Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007999.1 Hibiscus syriacus cultivar Beakdansim tig00110450_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 11700749
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 16 of 50
Found at i:4251983 original size:20 final size:20
Alignment explanation
Indices: 4251724--4251981 Score: 347
Period size: 20 Copynumber: 12.8 Consensus size: 20
4251714 AATTCGTAAA
* *
4251724 GCGAATACGTAAATCGCAAC
1 GCGAATACGTAAATCGCGAT
** * *
4251744 GCGAATTTGGAAAATCGCAAT
1 GCGAA-TACGTAAATCGCGAT
*
4251765 GCGATTACGTAAATCGCGAT
1 GCGAATACGTAAATCGCGAT
4251785 GCGAATACGTAAATCGCGAT
1 GCGAATACGTAAATCGCGAT
4251805 GCGAATACGTAAATCGCGAT
1 GCGAATACGTAAATCGCGAT
4251825 GCGAATACGTAAATCGCGAT
1 GCGAATACGTAAATCGCGAT
4251845 GCGAATACGTAAATCGCGAT
1 GCGAATACGTAAATCGCGAT
*
4251865 GCGATTACGTAAATCGCGAT
1 GCGAATACGTAAATCGCGAT
*
4251885 GCGATTACGTAAATCGCGAT
1 GCGAATACGTAAATCGCGAT
*
4251905 GCGATTACGTAAATCGCGAT
1 GCGAATACGTAAATCGCGAT
* * * * *
4251925 GTGATTACATAAATCACAAT
1 GCGAATACGTAAATCGCGAT
*
4251945 GCGAATACGTAAATCGCAAT
1 GCGAATACGTAAATCGCGAT
4251965 GCGAAT-CTGTAAATCGC
1 GCGAATAC-GTAAATCGC
4251982 AACGAGATTC
Statistics
Matches: 217, Mismatches: 19, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
19 1 0.00
20 201 0.93
21 15 0.07
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (20 bp):
GCGAATACGTAAATCGCGAT
Found at i:4251993 original size:20 final size:20
Alignment explanation
Indices: 4251953--4251993 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
4251943 ATGCGAATAC
* *
4251953 GTAAATCGCAATGCGAATCT
1 GTAAATCGCAACGAGAATCT
*
4251973 GTAAATCGCAACGAGATTCT
1 GTAAATCGCAACGAGAATCT
4251993 G
1 G
4251994 ACTATCGCAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (20 bp):
GTAAATCGCAACGAGAATCT
Found at i:4252168 original size:20 final size:20
Alignment explanation
Indices: 4252122--4252171 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
4252112 AAATCCCACA
*
4252122 TAAATCACAATGCGAATACG
1 TAAATCGCAATGCGAATACG
4252142 TAAATCGCAATGCGAAT-CTG
1 TAAATCGCAATGCGAATAC-G
4252162 TAAATCGCAA
1 TAAATCGCAA
4252172 CGAGATTCTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
19 1 0.04
20 27 0.96
ACGTcount: A:0.42, C:0.20, G:0.16, T:0.22
Consensus pattern (20 bp):
TAAATCGCAATGCGAATACG
Found at i:4252181 original size:20 final size:20
Alignment explanation
Indices: 4252141--4252181 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
4252131 ATGCGAATAC
* *
4252141 GTAAATCGCAATGCGAATCT
1 GTAAATCGCAACGAGAATCT
*
4252161 GTAAATCGCAACGAGATTCT
1 GTAAATCGCAACGAGAATCT
4252181 G
1 G
4252182 ACTATCGCAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (20 bp):
GTAAATCGCAACGAGAATCT
Found at i:4252248 original size:188 final size:188
Alignment explanation
Indices: 4251931--4252306 Score: 743
Period size: 188 Copynumber: 2.0 Consensus size: 188
4251921 CGATGTGATT
4251931 ACATAAATCACAATGCGAATACGTAAATCGCAATGCGAATCTGTAAATCGCAACGAGATTCTGAC
1 ACATAAATCACAATGCGAATACGTAAATCGCAATGCGAATCTGTAAATCGCAACGAGATTCTGAC
4251996 TATCGCAATACTGAATTTCAAATTCGCAACTCGATTTCTGAATTCGCAACAGGTTTTAATTTTGC
66 TATCGCAATACTGAATTTCAAATTCGCAACTCGATTTCTGAATTCGCAACAGGTTTTAATTTTGC
4252061 AACACAAATGTTTTGGGTATATAACTACGCAGCAGCAGCAACTCATAACCTAAATCCC
131 AACACAAATGTTTTGGGTATATAACTACGCAGCAGCAGCAACTCATAACCTAAATCCC
4252119 ACATAAATCACAATGCGAATACGTAAATCGCAATGCGAATCTGTAAATCGCAACGAGATTCTGAC
1 ACATAAATCACAATGCGAATACGTAAATCGCAATGCGAATCTGTAAATCGCAACGAGATTCTGAC
4252184 TATCGCAATACTGAATTTCAAATTCGCAACTCGATTTCTGAATTCGCAACAGGTTTTAATTTTGC
66 TATCGCAATACTGAATTTCAAATTCGCAACTCGATTTCTGAATTCGCAACAGGTTTTAATTTTGC
*
4252249 AACACAAATGTTTTGGGTATATAACTATGCAGCAGCAGCAACTCATAACCTAAATCCC
131 AACACAAATGTTTTGGGTATATAACTACGCAGCAGCAGCAACTCATAACCTAAATCCC
4252307 TAAATCACAA
Statistics
Matches: 187, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
188 187 1.00
