Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 278 of 362
Found at i:93917953 original size:82 final size:81
Alignment explanation
Indices: 93917835--93917990 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
93917825 TGCTATATAA
* *
93917835 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
93917900 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
93917917 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
93917981 CACTTAGTGC
65 CACTTAGTGC
93917991 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:93921388 original size:18 final size:18
Alignment explanation
Indices: 93921365--93921399 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
93921355 CAGAAGCAAT
* *
93921365 TAAAAATAAAAATTAAAC
1 TAAAAACAAAAAGTAAAC
93921383 TAAAAACAAAAAGTAAA
1 TAAAAACAAAAAGTAAA
93921400 TTGCAATAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.74, C:0.06, G:0.03, T:0.17
Consensus pattern (18 bp):
TAAAAACAAAAAGTAAAC
Found at i:93928238 original size:18 final size:18
Alignment explanation
Indices: 93928193--93928239 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 18
93928183 GACCTTTGAG
93928193 TTCCTTTTATTATTTTTATT
1 TTCC-TTTA-TATTTTTATT
*
93928213 TAT-ATTTATATTTTTATT
1 T-TCCTTTATATTTTTATT
93928231 TTCCTTTAT
1 TTCCTTTAT
93928240 TTATTTTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
17 1 0.04
18 16 0.70
19 4 0.17
20 1 0.04
21 1 0.04
ACGTcount: A:0.19, C:0.09, G:0.00, T:0.72
Consensus pattern (18 bp):
TTCCTTTATATTTTTATT
Found at i:93929236 original size:4 final size:4
Alignment explanation
Indices: 93929229--93929263 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
93929219 CTTAAAAAAA
93929229 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
93929264 TTAGTAGTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:93934318 original size:35 final size:35
Alignment explanation
Indices: 93934268--93934394 Score: 146
Period size: 35 Copynumber: 3.6 Consensus size: 35
93934258 CATGGAAAAG
*
93934268 TGTGAAACGTAGGTATGATATTAACCATACTGAGT
1 TGTGAAACGTAGGTATGGTATTAACCATACTGAGT
* * *
93934303 TGTGAAATGTTGGTATGGTATTATCCATACTGAGT
1 TGTGAAACGTAGGTATGGTATTAACCATACTGAGT
** * ** * *
93934338 TAAGAAACGTAGGTATGGCATTTCCCATACCGATT
1 TGTGAAACGTAGGTATGGTATTAACCATACTGAGT
*
93934373 TGTGAAATGTAGGTATGGTATT
1 TGTGAAACGTAGGTATGGTATT
93934395 TCAATGAGGA
Statistics
Matches: 75, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 75 1.00
ACGTcount: A:0.30, C:0.11, G:0.24, T:0.35
Consensus pattern (35 bp):
TGTGAAACGTAGGTATGGTATTAACCATACTGAGT
Found at i:93938008 original size:28 final size:28
Alignment explanation
Indices: 93937968--93938023 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
93937958 GATACATGAT
**
93937968 AGATTCCTTTAAAAGTTTTTTAAACTAC
1 AGATTCCACTAAAAGTTTTTTAAACTAC
*
93937996 AGATTCCACTAAAATTTTTTTAAACTAC
1 AGATTCCACTAAAAGTTTTTTAAACTAC
93938024 TTCCCAAGTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.38, C:0.16, G:0.05, T:0.41
Consensus pattern (28 bp):
AGATTCCACTAAAAGTTTTTTAAACTAC
Found at i:93941903 original size:43 final size:43
Alignment explanation
Indices: 93941835--93942019 Score: 194
Period size: 43 Copynumber: 4.3 Consensus size: 43
93941825 AGGCTGCCAT
** * * **
93941835 AGAACATGACCTTTAATGGCACTTTTCCCGCAAACGTTGCTAA
1 AGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAA
* * *
93941878 AGACCATGACCTTTAGCGGCGCTTTTCTCACAAACGCCACTAA
1 AGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAA
* * * * *
93941921 AGAATATGACCTTTAGCGGCGTTTTTTCGA-AAACGCCGCTAT
1 AGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAA
** * *
93941963 AGAA-AAAACCTTTAGCGGAGCTTTTCCCACAAACGCCTCTAA
1 AGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAA
93942005 AGAACATGACCTTTA
1 AGAACATGACCTTTA
93942020 AAAAATATAT
Statistics
Matches: 113, Mismatches: 27, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
41 19 0.17
42 28 0.25
43 66 0.58
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (43 bp):
AGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAA
Found at i:93941997 original size:42 final size:43
Alignment explanation
Indices: 93941886--93942008 Score: 142
Period size: 42 Copynumber: 2.9 Consensus size: 43
93941876 AAAGACCATG
* **
93941886 ACCTTTAGCGGCGCTTTTCTCACAAACGCCACTAAAGAATATG
1 ACCTTTAGCGGCGCTTTTCCCACAAACGCCACTAAAGAATAAA
* * * * *
93941929 ACCTTTAGCGGCGTTTTTTCGA-AAACGCCGCTATAGAA-AAA
1 ACCTTTAGCGGCGCTTTTCCCACAAACGCCACTAAAGAATAAA
* *
93941970 ACCTTTAGCGGAGCTTTTCCCACAAACGCCTCTAAAGAA
1 ACCTTTAGCGGCGCTTTTCCCACAAACGCCACTAAAGAA
93942009 CATGACCTTT
Statistics
Matches: 65, Mismatches: 14, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
41 19 0.29
42 28 0.43
43 18 0.28
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (43 bp):
ACCTTTAGCGGCGCTTTTCCCACAAACGCCACTAAAGAATAAA
Found at i:93942562 original size:11 final size:11
Alignment explanation
Indices: 93942546--93942573 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
93942536 TTGGCTGATA
93942546 AATCTAGTTAC
1 AATCTAGTTAC
93942557 AATCTAGTTAC
1 AATCTAGTTAC
93942568 AATCTA
1 AATCTA
93942574 TTATCCACAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.39, C:0.18, G:0.07, T:0.36
Consensus pattern (11 bp):
AATCTAGTTAC
Found at i:93945823 original size:3 final size:3
Alignment explanation
Indices: 93945817--93945854 Score: 58
Period size: 3 Copynumber: 12.3 Consensus size: 3
93945807 TTTCTCCTCC
*
93945817 TCT TCT TCT TCT TCT TCT TCT TCC TCGT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TC-T TCT TCT TCT T
93945855 TTCAACTTCC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 30 0.94
4 2 0.06
ACGTcount: A:0.00, C:0.34, G:0.03, T:0.63
Consensus pattern (3 bp):
TCT
Found at i:93946198 original size:30 final size:30
Alignment explanation
Indices: 93946157--93946213 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
93946147 CGTTTTCACC
*
93946157 AAAAACGCCACTATAGCTCAAATTTTTACT
1 AAAAACACCACTATAGCTCAAATTTTTACT
*
93946187 AAAAACACCACTATAGCTCAACTTTTT
1 AAAAACACCACTATAGCTCAAATTTTT
93946214 GTGGCGTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.40, C:0.25, G:0.05, T:0.30
Consensus pattern (30 bp):
AAAAACACCACTATAGCTCAAATTTTTACT
Found at i:93946417 original size:18 final size:17
Alignment explanation
Indices: 93946394--93946443 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
93946384 TTTTTTATTT
93946394 TTATTTTTAAATTTTAAA
1 TTATTTTTAAATTTT-AA
*
93946412 TTATTTTTGAATATTTTTA
1 TTATTTTT-AA-ATTTTAA
*
93946431 TAATTTTTAAATT
1 TTATTTTTAAATT
93946444 AACATATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
17 3 0.11
18 10 0.36
19 10 0.36
20 5 0.18
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (17 bp):
TTATTTTTAAATTTTAA
Found at i:93947104 original size:21 final size:20
Alignment explanation
Indices: 93947070--93947121 Score: 61
Period size: 21 Copynumber: 2.6 Consensus size: 20
93947060 AACCCCAAAC
*
93947070 ACCA-AAACCCAAATCCTAA
1 ACCATAAACCTAAATCCTAA
*
93947089 ACCATAAATCCTAAATCCTAG
1 ACCATAAA-CCTAAATCCTAA
*
93947110 ACTATAAACCTA
1 ACCATAAACCTA
93947122 CACCCAAAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 4 0.14
20 7 0.25
21 17 0.61
ACGTcount: A:0.48, C:0.31, G:0.02, T:0.19
Consensus pattern (20 bp):
ACCATAAACCTAAATCCTAA
Found at i:93947505 original size:7 final size:7
Alignment explanation
Indices: 93947495--93947662 Score: 95
Period size: 7 Copynumber: 23.7 Consensus size: 7
93947485 CCTATCCCTA
93947495 TAAACCT
1 TAAACCT
* *
93947502 TAAATCA
1 TAAACCT
*
93947509 TAAACCC
1 TAAACCT
93947516 TAAACCAT
1 TAAACC-T
*
93947524 TAACCCT
1 TAAACCT
*
93947531 TAACCCT
1 TAAACCT
93947538 TAAACCT
1 TAAACCT
*
93947545 TAAACCC
1 TAAACCT
* *
93947552 TAACCCC
1 TAAACCT
*
93947559 TAAACCA
1 TAAACCT
*
93947566 TAAACCA
1 TAAACCT
* *
93947573 TAATCCC
1 TAAACCT
*
93947580 TAAATCCA
1 TAAA-CCT
* *
93947588 TAATCCA
1 TAAACCT
93947595 TAAACCT
1 TAAACCT
*
93947602 TAAA-AT
1 TAAACCT
*
93947608 GAAACTCT
1 TAAAC-CT
*
93947616 TAAAGCT
1 TAAACCT
*
93947623 TAAACCC
1 TAAACCT
*
93947630 TAAACCA
1 TAAACCT
* *
93947637 TATACCC
1 TAAACCT
*
93947644 TAAACCC
1 TAAACCT
93947651 TAAACCT
1 TAAACCT
93947658 TAAAC
1 TAAAC
93947663 TATAATGATA
Statistics
Matches: 127, Mismatches: 30, Indels: 8
0.77 0.18 0.05
Matches are distributed among these distances:
6 4 0.03
7 109 0.86
8 14 0.11
ACGTcount: A:0.44, C:0.32, G:0.01, T:0.23
Consensus pattern (7 bp):
TAAACCT
Found at i:93947513 original size:14 final size:14
Alignment explanation
Indices: 93947494--93947667 Score: 118
Period size: 14 Copynumber: 12.3 Consensus size: 14
93947484 CCCTATCCCT
*
93947494 ATAAACCTTAAATC
1 ATAAACCTTAAACC
*
93947508 ATAAACCCTAAACC
1 ATAAACCTTAAACC
* *
93947522 ATTAACCCTTAACCC
1 A-TAAACCTTAAACC
*
93947537 TTAAACCTTAAACC
1 ATAAACCTTAAACC
* * *
93947551 CTAACCCCTAAACC
1 ATAAACCTTAAACC
* *
93947565 ATAAACCATAATCC
1 ATAAACCTTAAACC
* * *
93947579 CTAAATCCATAATCC
1 ATAAA-CCTTAAACC
93947594 ATAAACCTTAAA--
1 ATAAACCTTAAACC
*
93947606 ATGAAACTCTTAAAGC
1 AT-AAAC-CTTAAACC
* *
93947622 TTAAACCCTAAACC
1 ATAAACCTTAAACC
* *
93947636 ATATACCCTAAACC
1 ATAAACCTTAAACC
* *
93947650 CTAAACCTTAAACT
1 ATAAACCTTAAACC
93947664 ATAA
1 ATAA
93947668 TGATAATTAA
Statistics
Matches: 125, Mismatches: 29, Indels: 12
0.75 0.17 0.07
Matches are distributed among these distances:
12 2 0.02
13 4 0.03
14 91 0.73
15 27 0.22
16 1 0.01
ACGTcount: A:0.45, C:0.30, G:0.01, T:0.24
Consensus pattern (14 bp):
ATAAACCTTAAACC
Found at i:93947521 original size:21 final size:21
Alignment explanation
Indices: 93947495--93947662 Score: 115
Period size: 21 Copynumber: 7.9 Consensus size: 21
93947485 CCTATCCCTA
*
93947495 TAAACCTTAAATCATAAACCC
1 TAAACCTTAAACCATAAACCC
* *
93947516 TAAACCATT-AACCCTTAACCC
1 TAAACC-TTAAACCATAAACCC
* *
93947537 TTAAACCTTAAACCCTAACCCC
1 -TAAACCTTAAACCATAAACCC
* *
93947559 TAAACCATAAACCATAATCCC
