Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167838.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_11, whole genome shotgun sequence
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: 23775123
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 69000 characters in sequence are not A, C, G, or T
File 50 of 129
Found at i:9909295 original size:14 final size:16
Alignment explanation
Indices: 9909271--9909304 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
9909261 GTTTCTTCTT
9909271 TTTTTTACCTTTTT-C
1 TTTTTTACCTTTTTCC
9909286 TTTTTT-CCTTTTTCC
1 TTTTTTACCTTTTTCC
9909301 TTTT
1 TTTT
9909305 GCTTGTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTTTACCTTTTTCC
Found at i:9910485 original size:3 final size:3
Alignment explanation
Indices: 9910477--9910501 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
9910467 ATTTATTTAT
9910477 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
9910502 CCATTTGCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:9914406 original size:11 final size:10
Alignment explanation
Indices: 9914391--9914429 Score: 51
Period size: 11 Copynumber: 3.6 Consensus size: 10
9914381 ATAAAGCAAA
9914391 AAAAAAAAAG
1 AAAAAAAAAG
9914401 AGAAAAGAAAAG
1 A-AAAA-AAAAG
9914413 AATAAAAAAAG
1 AA-AAAAAAAG
9914424 AAAAAA
1 AAAAAA
9914430 GAAAAACTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
10 5 0.19
11 12 0.46
12 9 0.35
ACGTcount: A:0.85, C:0.00, G:0.13, T:0.03
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:9914427 original size:7 final size:7
Alignment explanation
Indices: 9914383--9914435 Score: 54
Period size: 7 Copynumber: 7.3 Consensus size: 7
9914373 GTAAAAAAAT
9914383 AAAGCAAA
1 AAAG-AAA
9914391 AAA-AAA
1 AAAGAAA
*
9914397 AAAGAGA
1 AAAGAAA
9914404 AAAGAAA
1 AAAGAAA
*
9914411 AGAATAAAA
1 A-AA-GAAA
9914420 AAAGAAA
1 AAAGAAA
9914427 AAAGAAA
1 AAAGAAA
9914434 AA
1 AA
9914436 CTTAAACTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
6 6 0.16
7 21 0.55
8 7 0.18
9 4 0.11
ACGTcount: A:0.83, C:0.02, G:0.13, T:0.02
Consensus pattern (7 bp):
AAAGAAA
Found at i:9915483 original size:22 final size:22
Alignment explanation
Indices: 9915458--9915535 Score: 93
Period size: 22 Copynumber: 3.5 Consensus size: 22
9915448 CATTACAGTG
9915458 TTTTGAATATGAATCTTTAAAA
1 TTTTGAATATGAATCTTTAAAA
* *
9915480 TTTTGATTGTGAATCTTTAAAA
1 TTTTGAATATGAATCTTTAAAA
* *
9915502 TTTATTGAATGTGAATCTTTGAAA
1 -TT-TTGAATATGAATCTTTAAAA
*
9915526 TTTTGGATAT
1 TTTTGAATAT
9915536 AAAACCCTAA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
22 26 0.54
23 4 0.08
24 18 0.38
ACGTcount: A:0.33, C:0.04, G:0.14, T:0.49
Consensus pattern (22 bp):
TTTTGAATATGAATCTTTAAAA
Found at i:9915514 original size:24 final size:23
Alignment explanation
Indices: 9915458--9915529 Score: 101
Period size: 24 Copynumber: 3.1 Consensus size: 23
9915448 CATTACAGTG
*
9915458 TTTTGAATATGAATCTTTAAAA-
1 TTTTGAATGTGAATCTTTAAAAT
*
9915480 TTTTGATTGTGAATCTTTAAAAT
1 TTTTGAATGTGAATCTTTAAAAT
*
9915503 TTATTGAATGTGAATCTTTGAAAT
1 TT-TTGAATGTGAATCTTTAAAAT
9915527 TTT
1 TTT
9915530 GGATATAAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
22 20 0.45
23 3 0.07
24 21 0.48
ACGTcount: A:0.33, C:0.04, G:0.12, T:0.50
Consensus pattern (23 bp):
TTTTGAATGTGAATCTTTAAAAT
Found at i:9915937 original size:17 final size:17
Alignment explanation
Indices: 9915895--9915940 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
9915885 AATTCTTACA
*
9915895 AATCTAAAAGTCTCGAG
1 AATCTAAAATTCTCGAG
* *
9915912 AATCT-AAATTCTGGCG
1 AATCTAAAATTCTCGAG
9915928 AATCTAAAATTCT
1 AATCTAAAATTCT
9915941 TACAAATTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 13 0.52
17 12 0.48
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.30
Consensus pattern (17 bp):
AATCTAAAATTCTCGAG
Found at i:9915958 original size:16 final size:16
Alignment explanation
Indices: 9915937--9915970 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
9915927 GAATCTAAAA
9915937 TTCTTACAAATTTGAG
1 TTCTTACAAATTTGAG
**
9915953 TTCTTATGAATTTGAG
1 TTCTTACAAATTTGAG
9915969 TT
1 TT
9915971 TTTTAAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.26, C:0.09, G:0.15, T:0.50
Consensus pattern (16 bp):
TTCTTACAAATTTGAG
Found at i:9916108 original size:52 final size:52
Alignment explanation
Indices: 9915985--9916136 Score: 173
Period size: 52 Copynumber: 2.9 Consensus size: 52
9915975 AAAAATATAA
* * * * *
9915985 AATTCTTGCAAACCTAAAATTTTTGTTAATCTAAAAGTCTTGTGAA-C-TTG
1 AATTCTTACAAACCTGAAATTCTTGTGAATCTAAAAGTCTTGCGAATCTTTG
* * * *
9916035 AATTTCTTACGAATCTGAAATTCATATGAATCTAAAAGTCTTGCGAATCTTTG
1 AA-TTCTTACAAACCTGAAATTCTTGTGAATCTAAAAGTCTTGCGAATCTTTG
* * *
9916088 AATTCTTACAAACCTGAAATTCTTGTGAATTTAAAATTCTTGCAAATCT
1 AATTCTTACAAACCTGAAATTCTTGTGAATCTAAAAGTCTTGCGAATCT
9916137 GAAATCTTTA
Statistics
Matches: 83, Mismatches: 16, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
50 2 0.02
51 35 0.42
52 41 0.49
53 5 0.06
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.39
Consensus pattern (52 bp):
AATTCTTACAAACCTGAAATTCTTGTGAATCTAAAAGTCTTGCGAATCTTTG
Found at i:9916127 original size:34 final size:34
Alignment explanation
Indices: 9916088--9916158 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 34
9916078 CGAATCTTTG
* *
9916088 AATTCTTACAAACCTGAAAT-TCTTGTGAATTTAA
1 AATTCTTACAAACCTGAAATCT-TTATGAATCTAA
* *
9916122 AATTCTTGCAAATCTGAAATCTTTATGAATCTAA
1 AATTCTTACAAACCTGAAATCTTTATGAATCTAA
9916156 AAT
1 AAT
9916159 CTTTGAGAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
34 31 0.97
35 1 0.03
ACGTcount: A:0.39, C:0.14, G:0.08, T:0.38
Consensus pattern (34 bp):
AATTCTTACAAACCTGAAATCTTTATGAATCTAA
Found at i:9916141 original size:17 final size:17
Alignment explanation
Indices: 9916088--9916141 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
9916078 CGAATCTTTG
* *
9916088 AATTCTTACAAACCTGA
1 AATTCTTGCAAATCTGA
** * *
9916105 AATTCTTGTGAATTTAA
1 AATTCTTGCAAATCTGA
9916122 AATTCTTGCAAATCTGA
1 AATTCTTGCAAATCTGA
9916139 AAT
1 AAT
9916142 CTTTATGAAT
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.39, C:0.15, G:0.09, T:0.37
Consensus pattern (17 bp):
AATTCTTGCAAATCTGA
Found at i:9916204 original size:18 final size:18
Alignment explanation
Indices: 9916142--9916207 Score: 64
Period size: 18 Copynumber: 3.7 Consensus size: 18
9916132 AATCTGAAAT
*
9916142 CTTTATGAATC-TAAAAT
1 CTTTATGAATCTTAAAAC
*
9916159 CTTTGA-GAATCTTAGAAC
1 CTTT-ATGAATCTTAAAAC
* *
9916177 CATTGTGAATCTTAAAAC
1 CTTTATGAATCTTAAAAC
*
9916195 CTTTACGAATCTT
1 CTTTATGAATCTT
9916208 GGAATCTTTG
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
17 9 0.24
18 29 0.76
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.38
Consensus pattern (18 bp):
CTTTATGAATCTTAAAAC
Found at i:9916205 original size:36 final size:36
Alignment explanation
Indices: 9916147--9916228 Score: 96
Period size: 36 Copynumber: 2.3 Consensus size: 36
9916137 GAAATCTTTA
*
9916147 TGAATC-TAAAATCTTTGAGAATCTTAGAACCATTG
1 TGAATCTTAAAACCTTTGAGAATCTTAGAACCATTG
* * *
9916182 TGAATCTTAAAACCTTT-ACGAATCTTGGAATCTTTG
1 TGAATCTTAAAACCTTTGA-GAATCTTAGAACCATTG
*
9916218 TGAATTTTAAA
1 TGAATCTTAAA
9916229 CTTTTGGAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
35 7 0.17
36 33 0.82
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.38
Consensus pattern (36 bp):
TGAATCTTAAAACCTTTGAGAATCTTAGAACCATTG
Found at i:9916222 original size:18 final size:18
Alignment explanation
Indices: 9916159--9916239 Score: 67
Period size: 18 Copynumber: 4.6 Consensus size: 18
9916149 AATCTAAAAT
*
9916159 CTTTGAGAATCTTAGAAC
1 CTTTGTGAATCTTAGAAC
* *
9916177 CATTGTGAATCTTAAAAC
1 CTTTGTGAATCTTAGAAC
** * *
9916195 CTTTACGAATCTTGGAAT
1 CTTTGTGAATCTTAGAAC
*
9916213 CTTTGTGAATTTTA-AAC
1 CTTTGTGAATCTTAGAAC
*
9916230 TTTTG-GAATC
1 CTTTGTGAATC
9916240 GTTGCAAAAC
Statistics
Matches: 47, Mismatches: 16, Indels: 2
0.72 0.25 0.03
Matches are distributed among these distances:
16 4 0.09
17 6 0.13
18 37 0.79
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.40
Consensus pattern (18 bp):
CTTTGTGAATCTTAGAAC
Found at i:9916278 original size:17 final size:17
Alignment explanation
Indices: 9916247--9916300 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
9916237 ATCGTTGCAA
9916247 AACTTGGAA-CTTTTATG
1 AACTTGGAATC-TTTATG
*
9916264 AACTTGGAATCTTTACG
1 AACTTGGAATCTTTATG
* *
9916281 AATCTTGAAATCTTTGTG
1 AA-CTTGGAATCTTTATG
9916299 AA
1 AA
9916301 TTTTGAAGTC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
17 16 0.52
18 15 0.48
ACGTcount: A:0.31, C:0.13, G:0.17, T:0.39
Consensus pattern (17 bp):
AACTTGGAATCTTTATG
Found at i:9916287 original size:18 final size:18
Alignment explanation
Indices: 9916249--9916394 Score: 61
Period size: 18 Copynumber: 8.2 Consensus size: 18
9916239 CGTTGCAAAA
*
9916249 CTTGGAA-CTTTTATGAA-
1 CTTGGAATC-TTTACGAAT
9916266 CTTGGAATCTTTACGAAT
1 CTTGGAATCTTTACGAAT
* **
9916284 CTTGAAATCTTTGTGAAT
1 CTTGGAATCTTTACGAAT
* * *
9916302 -TTTGAAGTCTTTGCAAAT
1 CTTGGAA-TCTTTACGAAT
*
9916320 -TTGGGATCTTTGA-GAAT
1 CTTGGAATCTTT-ACGAAT
** *
9916337 CTTCAAATCTTTGCGAAT
1 CTTGGAATCTTTACGAAT
* * * * *
9916355 CTAGAAACCTTAACGAAC
1 CTTGGAATCTTTACGAAT
*
9916373 CTTAGAATCTTTGA-GAAT
1 CTTGGAATCTTT-ACGAAT
9916391 CTTG
1 CTTG
9916395 AATTTTGGAA
Statistics
Matches: 93, Mismatches: 29, Indels: 13
0.69 0.21 0.10
Matches are distributed among these distances:
17 26 0.28
18 66 0.71
19 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.38
Consensus pattern (18 bp):
CTTGGAATCTTTACGAAT
Found at i:9916896 original size:6 final size:6
Alignment explanation
Indices: 9916885--9916974 Score: 63
Period size: 6 Copynumber: 14.7 Consensus size: 6
9916875 AAAAGCCCAG
* * * * * *
9916885 AATTTT AATTTT AATTTT AGTGTT GATTTT GATTTG AATTTG AATTTT
1 AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT
* * * * *
9916933 AATTTC AAGTCT AATTTT GGATTTT GGATTTT AATTTT AATT
1 AATTTT AATTTT AATTTT -AATTTT -AATTTT AATTTT AATT
9916975 GTGTTTTTTT
Statistics
Matches: 67, Mismatches: 16, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
6 55 0.82
7 12 0.18
ACGTcount: A:0.28, C:0.02, G:0.12, T:0.58
Consensus pattern (6 bp):
AATTTT
Found at i:9916950 original size:36 final size:38
Alignment explanation
Indices: 9916884--9916974 Score: 107
Period size: 36 Copynumber: 2.4 Consensus size: 38
9916874 TAAAAGCCCA
* * *
9916884 GAATTTTAATTTTAATTTTAGTGTTGATTTT-GA-TTT
1 GAATTTTAATTTTAATTTAAGTGCTAATTTTGGATTTT
*
9916920 GAATTTGAATTTTAATTTCAAGT-CTAATTTTGGATTTT
1 GAATTTTAATTTTAATTT-AAGTGCTAATTTTGGATTTT
*
9916958 GGATTTTAATTTTAATT
1 GAATTTTAATTTTAATT
9916975 GTGTTTTTTT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
36 23 0.50
37 5 0.11
38 18 0.39
