAA
*
32576617 TTTTAATTT
1 TTTTTATTT
32576626 TTTTTATTT
1 TTTTTATTT
32576635 TTTTCTATTT
1 TTTT-TATTT
*
32576645 TTTCTATTT
1 TTTTTATTT
32576654 TTT
1 TTT
32576657 CTTTTAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
9 20 0.71
10 8 0.29
ACGTcount: A:0.12, C:0.05, G:0.00, T:0.82
Consensus pattern (9 bp):
TTTTTATTT
Found at i:32576657 original size:9 final size:9
Alignment explanation
Indices: 32576622--32576658 Score: 56
Period size: 9 Copynumber: 4.0 Consensus size: 9
32576612 TTTAATTTTA
*
32576622 ATTTTTTTT
1 ATTTTTTCT
32576631 ATTTTTTTCT
1 A-TTTTTTCT
32576641 ATTTTTTCT
1 ATTTTTTCT
32576650 ATTTTTTCT
1 ATTTTTTCT
32576659 TTTAAATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
9 18 0.69
10 8 0.31
ACGTcount: A:0.11, C:0.08, G:0.00, T:0.81
Consensus pattern (9 bp):
ATTTTTTCT
Found at i:32576755 original size:7 final size:7
Alignment explanation
Indices: 32576743--32576770 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
32576733 ATATGGACTA
32576743 AAATATT
1 AAATATT
32576750 AAATATT
1 AAATATT
32576757 AAATATT
1 AAATATT
32576764 AAATATT
1 AAATATT
32576771 TAAGTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
AAATATT
Found at i:32576785 original size:7 final size:7
Alignment explanation
Indices: 32576775--32576809 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
32576765 AATATTTAAG
32576775 TTTTTTA
1 TTTTTTA
32576782 TTTTTTA
1 TTTTTTA
*
32576789 TTTTTAAA
1 TTTTT-TA
32576797 TTTTTTA
1 TTTTTTA
32576804 TTTTTT
1 TTTTTT
32576810 TGAAGATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 19 0.76
8 6 0.24
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (7 bp):
TTTTTTA
Found at i:32578146 original size:41 final size:41
Alignment explanation
Indices: 32577942--32578130 Score: 319
Period size: 41 Copynumber: 4.7 Consensus size: 41
32577932 AAAAGCGCCG
32577942 CTGGTCTTCAGCGGCGTTTTACC-AAAGCGCCGCTAATGCT
1 CTGGTCTTCAGCGGCGTTTTACCAAAAGCGCCGCTAATGCT
32577982 CTGGTCTTCAGCGGCGTTTTACCAAAAGCGCCGCTAATGCT
1 CTGGTCTTCAGCGGCGTTTTACCAAAAGCGCCGCTAATGCT
32578023 CTGGTCTTCAGCGGCGTTTTACCAAAAGCGCCGCTAATGCT
1 CTGGTCTTCAGCGGCGTTTTACCAAAAGCGCCGCTAATGCT
*
32578064 CTGGTCTTCAGCGGCATTTTACCAAAAGCGCCGCTAATGCT
1 CTGGTCTTCAGCGGCGTTTTACCAAAAGCGCCGCTAATGCT
* * * *
32578105 CT-GTTTTTAGCGACGTTTTAACAAAA
1 CTGGTCTTCAGCGGCGTTTTACCAAAA
32578131 AACGCTGCTA
Statistics
Matches: 142, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
40 42 0.30
41 100 0.70
ACGTcount: A:0.21, C:0.28, G:0.23, T:0.29
Consensus pattern (41 bp):
CTGGTCTTCAGCGGCGTTTTACCAAAAGCGCCGCTAATGCT
Found at i:32578195 original size:41 final size:41
Alignment explanation
Indices: 32577969--32578195 Score: 147
Period size: 41 Copynumber: 5.5 Consensus size: 41
32577959 TTTACCAAAG
* * * * * *
32577969 CGCCGCTAATGCTCTGGTCTTCAGCGGCGTTTT-ACCAAAAG
1 CGCCGCTATTGCTCT-GTTTTTAGCGACGTTTTAACAAAAAA
* * * * * *
32578010 CGCCGCTAATGCTCTGGTCTTCAGCGGCGTTTT-ACCAAAAG
1 CGCCGCTATTGCTCT-GTTTTTAGCGACGTTTTAACAAAAAA
* * * * * * *
32578051 CGCCGCTAATGCTCTGGTCTTCAGCGGCATTTT-ACCAAAAG
1 CGCCGCTATTGCTCT-GTTTTTAGCGACGTTTTAACAAAAAA
*
32578092 CGCCGCTAATGCTCTGTTTTTAGCGACGTTTTAACAAAAAA
1 CGCCGCTATTGCTCTGTTTTTAGCGACGTTTTAACAAAAAA
* * ****
32578133 CGCTGCTATTGCTCAGTTTTTAGCGACGTTTT-TGTTAAAA
1 CGCCGCTATTGCTCTGTTTTTAGCGACGTTTTAACAAAAAA
*
32578173 CGCCGCTATTACTCTGTGTTTTA
1 CGCCGCTATTGCTCTGT-TTTTA
32578196 CAATTTTTGC
Statistics
Matches: 167, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
40 31 0.19
41 136 0.81
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (41 bp):
CGCCGCTATTGCTCTGTTTTTAGCGACGTTTTAACAAAAAA
Found at i:32578998 original size:52 final size:52
Alignment explanation
Indices: 32578920--32579030 Score: 215
Period size: 52 Copynumber: 2.2 Consensus size: 52
32578910 ATATATCTTC
32578920 ATCTCTTTATGAGTTTCAACAATAATCAATAACAAGAGTAATCAATAATTCA
1 ATCTCTTTATGAGTTTCAACAATAATCAATAACAAGAGTAATCAATAATTCA
32578972 ATCTCTTTATGAGTTTCAACAATAATCAATAACAAGAGTAATCAATAATTCA
1 ATCTCTTTATGAGTTTCAACAATAATCAATAACAAGAGTAATCAATAATTCA
32579024 ATC-CTTT
1 ATCTCTTT
32579031 TTTGATTCAT
Statistics
Matches: 59, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
51 4 0.07
52 55 0.93
ACGTcount: A:0.42, C:0.16, G:0.07, T:0.34
Consensus pattern (52 bp):
ATCTCTTTATGAGTTTCAACAATAATCAATAACAAGAGTAATCAATAATTCA
Found at i:32579799 original size:2 final size:2
Alignment explanation
Indices: 32579792--32579826 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
32579782 TTGAGTTTGT
32579792 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
32579827 TTCTAATTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:32579973 original size:2 final size:2
Alignment explanation
Indices: 32579968--32580003 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
32579958 GCACTCTCTA
32579968 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32580004 TAGTTAATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32581050 original size:22 final size:23
Alignment explanation
Indices: 32581016--32581061 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
32581006 TAGTACAATG
32581016 AAATATTAAGAA-TAAATTGATAA
1 AAATATTAAGAATTAAATT-ATAA
*
32581039 AAAT-TTAGGAATTAAATTATAA
1 AAATATTAAGAATTAAATTATAA
32581061 A
1 A
32581062 TTTCTCAGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.33
Consensus pattern (23 bp):
AAATATTAAGAATTAAATTATAA
Found at i:32582790 original size:36 final size:36
Alignment explanation
Indices: 32582743--32582814 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
32582733 GGCGTAGGAG
32582743 AAAGTTCTTATTTTATTGCATTTGACCTAGTTTTTT
1 AAAGTTCTTATTTTATTGCATTTGACCTAGTTTTTT
32582779 AAAGTTCTTATTTTATTGCATTTGACCTAGTTTTTT
1 AAAGTTCTTATTTTATTGCATTTGACCTAGTTTTTT
32582815 CTTTGCATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.22, C:0.11, G:0.11, T:0.56
Consensus pattern (36 bp):
AAAGTTCTTATTTTATTGCATTTGACCTAGTTTTTT
Found at i:32588349 original size:41 final size:41
Alignment explanation
Indices: 32588304--32588437 Score: 103
Period size: 41 Copynumber: 3.1 Consensus size: 41
32588294 CTCTCCGTTG
32588304 AACACAGAGATACCAAATCATCTTAGATTTGCTTCAACGTA
1 AACACAGAGATACCAAATCATCTTAGATTTGCTTCAACGTA
* * * * *
32588345 AACAC-GTGAAAGCCAAATAAGCTATGTCTTCGATCTGCTCTC--CGTCG
1 AACACAGAGATA-CCAAAT---C-A--TCTTAGATTTGCT-TCAACGT-A
* *
32588392 AACACAGAGATGCCAAATCATCTTAGATTTGCTTCAACATA
1 AACACAGAGATACCAAATCATCTTAGATTTGCTTCAACGTA
32588433 AACAC
1 AACAC
32588438 GTGAAAGTCA
Statistics
Matches: 69, Mismatches: 12, Indels: 24
0.66 0.11 0.23
Matches are distributed among these distances:
40 6 0.09
41 27 0.39