1 TAAACCTTAAACCATAAACCC
* * *
93947580 TAAATCCATAATCCATAAACCT
1 TAAA-CCTTAAACCATAAACCC
* * * * *
93947602 TAAA-ATGAAACTCTTAAAGCT
1 TAAACCTTAAAC-CATAAACCC
* *
93947623 TAAACCCTAAACCATATACCC
1 TAAACCTTAAACCATAAACCC
* *
93947644 TAAACCCTAAACCTTAAAC
1 TAAACCTTAAACCATAAAC
93947663 TATAATGATA
Statistics
Matches: 115, Mismatches: 26, Indels: 12
0.75 0.17 0.08
Matches are distributed among these distances:
20 3 0.03
21 72 0.63
22 40 0.35
ACGTcount: A:0.44, C:0.32, G:0.01, T:0.23
Consensus pattern (21 bp):
TAAACCTTAAACCATAAACCC
Found at i:93948006 original size:38 final size:39
Alignment explanation
Indices: 93947953--93948061 Score: 130
Period size: 40 Copynumber: 2.8 Consensus size: 39
93947943 CAATTTTTTT
* * *
93947953 GCGGCGTTTTTTAAAAA-GCCGCTAATGGTCGACCTTTA
1 GCGGCGTTTTTTAAAAACGCCGCTAATGCTCAACCTATA
* *
93947991 GTGGCGTTTTTTAAAAAGCGCCGCTAATGCTCAATCTATA
1 GCGGCGTTTTTTAAAAA-CGCCGCTAATGCTCAACCTATA
* *
93948031 GCGGCGTTTTTCAAAAAATGCCGCTAATGCT
1 GCGGCGTTTTT-TAAAAACGCCGCTAATGCT
93948062 ACTAAAGCTC
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
38 16 0.27
40 39 0.65
41 5 0.08
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (39 bp):
GCGGCGTTTTTTAAAAACGCCGCTAATGCTCAACCTATA
Found at i:93948154 original size:39 final size:39
Alignment explanation
Indices: 93948111--93948211 Score: 114
Period size: 39 Copynumber: 2.6 Consensus size: 39
93948101 TTTTTCAGCT
** ***
93948111 TTTTTTAAAAAGCGCCGCTAATGGTTGA-CCATAGCTGC
1 TTTTTTAAAAAGCGCCGCTAATGGTCAACCCATAAAGGC
* * *
93948149 GTTTTTCAAAAAGCGTCGCTAATAGTCAACCCATAAAGGC
1 -TTTTTTAAAAAGCGCCGCTAATGGTCAACCCATAAAGGC
93948189 TTTTTTAAAAAGCGCCGCTAATG
1 TTTTTTAAAAAGCGCCGCTAATG
93948212 CTCGATCTAT
Statistics
Matches: 50, Mismatches: 11, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
39 43 0.86
40 7 0.14
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.30
Consensus pattern (39 bp):
TTTTTTAAAAAGCGCCGCTAATGGTCAACCCATAAAGGC
Found at i:93948229 original size:39 final size:37
Alignment explanation
Indices: 93948111--93948234 Score: 113
Period size: 39 Copynumber: 3.2 Consensus size: 37
93948101 TTTTTCAGCT
* **
93948111 TTTTTTAAAAAGCGCCGCTAATGGTTGACCATAGCTGC
1 TTTTTTAAAAAGCGCCGCTAAT-GTCGACCATAGAGGC
* * * *
93948149 GTTTTTCAAAAAGCGTCGCTAATAGTCAACCCATAAAGGC
1 -TTTTTTAAAAAGCGCCGCTAAT-GTCGA-CCATAGAGGC
* *
93948189 TTTTTTAAAAAGCGCCGCTAATGCTCGATCTATAGGGGC
1 TTTTTTAAAAAGCGCCGCTAATG-TCGA-CCATAGAGGC
93948228 TTTTTTA
1 TTTTTTA
93948235 TCCAAACACC
Statistics
Matches: 68, Mismatches: 15, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
38 1 0.01
39 60 0.88
40 7 0.10
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.32
Consensus pattern (37 bp):
TTTTTTAAAAAGCGCCGCTAATGTCGACCATAGAGGC
Found at i:93948557 original size:16 final size:16
Alignment explanation
Indices: 93948538--93948572 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
93948528 ATAGGGCTAC
*
93948538 AATGGAATAGAATTGT
1 AATGGAATAGAACTGT
93948554 AATGGAATAGAACTGT
1 AATGGAATAGAACTGT
93948570 AAT
1 AAT
93948573 CAGTAATTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.46, C:0.03, G:0.23, T:0.29
Consensus pattern (16 bp):
AATGGAATAGAACTGT
Found at i:93948606 original size:46 final size:44
Alignment explanation
Indices: 93948554--93948647 Score: 127
Period size: 44 Copynumber: 2.1 Consensus size: 44
93948544 ATAGAATTGT
*
93948554 AATGGAATAGAACTGTAATCAGTAATTCA-ATTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAAT-AGT-ATTCATA-TGTTTGGTTGAATGA
* *
93948600 AATGGAATAGAACTGTAATGGTATTCTTATGTTTGGTTGAATGA
1 AATGGAATAGAACTGTAATAGTATTCATATGTTTGGTTGAATGA
93948644 AATG
1 AATG
93948648 ATGCTGTAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
44 22 0.50
45 3 0.07
46 19 0.43
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.36
Consensus pattern (44 bp):
AATGGAATAGAACTGTAATAGTATTCATATGTTTGGTTGAATGA
Found at i:93951587 original size:21 final size:19
Alignment explanation
Indices: 93951536--93951609 Score: 60
Period size: 21 Copynumber: 3.6 Consensus size: 19
93951526 AAATCCCTAA
*
93951536 TTCTCTTTCTTTTCTTCCTCCT
1 TTCTCTTTTTTTTCTT--T-CT
93951558 TTCT-TTTTTTTTCTATTCT
1 TTCTCTTTTTTTTCT-TTCT
*
93951577 TTCTCTGTTTTGTTTCTTTGT
1 TTCTCT-TTTT-TTTCTTTCT
93951598 TTCTCTCTTTTT
1 TTCTCT-TTTTT
93951610 CTATTTTATT
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
19 6 0.13
20 3 0.07
21 26 0.58
22 10 0.22
ACGTcount: A:0.01, C:0.23, G:0.04, T:0.72
Consensus pattern (19 bp):
TTCTCTTTTTTTTCTTTCT
Found at i:93953005 original size:54 final size:54
Alignment explanation
Indices: 93952922--93953031 Score: 175
Period size: 54 Copynumber: 2.0 Consensus size: 54
93952912 GAAAACCTTA
* * *
93952922 TTCCAAAAAACACCATTGTTCAAGAAGAAGCTATTGTTCAGGGGGAGACTATTG
1 TTCCAAAAAACACAATTGTTCAAGAAGAAGCTACTGCTCAGGGGGAGACTATTG
* *
93952976 TTCCAGAAAACACAATTGTTCAAGGAGAAGCTACTGCTCAGGGGGAGACTATTG
1 TTCCAAAAAACACAATTGTTCAAGAAGAAGCTACTGCTCAGGGGGAGACTATTG
93953030 TT
1 TT
93953032 TAAAAAGAGA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.25
Consensus pattern (54 bp):
TTCCAAAAAACACAATTGTTCAAGAAGAAGCTACTGCTCAGGGGGAGACTATTG
Found at i:93954147 original size:15 final size:15
Alignment explanation
Indices: 93954127--93954155 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
93954117 TTTACAATTT
93954127 CAATTTCAATTCATA
1 CAATTTCAATTCATA
93954142 CAATTTCAATTCAT
1 CAATTTCAATTCAT
93954156 CCATATTTTT
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:0.38, C:0.21, G:0.00, T:0.41
Consensus pattern (15 bp):
CAATTTCAATTCATA
Found at i:93959109 original size:27 final size:26
Alignment explanation
Indices: 93959072--93959182 Score: 125
Period size: 27 Copynumber: 4.2 Consensus size: 26
93959062 AGCATGGCTG
* *
93959072 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
93959098 CCAGATACAGATAATTGTGGCAGAGCCA
1 CCAGA-ACAGATAA-TGTGGCAGAGCCA
93959126 -CAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * * *
93959152 CCAGATCAGATATTTGTGCCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
93959179 CCAG
1 CCAG
93959183 GACGCTTCCT
Statistics
Matches: 75, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 25 0.33
27 39 0.52
28 11 0.15
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:93959131 original size:53 final size:53
Alignment explanation
Indices: 93959073--93959179 Score: 153
Period size: 53 Copynumber: 2.0 Consensus size: 53
93959063 GCATGGCTGC
* *
93959073 CAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATTGTGGCAGAGCCA
1 CAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATTGTGCCAGAGCCA
* * *
93959126 CAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGCCATAGCCA
1 CAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATTGTGCCAGAGCCA
93959179 C
1 C
93959180 CAGGACGCTT
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
53 30 0.62
54 18 0.38
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.19
Consensus pattern (53 bp):
CAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATTGTGCCAGAGCCA
Found at i:93960809 original size:26 final size:26
Alignment explanation
Indices: 93960779--93960886 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
93960769 TGAAATTCCC
*
93960779 ATCATGGAACATTTACCAAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
93960805 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
93960831 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
93960857 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
93960883 ATCA
1 ATCA
93960887 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.37, C:0.27, G:0.06, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:93970118 original size:24 final size:24
Alignment explanation
Indices: 93970065--93970253 Score: 278
Period size: 24 Copynumber: 8.0 Consensus size: 24
93970055 GCTTTATCAT
*
93970065 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* * *
93970090 GTAACTAGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
93970114 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
93970137 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
93970160 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
93970184 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
93970208 ATAATTGGGGCATAATCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
93970231 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
93970254 GCACTTCCTC
Statistics
Matches: 150, Mismatches: 11, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
23 67 0.45
24 73 0.49
25 10 0.07
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:93970140 original size:23 final size:23
Alignment explanation
Indices: 93970086--93970252 Score: 262
Period size: 23 Copynumber: 7.1 Consensus size: 23
93970076 CCTAGCCTCT
* * *
93970086 TTTAGTAACTAGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
93970109 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
93970133 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
93970156 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
93970179 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
* *
93970203 TTTTAATAATTGGGGCATAATCCC
1 -TTTAATAACTGGGGCATAAGCCC
93970227 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
93970250 TTT
1 TTT
93970253 TGCACTTCCT
Statistics
Matches: 135, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
23 70 0.52
24 65 0.48
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.29
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:93970148 original size:47 final size:47
Alignment explanation
Indices: 93970086--93970253 Score: 275
Period size: 47 Copynumber: 3.6 Consensus size: 47
93970076 CCTAGCCTCT
* * *
93970086 TTTAGTAACTAGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
93970133 TTTAATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
* *
93970179 TTTTAATAACTGGGGCATAAGCCCTTTTAATAATTGGGGCATAATCCC