ACGTcount: A:0.27, C:0.02, G:0.13, T:0.57
Consensus pattern (38 bp):
GAATTTTAATTTTAATTTAAGTGCTAATTTTGGATTTT
Found at i:9920542 original size:27 final size:27
Alignment explanation
Indices: 9920504--9920556 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
9920494 CCCAAAAGAA
*
9920504 AATTTTTATTTGCCTCATATCGACACT
1 AATTTTTATTTGCCTCATATCCACACT
*
9920531 AATTTTTATTTGTCTCATATCCACAC
1 AATTTTTATTTGCCTCATATCCACAC
9920557 CCTTGTAGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.26, C:0.23, G:0.06, T:0.45
Consensus pattern (27 bp):
AATTTTTATTTGCCTCATATCCACACT
Found at i:9923882 original size:15 final size:15
Alignment explanation
Indices: 9923862--9923893 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
9923852 AAAATTATAA
*
9923862 AAGAAATGAGAAAAC
1 AAGAAATGAAAAAAC
9923877 AAGAAATGAAAAAAC
1 AAGAAATGAAAAAAC
9923892 AA
1 AA
9923894 AAAGAACAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.72, C:0.06, G:0.16, T:0.06
Consensus pattern (15 bp):
AAGAAATGAAAAAAC
Found at i:9924326 original size:51 final size:49
Alignment explanation
Indices: 9924249--9924463 Score: 223
Period size: 50 Copynumber: 4.3 Consensus size: 49
9924239 TTTTTTCTTT
* * * * *
9924249 AGATGTTTAAAGTTATTAAGCCTTTGTTTAAATGAGCTTTTCTCAAGATG
1 AGATTTTTAAAGTTGTTAAGCCTTTGTTTAAAGGAGCTTTT-TTAAAATG
* * *
9924299 AGGTTTTTTAAAGTTGTTGAGCTTTTGTTTAAAGGAGACTTTTTTAAAATG
1 A-GATTTTTAAAGTTGTTAAGCCTTTGTTTAAAGGAG-CTTTTTTAAAATG
* * * ** * ** *
9924350 AGATTTTAAAAATCGTTAAGCCTTTACTTAAAAGAGTCTTTCATAAGATG
1 AGATTTTTAAAGTTGTTAAGCCTTTGTTTAAAGGAG-CTTTTTTAAAATG
*
9924400 AGATTTTTAAAATTGTTAAGCCTTTGTTTAAAGGAGCATTTTTTAAAATG
1 AGATTTTTAAAGTTGTTAAGCCTTTGTTTAAAGGAGC-TTTTTTAAAATG
9924450 AGATTTTTAAAGTT
1 AGATTTTTAAAGTT
9924464 ATTTAGCTTT
Statistics
Matches: 132, Mismatches: 30, Indels: 6
0.79 0.18 0.04
Matches are distributed among these distances:
49 1 0.01
50 90 0.68
51 36 0.27
52 5 0.04
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (49 bp):
AGATTTTTAAAGTTGTTAAGCCTTTGTTTAAAGGAGCTTTTTTAAAATG
Found at i:9928895 original size:34 final size:34
Alignment explanation
Indices: 9928857--9928921 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 34
9928847 CTAATGGGAC
*
9928857 TATCATGGATGAAAGCAACACTTGCTATCTTAAA
1 TATCATGGATGAAAACAACACTTGCTATCTTAAA
*
9928891 TATCATGGATGAAAACAACATTTGCTATCTT
1 TATCATGGATGAAAACAACACTTGCTATCTT
9928922 GATAATGCGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.32
Consensus pattern (34 bp):
TATCATGGATGAAAACAACACTTGCTATCTTAAA
Found at i:9934836 original size:18 final size:17
Alignment explanation
Indices: 9934796--9934844 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
9934786 GGGAATTATT
**
9934796 AAACAATAAAAAATTTA
1 AAACAATAAAAAACATA
*
9934813 AGACAATAAAAATACATA
1 AAACAATAAAAA-ACATA
9934831 AAACAATAATAAAA
1 AAACAATAA-AAAA
9934845 AAATTTTAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 11 0.42
18 12 0.46
19 3 0.12
ACGTcount: A:0.71, C:0.08, G:0.02, T:0.18
Consensus pattern (17 bp):
AAACAATAAAAAACATA
Found at i:9935019 original size:12 final size:12
Alignment explanation
Indices: 9935002--9935036 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
9934992 CCGAAATTCA
*
9935002 AAACCCTAGATG
1 AAACCCTAAATG
*
9935014 AAACCCAAAATG
1 AAACCCTAAATG
9935026 AAACCCTAAAT
1 AAACCCTAAAT
9935037 ATGACACCTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.51, C:0.26, G:0.09, T:0.14
Consensus pattern (12 bp):
AAACCCTAAATG
Found at i:9947285 original size:22 final size:20
Alignment explanation
Indices: 9947251--9947294 Score: 52
Period size: 22 Copynumber: 2.1 Consensus size: 20
9947241 TATATGATCC
*
9947251 TTTTTTTTGTTTTGCATTCTT
1 TTTTTTTTCTTTTGCATT-TT
*
9947272 TTTTTATTTCTTTTTCATTTT
1 TTTTT-TTTCTTTTGCATTTT
9947293 TT
1 TT
9947295 ATTCTCCATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.07, C:0.09, G:0.05, T:0.80
Consensus pattern (20 bp):
TTTTTTTTCTTTTGCATTTT
Found at i:9950934 original size:8 final size:7
Alignment explanation
Indices: 9950892--9950935 Score: 52
Period size: 7 Copynumber: 6.1 Consensus size: 7
9950882 AGATTATCTA
9950892 TATTTTT
1 TATTTTT
9950899 TATTTTT
1 TATTTTT
9950906 TATTTTT
1 TATTTTT
*
9950913 TAATTTTG
1 T-ATTTTT
*
9950921 GATTTTT
1 TATTTTT
*
9950928 AATTTTT
1 TATTTTT
9950935 T
1 T
9950936 TGTTTCAATT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
7 26 0.84
8 5 0.16
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.77
Consensus pattern (7 bp):
TATTTTT
Found at i:9951179 original size:46 final size:46
Alignment explanation
Indices: 9951077--9951189 Score: 138
Period size: 46 Copynumber: 2.5 Consensus size: 46
9951067 CTCCTTTAAG
* * * * *
9951077 CAAAGGTTCAACAACTTTAAAAATCTAATCTTGAAAAGTTTCGACA
1 CAAAGGCTCGACAACTTTAAAAATCTAATATTAAAAACTTTCGACA
* *
9951123 CAAAGACTCGACAACTTTAAAAATCTAATATGTAAAAACTTT-GGCA
1 CAAAGGCTCGACAACTTTAAAAATCTAATAT-TAAAAACTTTCGACA
*
9951169 TAAAGGCTCGACAACTTTAAA
1 CAAAGGCTCGACAACTTTAAA
9951190 GGGGTTTCTT
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
46 49 0.86
47 8 0.14
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.27
Consensus pattern (46 bp):
CAAAGGCTCGACAACTTTAAAAATCTAATATTAAAAACTTTCGACA
Found at i:9951484 original size:43 final size:43
Alignment explanation
Indices: 9951268--9951484 Score: 131
Period size: 42 Copynumber: 5.2 Consensus size: 43
9951258 AGGGACTTTG
* * * * *
9951268 GATTCACAGTAGAG-AAACGATTCATAGTTTGGAGGA-TTCTA
1 GATTCATAATAGAGTAAAAGATTCATAGTTTAGAAGACTTCTA
** *
9951309 GATTCAT-ATCA-AACAAAATGATTCATAG-TTGGTAA-AC-TCT-
1 GATTCATAAT-AGAGTAAAA-GATTCATAGTTTAG-AAGACTTCTA
*
9951349 GAATTCATAATAAAGTAAATA-ATTCACT-GTTTTA-AAGAC-TCTA
1 G-ATTCATAATAGAGTAAA-AGATTCA-TAG-TTTAGAAGACTTCTA
*
9951392 GATTCATAATAGAGTAAAAGATTCATAGTTTAGAAGACTT-TG
1 GATTCATAATAGAGTAAAAGATTCATAGTTTAGAAGACTTCTA
* * *
9951434 GACTCATACCTAGAGTAAATGATTCATAGTTT-GAATG-CTTCTA
1 GATTCATA-ATAGAGTAAAAGATTCATAGTTTAGAA-GACTTCTA
9951477 GATTCATA
1 GATTCATA
9951485 TAAACGATTC
Statistics
Matches: 140, Mismatches: 15, Indels: 40
0.72 0.08 0.21
Matches are distributed among these distances:
40 3 0.02
41 39 0.28
42 63 0.45
43 35 0.25
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.33
Consensus pattern (43 bp):
GATTCATAATAGAGTAAAAGATTCATAGTTTAGAAGACTTCTA
Found at i:9951829 original size:18 final size:17
Alignment explanation
Indices: 9951770--9951829 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 17
9951760 ATGAGATTAG
9951770 AAAGTGTTTCAAGATTCA-
1 AAAGT-TTT-AAGATTCAT
* *
9951788 AAATTTTTAAGATTCGT
1 AAAGTTTTAAGATTCAT
9951805 CAAAGTTTTAAGATTCAT
1 -AAAGTTTTAAGATTCAT
9951823 AAGAGTT
1 AA-AGTT
9951830 CAAAGATTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
16 7 0.20
17 5 0.14
18 23 0.66
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (17 bp):
AAAGTTTTAAGATTCAT
Found at i:9952063 original size:37 final size:37
Alignment explanation
Indices: 9952020--9952109 Score: 101
Period size: 37 Copynumber: 2.4 Consensus size: 37
9952010 CATAAAAGTC
* *
9952020 AAAGATTTAAAATTTTCAAAGACTAGCACAAAGGG-TT
1 AAAGATTCAAAAATTTCAAAGACTAGCA-AAAGGGATT
* * *
9952057 AAAGATTCAAAAATTTCTAAGATTTGCAAAAGGGATT
1 AAAGATTCAAAAATTTCAAAGACTAGCAAAAGGGATT
* *
9952094 AAAAATTCACAAATTT
1 AAAGATTCAAAAATTT
9952110 AAAATATTCA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
36 6 0.13
37 39 0.87
ACGTcount: A:0.48, C:0.10, G:0.13, T:0.29
Consensus pattern (37 bp):
AAAGATTCAAAAATTTCAAAGACTAGCAAAAGGGATT
Found at i:9952113 original size:16 final size:17
Alignment explanation
Indices: 9952092--9952123 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
9952082 GCAAAAGGGA
9952092 TTAAAA-ATTCACAAAT
1 TTAAAATATTCACAAAT
9952108 TTAAAATATTCACAAA
1 TTAAAATATTCACAAA
9952124 AGTCAAAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (17 bp):
TTAAAATATTCACAAAT
Found at i:9953909 original size:9 final size:9
Alignment explanation
Indices: 9953891--9953939 Score: 53
Period size: 9 Copynumber: 5.2 Consensus size: 9
9953881 CAATCATTCA
*
9953891 TTTTTGCTT
1 TTTTTTCTT
9953900 TTTTTTCTT
1 TTTTTTCTT
*
9953909 TATTTTCATT
1 TTTTTTC-TT
9953919 ATTTTTTCTT
1 -TTTTTTCTT
*
9953929 TTTGTTCTT
1 TTTTTTCTT
9953938 TT
1 TT
9953940 GTGTTTTTGT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
9 24 0.71
10 4 0.12
11 6 0.18
ACGTcount: A:0.06, C:0.10, G:0.04, T:0.80
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:9953939 original size:16 final size:16
Alignment explanation
Indices: 9953920--9953954 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
9953910 ATTTTCATTA
*
9953920 TTTTTTCTTTTTGTTC
1 TTTTGTCTTTTTGTTC
*
9953936 TTTTGTGTTTTTGTTC
1 TTTTGTCTTTTTGTTC
9953952 TTT
1 TTT
9953955 CATTTTCTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.00, C:0.09, G:0.11, T:0.80
Consensus pattern (16 bp):
TTTTGTCTTTTTGTTC
Found at i:9953973 original size:21 final size:18
Alignment explanation
Indices: 9953891--9953991 Score: 57
Period size: 19 Copynumber: 5.4 Consensus size: 18
9953881 CAATCATTCA
* *
9953891 TTTTTGCTT-TTTTTTCT
1 TTTTTTCTTATTTTTTCC
*
9953908 TTATTTTCATTATTTTTTCT
1 TT-TTTTC-TTATTTTTTCC
*
9953928 TTTTGTTCTT-TTGTGTT--
1 TTTT-TTCTTATT-TTTTCC
*
9953945 TTTGTTCTTTCATTTTCTTCC
1 TTTTTTC-TT-ATTTT-TTCC
9953966 TTTTTTCTTATTTTTTCC
1 TTTTTTCTTATTTTTTCC
9953984 TTCTTTTC
1 TT-TTTTC
9953992 ACTTTCTTTT
Statistics
Matches: 67, Mismatches: 5, Indels: 22
0.71 0.05 0.23
Matches are distributed among these distances:
16 3 0.04
17 7 0.10
18 13 0.19
19 23 0.34
20 15 0.22
21 6 0.09
ACGTcount: A:0.05, C:0.15, G:0.05, T:0.75
Consensus pattern (18 bp):
TTTTTTCTTATTTTTTCC
Found at i:9954465 original size:9 final size:9
Alignment explanation
Indices: 9954451--9954505 Score: 53
Period size: 9 Copynumber: 6.3 Consensus size: 9
9954441 ATAATAAAAA
9954451 TTTTTCTTT
1 TTTTTCTTT
9954460 TTTTTCTTT
1 TTTTTCTTT
*
9954469 TCTTTTC-AT
1 T-TTTTCTTT
*
9954478 TTTTTC--A
1 TTTTTCTTT
*
9954485 TTTTTCCTT
1 TTTTTCTTT
9954494 TTTTTCTTT
1 TTTTTCTTT
9954503 TTT
1 TTT
9954506 GTTTCTTTGC
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
7 6 0.15
8 5 0.13
9 23 0.59
10 5 0.13
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.82
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:9954469 original size:8 final size:8
Alignment explanation
Indices: 9954451--9954505 Score: 56
Period size: 8 Copynumber: 6.5 Consensus size: 8
9954441 ATAATAAAAA
9954451 TTTTTCTTT
1 TTTTTC-TT
9954460 TTTTTCTTT
1 TTTTTC-TT
*
9954469 TCTTTTCAT
1 T-TTTTCTT
*
9954478 TTTTTCAT
1 TTTTTCTT
*
9954486 TTTTCCTT
1 TTTTTCTT
9954494 TTTTTCTT
1 TTTTTCTT
9954502 TTTT
1 TTTT
9954506 GTTTCTTTGC
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
8 24 0.59
9 12 0.29
10 5 0.12
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.82
Consensus pattern (8 bp):
TTTTTCTT