42 2 0.03
43 1 0.01
44 2 0.03
45 1 0.01
46 3 0.04
47 22 0.32
48 5 0.07
ACGTcount: A:0.36, C:0.25, G:0.14, T:0.25
Consensus pattern (41 bp):
AACACAGAGATACCAAATCATCTTAGATTTGCTTCAACGTA
Found at i:32588435 original size:88 final size:88
Alignment explanation
Indices: 32588283--32588503 Score: 379
Period size: 88 Copynumber: 2.5 Consensus size: 88
32588273 CATGTCGATA
* * *
32588283 TCTTCGATCAGCTCTCCGTTGAACACAGAGATACCAAATCATCTTAGATTTGCTTCAACGTAAAC
1 TCTTCGATCTGCTCTCCGTTGAACACAGAGATGCCAAATCATCTTAGATTTGCTTCAACATAAAC
32588348 ACGTGAAAGCCAAATAAGCTATG
66 ACGTGAAAGCCAAATAAGCTATG
*
32588371 TCTTCGATCTGCTCTCCGTCGAACACAGAGATGCCAAATCATCTTAGATTTGCTTCAACATAAAC
1 TCTTCGATCTGCTCTCCGTTGAACACAGAGATGCCAAATCATCTTAGATTTGCTTCAACATAAAC
* *
32588436 ACGTGAAAGTCAAATCAGCTATG
66 ACGTGAAAGCCAAATAAGCTATG
*
32588459 TCTTCGATCTGCTCTCCGTTAAACACAGAGATGCCAAATCATCTT
1 TCTTCGATCTGCTCTCCGTTGAACACAGAGATGCCAAATCATCTT
32588504 GGATCTGCCT
Statistics
Matches: 125, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
88 125 1.00
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (88 bp):
TCTTCGATCTGCTCTCCGTTGAACACAGAGATGCCAAATCATCTTAGATTTGCTTCAACATAAAC
ACGTGAAAGCCAAATAAGCTATG
Found at i:32588597 original size:45 final size:45
Alignment explanation
Indices: 32588537--32588747 Score: 243
Period size: 45 Copynumber: 4.8 Consensus size: 45
32588527 ATCTGCTACG
* * * *
32588537 TCTTCGATCTGCTCCCCGTCGAATACAGAGAGATAAAATCTGTCA
1 TCTTGGATCTACTCCCCGTCCATTACAGAGAGATAAAATCTGTCA
* * *
32588582 TCTTGGATCTACTCCCCGTCCATTACAAAGAGATAAGATCTATCA
1 TCTTGGATCTACTCCCCGTCCATTACAGAGAGATAAAATCTGTCA
* *
32588627 TCTTGGATCTACTCCCCGTCCATTACGGAGAGATAACATCTGTCA
1 TCTTGGATCTACTCCCCGTCCATTACAGAGAGATAAAATCTGTCA
** * *
32588672 TCTTGGATCTACTCCCTATTCATTACAGAGAG-----ATCTTTCA
1 TCTTGGATCTACTCCCCGTCCATTACAGAGAGATAAAATCTGTCA
* * *
32588712 TCTTGGATCTGCCCCCCGTCCATTACAAAGAGATAA
1 TCTTGGATCTACTCCCCGTCCATTACAGAGAGATAA
32588748 GGTCCGCCAT
Statistics
Matches: 140, Mismatches: 22, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
40 33 0.24
45 107 0.76
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.29
Consensus pattern (45 bp):
TCTTGGATCTACTCCCCGTCCATTACAGAGAGATAAAATCTGTCA
Found at i:32588696 original size:90 final size:85
Alignment explanation
Indices: 32588537--32588747 Score: 269
Period size: 90 Copynumber: 2.4 Consensus size: 85
32588527 ATCTGCTACG
* * * *
32588537 TCTTCGATCTGCTCCCCGTCGAATACAGAGAGATAAAATCTGTCATCTTGGATCTACTCCCCGTC
1 TCTTGGATCTGCTCCCCGTCCATTACAGAGAGATAAAATCTGTCATCTTGGATCTACTCCCCATC
32588602 CATTACAAAGAGATAAGATCTATCA
66 CATTAC--AGAG---AGATCTATCA
* * * * *
32588627 TCTTGGATCTACTCCCCGTCCATTACGGAGAGATAACATCTGTCATCTTGGATCTACTCCCTATT
1 TCTTGGATCTGCTCCCCGTCCATTACAGAGAGATAAAATCTGTCATCTTGGATCTACTCCCCATC
*
32588692 CATTACAGAGAGATCTTTCA
66 CATTACAGAGAGATCTATCA
* *
32588712 TCTTGGATCTGCCCCCCGTCCATTACAAAGAGATAA
1 TCTTGGATCTGCTCCCCGTCCATTACAGAGAGATAA
32588748 GGTCCGCCAT
Statistics
Matches: 107, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
85 41 0.38
88 4 0.04
90 62 0.58
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.29
Consensus pattern (85 bp):
TCTTGGATCTGCTCCCCGTCCATTACAGAGAGATAAAATCTGTCATCTTGGATCTACTCCCCATC
CATTACAGAGAGATCTATCA
Found at i:32589786 original size:8 final size:8
Alignment explanation
Indices: 32589773--32589811 Score: 51
Period size: 8 Copynumber: 4.6 Consensus size: 8
32589763 GCCTCTCCAT
32589773 TTTTTCTC
1 TTTTTCTC
32589781 TTTTTCTC
1 TTTTTCTC
*
32589789 TTTTTCTTT
1 TTTTTC-TC
32589798 TCTTTTCTC
1 T-TTTTCTC
32589807 TTTTT
1 TTTTT
32589812 TTTTGAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 18 0.67
9 4 0.15
10 5 0.19
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (8 bp):
TTTTTCTC
Found at i:32589814 original size:16 final size:18
Alignment explanation
Indices: 32589772--32589815 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
32589762 GGCCTCTCCA
*
32589772 TTTTTTCTCTTTTTCTCT
1 TTTTTTTTCTTTTTCTCT
32589790 TTTTCTTTTC-TTTTCTCT
1 TTTT-TTTTCTTTTTCTCT
32589808 TTTTTTTT
1 TTTTTTTT
32589816 GAAATAGAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 4 0.17
18 16 0.67
19 4 0.17
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (18 bp):
TTTTTTTTCTTTTTCTCT
Found at i:32596221 original size:16 final size:16
Alignment explanation
Indices: 32596184--32596222 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
32596174 CACAAATGCT
32596184 GGCTTTTTGGCTTTTC
1 GGCTTTTTGGCTTTTC
**
32596200 AACTTTTTGGCTTTTC
1 GGCTTTTTGGCTTTTC
32596216 GGCTTTT
1 GGCTTTT
32596223 ACCGATCTAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.05, C:0.18, G:0.21, T:0.56
Consensus pattern (16 bp):
GGCTTTTTGGCTTTTC
Found at i:32597062 original size:27 final size:29
Alignment explanation
Indices: 32597001--32597077 Score: 95
Period size: 27 Copynumber: 2.7 Consensus size: 29
32596991 ATAGAGGAAA
* * *
32597001 AAAGAAAAAGAAGAGGAGAAAGTAGATGG
1 AAAGAAAAAGAAGAAGAGAAAGAAGAAGG
*
32597030 AGAGAAAAAGAA-AAGA-AAAGAAGAAGG
1 AAAGAAAAAGAAGAAGAGAAAGAAGAAGG
*
32597057 AAAGAAATAGAAGAAGAGAAA
1 AAAGAAAAAGAAGAAGAGAAA
32597078 TTATCAAAAC
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
27 19 0.47
28 7 0.17
29 14 0.35
ACGTcount: A:0.66, C:0.00, G:0.30, T:0.04
Consensus pattern (29 bp):
AAAGAAAAAGAAGAAGAGAAAGAAGAAGG
Found at i:32597068 original size:17 final size:17
Alignment explanation
Indices: 32597032--32597077 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
32597022 GTAGATGGAG
*
32597032 AGAAAAAGA-AAAGAAA
1 AGAAGAAGAGAAAGAAA
32597048 AGAAGAAG-GAAAGAAA
1 AGAAGAAGAGAAAGAAA
32597064 TAGAAGAAGAGAAA
1 -AGAAGAAGAGAAA
32597078 TTATCAAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
16 14 0.54
17 8 0.31
18 4 0.15
ACGTcount: A:0.72, C:0.00, G:0.26, T:0.02
Consensus pattern (17 bp):
AGAAGAAGAGAAAGAAA
Found at i:32597991 original size:15 final size:15
Alignment explanation
Indices: 32597954--32597982 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
32597944 TTTTTCTATC
32597954 TAATAATAATAATTA
1 TAATAATAATAATTA
32597969 TAATAATAATAATT
1 TAATAATAATAATT
32597983 TTATAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TAATAATAATAATTA
Found at i:32604301 original size:22 final size:21
Alignment explanation
Indices: 32604212--32604301 Score: 58
Period size: 22 Copynumber: 4.0 Consensus size: 21
32604202 ACGCTTACTA
*
32604212 ATATTAATAATA-ATAATAAGG
1 ATATTAA-AATATATAATAATG
32604233 ATAATATAAAATATATATATGAAAT-
1 AT-AT-TAAAATATATA-AT--AATG
* *
32604258 AGTATAAAAATGTATAACTAATG
1 A-TATTAAAATATATAA-TAATG
32604281 ATATTAAAATATATATATAAT