1 -TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
93970227 TTTAATAACTGGGGCATAAGCCCTTTT
1 TTTAATAACTGGGGCATAAGCCCTTTT
93970254 GCACTTCCTC
Statistics
Matches: 114, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
46 23 0.20
47 70 0.61
48 21 0.18
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (47 bp):
TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
Found at i:93970368 original size:20 final size:20
Alignment explanation
Indices: 93970331--93970368 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
93970321 ATATCCGGTA
**
93970331 CATATCATACATGTCATGAG
1 CATATCATACATACCATGAG
93970351 CATATCATACATACCATG
1 CATATCATACATACCATG
93970369 TTTATCATCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.24, G:0.11, T:0.29
Consensus pattern (20 bp):
CATATCATACATACCATGAG
Found at i:93973225 original size:30 final size:30
Alignment explanation
Indices: 93973169--93973225 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
93973159 ATCCCGAGCC
*
93973169 TAGGGGCAAAAATGTAAATATGCAAAAGTT
1 TAGGGGCAAAAATGTAAATATCCAAAAGTT
* * *
93973199 TAGGGGCAAAATTGTAATTTTCCAAAA
1 TAGGGGCAAAAATGTAAATATCCAAAA
93973226 TTTGAGTTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.44, C:0.09, G:0.21, T:0.26
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAAATATCCAAAAGTT
Found at i:93973694 original size:46 final size:46
Alignment explanation
Indices: 93973644--93973819 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
93973634 TGGTTGAGCA
93973644 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
93973690 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
93973735 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
93973783 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
93973820 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:93973800 original size:93 final size:93
Alignment explanation
Indices: 93973641--93973812 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
93973631 GGATGGTTGA
* *
93973641 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
93973706 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
93973734 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
93973799 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
93973813 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:93978543 original size:56 final size:56
Alignment explanation
Indices: 93978476--93978595 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
93978466 TATTAGTTTA
93978476 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
93978532 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
93978588 TTGCCCAT
1 TTGCCCAT
93978596 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:93985045 original size:40 final size:40
Alignment explanation
Indices: 93985008--93985232 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
93984998 GCTACTCGTT
* *
93985008 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
93985048 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
93985088 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
93985128 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
93985167 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
93985208 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
93985233 CATCATTCGA
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
38 2 0.01
39 32 0.19
40 118 0.72
41 13 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:93985192 original size:119 final size:120
Alignment explanation
Indices: 93985010--93985232 Score: 301
Period size: 119 Copynumber: 1.9 Consensus size: 120
93985000 TACTCGTTCA
*
93985010 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
93985075 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * **
93985130 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
93985192 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
93985233 CATCATTCGA
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
118 4 0.04
119 66 0.73
120 20 0.22
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:93986426 original size:56 final size:56
Alignment explanation
Indices: 93986359--93986478 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
93986349 TATTAGTTTA
93986359 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
93986415 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
93986471 TTGCCCAT
1 TTGCCCAT
93986479 CACCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:93999272 original size:31 final size:31
Alignment explanation
Indices: 93999234--93999297 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
93999224 TCGCCCAACC
* *
93999234 ATGAGAGTTATTCTATTTTGGTCACTCAATT
1 ATGAGAGTGATTCTATTTTAGTCACTCAATT
*
93999265 ATGAGAGTGATTCTATTTTAGTCACTTAATT
1 ATGAGAGTGATTCTATTTTAGTCACTCAATT
93999296 AT
1 AT
93999298 AAAGTTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.28, C:0.11, G:0.16, T:0.45
Consensus pattern (31 bp):
ATGAGAGTGATTCTATTTTAGTCACTCAATT
Found at i:94003557 original size:36 final size:36
Alignment explanation
Indices: 94003471--94003562 Score: 103
Period size: 36 Copynumber: 2.6 Consensus size: 36
94003461 TGCAAAAACA
** *
94003471 TTCATTGATGATATAAAATGCAAGAGGTGTAGATCG
1 TTCATTGATGATATAAAATGCAAGAAATGTAAATCG
* ** * *
94003507 TCCATTGACAATATAAAATGGAAGAAATGTAAATTG
1 TTCATTGATGATATAAAATGCAAGAAATGTAAATCG
*
94003543 TTCATTGGTGATATAAAATG
1 TTCATTGATGATATAAAATG
94003563 TAAGTCGTGA
Statistics
Matches: 44, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
36 44 1.00
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.32
Consensus pattern (36 bp):
TTCATTGATGATATAAAATGCAAGAAATGTAAATCG
Found at i:94003932 original size:29 final size:29
Alignment explanation
Indices: 94003895--94003985 Score: 112
Period size: 29 Copynumber: 3.1 Consensus size: 29
94003885 AATACAAGGA
*
94003895 TGACGAGTGTGACGACCC-AGCCAGGTTGT
1 TGACGAGTGTGGCGACCCGA-CCAGGTTGT
* * *
94003924 TGATGAGTGTGGCAACCCGACCAAGTTGT
1 TGACGAGTGTGGCGACCCGACCAGGTTGT
* *
94003953 TTACGAGTATGGCGACCCGACCAGGTTGT
1 TGACGAGTGTGGCGACCCGACCAGGTTGT
94003982 TGAC
1 TGAC
94003986 AGATATAATG
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
29 50 0.98
30 1 0.02
ACGTcount: A:0.22, C:0.23, G:0.32, T:0.23
Consensus pattern (29 bp):
TGACGAGTGTGGCGACCCGACCAGGTTGT
Found at i:94005719 original size:63 final size:63
Alignment explanation
Indices: 94005646--94005774 Score: 206
Period size: 63 Copynumber: 2.0 Consensus size: 63
94005636 CAACGTGATT
*
94005646 TATAACTTAAATTTGGTAATTCAAACTCCGTTAAAATGCACCTCATT-CTCGATGTGATAAGAA
1 TATAACTTAAATTTGGTAATTCAAACTCCATTAAAATGCACCTCATTCCT-GATGTGATAAGAA
* * *
94005709 TATAACTTAAATTTGGTAATTCAAACTCTATTAAGATGCGCCTCATTCCTGATGTGATAAGAA
1 TATAACTTAAATTTGGTAATTCAAACTCCATTAAAATGCACCTCATTCCTGATGTGATAAGAA
94005772 TAT
1 TAT
94005775 CTCCATGTGA
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
63 59 0.97
64 2 0.03
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.35
Consensus pattern (63 bp):
TATAACTTAAATTTGGTAATTCAAACTCCATTAAAATGCACCTCATTCCTGATGTGATAAGAA
Found at i:94006924 original size:16 final size:16
Alignment explanation
Indices: 94006903--94006942 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
94006893 TGAATTACTG
94006903 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
94006919 ATTACAACTCTATTCC
1 ATTACAGCTCTATTCC
94006935 ATTACAGC
1 ATTACAGC
94006943 GAACTAAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.30, C:0.30, G:0.05, T:0.35
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:94007394 original size:16 final size:16
Alignment explanation
Indices: 94007373--94007405 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
94007363 TTATGCTTTA
94007373 TTTGGCAACCATATTT
1 TTTGGCAACCATATTT
94007389 TTTGGCAACCATATTT
1 TTTGGCAACCATATTT
94007405 T
1 T
94007406 CTTTCCAAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.12, T:0.45
Consensus pattern (16 bp):
TTTGGCAACCATATTT
Found at i:94014288 original size:21 final size:20
Alignment explanation
Indices: 94014232--94014309 Score: 74
Period size: 21 Copynumber: 3.9 Consensus size: 20
94014222 AATTATACAT
94014232 AATAA-ATAATTAATAAT-AA
1 AATAATATAA-TAATAATAAA
* *
94014251 AATGATATAGTAA-AATAAA
1 AATAATATAATAATAATAAA
94014270 AATAATATAATGAATAATAAA
1 AATAATATAAT-AATAATAAA
94014291 AA-AGATATAATATATAATA
1 AATA-ATATAATA-ATAATA
94014310 TTTTTTACAC
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
18 3 0.06
19 18 0.37
20 7 0.14
21 21 0.43
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.29
Consensus pattern (20 bp):
AATAATATAATAATAATAAA
Found at i:94015918 original size:45 final size:45
Alignment explanation
Indices: 94015863--94016444 Score: 200
Period size: 45 Copynumber: 12.9 Consensus size: 45
94015853 CCATGCTGAA
* *
94015863 ATCTTTGATCTGCTCCCCGCCTAATACAGAGACGCCAAATCTATC
1 ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTATC
* * * * * * * * *
94015908 ATCTTCGATCTGCT--TCGATGTAAACACACAAATGTCAGATCT-GC
1 ATCTTCGATCTGCTCCCCG-TCT-AATACAGAGACGCCAAATCTATC
*
94015952 TATCCTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTATC
1 -ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTATC
* ** * * * * * *
94015998 ATCTTCGATCT-AT-TTCGATGTAA-ACACACGAATGTCAGATCT-GC
1 ATCTTCGATCTGCTCCCCG-TCTAATACAGA-G-ACGCCAAATCTATC
* * * *
94016042 TATTTTCAATCTGCTCCCCGTCTATTACAGAGACGCCAAATCTGTC
1 -ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTATC
* * * * * * *
94016088 ATCTTCGATCTGCT--TCGATGTAA-ACATACGAATGTCAGATCT-GC
1 ATCTTCGATCTGCTCCCCG-TCTAATACAGA-G-ACGCCAAATCTATC
* * * * * *
94016132 TATCTTCGATCTGCTCCCTGTCTAATACAAAGACTCTAAATCTGTT
1 -ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTATC
* ** * * * * *
94016178 ATCTTCGATCTGCT-TCAATGTAA-ACACACGAATGTCAGATCTA-C
1 ATCTTCGATCTGCTCCCCGTCTAATACAGA-G-ACGCCAAATCTATC
* * *
94016222 TATCTTCGATCTACTCCCCGTCTAATATAGAGATGCCAAATCTATC
