Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 14 of 161
Found at i:4665368 original size:13 final size:11
Alignment explanation
Indices: 4665332--4665362 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
4665322 CCACCCGTAT
4665332 TAATTTTTATA
1 TAATTTTTATA
*
4665343 TTATTTTTATA
1 TAATTTTTATA
4665354 TAATTTTTA
1 TAATTTTTA
4665363 AATATATATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TAATTTTTATA
Found at i:4665403 original size:8 final size:9
Alignment explanation
Indices: 4665377--4665401 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
4665367 TATATGATAC
4665377 ATTAAAAAT
1 ATTAAAAAT
4665386 ATTAAAAAT
1 ATTAAAAAT
4665395 ATTAAAA
1 ATTAAAA
4665402 TAAATATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (9 bp):
ATTAAAAAT
Found at i:4666034 original size:30 final size:32
Alignment explanation
Indices: 4665998--4666056 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
4665988 ACATTCTATC
4665998 AATTTAA-TCTTAA-ATATAAAAAATTTAATA
1 AATTTAACTCTTAATATATAAAAAATTTAATA
* *
4666028 AATTTAACTCTTAATATTTACAAAATTTA
1 AATTTAACTCTTAATATATAAAAAATTTA
4666057 TCACTTTAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 7 0.28
31 6 0.24
32 12 0.48
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (32 bp):
AATTTAACTCTTAATATATAAAAAATTTAATA
Found at i:4666065 original size:31 final size:30
Alignment explanation
Indices: 4665978--4666066 Score: 92
Period size: 30 Copynumber: 2.9 Consensus size: 30
4665968 TTTAATCCTC
*
4665978 TAATATTTAAACATTCTATCAATTTAA-TCT
1 TAATATTTAAAAATT-TATCAATTTAACTCT
* *
4666008 TAA-ATATAAAAAATTTAATAAATTTAACTCT
1 TAATAT-TTAAAAATTT-ATCAATTTAACTCT
*
4666039 TAATATTTACAAAATTTATCACTTTAAC
1 TAATATTTA-AAAATTTATCAATTTAAC
4666067 CTTCTAAAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 9
0.76 0.10 0.14
Matches are distributed among these distances:
29 3 0.06
30 19 0.40
31 17 0.35
32 9 0.19
ACGTcount: A:0.46, C:0.11, G:0.00, T:0.43
Consensus pattern (30 bp):
TAATATTTAAAAATTTATCAATTTAACTCT
Found at i:4666332 original size:25 final size:25
Alignment explanation
Indices: 4666303--4666354 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
4666293 TGTCTAAAAA
4666303 CTTTTGAGAAGTAATACTAAACTAG
1 CTTTTGAGAAGTAATACTAAACTAG
4666328 CTTTTGAGAAGTAATACTAAACTAG
1 CTTTTGAGAAGTAATACTAAACTAG
4666353 CT
1 CT
4666355 CTAAGTCAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.33
Consensus pattern (25 bp):
CTTTTGAGAAGTAATACTAAACTAG
Found at i:4683247 original size:50 final size:50
Alignment explanation
Indices: 4683165--4683262 Score: 160
Period size: 50 Copynumber: 2.0 Consensus size: 50
4683155 ATTTGGGTAA
* *
4683165 AGAGATCCCATGTAAGACCATGTCTGGCACATGGCGTTGGCATCGAGATG
1 AGAGATCCCATGTAAGACAATGTCTGGCACATGGCGTTGGCACCGAGATG
* *
4683215 AGAGGTCCCATGTAAGACAATGTCTGGGACATGGCGTTGGCACCGAGA
1 AGAGATCCCATGTAAGACAATGTCTGGCACATGGCGTTGGCACCGAGA
4683263 CGAGCATGTC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 44 1.00
ACGTcount: A:0.27, C:0.21, G:0.32, T:0.20
Consensus pattern (50 bp):
AGAGATCCCATGTAAGACAATGTCTGGCACATGGCGTTGGCACCGAGATG
Found at i:4683282 original size:84 final size:84
Alignment explanation
Indices: 4683183--4683346 Score: 229
Period size: 84 Copynumber: 2.0 Consensus size: 84
4683173 CATGTAAGAC
* * ** *
4683183 CATGTCTGGCACATGGCGTTGGCATCGAGATGAGAGGTCCCATGTAAGACAATGTCTGGGACATG
1 CATGTCTGGCACATGGCATTGGCACCGAGACCAGAGGTCCCATGTAAGACAATGCCTGGGACATG
*
4683248 GCGTTGGCACCGAGACGAG
66 GAGTTGGCACCGAGACGAG
* * * *
4683267 CATGTCTGGGACATGGCATTGGCACCGAGACCAGAGGTTCCATGTAAGACCATGCCTTGGACATG
1 CATGTCTGGCACATGGCATTGGCACCGAGACCAGAGGTCCCATGTAAGACAATGCCTGGGACATG
*
4683332 GAGTTGGCACTGAGA
66 GAGTTGGCACCGAGA
4683347 AGAGAGGTCC
Statistics
Matches: 69, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
84 69 1.00
ACGTcount: A:0.24, C:0.22, G:0.33, T:0.21
Consensus pattern (84 bp):
CATGTCTGGCACATGGCATTGGCACCGAGACCAGAGGTCCCATGTAAGACAATGCCTGGGACATG
GAGTTGGCACCGAGACGAG
Found at i:4683414 original size:50 final size:50
Alignment explanation
Indices: 4683267--4683489 Score: 191
Period size: 50 Copynumber: 4.5 Consensus size: 50
4683257 CCGAGACGAG
** ** *
4683267 CATGTCTGGGACATGGCATTGGCACCGAGACCAGAGGTTCCATGTAAGAC
1 CATGTCTGGGACATGGCATTGGCACCGAGATGAGAACTCCCATGTAAGAC
* * * * ** **
4683317 CATGCCTTGGACATGG-AGTTGGCACTGAGAAGAGAGGTCCCCCGTAAGAC
1 CATGTCTGGGACATGGCA-TTGGCACCGAGATGAGAACTCCCATGTAAGAC
* *
4683367 CATGTCTGGGACATGGCATGGGCACCGATATGAGAACTCCCATGTAAGAC
1 CATGTCTGGGACATGGCATTGGCACCGAGATGAGAACTCCCATGTAAGAC
* * * * ** * *
4683417 CATATCTAGAATATGGCATTGGCAATG-CATGA-AACATCCCGTGTAAGAC
1 CATGTCTGGGACATGGCATTGGCACCGAGATGAGAAC-TCCCATGTAAGAC
*
4683466 CATGTCTGGGACATGGCTTTGGCA
1 CATGTCTGGGACATGGCATTGGCA
4683490 TGTTATTATC
Statistics
Matches: 138, Mismatches: 32, Indels: 7
0.78 0.18 0.04
Matches are distributed among these distances:
48 3 0.02
49 36 0.26
50 98 0.71
51 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.22
Consensus pattern (50 bp):
CATGTCTGGGACATGGCATTGGCACCGAGATGAGAACTCCCATGTAAGAC
Found at i:4683440 original size:100 final size:99
Alignment explanation
Indices: 4683267--4683482 Score: 231
Period size: 100 Copynumber: 2.2 Consensus size: 99
4683257 CCGAGACGAG
* ** * * * *
4683267 CATGTCTGGGACATGGCATTGGCACCGAGACCAGAGGTTCCATGTAAGACCATGCCTTGGACATG
1 CATGTCTGGGACATGGCATGGGCACCGAGACCAGAACTCCCATGTAAGACCATACCTAGAACATG
* *
4683332 GAGTTGGCACTG-A-GAAGAGAGGTCCCCCGTAAGAC
66 GAGTTGGCAATGCATGAA-ACA--TCCCCCGTAAGAC
* ** * *
4683367 CATGTCTGGGACATGGCATGGGCACCGATATGAGAACTCCCATGTAAGACCATATCTAGAATATG
1 CATGTCTGGGACATGGCATGGGCACCGAGACCAGAACTCCCATGTAAGACCATACCTAGAACATG
**
4683432 GCA-TTGGCAATGCATGAAACATCCCGTGTAAGAC
66 G-AGTTGGCAATGCATGAAACATCCCCCGTAAGAC
4683466 CATGTCTGGGACATGGC
1 CATGTCTGGGACATGGC
4683483 TTTGGCATGT
Statistics
Matches: 97, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
99 28 0.29
100 62 0.64
101 4 0.04
102 3 0.03
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.21
Consensus pattern (99 bp):
CATGTCTGGGACATGGCATGGGCACCGAGACCAGAACTCCCATGTAAGACCATACCTAGAACATG
GAGTTGGCAATGCATGAAACATCCCCCGTAAGAC
Found at i:4685768 original size:25 final size:25
Alignment explanation
Indices: 4685645--4685772 Score: 100
Period size: 25 Copynumber: 5.2 Consensus size: 25
4685635 GTACATGTAT
* * *
4685645 GCTCATATGAGCTAAGAATCGGTAT
1 GCTCATACGAGCTGAGAATCGGTAA
* * * *
4685670 GCTCTTATGAGTTG-TAATCGGTAA
1 GCTCATACGAGCTGAGAATCGGTAA
**
4685694 GCTCATACGAGCTGAGTAA-CGACAA
1 GCTCATACGAGCTGAG-AATCGGTAA
* * *
4685719 GCTCATGCAAGTTGA-ATATCGGTAA
1 GCTCATACGAGCTGAGA-ATCGGTAA
*
4685744 GCTCATACGAGCTGAGAATCAGTAA
1 GCTCATACGAGCTGAGAATCGGTAA
4685769 GCTC
1 GCTC
4685773 TCATGACCTG
Statistics
Matches: 78, Mismatches: 20, Indels: 10
0.72 0.19 0.09
Matches are distributed among these distances:
23 1 0.01
24 20 0.26
25 54 0.69
26 3 0.04
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (25 bp):
GCTCATACGAGCTGAGAATCGGTAA
Found at i:4688058 original size:25 final size:25
Alignment explanation
Indices: 4688030--4688108 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 25
4688020 ACTCGGCCCT
4688030 ATCACATATATACACTTTCGCATTC
1 ATCACATATATACACTTTCGCATTC
**** ** *
4688055 ATCACAT-CGGCCA-TTAGGCCTT-
1 ATCACATATATACACTTTCGCATTC
*
4688077 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCGCATTC
4688102 ATCACAT
1 ATCACAT
4688109 CGGCCATTAG
Statistics
Matches: 36, Mismatches: 15, Indels: 6
0.63 0.26 0.11
Matches are distributed among these distances:
22 7 0.19
23 8 0.22
24 7 0.19
25 14 0.39
ACGTcount: A:0.32, C:0.29, G:0.06, T:0.33
Consensus pattern (25 bp):
ATCACATATATACACTTTCGCATTC
Found at i:4688058 original size:47 final size:47
Alignment explanation
Indices: 4687980--4688145 Score: 237
Period size: 47 Copynumber: 3.6 Consensus size: 47
4687970 CCCTTCGGGA
* * * * * *
4687980 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
4688027 CCTATCACATATATACACTTTCGCATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
4688074 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
4688121 CTTATCAC--ATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
4688146 TATTCAAATA
Statistics
Matches: 108, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
45 17 0.16
47 91 0.84
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:4698189 original size:64 final size:64
Alignment explanation
Indices: 4698088--4698239 Score: 214
Period size: 64 Copynumber: 2.4 Consensus size: 64
4698078 ATAACACACC
* * * ** * *
4698088 ACATTATGGCCAAGCCATTCAATATCACAGTCAAGCTGTATTGTTGTGGTGAAGCCACTCAATA
1 ACATTGTGGCCAAGCCACTCAATATCACAGTCAAGCTGCATCATTGTGGTCAAACCACTCAATA
* *
4698152 ACATTGTGGCAAAGCCACTCAATATCGCAGTCAAGCTGCATCATTGTGGTCAAACCACTCAATA
1 ACATTGTGGCCAAGCCACTCAATATCACAGTCAAGCTGCATCATTGTGGTCAAACCACTCAATA
*
4698216 ACGTTGTGGCCAAGCCACTCAATA
1 ACATTGTGGCCAAGCCACTCAATA
4698240 GTGTTCTGGA
Statistics
Matches: 77, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
64 77 1.00
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (64 bp):
ACATTGTGGCCAAGCCACTCAATATCACAGTCAAGCTGCATCATTGTGGTCAAACCACTCAATA
Found at i:4698233 original size:24 final size:24
Alignment explanation
Indices: 4698195--4698263 Score: 84
Period size: 24 Copynumber: 2.9 Consensus size: 24
4698185 AGCTGCATCA
* *
4698195 TTGTGGTCAAACCACTCAATAACG
1 TTGTGGACAAGCCACTCAATAACG
* **
4698219 TTGTGGCCAAGCCACTCAATAGTG
1 TTGTGGACAAGCCACTCAATAACG
*
4698243 TTCTGGACAAGCCACTCAATA
1 TTGTGGACAAGCCACTCAATA
4698264 TTGCAGTAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (24 bp):
TTGTGGACAAGCCACTCAATAACG
Found at i:4699659 original size:28 final size:31
Alignment explanation
Indices: 4699628--4699689 Score: 76
Period size: 32 Copynumber: 2.1 Consensus size: 31
4699618 TAAATTGCAA
4699628 TAATGTTAT-T-AAAATTT-TGAATTTTAAT
1 TAATGTTATATCAAAATTTATGAATTTTAAT
* *
4699656 TAATTTTATATCAAAATTTGATTAATTTTAAT
1 TAATGTTATATCAAAATTT-ATGAATTTTAAT
4699688 TA
1 TA
4699690 TTTTCGATAG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 8 0.29
29 1 0.04
30 7 0.25
32 12 0.43
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (31 bp):
TAATGTTATATCAAAATTTATGAATTTTAAT
Found at i:4703564 original size:20 final size:20
Alignment explanation
Indices: 4703539--4703578 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
4703529 TCATAAAGGT
4703539 TAGCATAAAACTCATGTACC
1 TAGCATAAAACTCATGTACC
4703559 TAGCATAAAACTCATGTACC
1 TAGCATAAAACTCATGTACC