Found at i:9955188 original size:17 final size:16
Alignment explanation
Indices: 9955150--9955188 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
9955140 AGAAAATCCA
*
9955150 TTTTTTCCTTTTTCTT
1 TTTTTTCCTTTCTCTT
*
9955166 CTTTTTCTCTTTCTCTT
1 TTTTTTC-CTTTCTCTT
9955183 TTTTTT
1 TTTTTT
9955189 TTTCTCTCCT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTTTCCTTTCTCTT
Found at i:9955192 original size:20 final size:19
Alignment explanation
Indices: 9955167--9955205 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
9955157 CTTTTTCTTC
*
9955167 TTTTTCTCTTTCTCTTTTTT
1 TTTTTCTC-TCCTCTTTTTT
9955187 TTTTTCTCTCCTCTTTTTT
1 TTTTTCTCTCCTCTTTTTT
9955206 CAAGGCACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (19 bp):
TTTTTCTCTCCTCTTTTTT
Found at i:9963071 original size:8 final size:8
Alignment explanation
Indices: 9963058--9963099 Score: 59
Period size: 8 Copynumber: 5.4 Consensus size: 8
9963048 TATTGTATGC
9963058 ATACATAT
1 ATACATAT
9963066 ATACATAT
1 ATACATAT
9963074 A-ACATAT
1 ATACATAT
* *
9963081 ATACAGAC
1 ATACATAT
9963089 ATACATAT
1 ATACATAT
9963097 ATA
1 ATA
9963100 TATCATATGA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
7 7 0.24
8 22 0.76
ACGTcount: A:0.52, C:0.14, G:0.02, T:0.31
Consensus pattern (8 bp):
ATACATAT
Found at i:9969569 original size:28 final size:29
Alignment explanation
Indices: 9969517--9969593 Score: 79
Period size: 30 Copynumber: 2.7 Consensus size: 29
9969507 TTCATTCATG
* *
9969517 ATTTTAAATA-TTTTATTTGAGATTT-TA
1 ATTTTAAAAATTTTTATTTGAGATTTCAA
9969544 ATTTTAAAAATTTTTCATTTG-GATTTCAA
1 ATTTTAAAAATTTTT-ATTTGAGATTTCAA
*
9969573 ATTTTTAAAATAATTTTATTT
1 A-TTTTAAAA-ATTTTTATTT
9969594 TGTTCTTTCA
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
27 9 0.21
28 9 0.21
29 7 0.17
30 12 0.29
31 5 0.12
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (29 bp):
ATTTTAAAAATTTTTATTTGAGATTTCAA
Found at i:9974122 original size:20 final size:20
Alignment explanation
Indices: 9974084--9974126 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
9974074 TTTTCATTCA
9974084 TCAAATCATCAAATTTCTTTT
1 TCAAATCA-CAAATTTCTTTT
9974105 TCAAATCA-AAATTTTCTTTT
1 TCAAATCACAAA-TTTCTTTT
9974125 TC
1 TC
9974127 TAAAAATCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 3 0.14
20 10 0.48
21 8 0.38
ACGTcount: A:0.33, C:0.19, G:0.00, T:0.49
Consensus pattern (20 bp):
TCAAATCACAAATTTCTTTT
Found at i:9977047 original size:24 final size:25
Alignment explanation
Indices: 9977018--9977066 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
9977008 TCATTTTTTT
9977018 TTCTTTCCTTCTTTTC-CTTTATTC
1 TTCTTTCCTTCTTTTCTCTTTATTC
*
9977042 TTCTTTCTTTCTTTTCTTCTTTATT
1 TTCTTTCCTTCTTTTC-TCTTTATT
9977067 TTTTTCACTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 15 0.68
26 7 0.32
ACGTcount: A:0.04, C:0.24, G:0.00, T:0.71
Consensus pattern (25 bp):
TTCTTTCCTTCTTTTCTCTTTATTC
Found at i:9978313 original size:10 final size:9
Alignment explanation
Indices: 9978292--9978332 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
9978282 ATTTTTTGTC
*
9978292 TTTTTTCAT
1 TTTTTTCTT
*
9978301 TTTATTCTT
1 TTTTTTCTT
9978310 TTTTTTCATT
1 TTTTTTC-TT
9978320 TTTTTTCTT
1 TTTTTTCTT
9978329 TTTT
1 TTTT
9978333 AAAGGCATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
9 19 0.68
10 9 0.32
ACGTcount: A:0.07, C:0.10, G:0.00, T:0.83
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:9978313 original size:18 final size:19
Alignment explanation
Indices: 9978292--9978332 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
9978282 ATTTTTTGTC
9978292 TTTTTTCA-TTTTATTCTT
1 TTTTTTCATTTTTATTCTT
*
9978310 TTTTTTCATTTTTTTTCTT
1 TTTTTTCATTTTTATTCTT
9978329 TTTT
1 TTTT
9978333 AAAGGCATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.07, C:0.10, G:0.00, T:0.83
Consensus pattern (19 bp):
TTTTTTCATTTTTATTCTT
Found at i:9986987 original size:3 final size:3
Alignment explanation
Indices: 9986964--9987009 Score: 65
Period size: 3 Copynumber: 15.3 Consensus size: 3
9986954 TCATTTAGTC
* * *
9986964 TGT TGT TAT TAT TGT TAT TGT TGT TGT TGT TGT TGT TGT TGT TGT T
1 TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT T
9987010 ATTATGGGAT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.07, C:0.00, G:0.26, T:0.67
Consensus pattern (3 bp):
TGT
Found at i:9987036 original size:39 final size:39
Alignment explanation
Indices: 9986993--9987139 Score: 143
Period size: 39 Copynumber: 3.6 Consensus size: 39
9986983 GTTGTTGTTG
9986993 TTGTTGTTGTTGTTGTTATTATGGGATATAAGGCTTAGTTTGTTGTT
1 TTGTTGTTGTTGTTGTTATTATGGGATATAAGGCTTA-------G-T
* *
9987040 GTTGTTGTTGTTGTTGTTATCATGGGATAGAAGGCTTAGT
1 -TTGTTGTTGTTGTTGTTATTATGGGATATAAGGCTTAGT
* * * *
9987080 TTTTTGTTGTTGTTATTATTATGAGATATAAAGCTTAGT
1 TTGTTGTTGTTGTTGTTATTATGGGATATAAGGCTTAGT
*
9987119 TTGTTGTTATTGTTG-TATTAT
1 TTGTTGTTGTTGTTGTTATTAT
9987140 TTTATTATTA
Statistics
Matches: 88, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
38 6 0.07
39 45 0.51
40 1 0.01
41 1 0.01
48 35 0.40
ACGTcount: A:0.18, C:0.03, G:0.25, T:0.54
Consensus pattern (39 bp):
TTGTTGTTGTTGTTGTTATTATGGGATATAAGGCTTAGT
Found at i:9987036 original size:48 final size:48
Alignment explanation
Indices: 9986984--9987093 Score: 193
Period size: 48 Copynumber: 2.3 Consensus size: 48
9986974 ATTGTTATTG
* *
9986984 TTGTTGTTGTTGTTGTTGTTGTTGTTATTATGGGATATAAGGCTTAGT
1 TTGTTGTTGTTGTTGTTGTTGTTGTTATCATGGGATAGAAGGCTTAGT
9987032 TTGTTGTTGTTGTTGTTGTTGTTGTTATCATGGGATAGAAGGCTTAGT
1 TTGTTGTTGTTGTTGTTGTTGTTGTTATCATGGGATAGAAGGCTTAGT
*
9987080 TTTTTGTTGTTGTT
1 TTGTTGTTGTTGTT
9987094 ATTATTATGA
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 59 1.00
ACGTcount: A:0.13, C:0.03, G:0.29, T:0.55
Consensus pattern (48 bp):
TTGTTGTTGTTGTTGTTGTTGTTGTTATCATGGGATAGAAGGCTTAGT
Found at i:9987040 original size:3 final size:3
Alignment explanation
Indices: 9987032--9987057 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
9987022 AAGGCTTAGT
9987032 TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TT
9987058 ATCATGGGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:9987140 original size:3 final size:3
Alignment explanation
Indices: 9987134--9987171 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
9987124 GTTATTGTTG
9987134 TAT TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
9987172 ATAAGGAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:9990299 original size:23 final size:23
Alignment explanation
Indices: 9990259--9990302 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
9990249 TGTATATTGA
* *
9990259 TATTTGTATATCTTGAATTAAAG
1 TATTTGTATACCTAGAATTAAAG
*
9990282 TATTTGTATCCCTAGAATTAA
1 TATTTGTATACCTAGAATTAA
9990303 GGATAGAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.34, C:0.09, G:0.11, T:0.45
Consensus pattern (23 bp):
TATTTGTATACCTAGAATTAAAG
Found at i:9990476 original size:24 final size:26
Alignment explanation
Indices: 9990449--9990498 Score: 77
Period size: 24 Copynumber: 2.0 Consensus size: 26
9990439 AATATACATT
9990449 CAGTTTTACTT-TTAGTTT-TTCACA
1 CAGTTTTACTTCTTAGTTTGTTCACA
*
9990473 CAGTTTTATTTCTTAGTTTGTTCACA
1 CAGTTTTACTTCTTAGTTTGTTCACA
9990499 TGGTATCAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 10 0.43
25 7 0.30
26 6 0.26
ACGTcount: A:0.20, C:0.16, G:0.10, T:0.54
Consensus pattern (26 bp):
CAGTTTTACTTCTTAGTTTGTTCACA
Found at i:9995965 original size:14 final size:13
Alignment explanation
Indices: 9995942--9995976 Score: 61
Period size: 13 Copynumber: 2.6 Consensus size: 13
9995932 TGGATATGAC
9995942 TTAATTTTTTTAT
1 TTAATTTTTTTAT
9995955 TTAATTTTTTTAT
1 TTAATTTTTTTAT
9995968 TTAAATTTT
1 TT-AATTTT
9995977 GATGGAGTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 15 0.71
14 6 0.29
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (13 bp):
TTAATTTTTTTAT
Found at i:10000047 original size:2 final size:2
Alignment explanation
Indices: 10000040--10000108 Score: 59
Period size: 2 Copynumber: 34.0 Consensus size: 2
10000030 ATAAAGAGTG
* * * *
10000040 TA TA TA TA TA TA TA TA TA TA TA TA TA CA CA CA CA T- TCA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA
* *
10000082 CA TA TA TA TCA TA TA TA TA CA TA TA TA
1 TA TA TA TA T-A TA TA TA TA TA TA TA TA
10000109 CTTTTATATC
Statistics
Matches: 58, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
1 1 0.02
2 54 0.93
3 3 0.05
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.41
Consensus pattern (2 bp):
TA
Found at i:10001728 original size:26 final size:26
Alignment explanation
Indices: 10001666--10001728 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 26
10001656 TTAATTTTTT
* *
10001666 TTGTTGTTTTGATATTTATATTATTG
1 TTGTTATTTTGATATTTATATTATTC
* *
10001692 TTAATTCTTTTGATA-TTATATTAATTC
1 TT-GTTATTTTGATATTTATATT-ATTC
10001719 TTGTTATTTT
1 TTGTTATTTT
10001729 TGTGTAATTA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
26 15 0.50
27 15 0.50
ACGTcount: A:0.22, C:0.03, G:0.10, T:0.65
Consensus pattern (26 bp):
TTGTTATTTTGATATTTATATTATTC
Found at i:10001919 original size:26 final size:26
Alignment explanation
Indices: 10001891--10001939 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
10001881 TAAAAAATAA
*
10001891 AAAATATAGGTTTGAAAA-TTTTATT
1 AAAATATAAGTTTGAAAACTTTTATT
10001916 AAAATATAAGTTTGAAAACTTTTA
1 AAAATATAAGTTTGAAAACTTTTA
10001940 ATTTTTGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.47, C:0.02, G:0.10, T:0.41
Consensus pattern (26 bp):
AAAATATAAGTTTGAAAACTTTTATT
Found at i:10005806 original size:36 final size:33
Alignment explanation
Indices: 10005766--10005863 Score: 124
Period size: 33 Copynumber: 2.9 Consensus size: 33
10005756 TCCACTTCCT
10005766 CAAATATATCCTCCACCTCAAATGTATCAGTTACCA
1 CAAATATATCCTCCACCTCAAATGTATCA--T-CCA
* * * *
10005802 CAAATGTACCCTCCACCACAAATGTATCATCCT
1 CAAATATATCCTCCACCTCAAATGTATCATCCA
*
10005835 CAAATATATCATCCACCTCAAATGTATCA
1 CAAATATATCCTCCACCTCAAATGTATCA
10005864 AGAATAAAGG
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
33 27 0.50
34 1 0.02
36 26 0.48
ACGTcount: A:0.37, C:0.32, G:0.05, T:0.27
Consensus pattern (33 bp):
CAAATATATCCTCCACCTCAAATGTATCATCCA
Found at i:10005863 original size:18 final size:18
Alignment explanation
Indices: 10005737--10005863 Score: 109
Period size: 18 Copynumber: 7.1 Consensus size: 18
10005727 TATGGTTATT
10005737 ATCCACCTCAAATGTATC
1 ATCCACCTCAAATGTATC
* *
10005755 CTCCACTTCCTCAAATATATC
1 ATCCA---CCTCAAATGTATC
*
10005776 CTCCACCTCAAATGTATC
1 ATCCACCTCAAATGTATC
* * *
10005794 AGT-TACCACAAATGTACC
1 A-TCCACCTCAAATGTATC
* *
10005812 CTCCACCACAAATGTATC
1 ATCCACCTCAAATGTATC
*
10005830 AT---CCTCAAATATATC
1 ATCCACCTCAAATGTATC
10005845 ATCCACCTCAAATGTATC
1 ATCCACCTCAAATGTATC
10005863 A
1 A
10005864 AGAATAAAGG
