Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 72 of 187
Found at i:21098421 original size:123 final size:123
Alignment explanation
Indices: 21098166--21098436 Score: 323
Period size: 123 Copynumber: 2.2 Consensus size: 123
21098156 TTATCCCATA
* * * **
21098166 AATTGCACATATGTGCCCCTGTTTGTACTTCGGTACCCTTGAATTGCACATACGTGCCCTTGTTT
1 AATTGCACATATGTGCCCCTGATTATACTTCGGTACCCTTGAATTGCACATACGTGCCCCTAATT
* * *
21098231 GTACGTTGGTACCCCTAAATTGCACATACGTGCCCCTGATTATACTTCAGTACCCCTG
66 GTACATTGGTACCCCTAAATTCCACATACGTGCCCCTGATTATACTTCACTACCCCTG
* * *
21098289 ACGTT-CACATATGTTCCCCTGATTATACTTCGGTA-CCTCTGCATTGCACATACGTGCCCCTAA
1 A-ATTGCACATATGTGCCCCTGATTATACTTCGGTACCCT-TGAATTGCACATACGTGCCCCTAA
* * * * *
21098352 TTGTA-ATTCGGTACCCCTAAATTCCATATACGTGCCCTTGTTTGTACTTCACTACTCCTG
64 TTGTACATT-GGTACCCCTAAATTCCACATACGTGCCCCTGATTATACTTCACTACCCCTG
** *
21098412 AATTGCACATGCGTGACCCTGATTA
1 AATTGCACATATGTGCCCCTGATTA
21098437 CACTCTGGTA
Statistics
Matches: 123, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
122 7 0.06
123 114 0.93
124 2 0.02
ACGTcount: A:0.21, C:0.29, G:0.16, T:0.34
Consensus pattern (123 bp):
AATTGCACATATGTGCCCCTGATTATACTTCGGTACCCTTGAATTGCACATACGTGCCCCTAATT
GTACATTGGTACCCCTAAATTCCACATACGTGCCCCTGATTATACTTCACTACCCCTG
Found at i:21099441 original size:21 final size:21
Alignment explanation
Indices: 21099394--21099435 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
21099384 GCAATTTTGT
*
21099394 AATTAAAGTGAAATTAAAACA
1 AATTAAACTGAAATTAAAACA
21099415 AATTAAACTGAAATTAAAACA
1 AATTAAACTGAAATTAAAACA
21099436 CTTTAATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.62, C:0.07, G:0.07, T:0.24
Consensus pattern (21 bp):
AATTAAACTGAAATTAAAACA
Found at i:21100391 original size:21 final size:21
Alignment explanation
Indices: 21100365--21100451 Score: 84
Period size: 21 Copynumber: 4.1 Consensus size: 21
21100355 GATTTGGGTG
* *
21100365 GTTCAGCTCTTACGAGCTTTT
1 GTTCAGCTCTCACGAGCTTCT
21100386 GTTCAGCTCTCACGAGCTTCT
1 GTTCAGCTCTCACGAGCTTCT
* * * *
21100407 GTTCGGCTATCATGAGCTTTT
1 GTTCAGCTCTCACGAGCTTCT
* * * *
21100428 ATTTAGCTCTTATGAGCTTCT
1 GTTCAGCTCTCACGAGCTTCT
21100449 GTT
1 GTT
21100452 GACGTGTTCT
Statistics
Matches: 53, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 53 1.00
ACGTcount: A:0.15, C:0.23, G:0.20, T:0.43
Consensus pattern (21 bp):
GTTCAGCTCTCACGAGCTTCT
Found at i:21120004 original size:19 final size:17
Alignment explanation
Indices: 21119972--21120007 Score: 54
Period size: 19 Copynumber: 2.0 Consensus size: 17
21119962 TATATTGCGA
21119972 TAAAAAATAAAATAAAT
1 TAAAAAATAAAATAAAT
21119989 TAAAGAAATAAAAATAAAT
1 TAAA-AAAT-AAAATAAAT
21120008 AAATAAGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 4 0.24
19 9 0.53
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (17 bp):
TAAAAAATAAAATAAAT
Found at i:21120007 original size:23 final size:24
Alignment explanation
Indices: 21119974--21120025 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 24
21119964 TATTGCGATA
*
21119974 AAAAATAAAATAAATTAA-AGAAAT
1 AAAAATAAAATAAA-TAAGAAAAAT
21119998 AAAAAT-AAATAAATAAGAAAAAT
1 AAAAATAAAATAAATAAGAAAAAT
21120021 AAAAA
1 AAAAA
21120026 AATGATTGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 3 0.12
23 17 0.65
24 6 0.23
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.17
Consensus pattern (24 bp):
AAAAATAAAATAAATAAGAAAAAT
Found at i:21120010 original size:18 final size:17
Alignment explanation
Indices: 21119971--21120027 Score: 64
Period size: 17 Copynumber: 3.4 Consensus size: 17
21119961 CTATATTGCG
21119971 ATAAAAAAT-AAAATAA
1 ATAAAAAATAAAAATAA
21119987 ATTAAAGAAATAAAAATAA
1 A-TAAA-AAATAAAAATAA
* *
21120006 ATAAATAAGAAAAATAA
1 ATAAAAAATAAAAATAA
21120023 A-AAAA
1 ATAAAA
21120028 TGATTGAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
16 4 0.11
17 15 0.43
18 8 0.23
19 8 0.23
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.18
Consensus pattern (17 bp):
ATAAAAAATAAAAATAA
Found at i:21120540 original size:22 final size:20
Alignment explanation
Indices: 21120515--21120563 Score: 53
Period size: 22 Copynumber: 2.4 Consensus size: 20
21120505 ATAGAGTAGT
* *
21120515 AAATATCTTGATTGGAATAAA
1 AAATATATTGATTGCAA-AAA
*
21120536 GAAATAAATTGATTGCAAAAA
1 -AAATATATTGATTGCAAAAA
21120557 AAATATA
1 AAATATA
21120564 AACTGGATGC
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 6 0.26
21 3 0.13
22 14 0.61
ACGTcount: A:0.55, C:0.04, G:0.12, T:0.29
Consensus pattern (20 bp):
AAATATATTGATTGCAAAAA
Found at i:21120564 original size:22 final size:22
Alignment explanation
Indices: 21120522--21120565 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
21120512 AGTAAATATC
* *
21120522 TTGATTGGAATAAAGAAATAAA
1 TTGATTGCAATAAAAAAATAAA
21120544 TTGATTGCAA-AAAAAATATAAA
1 TTGATTGCAATAAAAAA-ATAAA
21120566 CTGGATGCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.57, C:0.02, G:0.14, T:0.27
Consensus pattern (22 bp):
TTGATTGCAATAAAAAAATAAA
Found at i:21122947 original size:16 final size:17
Alignment explanation
Indices: 21122916--21122953 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
21122906 GGTAATTGAA
*
21122916 TAAATTCAATTAAAACC
1 TAAATTCAAATAAAACC
21122933 TAAATT-AAATAAAACC
1 TAAATTCAAATAAAACC
*
21122949 AAAAT
1 TAAAT
21122954 GGCTTCATCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.61, C:0.13, G:0.00, T:0.26
Consensus pattern (17 bp):
TAAATTCAAATAAAACC
Found at i:21133770 original size:18 final size:19
Alignment explanation
Indices: 21133747--21133786 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
21133737 TGGTAGGCCG
*
21133747 TGTGATCGA-ACATGGGCA
1 TGTGATCGACACACGGGCA
21133765 TGTGATCGACACACGGGCA
1 TGTGATCGACACACGGGCA
21133784 TGT
1 TGT
21133787 AAACGCGTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.25, C:0.20, G:0.33, T:0.23
Consensus pattern (19 bp):
TGTGATCGACACACGGGCA
Found at i:21137453 original size:36 final size:36
Alignment explanation
Indices: 21137404--21137474 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
21137394 TTTGTATTTA
*
21137404 TTTTGAAGGTGGATTAAACGACGAGATCAAGCTATG
1 TTTTGAAGATGGATTAAACGACGAGATCAAGCTATG
* *
21137440 TTTTGAAGATGGATTAAATGATGAGATCAAGCTAT
1 TTTTGAAGATGGATTAAACGACGAGATCAAGCTAT
21137475 TGGTTGGTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.35, C:0.08, G:0.25, T:0.31
Consensus pattern (36 bp):
TTTTGAAGATGGATTAAACGACGAGATCAAGCTATG
Found at i:21148518 original size:19 final size:19
Alignment explanation
Indices: 21148491--21148527 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
21148481 CCATTTTCAT
*
21148491 TTAACTAAAAAATGAAAAA
1 TTAAATAAAAAATGAAAAA
*
21148510 TTAAATAAAAAATTAAAA
1 TTAAATAAAAAATGAAAA
21148528 TGATTTTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.24
Consensus pattern (19 bp):
TTAAATAAAAAATGAAAAA
Found at i:21149630 original size:4 final size:4
Alignment explanation
Indices: 21149621--21149678 Score: 116
Period size: 4 Copynumber: 14.5 Consensus size: 4
21149611 CATCGTCAAC
21149621 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
21149669 TATG TATG TA
1 TATG TATG TA
21149679 CCCTTTGGCT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 54 1.00
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:21152483 original size:18 final size:19
Alignment explanation
Indices: 21152456--21152492 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
21152446 AGCTAGCTAG
*
21152456 GCTTTTGCTTTTG-TTTTC
1 GCTTTCGCTTTTGCTTTTC
21152474 GCTTTCGCTTTTGCTTTTC
1 GCTTTCGCTTTTGCTTTTC
21152493 CAAGGTCTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.00, C:0.22, G:0.16, T:0.62
Consensus pattern (19 bp):
GCTTTCGCTTTTGCTTTTC
Found at i:21161719 original size:4 final size:4
Alignment explanation
Indices: 21161710--21161734 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
21161700 AACTTGAGCT
21161710 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
21161735 GTACAAGCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:21174298 original size:19 final size:16
Alignment explanation
Indices: 21174253--21174286 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
21174243 ACATACCCCT
21174253 GAAGATGGTTGTAGAG
1 GAAGATGGTTGTAGAG
21174269 GAAGATGGTTGTAGAG
1 GAAGATGGTTGTAGAG
21174285 GA
1 GA
21174287 GCATATTGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.44, T:0.24
Consensus pattern (16 bp):
GAAGATGGTTGTAGAG
Found at i:21176720 original size:6 final size:6
Alignment explanation
Indices: 21176696--21176736 Score: 55
Period size: 6 Copynumber: 6.7 Consensus size: 6
21176686 GCAGATGTAT
* *
21176696 CATTTC TCATTTT CATTTC CATTTC CGTTTC CATTTC CATT
1 CATTTC -CATTTC CATTTC CATTTC CATTTC CATTTC CATT
21176737 ATGAGAAACC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
6 25 0.83
7 5 0.17
ACGTcount: A:0.15, C:0.29, G:0.02, T:0.54
Consensus pattern (6 bp):
CATTTC
Found at i:21179236 original size:45 final size:45
Alignment explanation
Indices: 21179172--21179265 Score: 161
Period size: 45 Copynumber: 2.1 Consensus size: 45
21179162 AACAGATACT
* *
21179172 CGGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTC
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
*
21179217 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTT
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
21179262 CGGT
1 CGGT
21179266 TCACATAGTA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
Found at i:21182208 original size:42 final size:42
Alignment explanation
Indices: 21182128--21182209 Score: 96
Period size: 42 Copynumber: 2.0 Consensus size: 42
21182118 CATTTTCTCT
* **
21182128 ATGCCATAGTTCAACTATGGTCTTACACATATTTACATATTG
1 ATGCCATAGTCCAACTATGGTCTTACACATATGCACATATTG
*
21182170 ATGCCATAG-CCAAGCTATGGTTTTACACA-ATAGCACATAT