4703579 AATGAAGGAG
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:0.25, G:0.10, T:0.25
Consensus pattern (20 bp):
TAGCATAAAACTCATGTACC
Found at i:4713641 original size:6 final size:6
Alignment explanation
Indices: 4713624--4713674 Score: 59
Period size: 6 Copynumber: 8.5 Consensus size: 6
4713614 CAAATTGAAG
* * *
4713624 AAAATA ACAATA AAAATA CGAAA-A ATAATA AAAATA AAAATA AAAATA
1 AAAATA AAAATA AAAATA -AAAATA AAAATA AAAATA AAAATA AAAATA
4713672 AAA
1 AAA
4713675 CAAATAAACT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
5 2 0.05
6 32 0.86
7 3 0.08
ACGTcount: A:0.78, C:0.04, G:0.02, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:4713680 original size:30 final size:30
Alignment explanation
Indices: 4713624--4713681 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
4713614 CAAATTGAAG
* *
4713624 AAAATAACAATAAAAATACGAAAAATAATA
1 AAAATAAAAATAAAAATACAAAAAATAATA
4713654 AAAATAAAAATAAAAATA-AAACAAATAA
1 AAAATAAAAATAAAAATACAAA-AAATAA
4713682 ACTGGATGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 2 0.08
30 23 0.92
ACGTcount: A:0.78, C:0.05, G:0.02, T:0.16
Consensus pattern (30 bp):
AAAATAAAAATAAAAATACAAAAAATAATA
Found at i:4720706 original size:96 final size:96
Alignment explanation
Indices: 4720597--4720772 Score: 316
Period size: 96 Copynumber: 1.8 Consensus size: 96
4720587 ACGATTCAAC
*
4720597 TATCACCTTTTGTGCAATATTATTAGTGTAGTTCAAAAGATCATAAGGGTTTCCAATGTCCAATT
1 TATCACCTTTTGTGCAATATTATTAGTCTAGTTCAAAAGATCATAAGGGTTTCCAATGTCCAATT
4720662 AAATATCCAAATAGAGAGAAGATGTTTGAGA
66 AAATATCCAAATAGAGAGAAGATGTTTGAGA
* *
4720693 TATCACCTTTTGTGCAATGTTATTGGTCTAGTTCAAAAGATCATAAGGGTTTCCAATGTCCAATT
1 TATCACCTTTTGTGCAATATTATTAGTCTAGTTCAAAAGATCATAAGGGTTTCCAATGTCCAATT
*
4720758 AAATATCCAACTAGA
66 AAATATCCAAATAGA
4720773 TAAGAAAGTA
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
96 76 1.00
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (96 bp):
TATCACCTTTTGTGCAATATTATTAGTCTAGTTCAAAAGATCATAAGGGTTTCCAATGTCCAATT
AAATATCCAAATAGAGAGAAGATGTTTGAGA
Found at i:4722867 original size:16 final size:16
Alignment explanation
Indices: 4722842--4722874 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
4722832 GCCCAAGTAA
*
4722842 ATATATCTATTTTTAG
1 ATATAACTATTTTTAG
4722858 ATATAACTATTTTTAG
1 ATATAACTATTTTTAG
4722874 A
1 A
4722875 GTTTCTAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.52
Consensus pattern (16 bp):
ATATAACTATTTTTAG
Found at i:4728879 original size:33 final size:33
Alignment explanation
Indices: 4728842--4728907 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
4728832 TCCTTCTTCT
4728842 CGTCTAGCCCACAACAACTCTTGCAAACTACAA
1 CGTCTAGCCCACAACAACTCTTGCAAACTACAA
* *
4728875 CGTCTAGCCCGCAACAACTCTTGCAAATTACAA
1 CGTCTAGCCCACAACAACTCTTGCAAACTACAA
4728908 TATCCAGAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.35, C:0.35, G:0.11, T:0.20
Consensus pattern (33 bp):
CGTCTAGCCCACAACAACTCTTGCAAACTACAA
Found at i:4734473 original size:30 final size:30
Alignment explanation
Indices: 4734439--4734501 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
4734429 CATGCTCAGC
4734439 ATGTCCTCACAAATCACATACTTTCAGTAA
1 ATGTCCTCACAAATCACATACTTTCAGTAA
*
4734469 ATGTCCTCACTAATCACATACTTTCAGTAA
1 ATGTCCTCACAAATCACATACTTTCAGTAA
4734499 ATG
1 ATG
4734502 GAAATAGTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.35, C:0.25, G:0.08, T:0.32
Consensus pattern (30 bp):
ATGTCCTCACAAATCACATACTTTCAGTAA
Found at i:4746849 original size:17 final size:17
Alignment explanation
Indices: 4746827--4746883 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 17
4746817 CGCATAGCAA
4746827 CATAATACATGAGTTCG
1 CATAATACATGAGTTCG
* *
4746844 CATAATAAAATGAGTTTG
1 CATAAT-ACATGAGTTCG
*
4746862 CAAAATATCA-GAGGTTCG
1 CATAATA-CATGA-GTTCG
4746880 CATA
1 CATA
4746884 CTACCTAAGT
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
17 9 0.29
18 22 0.71
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.28
Consensus pattern (17 bp):
CATAATACATGAGTTCG
Found at i:4748057 original size:22 final size:22
Alignment explanation
Indices: 4748027--4748076 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 22
4748017 GTGTGAGATC
4748027 ATCACAAATA-TAATCGCATACAT
1 ATCA-AAATATTAATCGCA-ACAT
* *
4748050 ATCAAAATATTAGTCTCAACAT
1 ATCAAAATATTAATCGCAACAT
4748072 ATCAA
1 ATCAA
4748077 TCATCATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 14 0.58
23 10 0.42
ACGTcount: A:0.48, C:0.20, G:0.04, T:0.28
Consensus pattern (22 bp):
ATCAAAATATTAATCGCAACAT
Found at i:4749644 original size:16 final size:17
Alignment explanation
Indices: 4749623--4749673 Score: 54
Period size: 16 Copynumber: 3.1 Consensus size: 17
4749613 GTTGTTTGTC
*
4749623 AAAAAAGAGAGAAAAT-
1 AAAAAAAAGAGAAAATG
4749639 AAAAAATAA-AG-AAATG
1 AAAAAA-AAGAGAAAATG
4749655 AAAAAAAATGAGAAAATG
1 AAAAAAAA-GAGAAAATG
4749673 A
1 A
4749674 TAGCAAATGA
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
15 6 0.21
16 14 0.48
17 3 0.10
18 6 0.21
ACGTcount: A:0.75, C:0.00, G:0.16, T:0.10
Consensus pattern (17 bp):
AAAAAAAAGAGAAAATG
Found at i:4750034 original size:35 final size:35
Alignment explanation
Indices: 4749990--4750058 Score: 102
Period size: 35 Copynumber: 2.0 Consensus size: 35
4749980 TTAGAAACAC
* *
4749990 TTAATCACTTTACCACTTCACCTTCTTATTTTAAT
1 TTAACCACTTTACCACTTCACCTCCTTATTTTAAT
* *
4750025 TTAACCACTTTACCATTTTACCTCCTTATTTTAA
1 TTAACCACTTTACCACTTCACCTCCTTATTTTAA
4750059 CTTCTACCAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.26, C:0.26, G:0.00, T:0.48
Consensus pattern (35 bp):
TTAACCACTTTACCACTTCACCTCCTTATTTTAAT
Found at i:4752079 original size:66 final size:66
Alignment explanation
Indices: 4751999--4752130 Score: 212
Period size: 66 Copynumber: 2.0 Consensus size: 66
4751989 ATAACATGCA
* * *
4751999 TTATATACAAGAAATCCATTTTTCACATTTT-TTCACTCTATCCCATGCCCTTCCTTGTGCTAAC
1 TTATATACAAGAAATCCATTTTTCACATTTTCTT-ACTATATCCCAAGCCCTTCCTTGTACTAAC
4752063 CT
65 CT
*
4752065 TTATATACAAGAAATCCATTTTTCACATTTTCTTACTATTTCCCAAGCCCTTCCTTGTACTAACC
1 TTATATACAAGAAATCCATTTTTCACATTTTCTTACTATATCCCAAGCCCTTCCTTGTACTAACC
4752130 T
66 T
4752131 CGGATCCCAT
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
66 59 0.97
67 2 0.03
ACGTcount: A:0.26, C:0.28, G:0.05, T:0.41
Consensus pattern (66 bp):
TTATATACAAGAAATCCATTTTTCACATTTTCTTACTATATCCCAAGCCCTTCCTTGTACTAACC
T
Found at i:4752315 original size:50 final size:49
Alignment explanation
Indices: 4752225--4752346 Score: 163
Period size: 50 Copynumber: 2.5 Consensus size: 49
4752215 CTTTGCCATT
* * * * *
4752225 GTTATCAACTAACATACCCTATCGATGCATCACCCATAACGTCAGGCTG
1 GTTAACAACTAACATGCCCTACCGATGCATCACCCATAACGCCAAGCTG
*
4752274 GTTAACAACTAACATGCCCTACCGTTGGCATCACCCATAACGCCAAGCTG
1 GTTAACAACTAACATGCCCTACCGAT-GCATCACCCATAACGCCAAGCTG
* *
4752324 GTTAGCAACTAACATGCCTTACC
1 GTTAACAACTAACATGCCCTACC
4752347 AGAAATGTAA
Statistics
Matches: 64, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
49 22 0.34
50 42 0.66
ACGTcount: A:0.30, C:0.32, G:0.15, T:0.23
Consensus pattern (49 bp):
GTTAACAACTAACATGCCCTACCGATGCATCACCCATAACGCCAAGCTG
Found at i:4756294 original size:40 final size:39
Alignment explanation
Indices: 4756257--4756348 Score: 132
Period size: 39 Copynumber: 2.3 Consensus size: 39
4756247 GCTACTCGTT
*
4756257 CAAATGCCTTCGGGACATAGCCC-GATTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CATAGCCCGGAAT-TAGTAACTCGCA
* *
4756297 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
4756336 CAAATGCCTTCGG
1 CAAATGCCTTCGG
4756349 ATCTTAGTCC
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
39 31 0.65
40 17 0.35
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
Found at i:4756328 original size:39 final size:41
Alignment explanation
Indices: 4756257--4756401 Score: 167
Period size: 40 Copynumber: 3.6 Consensus size: 41
4756247 GCTACTCGTT
* *
4756257 CAAATGCCTTCGGGACATAGCCC-GATTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCA
*
4756297 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCA
* * * *
4756336 CAAATGCCTTC-GGATCTTAGTCCGG-ATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAATATAGTAAC-TCGCA
4756377 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
4756402 CATCATTCAA
Statistics
Matches: 89, Mismatches: 9, Indels: 13
0.80 0.08 0.12
Matches are distributed among these distances:
38 2 0.02
39 31 0.35
40 45 0.51
41 11 0.12
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCA
Found at i:4787744 original size:21 final size:21
Alignment explanation
Indices: 4787718--4787758 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
4787708 GATAAATCAA
4787718 TAAATTGAAAAATTA-GAGAAT
1 TAAATT-AAAAATTAGGAGAAT
*
4787739 TAAATTAAAATTTAGGAGAA
1 TAAATTAAAAATTAGGAGAA
4787759 AAATTGGTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.56, C:0.00, G:0.15, T:0.29
Consensus pattern (21 bp):
TAAATTAAAAATTAGGAGAAT
Found at i:4788267 original size:43 final size:43
Alignment explanation
Indices: 4788065--4788329 Score: 275
Period size: 43 Copynumber: 6.2 Consensus size: 43
4788055 ATAGAAATAT
* *
4788065 ACGCCGCTATAGATCAGGACCTTTAGCGGCGC-TTTCCCACAA
1 ACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTTCCACAA
* * * * * ** *
4788107 ACGCCGCTATAGATCAGGACCTTTAACAGTGATTTTTTAATAA
1 ACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTTCCACAA
* * ** ***
4788150 ACGCTGCTATAGATCAAGACCTTTAGCGACATTTTTTTTGCAA
1 ACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTTCCACAA
4788193 ACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTTCCACAA
1 ACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTTCCACAA
* * * *
4788236 ACGTCGCTATAGATCAAGACCTTTAGTGGCGCTTTTCCCACAG
1 ACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTTCCACAA
* * * *
4788279 ATGCCACTATAGAAC-AGACCTTTAGCGGCGC-TTTTCACGCAA
1 ACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTTC-CACAA
4788321 ACGCCGCTA
1 ACGCCGCTA
4788330 AAACATATCT
Statistics
Matches: 181, Mismatches: 40, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
41 4 0.02
42 53 0.29
43 124 0.69
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (43 bp):
ACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTTCCACAA
Found at i:4791300 original size:106 final size:107
Alignment explanation
Indices: 4791188--4791613 Score: 533
Period size: 107 Copynumber: 3.9 Consensus size: 107
4791178 CCTCAAAATA
*
4791188 TTATTTCATTTTGAACAAAATGACGCCGTTTTGTTATGCTAAAAATTTTTTATTTTGTTTTTTAT