Statistics
Matches: 87, Mismatches: 14, Indels: 16
0.74 0.12 0.14
Matches are distributed among these distances:
15 13 0.15
17 1 0.01
18 55 0.63
19 1 0.01
21 17 0.20
ACGTcount: A:0.34, C:0.34, G:0.05, T:0.28
Consensus pattern (18 bp):
ATCCACCTCAAATGTATC
Found at i:10017908 original size:6 final size:6
Alignment explanation
Indices: 10017906--10017973 Score: 68
Period size: 6 Copynumber: 11.3 Consensus size: 6
10017896 CTTTTTTTCT
* * *
10017906 TTTTTA -TTTTA TTTTTA TTTTTA TTTTT- TTTGTA TTTTACA TTTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT-TA TTTTTA
*
10017953 TATTTTA TTTTTA TTATTA TT
1 T-TTTTA TTTTTA TTTTTA TT
10017974 ATTGTTTATA
Statistics
Matches: 51, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
5 9 0.18
6 32 0.63
7 10 0.20
ACGTcount: A:0.18, C:0.01, G:0.01, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:10017926 original size:17 final size:17
Alignment explanation
Indices: 10017906--10017973 Score: 66
Period size: 17 Copynumber: 3.8 Consensus size: 17
10017896 CTTTTTTTCT
10017906 TTTTTATTTTATTTTTA
1 TTTTTATTTTATTTTTA
10017923 TTTTTATTTT-TTTTGTA
1 TTTTTATTTTATTTT-TA
* *
10017940 TTTTACATTTTTTTATTTTA
1 TTTT-TA-TTTTAT-TTTTA
10017960 TTTTTATTATTATT
1 TTTTTATT-TTATT
10017974 ATTGTTTATA
Statistics
Matches: 42, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
16 4 0.10
17 16 0.38
18 4 0.10
19 8 0.19
20 7 0.17
21 3 0.07
ACGTcount: A:0.18, C:0.01, G:0.01, T:0.79
Consensus pattern (17 bp):
TTTTTATTTTATTTTTA
Found at i:10018120 original size:12 final size:12
Alignment explanation
Indices: 10018088--10018128 Score: 50
Period size: 11 Copynumber: 3.6 Consensus size: 12
10018078 AGATTATGTA
10018088 TTATTTGTT-AT
1 TTATTTGTTAAT
*
10018099 TTAATT-TTAAT
1 TTATTTGTTAAT
10018110 TTATTTGTTAAT
1 TTATTTGTTAAT
*
10018122 TTTTTTG
1 TTATTTG
10018129 ATTTATCTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
10 2 0.08
11 12 0.48
12 11 0.44
ACGTcount: A:0.22, C:0.00, G:0.07, T:0.71
Consensus pattern (12 bp):
TTATTTGTTAAT
Found at i:10018170 original size:14 final size:14
Alignment explanation
Indices: 10018148--10018189 Score: 59
Period size: 13 Copynumber: 3.0 Consensus size: 14
10018138 ATTTATTTTC
10018148 ATTTGATTTTTTTAT
1 ATTT-ATTTTTTTAT
10018163 ATTTA-TTTTTTAT
1 ATTTATTTTTTTAT
*
10018176 ATTTATTTGTTTAT
1 ATTTATTTTTTTAT
10018190 TTATCCGACT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 13 0.52
14 8 0.32
15 4 0.16
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (14 bp):
ATTTATTTTTTTAT
Found at i:10018174 original size:13 final size:13
Alignment explanation
Indices: 10018155--10018193 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
10018145 TTCATTTGAT
10018155 TTTTTTATATTTA
1 TTTTTTATATTTA
10018168 TTTTTTATATTTA
1 TTTTTTATATTTA
*
10018181 TTTGTT-TATTTA
1 TTTTTTATATTTA
10018193 T
1 T
10018194 CCGACTGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
12 7 0.28
13 18 0.72
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.77
Consensus pattern (13 bp):
TTTTTTATATTTA
Found at i:10019095 original size:11 final size:9
Alignment explanation
Indices: 10019088--10019163 Score: 71
Period size: 10 Copynumber: 7.4 Consensus size: 9
10019078 TTCTTTTATC
10019088 TTTATTTTATT
1 TTTATTTT--T
10019099 TTTATTTTT
1 TTTATTTTT
10019108 TTTACTTTTT
1 TTTA-TTTTT
10019118 TTTATTTTTT
1 TTTA-TTTTT
10019128 TATTATTTTCACT
1 T-TTATTTT---T
10019141 TTTATTTTGT
1 TTTATTTT-T
10019151 TTTATTTTT
1 TTTATTTTT
10019160 TTTA
1 TTTA
10019164 AATAAAAATA
Statistics
Matches: 58, Mismatches: 2, Indels: 12
0.81 0.03 0.17
Matches are distributed among these distances:
9 10 0.17
10 28 0.48
11 11 0.19
12 7 0.12
13 2 0.03
ACGTcount: A:0.14, C:0.04, G:0.01, T:0.80
Consensus pattern (9 bp):
TTTATTTTT
Found at i:10019109 original size:25 final size:25
Alignment explanation
Indices: 10019067--10019161 Score: 70
Period size: 25 Copynumber: 3.7 Consensus size: 25
10019057 TTAGATTAGG
* *
10019067 TTTATTTAATATTCTTTTATCTTTAT
1 TTTATTT-TTATTTTTTTATCTTTAT
*
10019093 TTTATTTTTATTTTTTT-TACTTTTT
1 TTTATTTTTATTTTTTTAT-CTTTAT
*
10019118 TTTATTTTTTTATTATTTTCA-CTTTTAT
1 TTTA--TTTTTATT-TTTTTATC-TTTAT
*
10019146 TTT-GTTTTATTTTTTT
1 TTTATTTTTATTTTTTT
10019162 TAAATAAAAA
Statistics
Matches: 56, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
24 5 0.09
25 24 0.43
26 7 0.12
27 9 0.16
28 11 0.20
ACGTcount: A:0.16, C:0.05, G:0.01, T:0.78
Consensus pattern (25 bp):
TTTATTTTTATTTTTTTATCTTTAT
Found at i:10019136 original size:27 final size:27
Alignment explanation
Indices: 10019081--10019153 Score: 78
Period size: 27 Copynumber: 2.7 Consensus size: 27
10019071 TTTAATATTC
* *
10019081 TTTTATCTTTATTTTA--TTTTTATTTT
1 TTTTA-CTTTTTTTTATTTTTTTATTAT
10019107 TTTTACTTTTTTTTATTTTTTTATTAT
1 TTTTACTTTTTTTTATTTTTTTATTAT
* *
10019134 TTTCACTTTTATTTTGTTTT
1 TTTTACTTTT-TTTTATTTT
10019154 ATTTTTTTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
25 9 0.22
26 5 0.12
27 18 0.45
28 8 0.20
ACGTcount: A:0.14, C:0.05, G:0.01, T:0.79
Consensus pattern (27 bp):
TTTTACTTTTTTTTATTTTTTTATTAT
Found at i:10019144 original size:33 final size:29
Alignment explanation
Indices: 10019088--10019162 Score: 89
Period size: 33 Copynumber: 2.4 Consensus size: 29
10019078 TTCTTTTATC
10019088 TTTATTTTATTTTTATTTTTTTTACTTTT-T
1 TTTATTTT-TTTTTATTTTTTTTA-TTTTGT
10019118 TTTATTTTTTTATTATTTTCACTTTTATTTTGT
1 TTTATTTTTTT-TTATTTT---TTTTATTTTGT
10019151 TTTATTTTTTTT
1 TTTATTTTTTTT
10019163 AAATAAAAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
29 3 0.08
30 15 0.38
32 5 0.12
33 17 0.43
ACGTcount: A:0.13, C:0.04, G:0.01, T:0.81
Consensus pattern (29 bp):
TTTATTTTTTTTTATTTTTTTTATTTTGT
Found at i:10019260 original size:59 final size:58
Alignment explanation
Indices: 10019181--10019492 Score: 364
Period size: 58 Copynumber: 5.3 Consensus size: 58
10019171 ATAAAAAAAA
* **
10019181 TTTT-AGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAGGGTT
1 TTTTGAGG-AAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAATTTTCAAAAAA-TATT
10019240 TTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATCAAAGTTTTCAAAAAATA-T
1 TTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAAT-AAA-TTTTCAAAAAATATT
* * * * *
10019299 TTTTGA-AAAAAATTGAAAGTATCAATTTTCCTCGAAAATAAAAGTTTCCAAAAAATATT
1 TTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAAT-AAA-TTTTCAAAAAATATT
* * * * *
10019358 TTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCAAAAGAATATT
1 TTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAATTTTCAAAA-AATATT
* * *
10019417 TTTGGA-GAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC-AAAAATAACT
1 TTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAATTTTCAAAAAAT-ATT
*
10019474 TTTTGAGAAAAAGTTGAAA
1 TTTTGAGGAAAAGTTGAAA
10019493 TTTTCTTAAT
Statistics
Matches: 220, Mismatches: 25, Indels: 17
0.84 0.10 0.06
Matches are distributed among these distances:
56 3 0.01
57 10 0.05
58 99 0.45
59 61 0.28
60 36 0.16
61 11 0.05
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.36
Consensus pattern (58 bp):
TTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAATTTTCAAAAAATATT
Found at i:10019444 original size:27 final size:27
Alignment explanation
Indices: 10019357--10019446 Score: 67
Period size: 27 Copynumber: 3.2 Consensus size: 27
10019347 CAAAAAATAT
*
10019357 TTTTTGGGGAAAAGTTGAAAGTATCAA
1 TTTTTGGAGAAAAGTTGAAAGTATCAA
* * * *
10019384 TTTTCCTCGAAATTAAAGTTTCAAAAGAAT--A
1 TTTT--TGGAGA--AAAG-TT-GAAAGTATCAA
10019415 TTTTTGGAGAAAAGTTGAAAGTATCAA
1 TTTTTGGAGAAAAGTTGAAAGTATCAA
10019442 TTTTT
1 TTTTT
10019447 CTTAAAAATA
Statistics
Matches: 46, Mismatches: 9, Indels: 16
0.65 0.13 0.23
Matches are distributed among these distances:
25 6 0.13
26 2 0.04
27 14 0.30
29 7 0.15
31 9 0.20
32 2 0.04
33 6 0.13
ACGTcount: A:0.38, C:0.07, G:0.18, T:0.38
Consensus pattern (27 bp):
TTTTTGGAGAAAAGTTGAAAGTATCAA
Found at i:10019505 original size:118 final size:116
Alignment explanation
Indices: 10019173--10019492 Score: 421
Period size: 118 Copynumber: 2.7 Consensus size: 116
10019163 AAATAAAAAT
* * *
10019173 AAAAAAAATTTTAGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAGGG
1 AAAAAATATTTTTGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAA-GA
* *
10019238 TTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATCAAAGTTTTC
65 TTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATCAAAGTTTTC
* * * ** * *
10019290 AAAAAATATTTTTGAAAAAAATTGAAAGTATCAATTTTCCTCGAAAATAAAAGTTTCCAAAAAAT
1 AAAAAATATTTTTGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAA-TTTTCAAAAAAG
* *
10019355 ATTTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCG-AAATTAAAG-TTTC
64 ATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATCAAAGTTTTC
10019406 AAAAGAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAATA
1 AAAA-AATATTTTTGGA-AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAA-A
* *
10019471 -ACTTTTTGAGAAAAAGTTGAAA
63 GATTTTTTGAGGAAAAGTTGAAA
10019493 TTTTCTTAAT
Statistics
Matches: 175, Mismatches: 23, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
116 36 0.21
117 64 0.37
118 65 0.37
119 10 0.06
ACGTcount: A:0.45, C:0.07, G:0.13, T:0.35
Consensus pattern (116 bp):
AAAAAATATTTTTGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAGAT
TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATCAAAGTTTTC
Found at i:10030724 original size:42 final size:41
Alignment explanation
Indices: 10030648--10030862 Score: 223
Period size: 42 Copynumber: 5.1 Consensus size: 41
10030638 ATGATTGTCA
* *
10030648 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* *
10030689 AGGAGCAATTTACTTTTCAAAAGTCATGGTGCCTCTGTTTAG
1 AGGAGCAATTTATTTTTC-AAAGTCGTGGTGCCTCTGTTTAG
* * * * ** *
10030731 ATGAGCAATTTATTTTTTTAAAGTTGTTGAACCTCTGTTTAA
1 AGGAGCAATTTA-TTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* * *
10030773 AGGAGCAATTTATTTTTTCAAAGTTGTTGAGCCTCTGTTTAG
1 AGGAGCAATTTA-TTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* * * * *
10030815 ATGAGCAATTTATTTTTTCAAAGTCGTTGAGCCTCTGCTTAA
1 AGGAGCAATTTA-TTTTTCAAAGTCGTGGTGCCTCTGTTTAG
10030857 AGGAGC
1 AGGAGC
10030863 TTTGATAAAA
Statistics
Matches: 152, Mismatches: 20, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
41 17 0.11
42 131 0.86
43 4 0.03
ACGTcount: A:0.26, C:0.15, G:0.20, T:0.39
Consensus pattern (41 bp):
AGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAG
Found at i:10030766 original size:84 final size:84
Alignment explanation
Indices: 10030650--10030862 Score: 268
Period size: 84 Copynumber: 2.5 Consensus size: 84
10030640 GATTGTCAAG
* * * ** *
10030650 GAGCAATTTA-CTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTA-CTTTTCAAAAGT
1 GAGCAATTTATTTTTTCAAAGTCGTTGAACCTCTGTTTAAAGGAGCAATTTATCTTTTC-AAAGT