1 ATATTAAAATATATA-ATAAT
32604302 AATAGTATTA
Statistics
Matches: 54, Mismatches: 5, Indels: 19
0.69 0.06 0.24
Matches are distributed among these distances:
21 2 0.04
22 25 0.46
23 9 0.17
24 12 0.22
25 3 0.06
26 3 0.06
ACGTcount: A:0.57, C:0.01, G:0.07, T:0.36
Consensus pattern (21 bp):
ATATTAAAATATATAATAATG
Found at i:32604310 original size:25 final size:25
Alignment explanation
Indices: 32604239--32604324 Score: 83
Period size: 25 Copynumber: 3.6 Consensus size: 25
32604229 AAGGATAATA
*
32604239 TAAAATATATATATGA-AATAGTA-
1 TAAAATATATATATAATAATAGTAT
* *
32604262 TAAAA-ATGTATA-ACTAAT-GATAT
1 TAAAATATATATATAATAATAG-TAT
32604285 TAAAATATATATATAATAATAGTAT
1 TAAAATATATATATAATAATAGTAT
* *
32604310 TAAAAGAAATATATA
1 TAAAATATATATATA
32604325 TAAGATAATA
Statistics
Matches: 50, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
21 1 0.02
22 11 0.22
23 10 0.20
24 6 0.12
25 21 0.42
26 1 0.02
ACGTcount: A:0.57, C:0.01, G:0.07, T:0.35
Consensus pattern (25 bp):
TAAAATATATATATAATAATAGTAT
Found at i:32604518 original size:3 final size:3
Alignment explanation
Indices: 32604494--32604553 Score: 61
Period size: 3 Copynumber: 19.7 Consensus size: 3
32604484 AAGTACCTAT
*
32604494 TAA TAA TAT TATA TAA -ATA TAA TAA TAAA TAA TAA TAA T-A TAA TAA
1 TAA TAA TAA TA-A TAA TA-A TAA TAA T-AA TAA TAA TAA TAA TAA TAA
*
32604540 TAA TAA CAA TAA TA
1 TAA TAA TAA TAA TA
32604554 GTAAAAATAC
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
2 3 0.06
3 39 0.81
4 6 0.12
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:32604535 original size:21 final size:21
Alignment explanation
Indices: 32604509--32604562 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
32604499 ATATTATATA
*
32604509 AATATAATAATAAATAATAAT
1 AATATAATAATAAATAACAAT
32604530 AATATAATAAT-AATAACAAT
1 AATATAATAATAAATAACAAT
*
32604550 AATAGTAAAAATA
1 AATA-TAATAATA
32604563 CAAAAGAAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 12 0.41
21 17 0.59
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (21 bp):
AATATAATAATAAATAACAAT
Found at i:32604541 original size:29 final size:30
Alignment explanation
Indices: 32604494--32604551 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
32604484 AAGTACCTAT
* *
32604494 TAATAATATTATATAAAT-ATAATAATAAA
1 TAATAATAATATATAAATAATAACAATAAA
32604523 TAATAATAATATA-ATAATAATAACAATAA
1 TAATAATAATATATA-AATAATAACAATAA
32604552 TAGTAAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 1 0.04
29 15 0.60
30 9 0.36
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (30 bp):
TAATAATAATATATAAATAATAACAATAAA
Found at i:32604543 original size:17 final size:18
Alignment explanation
Indices: 32604515--32604550 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
32604505 TATAAATATA
*
32604515 ATAATAAATAATAATAAT
1 ATAATAAATAATAACAAT
32604533 ATAAT-AATAATAACAAT
1 ATAATAAATAATAACAAT
32604550 A
1 A
32604551 ATAGTAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (18 bp):
ATAATAAATAATAACAAT
Found at i:32604722 original size:3 final size:3
Alignment explanation
Indices: 32604714--32604820 Score: 69
Period size: 3 Copynumber: 35.0 Consensus size: 3
32604704 ACTAATATTT
* * *
32604714 ATA ATA ATA ATA GTAA ATA A-A ATA ATA ATA AAA ATA TTA AGT- ATA
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA
* * * *
32604759 GT- ATAA ATA ATA TGTA CATA ACA ATA ATA ATA ATA ATA AGTA ACA ATA
1 ATA AT-A ATA ATA -ATA -ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA
32604807 AT- ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA
32604821 TAGCAAAATT
Statistics
Matches: 80, Mismatches: 15, Indels: 18
0.71 0.13 0.16
Matches are distributed among these distances:
2 6 0.08
3 62 0.77
4 12 0.15
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:32606797 original size:89 final size:87
Alignment explanation
Indices: 32606515--32606819 Score: 287
Period size: 87 Copynumber: 3.5 Consensus size: 87
32606505 GTGATCCTGA
** * * * *
32606515 GCTCAACTCATTTCTCGCAATATGAATTGACTCTTT-AAAAATAGACATT-AAAAATAGAAATTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAATTA-A-ATTGAAAAACAGAAATTG
* * * *
32606578 AAGATAGCTC-AGCACGTGAGCCAAG
63 AAAACACCTCGA-CACGTGACCCAAG
* * * ** **
32606603 GCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAACTTAATTTGAAAAGTAGATTTTGAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATTAAATTGAAAAACAGAAATTGAAA
*
32606668 ACACCTCGACATGTGACCCAAG
66 ACACCTCGACACGTGACCCAAG
*
32606690 GCTCAACTCAACTCTCGCAATATGAGTTGATTTTTGAAATATATAAATTGAAAAAAACAGAAATT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA-AT-TAAATTG--AAAAACAGAAATT
* * **
32606755 GAAAATACCTC-A-ACGTGTCCTGAG
62 GAAAACACCTCGACACGTGACCCAAG
32606779 GCTCAACTCACCTCTCGCAATATGAGTTGATTTCTTGAAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTT-TTGAAAA
32606820 GCAGAAATTG
Statistics
Matches: 179, Mismatches: 30, Indels: 15
0.80 0.13 0.07
Matches are distributed among these distances:
86 2 0.01
87 71 0.40
88 33 0.18
89 47 0.26
90 7 0.04
91 19 0.11
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (87 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATTAAATTGAAAAACAGAAATTGAAA
ACACCTCGACACGTGACCCAAG
Found at i:32606828 original size:74 final size:73
Alignment explanation
Indices: 32606742--32607068 Score: 300
Period size: 74 Copynumber: 4.2 Consensus size: 73
32606732 ATAAATTGAA
32606742 AAAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
32606807 GATTTCTTG
66 GATTT-TTG
* * * *
32606816 AAAAGCAGAAATTGAAAATACCTCAACGTGCCCTGAGGATCAACTCACCTCTCGCAATATGAATT
1 AAAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
32606881 GATTTTTA
66 GATTTTTG
* * ** ** * *
32606889 AAAAATATAAATTGAAAA-A-CAGAAATTGAAAATACCTCAGCGTGTCCTGAAGCTCAACTCACC
1 AAAAACAGAAATTGAAAATACCTCAACGTG----T-CCT--GAG-G--CTCAA---C---TCACC
32606952 TCTCGCAATATGAGTTGATTTTTTTG
50 TCTCGCAATATGAGTTGA--TTTTTG
* * *
32606978 ATAAACAGAAATT-AATATTACCTCAACGTGTCCTGAAGCTCAACTCACCTCTCGCAATATGAGT
1 AAAAACAGAAATTGAA-AATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
32607042 TGATTTTTG
65 TGATTTTTG
*
32607051 AAAGACAGAAATTGAAAA
1 AAAAACAGAAATTGAAAA
32607069 ACAAAAATTG
Statistics
Matches: 199, Mismatches: 32, Indels: 45
0.72 0.12 0.16
Matches are distributed among these distances:
71 5 0.03
72 1 0.01
73 35 0.18
74 68 0.34
75 23 0.12
76 3 0.02
78 3 0.02
79 1 0.01
81 7 0.04
83 1 0.01
84 2 0.01
86 3 0.02
87 23 0.12
88 2 0.01
89 16 0.08
90 1 0.01
91 5 0.03
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.28
Consensus pattern (73 bp):
AAAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTG
Found at i:32606917 original size:87 final size:87
Alignment explanation
Indices: 32606813--32606974 Score: 270
Period size: 87 Copynumber: 1.9 Consensus size: 87
32606803 AGTTGATTTC
* *
32606813 TTGAAAAGCAGAAATTGAAAATACCTCAACGTGCCCTGAGGATCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGCCCTGAAGATCAACTCACCTCTCGCAATATGA
32606878 ATTGATTTTTAAAAAATATAAA
66 ATTGATTTTTAAAAAATATAAA
* * *
32606900 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAAGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGCCCTGAAGATCAACTCACCTCTCGCAATATGA
*
32606965 GTTGATTTTT
66 ATTGATTTTT
32606975 TTGATAAACA
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 69 1.00
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.28
Consensus pattern (87 bp):
TTGAAAAACAGAAATTGAAAATACCTCAACGTGCCCTGAAGATCAACTCACCTCTCGCAATATGA
ATTGATTTTTAAAAAATATAAA
Found at i:32606950 original size:161 final size:159
Alignment explanation
Indices: 32606688--32607533 Score: 1060
Period size: 162 Copynumber: 5.3 Consensus size: 159
32606678 ATGTGACCCA
* * *
32606688 AGGCTCAACTCAACTCTCGCAATATGAGTTGATTTTTGAAATATATAAATTGAAAAAAACAGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATTG--AAAAACAGAAA
* *
32606753 TTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTCTTGAA
64 TTGAAAATACCTCAGCGTGACC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT-TTGAA
* *
32606818 AAGCAGAAATTGAAAATACCTCAACGTGCCCTG
127 AAACAGAAATTGAAAATACCTCAACGTGTCCTG
* * * *
32606851 AGGATCAACTCACCTCTCGCAATATGAATTGATTTTTAAAAAATATAAATTGAAAAACAGAAATT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATTGAAAAACAGAAATT
* * *
32606916 GAAAATACCTCAGCGTGTCCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATA
66 GAAAATACCTCAGCGTGACC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAA
*
32606981 AACAGAAATT-AATATTACCTCAACGTGTCCTG
128 AACAGAAATTGAA-AATACCTCAACGTGTCCTG
* * * *
32607013 AAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAGACAGAAATTGAAAAACAAAAATT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATTGAAAAACAGAAATT
* * * *
32607078 GAAAATACCTCAGCATGTGAAACGAGGCTCAACTTACCTCTCGCAATATGAG-TCAATTTTGAAA
66 GAAAATACCTCAGC--GTG-ACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
* *
32607142 AACAGAAATT-AAAATTACCTCAGCGTGTGCTG
128 AACAGAAATTGAAAA-TACCTCAACGTGTCCTG
* *
32607174 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGACAGAAATTGAAAAACAGAAAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACATAAATTGAAAAACAGAAAT
* * **
32607239 TGAAAGTACCTCAGCATGTGAAACGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-TT
65 TGAAAATACCTCAGC--GTG-ACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAA
* * * * * * *
32607303 GATCATAAATTGAGAATACCTCAATGTGACTTG
127 AAACAGAAATTGAAAATACCTCAACGTGTCCTG
*
32607336 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG--AAACATAAATT-AAAAA-AAAAATT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATTGAAAAACAGAAATT
* * *
32607397 GAAAATACCTCAGCGTGCCCCGAGGCTTAACTCACCTCTCGCAATATGAGTCGATTTTTGAAAAA
66 GAAAATACCTCAGCGTG-ACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
* * *
32607462 TAGAAATTGAAAATACCTCAGCGTGTCTTG
130 CAGAAATTGAAAATACCTCAACGTGTCCTG
* *
32607492 AGGCTCAACTCACATCTTGCAATATGAGTTGATTTTTGAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA
32607534 CAGAAATAAA
Statistics
Matches: 603, Mismatches: 67, Indels: 31
0.86 0.10 0.04
Matches are distributed among these distances:
155 40 0.07
156 61 0.10
157 19 0.03
158 7 0.01
159 9 0.01
160 1 0.00
161 138 0.23
162 236 0.39
163 61 0.10
164 30 0.05
165 1 0.00
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (159 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATTGAAAAACAGAAATT
GAAAATACCTCAGCGTGACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC
AGAAATTGAAAATACCTCAACGTGTCCTG
Found at i:32607028 original size:75 final size:75
Alignment explanation
Indices: 32606900--32607068 Score: 272
Period size: 75 Copynumber: 2.3 Consensus size: 75
32606890 AAAATATAAA
*
32606900 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAAGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCCTGAAGCTCAACTCACCTCTCGCAATATGA
32606965 GTTGATTTTT
66 GTTGATTTTT
* *
32606975 TTGATAAACAGAAATT-AATATTACCTCAACGTGTCCTGAAGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAACAGAAATTGAA-AATACCTCAACGTGTCCTGAAGCTCAACTCACCTCTCGCAATATG
32607039 AGTTGA--TTT
65 AGTTGATTTTT
*
32607048 TTGAAAGACAGAAATTGAAAA
1 TTGAAAAACAGAAATTGAAAA
32607069 ACAAAAATTG
Statistics
Matches: 86, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
73 18 0.21
74 4 0.05
75 64 0.74
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.29
Consensus pattern (75 bp):
TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCCTGAAGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTT
Found at i:32607067 original size:14 final size:14
Alignment explanation
Indices: 32607048--32607082 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
32607038 GAGTTGATTT
* *
32607048 TTGAAAGACAGAAA
1 TTGAAAAACAAAAA
32607062 TTGAAAAACAAAAA
1 TTGAAAAACAAAAA
32607076 TTGAAAA
1 TTGAAAA
32607083 TACCTCAGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.63, C:0.06, G:0.14, T:0.17
Consensus pattern (14 bp):
TTGAAAAACAAAAA
Found at i:32607197 original size:72 final size:74
Alignment explanation
Indices: 32607062--32607230 Score: 220
Period size: 74 Copynumber: 2.3 Consensus size: 74
32607052 AAGACAGAAA
* *
32607062 TTGAAAAACAAAAATTGAAAATACCTCAGCATGTGAAACGAGGCTCAACTTACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTG--ACGAGGCTCAACTCACCTCTCGCAATAT
32607127 GAG-TCA-ATT
64 GAGTTCATATT
*
32607136 TTGAAAAACAGAAATT-AAAATTACCTCAGCGTGTG-CTGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAA-TACCTCAGCATGTGAC-GAGGCTCAACTCACCTCTCGCAATAT
* *
32607199 GAGTTGATTTT
64 GAGTTCATATT
*
32607210 TTGAAAGACAGAAATTGAAAA
1 TTGAAAAACAGAAATTGAAAA
32607231 ACAGAAATTG
Statistics
Matches: 84, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
71 1 0.01
72 28 0.33
73 6 0.07
74 45 0.54
75 4 0.05
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.26
Consensus pattern (74 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCATGTGACGAGGCTCAACTCACCTCTCGCAATATGA
GTTCATATT
Found at i:32607229 original size:14 final size:14
Alignment explanation
Indices: 32607210--32607244 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
32607200 AGTTGATTTT
32607210 TTGAAAGACAGAAA
1 TTGAAAGACAGAAA
*
32607224 TTGAAAAACAGAAA
1 TTGAAAGACAGAAA
32607238 TTGAAAG
1 TTGAAAG
32607245 TACCTCAGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.57, C:0.06, G:0.20, T:0.17