1 ATGCCATAGTCCAA-CTATGGTCTTACACATAT-GCACATAT
21182210 CACACCGATG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
41 5 0.15
42 29 0.85
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (42 bp):
ATGCCATAGTCCAACTATGGTCTTACACATATGCACATATTG
Found at i:21186840 original size:31 final size:30
Alignment explanation
Indices: 21186805--21186864 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
21186795 GGAGGTGGGA
*
21186805 TGGGAAGAGAATAAAAGTTTTAGGGGAAAAG
1 TGGG-AGAGAATAAAAATTTTAGGGGAAAAG
* * *
21186836 TGGGAGGGAGTAAAAATTTTTGGGGAAAA
1 TGGGAGAGAATAAAAATTTTAGGGGAAAA
21186865 TGAAAGGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.42, C:0.00, G:0.37, T:0.22
Consensus pattern (30 bp):
TGGGAGAGAATAAAAATTTTAGGGGAAAAG
Found at i:21187160 original size:9 final size:9
Alignment explanation
Indices: 21187143--21187173 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
21187133 TCGAGTTGAT
21187143 TCGAATAAC
1 TCGAATAAC
*
21187152 TCGATTAAC
1 TCGAATAAC
21187161 TCGAATAAC
1 TCGAATAAC
21187170 TCGA
1 TCGA
21187174 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:21187919 original size:5 final size:5
Alignment explanation
Indices: 21187902--21187932 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
21187892 CATTTCCTTC
21187902 TGATA TG-TA TGATA TGATA TGATA TGATA TG
1 TGATA TGATA TGATA TGATA TGATA TGATA TG
21187933 TGGTAATGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.16
5 21 0.84
ACGTcount: A:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (5 bp):
TGATA
Found at i:21198085 original size:7 final size:7
Alignment explanation
Indices: 21198073--21198114 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
21198063 TAGATACGAT
21198073 ATTTTTA
1 ATTTTTA
21198080 ATTTTTA
1 ATTTTTA
21198087 ATTATTTA
1 ATT-TTTA
*
21198095 ATTATTA
1 ATTTTTA
*
21198102 TTTTTTA
1 ATTTTTA
21198109 ATTTTT
1 ATTTTT
21198115 TAGGTTGTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
7 23 0.77
8 7 0.23
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
ATTTTTA
Found at i:21199576 original size:16 final size:16
Alignment explanation
Indices: 21199555--21199586 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
21199545 GTAAACTTAA
21199555 GTTAACTCTCTACACT
1 GTTAACTCTCTACACT
21199571 GTTAACTCTCTACACT
1 GTTAACTCTCTACACT
21199587 AATAGGGCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.31, G:0.06, T:0.38
Consensus pattern (16 bp):
GTTAACTCTCTACACT
Found at i:21205300 original size:19 final size:20
Alignment explanation
Indices: 21205258--21205306 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
21205248 TCATGCTTTC
*
21205258 TATTCACAATTTCATATTCA
1 TATTCACAATTTCAAATTCA
*
21205278 -ATTCACATTTTCAAATT-A
1 TATTCACAATTTCAAATTCA
21205296 TATTCCACAAT
1 TATT-CACAAT
21205307 CACGTTTCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 1 0.04
19 18 0.75
20 5 0.21
ACGTcount: A:0.37, C:0.20, G:0.00, T:0.43
Consensus pattern (20 bp):
TATTCACAATTTCAAATTCA
Found at i:21208262 original size:25 final size:25
Alignment explanation
Indices: 21208231--21208295 Score: 94
Period size: 25 Copynumber: 2.6 Consensus size: 25
21208221 ATAAATGTTT
*
21208231 TAATAATCAGATAGCACTAGCGTGC
1 TAATAATCAGATAGCACTAACGTGC
* * *
21208256 TATTAATTAGAGAGCACTAACGTGC
1 TAATAATCAGATAGCACTAACGTGC
21208281 TAATAATCAGATAGC
1 TAATAATCAGATAGC
21208296 GCGCTTAGGT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.26
Consensus pattern (25 bp):
TAATAATCAGATAGCACTAACGTGC
Found at i:21210444 original size:18 final size:19
Alignment explanation
Indices: 21210404--21210445 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
21210394 AGTACTTGAT
* * *
21210404 CAGTAATCAGTATCGGTAG
1 CAGTAATCAGTAACAGTAA
21210423 CAGTAA-CAGTAACAGTAA
1 CAGTAATCAGTAACAGTAA
21210441 CAGTA
1 CAGTA
21210446 TTCAACACAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.21
Consensus pattern (19 bp):
CAGTAATCAGTAACAGTAA
Found at i:21210476 original size:45 final size:45
Alignment explanation
Indices: 21210425--21210525 Score: 143
Period size: 45 Copynumber: 2.3 Consensus size: 45
21210415 ATCGGTAGCA
*
21210425 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGTT-GAATCT
1 GTAACAGTAACAGTAACAGTATTCAACACACAAAGT-TTCGAATCG
* * *
21210470 GTAACAGTAACGGTAATAGTATTCGACACACAAAGTTTCGAATCG
1 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTTTCGAATCG
21210515 GT-ACAGTAACA
1 GTAACAGTAACA
21210526 TTACTCGACA
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
44 10 0.20
45 40 0.80
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.24
Consensus pattern (45 bp):
GTAACAGTAACAGTAACAGTATTCAACACACAAAGTTTCGAATCG
Found at i:21213316 original size:855 final size:855
Alignment explanation
Indices: 21211666--21213376 Score: 3413
Period size: 855 Copynumber: 2.0 Consensus size: 855
21211656 TTCATTACTT
21211666 ACACCGTTTCTTTTATAAGAAACTAGACTCAATAAATTTTAATTTAATATTTTTTCATCCTATAA
1 ACACCGTTTCTTTTATAAGAAACTAGACTCAATAAATTTTAATTTAATATTTTTTCATCCTATAA
21211731 TTTGATTTCCGCGATTTATGGTGATTTTTCAAATTTAATCTACTGCTGCTGTCCAAAACTGTTTT
66 TTTGATTTCCGCGATTTATGGTGATTTTTCAAATTTAATCTACTGCTGCTGTCCAAAACTGTTTT
21211796 AGTACAAGATGTTGATTACTAAGTTTATAACTCCCTTATTCCCTTCCTCTATAATATTTCCCATC
131 AGTACAAGATGTTGATTACTAAGTTTATAACTCCCTTATTCCCTTCCTCTATAATATTTCCCATC
21211861 ACTTTCACTTATTTCCCTTTACTTACATAACAAGAATATATAACCTTATAGAATGGAACTCTACA
196 ACTTTCACTTATTTCCCTTTACTTACATAACAAGAATATATAACCTTATAGAATGGAACTCTACA
21211926 TTAACATTAATTTCCTACTTTGCCAATAATATAACACTGAAAAAGATATTGAAATCTTGATGTTC
261 TTAACATTAATTTCCTACTTTGCCAATAATATAACACTGAAAAAGATATTGAAATCTTGATGTTC
*
21211991 TTACCTTGTGCTATTGATTTCAATCTTTAACTTGATTTTCTCTCTTCTCCAGCTTCTATTTCTTG
326 TTACCTTGTACTATTGATTTCAATCTTTAACTTGATTTTCTCTCTTCTCCAGCTTCTATTTCTTG
21212056 AATCTAACTTGATATTCTAGCTCCCCATAGTCTCCATGTTGTCTTTCTCTCTTGATGGCTATGGA
391 AATCTAACTTGATATTCTAGCTCCCCATAGTCTCCATGTTGTCTTTCTCTCTTGATGGCTATGGA
21212121 AATTCTTTTGATTTCTAGGTGAAAATGGTAAATTTTTTGTGGAAAGACCAAATTGTAAAGAAAGC
456 AATTCTTTTGATTTCTAGGTGAAAATGGTAAATTTTTTGTGGAAAGACCAAATTGTAAAGAAAGC
21212186 AAAACATTCTTTCTTTCTCTCTTCTTCTCATGTTGGATGCATGGGAAGATGATGATTTCGTTTCA
521 AAAACATTCTTTCTTTCTCTCTTCTTCTCATGTTGGATGCATGGGAAGATGATGATTTCGTTTCA
21212251 TCTTTCCTCATTTTTATATTAATCATTTAATAATAAAATAATACTAAAAATCTTAATAAAATATT
586 TCTTTCCTCATTTTTATATTAATCATTTAATAATAAAATAATACTAAAAATCTTAATAAAATATT
21212316 AATTAAATAACATTTAATTAATTAATTAATTAATTAAAAATATCACCAACATCATCATTACCTTC
651 AATTAAATAACATTTAATTAATTAATTAATTAATTAAAAATATCACCAACATCATCATTACCTTC
21212381 TAGAGTTCTCTCTCTCTAATTGACTATTTTTCCCTTCATAATCTTTTAAAATTCTATCATTGAGC
716 TAGAGTTCTCTCTCTCTAATTGACTATTTTTCCCTTCATAATCTTTTAAAATTCTATCATTGAGC
21212446 CATCACTTAATTTGGTAAAATTTTAATTTAGCCCCTCAAAATTCTTCACCTTTTCAATTTGGTCC
781 CATCACTTAATTTGGTAAAATTTTAATTTAGCCCCTCAAAATTCTTCACCTTTTCAATTTGGTCC
21212511 TAACTCGTCC
846 TAACTCGTCC
21212521 ACACCGTTTCTTTTATAAGAAACTAGACTCAATAAATTTTAATTTAATATTTTTTCATCCTATAA
1 ACACCGTTTCTTTTATAAGAAACTAGACTCAATAAATTTTAATTTAATATTTTTTCATCCTATAA
21212586 TTTGATTTCCGCGATTTATGGTGATTTTTCAAATTTAATCTACTGCTGCTGTCCAAAACTGTTTT
66 TTTGATTTCCGCGATTTATGGTGATTTTTCAAATTTAATCTACTGCTGCTGTCCAAAACTGTTTT
21212651 AGTACAAGATGTTGATTACTAAGTTTATAACTCCCTTATTCCCTTCCTCTATAATATTTCCCATC
131 AGTACAAGATGTTGATTACTAAGTTTATAACTCCCTTATTCCCTTCCTCTATAATATTTCCCATC
21212716 ACTTTCACTTATTTCCCTTTACTTACATAACAAGAATATATAACCTTATAGAATGGAACTCTACA
196 ACTTTCACTTATTTCCCTTTACTTACATAACAAGAATATATAACCTTATAGAATGGAACTCTACA
21212781 TTAACATTAATTTCCTACTTTGCCAATAATATAACACTGAAAAAGATATTGAAATCTTGATGTTC
261 TTAACATTAATTTCCTACTTTGCCAATAATATAACACTGAAAAAGATATTGAAATCTTGATGTTC
21212846 TTACCTTGTACTATTGATTTCAATCTTTAACTTGATTTTCTCTCTTCTCCAGCTTCTATTTCTTG
326 TTACCTTGTACTATTGATTTCAATCTTTAACTTGATTTTCTCTCTTCTCCAGCTTCTATTTCTTG
21212911 AATCTAACTTGATATTCTAGCTCCCCATAGTCTCCATGTTGTCTTTCTCTCTTGATGGCTATGGA
391 AATCTAACTTGATATTCTAGCTCCCCATAGTCTCCATGTTGTCTTTCTCTCTTGATGGCTATGGA
21212976 AATTCTTTTGATTTCTAGGTGAAAATGGTAAATTTTTTGTGGAAAGACCAAATTGTAAAGAAAGC
456 AATTCTTTTGATTTCTAGGTGAAAATGGTAAATTTTTTGTGGAAAGACCAAATTGTAAAGAAAGC
21213041 AAAACATTCTTTCTTTCTCTCTTCTTCTCATGTTGGATGCATGGGAAGATGATGATTTCGTTTCA
521 AAAACATTCTTTCTTTCTCTCTTCTTCTCATGTTGGATGCATGGGAAGATGATGATTTCGTTTCA
21213106 TCTTTCCTCATTTTTATATTAATCATTTAATAATAAAATAATACTAAAAATCTTAATAAAATATT
586 TCTTTCCTCATTTTTATATTAATCATTTAATAATAAAATAATACTAAAAATCTTAATAAAATATT
21213171 AATTAAATAACATTTAATTAATTAATTAATTAATTAAAAATATCACCAACATCATCATTACCTTC
651 AATTAAATAACATTTAATTAATTAATTAATTAATTAAAAATATCACCAACATCATCATTACCTTC
21213236 TAGAGTTCTCTCTCTCTAATTGACTATTTTTCCCTTCATAATCTTTTAAAATTCTATCATTGAGC
716 TAGAGTTCTCTCTCTCTAATTGACTATTTTTCCCTTCATAATCTTTTAAAATTCTATCATTGAGC
21213301 CATCACTTAATTTGGTAAAATTTTAATTTAGCCCCTCAAAATTCTTCACCTTTTCAATTTGGTCC
781 CATCACTTAATTTGGTAAAATTTTAATTTAGCCCCTCAAAATTCTTCACCTTTTCAATTTGGTCC
21213366 TAACTCGTCC
846 TAACTCGTCC
21213376 A
1 A
21213377 TTTTCCTTAA
Statistics
Matches: 855, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
855 855 1.00
ACGTcount: A:0.31, C:0.19, G:0.09, T:0.41
Consensus pattern (855 bp):
ACACCGTTTCTTTTATAAGAAACTAGACTCAATAAATTTTAATTTAATATTTTTTCATCCTATAA
TTTGATTTCCGCGATTTATGGTGATTTTTCAAATTTAATCTACTGCTGCTGTCCAAAACTGTTTT
AGTACAAGATGTTGATTACTAAGTTTATAACTCCCTTATTCCCTTCCTCTATAATATTTCCCATC
ACTTTCACTTATTTCCCTTTACTTACATAACAAGAATATATAACCTTATAGAATGGAACTCTACA
TTAACATTAATTTCCTACTTTGCCAATAATATAACACTGAAAAAGATATTGAAATCTTGATGTTC
TTACCTTGTACTATTGATTTCAATCTTTAACTTGATTTTCTCTCTTCTCCAGCTTCTATTTCTTG
AATCTAACTTGATATTCTAGCTCCCCATAGTCTCCATGTTGTCTTTCTCTCTTGATGGCTATGGA
AATTCTTTTGATTTCTAGGTGAAAATGGTAAATTTTTTGTGGAAAGACCAAATTGTAAAGAAAGC
AAAACATTCTTTCTTTCTCTCTTCTTCTCATGTTGGATGCATGGGAAGATGATGATTTCGTTTCA
TCTTTCCTCATTTTTATATTAATCATTTAATAATAAAATAATACTAAAAATCTTAATAAAATATT
AATTAAATAACATTTAATTAATTAATTAATTAATTAAAAATATCACCAACATCATCATTACCTTC