1 -ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTATC
** * * * * * *
94016268 ATCTTCGATCAACT--TCGATGTAA-ACACACACATGTCAGATCTA-C
1 ATCTTCGATCTGCTCCCCG-TCTAATACAGAGAC--GCCAAATCTATC
* * *
94016312 TATCTTTGATCTGCTCTCCGTCTAATACAGAGACGCCAAATCTGTC
1 -ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTATC
* * * * * * *
94016358 ATCTTCGATCTGCT--TCGATGTAA-ACACACGAATGTCAGATCT-GC
1 ATCTTCGATCTGCTCCCCG-TCTAATACAGA-G-ACGCCAAATCTATC
*
94016402 TATCTTCAATCTGCTCCCCGTCTAATACAGAGACGCCAAATCT
1 -ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCT
94016445 GCTATCAGTG
Statistics
Matches: 375, Mismatches: 119, Indels: 86
0.65 0.21 0.15
Matches are distributed among these distances:
43 30 0.08
44 31 0.08
45 253 0.67
46 31 0.08
47 30 0.08
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.30
Consensus pattern (45 bp):
ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTATC
Found at i:94016445 original size:90 final size:90
Alignment explanation
Indices: 94015863--94016445 Score: 889
Period size: 90 Copynumber: 6.5 Consensus size: 90
94015853 CCATGCTGAA
* * *
94015863 ATCTTTGATCTGCTCCCCGCCTAATACAGAGACGCCAAATCTATCATCTTCGATCTGCTTCGATG
1 ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATG
*
94015928 TAAACACACAAATGTCAGATCTGCT
66 TAAACACACGAATGTCAGATCTGCT
* * **
94015953 ATCCTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTATCATCTTCGATCTATTTCGATG
1 ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATG
94016018 TAAACACACGAATGTCAGATCTGCT
66 TAAACACACGAATGTCAGATCTGCT
* * *
94016043 ATTTTCAATCTGCTCCCCGTCTATTACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATG
1 ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATG
*
94016108 TAAACATACGAATGTCAGATCTGCT
66 TAAACACACGAATGTCAGATCTGCT
* * * * * *
94016133 ATCTTCGATCTGCTCCCTGTCTAATACAAAGACTCTAAATCTGTTATCTTCGATCTGCTTCAATG
1 ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATG
*
94016198 TAAACACACGAATGTCAGATCTACT
66 TAAACACACGAATGTCAGATCTGCT
* * * * **
94016223 ATCTTCGATCTACTCCCCGTCTAATATAGAGATGCCAAATCTATCATCTTCGATCAACTTCGATG
1 ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATG
*
94016288 TAAACACAC-ACATGTCAGATCTACT
66 TAAACACACGA-ATGTCAGATCTGCT
* *
94016313 ATCTTTGATCTGCTCTCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATG
1 ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATG
94016378 TAAACACACGAATGTCAGATCTGCT
66 TAAACACACGAATGTCAGATCTGCT
*
94016403 ATCTTCAATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTG
1 ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTG
94016446 CTATCAGTGA
Statistics
Matches: 442, Mismatches: 49, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
89 1 0.00
90 440 1.00
91 1 0.00
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.30
Consensus pattern (90 bp):
ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATG
TAAACACACGAATGTCAGATCTGCT
Found at i:94024440 original size:20 final size:18
Alignment explanation
Indices: 94024415--94024453 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
94024405 TTTCAGGTTT
94024415 TCTTTCTCTTACACTCTCTC
1 TCTTTCTC-T-CACTCTCTC
94024435 TCTTTCTCTCACTCTCTC
1 TCTTTCTCTCACTCTCTC
94024453 T
1 T
94024454 GTAATTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 10 0.53
19 1 0.05
20 8 0.42
ACGTcount: A:0.08, C:0.41, G:0.00, T:0.51
Consensus pattern (18 bp):
TCTTTCTCTCACTCTCTC
Found at i:94028348 original size:24 final size:24
Alignment explanation
Indices: 94028299--94028353 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
94028289 AATATATAAA
* *
94028299 AATATATATATGATATAATAACTT
1 AATATATATATGATATAAAAAATT
*
94028323 AATATATATAT-TTATAAAAATATT
1 AATATATATATGATATAAAAA-ATT
94028347 AATATAT
1 AATATAT
94028354 TAAATAGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 7 0.26
24 20 0.74
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (24 bp):
AATATATATATGATATAAAAAATT
Found at i:94028502 original size:21 final size:20
Alignment explanation
Indices: 94028473--94028545 Score: 78
Period size: 20 Copynumber: 3.7 Consensus size: 20
94028463 TACATAATAA
94028473 ATAATAAATAATAAAATGAT
1 ATAATAAATAATAAAATGAT
* *
94028493 ATAGT-AA-AATAAAAATAAT
1 ATAATAAATAAT-AAAATGAT
* *
94028512 ATAATGAATAATAAAAAGAT
1 ATAATAAATAATAAAATGAT
*
94028532 ATAATATATAATAA
1 ATAATAAATAATAA
94028546 TTTTTACACA
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
18 3 0.07
19 13 0.30
20 24 0.56
21 3 0.07
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (20 bp):
ATAATAAATAATAAAATGAT
Found at i:94028508 original size:27 final size:27
Alignment explanation
Indices: 94028466--94028527 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
94028456 AAAATTATAC
94028466 ATAAT-AAATAATAAATAATAAAATGA
1 ATAATAAAATAATAAATAATAAAATGA
* *
94028492 TATAGTAAAATAA-AAATAATATAATGA
1 -ATAATAAAATAATAAATAATAAAATGA
94028519 ATAATAAAA
1 ATAATAAAA
94028528 AGATATAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 8 0.26
27 17 0.55
28 6 0.19
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (27 bp):
ATAATAAAATAATAAATAATAAAATGA
Found at i:94032785 original size:15 final size:15
Alignment explanation
Indices: 94032765--94032799 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
94032755 TAAGAAGTTG
94032765 TTAAATCTGAGGTAA
1 TTAAATCTGAGGTAA
94032780 TTAAATCTGAGGTAA
1 TTAAATCTGAGGTAA
94032795 TTAAA
1 TTAAA
94032800 CTTCTAGATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.43, C:0.06, G:0.17, T:0.34
Consensus pattern (15 bp):
TTAAATCTGAGGTAA
Found at i:94036079 original size:16 final size:17
Alignment explanation
Indices: 94036050--94036094 Score: 58
Period size: 16 Copynumber: 2.7 Consensus size: 17
94036040 AAACCCCTAC
*
94036050 TATTCATCTTTTAT-TT
1 TATTTATCTTTTATCTT
94036066 ATATTTAT-TTTTATCTT
1 -TATTTATCTTTTATCTT
94036083 TATTTATCTTTT
1 TATTTATCTTTT
94036095 TAACTTACTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 13 0.52
17 12 0.48
ACGTcount: A:0.20, C:0.09, G:0.00, T:0.71
Consensus pattern (17 bp):
TATTTATCTTTTATCTT
Found at i:94050491 original size:18 final size:18
Alignment explanation
Indices: 94050470--94050508 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
94050460 TCCTCTTCTC
*
94050470 CTTCCTCACCCTCAATTT
1 CTTCCTCACCATCAATTT
**
94050488 CTTCCTCTTCATCAATTT
1 CTTCCTCACCATCAATTT
94050506 CTT
1 CTT
94050509 ACTCCTTCTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.15, C:0.38, G:0.00, T:0.46
Consensus pattern (18 bp):
CTTCCTCACCATCAATTT
Found at i:94061699 original size:15 final size:16
Alignment explanation
Indices: 94061679--94061708 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
94061669 GAAAATTGCC
94061679 AAAATGGG-CTAAATA
1 AAAATGGGACTAAATA
94061694 AAAATGGGACTAAAT
1 AAAATGGGACTAAAT
94061709 TGAAATATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.53, C:0.07, G:0.20, T:0.20
Consensus pattern (16 bp):
AAAATGGGACTAAATA
Found at i:94066991 original size:31 final size:31
Alignment explanation
Indices: 94066953--94067016 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
94066943 ACTTCTAAGA
94066953 TGGATCAATCGGCTTTCCTTGAGTAATTCCT
1 TGGATCAATCGGCTTTCCTTGAGTAATTCCT
94066984 TGGATCAATCGGCTTTCCTTGAGTAATTCCT
1 TGGATCAATCGGCTTTCCTTGAGTAATTCCT
94067015 TG
1 TG
94067017 CTTCCTACCC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.19, C:0.22, G:0.20, T:0.39
Consensus pattern (31 bp):
TGGATCAATCGGCTTTCCTTGAGTAATTCCT
Found at i:94073055 original size:22 final size:23
Alignment explanation
Indices: 94073033--94073084 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
94073023 ATGTTTTTAC
94073033 TTTTATTTTACTTTAAGACTACT
1 TTTTATTTTACTTTAAGACTACT
*
94073056 TTTTATTTTTCTTTAAG-CTTA-T
1 TTTTATTTTACTTTAAGAC-TACT
94073078 TTTTATT
1 TTTTATT
94073085 AGGTTTTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 9 0.33
23 18 0.67
ACGTcount: A:0.21, C:0.10, G:0.04, T:0.65
Consensus pattern (23 bp):
TTTTATTTTACTTTAAGACTACT
Found at i:94080733 original size:19 final size:20
Alignment explanation
Indices: 94080692--94080733 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
94080682 GTAAATAAAT
**
94080692 AAAATAAATAATAATAATGA
1 AAAATAAATAATAATAAAAA
*
94080712 AAAATAAA-AGTAATAAAAA
1 AAAATAAATAATAATAAAAA
94080731 AAA
1 AAA
94080734 GTTAACATAC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.19
Consensus pattern (20 bp):
AAAATAAATAATAATAAAAA
Found at i:94080777 original size:26 final size:26
Alignment explanation
Indices: 94080721--94080777 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
94080711 AAAAATAAAA
*
94080721 GTAATAAAAAAAAGTTAACATACTAT
1 GTAATAAAAAAAAGTTAACACACTAT
* * *
94080747 CTAATAAAAAAAATTTAACACATTAT
1 GTAATAAAAAAAAGTTAACACACTAT
94080773 GTAAT
1 GTAAT
94080778 TCATTAGTCT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.56, C:0.09, G:0.05, T:0.30
Consensus pattern (26 bp):
GTAATAAAAAAAAGTTAACACACTAT
Found at i:94090800 original size:17 final size:17
Alignment explanation
Indices: 94090778--94090812 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
94090768 TTCAAGATTG
*
94090778 AATACATAAAATTTGAA
1 AATACATAAAATATGAA
*
94090795 AATACATATAATATGAA
1 AATACATAAAATATGAA
94090812 A
1 A
94090813 GGAGTAAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.60, C:0.06, G:0.06, T:0.29
Consensus pattern (17 bp):
AATACATAAAATATGAA
Found at i:94095165 original size:42 final size:42
Alignment explanation
Indices: 94095113--94095199 Score: 147
Period size: 42 Copynumber: 2.1 Consensus size: 42
94095103 CTCGATATAT
*
94095113 TATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTAGTAATA
1 TATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTAGTAATA
* *
94095155 TATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTACTA
1 TATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTAGTAATA
94095197 TAT
1 TAT
94095200 CCGGGCTTAA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (42 bp):
TATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTAGTAATA
Found at i:94098094 original size:22 final size:22
Alignment explanation
Indices: 94098066--94098109 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
94098056 TTTGAGAGAG
94098066 AAAGGGAAGAAACAATTCTATT
1 AAAGGGAAGAAACAATTCTATT
94098088 AAAGGGAAGAAACAATTCTATT
1 AAAGGGAAGAAACAATTCTATT
94098110 TCTGTATCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.50, C:0.09, G:0.18, T:0.23
Consensus pattern (22 bp):
AAAGGGAAGAAACAATTCTATT
Found at i:94103612 original size:27 final size:27
Alignment explanation
Indices: 94103582--94103636 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
94103572 AGGCTATATT
94103582 TGAAATGATAGATCAAGGAAATCAAGA
1 TGAAATGATAGATCAAGGAAATCAAGA
*
94103609 TGAAATTATAGATCAAGGAAATCAAGA
1 TGAAATGATAGATCAAGGAAATCAAGA
94103636 T
1 T
94103637 TTGGGCTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.51, C:0.07, G:0.20, T:0.22
Consensus pattern (27 bp):
TGAAATGATAGATCAAGGAAATCAAGA
Found at i:94110630 original size:26 final size:26
Alignment explanation
Indices: 94110591--94110698 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 26
94110581 TGATACAAAT
94110591 TGATAAT-GAGTTAGGTAAATGTTCCA
1 TGATAATGGA-TTAGGTAAATGTTCCA
*
94110617 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
94110643 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
94110669 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
94110695 TGAT
1 TGAT
94110699 GAGAATTTCA
Statistics
Matches: 77, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
26 75 0.97
27 2 0.03
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:94116831 original size:26 final size:26
Alignment explanation
Indices: 94116792--94116899 Score: 144
Period size: 26 Copynumber: 4.2 Consensus size: 26
94116782 TGATACAAAT
94116792 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * * *
94116818 TGATAATGGATTAGGTAATTATTCCG
1 TGATAATGGGTTAGGTAAATGTTCCA
*
94116844 TAATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
94116870 TGATAATGGTTTAGGTAAATGCTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
94116896 TGAT
1 TGAT
94116900 GGGAATTTCA
Statistics
Matches: 69, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 69 1.00
ACGTcount: A:0.31, C:0.07, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:94124201 original size:11 final size:11
Alignment explanation
Indices: 94124185--94124210 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
94124175 CAATCATCCA
94124185 TCATCCCTCAT
1 TCATCCCTCAT
94124196 TCATCCCTCAT
1 TCATCCCTCAT
94124207 TCAT
1 TCAT
94124211 TCACATATCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.19, C:0.42, G:0.00, T:0.38
Consensus pattern (11 bp):
TCATCCCTCAT
Found at i:94124910 original size:45 final size:45
Alignment explanation
Indices: 94124846--94124935 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 45
94124836 TGTTACCTCA
*
94124846 CATAGTCTTTTATGTGCTTATTAGATTTAATTAATCGTTTGAATT
1 CATAGTCTTTTATGTGCTTATTAGATTTAATTAATCATTTGAATT
*
94124891 CATAGTCTTTTATGTGCTTATTCGATTTAATTAATCATTTGAATT
1 CATAGTCTTTTATGTGCTTATTAGATTTAATTAATCATTTGAATT
94124936 TACATAGGGA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.27, C:0.10, G:0.12, T:0.51
Consensus pattern (45 bp):
CATAGTCTTTTATGTGCTTATTAGATTTAATTAATCATTTGAATT
Found at i:94128782 original size:52 final size:52
Alignment explanation
Indices: 94128701--94128804 Score: 145
Period size: 52 Copynumber: 2.0 Consensus size: 52
94128691 AACTCGGATA
* * * *
94128701 GCTGCTTTTAAACCAACTCTTCAAAAAATGCTAGTTGTATTAACAGCTTCTT
1 GCTGCTCTTAAACCAACTCTTCAAAAAATGCTAGCTATATTAACAACTTCTT
* * *
94128753 GCTGCTCTTAAACCACCTCTTCAACAAATGCTAGCTATTTTAACAACTTCTT
1 GCTGCTCTTAAACCAACTCTTCAAAAAATGCTAGCTATATTAACAACTTCTT
94128805 TCTAACTACC
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
52 45 1.00
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.36
Consensus pattern (52 bp):
GCTGCTCTTAAACCAACTCTTCAAAAAATGCTAGCTATATTAACAACTTCTT
Found at i:94134554 original size:45 final size:42
Alignment explanation
Indices: 94134440--94134559 Score: 127
Period size: 41 Copynumber: 2.8 Consensus size: 42
94134430 CTTACATCAC
* *
94134440 ATATCGATGCCACTGTCCAAGACAG-GGTCTTACACGAATCAA
1 ATATCGATGCCAATGTCCAAGAC-GTGGTCTTACACGAACCAA
* * * *
94134482 ATA-CGATGTCGATGTCCCAGACATGGTCTTACACGTAACCACA
1 ATATCGATGCCAATGTCCAAGACGTGGTCTTACACG-AACCA-A
*
94134525 TATATCGATGCCAATGTCCTAGACGTGGTCTTACA
1 -ATATCGATGCCAATGTCCAAGACGTGGTCTTACA
94134560 TGAGAACACA
Statistics
Matches: 63, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
41 26 0.41
42 7 0.11
43 1 0.02
44 3 0.05
45 26 0.41
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (42 bp):
ATATCGATGCCAATGTCCAAGACGTGGTCTTACACGAACCAA
Found at i:94134570 original size:45 final size:44
Alignment explanation
Indices: 94134440--94134572 Score: 130
Period size: 45 Copynumber: 3.0 Consensus size: 44
94134430 CTTACATCAC
* *
94134440 ATATCGATGCCACTGTCCAAGACAG-GGTCTTACACGAATCA-A-
1 ATATCGATGCCAATGTCCAAGAC-GTGGTCTTACACGAAACACAT
* * * * *
94134482 ATA-CGATGTCGATGTCCCAGACATGGTCTTACACGTAACCACAT
1 ATATCGATGCCAATGTCCAAGACGTGGTCTTACACG-AAACACAT
* *
94134526 ATATCGATGCCAATGTCCTAGACGTGGTCTTACATGAGAACACAT
1 ATATCGATGCCAATGTCCAAGACGTGGTCTTACACGA-AACACAT
94134571 AT
1 AT
94134573 TGGAAATCCT
Statistics
Matches: 73, Mismatches: 12, Indels: 9
0.78 0.13 0.10
Matches are distributed among these distances:
41 26 0.36
42 7 0.10
43 1 0.01
44 4 0.05
45 35 0.48
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (44 bp):
ATATCGATGCCAATGTCCAAGACGTGGTCTTACACGAAACACAT
Found at i:94136168 original size:47 final size:47
Alignment explanation
Indices: 94136117--94136248 Score: 176
Period size: 47 Copynumber: 2.8 Consensus size: 47
94136107 TGATTTTCAT
* *
94136117 ATAAGACCATAGCTGGGCTATGGCATCGGTGTGATATGAGCTT-TCGC
1 ATAAGACCATATCTGGGATATGGCATCGGTGTGATATGAGCTTCT-GC
* ** *
94136164 ATAAGACCATATTTGGGATATGGCATCGGTGTGATATTTGCTTCTGT
1 ATAAGACCATATCTGGGATATGGCATCGGTGTGATATGAGCTTCTGC
* *
94136211 GTAAGACCATATCTGGGATATGGCATCAGTGTGATATG
1 ATAAGACCATATCTGGGATATGGCATCGGTGTGATATG
94136249 TGATCCGTGT
Statistics
Matches: 74, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
47 73 0.99
48 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (47 bp):
ATAAGACCATATCTGGGATATGGCATCGGTGTGATATGAGCTTCTGC
Found at i:94136289 original size:46 final size:46
Alignment explanation
Indices: 94136118--94136299 Score: 168
Period size: 47 Copynumber: 3.9 Consensus size: 46
94136108 GATTTTCATA
* * * * * **
94136118 TAAGACCATAGCTGGGCTATGGCATCGGTGTGATATGAGCTTTCGCA
1 TAAGACCATATCTGGGATATGGCATCGGTGTGATATGTG-ATCCGTG
* * * *
94136165 TAAGACCATATTTGGGATATGGCATCGGTGTGATATTTGCTTCTGTG
1 TAAGACCATATCTGGGATATGGCATCGGTGTGATATGTG-ATCCGTG
*
94136212 TAAGACCATATCTGGGATATGGCATCAGTGTGATATGTGATCCGTG
1 TAAGACCATATCTGGGATATGGCATCGGTGTGATATGTGATCCGTG
* * * *
94136258 TAAGGCCATGA-CTGGGCTATGGCTTTGGTGTGTGATATGTGA
1 TAAGACCAT-ATCTGGGATATGGC-ATCG-GTGTGATATGTGA
94136300 CTATGTGCAA
Statistics
Matches: 113, Mismatches: 19, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
46 24 0.21
47 76 0.67
48 13 0.12
ACGTcount: A:0.23, C:0.15, G:0.30, T:0.32
Consensus pattern (46 bp):
TAAGACCATATCTGGGATATGGCATCGGTGTGATATGTGATCCGTG
Found at i:94138398 original size:14 final size:15
Alignment explanation
Indices: 94138381--94138409 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
94138371 TCACGAAAAT
94138381 TTCACACAT-ATAAA
1 TTCACACATAATAAA
94138395 TTCACACATAATAAA
1 TTCACACATAATAAA
94138410 CACTGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:94143123 original size:28 final size:28
Alignment explanation
Indices: 94143091--94143157 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
94143081 ATTTACTAGA
*
94143091 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
94143119 ATACCCCTATGTATGCTAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
*
94143147 ATATCCCTATG
1 ATACCCCTATG
94143158 GTTAATTTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.31, C:0.25, G:0.09, T:0.34
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:94143362 original size:29 final size:28
Alignment explanation
Indices: 94143262--94143351 Score: 128
Period size: 28 Copynumber: 3.2 Consensus size: 28
94143252 GGAAGCGTCT
94143262 TGGTGGCTA-TGCCACAAATTATCTGTTC
1 TGGTGGC-ACTGCCACAAATTATCTGTTC
*
94143290 TGGTGGCCCTGCCACAAATTATCTGTTC
1 TGGTGGCACTGCCACAAATTATCTGTTC
* *
94143318 TGGTGGCACTGCCACAAAATATATGTATC
1 TGGTGGCACTGCCACAAATTATCTGT-TC
94143347 TGGTG
1 TGGTG
94143352 ACTCTGTCAC
Statistics
Matches: 56, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
28 49 0.88
29 7 0.12
ACGTcount: A:0.22, C:0.22, G:0.23, T:0.32
Consensus pattern (28 bp):
TGGTGGCACTGCCACAAATTATCTGTTC
Found at i:94143376 original size:56 final size:55
Alignment explanation
Indices: 94143262--94143376 Score: 126
Period size: 56 Copynumber: 2.1 Consensus size: 55
94143252 GGAAGCGTCT
* * *
94143262 TGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACAAATTATCTGTTC
1 TGGTGGCTATGCCACAAAATATATGTTCTGGTGACCCTGCCAC-AATTATCTGTTC
* * *
94143318 TGGTGGC-ACTGCCACAAAATATATGTATCTGGTGACTCTGTCAC-ATTTTCTGTATC
1 TGGTGGCTA-TGCCACAAAATATATGT-TCTGGTGACCCTGCCACAATTATCTGT-TC
94143374 TGG
1 TGG
94143377 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
55 9 0.18
56 27 0.54
57 14 0.28
ACGTcount: A:0.21, C:0.23, G:0.22, T:0.35
Consensus pattern (55 bp):
TGGTGGCTATGCCACAAAATATATGTTCTGGTGACCCTGCCACAATTATCTGTTC
Found at i:94143844 original size:18 final size:18
Alignment explanation
Indices: 94143805--94143845 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
94143795 TAATAAGGCC
* *
94143805 TTTTAATTATTTTTATGG
1 TTTTAATTACTTTTATGA
*
94143823 TTTTAATTACTTTTATTA
1 TTTTAATTACTTTTATGA
94143841 TTTTA
1 TTTTA