Consensus pattern (14 bp):
TTGAAAGACAGAAA
Found at i:32607287 original size:90 final size:88
Alignment explanation
Indices: 32607136--32607301 Score: 271
Period size: 90 Copynumber: 1.9 Consensus size: 88
32607126 TGAGTCAATT
* *
32607136 TTGAAAAACAGAAATTAAAATTACCTCAGCGTGTGCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTAAAAGTACCTCAGCATGTGCTGAGGCTCAACTCACCTCTCGCAATATGA
32607201 GTTGATTTTTTGAAAGACAGAAA
66 GTTGATTTTTTGAAAGACAGAAA
*
32607224 TTGAAAAACAGAAATTGAAAGTACCTCAGCATGTGAAAC-GAGGCTCAACTCACCTCTCGCAATA
1 TTGAAAAACAGAAATTAAAAGTACCTCAGCATGTG---CTGAGGCTCAACTCACCTCTCGCAATA
32607288 TGAGTTGATTTTTT
63 TGAGTTGATTTTTT
32607302 TGATCATAAA
Statistics
Matches: 72, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
88 32 0.44
90 39 0.54
91 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.28
Consensus pattern (88 bp):
TTGAAAAACAGAAATTAAAAGTACCTCAGCATGTGCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTTGAAAGACAGAAA
Found at i:32607325 original size:323 final size:316
Alignment explanation
Indices: 32606690--32607547 Score: 1124
Period size: 323 Copynumber: 2.7 Consensus size: 316
32606680 GTGACCCAAG
* * *
32606690 GCTCAACTCAACTCTCGCAATATGAGTTGATTTTTGAAATATATAAATTGAAAAAAACAGAAATT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA-ACATAAATTG--AAAAACAAAAATT
* * *
32606755 GAAAATACCTCAAC-GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTCTTGAAA
63 GAAAATACCTCAGCAGTGACC-GAGGCTCAACTCACCTCTCGCAATATGAG-TCATTT-TTGAAA
* * * * *
32606819 AGCAGAAATTGAAAATACCTCAACGTGCCCTGAGGATCAACTCACCTCTCGCAATATGAATTGAT
125 AACAGAAATTGAAAATACCTCAGCGTG-TCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
* * * **
32606884 TTTTAAAAAATATAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAAGCTCAACTC
189 TTTT-GAAAACAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGAACTGAAGCTCAACTC
* * *
32606949 ACCTCTCGCAATATGAGTTGATTTTTTTGATAAACAGAAATTAATATTACCTCAACGTGTCCTGA
253 ACCTCTCGCAATATGAGTTGATTTTTTTGAT--ACAGAAATTAAGAATACCTCAACGTGACCTGA
32607014 A
316 A
*
32607015 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAGACAGAAATTGAAAAACAAAAATTGA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA-ACATAAATTGAAAAACAAAAATTGA
* * *
32607080 AAATACCTCAGCATGTGAAACGAGGCTCAACTTACCTCTCGCAATATGAGTCAATTTTGAAAAAC
65 AAATACCTCAGCA-GTG-ACCGAGGCTCAACTCACCTCTCGCAATATGAGTCATTTTTGAAAAAC
32607145 AGAAATT-AAAATTACCTCAGCGTGTGCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
128 AGAAATTGAAAA-TACCTCAGCGTGT-CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TT
* *
32607209 TTTGAAAGACAGAAATTGAAAAACAGAAATTGAAAGTACCTCAGCATGTGAAAC-GAGGCTCAAC
190 TTTGAAA-ACAGAAATTGAAAAACAGAAATTGAAAATACCTCAGC--GTG-AACTGAAGCTCAAC
* * * *
32607273 TCACCTCTCGCAATATGAGTTGATTTTTTTGAT-CATAAATTGAGAATACCTCAATGTGACTTGA
251 TCACCTCTCGCAATATGAGTTGATTTTTTTGATACAGAAATTAAGAATACCTCAACGTGACCTGA
*
32607337 G
316 A
32607338 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAACATAAATT-AAAAA-AAAAATTGAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACATAAATTGAAAAACAAAAATTGAA
* * *
32607400 AATACCTCAGC-GTGCCCCGAGGCTTAACTCACCTCTCGCAATATGAGTCGATTTTTGAAAAATA
66 AATACCTCAGCAGTG-ACCGAGGCTCAACTCACCTCTCGCAATATGAGTC-ATTTTTGAAAAACA
* *
32607464 GAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACATCTTGCAATATGAGTTGATTTTT
129 GAAATTGAAAATACCTCAGCGTGTC-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
32607529 GAAAACAGAAA-T-AAAAACA
193 GAAAACAGAAATTGAAAAACA
32607548 TCAGAATACC
Statistics
Matches: 479, Mismatches: 41, Indels: 37
0.86 0.07 0.07
Matches are distributed among these distances:
314 7 0.01
315 1 0.00
316 7 0.01
317 43 0.09
318 63 0.13
319 25 0.05
320 5 0.01
321 8 0.02
322 6 0.01
323 147 0.31
324 43 0.09
325 77 0.16
326 46 0.10
327 1 0.00
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (316 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACATAAATTGAAAAACAAAAATTGAA
AATACCTCAGCAGTGACCGAGGCTCAACTCACCTCTCGCAATATGAGTCATTTTTGAAAAACAGA
AATTGAAAATACCTCAGCGTGTCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAA
AACAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGAACTGAAGCTCAACTCACCTCTCG
CAATATGAGTTGATTTTTTTGATACAGAAATTAAGAATACCTCAACGTGACCTGAA
Found at i:32607514 original size:73 final size:73
Alignment explanation
Indices: 32607392--32607533 Score: 221
Period size: 73 Copynumber: 1.9 Consensus size: 73
32607382 ATTAAAAAAA
* *
32607392 AAATTGAAAATACCTCAGCGTGCCCCGAGGCTTAACTCACCTCTCGCAATATGAGTCGATTTTTG
1 AAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACATCTCGCAATATGAGTCGATTTTTG
32607457 AAAAATAG
66 AAAAATAG
* ** * *
32607465 AAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACATCTTGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACATCTCGCAATATGAGTCGATTTTTG
32607530 AAAA
66 AAAA
32607534 CAGAAATAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
73 62 1.00
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (73 bp):
AAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACATCTCGCAATATGAGTCGATTTTTG
AAAAATAG
Found at i:32619121 original size:29 final size:28
Alignment explanation
Indices: 32619057--32619113 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
32619047 TTTTTGAAAA
*
32619057 GAAAATTTATTCTTGAATAAAAATAAAG
1 GAAAATTTATTCTTGAACAAAAATAAAG
*
32619085 GAAAATTTATTCTTGAACAAAAATTAAG
1 GAAAATTTATTCTTGAACAAAAATAAAG
32619113 G
1 G
32619114 CCAAATTTGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.51, C:0.05, G:0.12, T:0.32
Consensus pattern (28 bp):
GAAAATTTATTCTTGAACAAAAATAAAG
Found at i:32619735 original size:20 final size:20
Alignment explanation
Indices: 32619685--32619735 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 20
32619675 TATATACATA
*
32619685 ATAATACTAAAAATATATAC
1 ATAATACTAATAATATATAC
*
32619705 ATAATAC--ATAATATATTAG
1 ATAATACTAATAATATA-TAC
32619724 A-AATACTAATAA
1 ATAATACTAATAA
32619736 CAAAAAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
18 12 0.46
19 3 0.12
20 11 0.42
ACGTcount: A:0.59, C:0.08, G:0.02, T:0.31
Consensus pattern (20 bp):
ATAATACTAATAATATATAC
Found at i:32619914 original size:19 final size:20
Alignment explanation
Indices: 32619892--32619940 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
32619882 AAATAATAAC
*
32619892 AATAATATTAAAAT-TAAGT
1 AATAATATGAAAATATAAGT
32619911 AATAATAGTGAAAATAATAAGT
1 AATAATA-TGAAAAT-ATAAGT
32619933 -ATAATATG
1 AATAATATG
32619941 GTATTAAGAG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 7 0.27
20 8 0.31
21 6 0.23
22 5 0.19
ACGTcount: A:0.57, C:0.00, G:0.10, T:0.33
Consensus pattern (20 bp):