1 TTATTTCATTTTGAACAAAATGACGCCGTTTTGCTATGCTAAAAATTTTTTATTTT-TTTTTTAT
* *
4791253 AAATTGATTTAATTTTTGCGGC-TTTTTATA-AAAAAACACCG
65 AAATTGATTTATTTTTTGCGGCGTTTTTATATAAAAAACGCCG
4791294 TTATTTCATTTTGAACAAAATGACGCCGTTTTGCTATGCTAAAAATTTTTTATTTTATTTTTTTA
1 TTATTTCATTTTGAACAAAATGACGCCGTTTTGCTATGCTAAAAATTTTTTA-TTT-TTTTTTTA
* * *
4791359 TAAATTGATTTATTTTTTGCGGC--ATTTATATACAAAATGCCG
64 TAAATTGATTTATTTTTTGCGGCGTTTTTATATAAAAAACGCCG
* *
4791401 CTATTTCATTTTGAACAAAATGACGCCGTTTTGCTATTCTAAAAATTTTTTATTTTATTTTTTAT
1 TTATTTCATTTTGAACAAAATGACGCCGTTTTGCTATGCTAAAAATTTTTTATTTT-TTTTTTAT
*
4791466 AAATTGATTTATTTTTTGTGGCGTTTTTATATTTTTCATAAAAACGCCG
65 AAATTGATTTATTTTTTGCGGCGTTTTTATA----T-A-AAAAACGCCG
* * * *
4791515 CAAAATATTATTTCATTTTGAACAAAATGACACCGTTTTACTATG-T-TAAATTTTTT-TTATTT
1 -------TTATTTCATTTTGAACAAAATGACGCCGTTTTGCTATGCTAAAAATTTTTTATTTTTT
4791577 TTTTATAAATTGATTTATTTTTTGCGGCGTTTTTATA
59 TTTTATAAATTGATTTATTTTTTGCGGCGTTTTTATA
4791614 ACAAACGTCG
Statistics
Matches: 282, Mismatches: 19, Indels: 27
0.86 0.06 0.08
Matches are distributed among these distances:
105 1 0.00
106 89 0.32
107 90 0.32
108 7 0.02
112 1 0.00
113 1 0.00
114 8 0.03
117 38 0.13
118 3 0.01
119 9 0.03
120 1 0.00
121 34 0.12
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.50
Consensus pattern (107 bp):
TTATTTCATTTTGAACAAAATGACGCCGTTTTGCTATGCTAAAAATTTTTTATTTTTTTTTTATA
AATTGATTTATTTTTTGCGGCGTTTTTATATAAAAAACGCCG
Found at i:4791764 original size:83 final size:83
Alignment explanation
Indices: 4791677--4791837 Score: 270
Period size: 83 Copynumber: 1.9 Consensus size: 83
4791667 AATATTATTT
4791677 CATTTTGA-ACAAAAATGACGCCGTTTTGCTATGCTAAAAATTTTTTATTTTATTTTATTATAAA
1 CATTTTGATAC-AAAATGACGCCGTTTTGCTATGCTAAAAATTTTTTATTTTATTTTATTATAAA
4791741 TTGATTAATTTTTTTGCGG
65 TTGATTAATTTTTTTGCGG
* * *
4791760 CATTTTTATACAAAATGACGTCGTTTTGCTATGCTAAAAATTTTTTATTTTATTTTTTTATAAAT
1 CATTTTGATACAAAATGACGCCGTTTTGCTATGCTAAAAATTTTTTATTTTATTTTATTATAAAT
*
4791825 TGATTTATTTTTT
66 TGATTAATTTTTT
4791838 GCAGAGTTTT
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
83 71 0.97
84 2 0.03
ACGTcount: A:0.29, C:0.09, G:0.10, T:0.52
Consensus pattern (83 bp):
CATTTTGATACAAAATGACGCCGTTTTGCTATGCTAAAAATTTTTTATTTTATTTTATTATAAAT
TGATTAATTTTTTTGCGG
Found at i:4791882 original size:82 final size:83
Alignment explanation
Indices: 4791688--4791858 Score: 247
Period size: 83 Copynumber: 2.1 Consensus size: 83
4791678 ATTTTGAACA
* * *
4791688 AAAATGACGCCGTTTTGCTATGCTAAAAATTTTTTATTTTATTTTATTATAAATTGATTAATTTT
1 AAAACGACGTCGTTTTGCTATGCAAAAAATTTTTTATTTTATTTTATTATAAATTGATTAATTTT
*
4791753 TTTGCGGCATTTTTATAC
66 TTTGCAGCATTTTTATAC
* * * *
4791771 AAAATGACGTCGTTTTGCTATGCTAAAAATTTTTTATTTTATTTTTTTATAAATTGATTTA-TTT
1 AAAACGACGTCGTTTTGCTATGCAAAAAATTTTTTATTTTATTTTATTATAAATTGATTAATTTT
4791835 TTTGCAG-AGTTTTTATAC
66 TTTGCAGCA-TTTTTATAC
4791853 AAAACG
1 AAAACG
4791859 CCGCTATTTC
Statistics
Matches: 82, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
81 1 0.01
82 23 0.28
83 58 0.71
ACGTcount: A:0.30, C:0.09, G:0.11, T:0.50
Consensus pattern (83 bp):
AAAACGACGTCGTTTTGCTATGCAAAAAATTTTTTATTTTATTTTATTATAAATTGATTAATTTT
TTTGCAGCATTTTTATAC
Found at i:4791958 original size:106 final size:107
Alignment explanation
Indices: 4791760--4792042 Score: 471
Period size: 106 Copynumber: 2.7 Consensus size: 107
4791750 TTTTTTGCGG
* *
4791760 CATTTTTATACAAAATGACGTCGTTTTGCTATGCTAAAAATTTTTTATTTTATTTTTTTATAAAT
1 CATTTTGA-ACAAAATGACGACGTTTTGCTATGCTAAAAATTTTTTATTTTATTTTTTTATAAAT
* *
4791825 TGATTTATTTTTTGCAGAGTTTTTATACAAAACGCCGCTATTT
65 TGATTTATTTTTTGCAGAGTTTATATACAAAACACCGCTATTT
*
4791868 CATTTTGAACAAAATGACGCCGTTTTGCTATGCTAAAAA-TTTTTATTTTATTTTTTTATAAATT
1 CATTTTGAACAAAATGACGACGTTTTGCTATGCTAAAAATTTTTTATTTTATTTTTTTATAAATT
*
4791932 GATTTATTTTTTGCAGCGTTTATATACAAAACACCGCTATTT
66 GATTTATTTTTTGCAGAGTTTATATACAAAACACCGCTATTT
* *
4791974 CATTTTGAACAAAATGACGACGTTTTGCTATGCTAAAAATTTTTTATTTT-GTTTTTTATAGATT
1 CATTTTGAACAAAATGACGACGTTTTGCTATGCTAAAAATTTTTTATTTTATTTTTTTATAAATT
4792038 GATTT
66 GATTT
4792043 TTTATAAAAT
Statistics
Matches: 166, Mismatches: 8, Indels: 4
0.93 0.04 0.02
Matches are distributed among these distances:
106 119 0.72
107 40 0.24
108 7 0.04
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.48
Consensus pattern (107 bp):
CATTTTGAACAAAATGACGACGTTTTGCTATGCTAAAAATTTTTTATTTTATTTTTTTATAAATT
GATTTATTTTTTGCAGAGTTTATATACAAAACACCGCTATTT
Found at i:4792643 original size:7 final size:7
Alignment explanation
Indices: 4792623--4792671 Score: 53
Period size: 7 Copynumber: 6.9 Consensus size: 7
4792613 AACCTTAAAT
4792623 CCCTAAC
1 CCCTAAC
* *
4792630 TCTTAAC
1 CCCTAAC
4792637 CCCTAAC
1 CCCTAAC
**
4792644 ATCTAAC
1 CCCTAAC
4792651 CCCTAAAC
1 CCCT-AAC
4792659 CCCTAAC
1 CCCTAAC
4792666 CCCTAA
1 CCCTAA
4792672 ACCTTAATTT
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
7 26 0.79
8 7 0.21
ACGTcount: A:0.33, C:0.47, G:0.00, T:0.20
Consensus pattern (7 bp):
CCCTAAC
Found at i:4792666 original size:15 final size:15
Alignment explanation
Indices: 4792633--4792674 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
4792623 CCCTAACTCT
**
4792633 TAACCCCT-AACATC
1 TAACCCCTAAACCCC
4792647 TAACCCCTAAACCCC
1 TAACCCCTAAACCCC
4792662 TAACCCCTAAACC
1 TAACCCCTAAACC
4792675 TTAATTTCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 8 0.32
15 17 0.68
ACGTcount: A:0.36, C:0.48, G:0.00, T:0.17
Consensus pattern (15 bp):
TAACCCCTAAACCCC
Found at i:4792734 original size:15 final size:15
Alignment explanation
Indices: 4792689--4792735 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
4792679 TTTCAACCCT
4792689 TAAA-CCATACTCCC
1 TAAATCCATACTCCC
* *
4792703 T-AATTCATAATCCC
1 TAAATCCATACTCCC
*
4792717 TAAATCCATACTCTC
1 TAAATCCATACTCCC
4792732 TAAA
1 TAAA
4792736 CCTTAAAATC
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
13 2 0.08
14 10 0.38
15 14 0.54
ACGTcount: A:0.38, C:0.32, G:0.00, T:0.30
Consensus pattern (15 bp):
TAAATCCATACTCCC
Found at i:4793010 original size:14 final size:14
Alignment explanation
Indices: 4792993--4793033 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
4792983 ACACTTAAAT
*
4792993 CATAATCCCTAATC
1 CATAATCCCTAACC
4793007 CATAATCCCTAAACC
1 CATAATCCCT-AACC
*
4793022 CATACTCCCTAA
1 CATAATCCCTAA
4793034 ACCTTAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.37, C:0.39, G:0.00, T:0.24
Consensus pattern (14 bp):
CATAATCCCTAACC
Found at i:4793030 original size:15 final size:15
Alignment explanation
Indices: 4792993--4793036 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 15
4792983 ACACTTAAAT
*
4792993 CATAATCCCT-AATC
1 CATAATCCCTAAACC
4793007 CATAATCCCTAAACC
1 CATAATCCCTAAACC
*
4793022 CATACTCCCTAAACC
1 CATAATCCCTAAACC
4793037 TTAAAATATG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
14 10 0.37
15 17 0.63
ACGTcount: A:0.36, C:0.41, G:0.00, T:0.23
Consensus pattern (15 bp):
CATAATCCCTAAACC
Found at i:4793496 original size:114 final size:114
Alignment explanation
Indices: 4793291--4793786 Score: 581
Period size: 114 Copynumber: 4.4 Consensus size: 114
4793281 TTTAGCGGGA
* ** * * *
4793291 TTAGGTTTTTTTGTGGCGCTTTCT-AAAAAACGCAACTAAAGCCCTAACCATT-GCGGGGCTTTC
1 TTAGGTTTTTTTGCGGCGCTTTCTCAAAAAA-GCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTC
* **
4793354 CTAAAAACGCCGCTAAATCTGCGAAAGCTCAAAAAACGGCGTCGTTGGGC
65 TTAAAAACGCCGCTAAATCCCCGAAAGCTCAAAAAACGGCGTCGTTGGGC
* * *
4793404 TTAGGTTTCTTTGCAGCGCTTTCTCAAAAAAGCCGCTAAAGCCCTGAGCATTAGCGGCGCATTCT
1 TTAGGTTTTTTTGCGGCGCTTTCTCAAAAAAGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCT
** *
4793469 TAAAAACGCCGCTAAATCCCCGAAAGCTCAGTAAACAGCGTCGTTGGGC
66 TAAAAACGCCGCTAAATCCCCGAAAGCTCAAAAAACGGCGTCGTTGGGC
* * * *
4793518 TTAGGTTTTTTTGCGGCACTTTATCAAAAACA-TCGCTAAAGCCTTGAGCATTAGCGGCGCTTTC
1 TTAGGTTTTTTTGCGGCGCTTTCTCAAAAA-AGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTC
* * * * *
4793582 TAAAAAATGCCGCTAAATCCCCGAAAGCTGAGAAAACGACGTCGTTGGGC
65 TTAAAAACGCCGCTAAATCCCCGAAAGCTCAAAAAACGGCGTCGTTGGGC
* * * * **
4793632 TTATGATTTTTTTGCGGTGGTTT-TCCAAAAACGCCGCTAAAGCCCCCAGCATTAGCGGCGCTTT
1 TTA-GGTTTTTTTGCGGCGCTTTCT-CAAAAAAGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTT
** * *
4793696 -TTCAAAAATTCTGCTAAATCCCCGAAAGCTCAAAAAACGGCGTCGTTAGGC
64 CTT-AAAAACGCCGCTAAATCCCCGAAAGCTCAAAAAACGGCGTCGTTGGGC
*
4793747 TTATGTTTTTTTGCGGCGCTTTCTCAAAAACA-CCGCTAAA
1 TTAGGTTTTTTTGCGGCGCTTTCTCAAAAA-AGCCGCTAAA
4793787 TCCCCAAAAG
Statistics
Matches: 325, Mismatches: 49, Indels: 17
0.83 0.13 0.04
Matches are distributed among these distances:
113 38 0.12
114 192 0.59
115 95 0.29
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.27
Consensus pattern (114 bp):
TTAGGTTTTTTTGCGGCGCTTTCTCAAAAAAGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCT
TAAAAACGCCGCTAAATCCCCGAAAGCTCAAAAAACGGCGTCGTTGGGC
Found at i:4793714 original size:229 final size:227
Alignment explanation
Indices: 4793291--4793786 Score: 593
Period size: 229 Copynumber: 2.2 Consensus size: 227
4793281 TTTAGCGGGA
* * * * * ** * * * *
4793291 TTAGGTTTTTTTGTGGCGCTTTCTAAAAAACGCAACTAAAGCCCTAACCATTGCGGGGCTTTCCT
1 TTAGGTTTTTTTGCGGCACTTTATCAAAAACACCGCTAAAGCCTTGAGCATTGCGGCGCTTTCCT
** * *
4793356 AAAAACGCCGCTAAATCTGCGAAAGCTCAAAAAACGGCGTCGTTGGGCTTAGGTTTCTTTGCAGC
66 AAAAACGCCGCTAAATCCCCGAAAGCTCAAAAAACGACGTCGTTGGGCTTAGATTTCTTTGCAGC
**
4793421 GCTTTCTCAAAAAAGCCGCTAAAGCCCTGAGCATTAGCGGCGCATTCTTAAAAACGCCGCTAAAT
131 GCTTTCTCAAAAAAGCCGCTAAAGCCCCCAGCATTAGCGGCGCATTCTTAAAAACGCCGCTAAAT
** *
4793486 CCCCGAAAGCTCAGTAAACAGCGTCGTTGGGC
196 CCCCGAAAGCTCAAAAAACAGCGTCGTTAGGC
*
4793518 TTAGGTTTTTTTGCGGCACTTTATCAAAAACATCGCTAAAGCCTTGAGCATTAGCGGCGCTTT-C
1 TTAGGTTTTTTTGCGGCACTTTATCAAAAACACCGCTAAAGCCTTGAGCATT-GCGGCGCTTTCC
* * * *
4793582 TAAAAAATGCCGCTAAATCCCCGAAAGCTGAGAAAACGACGTCGTTGGGCTTATGATTTTTTTGC
65 T-AAAAACGCCGCTAAATCCCCGAAAGCTCAAAAAACGACGTCGTTGGGCTTA-GATTTCTTTGC
* * * * * ** *
4793647 GGTGGTTT-TCCAAAAACGCCGCTAAAGCCCCCAGCATTAGCGGCGC-TTTTTCAAAAATTCTGC
128 AGCGCTTTCT-CAAAAAAGCCGCTAAAGCCCCCAGCATTAGCGGCGCATTCTT-AAAAACGCCGC
*
4793710 TAAATCCCCGAAAGCTCAAAAAACGGCGTCGTTAGGC
191 TAAATCCCCGAAAGCTCAAAAAACAGCGTCGTTAGGC
* * *
4793747 TTATGTTTTTTTGCGGCGCTTTCTCAAAAACACCGCTAAA
1 TTAGGTTTTTTTGCGGCACTTTATCAAAAACACCGCTAAA
4793787 TCCCCAAAAG
Statistics
Matches: 226, Mismatches: 38, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
227 43 0.19
228 59 0.26