*
10030713 CATGGTGCCTCTGTTTAGAT
65 CATGGAGCCTCTGTTTAGAT
* * * *
10030733 GAGCAATTTATTTTTTTAAAGTTGTTGAACCTCTGTTTAAAGGAGCAATTTATTTTTTCAAAGTT
1 GAGCAATTTATTTTTTCAAAGTCGTTGAACCTCTGTTTAAAGGAGCAATTTATCTTTTCAAAGTC
* *
10030798 GTTGAGCCTCTGTTTAGAT
66 ATGGAGCCTCTGTTTAGAT
* *
10030817 GAGCAATTTATTTTTTCAAAGTCGTTGAGCCTCTGCTTAAAGGAGC
1 GAGCAATTTATTTTTTCAAAGTCGTTGAACCTCTGTTTAAAGGAGC
10030863 TTTGATAAAA
Statistics
Matches: 111, Mismatches: 17, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
83 10 0.09
84 96 0.86
85 5 0.05
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.39
Consensus pattern (84 bp):
GAGCAATTTATTTTTTCAAAGTCGTTGAACCTCTGTTTAAAGGAGCAATTTATCTTTTCAAAGTC
ATGGAGCCTCTGTTTAGAT
Found at i:10031061 original size:11 final size:11
Alignment explanation
Indices: 10031045--10031170 Score: 78
Period size: 11 Copynumber: 11.4 Consensus size: 11
10031035 GGTAAGTCTA
*
10031045 TTTTCTTTT-T
1 TTTTTTTTTAT
*
10031055 TTTTTCTTTAT
1 TTTTTTTTTAT
**
10031066 TTTAATTTTAT
1 TTTTTTTTTAT
10031077 TTTTATTTTTA-
1 TTTT-TTTTTAT
10031088 TTTTTTTTT-T
1 TTTTTTTTTAT
* * **
10031098 GTATTTTACAT
1 TTTTTTTTTAT
*
10031109 TTTTATTTTAT
1 TTTTTTTTTAT
* *
10031120 TTCTATTTTAT
1 TTTTTTTTTAT
10031131 TTTTATTTTTAT
1 TTTT-TTTTTAT
*
10031143 TATTGTTTTTAT
1 T-TTTTTTTTAT
*
10031155 ATATTTTTTTAT
1 -TTTTTTTTTAT
10031167 TTTT
1 TTTT
10031171 ATCTTAGGTA
Statistics
Matches: 86, Mismatches: 23, Indels: 13
0.70 0.19 0.11
Matches are distributed among these distances:
10 17 0.20
11 39 0.45
12 27 0.31
13 3 0.03
ACGTcount: A:0.16, C:0.03, G:0.02, T:0.79
Consensus pattern (11 bp):
TTTTTTTTTAT
Found at i:10031116 original size:6 final size:6
Alignment explanation
Indices: 10031061--10031172 Score: 106
Period size: 6 Copynumber: 18.8 Consensus size: 6
10031051 TTTTTTTTTC
* * *
10031061 TTTA-T TTTAAT TTTATT TTTATT TTTATT TTTTTT TTGTATT TTACATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TT-TATT TT-TATT
* * *
10031110 TTTA-T TTTATT TCTA-T TTTATT TTTATT TTTATT ATTGTT TTTATAT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTAT-T
*
10031157 ATT-TT TTTATT TTTAT
1 TTTATT TTTATT TTTAT
10031173 CTTAGGTATT
Statistics
Matches: 87, Mismatches: 14, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
5 16 0.18
6 58 0.67
7 13 0.15
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.78
Consensus pattern (6 bp):
TTTATT
Found at i:10031300 original size:21 final size:22
Alignment explanation
Indices: 10031274--10031316 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
10031264 TTATTTAATT
10031274 TTAATTTATCTG-TTAATTTTC
1 TTAATTTATCTGATTAATTTTC
*
10031295 TTAATTTATCTGATTTATTTTC
1 TTAATTTATCTGATTAATTTTC
10031317 ATTTGATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.23, C:0.09, G:0.05, T:0.63
Consensus pattern (22 bp):
TTAATTTATCTGATTAATTTTC
Found at i:10031649 original size:25 final size:24
Alignment explanation
Indices: 10031595--10031651 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 24
10031585 TAGGAATCGA
*
10031595 AAAATTTTTTTTGAAGATTTTTGG
1 AAAATTTTTTTTGAAAATTTTTGG
**
10031619 TGAATTTTTTTCTGAAAATTTTTGG
1 AAAATTTTTTT-TGAAAATTTTTGG
10031644 AAAATTTT
1 AAAATTTT
10031652 CAGATTTCGG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
24 9 0.33
25 18 0.67
ACGTcount: A:0.30, C:0.02, G:0.14, T:0.54
Consensus pattern (24 bp):
AAAATTTTTTTTGAAAATTTTTGG
Found at i:10031725 original size:19 final size:19
Alignment explanation
Indices: 10031703--10031741 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
10031693 CGAAGATTCT
*
10031703 GGCCAAATTTGAAGTTTTC
1 GGCCAAATTTCAAGTTTTC
* *
10031722 GGCCAACTTTCTAGTTTTC
1 GGCCAAATTTCAAGTTTTC
10031741 G
1 G
10031742 ACGATGTTTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (19 bp):
GGCCAAATTTCAAGTTTTC
Found at i:10032193 original size:4 final size:4
Alignment explanation
Indices: 10032186--10032225 Score: 53
Period size: 4 Copynumber: 9.8 Consensus size: 4
10032176 TAATTAATGA
* *
10032186 ATTT ATTT ATTT ATTT ATTT ATTT GTTT TTTT ATATT ATT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT AT-TT ATT
10032226 AGATTAGGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
4 28 0.88
5 4 0.12
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.75
Consensus pattern (4 bp):
ATTT
Found at i:10032291 original size:27 final size:28
Alignment explanation
Indices: 10032255--10032327 Score: 80
Period size: 27 Copynumber: 2.6 Consensus size: 28
10032245 TTCTTTTATC
*
10032255 TTTATTTTATTTTTATTTTTGTTTT-ACT
1 TTTA-TTTATTTTTATTTTTATTTTCACT
* *
10032283 TTTCTTTATTTTT-TTATTATTTTCACT
1 TTTATTTATTTTTATTTTTATTTTCACT
10032310 TTTATTT-TGTTTTATTTT
1 TTTATTTAT-TTTTATTTT
10032328 CTTTAAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
26 9 0.24
27 22 0.59
28 6 0.16
ACGTcount: A:0.14, C:0.05, G:0.03, T:0.78
Consensus pattern (28 bp):
TTTATTTATTTTTATTTTTATTTTCACT
Found at i:10032425 original size:58 final size:57
Alignment explanation
Indices: 10032343--10032965 Score: 601
Period size: 58 Copynumber: 10.7 Consensus size: 57
10032333 AATAAAAATT
*
10032343 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTAA
1 AAAAAAAT-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT-A
* *
10032402 AAAAAAATTTTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTTGAAAATCAAAGTTTT-
1 AAAAAAATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAA-TTTTA
* * *
10032460 CAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTA
1 AAAAAAAT-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTA
** * * * *
10032518 AAAAAAAGGTTTTTTGAAAAAAAGTTGAAATTATCAATTTTCCTTGAAAATCAAAGTTTC
1 AAAAAAA--TTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAATTTTA
* * * *
10032578 CAAAAAATATTTTTGA-AAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
1 AAAAAAAT-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTA
*** * **
10032635 AAAAAGGGTTTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTCGAAAATAAAAGTTTT-
1 AAAAAAATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAA-TTTTA
* * * * * * ** *
10032693 CAAAAAATATTTTTG-GAAAAAGTTAAAATTATTAATTTTTCTCGAAAATAAAAGTTTCCA
1 AAAAAAAT-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAA-TTT-TA
* ** * * *
10032753 AAAAATATTTTTTG-GAGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTC
1 AAAAAAATTTTTTGAG-GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTA
* *
10032810 AAAAGAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCA
1 AAAAAAAT-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT-A
* * * * * *
10032869 AAAATAAA-TTTTTGAGAAAAAGTTGAAAGTATAAATTTTCCTCAAAATTAAAGTTTC
1 AAAA-AAATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTA
* *
10032926 AAAAGAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTT
1 AAAAAAAT-TTTTTGAGGAAAAGTTGAAAGTATCAATTTT
10032966 TCCTGCACAA
Statistics
Matches: 473, Mismatches: 70, Indels: 43
0.81 0.12 0.07
Matches are distributed among these distances:
56 9 0.02
57 53 0.11
58 244 0.52
59 115 0.24
60 52 0.11
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.36
Consensus pattern (57 bp):
AAAAAAATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTA
Found at i:10032465 original size:117 final size:117
Alignment explanation
Indices: 10032344--10032967 Score: 825
Period size: 117 Copynumber: 5.4 Consensus size: 117
10032334 ATAAAAATTA
*
10032344 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTAAAAAAAAA
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTAAAAAAAAA
*
10032409 TTTTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTTGAAAATCAAAGTTTTC
66 TTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTTC
10032461 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTAAAAAAAAG
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTAAAAAAAA-
* ** * *
10032526 GTTTTTTGAAAAAAAGTTGAAATTATCAATTTTCCTTGAAAATCAAAGTTTCC
65 ATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTTC
** * **
10032579 AAAAAATATTTTT-GAAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTT-CAAAAAGG
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTAAAAAAAAA
* * * *
10032642 GTTTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTCGAAAATAAAAGTTTTC
66 TTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTTC
* * * * ** **
10032694 AAAAAATATTTTT-GGAAAAAGTTAAAATTATTAATTTTTCTCGAAAATAAAAGTTTCCAAAAAA
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAA-TTTTAAAAAAA
* * *
10032758 TATTTTTTG-GAGAAAAGTTGAAAGTATCAATTTTCCTCG-AAATTAAAG-TTTC
64 AATTTTTTGAG-GAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTTC
* *
10032810 AAAAGAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAATA
1 AAAA-AATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTT-AAAAAAA
* * * *
10032875 AA-TTTTTGAGAAAAAGTTGAAAGTATAAATTTTCC-TCAAAATTAAAG-TTTC
64 AATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTTC
10032926 AAAAGAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTC
1 AAAA-AATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTC
10032968 CTGCACAAAA
Statistics
Matches: 449, Mismatches: 48, Indels: 21
0.87 0.09 0.04
Matches are distributed among these distances:
115 87 0.19
116 102 0.23
117 134 0.30
118 126 0.28
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.36
Consensus pattern (117 bp):
AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTAAAAAAAAA
TTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTTC
Found at i:10032776 original size:233 final size:232
Alignment explanation
Indices: 10032344--10032967 Score: 896
Period size: 233 Copynumber: 2.7 Consensus size: 232
10032334 ATAAAAATTA
*
10032344 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTAAAAAAAAA
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAA
* *
10032409 TTTTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTTGAAAATCAAAGTTTTCAAAAAATATTTTT
66 -TTTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTCGAAAATAAAAGTTTTCAAAAAATATTTTT
* * *
10032474 GGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTAAAAAAAAGGTTTTTTGAAAAA
130 GGGGAAAAGTTGAAAGTATCAATTTTTCTCAAAAATAAAGTTTAAAAAAAAGATTTTTTGAAAAA
* *
10032539 AAGTTGAAATTATCAATTTTCCTTGAAAATCAAAGTTTCC
195 AAGTTGAAAGTATCAATTTTCCTCG-AAATCAAAGTTT-C
** * ***
10032579 AAAAAATATTTTT-GAAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAGGG
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAA
10032643 TTTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTCGAAAATAAAAGTTTTCAAAAAATATTTTT-
66 TTTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTCGAAAATAAAAGTTTTCAAAAAATATTTTTG
* * * * * ** * * *
10032707 GGAAAAAGTTAAAATTATTAATTTTTCTCGAAAATAAAAGTTTCCAAAAAATATTTTTTGGAGAA
131 GGGAAAAGTTGAAAGTATCAATTTTTCTCAAAAAT-AAAGTTTAAAAAAAAGATTTTTTGAAAAA
*