AATAATATGAAAATATAAGT
Found at i:32620227 original size:23 final size:24
Alignment explanation
Indices: 32620201--32620255 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
32620191 AAAAGACATA
*
32620201 TATACGTAATATA-TATAAAAATG
1 TATACATAATATAGTATAAAAATG
* *
32620224 TATACATAATATAGTATTAAAATA
1 TATACATAATATAGTATAAAAATG
*
32620248 TTTACATA
1 TATACATA
32620256 GCATTTACAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
23 12 0.44
24 15 0.56
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.38
Consensus pattern (24 bp):
TATACATAATATAGTATAAAAATG
Found at i:32620523 original size:3 final size:3
Alignment explanation
Indices: 32620515--32620612 Score: 60
Period size: 3 Copynumber: 32.0 Consensus size: 3
32620505 ACTAATATTT
* * *
32620515 ATA ATA ATA ATA GTA A-A TATA ATA ATA ATA TTA AGT- ATA GT- ATAA
1 ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA A-TA ATA ATA AT-A
* * *
32620560 ATA ATA TGTA CATA ACA ATA ATA ATA ATA AGTA ACA ATA AT- ATA ATA
1 ATA ATA -ATA -ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA
32620607 ATA ATA
1 ATA ATA
32620613 TAGTAAAATT
Statistics
Matches: 73, Mismatches: 13, Indels: 18
0.70 0.12 0.17
Matches are distributed among these distances:
2 5 0.07
3 57 0.78
4 11 0.15
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:32620583 original size:24 final size:24
Alignment explanation
Indices: 32620559--32620618 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
32620549 GTATAGTATA
32620559 AATAATATGT-AC-ATAACAATAAT
1 AATAATATGTAACAATAA-AATAAT
* *
32620582 AATAATAAGTAACAATAATATAAT
1 AATAATATGTAACAATAAAATAAT
32620606 AATAATATAGTAA
1 AATAATAT-GTAA
32620619 AATTAATATT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
23 9 0.29
24 14 0.45
25 8 0.26
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.30
Consensus pattern (24 bp):
AATAATATGTAACAATAAAATAAT
Found at i:32620596 original size:19 final size:18
Alignment explanation
Indices: 32620572--32620607 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
32620562 AATATGTACA
32620572 TAACAATAATAATAATAAG
1 TAACAATAAT-ATAATAAG
32620591 TAACAATAATATAATAA
1 TAACAATAATATAATAA
32620608 TAATATAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.64, C:0.06, G:0.03, T:0.28
Consensus pattern (18 bp):
TAACAATAATATAATAAG
Found at i:32621800 original size:23 final size:23
Alignment explanation
Indices: 32621781--32621839 Score: 91
Period size: 23 Copynumber: 2.6 Consensus size: 23
32621771 TCAGGTTTGA
**
32621781 TGTAAATGGGTTTTGGGGTTTAG
1 TGTAAATGGGTCATGGGGTTTAG
*
32621804 TGTAAATGAGTCATGGGGTTTAG
1 TGTAAATGGGTCATGGGGTTTAG
32621827 TGTAAATGGGTCA
1 TGTAAATGGGTCA
32621840 GACAAAATTG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.24, C:0.03, G:0.36, T:0.37
Consensus pattern (23 bp):
TGTAAATGGGTCATGGGGTTTAG
Found at i:32622429 original size:6 final size:6
Alignment explanation
Indices: 32622412--32622458 Score: 51
Period size: 6 Copynumber: 7.8 Consensus size: 6
32622402 TAACACGATC
* * *
32622412 TTCCCT TCCCCT TTCCC- TTCCCT TTCCCT TCCCCT TCCCCT TCTCCC
1 TTCCCT TTCCCT TTCCCT TTCCCT TTCCCT TTCCCT TTCCCT T-TCCC
32622459 ATCCTTTTCG
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
5 5 0.14
6 27 0.77
7 3 0.09
ACGTcount: A:0.00, C:0.60, G:0.00, T:0.40
Consensus pattern (6 bp):
TTCCCT
Found at i:32622429 original size:12 final size:12
Alignment explanation
Indices: 32622412--32622454 Score: 70
Period size: 12 Copynumber: 3.7 Consensus size: 12
32622402 TAACACGATC
32622412 TTCCCTTCCCCT
1 TTCCCTTCCCCT
32622424 TTCCCTT-CCCT
1 TTCCCTTCCCCT
32622435 TTCCCTTCCCCT
1 TTCCCTTCCCCT
*
32622447 TCCCCTTC
1 TTCCCTTC
32622455 TCCCATCCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
11 11 0.38
12 18 0.62
ACGTcount: A:0.00, C:0.58, G:0.00, T:0.42
Consensus pattern (12 bp):
TTCCCTTCCCCT
Found at i:32622433 original size:17 final size:17
Alignment explanation
Indices: 32622411--32622450 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
32622401 GTAACACGAT
*
32622411 CTTCCCTTCCCCTTTCC
1 CTTCCCTTCCCCTTCCC
*
32622428 CTTCCCTTTCCCTTCCC
1 CTTCCCTTCCCCTTCCC
32622445 CTTCCC
1 CTTCCC
32622451 CTTCTCCCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.00, C:0.60, G:0.00, T:0.40
Consensus pattern (17 bp):
CTTCCCTTCCCCTTCCC
Found at i:32622436 original size:11 final size:11
Alignment explanation
Indices: 32622412--32622450 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
32622402 TAACACGATC
32622412 TTCCCTTCCCCT
1 TTCCCTT-CCCT
32622424 TTCCCTTCCCT
1 TTCCCTTCCCT
*
32622435 TTCCCTTCCCC
1 TTCCCTTCCCT
32622446 TTCCC
1 TTCCC
32622451 CTTCTCCCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
11 19 0.73
12 7 0.27
ACGTcount: A:0.00, C:0.59, G:0.00, T:0.41
Consensus pattern (11 bp):
TTCCCTTCCCT
Found at i:32624673 original size:33 final size:33
Alignment explanation
Indices: 32624634--32624713 Score: 133
Period size: 33 Copynumber: 2.4 Consensus size: 33
32624624 AGGGAATCTG
*
32624634 CCAAACAACAGAAAATATTTTACACAAATTCAT
1 CCAAACACCAGAAAATATTTTACACAAATTCAT
* *
32624667 CCAAACACCAGAAAATATTTTACATAGATTCAT
1 CCAAACACCAGAAAATATTTTACACAAATTCAT
32624700 CCAAACACCAGAAA
1 CCAAACACCAGAAA
32624714 GTAAATCATT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.50, C:0.24, G:0.05, T:0.21
Consensus pattern (33 bp):
CCAAACACCAGAAAATATTTTACACAAATTCAT
Found at i:32625555 original size:60 final size:60
Alignment explanation
Indices: 32625462--32625576 Score: 221
Period size: 60 Copynumber: 1.9 Consensus size: 60
32625452 TCACACAACC
*
32625462 GTGTAACAAATTAAGACTGTGCCAATAATCATGCATTTATATTACCAGTGGCACATGACT
1 GTGTAACAAATTAAGACTGTGCCAATAATCATGCATTTAGATTACCAGTGGCACATGACT
32625522 GTGTAACAAATTAAGACTGTGCCAATAATCATGCATTTAGATTACCAGTGGCACA
1 GTGTAACAAATTAAGACTGTGCCAATAATCATGCATTTAGATTACCAGTGGCACA
32625577 CAACCGTGTG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 54 1.00
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (60 bp):
GTGTAACAAATTAAGACTGTGCCAATAATCATGCATTTAGATTACCAGTGGCACATGACT
Found at i:32644722 original size:29 final size:29
Alignment explanation
Indices: 32644639--32644722 Score: 91
Period size: 29 Copynumber: 2.9 Consensus size: 29
32644629 ACTGTCGAAT
* * *
32644639 CCACAAGG-CCTGTGCCAAAATGTGTGAG
1 CCACAAGGTCGTGTGCCAGAACGTGTGAG
*
32644667 CCACAAGGTCGTGTGCCAGAACATGTGAG
1 CCACAAGGTCGTGTGCCAGAACGTGTGAG
* *
32644696 CCACACA-GTTGTGTGCCAGATCGTGTG
1 CCACA-AGGTCGTGTGCCAGAACGTGTG
32644723 TTAGGTCGTG
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
28 8 0.17
29 38 0.81
30 1 0.02
ACGTcount: A:0.25, C:0.25, G:0.30, T:0.20