TAGAGTTCTCTCTCTCTAATTGACTATTTTTCCCTTCATAATCTTTTAAAATTCTATCATTGAGC
CATCACTTAATTTGGTAAAATTTTAATTTAGCCCCTCAAAATTCTTCACCTTTTCAATTTGGTCC
TAACTCGTCC
Found at i:21228689 original size:116 final size:116
Alignment explanation
Indices: 21228513--21228753 Score: 383
Period size: 116 Copynumber: 2.1 Consensus size: 116
21228503 CCAGAGTGCC
* * *
21228513 AGGCCGTGTGCTAGGCCGTGTAACTTTCGAATTGCAACCCCAAAAACCTACAGGGGACACACAAC
1 AGGCCGTGTCCTAGGCCATGTAACTTTCAAATTGCAACCCCAAAAACCTACAGGGGACACACAAC
* *
21228578 CATGTCGCATGGCCATGTGTCACACACAGCTGAGACACACGCTCATTTCTT
66 CATGTCGCATGGCCATGTGTCACACACAGCTGAGACACACGCCCATGTCTT
**
21228629 AGGCCGTGTCCTAGGCCATGTAACTTTCAAATTGCAACCCCAAAAACCTACAGGGGACACACAGT
1 AGGCCGTGTCCTAGGCCATGTAACTTTCAAATTGCAACCCCAAAAACCTACAGGGGACACACAAC
* * * *
21228694 CATGTCGCATGGCCATGTGTCACTCACGGCTGAGACACATGCCCGTGTCTT
66 CATGTCGCATGGCCATGTGTCACACACAGCTGAGACACACGCCCATGTCTT
21228745 AGGCCGTGT
1 AGGCCGTGT
21228754 GGACAAGAAA
Statistics
Matches: 114, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
116 114 1.00
ACGTcount: A:0.26, C:0.30, G:0.23, T:0.21
Consensus pattern (116 bp):
AGGCCGTGTCCTAGGCCATGTAACTTTCAAATTGCAACCCCAAAAACCTACAGGGGACACACAAC
CATGTCGCATGGCCATGTGTCACACACAGCTGAGACACACGCCCATGTCTT
Found at i:21232630 original size:147 final size:148
Alignment explanation
Indices: 21232381--21232651 Score: 375
Period size: 147 Copynumber: 1.8 Consensus size: 148
21232371 ATTTCGCCTC
* * *
21232381 CTTTAACCACCGACAATTCATTTCACAAATCATAACAATTAATTATTTGTAGAACCATATAACCA
1 CTTTAACCACCGACAATTCATTTCACAAACCATAACAATTAATTATTTGTAGAACCACAAAACCA
***
21232446 TGCAACCACTTTAGTTTGTGCTTAGCGTTCTCACTTTGTAGTGAGGTTGAGAGTGGTGGATCAGA
66 TGCAACCACTTTAGTTTGTGCTTAGCGTTCTCACTTTGTAACAAGGTTGAGAGTGGTGGATCAGA
21232511 ACTTGCTTTTTCAATCTG
131 ACTTGCTTTTTCAATCTG
* * ** * * *
21232529 CTTTAACCACCGATAATT-TTTTCGTAAACCATAACTATTAATTGTTTGTAGGACCACAAAACCA
1 CTTTAACCACCGACAATTCATTTCACAAACCATAACAATTAATTATTTGTAGAACCACAAAACCA
* **
21232593 TGCAACCACTTTAGTTTGT-CATTAGTGTTCTTGCTTTGTAACAAGGTTGAGAGTGGTGG
66 TGCAACCACTTTAGTTTGTGC-TTAGCGTTCTCACTTTGTAACAAGGTTGAGAGTGGTGG
21232652 TTCATACTTA
Statistics
Matches: 106, Mismatches: 16, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
146 1 0.01
147 88 0.83
148 17 0.16
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (148 bp):
CTTTAACCACCGACAATTCATTTCACAAACCATAACAATTAATTATTTGTAGAACCACAAAACCA
TGCAACCACTTTAGTTTGTGCTTAGCGTTCTCACTTTGTAACAAGGTTGAGAGTGGTGGATCAGA
ACTTGCTTTTTCAATCTG
Found at i:21235884 original size:45 final size:45
Alignment explanation
Indices: 21235678--21235900 Score: 230
Period size: 45 Copynumber: 5.0 Consensus size: 45
21235668 ACTATGCGCC
* * * * ** *
21235678 AAAAATGAGTAAGACCATAACTAAAAGATGCTATGGCATTGTCAT
1 AAAAGTGAGTAAGACCATAGCTGAAAGATGCTATGACATCATGAT
* * * * * **
21235723 AAGAGTGTGTAAGACCAAAGTTGAAAAATGCTATGGGATCATGAT
1 AAAAGTGAGTAAGACCATAGCTGAAAGATGCTATGACATCATGAT
* * * *
21235768 AAAAGTGAGTAAGAACATAGTTGAAAGATGTTATGGCATCATGAT
1 AAAAGTGAGTAAGACCATAGCTGAAAGATGCTATGACATCATGAT
* *
21235813 AAAAGTGAGTAAAACCATAGCTGAAAGATGCTATGACATCATGAC
1 AAAAGTGAGTAAGACCATAGCTGAAAGATGCTATGACATCATGAT
* * * *
21235858 AAAACTAAGTAAGACCATAGCTGAAAGACGCTATCACATCATG
1 AAAAGTGAGTAAGACCATAGCTGAAAGATGCTATGACATCATG
21235901 TGAAAGCACG
Statistics
Matches: 148, Mismatches: 30, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 148 1.00
ACGTcount: A:0.43, C:0.13, G:0.21, T:0.23
Consensus pattern (45 bp):
AAAAGTGAGTAAGACCATAGCTGAAAGATGCTATGACATCATGAT
Found at i:21239412 original size:20 final size:21
Alignment explanation
Indices: 21239387--21239428 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
21239377 AATCAAATTT
* *
21239387 TTTTCAA-TATTTTTTATAAA
1 TTTTCAATTAATTTTTAAAAA
21239407 TTTTCAATTAATTTTTAAAAA
1 TTTTCAATTAATTTTTAAAAA
21239428 T
1 T
21239429 AATGAAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (21 bp):
TTTTCAATTAATTTTTAAAAA
Found at i:21247374 original size:42 final size:42
Alignment explanation
Indices: 21247299--21247510 Score: 178
Period size: 42 Copynumber: 4.9 Consensus size: 42
21247289 GCTCTTTGTT
* * * **
21247299 GTGTAGGTTAACTCGAACGAGTAACTAGACACTATATTTCTC
1 GTGTAGGTTAACCCGAAAGGGTAAAAAGACACTATATTTCTC
* *
21247341 ATGTAGGTTAACCCGAAAGGGTAAAAACG-CACTATATTTCTT
1 GTGTAGGTTAACCCGAAAGGGTAAAAA-GACACTATATTTCTC
** * *
21247383 GTGTAGGTTAACCTAAAAGGGTAATAAGACACTAAATTTCTC
1 GTGTAGGTTAACCCGAAAGGGTAAAAAGACACTATATTTCTC
* * * *
21247425 GTGTAGGTTAACTCGAAAGGGTAACCATGCACTATTGATATTTCTC
1 GTGTAGGTTAACCCGAAAGGGTAA-AAAG-AC-ACT-ATATTTCTC
* *
21247471 GTGTAGGTTTAACCC-AAATGAGTAACCAAG-CACTATATTT
1 GTGTAGG-TTAACCCGAAA-GGGTAA-AAAGACACTATATTT
21247511 TCACCGTGTA
Statistics
Matches: 138, Mismatches: 24, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
41 1 0.01
42 88 0.64
43 9 0.07
44 4 0.03
45 3 0.02
46 18 0.13
47 15 0.11
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.30
Consensus pattern (42 bp):
GTGTAGGTTAACCCGAAAGGGTAAAAAGACACTATATTTCTC
Found at i:21247504 original size:47 final size:46
Alignment explanation
Indices: 21247418--21247506 Score: 126
Period size: 47 Copynumber: 1.9 Consensus size: 46
21247408 AAGACACTAA
* * *
21247418 ATTTCTCGTGTAGGTTAACTCGAAAGGGTAACCATGCACTATTGAT
1 ATTTCTCGTGTAGGTTAACTCCAAAGAGTAACCAAGCACTATTGAT
21247464 ATTTCTCGTGTAGGTTTAAC-CCAAATGAGTAACCAAGCACTAT
1 ATTTCTCGTGTAGG-TTAACTCCAAA-GAGTAACCAAGCACTAT
21247507 ATTTTCACCG
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
46 18 0.47
47 20 0.53
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.31
Consensus pattern (46 bp):
ATTTCTCGTGTAGGTTAACTCCAAAGAGTAACCAAGCACTATTGAT
Found at i:21248404 original size:30 final size:29
Alignment explanation
Indices: 21248354--21248423 Score: 115
Period size: 30 Copynumber: 2.4 Consensus size: 29
21248344 TGGATACATG
*
21248354 GTAAATGGCAC-AGCTGTGTCACACACTA
1 GTAAATGGCACAACCTGTGTCACACACTA
21248382 GTAAATGGCACAACCGTGTGTCACACACTA
1 GTAAATGGCACAACC-TGTGTCACACACTA
21248412 GTAAATGGCACA
1 GTAAATGGCACA
21248424 GTTGTGTGCT
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
28 11 0.28
29 2 0.05
30 26 0.67
ACGTcount: A:0.34, C:0.24, G:0.21, T:0.20
Consensus pattern (29 bp):
GTAAATGGCACAACCTGTGTCACACACTA
Found at i:21248476 original size:72 final size:72
Alignment explanation
Indices: 21248390--21248525 Score: 263
Period size: 72 Copynumber: 1.9 Consensus size: 72
21248380 TAGTAAATGG
*
21248390 CACAACCGTGTGTCACACACTAGTAAATGGCACAGTTGTGTGCTTTGTTTGTTTAGGTTGGTGTT
1 CACAACCGTGTGTCACACACTAGTAAATGGCACAGCTGTGTGCTTTGTTTGTTTAGGTTGGTGTT
21248455 AAATCCA
66 AAATCCA
21248462 CACAACCGTGTGTCACACACTAGTAAATGGCACAGCTGTGTGCTTTGTTTGTTTAGGTTGGTGT
1 CACAACCGTGTGTCACACACTAGTAAATGGCACAGCTGTGTGCTTTGTTTGTTTAGGTTGGTGT
21248526 GATCTATCAT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
72 63 1.00
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.35
Consensus pattern (72 bp):
CACAACCGTGTGTCACACACTAGTAAATGGCACAGCTGTGTGCTTTGTTTGTTTAGGTTGGTGTT
AAATCCA
Found at i:21253417 original size:56 final size:58
Alignment explanation
Indices: 21253317--21253444 Score: 136
Period size: 57 Copynumber: 2.2 Consensus size: 58
21253307 TTTCCTTTTT
* ** *
21253317 CATTTTTCATTTTCATTTTGGAGAAAACCACATTCATTTTCAAATAATTTC-ATTTCTC
1 CATTTCTCATTTTCATTTTGGAGAAAACCACAACCATTTCCAAAT-ATTTCAATTTCTC
* ** *
21253375 CA-TTCTCATTTTCATTTT-GAGAAAATCTTAACCATTTCCAAATGTTTCATATTTCTC
1 CATTTCTCATTTTCATTTTGGAGAAAACCACAACCATTTCCAAATATTTCA-ATTTCTC
21253432 CATTTCTCCATTT
1 CATTTCT-CATTT
21253445 CACCATTTCT
Statistics
Matches: 58, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
55 4 0.07
56 19 0.33
57 24 0.41
58 6 0.10
59 5 0.09
ACGTcount: A:0.27, C:0.21, G:0.05, T:0.47
Consensus pattern (58 bp):
CATTTCTCATTTTCATTTTGGAGAAAACCACAACCATTTCCAAATATTTCAATTTCTC
Found at i:21253438 original size:8 final size:8
Alignment explanation
Indices: 21253425--21253454 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
21253415 AATGTTTCAT
21253425 ATTTCTCC
1 ATTTCTCC
21253433 ATTTCTCC
1 ATTTCTCC
*
21253441 ATTTCACC
1 ATTTCTCC
21253449 ATTTCT
1 ATTTCT
21253455 GTTAATTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.17, C:0.33, G:0.00, T:0.50
Consensus pattern (8 bp):
ATTTCTCC
Found at i:21259814 original size:22 final size:22
Alignment explanation
Indices: 21259789--21259843 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
21259779 CTAGTTGCTA
*
21259789 TGTCACGACATAGGTCCTAGTG
1 TGTCACAACATAGGTCCTAGTG
* *
21259811 TGTCGCAACATAGGTCCTGGTG
1 TGTCACAACATAGGTCCTAGTG
*
21259833 TGTCGCAACAT
1 TGTCACAACAT
21259844 CAACTCTATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.27
Consensus pattern (22 bp):
TGTCACAACATAGGTCCTAGTG
Found at i:21274908 original size:7 final size:7
Alignment explanation
Indices: 21274892--21274938 Score: 64
Period size: 6 Copynumber: 7.0 Consensus size: 7
21274882 TACATTAACC
21274892 TTTA-TT
1 TTTATTT
21274898 TTTATTT
1 TTTATTT
21274905 TTTATTT
1 TTTATTT
21274912 TTTA-TT
1 TTTATTT
21274918 TTTA-TT
1 TTTATTT
21274924 TTTATTTT
1 TTTA-TTT
21274932 TTTATTT
1 TTTATTT
21274939 ACTTGTTTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
6 16 0.42
7 16 0.42
8 6 0.16
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTATTT
Found at i:21274910 original size:13 final size:13
Alignment explanation
Indices: 21274892--21274951 Score: 70
Period size: 13 Copynumber: 4.5 Consensus size: 13
21274882 TACATTAACC
21274892 TTTATTTTTATTT
1 TTTATTTTTATTT
21274905 TTTATTTTT-TATT
1 TTTATTTTTAT-TT
21274918 TTTATTTTTATTT
1 TTTATTTTTATTT
*
21274931 TTT-TATTTACTTGT
1 TTTATTTTTA-TT-T
21274945 TTTATTT
1 TTTATTT
21274952 ATTTCATTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
12 6 0.15
13 27 0.68
14 5 0.12
15 2 0.05
ACGTcount: A:0.15, C:0.02, G:0.02, T:0.82