229 124 0.55
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.27
Consensus pattern (227 bp):
TTAGGTTTTTTTGCGGCACTTTATCAAAAACACCGCTAAAGCCTTGAGCATTGCGGCGCTTTCCT
AAAAACGCCGCTAAATCCCCGAAAGCTCAAAAAACGACGTCGTTGGGCTTAGATTTCTTTGCAGC
GCTTTCTCAAAAAAGCCGCTAAAGCCCCCAGCATTAGCGGCGCATTCTTAAAAACGCCGCTAAAT
CCCCGAAAGCTCAAAAAACAGCGTCGTTAGGC
Found at i:4793774 original size:73 final size:71
Alignment explanation
Indices: 4793686--4793841 Score: 222
Period size: 73 Copynumber: 2.2 Consensus size: 71
4793676 CCCAGCATTA
* ** * *
4793686 GCGGCGCTTTTTCAAAAATTCTGCTAAATCCCCGAAAGCTCAAAAAACGGCGTCGTTAGGCTTAT
1 GCGGCGCTTTCTCAAAAACACCGCTAAATCCCCAAAAGCTCAAAAAACGGCGTCGTTAGGCTTA-
*
4793751 GTTTTTTT
65 G-GTTTTT
* *
4793759 GCGGCGCTTTCTCAAAAACACCGCTAAATCCCCAAAAGCTCATAAAACGGCGTCGTTGGGCTTAG
1 GCGGCGCTTTCTCAAAAACACCGCTAAATCCCCAAAAGCTCAAAAAACGGCGTCGTTAGGCTTAG
4793824 GTTTTT
66 GTTTTT
4793830 GCGGCGCTTTCT
1 GCGGCGCTTTCT
4793842 GGAAATCATC
Statistics
Matches: 75, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
71 17 0.23
72 1 0.01
73 57 0.76
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.29
Consensus pattern (71 bp):
GCGGCGCTTTCTCAAAAACACCGCTAAATCCCCAAAAGCTCAAAAAACGGCGTCGTTAGGCTTAG
GTTTTT
Found at i:4796232 original size:28 final size:28
Alignment explanation
Indices: 4796185--4796261 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
4796175 CAGTAATAAT
* *
4796185 ACAGTGAGGGCATTAGCCCAAAACAGTA
1 ACAGTGTGGGCCTTAGCCCAAAACAGTA
* * *
4796213 GCATTGTGGGCCTTAGCCCAACACAGTA
1 ACAGTGTGGGCCTTAGCCCAAAACAGTA
*
4796241 ATAGTGTGGGCCTTAGCCCAA
1 ACAGTGTGGGCCTTAGCCCAA
4796262 TACAATAATC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.30, C:0.25, G:0.26, T:0.19
Consensus pattern (28 bp):
ACAGTGTGGGCCTTAGCCCAAAACAGTA
Found at i:4796270 original size:28 final size:28
Alignment explanation
Indices: 4796217--4796270 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
4796207 ACAGTAGCAT
*
4796217 TGTGGGCCTTAGCCCAACACAGTAATAG
1 TGTGGGCCTTAGCCCAACACAATAATAG
*
4796245 TGTGGGCCTTAGCCCAATACAATAAT
1 TGTGGGCCTTAGCCCAACACAATAAT
4796271 CAGTACAGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (28 bp):
TGTGGGCCTTAGCCCAACACAATAATAG
Found at i:4796710 original size:26 final size:27
Alignment explanation
Indices: 4796639--4796813 Score: 171
Period size: 27 Copynumber: 6.6 Consensus size: 27
4796629 ACCTGATAGG
* * **
4796639 GGGTATTTCGGTCATTTTACCCTTTGA
1 GGGTATTTCAGTCATTTTACCCCTCAA
* *
4796666 GGGTATTTCAAAT-ATTTTACCCATC-A
1 GGGTATTTC-AGTCATTTTACCCCTCAA
* * * **
4796692 GTGTATTTCAGTCACTTTACCCTTCGG
1 GGGTATTTCAGTCATTTTACCCCTCAA
*
4796719 GGGTATTTCAATCATTTTACCCCTCAA
1 GGGTATTTCAGTCATTTTACCCCTCAA
*
4796746 GGGTATTTCATTCATTTTACCCCTC--
1 GGGTATTTCAGTCATTTTACCCCTCAA
*
4796771 GGGTATTTCGGTCATTTTACCCCTCAA
1 GGGTATTTCAGTCATTTTACCCCTCAA
*
4796798 -GGTATTTCGGTCATTT
1 GGGTATTTCAGTCATTT
4796814 GCCCACGAAT
Statistics
Matches: 125, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
25 25 0.20
26 35 0.28
27 64 0.51
28 1 0.01
ACGTcount: A:0.19, C:0.23, G:0.17, T:0.41
Consensus pattern (27 bp):
GGGTATTTCAGTCATTTTACCCCTCAA
Found at i:4796713 original size:53 final size:54
Alignment explanation
Indices: 4796639--4796813 Score: 198
Period size: 53 Copynumber: 3.3 Consensus size: 54
4796629 ACCTGATAGG
* *
4796639 GGGTATTTCGGTCATTTTACCCTTTGAGGGTATTTCAAAT-ATTTTACCCATC-A
1 GGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTC-AATCATTTTACCCATCAA
* * * *
4796692 GTGTATTTCAGTCACTTTACCCTTCGGGGGTATTTCAATCATTTTACCCCTCAA
1 GGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCAATCATTTTACCCATCAA
* * ** *
4796746 GGGTATTTCATTCATTTTACCCCTC--GGGTATTTCGGTCATTTTACCCCTCAA
1 GGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCAATCATTTTACCCATCAA
*
4796798 -GGTATTTCGGTCATTT
1 GGGTATTTCAGTCATTT
4796814 GCCCACGAAT
Statistics
Matches: 106, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
51 14 0.13
52 28 0.26
53 42 0.40
54 22 0.21
ACGTcount: A:0.19, C:0.23, G:0.17, T:0.41
Consensus pattern (54 bp):
GGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCAATCATTTTACCCATCAA
Found at i:4796753 original size:80 final size:79
Alignment explanation
Indices: 4796637--4796792 Score: 197
Period size: 80 Copynumber: 2.0 Consensus size: 79
4796627 TTACCTGATA
** * ** *
4796637 GGGGGTATTTCGGTCATTTTACCCTTTGAGGGTATTTCAAAT-ATTTTACCCATCAGTGTATTTC
1 GGGGGTATTTCAATCATTTTACCCCTCAAGGGTATTTC-AATCATTTTACCCATC-GGGTATTTC
4796701 AGTCACTTTACCCTTC
64 AGTCACTTTACCCTTC
* * *
4796717 GGGGGTATTTCAATCATTTTACCCCTCAAGGGTATTTCATTCATTTTACCCCTCGGGTATTTCGG
1 GGGGGTATTTCAATCATTTTACCCCTCAAGGGTATTTCAATCATTTTACCCATCGGGTATTTCAG
*
4796782 TCATTTTACCC
66 TCACTTTACCC
4796793 CTCAAGGTAT
Statistics
Matches: 65, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
79 21 0.32
80 44 0.68
ACGTcount: A:0.19, C:0.23, G:0.17, T:0.40
Consensus pattern (79 bp):
GGGGGTATTTCAATCATTTTACCCCTCAAGGGTATTTCAATCATTTTACCCATCGGGTATTTCAG
TCACTTTACCCTTC
Found at i:4800244 original size:18 final size:19
Alignment explanation
Indices: 4800206--4800244 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
4800196 GGGGCCTCAA
4800206 TCAAAACTTTCTTCAATTTC
1 TCAAAACTTTCTT-AATTTC
4800226 TCAAAACTTTCTT-ATTTC
1 TCAAAACTTTCTTAATTTC
4800244 T
1 T
4800245 TATCAGTCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.32
20 13 0.68
ACGTcount: A:0.28, C:0.23, G:0.00, T:0.49
Consensus pattern (19 bp):
TCAAAACTTTCTTAATTTC
Found at i:4803506 original size:27 final size:26
Alignment explanation
Indices: 4803476--4803800 Score: 223
Period size: 27 Copynumber: 12.2 Consensus size: 26
4803466 TATAATAGTT
* *
4803476 ATTTTACCCAATGGGGGTATTTCAGAC
1 ATTTTACCC-ATGAGGGTATTTCAGTC
* *
4803503 ATTTTACCCTTGGAGGGTATTTCAGTT
1 ATTTTACCCAT-GAGGGTATTTCAGTC
* *
4803530 ATTTTACCCATCAGTGTATTTCAGTC
1 ATTTTACCCATGAGGGTATTTCAGTC
*
4803556 ATTTTACCCTTCGAGGGTATTTCAGTC
1 ATTTTACCCAT-GAGGGTATTTCAGTC
* *
4803583 ATTTTACCCCTCG-GGCATATTTCAGTC
1 ATTTTACCCAT-GAGG-GTATTTCAGTC
* * *
4803610 ATTTT-CCCTATCAGGGCATTAC-GATC
1 ATTTTACCC-ATGAGGGTATTTCAG-TC
* * * *
4803636 ATTTTACCCCTTAGGGGTCTTTCTGTC
1 ATTTTACCCATGA-GGGTATTTCAGTC
* *
4803663 ATTTTAACCC-TCG-GGGTATTTCGGTG
1 ATTTT-ACCCAT-GAGGGTATTTCAGTC
* *
4803689 ATTTTA-CCATTCAAAGGTATTTCAGTC
1 ATTTTACCCA-T-GAGGGTATTTCAGTC
* * *
4803716 ATTTTACCCCTCGGGGGTATTTCGGTC
1 ATTTTACCCAT-GAGGGTATTTCAGTC
*
4803743 ATTTTA-CCATTCAGAGGTATTTCAGTC
1 ATTTTACCCA-TGAG-GGTATTTCAGTC
* *
4803770 ATTTTACCCCTCAGGGATATTTCAGTC
1 ATTTTACCCATGAGGG-TATTTCAGTC
4803797 ATTT
1 ATTT
4803801 GCCTACGAAT
Statistics
Matches: 238, Mismatches: 41, Indels: 38
0.75 0.13 0.12
Matches are distributed among these distances:
24 2 0.01
25 2 0.01
26 63 0.26
27 162 0.68
28 9 0.04
ACGTcount: A:0.20, C:0.22, G:0.18, T:0.40
Consensus pattern (26 bp):
ATTTTACCCATGAGGGTATTTCAGTC
Found at i:4803565 original size:53 final size:52
Alignment explanation
Indices: 4803476--4803800 Score: 275
Period size: 53 Copynumber: 6.1 Consensus size: 52
4803466 TATAATAGTT
** * *
4803476 ATTTTACCCAATGGGGGTATTTCAGACATTTTACCCTTGGAGGGTATTTCAGTT
1 ATTTTACCC-ATCAGGGTATTTCAGTCATTTTACCCTT-GAGGGTATTTCAGTC
*
4803530 ATTTTACCCATCAGTGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCAGTC
1 ATTTTACCCATCAGGGTATTTCAGTCATTTTACCCTT-GAGGGTATTTCAGTC
* * * *
4803583 ATTTTACCCCTC-GGGCATATTTCAGTCATTTT-CCCTATCAGGGCATTAC-GATC
1 ATTTTACCCATCAGGG--TATTTCAGTCATTTTACCCT-TGAGGGTATTTCAG-TC
* * * * * * *
4803636 ATTTTACCCCTTAGGGGTCTTTCTGTCATTTTAACCCTCG-GGGTATTTCGGTG
1 ATTTTACCCATCA-GGGTATTTCAGTCATTTT-ACCCTTGAGGGTATTTCAGTC
* * * *
4803689 ATTTTA-CCATTCAAAGGTATTTCAGTCATTTTACCCCTCGGGGGTATTTCGGTC
1 ATTTTACCCA-TC-AGGGTATTTCAGTCATTTTA-CCCTTGAGGGTATTTCAGTC
* *
4803743 ATTTTA-CCATTCAGAGGTATTTCAGTCATTTTACCCCTCAGGGATATTTCAGTC
1 ATTTTACCCA-TCAG-GGTATTTCAGTCATTTTACCCTTGAGGG-TATTTCAGTC
4803797 ATTT
1 ATTT
4803801 GCCTACGAAT
Statistics
Matches: 225, Mismatches: 31, Indels: 30
0.79 0.11 0.10
Matches are distributed among these distances:
52 6 0.03
53 130 0.58
54 82 0.36
55 7 0.03
ACGTcount: A:0.20, C:0.22, G:0.18, T:0.40
Consensus pattern (52 bp):
ATTTTACCCATCAGGGTATTTCAGTCATTTTACCCTTGAGGGTATTTCAGTC
Found at i:4803614 original size:80 final size:78
Alignment explanation
Indices: 4803489--4803800 Score: 315
Period size: 80 Copynumber: 3.9 Consensus size: 78
4803479 TTACCCAATG
* * * * *
4803489 GGGGTATTTCAGACATTTTACCCTTGGAGGGTATTTCAGTTATTTTACCCATCAGTGTATTTCAG
1 GGGGTATTTCAGTCATTTTACCCCTCG-GGGTATTTCAGTCATTTTACCCATCAGGGTATTTCAG
4803554 TCATTTTACCCTTC
65 TCATTTTACCCTTC
* * *
4803568 GAGGGTATTTCAGTCATTTTACCCCTCGGGCATATTTCAGTCATTTT-CCCTATCAGGGCATTAC
1 G-GGGTATTTCAGTCATTTTACCCCTCGGG-GTATTTCAGTCATTTTACCC-ATCAGGGTATTTC
*
4803632 -GATCATTTTACCCCTTA
63 AG-TCATTTTA-CCCTTC
* * * * * *
4803649 GGGGTCTTTCTGTCATTTTAACCCTCGGGGTATTTCGGTGATTTTA-CCATTCAAAGGTATTTCA
1 GGGGTATTTCAGTCATTTTACCCCTCGGGGTATTTCAGTCATTTTACCCA-TC-AGGGTATTTCA
*
4803713 GTCATTTTACCCCTC
64 GTCATTTTACCCTTC
* ** * *
4803728 GGGGGTATTTCGGTCATTTTACCATTCAGAGGTATTTCAGTCATTTTACCCCTCAGGGATATTTC
1 -GGGGTATTTCAGTCATTTTACCCCTC-GGGGTATTTCAGTCATTTTACCCATCAGGG-TATTTC
4803793 AGTCATTT
63 AGTCATTT
4803801 GCCTACGAAT
Statistics
Matches: 190, Mismatches: 30, Indels: 24
0.78 0.12 0.10
Matches are distributed among these distances:
78 1 0.01
79 28 0.15
80 119 0.63
81 40 0.21
82 2 0.01
ACGTcount: A:0.20, C:0.22, G:0.18, T:0.40
Consensus pattern (78 bp):
GGGGTATTTCAGTCATTTTACCCCTCGGGGTATTTCAGTCATTTTACCCATCAGGGTATTTCAGT
CATTTTACCCTTC
Found at i:4809529 original size:21 final size:20
Alignment explanation
Indices: 4809500--4809541 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
4809490 AGAAATGCAA
4809500 TCAACCTAACA-TGAATTAAAT
1 TCAACCTAA-ATTG-ATTAAAT
*
4809521 TCAATCTAAATTGATTAAAT
1 TCAACCTAAATTGATTAAAT
4809541 T
1 T
4809542 AACTATTCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.45, C:0.14, G:0.05, T:0.36
Consensus pattern (20 bp):
TCAACCTAAATTGATTAAAT
Found at i:4814493 original size:26 final size:26
Alignment explanation
Indices: 4814464--4814522 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 26
4814454 ATAGCTCGGT
* * *
4814464 TGAGCAGGCCCATTTTATAGCTCATG
1 TGAGCAAGCCCATTTCACAGCTCATG
* *
4814490 TGAGCAAGCCCCTTTCACAGCTCGTG
1 TGAGCAAGCCCATTTCACAGCTCATG
4814516 TGAGCAA
1 TGAGCAA
4814523 CAATGTAAAG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (26 bp):
TGAGCAAGCCCATTTCACAGCTCATG
Found at i:4816933 original size:16 final size:18