94143846 TTTTACTATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.68
Consensus pattern (18 bp):
TTTTAATTACTTTTATGA
Found at i:94149901 original size:72 final size:71
Alignment explanation
Indices: 94149791--94149924 Score: 182
Period size: 72 Copynumber: 1.9 Consensus size: 71
94149781 TGTTAATGCG
** *
94149791 TTGGGGTCTGGGTACTGACTTTGTGTATAAACCTGTGAGTAGCTC-AATGAGCGGGCATTACATG
1 TTGGGGTCCAGGTACTGACTTTGTGTACAAACCTGTGAGTAGCTCAAAT--GCGGGCATTACATG
94149855 ATAATGTT
64 ATAATGTT
* *
94149863 TTGGGGTCCAGGTGCTGACTTTGTGTACAGA-CTCGTGAGTAGCTCAAATGCGGGCATTACAT
1 TTGGGGTCCAGGTACTGACTTTGTGTACAAACCT-GTGAGTAGCTCAAATGCGGGCATTACAT
94149925 AATATGTGGT
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
71 15 0.27
72 37 0.67
73 3 0.05
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.31
Consensus pattern (71 bp):
TTGGGGTCCAGGTACTGACTTTGTGTACAAACCTGTGAGTAGCTCAAATGCGGGCATTACATGAT
AATGTT
Found at i:94163152 original size:40 final size:40
Alignment explanation
Indices: 94163095--94163193 Score: 128
Period size: 40 Copynumber: 2.5 Consensus size: 40
94163085 TTGAACACTA
* **
94163095 GCTATGACACG-GACGTGTGTAGGCTGTGTGAGGGACATGG
1 GCTATGACACGAG-CGTGTGTAGGCCGTGTGAGGGACACAG
*
94163135 GCTATGACACGAGCGTGTTTAGGCCGTGTGAGGGACACAG
1 GCTATGACACGAGCGTGTGTAGGCCGTGTGAGGGACACAG
*
94163175 GCTAGGGACACGAGCGTGT
1 GCTA-TGACACGAGCGTGT
94163194 ATTCAGCCGT
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
40 38 0.73
41 14 0.27
ACGTcount: A:0.21, C:0.18, G:0.40, T:0.20
Consensus pattern (40 bp):
GCTATGACACGAGCGTGTGTAGGCCGTGTGAGGGACACAG
Found at i:94164294 original size:13 final size:13
Alignment explanation
Indices: 94164272--94164304 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
94164262 TTTCAAACCA
94164272 AAATAC-ATAAGT
1 AAATACAATAAGT
94164284 AAATACAATAAGT
1 AAATACAATAAGT
*
94164297 AATTACAA
1 AAATACAA
94164305 CTTCAACTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.61, C:0.09, G:0.06, T:0.24
Consensus pattern (13 bp):
AAATACAATAAGT
Found at i:94165356 original size:27 final size:27
Alignment explanation
Indices: 94165283--94165369 Score: 97
Period size: 27 Copynumber: 3.3 Consensus size: 27
94165273 ATGGAGGAAA
*
94165283 TCCTTTCATGATTA-GCC-CAAAAGCGT
1 TCCTTTCAT-ATTATGCCACAAAGGCGT
* ** *
94165309 TCCTTTCATATTGTGGTACAAAGGCTT
1 TCCTTTCATATTATGCCACAAAGGCGT
*
94165336 TCCTTTCATATTATGCCACAAAGTCGT
1 TCCTTTCATATTATGCCACAAAGGCGT
94165363 TCCTTTC
1 TCCTTTC
94165370 CTAACTTGTT
Statistics
Matches: 49, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
25 3 0.06
26 10 0.20
27 36 0.73
ACGTcount: A:0.23, C:0.25, G:0.14, T:0.38
Consensus pattern (27 bp):
TCCTTTCATATTATGCCACAAAGGCGT
Found at i:94168781 original size:23 final size:23
Alignment explanation
Indices: 94168703--94168787 Score: 84
Period size: 23 Copynumber: 3.7 Consensus size: 23
94168693 ATGAAGCTAT
* *
94168703 CACCCTCCAATCACAATCGAT-TA
1 CACCCTCCAAACACAA-CCATATA
* *
94168726 TACCCTCCAAACACAACCAAATA
1 CACCCTCCAAACACAACCATATA
* *
94168749 -TCTCTACCAAACACAACCATATA
1 CACCCT-CCAAACACAACCATATA
94168772 CACCCTCCAAACACAA
1 CACCCTCCAAACACAA
94168788 ACAAGTATAG
Statistics
Matches: 50, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
22 5 0.10
23 42 0.84
24 3 0.06
ACGTcount: A:0.42, C:0.40, G:0.01, T:0.16
Consensus pattern (23 bp):
CACCCTCCAAACACAACCATATA
Found at i:94170263 original size:13 final size:13
Alignment explanation
Indices: 94170227--94170269 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
94170217 CCCGAACACC
*
94170227 TAATTTTAATTTCT
1 TAATTCTAATTT-T
94170241 TAA-TCTTAATTTT
1 TAATTC-TAATTTT
94170254 TAATTCTAATTTT
1 TAATTCTAATTTT
94170267 TAA
1 TAA
94170270 CATTTTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 15 0.58
14 11 0.42
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (13 bp):
TAATTCTAATTTT
Found at i:94176528 original size:28 final size:27
Alignment explanation
Indices: 94176460--94176574 Score: 152
Period size: 24 Copynumber: 4.4 Consensus size: 27
94176450 GATATGACAT
*
94176460 TGTGCTAAGTGAAATAAGACCATGGCA
1 TGTGCTAAGTGAAATAAGTCCATGGCA
94176487 --T-CTAAGTGAAATAAGTCCATGGCAA
1 TGTGCTAAGTGAAATAAGTCCATGGC-A
94176512 TGTGCTAAGTGAAATAAGTCCATGGCA
1 TGTGCTAAGTGAAATAAGTCCATGGCA
*
94176539 --T-CTAAGTGAAATTAGTCCATGGCA
1 TGTGCTAAGTGAAATAAGTCCATGGCA
94176563 TTGTGCTAAGTG
1 -TGTGCTAAGTG
94176575 CGAAATTTCT
Statistics
Matches: 78, Mismatches: 2, Indels: 15
0.82 0.02 0.16
Matches are distributed among these distances:
24 43 0.55
25 3 0.04
27 3 0.04
28 29 0.37
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (27 bp):
TGTGCTAAGTGAAATAAGTCCATGGCA
Found at i:94176529 original size:52 final size:52
Alignment explanation
Indices: 94176460--94176574 Score: 203
Period size: 52 Copynumber: 2.2 Consensus size: 52
94176450 GATATGACAT
94176460 TGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCCATGGCAA
1 TGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCCATGGCAA
* * *
94176512 TGTGCTAAGTGAAATAAGTCCATGGCATCTAAGTGAAATTAGTCCATGGCAT
1 TGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCCATGGCAA
94176564 TGTGCTAAGTG
1 TGTGCTAAGTG
94176575 CGAAATTTCT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 60 1.00
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (52 bp):
TGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCCATGGCAA
Found at i:94176660 original size:51 final size:51
Alignment explanation
Indices: 94176599--94176848 Score: 378
Period size: 51 Copynumber: 4.9 Consensus size: 51
94176589 TGAACGTTAG
* * * * *
94176599 GAATAAAATAGATTTGGACACAAGTGCGGTATTATGTGAAGGTCACTTTGT
1 GAATATAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* *
94176650 GAATATAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGTCACTTTAT
1 GAATATAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
*
94176701 GAATATAATATCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
1 GAATATAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
94176752 GAATATAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
1 GAATATAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* *
94176803 GAATAAAATAGCTTTGG-CTACAAG-GATGGAACTATGTGAAGGCCAC
1 GAATATAATAGCTTTGGAC-ACAAGTG-TGGTACTATGTGAAGGCCAC
94176849 CGTGTATCCG
Statistics
Matches: 186, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
50 2 0.01
51 184 0.99
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.30
Consensus pattern (51 bp):
GAATATAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
Found at i:94178550 original size:28 final size:28
Alignment explanation
Indices: 94178493--94178620 Score: 100
Period size: 28 Copynumber: 4.6 Consensus size: 28
94178483 GTCCCATCGA
* ** **
94178493 ACTTACCTCGTGTTTACTGTCTTGATGG
1 ACTTACCTCATGTTTACTGTCCCGACAG
* * * *
94178521 ACTTACCTCATGTTTACTATCTCGGCGG
1 ACTTACCTCATGTTTACTGTCCCGACAG
* * *
94178549 ACATA-CTCGTGTGTACTGTCCCTG-CAG
1 ACTTACCTCATGTTTACTGTCCC-GACAG
**
94178576 ACTTACCTCATGTTTGTTGTCCCGACAG
1 ACTTACCTCATGTTTACTGTCCCGACAG
94178604 ACTTACC-CATGTTTACT
1 ACTTACCTCATGTTTACT
94178621 ATCCAAATAG
Statistics
Matches: 79, Mismatches: 18, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
27 28 0.35
28 51 0.65
ACGTcount: A:0.18, C:0.27, G:0.18, T:0.37
Consensus pattern (28 bp):
ACTTACCTCATGTTTACTGTCCCGACAG
Found at i:94197319 original size:35 final size:35
Alignment explanation
Indices: 94197280--94197356 Score: 82
Period size: 35 Copynumber: 2.2 Consensus size: 35
94197270 ACCGTCGTTG
* * * * *
94197280 TGGTGTCGCCCCATAGAGCCTACTAACTGTCGTCT
1 TGGTGTCGCCCCATAGAACCTAATAACCGTCATCA
* * *
94197315 TGGTGTTGCTCTATAGAACCTAATAACCGTCATCA
1 TGGTGTCGCCCCATAGAACCTAATAACCGTCATCA
94197350 TGGTGTC
1 TGGTGTC
94197357 ATCTCGAAGG
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.21, C:0.26, G:0.22, T:0.31
Consensus pattern (35 bp):
TGGTGTCGCCCCATAGAACCTAATAACCGTCATCA
Found at i:94207466 original size:40 final size:40
Alignment explanation
Indices: 94207411--94207587 Score: 277
Period size: 40 Copynumber: 4.5 Consensus size: 40
94207401 CGAATGATAA
*
94207411 CCGGGCTAGGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
94207451 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* **
94207491 CCGGGCTAGGTCCCGAAGGCATTTGTGTTAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
94207531 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
94207571 CC-GGCTAAATCCCGAAG
1 CCGGGCTAAGTCCCGAAG
94207588 CTACTTGGTT
Statistics
Matches: 127, Mismatches: 9, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
39 16 0.13
40 111 0.87
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:94209229 original size:55 final size:55
Alignment explanation
Indices: 94209169--94209275 Score: 214
Period size: 55 Copynumber: 1.9 Consensus size: 55
94209159 GAGTTTTTAG
94209169 GCACCAATAAAAATGGGGTCTTTACATGGAGTAACTTGCTCGTTAGCTAATTAAA
1 GCACCAATAAAAATGGGGTCTTTACATGGAGTAACTTGCTCGTTAGCTAATTAAA
94209224 GCACCAATAAAAATGGGGTCTTTACATGGAGTAACTTGCTCGTTAGCTAATT
1 GCACCAATAAAAATGGGGTCTTTACATGGAGTAACTTGCTCGTTAGCTAATT
94209276 TAATTATTTG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 52 1.00
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.30
Consensus pattern (55 bp):
GCACCAATAAAAATGGGGTCTTTACATGGAGTAACTTGCTCGTTAGCTAATTAAA
Found at i:94210448 original size:18 final size:17
Alignment explanation
Indices: 94210421--94210454 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
94210411 ATGGATTTTG
*
94210421 AAATTAAAAAATATATT
1 AAATTAAAAAAAATATT
94210438 AAATGTAAAAAAAATAT
1 AAAT-TAAAAAAAATAT
94210455 GTTTTTTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (17 bp):
AAATTAAAAAAAATATT
Found at i:94222336 original size:13 final size:13
Alignment explanation
Indices: 94222320--94222345 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
94222310 TTATATTAAG
94222320 ATATAATATATAT
1 ATATAATATATAT
94222333 ATATAATATATAT
1 ATATAATATATAT