Consensus pattern (13 bp):
TTTATTTTTATTT
Found at i:21274917 original size:20 final size:20
Alignment explanation
Indices: 21274892--21274951 Score: 79
Period size: 19 Copynumber: 3.0 Consensus size: 20
21274882 TACATTAACC
21274892 TTTATTTTTATTTTTTATTT
1 TTTATTTTTATTTTTTATTT
21274912 TTTATTTTTA-TTTTTATTT
1 TTTATTTTTATTTTTTATTT
*
21274931 TTT-TATTTACTTGTTTTATTT
1 TTTATTTTTA-TT-TTTTATTT
21274952 ATTTCATTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
18 5 0.14
19 12 0.33
20 11 0.31
21 8 0.22
ACGTcount: A:0.15, C:0.02, G:0.02, T:0.82
Consensus pattern (20 bp):
TTTATTTTTATTTTTTATTT
Found at i:21274952 original size:4 final size:4
Alignment explanation
Indices: 21274898--21274967 Score: 58
Period size: 4 Copynumber: 17.5 Consensus size: 4
21274888 AACCTTTATT
* *
21274898 TTTA TTT- TTTA TTT- TTTA TTT- TTATT TTTA TTTT TTTA TTTA CTTGT-
1 TTTA TTTA TTTA TTTA TTTA TTTA TT-TA TTTA TTTA TTTA TTTA -TT-TA
21274945 TTTA TTTA TTTCA TTTA TTTA TT
1 TTTA TTTA TTT-A TTTA TTTA TT
21274968 CCTTAATTTT
Statistics
Matches: 55, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
3 9 0.16
4 37 0.67
5 8 0.15
6 1 0.02
ACGTcount: A:0.17, C:0.03, G:0.01, T:0.79
Consensus pattern (4 bp):
TTTA
Found at i:21281507 original size:154 final size:154
Alignment explanation
Indices: 21281227--21281526 Score: 546
Period size: 154 Copynumber: 1.9 Consensus size: 154
21281217 TGTGGAACTC
* * * *
21281227 AGAGCTACCTCCTAAGGTTAAATTATTCTCTTGGCAGGCTTGCTATGGTATACAACCTTTCGGAT
1 AGAGCTACCTCCTAAAGTTAAATCATTCTCGTGGCAGGCTTGCTATAGTATACAACCTTTCGGAT
*
21281292 GAAAATAGCAAGGAGAATTCACGTCATTGACCTTATGTGTTCAAGATGCCATTCCACTAATGAGG
66 GAAAATAGCAAGGAGAATTCACGTCATTGACCTTATGTGTCCAAGATGCCATTCCACTAATGAGG
21281357 ATGATCTGCATGCTTTGCTTTCTT
131 ATGATCTGCATGCTTTGCTTTCTT
*
21281381 AGAGCTACCTCCTAAAGTTAAATCATTCTCGTGGCAGGCTTGCTATAGTATACTACCTTTCGGAT
1 AGAGCTACCTCCTAAAGTTAAATCATTCTCGTGGCAGGCTTGCTATAGTATACAACCTTTCGGAT
21281446 GAAAATAGCAAGGAGAATTCACGTCATTGACCTTATGTGTCCAAGATGCCATTCCACTAATGAGG
66 GAAAATAGCAAGGAGAATTCACGTCATTGACCTTATGTGTCCAAGATGCCATTCCACTAATGAGG
21281511 ATGATCTGCATGCTTT
131 ATGATCTGCATGCTTT
21281527 AAAGCAAATA
Statistics
Matches: 140, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
154 140 1.00
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.32
Consensus pattern (154 bp):
AGAGCTACCTCCTAAAGTTAAATCATTCTCGTGGCAGGCTTGCTATAGTATACAACCTTTCGGAT
GAAAATAGCAAGGAGAATTCACGTCATTGACCTTATGTGTCCAAGATGCCATTCCACTAATGAGG
ATGATCTGCATGCTTTGCTTTCTT
Found at i:21284669 original size:6 final size:6
Alignment explanation
Indices: 21284658--21284684 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
21284648 TATTATTTTA
21284658 ATTAAT ATTAAT ATTAAT ATTAAT ATT
1 ATTAAT ATTAAT ATTAAT ATTAAT ATT
21284685 TTTAATTAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
ATTAAT
Found at i:21286177 original size:9 final size:9
Alignment explanation
Indices: 21286148--21286192 Score: 51
Period size: 9 Copynumber: 5.3 Consensus size: 9
21286138 GGTTTTTGGA
21286148 TTTTAGGG-
1 TTTTAGGGT
21286156 -TTTAGGG-
1 TTTTAGGGT
21286163 TTTTAGGGT
1 TTTTAGGGT
*
21286172 TTTTAGGAT
1 TTTTAGGGT
*
21286181 TTTTAAGGT
1 TTTTAGGGT
21286190 TTT
1 TTT
21286193 GGAGAAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
7 7 0.22
8 7 0.22
9 18 0.56
ACGTcount: A:0.16, C:0.00, G:0.29, T:0.56
Consensus pattern (9 bp):
TTTTAGGGT
Found at i:21287539 original size:16 final size:16
Alignment explanation
Indices: 21287518--21287559 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
21287508 TTTTGATAAA
21287518 ATTAAAATTAATTGTT
1 ATTAAAATTAATTGTT
21287534 ATTAAAATTAATTGTT
1 ATTAAAATTAATTGTT
*
21287550 AGTAAAATTA
1 ATTAAAATTA
21287560 TCAAATTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (16 bp):
ATTAAAATTAATTGTT
Found at i:21287590 original size:59 final size:66
Alignment explanation
Indices: 21287524--21287650 Score: 178
Period size: 66 Copynumber: 2.0 Consensus size: 66
21287514 TAAAATTAAA
*
21287524 ATTAATTGTTAT-TAAAAT-T-A-A-TTG-TTAGTAAAATTATCAAATTATTACTTG-TTAATTG
1 ATTAATTGTTATATAAAATCTAACATTTGATTAGTAAAATTATCAAATTATTAATTGATTAATTG
21287582 T
66 T
21287583 ATTAATTGTTATAATAAAATCTAACATTTGATTAGTAAAATTATCAAATTATTAATTGTATTAAT
1 ATTAATTGTTAT-ATAAAATCTAACATTTGATTAGTAAAATTATCAAATTATTAATTG-ATTAAT
21287648 TGT
64 TGT
21287651 TAATTATATT
Statistics
Matches: 58, Mismatches: 1, Indels: 9
0.85 0.01 0.13
Matches are distributed among these distances:
59 12 0.21
61 6 0.10
62 1 0.02
63 1 0.02
64 1 0.02
65 3 0.05
66 26 0.45
68 8 0.14
ACGTcount: A:0.41, C:0.04, G:0.08, T:0.47
Consensus pattern (66 bp):
ATTAATTGTTATATAAAATCTAACATTTGATTAGTAAAATTATCAAATTATTAATTGATTAATTG
T
Found at i:21287619 original size:66 final size:68
Alignment explanation
Indices: 21287548--21287693 Score: 188
Period size: 75 Copynumber: 2.1 Consensus size: 68
21287538 AAATTAATTG
* *
21287548 TTAGTAAAATTATCAAATTATTACTTG-TTAATTG-TATTAATTGTTATAATAAAATCTAACATT
1 TTAGTAAAATTATCAAATTATTAATTGATTAATTGTTATTAATTGTTATAACAAAATCTAACATT
21287611 TGA
66 TGA
*
21287614 TTAGTAAAATTATCAAATTATTAATTGTATTAATTGTTAATTATATTAATTGTTGTAACAAAATC
1 TTAGTAAAATTATCAAATTATTAATTG-ATTAATTG-----T-TATTAATTGTTATAACAAAATC
21287679 TAACATTTGA
59 TAACATTTGA
21287689 TTAGT
1 TTAGT
21287694 TTACATTTTT
Statistics
Matches: 68, Mismatches: 3, Indels: 9
0.85 0.04 0.11
Matches are distributed among these distances:
66 26 0.38
68 7 0.10
75 35 0.51
ACGTcount: A:0.40, C:0.05, G:0.08, T:0.46
Consensus pattern (68 bp):
TTAGTAAAATTATCAAATTATTAATTGATTAATTGTTATTAATTGTTATAACAAAATCTAACATT
TGA
Found at i:21287653 original size:16 final size:16
Alignment explanation
Indices: 21287629--21287667 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
21287619 AAAATTATCA
* *
21287629 AATTATTAATTGTATT
1 AATTGTTAATTATATT
21287645 AATTGTTAATTATATT
1 AATTGTTAATTATATT
21287661 AATTGTT
1 AATTGTT
21287668 GTAACAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (16 bp):
AATTGTTAATTATATT
Found at i:21287739 original size:19 final size:18
Alignment explanation
Indices: 21287698--21287742 Score: 90
Period size: 18 Copynumber: 2.5 Consensus size: 18
21287688 ATTAGTTTAC
21287698 ATTTTTGTATTATCAAAT
1 ATTTTTGTATTATCAAAT
21287716 ATTTTTGTATTATCAAAT
1 ATTTTTGTATTATCAAAT
21287734 ATTTTTGTA
1 ATTTTTGTA
21287743 AACAAATAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.31, C:0.04, G:0.07, T:0.58
Consensus pattern (18 bp):
ATTTTTGTATTATCAAAT
Found at i:21287750 original size:16 final size:17
Alignment explanation
Indices: 21287698--21287750 Score: 63
Period size: 18 Copynumber: 3.1 Consensus size: 17
21287688 ATTAGTTTAC
*
21287698 ATTTTTGTATTATCAAAT
1 ATTTTTGTA-TAACAAAT
*
21287716 ATTTTTGTATTATCAAAT
1 ATTTTTGTA-TAACAAAT
21287734 ATTTTTGTA-AACAAAT
1 ATTTTTGTATAACAAAT
21287750 A
1 A
21287751 AGTTTACATT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
16 7 0.21
18 27 0.79
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.51
Consensus pattern (17 bp):
ATTTTTGTATAACAAAT
Found at i:21287964 original size:20 final size:20
Alignment explanation
Indices: 21287923--21288007 Score: 106
Period size: 19 Copynumber: 4.3 Consensus size: 20
21287913 TCTGTCGGGG
21287923 AAATAAAATTGAAAAC-TAA
1 AAATAAAATTGAAAACATAA
21287942 AAATAAAATTGAAAACATAA
1 AAATAAAATTGAAAACATAA
*
21287962 AAATAAAATTGAAAACTTAA
1 AAATAAAATTGAAAACATAA
*
21287982 ACTAA-AAACTT--AAACATAA
1 A--AATAAAATTGAAAACATAA
21288001 AAATAAA
1 AAATAAA
21288008 TATATATATT
Statistics
Matches: 59, Mismatches: 3, Indels: 9
0.83 0.04 0.13
Matches are distributed among these distances:
17 2 0.03
18 3 0.05
19 24 0.41
20 23 0.39
21 5 0.08
22 2 0.03
ACGTcount: A:0.68, C:0.07, G:0.04, T:0.21
Consensus pattern (20 bp):
AAATAAAATTGAAAACATAA
Found at i:21287977 original size:39 final size:39
Alignment explanation
Indices: 21287923--21288007 Score: 120
Period size: 39 Copynumber: 2.2 Consensus size: 39
21287913 TCTGTCGGGG
21287923 AAATAAAATTGAAAACTAAAAAT-AAAA-TTGAAAACATAA
1 AAATAAAATTGAAAACTAAAAATAAAAACTT--AAACATAA
* *
21287962 AAATAAAATTGAAAACTTAAACTAAAAACTTAAACATAA
1 AAATAAAATTGAAAACTAAAAATAAAAACTTAAACATAA
21288001 AAATAAA
1 AAATAAA
21288008 TATATATATT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
39 36 0.86
40 4 0.10
41 2 0.05
ACGTcount: A:0.68, C:0.07, G:0.04, T:0.21
Consensus pattern (39 bp):
AAATAAAATTGAAAACTAAAAATAAAAACTTAAACATAA
Found at i:21288072 original size:20 final size:20
Alignment explanation
Indices: 21288044--21288084 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
21288034 AATGTCGGGG
*
21288044 AAATGAAATTGAAAACATAA
1 AAATAAAATTGAAAACATAA
*
21288064 AAATAAAATTGAAAACTTAA
1 AAATAAAATTGAAAACATAA
21288084 A
1 A
21288085 CTGTCAGGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.66, C:0.05, G:0.07, T:0.22
Consensus pattern (20 bp):
AAATAAAATTGAAAACATAA
Found at i:21288178 original size:16 final size:17
Alignment explanation
Indices: 21288136--21288178 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 17
21288126 AAACATAAAA
21288136 ATAA-AAATATTTTTGT
1 ATAACAAATATTTTTGT
*
21288152 ATTATCAAATATTTTTGT
1 A-TAACAAATATTTTTGT
21288170 A-AACAAATA
1 ATAACAAATA
21288179 AGTTTACATT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 8 0.35
17 2 0.09
18 13 0.57
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.44
Consensus pattern (17 bp):
ATAACAAATATTTTTGT
Found at i:21288401 original size:30 final size:30
Alignment explanation
Indices: 21288342--21288401 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 30
21288332 TTTCTACAGT
21288342 CTGTCGGGGAAATAAAATTGAAAACTTAAA
1 CTGTCGGGGAAATAAAATTGAAAACTTAAA
*
21288372 CTGTCAGGGGAAATGAAATTGAAAA-TTAAA
1 CTGTC-GGGGAAATAAAATTGAAAACTTAAA
21288402 ACAAAAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 10 0.36