Alignment explanation
Indices: 4816901--4816934 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
4816891 ATTATTTTAT
4816901 TTATTTTATCATTAATTA
1 TTATTTTATCATTAATTA
4816919 TTATTTTA-C-TTAATTA
1 TTATTTTATCATTAATTA
4816935 ACTTTATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 1 0.06
18 8 0.50
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (18 bp):
TTATTTTATCATTAATTA
Found at i:4820850 original size:23 final size:24
Alignment explanation
Indices: 4820822--4820882 Score: 72
Period size: 26 Copynumber: 2.5 Consensus size: 24
4820812 ATCAGCTCTT
4820822 ATGAGCTTACCGTTTCAGCTC-G-
1 ATGAGCTTACCGTTTCAGCTCGGA
*
4820844 ATAGAGCTTACCATTTTTCAGCTCGGA
1 AT-GAGCTTACC--GTTTCAGCTCGGA
4820871 ATGAGCTTACCG
1 ATGAGCTTACCG
4820883 ATCATGGCTC
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
22 2 0.06
23 9 0.28
25 9 0.28
26 10 0.31
27 2 0.06
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.31
Consensus pattern (24 bp):
ATGAGCTTACCGTTTCAGCTCGGA
Found at i:4821769 original size:19 final size:19
Alignment explanation
Indices: 4821745--4821800 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 19
4821735 TATGAATATG
4821745 AATGATTGATAATTACTGA
1 AATGATTGATAATTACTGA
* * *
4821764 AATGATATGCT-ATTAGTTA
1 AATGAT-TGATAATTACTGA
4821783 AATG-TTGATGAATTACTG
1 AATGATTGAT-AATTACTG
4821801 TTCTGAAATG
Statistics
Matches: 28, Mismatches: 6, Indels: 6
0.70 0.15 0.15
Matches are distributed among these distances:
17 3 0.11
18 1 0.04
19 21 0.75
20 3 0.11
ACGTcount: A:0.38, C:0.05, G:0.18, T:0.39
Consensus pattern (19 bp):
AATGATTGATAATTACTGA
Found at i:4824988 original size:27 final size:27
Alignment explanation
Indices: 4824971--4825094 Score: 131
Period size: 27 Copynumber: 4.6 Consensus size: 27
4824961 ATATTAAGTC
4824971 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
4824998 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * * *
4825026 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTCAGTGCTATATAATCAACT
* * * *
4825053 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTCAGTGCTATATAATCAACT
*
4825080 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
4825095 GCACAATTTA
Statistics
Matches: 92, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
27 65 0.71
28 27 0.29
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:4825056 original size:55 final size:54
Alignment explanation
Indices: 4824971--4825094 Score: 194
Period size: 55 Copynumber: 2.3 Consensus size: 54
4824961 ATATTAAGTC
* *
4824971 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAGTC-AACT
* * *
4825026 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAGTCAACT
4825080 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
4825095 GCACAATTTA
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
54 18 0.28
55 46 0.72
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAGTCAACT
Found at i:4833216 original size:28 final size:27
Alignment explanation
Indices: 4833099--4833550 Score: 769
Period size: 27 Copynumber: 16.6 Consensus size: 27
4833089 ATATTGAGTC
** * *
4833099 CGCACACTCCGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
* * * *
4833126 CGCACAATTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
4833153 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
4833180 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
4833208 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
4833236 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
4833264 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
4833292 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
4833319 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
4833346 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
4833374 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
4833401 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
4833428 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
4833455 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
4833482 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
4833509 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
4833536 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
4833551 GCACAATTTA
Statistics
Matches: 410, Mismatches: 13, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
27 273 0.67
28 137 0.33
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:4835345 original size:40 final size:40
Alignment explanation
Indices: 4835288--4835386 Score: 121
Period size: 40 Copynumber: 2.5 Consensus size: 40
4835278 CTGTCACAAA
* *
4835288 TCAGGAGCACGAATGTGCAATCAAGGGTACCAAAGTGTAG
1 TCAGGAGCACGAATGTGCAATCAAGGGCACCAAAGTGAAG
* *
4835328 TCAGGAGCAC-AACTGTGCAATCAGGGGCACCAGAGTGAAG
1 TCAGGAGCACGAA-TGTGCAATCAAGGGCACCAAAGTGAAG
*
4835368 TCAGGGGCACCGAA-GTGCA
1 TCAGGAGCA-CGAATGTGCA
4835387 GTCAGGGATA
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
39 2 0.04
40 46 0.90
41 1 0.02
42 2 0.04
ACGTcount: A:0.32, C:0.21, G:0.32, T:0.14
Consensus pattern (40 bp):
TCAGGAGCACGAATGTGCAATCAAGGGCACCAAAGTGAAG
Found at i:4835371 original size:20 final size:20
Alignment explanation
Indices: 4835348--4835393 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
4835338 AACTGTGCAA
4835348 TCAGGGGCACC-AGAGTGAAG
1 TCAGGGGCACCGA-AGTGAAG
*
4835368 TCAGGGGCACCGAAGTGCAG
1 TCAGGGGCACCGAAGTGAAG
4835388 TCAGGG
1 TCAGGG
4835394 ATACTGAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.26, C:0.22, G:0.41, T:0.11
Consensus pattern (20 bp):
TCAGGGGCACCGAAGTGAAG
Found at i:4835426 original size:40 final size:40
Alignment explanation
Indices: 4835369--4835448 Score: 92
Period size: 40 Copynumber: 2.0 Consensus size: 40
4835359 AGAGTGAAGT
**
4835369 CAGGGGCACCGAAGTGCAGTC-AGGGATACTGAAGTACAAA
1 CAGGGGCACCGAAGTGCAGTCAAGGG-TACCAAAGTACAAA
* *
4835409 CAGGGGCA-CGTATGTGCATTCAAGGGTACCAAAGTACAAA
1 CAGGGGCACCG-AAGTGCAGTCAAGGGTACCAAAGTACAAA
4835449 TAAAATTCCA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
39 2 0.06
40 28 0.82
41 4 0.12
ACGTcount: A:0.35, C:0.20, G:0.30, T:0.15
Consensus pattern (40 bp):
CAGGGGCACCGAAGTGCAGTCAAGGGTACCAAAGTACAAA
Found at i:4835627 original size:28 final size:28
Alignment explanation
Indices: 4835587--4835642 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
4835577 ATAAGAAGAA
4835587 AGTCACTACGAACTTACTTAGGCTAAAT
1 AGTCACTACGAACTTACTTAGGCTAAAT
4835615 AGTCACTACGAACTTACTTAGGCTAAAT
1 AGTCACTACGAACTTACTTAGGCTAAAT
4835643 TGCAATGGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (28 bp):
AGTCACTACGAACTTACTTAGGCTAAAT
Found at i:4839871 original size:27 final size:27
Alignment explanation
Indices: 4839841--4839897 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
4839831 CATCCTAACA
*
4839841 ATTTGGATTATTATTGAGACCAGGACC
1 ATTTGGATTATTATTAAGACCAGGACC
* *
4839868 ATTTGGATTATTGTTAAGACCAGGATC
1 ATTTGGATTATTATTAAGACCAGGACC
4839895 ATT
1 ATT
4839898 CTCATTTCTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.37
Consensus pattern (27 bp):
ATTTGGATTATTATTAAGACCAGGACC
Found at i:4844484 original size:51 final size:51
Alignment explanation
Indices: 4844384--4844484 Score: 148
Period size: 51 Copynumber: 2.0 Consensus size: 51
4844374 GCTAGCTAGA
*
4844384 ACATAAAACTTTACATAATTAGCACACACATACTTTGCATTCACGGTTCAC
1 ACATAAAACTTTACATAATTAGCACACACATACTTTGCATTCACAGTTCAC
* * ** *
4844435 ACATAGAACTTTACATAATTAGTATGCACATACTTTGCATTCATAGTTCA
1 ACATAAAACTTTACATAATTAGCACACACATACTTTGCATTCACAGTTCA
4844485 TGGACCTTTC
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.37, C:0.22, G:0.09, T:0.33
Consensus pattern (51 bp):
ACATAAAACTTTACATAATTAGCACACACATACTTTGCATTCACAGTTCAC
Found at i:4849860 original size:29 final size:29
Alignment explanation
Indices: 4849797--4849864 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
4849787 TAATCAACCG
*
4849797 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
4849826 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
4849855 CGCACACTTA
1 CGCACACTTA
4849865 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:4849976 original size:174 final size:174
Alignment explanation
Indices: 4849686--4850013 Score: 629
Period size: 174 Copynumber: 1.9 Consensus size: 174
4849676 AACTCAAGGT
* *
4849686 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
4849751 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
4849816 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
4849860 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
4849925 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
*
4849990 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
4850014 TGTACAATTT
Statistics
Matches: 151, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
174 151 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:4850005 original size:29 final size:30
Alignment explanation
Indices: 4849966--4850044 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
4849956 CTTAATAATC
4849966 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
4849996 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
4850025 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
4850045 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:4858028 original size:29 final size:29
Alignment explanation
Indices: 4857965--4858032 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
4857955 TAATCACCCA
* *
4857965 CGCACACTCAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTACCATGCACTTTAAACT
* **
4857994 CACACACTTAGTACCATGCA-TTTCAAGTT
1 CGCACACTTAGTACCATGCACTTT-AAACT
4858023 CGCACACTTA
1 CGCACACTTA
4858033 CCTTTTTCCG
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
28 3 0.09
29 29 0.91
ACGTcount: A:0.29, C:0.32, G:0.12, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTACCATGCACTTTAAACT
Found at i:4858174 original size:29 final size:30
Alignment explanation
Indices: 4858135--4858213 Score: 101
Period size: 29 Copynumber: 2.7 Consensus size: 30
4858125 CTTAATAATC
4858135 AACCGCGCACACTTAGTGCCATGTAC-TGTA
1 AACC-CGCACACTTAGTGCCATGTACATGTA
* *
4858165 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATGTA
4858194 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
4858214 ATCTCATGAT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 32 0.76
30 4 0.10
ACGTcount: A:0.29, C:0.30, G:0.16, T:0.24
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATGTA
Found at i:4862140 original size:40 final size:40