94222346 CATAAAGCAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
ATATAATATATAT
Found at i:94224888 original size:54 final size:54
Alignment explanation
Indices: 94224764--94225042 Score: 193
Period size: 54 Copynumber: 5.1 Consensus size: 54
94224754 TTAGTTTACC
* * * * *
94224764 AAATTACCAAAGTACCCCCGATTTATAGAATTACTGTTCTACCCTCGATTTATA
1 AAATTACTAAAATACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTATA
* * *** * *
94224818 GAATTACCATTTTACCCTCGATTTATAGAATTATTATTTTACCCTCGATTTACA
1 AAATTACTAAAATACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTATA
* * * *** * *
94224872 AAATTACTAAAATACCC-CTGGTTTGTAAAATTACTAAAATACCCCCTGATTTGTA
1 AAATTACTAAAATACCCTC-GATTTATAGAATTACTATTTTACCCTC-GATTTATA
* * * * * ***
94224927 AAATTACTGAAATACCCTTGACTTGTA-AAAATTGCCAAAGTACCCTCGATTTATA
1 AAATTACTAAAATACCCTCGA-TT-TATAGAATTACTATTTTACCCTCGATTTATA
*** * * * *
94224982 AAATTACTATTTTACCCTCGATTTATAGAATTATTGTTTTACCCTTGATTTGTA
1 AAATTACTAAAATACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTATA
94225036 AAATTAC
1 AAATTAC
94225043 CGTTTTACCC
Statistics
Matches: 171, Mismatches: 48, Indels: 12
0.74 0.21 0.05
Matches are distributed among these distances:
53 3 0.02
54 103 0.60
55 46 0.27
56 18 0.11
57 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.09, T:0.37
Consensus pattern (54 bp):
AAATTACTAAAATACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTATA
Found at i:94224926 original size:28 final size:27
Alignment explanation
Indices: 94224871--94225222 Score: 169
Period size: 27 Copynumber: 13.0 Consensus size: 27
94224861 CTCGATTTAC
*
94224871 AAAATTACTAAAATACCCCTGGTTTGT
1 AAAATTACTAAAATACCCCTGATTTGT
94224898 AAAATTACTAAAATACCCCCTGATTTGT
1 AAAATTACTAAAATA-CCCCTGATTTGT
* * *
94224926 AAAATTACTGAAATACCCTTGACTTGT
1 AAAATTACTAAAATACCCCTGATTTGT
* * * *
94224953 AAAAATTGCCAAAGTA-CCCTCGATTTAT
1 -AAAATTACTAAAATACCCCT-GATTTGT
*** *
94224981 AAAATTACTATTTTA-CCCTCGATTTAT
1 AAAATTACTAAAATACCCCT-GATTTGT
* * **** *
94225008 AGAATTATTGTTTTACCCTTGATTTGT
1 AAAATTACTAAAATACCCCTGATTTGT
***** * * *
94225035 AAAATTACCGTTTTA-CCCTCAATTAT
1 AAAATTACTAAAATACCCCTGATTTGT
* * * **
94225061 GAAATTACTGAAATA-CCCTTATAGGGT
1 AAAATTACTAAAATACCCCTGAT-TTGT
* * *
94225088 AGAATTACCAAAACACCCCTG-TTTGT
1 AAAATTACTAAAATACCCCTGATTTGT
* * *
94225114 AAAATTACCAAAATACCACTGGTTTGT
1 AAAATTACTAAAATACCCCTGATTTGT
* ** *
94225141 GAAATTACCGAAATA-CCCTCAATTTGT
1 AAAATTACTAAAATACCCCT-GATTTGT
* * **
94225168 AAAATTACCAAACTACCCCTGATTTAC
1 AAAATTACTAAAATACCCCTGATTTGT
*
94225195 AAAATTAC-AGAAATACCCTTGATTTGT
1 AAAATTACTA-AAATACCCCTGATTTGT
94225222 A
1 A
94225223 GATTTACCAA
Statistics
Matches: 251, Mismatches: 64, Indels: 20
0.75 0.19 0.06
Matches are distributed among these distances:
26 46 0.18
27 153 0.61
28 52 0.21
ACGTcount: A:0.37, C:0.20, G:0.10, T:0.34
Consensus pattern (27 bp):
AAAATTACTAAAATACCCCTGATTTGT
Found at i:94224940 original size:55 final size:55
Alignment explanation
Indices: 94224857--94224990 Score: 153
Period size: 55 Copynumber: 2.4 Consensus size: 55
94224847 ATTATTATTT
* * ** *
94224857 TACCCTCGATTTACAAAATTACTAAAATACCCCTGGTTTGT-AAAATTACTAAAA
1 TACCCCCGATTTATAAAATTACTAAAATACCCCTGACTTGTAAAAATTACCAAAA
* * * * *
94224911 TACCCCCTGATTTGTAAAATTACTGAAATACCCTTGACTTGTAAAAATTGCCAAAG
1 TACCCCC-GATTTATAAAATTACTAAAATACCCCTGACTTGTAAAAATTACCAAAA
*
94224967 TACCCTCGATTTATAAAATTACTA
1 TACCCCCGATTTATAAAATTACTA
94224991 TTTTACCCTC
Statistics
Matches: 65, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
54 6 0.09
55 43 0.66
56 16 0.25
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.32
Consensus pattern (55 bp):
TACCCCCGATTTATAAAATTACTAAAATACCCCTGACTTGTAAAAATTACCAAAA
Found at i:94225047 original size:27 final size:27
Alignment explanation
Indices: 94224776--94225070 Score: 173
Period size: 27 Copynumber: 10.9 Consensus size: 27
94224766 ATTACCAAAG
* * *
94224776 TACCCCCGATTTATAGAATTACTGTTC
1 TACCCTCGATTTATAAAATTACTGTTT
* **
94224803 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAAAATTACTGTTT
* * *
94224830 TACCCTCGATTTATAGAATTATTATTT
1 TACCCTCGATTTATAAAATTACTGTTT
* ****
94224857 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTATAAAATTACTGTTT
* * ****
94224884 TACCC-CTGGTTTGTAAAATTACTAAAA
1 TACCCTC-GATTTATAAAATTACTGTTT
* * ***
94224911 TACCCCCTGATTTGTAAAATTACTGAAA
1 TACCCTC-GATTTATAAAATTACTGTTT
* * *****
94224939 TACCCTTGACTTGTA-AAAATTGCCAAAG
1 TACCCTCGA-TT-TATAAAATTACTGTTT
*
94224967 TACCCTCGATTTATAAAATTACTATTT
1 TACCCTCGATTTATAAAATTACTGTTT
* *
94224994 TACCCTCGATTTATAGAATTATTGTTT
1 TACCCTCGATTTATAAAATTACTGTTT
* * *
94225021 TACCCTTGATTTGTAAAATTACCGTTT
1 TACCCTCGATTTATAAAATTACTGTTT
* *
94225048 TACCCTC-AATTATGAAATTACTG
1 TACCCTCGATTTATAAAATTACTG
94225071 AAATACCCTT
Statistics
Matches: 220, Mismatches: 43, Indels: 11
0.80 0.16 0.04
Matches are distributed among these distances:
26 15 0.07
27 160 0.73
28 44 0.20
29 1 0.00
ACGTcount: A:0.33, C:0.20, G:0.09, T:0.38
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACTGTTT
Found at i:94225052 original size:137 final size:135
Alignment explanation
Indices: 94224830--94225080 Score: 306
Period size: 137 Copynumber: 1.8 Consensus size: 135
94224820 ATTACCATTT
* * *
94224830 TACCCTCGATTTATAGAATTATTATTTTACCCTCGATTTACAAAATTACTAAAATACCCCTGGTT
1 TACCCTCGATTTATAAAATTACTATTTTACCCTCGATTTACAAAATTACTAAAATACCCCTGATT
* *
94224895 TGTAAAATTACTAAAATACCCCCTGATT-TGTAAAATTACTGAAATACCCTTGACTTGTAAAAAT
66 TGTAAAATTACCAAAATACCCCC-AATTATG--AAATTACTGAAATACCCTTGACTTGTAAAAAT
94224959 TGCCAAAG
128 TGCCAAAG
* * * **** *
94224967 TACCCTCGATTTATAAAATTACTATTTTACCCTCGATTTATAGAATTATTGTTTTACCCTTGATT
1 TACCCTCGATTTATAAAATTACTATTTTACCCTCGATTTACAAAATTACTAAAATACCCCTGATT
**** *
94225032 TGTAAAATTACCGTTTTACCCTCAATTATGAAATTACTGAAATACCCTT
66 TGTAAAATTACCAAAATACCCCCAATTATGAAATTACTGAAATACCCTT
94225081 ATAGGGTAGA
Statistics
Matches: 95, Mismatches: 18, Indels: 4
0.81 0.15 0.03
Matches are distributed among these distances:
135 19 0.20
136 3 0.03
137 73 0.77
ACGTcount: A:0.34, C:0.20, G:0.09, T:0.38
Consensus pattern (135 bp):
TACCCTCGATTTATAAAATTACTATTTTACCCTCGATTTACAAAATTACTAAAATACCCCTGATT
TGTAAAATTACCAAAATACCCCCAATTATGAAATTACTGAAATACCCTTGACTTGTAAAAATTGC
CAAAG
Found at i:94225240 original size:81 final size:80
Alignment explanation
Indices: 94225090--94225240 Score: 175
Period size: 81 Copynumber: 1.9 Consensus size: 80
94225080 TATAGGGTAG
** * * *
94225090 AATTACCAAAACACCCCTGTTTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAAT
1 AATTACCAAAACACCCCTGTTTACAAAATTACCAAAATACCACTGATTTGTGAAATTACCAAAAC
94225155 ACCCTCAATTTGTAA
66 ACCCTCAATTTGTAA
*
94225170 AATTACC-AAACTACCCCTGATTTACAAAATTA-CAGAAATACC-CTTGATTTGT-AGATTTACC
1 AATTACCAAAAC-ACCCCTG-TTTACAAAATTACCA-AAATACCAC-TGATTTGTGA-AATTACC
94225231 AAAACACCCT
61 AAAACACCCT
94225241 TGTAAGATGA
Statistics
Matches: 60, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
79 4 0.07
80 18 0.30
81 38 0.63
ACGTcount: A:0.39, C:0.24, G:0.09, T:0.28
Consensus pattern (80 bp):
AATTACCAAAACACCCCTGTTTACAAAATTACCAAAATACCACTGATTTGTGAAATTACCAAAAC
ACCCTCAATTTGTAA
Found at i:94225241 original size:27 final size:27
Alignment explanation
Indices: 94225090--94225242 Score: 125
Period size: 27 Copynumber: 5.7 Consensus size: 27
94225080 TATAGGGTAG
*
94225090 AATTACCAAAACACCCCTG-TTTGTAA
1 AATTACCAAAACACCCTTGATTTGTAA
* * *
94225116 AATTACCAAAATACCAC-TGGTTTGTGA
1 AATTACCAAAACACC-CTTGATTTGTAA
* * **
94225143 AATTACCGAAATACCCTCAATTTGTAA
1 AATTACCAAAACACCCTTGATTTGTAA
* **
94225170 AATTACC-AAACTACCCCTGATTTACAA
1 AATTACCAAAAC-ACCCTTGATTTGTAA
* *
94225197 AATTA-CAGAAATACCCTTGATTTGTAG
1 AATTACCA-AAACACCCTTGATTTGTAA
*
94225224 ATTTACCAAAACACCCTTG
1 AATTACCAAAACACCCTTG
94225243 TAAGATGAAA
Statistics
Matches: 100, Mismatches: 20, Indels: 13
0.75 0.15 0.10
Matches are distributed among these distances:
26 21 0.21
27 74 0.74
28 5 0.05
ACGTcount: A:0.39, C:0.24, G:0.09, T:0.29
Consensus pattern (27 bp):
AATTACCAAAACACCCTTGATTTGTAA
Found at i:94226217 original size:25 final size:26
Alignment explanation
Indices: 94226120--94226217 Score: 153
Period size: 26 Copynumber: 3.8 Consensus size: 26
94226110 GAGGAAGTGC
* **
94226120 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACAG
*
94226146 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACAG
94226172 AAAAGGGCTTATGCCCCAGTTTACAG
1 AAAAGGGCTTATGCCCCAGTTTACAG
94226198 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
94226218 ATTAAAAGAG
Statistics
Matches: 68, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
25 10 0.15
26 58 0.85
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACAG
Found at i:94226422 original size:42 final size:42
Alignment explanation
Indices: 94226363--94226454 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
94226353 TAGTCTCCTC
* ** *
94226363 AAATGGGCTTGCATACATTCATTGGTATTTCATATGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
*
94226405 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
94226447 AAATGGGC
1 AAATGGGC
94226455 CTATGGGCCA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
Found at i:94226513 original size:31 final size:31
Alignment explanation
Indices: 94226478--94226556 Score: 122
Period size: 31 Copynumber: 2.5 Consensus size: 31
94226468 CGTTTACAAT
* *
94226478 AAAGGTTTCGGCCCAGTGAAATGATTTATGA
1 AAAGGCTTCGGCCCAGTGAAATAATTTATGA
* *
94226509 AAAGGCTTCAGCCCAGTGATATAATTTATGA
1 AAAGGCTTCGGCCCAGTGAAATAATTTATGA
94226540 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
94226557 AACCGTTAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGAAATAATTTATGA
Found at i:94231325 original size:27 final size:27
Alignment explanation
Indices: 94231295--94231388 Score: 91
Period size: 27 Copynumber: 3.5 Consensus size: 27
94231285 TTCGCCACAA
*
94231295 AGGCATTCCTTTCACATTGCACCGCAT
1 AGGCATTCCTTTCATATTGCACCGCAT