31 18 0.64
ACGTcount: A:0.47, C:0.08, G:0.22, T:0.23
Consensus pattern (30 bp):
CTGTCGGGGAAATAAAATTGAAAACTTAAA
Found at i:21288466 original size:16 final size:16
Alignment explanation
Indices: 21288445--21288522 Score: 156
Period size: 16 Copynumber: 4.9 Consensus size: 16
21288435 ATTTTTTAAG
21288445 CATAAAAAACTTAAAA
1 CATAAAAAACTTAAAA
21288461 CATAAAAAACTTAAAA
1 CATAAAAAACTTAAAA
21288477 CATAAAAAACTTAAAA
1 CATAAAAAACTTAAAA
21288493 CATAAAAAACTTAAAA
1 CATAAAAAACTTAAAA
21288509 CATAAAAAACTTAA
1 CATAAAAAACTTAA
21288523 TATATATATT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 62 1.00
ACGTcount: A:0.68, C:0.13, G:0.00, T:0.19
Consensus pattern (16 bp):
CATAAAAAACTTAAAA
Found at i:21290734 original size:31 final size:29
Alignment explanation
Indices: 21290661--21290741 Score: 90
Period size: 29 Copynumber: 2.7 Consensus size: 29
21290651 AAATTGAATC
*
21290661 AAATCAAAATTTCATGTATAAAACTGCACA
1 AAATCAAAA-TTCATGTATAAAACTACACA
* * *
21290691 AAATCAATATTCATGTATGACACTACACA
1 AAATCAAAATTCATGTATAAAACTACACA
*
21290720 TTAGATCAAAATTCATGTATAA
1 --AAATCAAAATTCATGTATAA
21290742 TTTTATATTT
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
29 17 0.40
30 8 0.19
31 17 0.40
ACGTcount: A:0.47, C:0.16, G:0.07, T:0.30
Consensus pattern (29 bp):
AAATCAAAATTCATGTATAAAACTACACA
Found at i:21291321 original size:18 final size:18
Alignment explanation
Indices: 21291287--21291320 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
21291277 GTGTTTTAGT
21291287 TAAAATATGCATATTTTG
1 TAAAATATGCATATTTTG
*
21291305 TAAAATTTG-ATATTTT
1 TAAAATATGCATATTTT
21291321 TATATATGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.38, C:0.03, G:0.09, T:0.50
Consensus pattern (18 bp):
TAAAATATGCATATTTTG
Found at i:21292614 original size:16 final size:17
Alignment explanation
Indices: 21292593--21292624 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
21292583 TTAGGGTTTT
21292593 GGTTTAGGGT-TTTTAG
1 GGTTTAGGGTATTTTAG
21292609 GGTTTAGGGTATTTTA
1 GGTTTAGGGTATTTTA
21292625 AAAGTGTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.16, C:0.00, G:0.34, T:0.50
Consensus pattern (17 bp):
GGTTTAGGGTATTTTAG
Found at i:21297165 original size:15 final size:15
Alignment explanation
Indices: 21297141--21297172 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
21297131 TATGCATGCA
*
21297141 AAATATAAAAGACAT
1 AAATACAAAAGACAT
21297156 AAATACAAAAGACAT
1 AAATACAAAAGACAT
21297171 AA
1 AA
21297173 TAGTGAAATG
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:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:21297531 original size:30 final size:30
Alignment explanation
Indices: 21297495--21297556 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
21297485 ATTTATTTTA
21297495 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
*
21297525 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
21297555 TT
1 TT
21297557 ACTTATTAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.24, C:0.03, G:0.15, T:0.58
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:21297925 original size:16 final size:16
Alignment explanation
Indices: 21297904--21297935 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
21297894 CATACACAAA
21297904 CAAAATCAAAGATGTG
1 CAAAATCAAAGATGTG
21297920 CAAAATCAAAGATGTG
1 CAAAATCAAAGATGTG
21297936 AGTGGCAGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.12, G:0.19, T:0.19
Consensus pattern (16 bp):
CAAAATCAAAGATGTG
Found at i:21305917 original size:43 final size:41
Alignment explanation
Indices: 21305870--21306019 Score: 113
Period size: 43 Copynumber: 3.5 Consensus size: 41
21305860 ATGTTTATTC
21305870 GATGATGCACTATGCATGCCAGTATAATTGCTTCGATTCATCT
1 GATGATGCACTATG-ATGCCAGTATAATTGCTTCGATT-ATCT
* * * * * *
21305913 GATGATGGATCTCGTG-TGCCATTATAATTGTTTCGAGTTACCC
1 GATGATGCA-CT-ATGATGCCAGTATAATTGCTTCGA-TTATCT
* ** * * * *
21305956 GATGATGCACTATGTGTGCCAGTATCTTTCCTTTGGTATATTT
1 GATGATGCACTATG-ATGCCAGTATAATTGCTTCGAT-TATCT
21305999 GATGATGCACTATGATGCCAG
1 GATGATGCACTATGATGCCAG
21306020 ATTGAGATAC
Statistics
Matches: 82, Mismatches: 19, Indels: 13
0.72 0.17 0.11
Matches are distributed among these distances:
41 2 0.02
42 9 0.11
43 65 0.79
44 4 0.05
45 2 0.02
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.37
Consensus pattern (41 bp):
GATGATGCACTATGATGCCAGTATAATTGCTTCGATTATCT
Found at i:21314118 original size:8 final size:8
Alignment explanation
Indices: 21314105--21314144 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
21314095 CCTCAATTGC
21314105 ATGTTTGT
1 ATGTTTGT
21314113 ATGTTTGT
1 ATGTTTGT
*
21314121 ATGGTT-T
1 ATGTTTGT
21314128 -TGTTTGT
1 ATGTTTGT
21314135 ATGTTTGT
1 ATGTTTGT
21314143 AT
1 AT
21314145 TACTCATTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
6 4 0.14
7 2 0.07
8 22 0.79
ACGTcount: A:0.12, C:0.00, G:0.25, T:0.62
Consensus pattern (8 bp):
ATGTTTGT
Found at i:21316650 original size:11 final size:11
Alignment explanation
Indices: 21316634--21316660 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
21316624 TAGAAATTAG
21316634 TTTGTGAAACT
1 TTTGTGAAACT
21316645 TTTGTGAAACT
1 TTTGTGAAACT
21316656 TTTGT
1 TTTGT
21316661 ATTGATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.22, C:0.07, G:0.19, T:0.52
Consensus pattern (11 bp):
TTTGTGAAACT
Found at i:21318184 original size:15 final size:15
Alignment explanation
Indices: 21318149--21318200 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
21318139 TTAAGAATTT
*
21318149 TATTAAATTAT-ATA
1 TATTTAATTATAATA
21318163 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
21318177 TATTTAATAATAAT-
1 TATTTAATTATAATA
21318191 TATGTTAATT
1 TAT-TTAATT
21318201 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:21318224 original size:120 final size:120
Alignment explanation
Indices: 21318011--21318316 Score: 558
Period size: 120 Copynumber: 2.5 Consensus size: 120
21318001 CCTTTTCTTN
* * * *
21318011 ATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAAATTTATTTAATAATAATTATGT
1 ATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGT
*
21318076 TAATTTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAAT
66 TAATTTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAAT
21318131 ATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGT
1 ATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGT
21318196 TAATTTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAAT
66 TAATTTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAAT
*
21318251 ATTAATTATTAAGAATTTTATTAAATTAAATATTTTAATTATAATATATTTAATAATAATTATGT
1 ATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGT
21318316 T
66 T
21318317 TAAATATGAT
Statistics
Matches: 180, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 180 1.00
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (120 bp):
ATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGT
TAATTTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAAT
Found at i:21318304 original size:15 final size:15
Alignment explanation
Indices: 21318269--21318310 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
21318259 TTAAGAATTT
*
21318269 TATTAAATTA-AATA
1 TATTTAATTATAATA
21318283 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
21318297 TATTTAATAATAAT
1 TATTTAATTATAAT
21318311 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 7 0.29
14 6 0.25
15 11 0.46
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:21318549 original size:45 final size:44
Alignment explanation
Indices: 21318464--21318554 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 44
21318454 ACCTCTATTC
* *
21318464 CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTACTATTACACCTATATTCCATTA
*** *
21318508 CATTCAACCAAACAGTTGATTTGCTATTACACCTATATTCCATTA
1 CATTCAACCAAACACAAGA-TTACTATTACACCTATATTCCATTA
21318553 CA
1 CA
21318555 CCTCTATTGC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 16 0.40
45 24 0.60
ACGTcount: A:0.35, C:0.27, G:0.05, T:0.32
Consensus pattern (44 bp):
CATTCAACCAAACACAAGATTACTATTACACCTATATTCCATTA
Found at i:21318554 original size:16 final size:16
Alignment explanation
Indices: 21318533--21318584 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
21318523 TTGATTTGCT
*
21318533 ATTACACCTATATTCC
1 ATTACACCTCTATTCC
*
21318549 ATTACACCTCTATTGC
1 ATTACACCTCTATTCC
* *
21318565 ATTACGCCTCTATTCT
1 ATTACACCTCTATTCC
21318581 ATTA
1 ATTA
21318585 AAGCGAACCA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.27, C:0.29, G:0.04, T:0.40
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:21318961 original size:18 final size:18
Alignment explanation
Indices: 21318939--21318983 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
21318929 CTTTCATTTT
*
21318939 TATTTATAAAATT-TTTA
1 TATTTATAAAATTATATA
21318956 TGATTTATAAAATTATATA
1 T-ATTTATAAAATTATATA
21318975 TATTTATAA
1 TATTTATAA
21318984 TTTTTAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 1 0.04
18 20 0.80
19 4 0.16
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (18 bp):
TATTTATAAAATTATATA
Found at i:21318993 original size:26 final size:27
Alignment explanation
Indices: 21318962--21319015 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 27
21318952 TTTATGATTT
21318962 ATAAAATTATATATATTTATA-ATTTTTA
1 ATAAAATTATATAT-TTT-TAGATTTTTA
*
21318990 AAAAAATTATATATTTTTAGATTTTT
1 ATAAAATTATATATTTTTAGATTTTT
21319016 TTAATTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 2 0.08
27 9 0.38
28 13 0.54
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (27 bp):
ATAAAATTATATATTTTTAGATTTTTA
Found at i:21320954 original size:37 final size:37
Alignment explanation
Indices: 21320913--21320984 Score: 135
Period size: 37 Copynumber: 1.9 Consensus size: 37