10032772 AAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTC
195 AAGTTGAAAGTATCAATTTTCCTCGAAATCAAAGTTTC
10032810 AAAAGAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAATA
1 AAAA-AATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAA-A
* * * *
10032875 AATTTTTGAGAAAAAGTTGAAAGTATAAATTTTCCTC-AAAATTAAAG-TTTCAAAAGAATATTT
64 AATTTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTCGAAAATAAAAGTTTTCAAAA-AATATTT
10032938 TTGGGGAAAAGTTGAAAGTATCAATTTTTC
128 TTGGGGAAAAGTTGAAAGTATCAATTTTTC
10032968 CTGCACAAAA
Statistics
Matches: 344, Mismatches: 39, Indels: 13
0.87 0.10 0.03
Matches are distributed among these distances:
231 5 0.01
232 57 0.17
233 170 0.49
234 99 0.29
235 13 0.04
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.36
Consensus pattern (232 bp):
AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAA
TTTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTCGAAAATAAAAGTTTTCAAAAAATATTTTTG
GGGAAAAGTTGAAAGTATCAATTTTTCTCAAAAATAAAGTTTAAAAAAAAGATTTTTTGAAAAAA
AGTTGAAAGTATCAATTTTCCTCGAAATCAAAGTTTC
Found at i:10032881 original size:15 final size:14
Alignment explanation
Indices: 10032854--10032880 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10032844 AATTTTCCTT
10032854 AAAAATAAATTTTC
1 AAAAATAAATTTTC
10032868 AAAAATAAATTTT
1 AAAAATAAATTTT
10032881 TGAGAAAAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (14 bp):
AAAAATAAATTTTC
Found at i:10033902 original size:23 final size:22
Alignment explanation
Indices: 10033872--10033914 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
10033862 AGGAAAATAT
*
10033872 AAAAAAAAAAAAATTGAAAGGC
1 AAAAAAAAAAAAATTAAAAGGC
10033894 AAAACAAAAAAAAATTAAAAG
1 AAAA-AAAAAAAAATTAAAAG
10033915 CTTTAAGAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.77, C:0.05, G:0.09, T:0.09
Consensus pattern (22 bp):
AAAAAAAAAAAAATTAAAAGGC
Found at i:10034987 original size:14 final size:14
Alignment explanation
Indices: 10034931--10034987 Score: 53
Period size: 14 Copynumber: 4.1 Consensus size: 14
10034921 TTTTATTAGT
10034931 TTTTTATTAATTAA
1 TTTTTATTAATTAA
* *
10034945 TAATTT-TTATTTAA
1 T-TTTTATTAATTAA
* * *
10034959 TTTTTGTAAAGTAA
1 TTTTTATTAATTAA
10034973 TTTTTATTAATTAA
1 TTTTTATTAATTAA
10034987 T
1 T
10034988 AATTAATAAG
Statistics
Matches: 32, Mismatches: 9, Indels: 4
0.71 0.20 0.09
Matches are distributed among these distances:
13 3 0.09
14 26 0.81
15 3 0.09
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (14 bp):
TTTTTATTAATTAA
Found at i:10040742 original size:14 final size:14
Alignment explanation
Indices: 10040720--10040759 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
10040710 AATGAAAAGA
*
10040720 AAAATAAATAAAAT
1 AAAAGAAATAAAAT
10040734 AAAAGAAATAAAAT
1 AAAAGAAATAAAAT
*
10040748 AAAAGCAATAAA
1 AAAAGAAATAAA
10040760 CAATTAGGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.78, C:0.03, G:0.05, T:0.15
Consensus pattern (14 bp):
AAAAGAAATAAAAT
Found at i:10042476 original size:15 final size:17
Alignment explanation
Indices: 10042458--10042491 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
10042448 TTTATTTATC
10042458 AATTT-TTT-ATTATAA
1 AATTTATTTAATTATAA
10042473 AATTTATTTAATTATAA
1 AATTTATTTAATTATAA
10042490 AA
1 AA
10042492 ATAAAAAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 3 0.18
17 9 0.53
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
AATTTATTTAATTATAA
Found at i:10043148 original size:13 final size:13
Alignment explanation
Indices: 10043120--10043153 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
10043110 CAAATTGAAC
*
10043120 ATTAATATTAATAT
1 ATTAA-ATTAAGAT
10043134 ATTAAATTAAGAT
1 ATTAAATTAAGAT
10043147 ATTAAAT
1 ATTAAAT
10043154 AATAACTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (13 bp):
ATTAAATTAAGAT
Found at i:10043597 original size:18 final size:18
Alignment explanation
Indices: 10043567--10043605 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
10043557 AATATTTATT
10043567 AAATATATAAAAAAGAAA
1 AAATATATAAAAAAGAAA
*
10043585 AAATA-ATAGAAAAATAAA
1 AAATATATA-AAAAAGAAA
10043603 AAA
1 AAA
10043606 ATGTGGCATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 3 0.16
18 16 0.84
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.15
Consensus pattern (18 bp):
AAATATATAAAAAAGAAA
Found at i:10043979 original size:20 final size:19
Alignment explanation
Indices: 10043956--10043993 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
10043946 TAAAATATTG
10043956 AAATCTTTAAAAATATTTAT
1 AAATCTTTAAAAA-ATTTAT
*
10043976 AAATTTTTAAAAAATTTA
1 AAATCTTTAAAAAATTTA
10043994 AAAGAAAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (19 bp):
AAATCTTTAAAAAATTTAT
Found at i:10044627 original size:19 final size:19
Alignment explanation
Indices: 10044596--10044650 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 19
10044586 GGAAAAAACT
* *
10044596 AAAA-AATTTAAAAAAGAA
1 AAAACAATTAAAAAAAAAA
*
10044614 AAAACAA-TAAAAAATAAAT
1 AAAACAATTAAAAAA-AAAA
*
10044633 AAGACAATTAAAAAAAAA
1 AAAACAATTAAAAAAAAA
10044651 TGCCGTACAT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
18 10 0.33
19 13 0.43
20 7 0.23
ACGTcount: A:0.78, C:0.04, G:0.04, T:0.15
Consensus pattern (19 bp):
AAAACAATTAAAAAAAAAA
Found at i:10044631 original size:24 final size:23
Alignment explanation
Indices: 10044587--10044636 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
10044577 AAAAAAATGG
10044587 GAAAAAACTAAAAAATTTAAAAAA
1 GAAAAAACTAAAAAA-TTAAAAAA
*
10044611 GAAAAAACAATAAAAAA-TAAATAA
1 GAAAAAAC--TAAAAAATTAAAAAA
10044635 GA
1 GA
10044637 CAATTAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
24 16 0.70
26 7 0.30
ACGTcount: A:0.76, C:0.04, G:0.06, T:0.14
Consensus pattern (23 bp):
GAAAAAACTAAAAAATTAAAAAA
Found at i:10044651 original size:19 final size:19
Alignment explanation
Indices: 10044603--10044651 Score: 59
Period size: 17 Copynumber: 2.7 Consensus size: 19
10044593 ACTAAAAAAT
10044603 TTAAAAAAGAAA-AAACAA
1 TTAAAAAAGAAATAAACAA
*
10044621 -TAAAAAATAAATAAGACAA
1 TTAAAAAAGAAATAA-ACAA
10044640 TTAAAAAA-AAAT
1 TTAAAAAAGAAAT
10044652 GCCGTACATC
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 10 0.37
18 2 0.07
19 8 0.30
20 7 0.26
ACGTcount: A:0.76, C:0.04, G:0.04, T:0.16
Consensus pattern (19 bp):
TTAAAAAAGAAATAAACAA
Found at i:10044973 original size:19 final size:18
Alignment explanation
Indices: 10044940--10044975 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
10044930 ATTTGATTTT
10044940 TTTAAAATAAAATTTTAA
1 TTTAAAATAAAATTTTAA
*
10044958 TTTAAAATTTAAATTTTA
1 TTTAAAA-TAAAATTTTA
10044976 TAAATAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TTTAAAATAAAATTTTAA
Found at i:10062947 original size:3 final size:3
Alignment explanation
Indices: 10062939--10062996 Score: 109
Period size: 3 Copynumber: 19.7 Consensus size: 3
10062929 CTCAAAGGAA
10062939 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10062986 AAT AAT AAT AA
1 AAT AAT AAT AA
10062997 ATTGTTATGT
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 52 0.96
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:10079971 original size:2 final size:2
Alignment explanation
Indices: 10079964--10079990 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
10079954 CAAATGCAGC
10079964 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
10079991 AACTGGAAAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10080160 original size:343 final size:343
Alignment explanation
Indices: 10079300--10080998 Score: 2733
Period size: 343 Copynumber: 4.9 Consensus size: 343
10079290 AAAAAAGCAC
*
10079300 ATATATAT-AACTGGAAATCTCATAGATATTAAATTTCAATTTTCATCGTGACAAATCTGCCTAA
1 ATATATATAAACTGGAAATCTCATAGATATTAAATTTCAATTTTCATCGGGACAAATCTGCCTAA
*
10079364 CACCTGGCAAGCAACTTTAAAGAAAATATGATTTACATTTCAGGAGGTTTCTGCAGCTGGGATCA
66 CACCTGGCAAGC-ACTTTAAAGAAAATATAATTTACATTTCAGGAGGTTTCTGCAGCTGGGATCA
* *
10079429 TATTAAAGAGGACCCAAGCAAAAATTGGGATAGGACTTATTAGATTCTTGCAAAGATTACTTAAT
130 TATTAGAGAGGACCCAAGCAAAAATTGGGATAGGACTTATTAGATTCTTGCAAATATTACTTAAT
10079494 ATGATTTACATGTCAGAACAAGATTTCCAAGTCTAGGATCTCATCAGAAATGGGGTTTCATCCAA
195 ATGATTTACATGTCAGAACAAGATTTCCAAGTCTAGGATCTCATCAGAAATGGGGTTTCATCCAA
*
10079559 GCAAAATATTTTACAAGAGTTATGGGGTTCTTGCTAGGGCTGCTTATTTAACAAGGCAAATGCAG
260 GCAAAATATTCTACAAGAGTTATGGGGTTCTTGCTAGGGCTGCTTATTTAACAAGGCAAATGCAG
10079624 C--ATATATATATATATAT
325 CATATATATATATATATAT
*
10079641 ATATA-A-AAACTGAAAATCTCATAGATATTAAATTTCAATTTTCATCGGGACAAATCTGCCTAA
1 ATATATATAAACTGGAAATCTCATAGATATTAAATTTCAATTTTCATCGGGACAAATCTGCCTAA
* *
10079704 CACCTGGCAAGCACTTTAAAGAAAATATTATTTACATTTCAGGAGGTATCTGCAGCTGGGATCAT
66 CACCTGGCAAGCACTTTAAAGAAAATATAATTTACATTTCAGGAGGTTTCTGCAGCTGGGATCAT
*
10079769 ATTAGAGAGGACCCAAGAAAAAATTGGGATAGGACTTATTAGATTCTTGCAAATATTACTTAATA
131 ATTAGAGAGGACCCAAGCAAAAATTGGGATAGGACTTATTAGATTCTTGCAAATATTACTTAATA
10079834 TGATTTACATGTCAGAACAAGATTTCCAAGTCTAGGATCTCATCAGAAATGGGGTTTCATCCAAG
196 TGATTTACATGTCAGAACAAGATTTCCAAGTCTAGGATCTCATCAGAAATGGGGTTTCATCCAAG
*
10079899 CAAAATATTCTACAAGAGTTACGGGGTTCTTGCTAGGGCTGCTTATTTAACAAGGCAAATGCAGC
261 CAAAATATTCTACAAGAGTTATGGGGTTCTTGCTAGGGCTGCTTATTTAACAAGGCAAATGCAGC
10079964 ATATATATATATATATAT
326 ATATATATATATATATAT
*
10079982 ATATATATAAACTGGAAATCTCATAGATGTTAAATTTCAATTTTCATCGGGACAAATCTGCCTAA
1 ATATATATAAACTGGAAATCTCATAGATATTAAATTTCAATTTTCATCGGGACAAATCTGCCTAA
10080047 CACCTGGCAAGCACTTTAAAGAAAATATAATTTACATTTCAGGAGGTTTCTGCAGCTGGGATCAT
66 CACCTGGCAAGCACTTTAAAGAAAATATAATTTACATTTCAGGAGGTTTCTGCAGCTGGGATCAT
*
10080112 ATTAGCGAGGACCCAAGCAAAAATTGGGATAGGACTTATTAGATTCTTGCAAATATTACTTAATA
131 ATTAGAGAGGACCCAAGCAAAAATTGGGATAGGACTTATTAGATTCTTGCAAATATTACTTAATA
10080177 TGATTTACATGTCAGAACAAGATTTCCAAGTCTAGGATCTCATCAGAAATGGGGTTTCATCCAAG
196 TGATTTACATGTCAGAACAAGATTTCCAAGTCTAGGATCTCATCAGAAATGGGGTTTCATCCAAG
*
10080242 CAAAATATTCTACAAGAGTTATGGTGTTCTTGCTAGGGCTGCTTATTTAACAAGGCAAATGCAGC
261 CAAAATATTCTACAAGAGTTATGGGGTTCTTGCTAGGGCTGCTTATTTAACAAGGCAAATGCAGC
10080307 ATATATATATATATATATATATATATATATATATATATATATAT
326 --------------------------ATATATATATATATATAT
*
10080351 ATATATATAAACTGGAAATCTCATAGATATTAAATTTCAATTTTCATTGGGACAAATCTGCCTAA
1 ATATATATAAACTGGAAATCTCATAGATATTAAATTTCAATTTTCATCGGGACAAATCTGCCTAA
* *
10080416 CACCTGGCAAGCTCTTTAAAGAAAATATTATTTACATTTCAGGA-------G--G-T----T--T
66 CACCTGGCAAGCACTTTAAAGAAAATATAATTTACATTTCAGGAGGTTTCTGCAGCTGGGATCAT
*
10080465 ATTAGAGAGGACCCAAGCAAAAATTGGGATAGGACTTATTAGATTCTTGCAAATATCACTTAATA
131 ATTAGAGAGGACCCAAGCAAAAATTGGGATAGGACTTATTAGATTCTTGCAAATATTACTTAATA
10080530 TGATTTACATGTCAGAACAAGATTTCCAAGTCTAGGATCTCATCAGAAATGGGGTTTCATCCAAG
196 TGATTTACATGTCAGAACAAGATTTCCAAGTCTAGGATCTCATCAGAAATGGGGTTTCATCCAAG
* *
10080595 CAAAATATTCAACAAGAGTTATGGGGTTCTTGCTATGGCTGCTTATTTAACAAGGCAAATGCAGC