Alignment explanation
Indices: 4862074--4862258 Score: 262
Period size: 40 Copynumber: 4.6 Consensus size: 40
4862064 TACCTTATGA
* * *
4862074 TTATTCAGGCTTAGTACTTAGGAGGCTTCATGCCAGTGTG
1 TTATTCAGGCTTAGTGCCTAGCAGGCTTCATGCCAGTGTG
*
4862114 TTATTCAGGCTTAGTGCCTAGCAGGCTTCCTGCCAGTGTG
1 TTATTCAGGCTTAGTGCCTAGCAGGCTTCATGCCAGTGTG
* *
4862154 TTATTCAAGCTTAGTGCCTAGCAGGCTTCATGCCTGTGTG
1 TTATTCAGGCTTAGTGCCTAGCAGGCTTCATGCCAGTGTG
* * * * *
4862194 TTATTTAGGCTTAGTGCCTAGCAGACTTCGTGTCGGTGTG
1 TTATTCAGGCTTAGTGCCTAGCAGGCTTCATGCCAGTGTG
*
4862234 TTATTCAAGCTTAGTGCCTAGCAGG
1 TTATTCAGGCTTAGTGCCTAGCAGG
4862259 ATTTTGTGCT
Statistics
Matches: 129, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 129 1.00
ACGTcount: A:0.18, C:0.21, G:0.27, T:0.35
Consensus pattern (40 bp):
TTATTCAGGCTTAGTGCCTAGCAGGCTTCATGCCAGTGTG
Found at i:4863835 original size:12 final size:12
Alignment explanation
Indices: 4863803--4863827 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4863793 ATCTTGTATG
4863803 AATTAATTGATT
1 AATTAATTGATT
4863815 AATTAATTGATT
1 AATTAATTGATT
4863827 A
1 A
4863828 TTTGATTGGG
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (12 bp):
AATTAATTGATT
Found at i:4870580 original size:50 final size:50
Alignment explanation
Indices: 4870526--4870622 Score: 158
Period size: 50 Copynumber: 1.9 Consensus size: 50
4870516 TACTTTTATA
* *
4870526 TACTAACCAACACTTCAAATTCGTCATTTAACATCTAAAATCACAAATAT
1 TACTAACAAACACTTCAAATTCATCATTTAACATCTAAAATCACAAATAT
* *
4870576 TACTAAGAAACACTTCAAATTCATCATTTATCATCTAAAATCACAAA
1 TACTAACAAACACTTCAAATTCATCATTTAACATCTAAAATCACAAA
4870623 GATCCATCAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.45, C:0.23, G:0.02, T:0.30
Consensus pattern (50 bp):
TACTAACAAACACTTCAAATTCATCATTTAACATCTAAAATCACAAATAT
Found at i:4871428 original size:79 final size:79
Alignment explanation
Indices: 4871271--4871420 Score: 248
Period size: 79 Copynumber: 1.9 Consensus size: 79
4871261 TTTTTAAAAT
* * *
4871271 CATATTTGACTCATAAATATTAAATAATAATATTTCTGAACTTACTTGTCGGATTTGTGGCCCCG
1 CATATTTGACTCATAAATATTAAATAATAATATTTCTGAACTTACTCGTCGAATTTGTGGCCCCA
4871336 AAACCACTGTTTCC
66 AAACCACTGTTTCC
*
4871350 CATATTTGACTCATAAATATTAAATAATAATATTTAC-GAACTTACTCGTCGAATTTGTGGGCCC
1 CATATTTGACTCATAAATATTAAATAATAATATTT-CTGAACTTACTCGTCGAATTTGTGGCCCC
4871414 AAAACCA
65 AAAACCA
4871421 TTTTTTCCGA
Statistics
Matches: 66, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
79 65 0.98
80 1 0.02
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.35
Consensus pattern (79 bp):
CATATTTGACTCATAAATATTAAATAATAATATTTCTGAACTTACTCGTCGAATTTGTGGCCCCA
AAACCACTGTTTCC
Found at i:4877152 original size:25 final size:25
Alignment explanation
Indices: 4877122--4877219 Score: 91
Period size: 25 Copynumber: 4.0 Consensus size: 25
4877112 AATGACGGGT
4877122 AGCTCCGAAGAGCCAT-TAATCGAGA
1 AGCTCCGAAGAGCCATAT-ATCGAGA
* *
4877147 AGCTCCGAATAGCCATATATCGGGA
1 AGCTCCGAAGAGCCATATATCGAGA
*
4877172 AG-TTC-AAGCAAGCC--ATATC-AGGA
1 AGCTCCGAAG--AGCCATATATCGA-GA
4877195 AGCTCCGAAGAGCCATATATCGAGA
1 AGCTCCGAAGAGCCATATATCGAGA
4877220 CACTCTTAAG
Statistics
Matches: 58, Mismatches: 6, Indels: 18
0.71 0.07 0.22
Matches are distributed among these distances:
23 15 0.26
24 4 0.07
25 37 0.64
26 2 0.03
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.17
Consensus pattern (25 bp):
AGCTCCGAAGAGCCATATATCGAGA
Found at i:4877699 original size:5 final size:5
Alignment explanation
Indices: 4877670--4877713 Score: 61
Period size: 5 Copynumber: 8.6 Consensus size: 5
4877660 TAAATTTAAC
* *
4877670 TCAAT TTAAT ACAAT TCATAT TCAAT TCAAT TCAAT TCAAT TCA
1 TCAAT TCAAT TCAAT TCA-AT TCAAT TCAAT TCAAT TCAAT TCA
4877714 CATTTTAGGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
5 29 0.85
6 5 0.15
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (5 bp):
TCAAT
Found at i:4881553 original size:50 final size:50
Alignment explanation
Indices: 4881485--4881614 Score: 152
Period size: 50 Copynumber: 2.6 Consensus size: 50
4881475 TTTCCTTTAC
* ** * **
4881485 TGCCAATGCCATATCCCAGATGTGGTCTTACATAGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGAGGACCTCTCATATCGG
* * * *
4881535 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGAGGACCTCTCATATCGG
* *
4881585 TGCCAACGCCATGTCCCAAACATGGTCTTA
1 TGCCAATGCCATGTCCCAGACATGGTCTTA
4881615 TATGATACCT
Statistics
Matches: 67, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 67 1.00
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGAGGACCTCTCATATCGG
Found at i:4881625 original size:50 final size:50
Alignment explanation
Indices: 4881524--4881630 Score: 133
Period size: 50 Copynumber: 2.1 Consensus size: 50
4881514 ACATAGGAGT
* * * * *
4881524 TCTCATATCGGTGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACC
1 TCTCATATCGGTGCCAACGCCATGTCCCAAACATGGTCTTACAGGAGACC
* * * *
4881574 TCTCATCTCGGTGCCAACGCCATGTCCCAAACATGGTCTTATATGATACC
1 TCTCATATCGGTGCCAACGCCATGTCCCAAACATGGTCTTACAGGAGACC
4881624 TCTCATA
1 TCTCATA
4881631 ATCTCAATGA
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.21, C:0.32, G:0.20, T:0.27
Consensus pattern (50 bp):
TCTCATATCGGTGCCAACGCCATGTCCCAAACATGGTCTTACAGGAGACC
Found at i:4884622 original size:19 final size:19
Alignment explanation
Indices: 4884593--4884644 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 19
4884583 TTTAACGTGA
4884593 TATCAATATTTCTAA-CGCAG
1 TATCAA-ATTTCTAATCG-AG
*
4884613 TATCAAATTTTTAATCGAG
1 TATCAAATTTCTAATCGAG
4884632 TATCAAAATTTCT
1 TATC-AAATTTCT
4884645 CTGTGTATCT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.37, C:0.15, G:0.08, T:0.40
Consensus pattern (19 bp):
TATCAAATTTCTAATCGAG
Found at i:4884731 original size:20 final size:20
Alignment explanation
Indices: 4884706--4884755 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
4884696 TTTGCATCAA
4884706 TTAAAAATTTTC-ATATCATG
1 TTAAAAATTTTCGATAT-ATG
* *
4884726 TTAAAAA-TATCGATATTTG
1 TTAAAAATTTTCGATATATG
4884745 TTAAAAATTTT
1 TTAAAAATTTT
4884756 AGTATTGCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
19 12 0.48
20 13 0.52
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.46
Consensus pattern (20 bp):
TTAAAAATTTTCGATATATG
Found at i:4886012 original size:16 final size:16
Alignment explanation
Indices: 4885991--4886025 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
4885981 TTGAACCGAA
4885991 ATTTTTGAAT-TTTTTT
1 ATTTTT-AATATTTTTT
4886007 ATTTTTAATATTTTTT
1 ATTTTTAATATTTTTT
4886023 ATT
1 ATT
4886026 CTAACCGATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 3 0.17
16 15 0.83
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (16 bp):
ATTTTTAATATTTTTT
Found at i:4905466 original size:33 final size:31
Alignment explanation
Indices: 4905429--4905490 Score: 81
Period size: 31 Copynumber: 1.9 Consensus size: 31
4905419 ATTGTATTTA
4905429 TAATATTCTACAT-TTAATAGTATAAGTTATTAC
1 TAATATT-T-CATATTAATAGTA-AAGTTATTAC
*
4905462 TAATATTTCATATTTATAGTAAAGTTATT
1 TAATATTTCATATTAATAGTAAAGTTATT
4905491 TAAAATTTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
31 11 0.41
32 9 0.33
33 7 0.26
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.48
Consensus pattern (31 bp):
TAATATTTCATATTAATAGTAAAGTTATTAC
Found at i:4917656 original size:114 final size:114
Alignment explanation
Indices: 4917456--4917672 Score: 416
Period size: 114 Copynumber: 1.9 Consensus size: 114
4917446 CCCGTGTAAC
*
4917456 GATAATTGGTGCTGAAACTAATCGATTCTTCAAATCATTAAAATCTCTCAAACATTCTTCATCAA
1 GATAATTGGTGCTAAAACTAATCGATTCTTCAAATCATTAAAATCTCTCAAACATTCTTCATCAA
4917521 ATTTGAATGTTGTATCCTTCTCCAATAATTTGCATAAGTCCTGTGTGAT
66 ATTTGAATGTTGTATCCTTCTCCAATAATTTGCATAAGTCCTGTGTGAT
*
4917570 GATAATTGGTGCTAAAACTAATCGATTCTTCAAATCATTCAAATCTCTCAAACATTCTTCATCAA
1 GATAATTGGTGCTAAAACTAATCGATTCTTCAAATCATTAAAATCTCTCAAACATTCTTCATCAA
4917635 ATTTGAATGTTGTATCCTTCTCCAATAATTTGCATAAG
66 ATTTGAATGTTGTATCCTTCTCCAATAATTTGCATAAG
4917673 GGTTTAACAA
Statistics
Matches: 101, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
114 101 1.00
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.37
Consensus pattern (114 bp):
GATAATTGGTGCTAAAACTAATCGATTCTTCAAATCATTAAAATCTCTCAAACATTCTTCATCAA
ATTTGAATGTTGTATCCTTCTCCAATAATTTGCATAAGTCCTGTGTGAT
Found at i:4921783 original size:110 final size:110
Alignment explanation
Indices: 4921585--4921852 Score: 331
Period size: 110 Copynumber: 2.4 Consensus size: 110
4921575 GGGGCTTCTC
* * * * * **
4921585 CCACATGGTCTTATACATATCTTCATATTGTGATCCAACAGT-TCGGTTTACATCTCACTGGACG
1 CCACATGGTCTTACACATATCTTCATGTTGTGATCTACCAGTCT-GATTTACATCTCACCAGACG
*
4921649 ATACAAAATGAATATCCTCATTGTCATATAATGCCATGGGTTTATA
65 ATACAAAATGAATATCCTCATTGTCATATAATGCCATGGGTCTATA
* * * * *
4921695 CCACGTGGTCTTACACATATCTTAATGTTGTGATCTACCAGTCTGATTTACATCTCACCATAGGC
1 CCACATGGTCTTACACATATCTTCATGTTGTGATCTACCAGTCTGATTTACATCTCACCAGACGA
** * *
4921760 TACACCATGAATATCCTCATTGTCATATAATGTCATGGGTCTCTA
66 TACAAAATGAATATCCTCATTGTCATATAATGCCATGGGTCTATA
** * *
4921805 CCACATGGTCTTACACATATCTTCATGTCATGAACTACTAGTCTGATT
1 CCACATGGTCTTACACATATCTTCATGTTGTGATCTACCAGTCTGATT
4921853 AGCATTATAA
Statistics
Matches: 134, Mismatches: 23, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
110 133 0.99
111 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (110 bp):
CCACATGGTCTTACACATATCTTCATGTTGTGATCTACCAGTCTGATTTACATCTCACCAGACGA
TACAAAATGAATATCCTCATTGTCATATAATGCCATGGGTCTATA
Found at i:4924945 original size:19 final size:19
Alignment explanation
Indices: 4924921--4924958 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
4924911 CTTTGTAATT
*
4924921 AATAAAATTTTCTAATTAG
1 AATAAAAATTTCTAATTAG
4924940 AATAAAAATTTCTAATTAG
1 AATAAAAATTTCTAATTAG
4924959 TTTTATAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.39
Consensus pattern (19 bp):
AATAAAAATTTCTAATTAG
Found at i:4926108 original size:10 final size:11
Alignment explanation
Indices: 4926078--4926116 Score: 53
Period size: 10 Copynumber: 3.5 Consensus size: 11
4926068 AAATTATTTT
4926078 AAATATATATAA
1 AAATAT-TATAA
4926090 AGAATATTATAA
1 A-AATATTATAA
4926102 AAA-ATTATAA
1 AAATATTATAA
4926112 AAATA
1 AAATA
4926117 AAAAATTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
10 10 0.40
11 3 0.12
12 7 0.28
13 5 0.20
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (11 bp):
AAATATTATAA
Found at i:4926117 original size:16 final size:16
Alignment explanation