21320903 CTTATTTTTT
21320913 CCATTAGATTAAAATTCACTAACTATTTAATTAATCA
1 CCATTAGATTAAAATTCACTAACTATTTAATTAATCA
*
21320950 CCATTAGATTAGAATTCACTAACTATTTAATTAAT
1 CCATTAGATTAAAATTCACTAACTATTTAATTAAT
21320985 TATGAGTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.42, C:0.15, G:0.04, T:0.39
Consensus pattern (37 bp):
CCATTAGATTAAAATTCACTAACTATTTAATTAATCA
Found at i:21323195 original size:13 final size:14
Alignment explanation
Indices: 21323159--21323197 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
21323149 TAAAGAAAAA
21323159 TATACAAATATATAT
1 TATA-AAATATATAT
*
21323174 TATAAAATATGTAT
1 TATAAAATATATAT
21323188 TA-AAAATATA
1 TATAAAATATA
21323198 AGTATATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 7 0.32
14 11 0.50
15 4 0.18
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (14 bp):
TATAAAATATATAT
Found at i:21323493 original size:3 final size:3
Alignment explanation
Indices: 21323485--21323537 Score: 54
Period size: 3 Copynumber: 17.7 Consensus size: 3
21323475 TGAATATAGA
* * * *
21323485 AAT AAT AAT AGT AAT AAT GAC AAT ACAT AAT -AT AAT AAT AAT GAT
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT
21323530 AAT AAT AA
1 AAT AAT AA
21323538 CAAAAAAATT
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
2 2 0.05
3 35 0.88
4 3 0.08
ACGTcount: A:0.60, C:0.04, G:0.06, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:21333001 original size:32 final size:32
Alignment explanation
Indices: 21332965--21333041 Score: 84
Period size: 33 Copynumber: 2.4 Consensus size: 32
21332955 AACTTTTCCG
** *
21332965 GAAAATATTTTCA-AGGAATCTGTCAAACAGCA
1 GAAAATATTTTCACA-GAATCAATCAAACACCA
* *
21332997 GAAAACATTTTACACAGATTCAATCAAACACCA
1 GAAAATATTTT-CACAGAATCAATCAAACACCA
21333030 GAAAATATTTTC
1 GAAAATATTTTC
21333042 CAGTAAATCA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
32 11 0.30
33 25 0.68
34 1 0.03
ACGTcount: A:0.45, C:0.18, G:0.10, T:0.26
Consensus pattern (32 bp):
GAAAATATTTTCACAGAATCAATCAAACACCA
Found at i:21336940 original size:182 final size:182
Alignment explanation
Indices: 21336608--21336944 Score: 460
Period size: 182 Copynumber: 1.9 Consensus size: 182
21336598 ACCTCTACTT
* * * *
21336608 GAGGGAGCTGATTGGAGTGGATGAGAGACGAGATGAACTTTACTACTTCCAGCAAGTATCTACAA
1 GAGGGAGCTGATTGGAGCGAATGAGAGACGAGATGAACTTTACTACCTCCAGCAAGTATCGACAA
* * * * * * * *
21336673 TCAAAGCGGTTTCTATTGAAGCTTTATCCTCTTTGGAACTTTGGTGTAGAAGATTGGGTCAACCT
66 TCAAAGCGATTTCTATTAAAGCTTCATCCTCTTTGGAAATTTAGTATAAAAGATAGGGTCAACCT
*
21336738 TCCGAGAAAGTGCCGAAGTTACTTCCCTATGTGCTATTTAGGACCTCCAATC
131 TCCGAGAAACTGCCGAAGTTACTTCCCTATGTGCTATTTAGGACCTCCAATC
* * * *
21336790 GAGGGAGCTGATTGGAGCGAATGAGAGATGGGATGAACTTTACTACCTCCAGCAAGTTTCGACAG
1 GAGGGAGCTGATTGGAGCGAATGAGAGACGAGATGAACTTTACTACCTCCAGCAAGTATCGACAA
* * *
21336855 TCAAAGCGATTTTTATTAAAGCTTCATCCTCTTTTGAAATTTAGTATAAAAGATAGGGTCACCCT
66 TCAAAGCGATTTCTATTAAAGCTTCATCCTCTTTGGAAATTTAGTATAAAAGATAGGGTCAACCT
* *
21336920 TTCGAGAAACTAG-TGAAGTTACTTC
131 TCCGAGAAACT-GCCGAAGTTACTTC
21336945 ATTATGTTAG
Statistics
Matches: 132, Mismatches: 22, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
182 131 0.99
183 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (182 bp):
GAGGGAGCTGATTGGAGCGAATGAGAGACGAGATGAACTTTACTACCTCCAGCAAGTATCGACAA
TCAAAGCGATTTCTATTAAAGCTTCATCCTCTTTGGAAATTTAGTATAAAAGATAGGGTCAACCT
TCCGAGAAACTGCCGAAGTTACTTCCCTATGTGCTATTTAGGACCTCCAATC
Found at i:21344257 original size:12 final size:12
Alignment explanation
Indices: 21344240--21344265 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
21344230 TTGTATATCT
21344240 TTTAGGAATATA
1 TTTAGGAATATA
21344252 TTTAGGAATATA
1 TTTAGGAATATA
21344264 TT
1 TT
21344266 ATATACCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (12 bp):
TTTAGGAATATA
Found at i:21345798 original size:26 final size:26
Alignment explanation
Indices: 21345738--21345788 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 26
21345728 TTGAGTTACT
*
21345738 AAATTCTCTTTGAGTTTTTCTTTTCAAG
1 AAATTTTC-TTGAGTTTTTCTTTT-AAG
21345766 AAATTTTCTTGAG-TTTTCTTTTA
1 AAATTTTCTTGAGTTTTTCTTTTA
21345789 GAAGAGTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 1 0.05
26 9 0.41
27 5 0.23
28 7 0.32
ACGTcount: A:0.22, C:0.12, G:0.10, T:0.57
Consensus pattern (26 bp):
AAATTTTCTTGAGTTTTTCTTTTAAG
Found at i:21347219 original size:24 final size:24
Alignment explanation
Indices: 21347192--21347244 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
21347182 ACTTGTAATT
*
21347192 TAAATA-AGTTATTCTAATAAATAC
1 TAAATATA-TTATACTAATAAATAC
21347216 TAAATATATTATACTAATAAATAC
1 TAAATATATTATACTAATAAATAC
21347240 TAAAT
1 TAAAT
21347245 CTTCTAGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 26 0.96
25 1 0.04
ACGTcount: A:0.53, C:0.08, G:0.02, T:0.38
Consensus pattern (24 bp):
TAAATATATTATACTAATAAATAC
Found at i:21354871 original size:23 final size:23
Alignment explanation
Indices: 21354843--21354897 Score: 56
Period size: 25 Copynumber: 2.2 Consensus size: 23
21354833 ATGTATTATT
*
21354843 ATATATACATACGTATAGTAAAAAA
1 ATATAT-CATACATATA-TAAAAAA
*
21354868 ATATTATTCATACATATATAAAAAT
1 ATA-TA-TCATACATATATAAAAAA
21354893 ATATA
1 ATATA
21354898 AATTAACTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 2 0.08
25 12 0.46
26 11 0.42
27 1 0.04
ACGTcount: A:0.55, C:0.07, G:0.04, T:0.35
Consensus pattern (23 bp):
ATATATCATACATATATAAAAAA
Found at i:21356629 original size:44 final size:44
Alignment explanation
Indices: 21356558--21356663 Score: 124
Period size: 44 Copynumber: 2.4 Consensus size: 44
21356548 GACCTACTCT
* * *
21356558 ACTACAACTTCAGAGAGATGAGGTCTATCATTTTGATCCGCTCC
1 ACTACAACTTCAGGGAGATGAGGTCTATCACTTTAATCCGCTCC
** * *
21356602 ACTGTAACTTCAGGGAGAT-AGGATCTATTACTTTAATTCGCTCC
1 ACTACAACTTCAGGGAGATGAGG-TCTATCACTTTAATCCGCTCC
*
21356646 ACTACAACTTTAGGGAGA
1 ACTACAACTTCAGGGAGA
21356664 AAATATTATC
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
43 3 0.06
44 48 0.94
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (44 bp):
ACTACAACTTCAGGGAGATGAGGTCTATCACTTTAATCCGCTCC
Found at i:21359735 original size:26 final size:26
Alignment explanation
Indices: 21359706--21359756 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
21359696 CCCGATATAT
21359706 GGCTCTTCGTGAGCTTCCTAATTAAA
1 GGCTCTTCGTGAGCTTCCTAATTAAA
* * *
21359732 GGCTCTTTGTTAGCTTCCTGATTAA
1 GGCTCTTCGTGAGCTTCCTAATTAA
21359757 TACTCTCTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.39
Consensus pattern (26 bp):
GGCTCTTCGTGAGCTTCCTAATTAAA
Found at i:21360432 original size:16 final size:16
Alignment explanation
Indices: 21360411--21360447 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
21360401 AGTATTTCGA
21360411 AAGCTCGTTGGGTTAG
1 AAGCTCGTTGGGTTAG
*
21360427 AAGCTCGTTGGGTTGG
1 AAGCTCGTTGGGTTAG
21360443 AAGCT
1 AAGCT
21360448 TGGCGGAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.19, C:0.14, G:0.38, T:0.30
Consensus pattern (16 bp):
AAGCTCGTTGGGTTAG
Found at i:21364021 original size:11 final size:11
Alignment explanation
Indices: 21364005--21364029 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
21363995 TTTTTGGTTT
21364005 TTTATTTATAA
1 TTTATTTATAA
21364016 TTTATTTATAA
1 TTTATTTATAA
21364027 TTT
1 TTT
21364030 TTATATTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TTTATTTATAA
Found at i:21370351 original size:16 final size:16
Alignment explanation
Indices: 21370330--21370378 Score: 80
Period size: 16 Copynumber: 3.1 Consensus size: 16
21370320 TTCGCTATAT
*
21370330 TGGAATAGAGGCGTAA
1 TGGAATAGAGGTGTAA
*
21370346 TGGAATATAGGTGTAA
1 TGGAATAGAGGTGTAA
21370362 TGGAATAGAGGTGTAA
1 TGGAATAGAGGTGTAA
21370378 T
1 T
21370379 AGCAAATCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.37, C:0.02, G:0.35, T:0.27
Consensus pattern (16 bp):
TGGAATAGAGGTGTAA
Found at i:21370585 original size:16 final size:16
Alignment explanation
Indices: 21370548--21370589 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
21370538 TTAATCATAT
*
21370548 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
21370564 TT-AAATATATTATAA
1 TTAAAATATATTATAA
21370579 TTAAAATATAT
1 TTAAAATATAT
21370590 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:21370596 original size:14 final size:15
Alignment explanation
Indices: 21370557--21370598 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
21370547 TTTAAACATA
*
21370557 ATTATTATTAAATAT
1 ATTATAATTAAATAT
21370572 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
21370586 A-TATAATTTAATA
1 ATTATAATTAAATA
21370599 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:21370700 original size:120 final size:120
Alignment explanation
Indices: 21370551--21371053 Score: 952
Period size: 120 Copynumber: 4.2 Consensus size: 120
21370541 ATCATATTTA
* *
21370551 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* * *
21370616 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
21370671 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
21370736 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
21370791 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
21370856 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
21370911 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
21370976 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
*
21371031 AACATAATAATTATTAAATATAT
1 AACATAATTATTATTAAATATAT
21371054 AACTTGAAAA
Statistics
Matches: 377, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 377 1.00
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.43
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:21370709 original size:18 final size:17
Alignment explanation
Indices: 21370688--21370722 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
21370678 TTATTATTAA