* * *
94231322 AGGCGTTCCTTTTATATTGTA-CGACAT
1 AGGCATTCCTTTCATATTGCACCG-CAT
** * * *
94231349 AGGTGTTCCTTTTATATTACACCACAT
1 AGGCATTCCTTTCATATTGCACCGCAT
94231376 AGGCATTCCTTTC
1 AGGCATTCCTTTC
94231389 TTGATGTGTT
Statistics
Matches: 54, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.04
27 51 0.94
28 1 0.02
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.37
Consensus pattern (27 bp):
AGGCATTCCTTTCATATTGCACCGCAT
Found at i:94236175 original size:13 final size:14
Alignment explanation
Indices: 94236157--94236187 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
94236147 TAGTAATAAT
94236157 TAAATAACT-AAAA
1 TAAATAACTGAAAA
94236170 TAAATAACTGAAAA
1 TAAATAACTGAAAA
94236184 TAAA
1 TAAA
94236188 ACACAAACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.68, C:0.06, G:0.03, T:0.23
Consensus pattern (14 bp):
TAAATAACTGAAAA
Found at i:94240077 original size:21 final size:21
Alignment explanation
Indices: 94240053--94240095 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
94240043 AAGAAAACCC
94240053 TCAATATAAATAACAATGGTT
1 TCAATATAAATAACAATGGTT
94240074 TCAATATAAATAACAATGGTT
1 TCAATATAAATAACAATGGTT
94240095 T
1 T
94240096 TAATGGAGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.35
Consensus pattern (21 bp):
TCAATATAAATAACAATGGTT
Found at i:94240378 original size:12 final size:12
Alignment explanation
Indices: 94240361--94240387 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
94240351 TTTTACAAGA
94240361 TAATCTACTTTT
1 TAATCTACTTTT
94240373 TAATCTACTTTT
1 TAATCTACTTTT
94240385 TAA
1 TAA
94240388 AATTTAAAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.15, G:0.00, T:0.56
Consensus pattern (12 bp):
TAATCTACTTTT
Found at i:94248912 original size:6 final size:6
Alignment explanation
Indices: 94248901--94248930 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
94248891 AGAGCCATAC
94248901 TAGTAA TAGTAA TAGTAA TAGTAA TTAGTA
1 TAGTAA TAGTAA TAGTAA TAGTAA -TAGTA
94248931 TATTGTGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 18 0.78
7 5 0.22
ACGTcount: A:0.47, C:0.00, G:0.17, T:0.37
Consensus pattern (6 bp):
TAGTAA
Found at i:94249304 original size:10 final size:10
Alignment explanation
Indices: 94249263--94249295 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
94249253 AGCCTCTCCC
94249263 CCATCCAAAT
1 CCATCCAAAT
*
94249273 CCATCCGAAT
1 CCATCCAAAT
94249283 CCATCCAAAT
1 CCATCCAAAT
94249293 CCA
1 CCA
94249296 AATCCATCCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.36, C:0.42, G:0.03, T:0.18
Consensus pattern (10 bp):
CCATCCAAAT
Found at i:94258093 original size:54 final size:54
Alignment explanation
Indices: 94258003--94258108 Score: 158
Period size: 54 Copynumber: 2.0 Consensus size: 54
94257993 GCAGTTCAAA
* **
94258003 ACTTCTAGATAGATCCTTCTCACAAAGTTCTTTTTTAGGAGAATCAATTGAAAC
1 ACTTCTAGATAAATCCTTCTCACAAAGTTCCGTTTTAGGAGAATCAATTGAAAC
* * *
94258057 ACTTGTAGATAAATCCTTCTCACAGATTTCCGTTTTAGGAGAATCAATTGAA
1 ACTTCTAGATAAATCCTTCTCACAAAGTTCCGTTTTAGGAGAATCAATTGAA
94258109 TCGGGTACAC
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 46 1.00
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (54 bp):
ACTTCTAGATAAATCCTTCTCACAAAGTTCCGTTTTAGGAGAATCAATTGAAAC
Found at i:94261480 original size:34 final size:34
Alignment explanation
Indices: 94261437--94261505 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
94261427 TAATGTTTCC
94261437 TGACAGTTGATTTGGGACATGCATAAACATGAAA
1 TGACAGTTGATTTGGGACATGCATAAACATGAAA
94261471 TGACAGTTGATTTGGGACATGCATAAACATGAAA
1 TGACAGTTGATTTGGGACATGCATAAACATGAAA
94261505 T
1 T
94261506 TAAGATTTCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.28
Consensus pattern (34 bp):
TGACAGTTGATTTGGGACATGCATAAACATGAAA
Found at i:94273401 original size:20 final size:21
Alignment explanation
Indices: 94273345--94273401 Score: 53
Period size: 20 Copynumber: 2.8 Consensus size: 21
94273335 ATTATGTACC
*
94273345 AAAATGGTACATTTTTGTATT
1 AAAATGGTACATTTTTATATT
*** * *
94273366 AAAATAAAAAAATTTTAT-TT
1 AAAATGGTACATTTTTATATT
94273386 AAAATGGTACATTTTT
1 AAAATGGTACATTTTT
94273402 TAAAGTAAAT
Statistics
Matches: 25, Mismatches: 11, Indels: 1
0.68 0.30 0.03
Matches are distributed among these distances:
20 13 0.52
21 12 0.48
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.44
Consensus pattern (21 bp):
AAAATGGTACATTTTTATATT
Found at i:94275458 original size:13 final size:13
Alignment explanation
Indices: 94275442--94275466 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
94275432 TATATAAATT
94275442 TTAAAAGTAAAAG
1 TTAAAAGTAAAAG
94275455 TTAAAAGTAAAA
1 TTAAAAGTAAAA
94275467 TTGAGAGAGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.12, T:0.24
Consensus pattern (13 bp):
TTAAAAGTAAAAG
Found at i:94277931 original size:21 final size:22
Alignment explanation
Indices: 94277905--94277951 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
94277895 TAAGGAGTAA
*
94277905 CACACGACCGTGTGG-CAGAGG
1 CACACGACCATGTGGACAGAGG
*
94277926 CACACGCCCATGTGGTACAGAGG
1 CACACGACCATGTGG-ACAGAGG
94277949 CAC
1 CAC
94277952 GGCCATGTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 13 0.59
23 9 0.41
ACGTcount: A:0.26, C:0.32, G:0.32, T:0.11
Consensus pattern (22 bp):
CACACGACCATGTGGACAGAGG
Found at i:94283863 original size:21 final size:20
Alignment explanation
Indices: 94283809--94283848 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
94283799 AGGATTTATT
94283809 GAGTTTTCATGAAAAATACC
1 GAGTTTTCATGAAAAATACC
94283829 GAGTTTTCATGAAAAATACC
1 GAGTTTTCATGAAAAATACC
94283849 TATTTTTCGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (20 bp):
GAGTTTTCATGAAAAATACC
Found at i:94286821 original size:56 final size:56
Alignment explanation
Indices: 94286735--94286849 Score: 194
Period size: 56 Copynumber: 2.1 Consensus size: 56
94286725 GGGCTTTTTC
* * *
94286735 CATTTAACATAACTTGTATAGGAGACAAGTGCAAGGCATGAATGACTTAATCATAT
1 CATTTAACATAACTTGTACAGAAGAAAAGTGCAAGGCATGAATGACTTAATCATAT
*
94286791 CATTTAACATAGCTTGTACAGAAGAAAAGTGCAAGGCATGAATGACTTAATCATAT
1 CATTTAACATAACTTGTACAGAAGAAAAGTGCAAGGCATGAATGACTTAATCATAT
94286847 CAT
1 CAT
94286850 GATGTTCTAG
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (56 bp):
CATTTAACATAACTTGTACAGAAGAAAAGTGCAAGGCATGAATGACTTAATCATAT
Found at i:94288353 original size:122 final size:121
Alignment explanation
Indices: 94288199--94288541 Score: 544
Period size: 122 Copynumber: 2.8 Consensus size: 121
94288189 ACCTATATGT
*
94288199 TAATGTATATTTTACTATATATATCATGGGTTAAGATTCACTCATTACTTTTCTATCCATTAATA
1 TAATGTATATTTTACCATATATATCATGGGTTAAGATTCACTCATTACTTTTCTATCCATTAATA
94288264 TTCAATACAATAATCATCACCATTTAAAATGTGTAAAACCCATGGAAATCTATAAGC
66 TTCAATACAATAATCATCACCATTT-AAATGTGTAAAACCCATGGAAATCTATAAGC
* *
94288321 TAATGTATATTTTACCATATATATTATGGGTTAAGATTCACTCATTACTTTTCCATCCATTAATA
1 TAATGTATATTTTACCATATATATCATGGGTTAAGATTCACTCATTACTTTTCTATCCATTAATA
* * *
94288386 TTCAATACAATAATCATCACCATTTAAATGTGTAAGACCTATGGAAATCTATATGC
66 TTCAATACAATAATCATCACCATTTAAATGTGTAAAACCCATGGAAATCTATAAGC
* * *
94288442 TAATGTATATTTTACCATATATATCATGGTTTAAAATTCAACCCATTACTTTT-TCATCCATTAA
1 TAATGTATATTTTACCATATATATCATGGGTTAAGATTC-ACTCATTACTTTTCT-ATCCATTAA
* **
94288506 TATTCAATACAATGATCATCATTATTTAAATGTGTA
64 TATTCAATACAATAATCATCACCATTTAAATGTGTA
94288542 GGACCCTTCT
Statistics
Matches: 205, Mismatches: 14, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
121 64 0.31
122 141 0.69
ACGTcount: A:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (121 bp):
TAATGTATATTTTACCATATATATCATGGGTTAAGATTCACTCATTACTTTTCTATCCATTAATA
TTCAATACAATAATCATCACCATTTAAATGTGTAAAACCCATGGAAATCTATAAGC
Found at i:94290994 original size:13 final size:13
Alignment explanation
Indices: 94290976--94291000 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
94290966 CCCAGGGGAC
94290976 ACATGACCGTGTA
1 ACATGACCGTGTA
94290989 ACATGACCGTGT
1 ACATGACCGTGT
94291001 GTCACACACG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (13 bp):
ACATGACCGTGTA
Found at i:94291949 original size:24 final size:24
Alignment explanation
Indices: 94291920--94291987 Score: 127
Period size: 24 Copynumber: 2.8 Consensus size: 24
94291910 GCTAATAACA
94291920 GTAAGCTTTATTGAGCTGAAAACG
1 GTAAGCTTTATTGAGCTGAAAACG
94291944 GTAAGCTTTATTGAGCTGAAAACG
1 GTAAGCTTTATTGAGCTGAAAACG
*
94291968 GTAAGCTCTATTGAGCTGAA
1 GTAAGCTTTATTGAGCTGAA
94291988 CAATAAGCTC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.29
Consensus pattern (24 bp):
GTAAGCTTTATTGAGCTGAAAACG
Found at i:94292020 original size:23 final size:22
Alignment explanation
Indices: 94291918--94292045 Score: 80
Period size: 24 Copynumber: 5.5 Consensus size: 22
94291908 GGGCTAATAA
* *
94291918 CAGTAAGCTTTATTGAGCTGAAAA
1 CAGTAAGCTCT-TTGAGCT-AAAT
* * *
94291942 CGGTAAGCTTTATTGAGCTGAAAA
1 CAGTAAGCTCT-TTGAGCT-AAAT
* *
94291966 CGGTAAGCTCTATTGAGCTGAA-
1 CAGTAAGCTCT-TTGAGCTAAAT
*
94291988 CAATAAGCTCTTTCGAGCTAAAT
1 CAGTAAGCTCTTT-GAGCTAAAT
**
94292011 CAGTAAGCTCCAATGAGCTGAAAT
1 CAGTAAGCT-CTTTGAGCT-AAAT
94292035 -AGTAAGCTCTT
1 CAGTAAGCTCTT
94292046 ACGAGCTATG
Statistics
Matches: 89, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
21 2 0.02
22 17 0.19
23 23 0.26
24 47 0.53
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (22 bp):
CAGTAAGCTCTTTGAGCTAAAT
Found at i:94292051 original size:23 final size:23
Alignment explanation
Indices: 94291991--94292053 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 23
94291981 AGCTGAACAA
*
94291991 TAAGCTCTTTCGAGCTAAATCAG
1 TAAGCTCTTACGAGCTAAATCAG
** *
94292014 TAAGCTCCAATGAGCTGAAAT-AG
1 TAAGCTCTTACGAGCT-AAATCAG
94292037 TAAGCTCTTACGAGCTA
1 TAAGCTCTTACGAGCTA
94292054 TGGTGAGTCC
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
22 1 0.03
23 27 0.84
24 4 0.12
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (23 bp):
TAAGCTCTTACGAGCTAAATCAG
Done.