261 CAAAATATTCTACAAGAGTTATGGGGTTCTTGCTAGGGCTGCTTATTTAACAAGGCAAATGCAGC
10080660 ATATATATATATATATAT
326 ATATATATATATATATAT
* * *
10080678 ATATA-A-AAACTGGAAATCTCATAGATATTAAATTTCGATTTTCATCAGGACAAATCTGCCTGA
1 ATATATATAAACTGGAAATCTCATAGATATTAAATTTCAATTTTCATCGGGACAAATCTGCCTAA
*
10080741 CACCTGGCAAGCACTTTAAAGAAAATATAATTTACATTTCAGGAGATTTCTGCAGCTGGGATCAT
66 CACCTGGCAAGCACTTTAAAGAAAATATAATTTACATTTCAGGAGGTTTCTGCAGCTGGGATCAT
* *
10080806 ATTAGAGAGGACCCAAGCAAAAATTGGGATAGGAGTTATTAGATTCTTGCAAAGATTACTTAATA
131 ATTAGAGAGGACCCAAGCAAAAATTGGGATAGGACTTATTAGATTCTTGCAAATATTACTTAATA
* *
10080871 TGATTTACATGTCAGAACAAGATTTCCAAGTCTAGGATCTCAACAGAAATGGGGTTTCATCCAAA
196 TGATTTACATGTCAGAACAAGATTTCCAAGTCTAGGATCTCATCAGAAATGGGGTTTCATCCAAG
* *
10080936 CAAAATATTCTACAAGAGTTATGGTGTTCTTGCTAGGGCTGCTTATTTAACGAGGCAAATGCA
261 CAAAATATTCTACAAGAGTTATGGGGTTCTTGCTAGGGCTGCTTATTTAACAAGGCAAATGCA
10080999 ATTTAGGATG
Statistics
Matches: 1270, Mismatches: 41, Indels: 94
0.90 0.03 0.07
Matches are distributed among these distances:
325 95 0.07
326 1 0.00
327 23 0.02
332 1 0.00
334 1 0.00
335 1 0.00
339 242 0.19
340 67 0.05
341 211 0.17
342 1 0.00
343 309 0.24
353 191 0.15
355 1 0.00
359 1 0.00
360 1 0.00
362 1 0.00
369 123 0.10
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.31
Consensus pattern (343 bp):
ATATATATAAACTGGAAATCTCATAGATATTAAATTTCAATTTTCATCGGGACAAATCTGCCTAA
CACCTGGCAAGCACTTTAAAGAAAATATAATTTACATTTCAGGAGGTTTCTGCAGCTGGGATCAT
ATTAGAGAGGACCCAAGCAAAAATTGGGATAGGACTTATTAGATTCTTGCAAATATTACTTAATA
TGATTTACATGTCAGAACAAGATTTCCAAGTCTAGGATCTCATCAGAAATGGGGTTTCATCCAAG
CAAAATATTCTACAAGAGTTATGGGGTTCTTGCTAGGGCTGCTTATTTAACAAGGCAAATGCAGC
ATATATATATATATATAT
Found at i:10080314 original size:2 final size:2
Alignment explanation
Indices: 10080307--10080359 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
10080297 CAAATGCAGC
10080307 AT AT AT 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 AT AT AT
10080349 AT AT AT AT AT A
1 AT AT AT AT AT A
10080360 AACTGGAAAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10080612 original size:353 final size:358
Alignment explanation
Indices: 10079964--10080682 Score: 1223
Period size: 353 Copynumber: 2.0 Consensus size: 358
10079954 CAAATGCAGC
*
10079964 ATATATATATATATATATATATATATAAACTGGAAATCTCATAGATGTTAAATTTCAATTTTCAT
1 ATATATATATATATATATATATATATAAACTGGAAATCTCATAGATATTAAATTTCAATTTTCAT
10080029 CGGGACAAATCTGCCTAACACCTGGCAAGCACTTTAAAGAAAATATAATTTACATTTCAGGAGGT
66 CGGGACAAATCTGCCTAACACCTGGCAAGCACTTTAAAGAAAATATAATTTACATTTCAGGA---
*
10080094 TTCTGCAGCTGGGATCATATTAGCGAGGACCCAAGCAAAAATTGGGATAGGACTTATTAGATTCT
128 ---TG-AGCT--G-T-ATATTAGAGAGGACCCAAGCAAAAATTGGGATAGGACTTATTAGATTCT
*
10080159 TGCAAATATTACTTAATATGATTTACATGTCAGAACAAGATTTCCAAGTCTAGGATCTCATCAGA
185 TGCAAATATCACTTAATATGATTTACATGTCAGAACAAGATTTCCAAGTCTAGGATCTCATCAGA
* *
10080224 AATGGGGTTTCATCCAAGCAAAATATTCTACAAGAGTTATGGTGTTCTTGCTAGGGCTGCTTATT
250 AATGGGGTTTCATCCAAGCAAAATATTCAACAAGAGTTATGGGGTTCTTGCTAGGGCTGCTTATT
10080289 TAACAAGGCAAATGCAGCATATATATATATATATATATATATAT
315 TAACAAGGCAAATGCAGCATATATATATATATATATATATATAT
10080333 ATATATATATATATATATATATATATAAACTGGAAATCTCATAGATATTAAATTTCAATTTTCAT
1 ATATATATATATATATATATATATATAAACTGGAAATCTCATAGATATTAAATTTCAATTTTCAT
* * *
10080398 TGGGACAAATCTGCCTAACACCTGGCAAGCTCTTTAAAGAAAATATTATTTACATTTCAGGA-G-
66 CGGGACAAATCTGCCTAACACCTGGCAAGCACTTTAAAGAAAATATAATTTACATTTCAGGATGA
10080461 G-T-T-TATTAGAGAGGACCCAAGCAAAAATTGGGATAGGACTTATTAGATTCTTGCAAATATCA
131 GCTGTATATTAGAGAGGACCCAAGCAAAAATTGGGATAGGACTTATTAGATTCTTGCAAATATCA
10080523 CTTAATATGATTTACATGTCAGAACAAGATTTCCAAGTCTAGGATCTCATCAGAAATGGGGTTTC
196 CTTAATATGATTTACATGTCAGAACAAGATTTCCAAGTCTAGGATCTCATCAGAAATGGGGTTTC
*
10080588 ATCCAAGCAAAATATTCAACAAGAGTTATGGGGTTCTTGCTATGGCTGCTTATTTAACAAGGCAA
261 ATCCAAGCAAAATATTCAACAAGAGTTATGGGGTTCTTGCTAGGGCTGCTTATTTAACAAGGCAA
10080653 ATGCAGCATATATATATATATATATATATA
326 ATGCAGCATATATATATATATATATATATA
10080683 AAAACTGGAA
Statistics
Matches: 341, Mismatches: 9, Indels: 16
0.93 0.02 0.04
Matches are distributed among these distances:
353 214 0.63
355 1 0.00
359 1 0.00
360 1 0.00
362 1 0.00
369 123 0.36
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (358 bp):
ATATATATATATATATATATATATATAAACTGGAAATCTCATAGATATTAAATTTCAATTTTCAT
CGGGACAAATCTGCCTAACACCTGGCAAGCACTTTAAAGAAAATATAATTTACATTTCAGGATGA
GCTGTATATTAGAGAGGACCCAAGCAAAAATTGGGATAGGACTTATTAGATTCTTGCAAATATCA
CTTAATATGATTTACATGTCAGAACAAGATTTCCAAGTCTAGGATCTCATCAGAAATGGGGTTTC
ATCCAAGCAAAATATTCAACAAGAGTTATGGGGTTCTTGCTAGGGCTGCTTATTTAACAAGGCAA
ATGCAGCATATATATATATATATATATATATAT
Found at i:10080882 original size:694 final size:703
Alignment explanation
Indices: 10079625--10080998 Score: 2424
Period size: 694 Copynumber: 2.0 Consensus size: 703
10079615 CAAATGCAGC
10079625 ATATATATATATATATATATAAAAACTGAAAATCTCATAGATATTAAATTTCAATTTTCATCGGG
1 ATATATATATATATATATATAAAAACTGAAAATCTCATAGATATTAAATTTCAATTTTCATCGGG
10079690 ACAAATCTGCCTAACACCTGGCAAGCACTTTAAAGAAAATATTATTTACATTTCAGGAGGTATCT
66 ACAAATCTGCCTAACACCTGGCAAGCACTTTAAAGAAAATATTATTTACATTTC--GAGGTA--T
10079755 GCAGCTGGGATCATATTAGAGAGGACCCAAGAAAAAATTGGGATAGGACTTATTAGATTCTTGCA
127 G-AGCT--G-T-ATATTAGAGAGGACCCAAGAAAAAATTGGGATAGGACTTATTAGATTCTTGCA
*
10079820 AATATTACTTAATATGATTTACATGTCAGAACAAGATTTCCAAGTCTAGGATCTCATCAGAAATG
187 AATATCACTTAATATGATTTACATGTCAGAACAAGATTTCCAAGTCTAGGATCTCATCAGAAATG
*
10079885 GGGTTTCATCCAAGCAAAATATTCTACAAGAGTTACGGGGTTCTTGCTAGGGCTGCTTATTTAAC
252 GGGTTTCATCCAAGCAAAATATTCAACAAGAGTTACGGGGTTCTTGCTAGGGCTGCTTATTTAAC
*
10079950 AAGGCAAATGCAGCATATATATATATATATATATATATATAAACTGGAAATCTCATAGATGTTAA
317 AAGGCAAATGCAGCATATATATATATATATATATATATATAAACTGGAAATCTCATAGATATTAA
*
10080015 ATTTCAATTTTCATCGGGACAAATCTGCCTAACACCTGGCAAGCACTTTAAAGAAAATATAATTT
382 ATTTCAATTTTCATCAGGACAAATCTGCCTAACACCTGGCAAGCACTTTAAAGAAAATATAATTT
* *
10080080 ACATTTCAGGAGGTTTCTGCAGCTGGGATCATATTAGCGAGGACCCAAGCAAAAATTGGGATAGG
447 ACATTTCAGGAGATTTCTGCAGCTGGGATCATATTAGAGAGGACCCAAGCAAAAATTGGGATAGG
*
10080145 ACTTATTAGATTCTTGCAAATATTACTTAATATGATTTACATGTCAGAACAAGATTTCCAAGTCT
512 ACTTATTAGATTCTTGCAAAGATTACTTAATATGATTTACATGTCAGAACAAGATTTCCAAGTCT
* *
10080210 AGGATCTCATCAGAAATGGGGTTTCATCCAAGCAAAATATTCTACAAGAGTTATGGTGTTCTTGC
577 AGGATCTCAACAGAAATGGGGTTTCATCCAAACAAAATATTCTACAAGAGTTATGGTGTTCTTGC
10080275 TAGGGCTGCTTATTTAACAAGGCAAATGCAGCATATATATATATATATATATATATATATAT
642 TAGGGCTGCTTATTTAACAAGGCAAATGCAGCATATATATATATATATATATATATATATAT
* * *
10080337 ATATATATATATATATATATATAAACTGGAAATCTCATAGATATTAAATTTCAATTTTCATTGGG
1 ATATATATATATATATATATAAAAACTGAAAATCTCATAGATATTAAATTTCAATTTTCATCGGG
*
10080402 ACAAATCTGCCTAACACCTGGCAAGCTCTTTAAAGAAAATATTATTTACATTTC-AGG-A-G-G-
66 ACAAATCTGCCTAACACCTGGCAAGCACTTTAAAGAAAATATTATTTACATTTCGAGGTATGAGC
*
10080462 T-T-TATTAGAGAGGACCCAAGCAAAAATTGGGATAGGACTTATTAGATTCTTGCAAATATCACT
131 TGTATATTAGAGAGGACCCAAGAAAAAATTGGGATAGGACTTATTAGATTCTTGCAAATATCACT
10080525 TAATATGATTTACATGTCAGAACAAGATTTCCAAGTCTAGGATCTCATCAGAAATGGGGTTTCAT
196 TAATATGATTTACATGTCAGAACAAGATTTCCAAGTCTAGGATCTCATCAGAAATGGGGTTTCAT
* *
10080590 CCAAGCAAAATATTCAACAAGAGTTATGGGGTTCTTGCTATGGCTGCTTATTTAACAAGGCAAAT
261 CCAAGCAAAATATTCAACAAGAGTTACGGGGTTCTTGCTAGGGCTGCTTATTTAACAAGGCAAAT
*
10080655 GCAGCATATATATATATATATATATATA-A-AAACTGGAAATCTCATAGATATTAAATTTCGATT
326 GCAGCATATATATATATATATATATATATATAAACTGGAAATCTCATAGATATTAAATTTCAATT
*
10080718 TTCATCAGGACAAATCTGCCTGACACCTGGCAAGCACTTTAAAGAAAATATAATTTACATTTCAG
391 TTCATCAGGACAAATCTGCCTAACACCTGGCAAGCACTTTAAAGAAAATATAATTTACATTTCAG
*
10080783 GAGATTTCTGCAGCTGGGATCATATTAGAGAGGACCCAAGCAAAAATTGGGATAGGAGTTATTAG
456 GAGATTTCTGCAGCTGGGATCATATTAGAGAGGACCCAAGCAAAAATTGGGATAGGACTTATTAG
10080848 ATTCTTGCAAAGATTACTTAATATGATTTACATGTCAGAACAAGATTTCCAAGTCTAGGATCTCA
521 ATTCTTGCAAAGATTACTTAATATGATTTACATGTCAGAACAAGATTTCCAAGTCTAGGATCTCA
10080913 ACAGAAATGGGGTTTCATCCAAACAAAATATTCTACAAGAGTTATGGTGTTCTTGCTAGGGCTGC
586 ACAGAAATGGGGTTTCATCCAAACAAAATATTCTACAAGAGTTATGGTGTTCTTGCTAGGGCTGC
*
10080978 TTATTTAACGAGGCAAATGCA
651 TTATTTAACAAGGCAAATGCA
10080999 ATTTAGGATG
Statistics
Matches: 642, Mismatches: 20, Indels: 18
0.94 0.03 0.03
Matches are distributed among these distances:
694 304 0.47
695 1 0.00
696 214 0.33
698 1 0.00
702 1 0.00
703 1 0.00
705 1 0.00
708 1 0.00
709 3 0.00
712 115 0.18
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (703 bp):
ATATATATATATATATATATAAAAACTGAAAATCTCATAGATATTAAATTTCAATTTTCATCGGG
ACAAATCTGCCTAACACCTGGCAAGCACTTTAAAGAAAATATTATTTACATTTCGAGGTATGAGC
TGTATATTAGAGAGGACCCAAGAAAAAATTGGGATAGGACTTATTAGATTCTTGCAAATATCACT
TAATATGATTTACATGTCAGAACAAGATTTCCAAGTCTAGGATCTCATCAGAAATGGGGTTTCAT
CCAAGCAAAATATTCAACAAGAGTTACGGGGTTCTTGCTAGGGCTGCTTATTTAACAAGGCAAAT
GCAGCATATATATATATATATATATATATATAAACTGGAAATCTCATAGATATTAAATTTCAATT
TTCATCAGGACAAATCTGCCTAACACCTGGCAAGCACTTTAAAGAAAATATAATTTACATTTCAG
GAGATTTCTGCAGCTGGGATCATATTAGAGAGGACCCAAGCAAAAATTGGGATAGGACTTATTAG
ATTCTTGCAAAGATTACTTAATATGATTTACATGTCAGAACAAGATTTCCAAGTCTAGGATCTCA
ACAGAAATGGGGTTTCATCCAAACAAAATATTCTACAAGAGTTATGGTGTTCTTGCTAGGGCTGC
TTATTTAACAAGGCAAATGCAGCATATATATATATATATATATATATATATAT
Found at i:10084069 original size:4 final size:4
Alignment explanation
Indices: 10084062--10084087 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
10084052 ATATATATAC
10084062 ATGT ATGT ATGT ATGT ATGT ATGT AT
1 ATGT ATGT ATGT ATGT ATGT ATGT AT
10084088 ATATATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:10085382 original size:18 final size:18
Alignment explanation
Indices: 10085357--10085397 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
10085347 TAATATTATT
10085357 TATA-TTTA-ATATATGAA
1 TATATTTTATATATAT-AA
*
10085374 TATATTTTATTTATATAA
1 TATATTTTATATATATAA
10085392 TATATT
1 TATATT
10085398 AAAGTTATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 4 0.19
18 12 0.57
19 5 0.24
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (18 bp):
TATATTTTATATATATAA
Found at i:10085394 original size:24 final size:24
Alignment explanation
Indices: 10085348--10085390 Score: 65
Period size: 21 Copynumber: 1.9 Consensus size: 24
10085338 ATTTTTTATT
10085348 AATATTATTTATATTTAATATATG
1 AATATTATTTATATTTAATATATG
10085372 AATA-TATTT-TATTT-ATATA
1 AATATTATTTATATTTAATATA
10085391 ATATATTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.26
22 5 0.26
23 5 0.26
24 4 0.21
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (24 bp):
AATATTATTTATATTTAATATATG
Found at i:10085598 original size:15 final size:15
Alignment explanation
Indices: 10085578--10085606 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
10085568 TTAACTACTA
10085578 AAAAAAATTTTTAAT
1 AAAAAAATTTTTAAT
10085593 AAAAAAATTTTTAA
1 AAAAAAATTTTTAA
10085607 CAAATTTAAA
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:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