Consensus pattern (29 bp):
CCACAAGGTCGTGTGCCAGAACGTGTGAG
Found at i:32644867 original size:19 final size:20
Alignment explanation
Indices: 32644829--32644868 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
32644819 ATGTATGATG
*
32644829 TATGTTAAATGAATAACTAT
1 TATGTTAAACGAATAACTAT
32644849 TATGTTAAACGAA-AACTAT
1 TATGTTAAACGAATAACTAT
32644868 T
1 T
32644869 GTTCTGATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.45, C:0.07, G:0.10, T:0.38
Consensus pattern (20 bp):
TATGTTAAACGAATAACTAT
Found at i:32648233 original size:42 final size:42
Alignment explanation
Indices: 32648174--32648274 Score: 132
Period size: 42 Copynumber: 2.4 Consensus size: 42
32648164 TGTGCTAGGC
* * *
32648174 CGTGTGCCA-GACAGTGTAACTCTCTGACTTGAGTCACAGAGG
1 CGTGTGCCAGGTC-GTGTAACTCTCTGACTTAAGTCACACAGG
* * *
32648216 TGTGTGTCAGGTCGTGTAACTTTCTGACTTAAGTCACACAGG
1 CGTGTGCCAGGTCGTGTAACTCTCTGACTTAAGTCACACAGG
32648258 CGTGTGCCAGGTCGTGT
1 CGTGTGCCAGGTCGTGT
32648275 GACAGACCGT
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
42 48 0.96
43 2 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.29
Consensus pattern (42 bp):
CGTGTGCCAGGTCGTGTAACTCTCTGACTTAAGTCACACAGG
Found at i:32653018 original size:13 final size:13
Alignment explanation
Indices: 32652982--32653029 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
32652972 TTAAATAATC
* *
32652982 TAAAATTTTATTA
1 TAAAATATTACTA
32652995 CTAAAAT-TTACTA
1 -TAAAATATTACTA
32653008 TAAAATATTACTA
1 TAAAATATTACTA
32653021 TAAAA-ATTA
1 TAAAATATTA
32653030 AATAATTAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
12 10 0.31
13 16 0.50
14 6 0.19
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (13 bp):
TAAAATATTACTA
Found at i:32655951 original size:130 final size:130
Alignment explanation
Indices: 32655671--32655952 Score: 343
Period size: 130 Copynumber: 2.2 Consensus size: 130
32655661 TTTGAATCTA
* * * *
32655671 AGAAGAAATTGTTCATGATCATAAATCAATGAACTTAGGTTATGATCGTAAATCAACAAACCTTA
1 AGAAGAAAATGTTCATGATCGTAAATCAATGAACATAGGTTATGATCCTAAATCAACAAACCTTA
* ** ** * *
32655736 ATAATAGTAGTCATGATCATAAATTAACAAGTTGGTTGGAGTTGCAATCGTGAATCAACTAACTC
66 ATAATAGTAATCATGATCATAAACCAACAAGTTGGTTAAAGTTGCAATCATAAATCAACTAACTC
* * * *
32655801 AGAAGAAAATGTTCATGATCGTAAATCAATGAACATAGGTTGTGATCCTAAATCAGCGAGCCTTA
1 AGAAGAAAATGTTCATGATCGTAAATCAATGAACATAGGTTATGATCCTAAATCAACAAACCTTA
** ** *
32655866 ATAATA-TCAATCATGATTGTAAACCAATGAGTT-GTTCAAAGTTGCGATCATAAATCAACTAAC
66 ATAATAGT-AATCATGATCATAAACCAACAAGTTGGTT-AAAGTTGCAATCATAAATCAACTAAC
32655929 TC
129 TC
*
32655931 AGAAGAAAATATTCATGATCGT
1 AGAAGAAAATGTTCATGATCGT
32655953 TAATATGCTC
Statistics
Matches: 129, Mismatches: 21, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
129 4 0.03
130 125 0.97
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.29
Consensus pattern (130 bp):
AGAAGAAAATGTTCATGATCGTAAATCAATGAACATAGGTTATGATCCTAAATCAACAAACCTTA
ATAATAGTAATCATGATCATAAACCAACAAGTTGGTTAAAGTTGCAATCATAAATCAACTAACTC
Found at i:32656159 original size:15 final size:15
Alignment explanation
Indices: 32656139--32656180 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 15
32656129 GCGCAACATT
32656139 CCTGATTTCTGTCTC
1 CCTGATTTCTGTCTC
32656154 CCTGATTTCTTCTGTCTC
1 CCTGA--T-TTCTGTCTC
32656172 CCTGATTTC
1 CCTGATTTC
32656181 ATCAATAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
15 8 0.33
16 1 0.04
17 1 0.04
18 14 0.58
ACGTcount: A:0.07, C:0.33, G:0.12, T:0.48
Consensus pattern (15 bp):
CCTGATTTCTGTCTC
Found at i:32656168 original size:18 final size:18
Alignment explanation
Indices: 32656145--32656180 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
32656135 CATTCCTGAT
32656145 TTCTGTCTCCCTGATTTC
1 TTCTGTCTCCCTGATTTC
32656163 TTCTGTCTCCCTGATTTC
1 TTCTGTCTCCCTGATTTC
32656181 ATCAATAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.06, C:0.33, G:0.11, T:0.50
Consensus pattern (18 bp):
TTCTGTCTCCCTGATTTC
Found at i:32657100 original size:26 final size:26
Alignment explanation
Indices: 32657063--32657137 Score: 114
Period size: 26 Copynumber: 2.8 Consensus size: 26
32657053 TTTTTATCCT
32657063 AATTTTACGCCAGTAAAATTTTTGAC
1 AATTTTACGCCAGTAAAATTTTTGAC
*
32657089 AATTTTATGCCAGTAAAATTTTTGAC
1 AATTTTACGCCAGTAAAATTTTTGAC
* *
32657115 AATTTTACCACCGGTAAAATTTT
1 AATTTTA-CGCCAGTAAAATTTT
32657138 GAGAAAATTC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
26 32 0.73
27 12 0.27
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.40
Consensus pattern (26 bp):
AATTTTACGCCAGTAAAATTTTTGAC
Found at i:32657290 original size:6 final size:6
Alignment explanation
Indices: 32657279--32657329 Score: 84
Period size: 6 Copynumber: 8.5 Consensus size: 6
32657269 AGATTGCAAG
* *
32657279 TTTTCA TTTTCA TTTTTA TTTTCA TTTTCA TTTCCA TTTTCA TTTTCA
1 TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA
32657327 TTT
1 TTT
32657330 CCAAATGATT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.69
Consensus pattern (6 bp):
TTTTCA
Found at i:32659767 original size:22 final size:22
Alignment explanation
Indices: 32659742--32659785 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
32659732 AATTATTAAA
32659742 ATAATAAATTTTAATTAATTTT
1 ATAATAAATTTTAATTAATTTT
* *
32659764 ATAATATATTTTGATTAATTTT
1 ATAATAAATTTTAATTAATTTT
32659786 TGGTCATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (22 bp):
ATAATAAATTTTAATTAATTTT
Found at i:32662576 original size:48 final size:49
Alignment explanation
Indices: 32662508--32662689 Score: 219
Period size: 48 Copynumber: 3.8 Consensus size: 49
32662498 ACTGTGATTA
* * * * *
32662508 ATGATATATGTACCT-GTGTAAGACCATGTTTGGGACATGGCATTGGTG
1 ATGATATATGTGCCTAGTATAAGACCATGTCTGGGACATAGCATCGGTG
* *
32662556 ATGACATATGTGCCTA-TGTAAGACCATGTCTGGGACATAGCATCGGTG
1 ATGATATATGTGCCTAGTATAAGACCATGTCTGGGACATAGCATCGGTG
* * * *
32662604 ATGATATGTGT-ACTAGTATAAGACCATGTCTGGTACATAGCATCGGCG
1 ATGATATATGTGCCTAGTATAAGACCATGTCTGGGACATAGCATCGGTG
* *
32662652 ATGATATGTGTG-CTAGTATAAGACCATGTCTAGGACAT
1 ATGATATATGTGCCTAGTATAAGACCATGTCTGGGACAT
32662690 GACATCAGCA
Statistics
Matches: 118, Mismatches: 13, Indels: 6
0.86 0.09 0.04
Matches are distributed among these distances:
47 3 0.03
48 115 0.97
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.30
Consensus pattern (49 bp):
ATGATATATGTGCCTAGTATAAGACCATGTCTGGGACATAGCATCGGTG
Found at i:32665711 original size:28 final size:29
Alignment explanation
Indices: 32665657--32665735 Score: 99
Period size: 28 Copynumber: 2.8 Consensus size: 29
32665647 TAAAATAGGA
*
32665657 CAAAACTATAACATCTAAAAAAAAGT-GT