*
21370688 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
21370706 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
21370723 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:21370829 original size:18 final size:17
Alignment explanation
Indices: 21370808--21370842 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
21370798 TTATTATTAA
*
21370808 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
21370826 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
21370843 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:21370949 original size:18 final size:17
Alignment explanation
Indices: 21370928--21370962 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
21370918 TTATTATTAA
*
21370928 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
21370946 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
21370963 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:21381217 original size:21 final size:21
Alignment explanation
Indices: 21381180--21381219 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
21381170 TTGAGAATTA
*
21381180 ATTTAATATTTTCTAATTATT
1 ATTTAATATTTTATAATTATT
21381201 ATTTAAT-TATTTATAATTA
1 ATTTAATAT-TTTATAATTA
21381220 AATAATTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTAATATTTTATAATTATT
Found at i:21381687 original size:13 final size:13
Alignment explanation
Indices: 21381669--21381702 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
21381659 GTATGAACAT
*
21381669 AAGTTTTACACAC
1 AAGTTTCACACAC
21381682 AAGTTTCACACAC
1 AAGTTTCACACAC
21381695 AAGTTTCA
1 AAGTTTCA
21381703 TATATTGTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.38, C:0.24, G:0.09, T:0.29
Consensus pattern (13 bp):
AAGTTTCACACAC
Found at i:21381775 original size:21 final size:20
Alignment explanation
Indices: 21381735--21381775 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
21381725 GTAGTGAAAA
* *
21381735 TTTATTTTCTAAGGATAAAT
1 TTTATTTTCCAAGAATAAAT
21381755 TTTATTTTCCAAGTAATAAAT
1 TTTATTTTCCAAG-AATAAAT
21381776 CGTTTTTGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.49
Consensus pattern (20 bp):
TTTATTTTCCAAGAATAAAT
Found at i:21397689 original size:20 final size:19
Alignment explanation
Indices: 21397666--21397720 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 19
21397656 AATTTAGCCA
21397666 TTTTTATTTTTATTTAATAT
1 TTTTTATTTTTATTTAA-AT
21397686 TTTTTATTTTTAATTTAAAT
1 TTTTTATTTTT-ATTTAAAT
* *
21397706 TTTATATTTTAATTT
1 TTTTTATTTTTATTT
21397721 TTCTTTTGCT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
19 4 0.12
20 22 0.69
21 6 0.19
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTTTATTTTTATTTAAAT
Found at i:21399111 original size:20 final size:20
Alignment explanation
Indices: 21399086--21399125 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
21399076 CCATGTGGGG
*
21399086 ATAAAATCGACCCACCCAAC
1 ATAAAATCAACCCACCCAAC
21399106 ATAAAATCAACCCACCCAAC
1 ATAAAATCAACCCACCCAAC
21399126 CAGACACACC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.47, C:0.40, G:0.03, T:0.10
Consensus pattern (20 bp):
ATAAAATCAACCCACCCAAC
Found at i:21399494 original size:27 final size:27
Alignment explanation
Indices: 21399431--21399708 Score: 242
Period size: 27 Copynumber: 10.4 Consensus size: 27
21399421 ATAATAGTCT
* * *
21399431 TTTTACACTATG-GGGTATCTCAGTCA
1 TTTTACCCTATGAGGGTATTTCGGTCA
** * * *
21399457 TACTACTCTATGAGGGTATTTAGGCCA
1 TTTTACCCTATGAGGGTATTTCGGTCA
21399484 TTTTACCCTAT-AGGCGTATTTCGGTCA
1 TTTTACCCTATGAGG-GTATTTCGGTCA
* * *
21399511 TTCTACCCTATG-GGGTATTCCGGCCA
1 TTTTACCCTATGAGGGTATTTCGGTCA
* * * * * *
21399537 TTCTACCCTGTGGGGGTATTTTGATTA
1 TTTTACCCTATGAGGGTATTTCGGTCA
* * * *
21399564 TTTTACCTTGTGGGGGTATTTCGGTTA
1 TTTTACCCTATGAGGGTATTTCGGTCA
* * *
21399591 TTTTACCCTGTGGGGGTATTTCGATCA
1 TTTTACCCTATGAGGGTATTTCGGTCA
*
21399618 TTTTA-CCTATGAGGGTATTTCGGTTA
1 TTTTACCCTATGAGGGTATTTCGGTCA
21399644 TTTTACCCTATCG-GGGTATTTCGGTCA
1 TTTTACCCTAT-GAGGGTATTTCGGTCA
* * * *
21399671 TTTTACCTTAAGAGGGTATTTCGATTA
1 TTTTACCCTATGAGGGTATTTCGGTCA
21399698 TTTTACCCTAT
1 TTTTACCCTAT
21399709 TTTGGGGTAT
Statistics
Matches: 206, Mismatches: 39, Indels: 13
0.80 0.15 0.05
Matches are distributed among these distances:
26 56 0.27
27 149 0.72
28 1 0.00
ACGTcount: A:0.18, C:0.18, G:0.22, T:0.41
Consensus pattern (27 bp):
TTTTACCCTATGAGGGTATTTCGGTCA
Found at i:21399544 original size:53 final size:54
Alignment explanation
Indices: 21399431--21399708 Score: 256
Period size: 53 Copynumber: 5.2 Consensus size: 54
21399421 ATAATAGTCT
* * * ** * *
21399431 TTTTACACTAT-GGGGTATCTCAGTCATACTACTCTATGAGGGTATTTAGGCCA
1 TTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGAGGGTATTTCGGCCA
* * * *
21399484 TTTTACCCTATAGGCGTATTTCGGTCATTCTACCCTATG-GGGTATTCCGGCCA
1 TTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGAGGGTATTTCGGCCA
* * * * * * * * **
21399537 TTCTACCCTGTGGGGGTATTTTGATTATTTTACCTTGTGGGGGTATTTCGGTTA
1 TTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGAGGGTATTTCGGCCA
* * **
21399591 TTTTACCCTGTGGGGGTATTTCGATCATTTTA-CCTATGAGGGTATTTCGGTTA
1 TTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGAGGGTATTTCGGCCA
* * * ***
21399644 TTTTACCCTATCGGGGTATTTCGGTCATTTTACCTTAAGAGGGTATTTCGATTA
1 TTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGAGGGTATTTCGGCCA
21399698 TTTTACCCTAT
1 TTTTACCCTAT
21399709 TTTGGGGTAT
Statistics
Matches: 189, Mismatches: 33, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
53 98 0.52
54 91 0.48
ACGTcount: A:0.18, C:0.18, G:0.22, T:0.41
Consensus pattern (54 bp):
TTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGAGGGTATTTCGGCCA
Found at i:21399598 original size:54 final size:54
Alignment explanation
Indices: 21399465--21399706 Score: 272
Period size: 53 Copynumber: 4.5 Consensus size: 54
21399455 CATACTACTC
* ** * * * * * *
21399465 TATGAGGGTATTTAGGCCATTTTACCCTATAGGCGTATTTCGGTCATTCTACCC
1 TATGAGGGTATTTCGGTTATTTTACCCTGTGGGGGTATTTCGATCATTTTACCT
* ** * * *
21399519 TATG-GGGTATTCCGGCCATTCTACCCTGTGGGGGTATTTTGATTATTTTACCT
1 TATGAGGGTATTTCGGTTATTTTACCCTGTGGGGGTATTTCGATCATTTTACCT
* *
21399572 TGTGGGGGTATTTCGGTTATTTTACCCTGTGGGGGTATTTCGATCATTTTACC-
1 TATGAGGGTATTTCGGTTATTTTACCCTGTGGGGGTATTTCGATCATTTTACCT
* * *
21399625 TATGAGGGTATTTCGGTTATTTTACCCTATCGGGGTATTTCGGTCATTTTACCT
1 TATGAGGGTATTTCGGTTATTTTACCCTGTGGGGGTATTTCGATCATTTTACCT
* *
21399679 TAAGAGGGTATTTCGATTATTTTACCCT
1 TATGAGGGTATTTCGGTTATTTTACCCT
21399707 ATTTTGGGGT
Statistics
Matches: 161, Mismatches: 25, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
53 89 0.55
54 72 0.45
ACGTcount: A:0.17, C:0.18, G:0.23, T:0.42
Consensus pattern (54 bp):
TATGAGGGTATTTCGGTTATTTTACCCTGTGGGGGTATTTCGATCATTTTACCT
Found at i:21399598 original size:107 final size:107
Alignment explanation
Indices: 21399483--21399708 Score: 274
Period size: 107 Copynumber: 2.1 Consensus size: 107
21399473 TATTTAGGCC
* *
21399483 ATTTTACCCTATAGGCGTATTTCGGTCATTCTACCCTATG-GGGTATTCCGGCCATTCTACCCTG
1 ATTTTACCCTATAGGCGTATTTCGATCATTCTA-CCTATGAGGGTATTCCGGCCATTCTACCCTA
* * * ** * *
21399547 TGGGGGTATTTTGATTATTTTACCTTGTGGGGGTATTTCGGTT
65 TCGGGGTATTTCGATCATTTTACCTTAAGAGGGTATTTCGATT
* * * * * ** *
21399590 ATTTTACCCTGTGGGGGTATTTCGATCATTTTACCTATGAGGGTATTTCGGTTATTTTACCCTAT
1 ATTTTACCCTATAGGCGTATTTCGATCATTCTACCTATGAGGGTATTCCGGCCATTCTACCCTAT
*
21399655 CGGGGTATTTCGGTCATTTTACCTTAAGAGGGTATTTCGATT
66 CGGGGTATTTCGATCATTTTACCTTAAGAGGGTATTTCGATT
21399697 ATTTTACCCTAT
1 ATTTTACCCTAT
21399709 TTTGGGGTAT
Statistics
Matches: 99, Mismatches: 19, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
106 6 0.06
107 93 0.94
ACGTcount: A:0.17, C:0.18, G:0.22, T:0.42
Consensus pattern (107 bp):
ATTTTACCCTATAGGCGTATTTCGATCATTCTACCTATGAGGGTATTCCGGCCATTCTACCCTAT
CGGGGTATTTCGATCATTTTACCTTAAGAGGGTATTTCGATT
Found at i:21399688 original size:80 final size:79
Alignment explanation
Indices: 21399431--21399704 Score: 262
Period size: 80 Copynumber: 3.4 Consensus size: 79
21399421 ATAATAGTCT
* * ** **
21399431 TTTTACACTATGGGGTATCTC-AGTCATACTACTCTATGAGGGTATTTAGGCCATTTTACCCTAT
1 TTTTACCCTATGGGGTATTTCGA-TCATTTTAC-CTATGAGGGTATTTAGGTTATTTTACCCTAT
*
21399495 AGGCGTATTTCGGTCA
64 AGGGGTATTTCGGTCA
* * ** * * * * * * * *
21399511 TTCTACCCTATGGGGTATTCCGGCCATTCTACCCTGTGGGGGTATTTTGATTATTTTACCTTGTG
1 TTTTACCCTATGGGGTATTTCGATCATTTTA-CCTATGAGGGTATTTAGGTTATTTTACCCTATA
*
21399576 GGGGTATTTCGGTTA
65 GGGGTATTTCGGTCA
* * *
21399591 TTTTACCCTGTGGGGGTATTTCGATCATTTTACCTATGAGGGTATTTCGGTTATTTTACCCTATC
1 TTTTACCCTAT-GGGGTATTTCGATCATTTTACCTATGAGGGTATTTAGGTTATTTTACCCTATA
21399656 GGGGTATTTCGGTCA
65 GGGGTATTTCGGTCA
* * *
21399671 TTTTACCTTAAGAGGGTATTTCGATTATTTTACC
1 TTTTACCCTATG-GGGTATTTCGATCATTTTACC
21399705 CTATTTTGGG
Statistics
Matches: 154, Mismatches: 36, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
79 1 0.01
80 136 0.88
81 17 0.11
ACGTcount: A:0.18, C:0.18, G:0.22, T:0.41
Consensus pattern (79 bp):
TTTTACCCTATGGGGTATTTCGATCATTTTACCTATGAGGGTATTTAGGTTATTTTACCCTATAG
GGGTATTTCGGTCA
Found at i:21403327 original size:27 final size:27
Alignment explanation
Indices: 21403262--21403541 Score: 196
Period size: 27 Copynumber: 10.4 Consensus size: 27
21403252 TATAACAATT
21403262 ATTTTACCCTAT-GGGGTATTTC-GTTC
1 ATTTTACCCTATGGGGGTATTTCAG-TC
** ** *
21403288 ATACTACTTTATGGGGGTATTTCATTC
1 ATTTTACCCTATGGGGGTATTTCAGTC
* ** *
21403315 ATTTTACCCTATGCGAATATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTCAGTC
* * * *
21403342 ATTCTACCCTGTTGGGGTATTTCAATC
1 ATTTTACCCTATGGGGGTATTTCAGTC
* * *
21403369 ATTCTACCCTATGAGGGTATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTCAGTC
* *
21403396 ATTTTACCCTGTGAGGGTATTTC-GATC
1 ATTTTACCCTATGGGGGTATTTCAG-TC