Indices: 4926098--4926148 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
4926088 AAAGAATATT
4926098 ATAAAAAATTATAAAA
1 ATAAAAAATTATAAAA
*
4926114 ATAAAAAATTATTAAAT
1 ATAAAAAATTA-TAAAA
*
4926131 TTATAAAAA-TATAAAA
1 ATA-AAAAATTATAAAA
4926147 AT
1 AT
4926149 TGACCTTAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
16 16 0.55
17 8 0.28
18 5 0.17
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
ATAAAAAATTATAAAA
Found at i:4932817 original size:3 final size:3
Alignment explanation
Indices: 4932809--4932840 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
4932799 AAAGTATTCC
4932809 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
4932841 TTAGTGTTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:4933512 original size:20 final size:20
Alignment explanation
Indices: 4933487--4933529 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
4933477 GCAAAGTTAA
4933487 GGGTTTCAGGGGGAAATTAG
1 GGGTTTCAGGGGGAAATTAG
* *
4933507 GGGTTTCAGGGTGAAATTTG
1 GGGTTTCAGGGGGAAATTAG
4933527 GGG
1 GGG
4933530 ATAAAATGAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.21, C:0.05, G:0.47, T:0.28
Consensus pattern (20 bp):
GGGTTTCAGGGGGAAATTAG
Found at i:4934404 original size:7 final size:7
Alignment explanation
Indices: 4934392--4934540 Score: 97
Period size: 7 Copynumber: 20.9 Consensus size: 7
4934382 ACTAATTAAT
4934392 CTAAACC
1 CTAAACC
4934399 CTAAACC
1 CTAAACC
4934406 TCT-AACC
1 -CTAAACC
*
4934413 CTTAACC
1 CTAAACC
*
4934420 CTTAACC
1 CTAAACC
4934427 CTTAAACC
1 C-TAAACC
*
4934435 TTAAACC
1 CTAAACC
*
4934442 ATAAACC
1 CTAAACC
*
4934449 ATAAACC
1 CTAAACC
*
4934456 ATAAACC
1 CTAAACC
* *
4934463 ATAATCC
1 CTAAACC
4934470 CTAAACC
1 CTAAACC
*
4934477 CATAATCC
1 C-TAAACC
*
4934485 ATAAACC
1 CTAAACC
*
4934492 TTAAA--
1 CTAAACC
*
4934497 ATAGTAACTC
1 CTA--AAC-C
*
4934507 CTAAATC
1 CTAAACC
*
4934514 TTAAACC
1 CTAAACC
4934521 CTAAACC
1 CTAAACC
4934528 CTAAACC
1 CTAAACC
4934535 CTAAAC
1 CTAAAC
4934541 TATAATGACA
Statistics
Matches: 117, Mismatches: 16, Indels: 18
0.77 0.11 0.12
Matches are distributed among these distances:
5 2 0.02
6 2 0.02
7 97 0.83
8 14 0.12
10 2 0.02
ACGTcount: A:0.44, C:0.34, G:0.01, T:0.22
Consensus pattern (7 bp):
CTAAACC
Found at i:4935019 original size:40 final size:40
Alignment explanation
Indices: 4934975--4935065 Score: 130
Period size: 40 Copynumber: 2.3 Consensus size: 40
4934965 TTCAAAAAAT
* * *
4934975 GCCGCTAATGCTCGATCTATAGCAGTGTTTTTCA-AGAAGC
1 GCCGCTAATGCTCGACCTATAACAGCGTTTTTCAGA-AAGC
*
4935015 GCCGCTAATGCTCGACCTATAACGGCGTTTTTCAGAAAGC
1 GCCGCTAATGCTCGACCTATAACAGCGTTTTTCAGAAAGC
4935055 GCCGCTAATGC
1 GCCGCTAATGC
4935066 CACTAAAGCT
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
40 45 0.98
41 1 0.02
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
GCCGCTAATGCTCGACCTATAACAGCGTTTTTCAGAAAGC
Found at i:4935175 original size:40 final size:40
Alignment explanation
Indices: 4935117--4935260 Score: 225
Period size: 40 Copynumber: 3.6 Consensus size: 40
4935107 TTTTACGATG
* *
4935117 TTTTTCAAAAAGCACCGCTAATGGTCGACCTATAGCGGCA
1 TTTTTCAAAAAGCGCCGCTAATGCTCGACCTATAGCGGCA
* * *
4935157 TTTTTCAATAAGCGCCGCTAATGCTCAATCTATAGCGGCA
1 TTTTTCAAAAAGCGCCGCTAATGCTCGACCTATAGCGGCA
*
4935197 TTTTTCAAAAAGCGCCACTAATGCTCGACCTATAGCGGCA
1 TTTTTCAAAAAGCGCCGCTAATGCTCGACCTATAGCGGCA
*
4935237 TTTTTCAAAAAGCGCTGCTAATGC
1 TTTTTCAAAAAGCGCCGCTAATGC
4935261 CAATAAAGAT
Statistics
Matches: 93, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 93 1.00
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (40 bp):
TTTTTCAAAAAGCGCCGCTAATGCTCGACCTATAGCGGCA
Found at i:4935192 original size:195 final size:194
Alignment explanation
Indices: 4934958--4935333 Score: 529
Period size: 195 Copynumber: 1.9 Consensus size: 194
4934948 GAATTTTTGT
* * ** * *
4934958 GGCATTTTTCAAAAAATGCCGCTAATGCTCGATCTATAGCAGTGTTTTTCAAGAAGCGCCGCTAA
1 GGCATTTTTCAAAAAACGCCGCTAATGCTCAATCTATAGCAGCATTTTTCAAAAAGCGCCACTAA
* * * *
4935023 TGCTCGACCTATAACGGCGTTTTTCAGAAAGCGCCGCTAATGCCACTAAAGCTCAACATAAAACG
66 TGCTCGACCTATAACGGCATTTTTCAAAAAGCGCCGCTAATGCCAATAAAGATCAACATAAAACG
* *
4935088 -TCGACATTGTGCTTAATTTTTTTACGATGTTTTTCAAAAAGCACCGCTAATGGTCGACCTATAG
131 AT-GACATTGTGCTTAAATTTTTT-CGATGTTTTTCAAAAAGCACCGCGAATGGTCGACCTATAG
4935152 C
194 C
* * *
4935153 GGCATTTTTCAATAAGCGCCGCTAATGCTCAATCTATAGCGGCATTTTTCAAAAAGCGCCACTAA
1 GGCATTTTTCAAAAAACGCCGCTAATGCTCAATCTATAGCAGCATTTTTCAAAAAGCGCCACTAA
* * *
4935218 TGCTCGACCTATAGCGGCATTTTTCAAAAAGCGCTGCTAATGCCAATAAAGATCAACATAAAATG
66 TGCTCGACCTATAACGGCATTTTTCAAAAAGCGCCGCTAATGCCAATAAAGATCAACATAAAACG
* * * *
4935283 ATGGCGTTGTGCTTAAATTTTTTCGGTGTTTTTCAAAAAGCGCCGCGAATG
131 ATGACATTGTGCTTAAATTTTTTCGATGTTTTTCAAAAAGCACCGCGAATG
4935334 CAAAATCTAT
Statistics
Matches: 158, Mismatches: 22, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
194 25 0.16
195 132 0.84
196 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (194 bp):
GGCATTTTTCAAAAAACGCCGCTAATGCTCAATCTATAGCAGCATTTTTCAAAAAGCGCCACTAA
TGCTCGACCTATAACGGCATTTTTCAAAAAGCGCCGCTAATGCCAATAAAGATCAACATAAAACG
ATGACATTGTGCTTAAATTTTTTCGATGTTTTTCAAAAAGCACCGCGAATGGTCGACCTATAGC
Found at i:4945666 original size:8 final size:8
Alignment explanation
Indices: 4945653--4945680 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
4945643 AGTTTATCCA
4945653 AAAATTCT
1 AAAATTCT
4945661 AAAATTCT
1 AAAATTCT
4945669 AAAATTCT
1 AAAATTCT
4945677 AAAA
1 AAAA
4945681 CAGCACAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (8 bp):
AAAATTCT
Found at i:4945731 original size:90 final size:90
Alignment explanation
Indices: 4945578--4945748 Score: 315
Period size: 90 Copynumber: 1.9 Consensus size: 90
4945568 TTCCTACATA
*
4945578 TAAAATTCTAAAACAACACAGAAACAAATAAAAATCTATTGCTGCTCATACCCCTAAAAAATTAA
1 TAAAATTCTAAAACAACACAGAAACAAATAAAAATCCATTGCTGCTCATACCCCTAAAAAATTAA
4945643 AGTTTATCCAAAAATTCTAAAATTC
66 AGTTTATCCAAAAATTCTAAAATTC
* *
4945668 TAAAATTCTAAAACAGCACAGAAACAAATAAAAATCCATTGTTGCTCATACCCCTAAAAAATTAA
1 TAAAATTCTAAAACAACACAGAAACAAATAAAAATCCATTGCTGCTCATACCCCTAAAAAATTAA
4945733 AGTTTATCCAAAAATT
66 AGTTTATCCAAAAATT
4945749 AATACAATCC
Statistics
Matches: 78, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
90 78 1.00
ACGTcount: A:0.50, C:0.19, G:0.05, T:0.26
Consensus pattern (90 bp):
TAAAATTCTAAAACAACACAGAAACAAATAAAAATCCATTGCTGCTCATACCCCTAAAAAATTAA
AGTTTATCCAAAAATTCTAAAATTC
Found at i:4947847 original size:20 final size:23
Alignment explanation
Indices: 4947822--4947862 Score: 61
Period size: 20 Copynumber: 1.9 Consensus size: 23
4947812 GTACTTAAGT
4947822 ACATTTT-GTT-GCA-TTTTAGG
1 ACATTTTAGTTAGCACTTTTAGG
4947842 ACATTTTAGTTAGCACTTTTA
1 ACATTTTAGTTAGCACTTTTA
4947863 AAATTGCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 3 0.17
22 3 0.17
23 5 0.28
ACGTcount: A:0.24, C:0.12, G:0.15, T:0.49
Consensus pattern (23 bp):
ACATTTTAGTTAGCACTTTTAGG
Found at i:4951369 original size:8 final size:8
Alignment explanation
Indices: 4951356--4951384 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
4951346 TCAAGCAAAT
4951356 ATGCATGA
1 ATGCATGA
4951364 ATGCATGA
1 ATGCATGA
4951372 ATGCATGA
1 ATGCATGA
4951380 ATGCA
1 ATGCA
4951385 AAAATTTCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.24
Consensus pattern (8 bp):
ATGCATGA
Found at i:4954736 original size:51 final size:50
Alignment explanation
Indices: 4954673--4954859 Score: 209
Period size: 51 Copynumber: 3.7 Consensus size: 50
4954663 CCAGTTCACA
4954673 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATTCGATACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCAT-ACTATTCGATACACG
* * * * * * *
4954724 TAATGGCCTGCACATAGTACTACACATGTGATCGA-AGCTATCCGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACATGTGA-CCATA-CTATTCGATACACG
* *
4954775 TAGTAGCCTGCACATAGTACTACACATGCGACC-TA-TCATTCTAGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATACT-ATTCGA-TACACG
* *
4954825 TAGTAACCTGCACATAGTACTACACACGTGACCAT
1 TAGTAGCCTGCACATAGTACTACACATGTGACCAT
4954860 CACTTTCACT
Statistics
Matches: 111, Mismatches: 19, Indels: 12
0.78 0.13 0.08
Matches are distributed among these distances:
48 1 0.01
49 3 0.03
50 37 0.33
51 68 0.61
52 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACATGTGACCATACTATTCGATACACG
Found at i:4954879 original size:101 final size:102
Alignment explanation
Indices: 4954671--4954855 Score: 268
Period size: 102 Copynumber: 1.8 Consensus size: 102
4954661 TACCAGTTCA
* * **
4954671 CATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATTCGATACACGTAATGGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATTAGATACACGTAATAACCTGCA
* *
4954736 CATAGTACTACACATGTGATCGAAGCTATCCGGTACG
66 CATAGTACTACACACGTGATCCAAGCTATCCGGTACG
*
4954773 CATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTAG-TACACGTAGTAACCTG
1 CATAGTAGCCTGCACATAGTACTACACATGCGACC-ATCACTAT-TAGATACACGTAATAACCTG
4954835 CACATAGTACTACACACGTGA
64 CACATAGTACTACACACGTGA
4954856 CCATCACTTT
Statistics
Matches: 75, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
101 34 0.45
102 37 0.49
103 4 0.05
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.24
Consensus pattern (102 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATTAGATACACGTAATAACCTGCA
CATAGTACTACACACGTGATCCAAGCTATCCGGTACG
Found at i:4964737 original size:10 final size:9
Alignment explanation
Indices: 4964709--4964733 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
4964699 TTTTATATTG
4964709 ATATTTTAA
1 ATATTTTAA
4964718 ATATTTTAA
1 ATATTTTAA
4964727 ATATTTT
1 ATATTTT
4964734 TAAAAATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (9 bp):
ATATTTTAA
Found at i:4964914 original size:19 final size:19
Alignment explanation
Indices: 4964890--4964933 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
4964880 TCTTTGAAGT
*
4964890 AAACATAGTAAAATATATA
1 AAACATAGGAAAATATATA
* *
4964909 AAACATTGGAAAATGTATA
1 AAACATAGGAAAATATATA
4964928 AAACAT
1 AAACAT
4964934 TTTCCGTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.59, C:0.07, G:0.09, T:0.25
Consensus pattern (19 bp):
AAACATAGGAAAATATATA
Found at i:4966256 original size:22 final size:20
Alignment explanation
Indices: 4966210--4966272 Score: 56
Period size: 22 Copynumber: 2.9 Consensus size: 20
4966200 TTTTTCTTTA
*
4966210 TTAAAAATAATATATGAGAATT
1 TTAAAAATAATATAT-A-ATTT
4966232 TTAAAAGATAATATATAATTGT
1 TTAAAA-ATAATATATAATT-T
4966254 TT-AAAATAAATAATATAAT
1 TTAAAAAT-AAT-ATATAAT