AAAAAAATTTTTAAT
Found at i:10086290 original size:22 final size:21
Alignment explanation
Indices: 10086259--10086307 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
10086249 GGGTCTACGA
10086259 TTTAGAGTTTAAATTTGAGGGG
1 TTTAGAGTTTAAATTT-AGGGG
* * *
10086281 TTTAGGGTTTAGATTTAGGGT
1 TTTAGAGTTTAAATTTAGGGG
10086302 TTTAGA
1 TTTAGA
10086308 TTTGGGATAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 9 0.39
22 14 0.61
ACGTcount: A:0.24, C:0.00, G:0.31, T:0.45
Consensus pattern (21 bp):
TTTAGAGTTTAAATTTAGGGG
Found at i:10086299 original size:13 final size:14
Alignment explanation
Indices: 10086281--10086310 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
10086271 ATTTGAGGGG
10086281 TTTAGGG-TTTAGA
1 TTTAGGGTTTTAGA
10086294 TTTAGGGTTTTAGA
1 TTTAGGGTTTTAGA
10086308 TTT
1 TTT
10086311 GGGATAAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.20, C:0.00, G:0.27, T:0.53
Consensus pattern (14 bp):
TTTAGGGTTTTAGA
Found at i:10087887 original size:144 final size:141
Alignment explanation
Indices: 10087713--10087975 Score: 375
Period size: 144 Copynumber: 1.8 Consensus size: 141
10087703 GGATATTCAA
* *
10087713 GCACCAAAAATCATAAAATATTATGAAATTAAGATTTTAAAAATTTTGCGAAAATCCAACCTC-A
1 GCACCAAAAATCATAAAATATTATAAAATTAAGATTTGAAAAATTTTGCGAAAA-CCAACCTCAA
* * *
10087777 GAAATGTCAAATTACAAAAATACCCCTAAATGGGGTATTTTAGTAATTTTACACCTTCAAGGACT
65 G-AAGGTCAAATTACAAAAATACCCATAAA--GGGTATTTTAGTAATTTCACACCTTCAAGGACT
10087842 ATTGTGATTCTAAAT
127 ATTGTGATTCTAAAT
* *
10087857 GCACCAAAAATCATAAAATATTATAAAATTATGATTTGAAAAGTTTTGCGAAAACCAACCTCAAG
1 GCACCAAAAATCATAAAATATTATAAAATTAAGATTTGAAAAATTTTGCGAAAACCAACCTCAAG
* * * * *
10087922 AAGGTCAAATTACGAAATTACTCATAAAGGGTATTTTGGTAATTTCACATCTTC
66 AAGGTCAAATTACAAAAATACCCATAAAGGGTATTTTAGTAATTTCACACCTTC
10087976 GGAGGTACAA
Statistics
Matches: 106, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
141 23 0.22
143 31 0.29
144 52 0.49
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.31
Consensus pattern (141 bp):
GCACCAAAAATCATAAAATATTATAAAATTAAGATTTGAAAAATTTTGCGAAAACCAACCTCAAG
AAGGTCAAATTACAAAAATACCCATAAAGGGTATTTTAGTAATTTCACACCTTCAAGGACTATTG
TGATTCTAAAT
Found at i:10088406 original size:10 final size:10
Alignment explanation
Indices: 10088393--10088442 Score: 50
Period size: 10 Copynumber: 4.9 Consensus size: 10
10088383 TATGATCAAT
10088393 TTTGACTAAG
1 TTTGACTAAG
10088403 TTTGACTAAG
1 TTTGACTAAG
*
10088413 TTTGGACTTTA-
1 TTT-GAC-TAAG
10088424 TTTGA-TCAAG
1 TTTGACT-AAG
10088434 TTTGACTAA
1 TTTGACTAA
10088443 TTTTAACTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
8 1 0.03
9 1 0.03
10 22 0.67
11 7 0.21
12 2 0.06
ACGTcount: A:0.28, C:0.10, G:0.18, T:0.44
Consensus pattern (10 bp):
TTTGACTAAG
Found at i:10089255 original size:2 final size:2
Alignment explanation
Indices: 10089236--10089276 Score: 57
Period size: 2 Copynumber: 20.5 Consensus size: 2
10089226 ATTTAATAAG
*
10089236 TA TA TA TGA T- TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10089277 CTTAAATGTG
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
1 1 0.03
2 32 0.91
3 2 0.06
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (2 bp):
TA
Found at i:10095856 original size:17 final size:18
Alignment explanation
Indices: 10095831--10095874 Score: 63
Period size: 17 Copynumber: 2.4 Consensus size: 18
10095821 ATTTTTTGTA
10095831 TATTATTTTATT-GTTTT
1 TATTATTTTATTAGTTTT
*
10095848 TATTCTTTTATTAGTTTT
1 TATTATTTTATTAGTTTT
10095866 TATTTATTT
1 TA-TTATTT
10095875 ATTTATTCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 11 0.48
18 7 0.30
19 5 0.22
ACGTcount: A:0.18, C:0.02, G:0.05, T:0.75
Consensus pattern (18 bp):
TATTATTTTATTAGTTTT
Found at i:10097296 original size:45 final size:46
Alignment explanation
Indices: 10097201--10097298 Score: 144
Period size: 46 Copynumber: 2.2 Consensus size: 46
10097191 ATTACACATC
* *
10097201 TGCATTATTTGGTAAATATTTAAATCATTGTTTTGAATAGTGCATT
1 TGCATCATTTGGTAAATATATAAATCATTGTTTTGAATAGTGCATT
* * *
10097247 TGCATCATTTGGTGAGTATATAAATCATTG-TTTGAATATTGCATT
1 TGCATCATTTGGTAAATATATAAATCATTGTTTTGAATAGTGCATT
10097292 TGCATCA
1 TGCATCA
10097299 CAGTTAGAAC
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
45 21 0.45
46 26 0.55
ACGTcount: A:0.30, C:0.09, G:0.16, T:0.45
Consensus pattern (46 bp):
TGCATCATTTGGTAAATATATAAATCATTGTTTTGAATAGTGCATT
Found at i:10097834 original size:23 final size:23
Alignment explanation
Indices: 10097806--10097867 Score: 97
Period size: 23 Copynumber: 2.7 Consensus size: 23
10097796 GAAATGTAAA
*
10097806 TTTTTAATGTGAATCTCTAAGAT
1 TTTTTAATGTGAATCTCTAAGAC
*
10097829 TTTTTAATGTGAATATCTAAGAC
1 TTTTTAATGTGAATCTCTAAGAC
*
10097852 TTTTGAATGTGAATCT
1 TTTTTAATGTGAATCT
10097868 TAAATATAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.47
Consensus pattern (23 bp):
TTTTTAATGTGAATCTCTAAGAC
Found at i:10097848 original size:59 final size:59
Alignment explanation
Indices: 10097777--10097901 Score: 153
Period size: 59 Copynumber: 2.1 Consensus size: 59
10097767 TGATCTTGAT
* * * * * *
10097777 TGTGAATTTCTAAGA-TTTTGAAATGTAAATTTTTAATGTGAATCTCTAAGATTTTTTAA
1 TGTGAATATCTAAGACTTTTG-AATGTAAATCTTAAATATAAATCTCTAAGATTTTTCAA
* *
10097836 TGTGAATATCTAAGACTTTTGAATGTGAATCTTAAATATAAATCTTTAAGATTTTTCAA
1 TGTGAATATCTAAGACTTTTGAATGTAAATCTTAAATATAAATCTCTAAGATTTTTCAA
*
10097895 TATGAAT
1 TGTGAAT
10097902 CTTGAATGTT
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
59 51 0.91
60 5 0.09
ACGTcount: A:0.36, C:0.06, G:0.13, T:0.45
Consensus pattern (59 bp):
TGTGAATATCTAAGACTTTTGAATGTAAATCTTAAATATAAATCTCTAAGATTTTTCAA
Found at i:10097886 original size:36 final size:36
Alignment explanation
Indices: 10097846--10097933 Score: 113
Period size: 36 Copynumber: 2.4 Consensus size: 36
10097836 TGTGAATATC
* * *
10097846 TAAGACTTTTGAATGTGAATCTTAAATATAAATCTT
1 TAAGATTTTTCAATATGAATCTTAAATATAAATCTT
* * * *
10097882 TAAGATTTTTCAATATGAATCTTGAATGTTAATTTT
1 TAAGATTTTTCAATATGAATCTTAAATATAAATCTT
10097918 TAAGATTTTTCAATAT
1 TAAGATTTTTCAATAT
10097934 CAATATTGAA
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 45 1.00
ACGTcount: A:0.36, C:0.07, G:0.10, T:0.47
Consensus pattern (36 bp):
TAAGATTTTTCAATATGAATCTTAAATATAAATCTT
Found at i:10097943 original size:36 final size:36
Alignment explanation
Indices: 10097880--10097972 Score: 123
Period size: 36 Copynumber: 2.6 Consensus size: 36
10097870 AATATAAATC
* * * *
10097880 TTTAAGATTTTTCAATATGAATCTTGAATGTTAATT
1 TTTAAGATTTTTCAATATCAATATTGAATGTGAACT
10097916 TTTAAGATTTTTCAATATCAATATTGAATGTGAACT
1 TTTAAGATTTTTCAATATCAATATTGAATGTGAACT
* * *
10097952 TCTAAGATTTTTAAATGTCAA
1 TTTAAGATTTTTCAATATCAA
10097973 CCTTTAGATG
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 50 1.00
ACGTcount: A:0.35, C:0.08, G:0.11, T:0.46
Consensus pattern (36 bp):
TTTAAGATTTTTCAATATCAATATTGAATGTGAACT
Found at i:10098067 original size:18 final size:18
Alignment explanation
Indices: 10098040--10098075 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
10098030 AATTATTCGG
*
10098040 GACCTTTGCGAATCTTGA
1 GACCTATGCGAATCTTGA
10098058 GACCTATGCGAATCTTGA
1 GACCTATGCGAATCTTGA
10098076 AACATTTAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (18 bp):
GACCTATGCGAATCTTGA
Found at i:10098161 original size:18 final size:18
Alignment explanation
Indices: 10098140--10098182 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
10098130 AACATTTGCT
* *
10098140 AATCTTAGAACCTTCGCA
1 AATCTTAGAAACTTCACA
* *
10098158 AATCTTGGAAACTTTACA
1 AATCTTAGAAACTTCACA
10098176 AATCTTA
1 AATCTTA
10098183 AATCTTTTAC
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.37, C:0.21, G:0.09, T:0.33
Consensus pattern (18 bp):
AATCTTAGAAACTTCACA
Found at i:10098191 original size:18 final size:18
Alignment explanation
Indices: 10098170--10098205 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
10098160 TCTTGGAAAC
10098170 TTTACAAATCTTAAATCT
1 TTTACAAATCTTAAATCT
*
10098188 TTTACAAATCTTGAATCT
1 TTTACAAATCTTAAATCT
10098206 CATGCATTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.36, C:0.17, G:0.03, T:0.44
Consensus pattern (18 bp):
TTTACAAATCTTAAATCT
Found at i:10098250 original size:22 final size:21
Alignment explanation
Indices: 10098210--10098259 Score: 66
Period size: 22 Copynumber: 2.4 Consensus size: 21
10098200 GAATCTCATG
**
10098210 CATTGCATTCATTGTATGCAT
1 CATTGCATTCATTCCATGCAT
10098231 ACATTGCATTCATTCCATGCAT
1 -CATTGCATTCATTCCATGCAT
10098253 CA-TGCAT
1 CATTGCAT
10098260 GTTTGAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 5 0.19
21 2 0.08
22 19 0.73
ACGTcount: A:0.26, C:0.24, G:0.12, T:0.38
Consensus pattern (21 bp):
CATTGCATTCATTCCATGCAT
Found at i:10098502 original size:48 final size:48
Alignment explanation
Indices: 10098431--10098522 Score: 166
Period size: 48 Copynumber: 1.9 Consensus size: 48
10098421 TTTTGAGGTA
10098431 AGAATTTTAAAGTTTCAAGCCTTTATTGAGAATGAGCTTTCCTGAATG
1 AGAATTTTAAAGTTTCAAGCCTTTATTGAGAATGAGCTTTCCTGAATG
* *
10098479 AGAATTTTAAAGTTTTAAGCCTTTATTGAGGATGAGCTTTCCTG
1 AGAATTTTAAAGTTTCAAGCCTTTATTGAGAATGAGCTTTCCTG
10098523 GATATAATTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.39
Consensus pattern (48 bp):
AGAATTTTAAAGTTTCAAGCCTTTATTGAGAATGAGCTTTCCTGAATG
Found at i:10098575 original size:38 final size:35
Alignment explanation
Indices: 10098530--10098892 Score: 196
Period size: 38 Copynumber: 9.7 Consensus size: 35
10098520 CTGGATATAA
10098530 TTTTATTTTTTCAAAGTTGAAGCCTCAATGGATAAAT
1 TTTTA-TTTTTCAAAGTTGAAGCCTCAATGGA-AAAT
** *
10098567 TTGTTATTTTTCAAAAGTTGAAGTATCAATGGAGAAGTT
1 TT-TTATTTTTC-AAAGTTGAAGCCTCAATGGA-AA-AT
*
10098606 TTTTATTTTTCCAAAGTTGAAGCCTCAGTGGAAAAGT
1 TTTTATTTTT-CAAAGTTGAAGCCTCAATGGAAAA-T
* *
10098643 TCTTTATTTTTCCAAGTTGAAGCCTC-A-GTAAAGGAGT
1 T-TTTATTTTTCAAAGTTGAAGCCTCAATGGAAA--A-T
** * *
10098680 TCTTTATTTTTCAAAAGTTGAAGCCTTGATGGAGGAGT
1 T-TTTATTTTTC-AAAGTTGAAGCCTCAATGGA-AAAT
* * * * **
10098718 TCTTTATTTTTCACAGTTGAAGCCTTAGTAGAGGAGTT
1 T-TTTATTTTTCAAAGTTGAAGCCTCAAT-G-GAAAAT
* *
10098756 TTTTATTTTTCAAAGTTGAAGTCTCGAT-GAAAGAGT
1 TTTTATTTTTCAAAGTTGAAGCCTCAATGGAAA-A-T
* * *
10098792 ACTTTATTTTCTCAAAGTT-AAGGCCTCAGTGGAGGAAT
1 -TTTTATTTT-TCAAAGTTGAA-GCCTCAATGGA-AAAT
* * * *
10098830 ACTTTATTTTTCAAAGTT-ACAACCTCGATGGAAGAGT
1 -TTTTATTTTTCAAAGTTGA-AGCCTCAATGGAA-AAT
*
10098867 ATTTTATTTTTTCAGAGTTGAAGCCT
1 -TTTTA-TTTTTCAAAGTTGAAGCCT
10098893 TCGGTGGATA
Statistics
Matches: 257, Mismatches: 44, Indels: 49
0.73 0.13 0.14
Matches are distributed among these distances:
34 2 0.01
35 4 0.02
36 1 0.00
37 111 0.43
38 125 0.49
39 10 0.04
40 3 0.01
41 1 0.00
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.40
Consensus pattern (35 bp):
TTTTATTTTTCAAAGTTGAAGCCTCAATGGAAAAT
Done.