21403423 ATTTTA-CCT-TGTGGGGTATTTC-GATC
1 ATTTTACCCTATG-GGGGTATTTCAG-TC
* * * *
21403449 ACTTTACCTTGTGGGGGTATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTCAGTC
* * ***
21403476 CTTTTACCTTATATTGGTATTT-AGGTC
1 ATTTTACCCTATGGGGGTATTTCA-GTC
* * *
21403503 ATTTTACCCCATTGGGGTATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTCAGTC
21403530 ATTTTACCCTAT
1 ATTTTACCCTAT
21403542 TTTGGAGTCT
Statistics
Matches: 198, Mismatches: 47, Indels: 17
0.76 0.18 0.06
Matches are distributed among these distances:
25 2 0.01
26 30 0.15
27 163 0.82
28 3 0.02
ACGTcount: A:0.18, C:0.19, G:0.20, T:0.43
Consensus pattern (27 bp):
ATTTTACCCTATGGGGGTATTTCAGTC
Found at i:21403360 original size:54 final size:53
Alignment explanation
Indices: 21403262--21403541 Score: 249
Period size: 54 Copynumber: 5.2 Consensus size: 53
21403252 TATAACAATT
* ** ** * * *
21403262 ATTTTACCCTATGGGGTATTTCGTTCATACTACTTTATGGGGGTATTTCATTC
1 ATTTTACCCTATGGGGTATTTCGGTCATTTTACCCTGTTGGGGTATTTCAGTC
** * *
21403315 ATTTTACCCTATGCGAATATTTCGGTCATTCTACCCTGTTGGGGTATTTCAATC
1 ATTTTACCCTATG-GGGTATTTCGGTCATTTTACCCTGTTGGGGTATTTCAGTC
*
21403369 ATTCTACCCTATGAGGGTATTTCGGTCATTTTACCCTG-TGAGGGTATTTC-GATC
1 ATTTTACCCTATG-GGGTATTTCGGTCATTTTACCCTGTTG-GGGTATTTCAG-TC
* * * * * * *
21403423 ATTTTACCTTGTGGGGTATTTCGATCACTTTACCTTGTGGGGGTATTTCGGTC
1 ATTTTACCCTATGGGGTATTTCGGTCATTTTACCCTGTTGGGGTATTTCAGTC
* * ** * ** *
21403476 CTTTTACCTTATATTGGTATTTAGGTCATTTTACCCCATTGGGGTATTTCGGTC
1 ATTTTACCCTAT-GGGGTATTTCGGTCATTTTACCCTGTTGGGGTATTTCAGTC
21403530 ATTTTACCCTAT
1 ATTTTACCCTAT
21403542 TTTGGAGTCT
Statistics
Matches: 186, Mismatches: 35, Indels: 11
0.80 0.15 0.05
Matches are distributed among these distances:
53 57 0.31
54 129 0.69
ACGTcount: A:0.18, C:0.19, G:0.20, T:0.43
Consensus pattern (53 bp):
ATTTTACCCTATGGGGTATTTCGGTCATTTTACCCTGTTGGGGTATTTCAGTC
Found at i:21403417 original size:81 final size:81
Alignment explanation
Indices: 21403262--21403541 Score: 280
Period size: 81 Copynumber: 3.5 Consensus size: 81
21403252 TATAACAATT
* * * ** **
21403262 ATTTTACCCT-ATGGGGTATTTCGTTCATACTACTTTATGGGGGTATTTCATTCATTTTACCCTA
1 ATTTTACCCTGTTGGGGTATTTCGATCATTCTACCCTATGGGGGTATTTCGGTCATTTTACCCTA
* **
21403326 TGCGAATATTTCGGTC
66 TGAGGGTATTTCGGTC
* * * *
21403342 ATTCTACCCTGTTGGGGTATTTCAATCATTCTACCCTATGAGGGTATTTCGGTCATTTTACCCTG
1 ATTTTACCCTGTTGGGGTATTTCGATCATTCTACCCTATGGGGGTATTTCGGTCATTTTACCCTA
*
21403407 TGAGGGTATTTCGATC
66 TGAGGGTATTTCGGTC
* * * * *
21403423 ATTTTACCTTG-TGGGGTATTTCGATCACTT-TACCTTGTGGGGGTATTTCGGTCCTTTTACCTT
1 ATTTTACCCTGTTGGGGTATTTCGATCA-TTCTACCCTATGGGGGTATTTCGGTCATTTTACCCT
* *
21403486 AT-ATTGGTATTTAGGTC
65 ATGA-GGGTATTTCGGTC
** * *
21403503 ATTTTACCCCATTGGGGTATTTCGGTCATTTTACCCTAT
1 ATTTTACCCTGTTGGGGTATTTCGATCATTCTACCCTAT
21403542 TTTGGAGTCT
Statistics
Matches: 162, Mismatches: 33, Indels: 9
0.79 0.16 0.04
Matches are distributed among these distances:
79 1 0.01
80 73 0.45
81 88 0.54
ACGTcount: A:0.18, C:0.19, G:0.20, T:0.43
Consensus pattern (81 bp):
ATTTTACCCTGTTGGGGTATTTCGATCATTCTACCCTATGGGGGTATTTCGGTCATTTTACCCTA
TGAGGGTATTTCGGTC
Found at i:21411844 original size:17 final size:17
Alignment explanation
Indices: 21411812--21411845 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
21411802 TATCACTTGC
*
21411812 TATTTCAATAGCATTTT
1 TATTTCAATAACATTTT
*
21411829 TATTTCAATAATATTTT
1 TATTTCAATAACATTTT
21411846 CCATTTCAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.09, G:0.03, T:0.56
Consensus pattern (17 bp):
TATTTCAATAACATTTT
Found at i:21413294 original size:27 final size:27
Alignment explanation
Indices: 21413264--21413365 Score: 161
Period size: 27 Copynumber: 3.8 Consensus size: 27
21413254 CCGACGAACA
* *
21413264 AGGTGTTCA-CCAAGTTTTAGGTGAAAT
1 AGGTGTTCATCAAAG-TTTAGGCGAAAT
21413291 AGGTGTTCATCAAAGTTTAGGCGAAAT
1 AGGTGTTCATCAAAGTTTAGGCGAAAT
*
21413318 AGGTGTTCATCAATGTTTAGGCGAAAT
1 AGGTGTTCATCAAAGTTTAGGCGAAAT
21413345 AGGTGTTCATCAAAGTTTAGG
1 AGGTGTTCATCAAAGTTTAGG
21413366 TGAATTGGGA
Statistics
Matches: 70, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
27 66 0.94
28 4 0.06
ACGTcount: A:0.30, C:0.11, G:0.26, T:0.32
Consensus pattern (27 bp):
AGGTGTTCATCAAAGTTTAGGCGAAAT
Found at i:21414246 original size:41 final size:41
Alignment explanation
Indices: 21414189--21414274 Score: 136
Period size: 41 Copynumber: 2.1 Consensus size: 41
21414179 TTTTACAAGC
* *
21414189 TGTGTATCAGCGAAGCTCCCCTCGTGAGCTTTGTGATAAGT
1 TGTGTATCAGCGAAGCTCCCCTAGTGAGCTTAGTGATAAGT
* *
21414230 TGTGTATCAGGGAAGCTCTCCTAGTGAGCTTAGTGATAAGT
1 TGTGTATCAGCGAAGCTCCCCTAGTGAGCTTAGTGATAAGT
21414271 TGTG
1 TGTG
21414275 CGTCACGAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.21, C:0.17, G:0.29, T:0.33
Consensus pattern (41 bp):
TGTGTATCAGCGAAGCTCCCCTAGTGAGCTTAGTGATAAGT
Found at i:21425921 original size:23 final size:23
Alignment explanation
Indices: 21425895--21425943 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
21425885 ACCTTTTGTT
21425895 TTTATTATTTTAATCAATTTAAG
1 TTTATTATTTTAATCAATTTAAG
*
21425918 TTTATTATTTTAATTAATTTAAG
1 TTTATTATTTTAATCAATTTAAG
21425941 TTT
1 TTT
21425944 TTTTTCTCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (23 bp):
TTTATTATTTTAATCAATTTAAG
Found at i:21435062 original size:40 final size:40
Alignment explanation
Indices: 21435011--21435147 Score: 229
Period size: 40 Copynumber: 3.4 Consensus size: 40
21435001 AGCAACTTTT
* *
21435011 AGTAGAATCAGTAGGTATGGCTCGATAGCACATACGTTTC
1 AGTAGATTCAGTAGGTATGGCTCGATAGCGCATACGTTTC
* *
21435051 AGTAGATTCAGTAGGTATGGCTTGATAGCGCATACATTTC
1 AGTAGATTCAGTAGGTATGGCTCGATAGCGCATACGTTTC
*
21435091 AGTAGATTCAGTAGGTATGGCTCGATAGCGGATACGTTTC
1 AGTAGATTCAGTAGGTATGGCTCGATAGCGCATACGTTTC
21435131 AGTAGATTCAGTAGGTA
1 AGTAGATTCAGTAGGTA
21435148 ATGCTCATTT
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 90 1.00
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (40 bp):
AGTAGATTCAGTAGGTATGGCTCGATAGCGCATACGTTTC
Found at i:21441739 original size:12 final size:12
Alignment explanation
Indices: 21441722--21441746 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
21441712 GGTGTGCATT
21441722 CGGTTAACCGAC
1 CGGTTAACCGAC
21441734 CGGTTAACCGAC
1 CGGTTAACCGAC
21441746 C
1 C
21441747 CGAATTAGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:21441921 original size:9 final size:9
Alignment explanation
Indices: 21441907--21442017 Score: 161
Period size: 9 Copynumber: 12.4 Consensus size: 9
21441897 TGGTTAAAAA
21441907 TTAACCGAT
1 TTAACCGAT
*
21441916 TTAACCTAT
1 TTAACCGAT
21441925 TTAACCGA-
1 TTAACCGAT
*
21441933 TTAACCGAC
1 TTAACCGAT
21441942 TTAACCGAT
1 TTAACCGAT
*
21441951 TTAACCGAC
1 TTAACCGAT
*
21441960 TTAACCGAC
1 TTAACCGAT
21441969 TTAACCGAT
1 TTAACCGAT
21441978 TTAACCGAT
1 TTAACCGAT
21441987 TTAACCGAT
1 TTAACCGAT
* *
21441996 TTAACCAAC
1 TTAACCGAT
21442005 TTAACCGAT
1 TTAACCGAT
21442014 TTAA
1 TTAA
21442018 ATCACTATAT
Statistics
Matches: 92, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
8 8 0.09
9 84 0.91
ACGTcount: A:0.35, C:0.25, G:0.09, T:0.31
Consensus pattern (9 bp):
TTAACCGAT
Found at i:21442072 original size:37 final size:37
Alignment explanation
Indices: 21442017--21442126 Score: 166
Period size: 37 Copynumber: 3.0 Consensus size: 37
21442007 AACCGATTTA
* *
21442017 AATCACTATATAATTAAAAAAATTACATAAGTCTTTG
1 AATCACTAAATAATTAAAAACATTACATAAGTCTTTG
* * * *
21442054 AATCACTACATAACTAAAAACATTACATAAATTTTTG
1 AATCACTAAATAATTAAAAACATTACATAAGTCTTTG
21442091 AATCACTAAATAATTAAAAACATTACATAAGTCTTT
1 AATCACTAAATAATTAAAAACATTACATAAGTCTTT
21442127 AAATTTAACA
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.49, C:0.14, G:0.04, T:0.34
Consensus pattern (37 bp):
AATCACTAAATAATTAAAAACATTACATAAGTCTTTG
Found at i:21442362 original size:7 final size:7
Alignment explanation
Indices: 21442350--21442408 Score: 82
Period size: 7 Copynumber: 8.3 Consensus size: 7
21442340 GTACAGAAGA
21442350 AAACATG
1 AAACATG
21442357 AAACATG
1 AAACATG
* *
21442364 CAATATG
1 AAACATG
21442371 AAACATG
1 AAACATG
*
21442378 AAATCGTG
1 AAA-CATG
21442386 AAACATG
1 AAACATG
21442393 AAACATG
1 AAACATG
21442400 AAACATG
1 AAACATG
21442407 AA
1 AA
21442409 TTGTTCTTGG
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
7 39 0.87
8 6 0.13
ACGTcount: A:0.54, C:0.14, G:0.15, T:0.17
Consensus pattern (7 bp):
AAACATG
Found at i:21442429 original size:13 final size:13
Alignment explanation
Indices: 21442411--21442437 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
21442401 AACATGAATT
21442411 GTTCTTGGGCTTA
1 GTTCTTGGGCTTA
21442424 GTTCTTGGGCTTA
1 GTTCTTGGGCTTA
21442437 G
1 G
21442438 AGCCTGGAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.07, C:0.15, G:0.33, T:0.44
Consensus pattern (13 bp):
GTTCTTGGGCTTA
Found at i:21443796 original size:22 final size:23
Alignment explanation
Indices: 21443756--21443801 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
21443746 TAAATTGGTA
* *
21443756 TAAATATTTTTTTTCAAATTATT
1 TAAATATTTTATTTCAAATAATT
21443779 TAAATATTTTATTT-AAATAATT
1 TAAATATTTTATTTCAAATAATT
21443801 T
1 T
21443802 GAAAAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (23 bp):
TAAATATTTTATTTCAAATAATT
Found at i:21445389 original size:29 final size:29
Alignment explanation
Indices: 21445357--21445424 Score: 95
Period size: 28 Copynumber: 2.4 Consensus size: 29
21445347 TTTTGTAAAG
21445357 TAGGGGACAAAATTATAAAATCTAAAAAA
1 TAGGGGACAAAATTATAAAATCTAAAAAA
* *
21445386 TAGGGGA-AAAATTTTTAAATCTAAAAAA
1 TAGGGGACAAAATTATAAAATCTAAAAAA
*
21445414 TAAGGG-CAAAA
1 TAGGGGACAAAA
21445425 CCATAAATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
28 28 0.80
29 7 0.20
ACGTcount: A:0.56, C:0.06, G:0.16, T:0.22
Consensus pattern (29 bp):
TAGGGGACAAAATTATAAAATCTAAAAAA
Done.