4966273 AAAAATAAAC
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
20 2 0.06
21 8 0.22
22 17 0.47
23 9 0.25
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (20 bp):
TTAAAAATAATATATAATTT
Found at i:4968132 original size:143 final size:143
Alignment explanation
Indices: 4967867--4968514 Score: 886
Period size: 143 Copynumber: 4.5 Consensus size: 143
4967857 TTCTGCTCTA
* * * *
4967867 CTACAATTTCAGGGAGAT-AGGATCGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAA
1 CTACAACTTCAGGGAGATAAGGCT-GGTGGCTTCAATCTGCTCCACTGTAACTTTAGGAAGATAA
* * * * * *
4967931 GATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTCCAATGCTAGGGAAGTAAGATTCGCTGTC
65 GATCCGCCATAATTGGTAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTCGCTGTC
4967996 TTCAGTCTACTCCG
130 TTCAGTCTACTCCG
* * * * * * *
4968010 CTGCAACTTCAGGGAGATAAGGCTGGTGGCTTTAATCTACTACACTGCAATTTTAAGAAGATAAG
1 CTACAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGTAACTTTAGGAAGATAAG
* * * *
4968075 ATCCGCCACAATTTGTAGCTTTAATCTGTTCTATTGCAACGCCAAGGAAATAAGATTCGCTGTCT
66 ATCCGCCATAATTGGTAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTCGCTGTCT
* *
4968140 TCAGTCTGCTCCA
131 TCAGTCTACTCCG
* * * *
4968153 CTACAACTTCAGGGATATAAGGCTTGTGGCTCCAATCTGCTCCACTGTAACTTTAGAAAGATAAG
1 CTACAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGTAACTTTAGGAAGATAAG
* *
4968218 ATCCGCCATAATTGGTAGCTTTAATTTGTTCCACTGCAATGCCAAGGAAATAAGATTCGCTGTCT
66 ATCCGCCATAATTGGTAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTCGCTGTCT
*
4968283 TCAGTCTACTTCG
131 TCAGTCTACTCCG
* *
4968296 CTGCAACTTCAGGGAGATAAGGCTAGTGGCTTCAATCTGCTCCACTGTAACTTTAGGAAGATAAG
1 CTACAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGTAACTTTAGGAAGATAAG
* * * *
4968361 ATCTGCCATAATTGGTAGCTTTAATC-GTTCCACTACAACGTCAAGGAAATAAGATTCGCCGTCT
66 ATCCGCCATAATTGGTAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTCGCTGTCT
* * **
4968425 TCAGTTTGCTTTG
131 TCAGTCTACTCCG
* *
4968438 CTACAAGTTCAGGGAGATAAGGCTGGTGGCTTCAATCAGCTCCACTGTAACTTTAGGAAGATAAG
1 CTACAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGTAACTTTAGGAAGATAAG
*
4968503 ATCCACCATAAT
66 ATCCGCCATAAT
4968515 GACTTCAATC
Statistics
Matches: 445, Mismatches: 59, Indels: 3
0.88 0.12 0.01
Matches are distributed among these distances:
142 115 0.26
143 326 0.73
144 4 0.01
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.29
Consensus pattern (143 bp):
CTACAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGTAACTTTAGGAAGATAAG
ATCCGCCATAATTGGTAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTCGCTGTCT
TCAGTCTACTCCG
Found at i:4969438 original size:21 final size:22
Alignment explanation
Indices: 4969413--4969454 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
4969403 CTCTCCTTAT
*
4969413 TTTTC-TTTTTTTTCTTTTTTC
1 TTTTCATTTTTTTCCTTTTTTC
4969434 TTTTCATTTTTTTCCTTTTTT
1 TTTTCATTTTTTTCCTTTTTT
4969455 TAAGTGAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.83
Consensus pattern (22 bp):
TTTTCATTTTTTTCCTTTTTTC
Found at i:4974225 original size:26 final size:25
Alignment explanation
Indices: 4974196--4974262 Score: 64
Period size: 26 Copynumber: 2.6 Consensus size: 25
4974186 AAAAGATTTC
4974196 AAATAAAAAATACATAAGAA-AACTTA
1 AAATAAAAAATA-ATAA-AATAACTTA
* * **
4974222 AAATGAATAATAATAAAATAGTTTA
1 AAATAAAAAATAATAAAATAACTTA
4974247 AAATAAATAAATAATA
1 AAATAAA-AAATAATA
4974263 TATAACATAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
24 2 0.06
25 14 0.42
26 17 0.52
ACGTcount: A:0.67, C:0.03, G:0.04, T:0.25
Consensus pattern (25 bp):
AAATAAAAAATAATAAAATAACTTA
Found at i:4977179 original size:19 final size:19
Alignment explanation
Indices: 4977157--4977194 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
4977147 CATTATTTAT
*
4977157 CTAAGACATATTTCTTCCC
1 CTAAAACATATTTCTTCCC
4977176 CTAAAACATATTTCTTCCC
1 CTAAAACATATTTCTTCCC
4977195 TTCTCTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.32, G:0.03, T:0.37
Consensus pattern (19 bp):
CTAAAACATATTTCTTCCC
Found at i:4978464 original size:36 final size:35
Alignment explanation
Indices: 4978297--4978466 Score: 153
Period size: 36 Copynumber: 4.7 Consensus size: 35
4978287 ATTGTTGATG
* * * * * *
4978297 TTCTAATTCACATGTTAAACATGTTAATATTATGATA
1 TTCTGATTCGCATGTTAAGCATGTCATTATTTTG--A
*
4978334 TTCTGATTCGCATGTTAAGCATG-CTATTAATTTGA
1 TTCTGATTCGCATGTTAAGCATGTC-ATTATTTTGA
* * * * **
4978369 TTTTGACTCGCATGTTAAACATGCCATTATTTTTTT
1 TTCTGATTCGCATGTTAAGCATGTCATTA-TTTTGA
*
4978405 TTCTGATTCACATGTTAAGCATGTCATTATTTCTGA
1 TTCTGATTCGCATGTTAAGCATGTCATTATTT-TGA
*
4978441 TTCTGATTTGCATGTTAAGCATGTCA
1 TTCTGATTCGCATGTTAAGCATGTCA
4978467 CTGTGTTAAA
Statistics
Matches: 107, Mismatches: 22, Indels: 9
0.78 0.16 0.07
Matches are distributed among these distances:
35 28 0.26
36 53 0.50
37 26 0.24
ACGTcount: A:0.27, C:0.15, G:0.14, T:0.45
Consensus pattern (35 bp):
TTCTGATTCGCATGTTAAGCATGTCATTATTTTGA
Found at i:4981644 original size:40 final size:40
Alignment explanation
Indices: 4981548--4981644 Score: 142
Period size: 40 Copynumber: 2.4 Consensus size: 40
4981538 GCTCCTCGTT
* * *
4981548 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGATTATAGTAACTCGCA
4981588 CAAATGCCTTCGGGACTTAACCCTGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCC-GATTATAGTAACTCGCA
*
4981628 CAAATGCCATCGGGACT
1 CAAATGCCTTCGGGACT
4981645 CGGGACTTAA
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
40 49 0.94
41 3 0.06
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGATTATAGTAACTCGCA
Found at i:4981666 original size:47 final size:47
Alignment explanation
Indices: 4981597--4981687 Score: 146
Period size: 47 Copynumber: 1.9 Consensus size: 47
4981587 ACAAATGCCT
* *
4981597 TCGGGACTTAACCCTGATTTAGTAACTCGCACAAATGCCATCGGGAC
1 TCGGGACTTAACCCGGAATTAGTAACTCGCACAAATGCCATCGGGAC
* *
4981644 TCGGGACTTAACCCGGAATTAGTATCTCGCACAAATGCCTTCGG
1 TCGGGACTTAACCCGGAATTAGTAACTCGCACAAATGCCATCGG
4981688 ATCTTAGTCC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 40 1.00
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (47 bp):
TCGGGACTTAACCCGGAATTAGTAACTCGCACAAATGCCATCGGGAC
Found at i:4986200 original size:22 final size:22
Alignment explanation
Indices: 4986172--4986226 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
4986162 AACCTAAGGA
*
4986172 TGTCACAACATAGGACTTGGTG
1 TGTCACAACATAGGACTTGGGG
4986194 TGTCACAACATAGGACTTGGGG
1 TGTCACAACATAGGACTTGGGG
*
4986216 TGTCGCAACAT
1 TGTCACAACAT
4986227 TGCCTCTGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.25
Consensus pattern (22 bp):
TGTCACAACATAGGACTTGGGG
Found at i:4986984 original size:14 final size:15
Alignment explanation
Indices: 4986963--4987001 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
4986953 TTTCTCACAT
4986963 TTTA-TTTATTTACC
1 TTTATTTTATTTACC
4986977 -TTATTTTATTT-CC
1 TTTATTTTATTTACC
4986990 TTTATTTT-TTTA
1 TTTATTTTATTTA
4987002 GCATAGTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
13 8 0.36
14 14 0.64
ACGTcount: A:0.18, C:0.10, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTATTTTATTTACC
Found at i:4994442 original size:13 final size:14
Alignment explanation
Indices: 4994419--4994447 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
4994409 TTACAAGTGC
4994419 AAAAAGAAAAATTA
1 AAAAAGAAAAATTA
4994433 AAAAAG-AAAATTA
1 AAAAAGAAAAATTA
4994446 AA
1 AA
4994448 CAAGTAGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.79, C:0.00, G:0.07, T:0.14
Consensus pattern (14 bp):
AAAAAGAAAAATTA
Found at i:4995873 original size:26 final size:26
Alignment explanation
Indices: 4995809--4995876 Score: 84
Period size: 26 Copynumber: 2.6 Consensus size: 26
4995799 TAGAGAAATC
* **
4995809 AGAGAACTTTCGATTGTTGAAATTAT
1 AGAGAACTTTAGATTGTTGAAACAAT
*
4995835 ATGAG-ACTATAGATTGTTGAAACAAT
1 A-GAGAACTTTAGATTGTTGAAACAAT
4995861 AGAGAACTTTAGATTG
1 AGAGAACTTTAGATTG
4995877 AGACAAACTC
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
25 3 0.09
26 29 0.83
27 3 0.09
ACGTcount: A:0.38, C:0.07, G:0.21, T:0.34
Consensus pattern (26 bp):
AGAGAACTTTAGATTGTTGAAACAAT
Found at i:4997743 original size:34 final size:34
Alignment explanation
Indices: 4997705--4997774 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 34
4997695 CAACATCAGG
*
4997705 CTTTATAGAACAACCAATTATGGTGTACGTTTGA
1 CTTTATAGAACAACCAATTACGGTGTACGTTTGA
* * *
4997739 CTTTATAGAATAACTAGTTACGGTGTACGTTTGA
1 CTTTATAGAACAACCAATTACGGTGTACGTTTGA
4997773 CT
1 CT
4997775 GTATCAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.37
Consensus pattern (34 bp):
CTTTATAGAACAACCAATTACGGTGTACGTTTGA
Found at i:5002872 original size:12 final size:13
Alignment explanation
Indices: 5002855--5002883 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
5002845 CTCATACATG
5002855 AATAAATAAA-GC
1 AATAAATAAATGC
5002867 AATAAATAAATGC
1 AATAAATAAATGC
5002880 AATA
1 AATA
5002884 GTTATAGCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.21
Consensus pattern (13 bp):
AATAAATAAATGC
Found at i:5005625 original size:26 final size:26
Alignment explanation
Indices: 5005591--5005646 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
5005581 GACAATCCAA
* *
5005591 CATA-TCAAAACATATTCATATTTG-T
1 CATATTCAAAACAAACTCAT-TTTGCT
5005616 CATATTCAAAACAAACTCATTTTGCT
1 CATATTCAAAACAAACTCATTTTGCT
5005642 CATAT
1 CATAT
5005647 GCAGCTCAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 8 0.30
26 19 0.70
ACGTcount: A:0.39, C:0.20, G:0.04, T:0.38
Consensus pattern (26 bp):
CATATTCAAAACAAACTCATTTTGCT
Found at i:5039309 original size:16 final size:15
Alignment explanation
Indices: 5039283--5039317 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
5039273 TGATGTGAAT
5039283 AATATAAAATATTAA
1 AATATAAAATATTAA
*
5039298 AATATCAAAATATTAG
1 AATAT-AAAATATTAA
5039314 AATA
1 AATA
5039318 ATAATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:5039489 original size:20 final size:20
Alignment explanation
Indices: 5039432--5039491 Score: 59
Period size: 23 Copynumber: 2.9 Consensus size: 20
5039422 AATACTACAT
5039432 AAATATGTACAT-ATATAAA
1 AAATATGTACATAATATAAA
** *
5039451 AAATAAATACGTGATAATATTAA
1 AAATATGTAC---ATAATATAAA
5039474 AAATATGTACATAATATA
1 AAATATGTACATAATATA
5039492 GTGTAAAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
19 8 0.26
20 7 0.23
22 2 0.06
23 14 0.45
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.32
Consensus pattern (20 bp):
AAATATGTACATAATATAAA
Done.