1 CAAAACTATAAAATCTAAAAAAAAGTGGT
**
32665685 CAAAACTATAAAATCTAAAAACTAGTGGT
1 CAAAACTATAAAATCTAAAAAAAAGTGGT
* *
32665714 -AAAACTGTAAAATCCAAAAAAA
1 CAAAACTATAAAATCTAAAAAAA
32665736 TAATAGTAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
28 41 0.95
29 2 0.05
ACGTcount: A:0.58, C:0.14, G:0.08, T:0.20
Consensus pattern (29 bp):
CAAAACTATAAAATCTAAAAAAAAGTGGT
Found at i:32665744 original size:29 final size:28
Alignment explanation
Indices: 32665686--32665751 Score: 69
Period size: 29 Copynumber: 2.3 Consensus size: 28
32665676 AAAAAGTGTC
* * * * *
32665686 AAAACTATAAAATCTAAAAACTAGTGGT
1 AAAACTGTAAAATCAAAAAAATAATAGT
32665714 AAAACTGTAAAATCCAAAAAAATAATAGT
1 AAAACTGTAAAAT-CAAAAAAATAATAGT
*
32665743 AAAATTGTA
1 AAAACTGTA
32665752 GATTTTGAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
28 12 0.39
29 19 0.61
ACGTcount: A:0.58, C:0.09, G:0.09, T:0.24
Consensus pattern (28 bp):
AAAACTGTAAAATCAAAAAAATAATAGT
Found at i:32666125 original size:19 final size:18
Alignment explanation
Indices: 32666103--32666145 Score: 70
Period size: 17 Copynumber: 2.4 Consensus size: 18
32666093 CAGGCACTCC
32666103 CACACATGCCCGTGTGCCT
1 CACACA-GCCCGTGTGCCT
32666122 CACAC-GCCCGTGTGCCT
1 CACACAGCCCGTGTGCCT
32666139 CACACAG
1 CACACAG
32666146 GCAGGCCACA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 17 0.74
18 1 0.04
19 5 0.22
ACGTcount: A:0.19, C:0.44, G:0.21, T:0.16
Consensus pattern (18 bp):
CACACAGCCCGTGTGCCT
Found at i:32669527 original size:40 final size:40
Alignment explanation
Indices: 32669434--32669615 Score: 181
Period size: 39 Copynumber: 4.6 Consensus size: 40
32669424 AAATTGAATG
* * * * *
32669434 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
32669473 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
*
32669513 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
32669552 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
32669592 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
32669616 CTTGGTGCGG
Statistics
Matches: 120, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
39 64 0.53
40 56 0.47
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:32677610 original size:40 final size:40
Alignment explanation
Indices: 32677517--32677698 Score: 181
Period size: 39 Copynumber: 4.6 Consensus size: 40
32677507 AAATTGAATG
* * * * *
32677517 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
32677556 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
*
32677596 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
32677635 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
32677675 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
32677699 CTTGGTGCGG
Statistics
Matches: 120, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
39 64 0.53
40 56 0.47
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:32686088 original size:40 final size:40
Alignment explanation
Indices: 32686030--32686105 Score: 91
Period size: 40 Copynumber: 1.9 Consensus size: 40
32686020 ACACACTATG
* * *
32686030 TGGGGATAAAAGCGACCCA-CCTATCCCTACACACCAAATA
1 TGGGGATAAAAGCAACCCATCC-AACCCTACAAACCAAATA
**
32686070 TGGGGATAAAATTAACCCATCCAACCCTACAAACCA
1 TGGGGATAAAAGCAACCCATCCAACCCTACAAACCA
32686106 CAGAGTACCG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
40 28 0.93
41 2 0.07
ACGTcount: A:0.39, C:0.32, G:0.13, T:0.16
Consensus pattern (40 bp):
TGGGGATAAAAGCAACCCATCCAACCCTACAAACCAAATA
Found at i:32690831 original size:21 final size:20
Alignment explanation
Indices: 32690800--32690838 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
32690790 ATTAGGAATT
*
32690800 AATTAAATAAAATATTAAAA
1 AATTAAATAAAAAATTAAAA
32690820 AATTAGAATAAAAAATTAA
1 AATTA-AATAAAAAATTAA
32690839 GGTTAAGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (20 bp):
AATTAAATAAAAAATTAAAA
Found at i:32693405 original size:59 final size:59
Alignment explanation
Indices: 32693313--32693431 Score: 238
Period size: 59 Copynumber: 2.0 Consensus size: 59
32693303 TATTTGACAT
32693313 AGATTTAGGGTTACGAAACATTACTGAGCAAACGAAACACTTAAATATACCTTTCATGC
1 AGATTTAGGGTTACGAAACATTACTGAGCAAACGAAACACTTAAATATACCTTTCATGC
32693372 AGATTTAGGGTTACGAAACATTACTGAGCAAACGAAACACTTAAATATACCTTTCATGC
1 AGATTTAGGGTTACGAAACATTACTGAGCAAACGAAACACTTAAATATACCTTTCATGC
32693431 A
1 A
32693432 TACTCATAAT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 60 1.00
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.27
Consensus pattern (59 bp):
AGATTTAGGGTTACGAAACATTACTGAGCAAACGAAACACTTAAATATACCTTTCATGC
Found at i:32694257 original size:11 final size:11
Alignment explanation
Indices: 32694218--32694266 Score: 55
Period size: 11 Copynumber: 4.4 Consensus size: 11
32694208 ACTCATCACC
32694218 CATACCAAA-A
1 CATACCAAATA
32694228 CATACCAAAATCA
1 CATACC-AAAT-A
*
32694241 CATACCAAATT
1 CATACCAAATA
*
32694252 CATACCAAAGA
1 CATACCAAATA
32694263 CATA
1 CATA
32694267 GGTTCATATC
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
10 6 0.18
11 16 0.48
12 4 0.12
13 7 0.21
ACGTcount: A:0.53, C:0.29, G:0.02, T:0.16
Consensus pattern (11 bp):
CATACCAAATA
Found at i:32695010 original size:43 final size:42
Alignment explanation
Indices: 32694947--32695042 Score: 104
Period size: 42 Copynumber: 2.3 Consensus size: 42
32694937 TCCAAGACGT
* **
32694947 GGTCTTACATGTAATCAAATATCGATG-CCACTGTCCCAAACAG
1 GGTCTTACATGAAAAAAAATA-CGATGTCCA-TGTCCCAAACAG
* * *
32694990 GGTCTTACATGAAAAAAAATACGATGTCGATGTCCCAGACAT
1 GGTCTTACATGAAAAAAAATACGATGTCCATGTCCCAAACAG
*
32695032 GGTTTTACATG
1 GGTCTTACATG
32695043 TAAATCTCAA
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
42 25 0.56
43 20 0.44
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (42 bp):
GGTCTTACATGAAAAAAAATACGATGTCCATGTCCCAAACAG
Found at i:32695679 original size:13 final size:13
Alignment explanation
Indices: 32695663--32695691 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
32695653 TCAAAGACAA
32695663 AACATATTAATCC
1 AACATATTAATCC
32695676 AACATATTAATCC
1 AACATATTAATCC
32695689 AAC
1 AAC
32695692 TTCAAGCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.28
Consensus pattern (13 bp):
AACATATTAATCC
Found at i:32695812 original size:20 final size:19
Alignment explanation
Indices: 32695787--32695825 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
32695777 TTGATAGAAT
* *
32695787 ACATAGCAATGATCACAAAA
1 ACATAGAAATCATCA-AAAA
32695807 ACATAGAAATCATCAAAAA
1 ACATAGAAATCATCAAAAA
32695826 CCGAACAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.59, C:0.18, G:0.08, T:0.15
Consensus pattern (19 bp):
ACATAGAAATCATCAAAAA
Done.