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.27
Consensus pattern (188 bp):
ACATAAATCACAATGCGAATACGTAAATCGCAATGCGAATCTGTAAATCGCAACGAGATTCTGAC
TATCGCAATACTGAATTTCAAATTCGCAACTCGATTTCTGAATTCGCAACAGGTTTTAATTTTGC
AACACAAATGTTTTGGGTATATAACTACGCAGCAGCAGCAACTCATAACCTAAATCCC
Found at i:4253084 original size:24 final size:24
Alignment explanation
Indices: 4253033--4253086 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
4253023 GTATTCAAAA
*
4253033 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCAGAC
* *
4253057 TTTGATCTTGGTCAATACTCAGAT
1 TTTGATCTTGGTCAATACCCAGAC
4253081 TTTGAT
1 TTTGAT
4253087 GATTTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCAGAC
Found at i:4255544 original size:20 final size:20
Alignment explanation
Indices: 4255519--4255607 Score: 108
Period size: 20 Copynumber: 4.5 Consensus size: 20
4255509 CAACGCGGAA
4255519 ATCGCAACGC-GAATATGACT
1 ATCGCAACGCGGAA-ATGACT
* *
4255539 ATCGCAACACGGAAATAACT
1 ATCGCAACGCGGAAATGACT
* * *
4255559 ATCACAATGCGGAATTGACT
1 ATCGCAACGCGGAAATGACT
4255579 ATCGCAACGCGGAAATGACT
1 ATCGCAACGCGGAAATGACT
*
4255599 ATTGCAACG
1 ATCGCAACG
4255608 AGAGAATCGC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
20 54 0.95
21 3 0.05
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.19
Consensus pattern (20 bp):
ATCGCAACGCGGAAATGACT
Found at i:4255634 original size:19 final size:19
Alignment explanation
Indices: 4255612--4255657 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
4255602 GCAACGAGAG
4255612 AATCGCAATGCAAAATGAA
1 AATCGCAATGCAAAATGAA
*
4255631 AATCGCAATGCGAAATGAA
1 AATCGCAATGCAAAATGAA
4255650 AATCGCAA
1 AATCGCAA
4255658 CGAGTGAATC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.50, C:0.17, G:0.17, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCAAAATGAA
Found at i:4255648 original size:52 final size:53
Alignment explanation
Indices: 4255579--4255699 Score: 172
Period size: 53 Copynumber: 2.3 Consensus size: 53
4255569 GGAATTGACT
** *
4255579 ATCGCAACGCGGAAATGACTATTGCAACGAGAGAATCGCAATGC-AAAATGAAA
1 ATCGCAACGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAAATGAAA
* *
4255632 ATCGCAATGCGAAATGAAAATCGCAACGAGTGAATCGCAATGCGAAAATGAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAAATGAAA
*
4255685 ATCACAACGCGAAAT
1 ATCGCAACGCGAAAT
4255700 TAGTTTCGCG
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
52 29 0.48
53 31 0.52
ACGTcount: A:0.45, C:0.19, G:0.21, T:0.15
Consensus pattern (53 bp):
ATCGCAACGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAAATGAAA
Found at i:4255765 original size:33 final size:34
Alignment explanation
Indices: 4255708--4255800 Score: 134
Period size: 33 Copynumber: 2.8 Consensus size: 34
4255698 ATTAGTTTCG
4255708 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
* *
4255742 CGTTGCGATTTTTA-TTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
** *
4255775 CGTTGCGATAGTCATTTCCGCATTGC
1 CGTTGCGATTTTCATTTTCGCATTGC
4255801 AATAGTCATT
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
33 29 0.56
34 23 0.44
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.43
Consensus pattern (34 bp):
CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
Found at i:4255805 original size:20 final size:20
Alignment explanation
Indices: 4255777--4255827 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
4255767 GATTCTCTCG
4255777 TTGCGATAGTCATTTCCGCA
1 TTGCGATAGTCATTTCCGCA
* *
4255797 TTGCAATAGTCATTTCCGCG
1 TTGCGATAGTCATTTCCGCA
4255817 TTGCGATAGTC
1 TTGCGATAGTC
4255828 TGTTTTGCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.35
Consensus pattern (20 bp):
TTGCGATAGTCATTTCCGCA
Found at i:4255936 original size:14 final size:14
Alignment explanation
Indices: 4255917--4255953 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
4255907 CATCAATTAA
4255917 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
4255931 ACAAATCATCTTTT
1 ACAAATCAACATTT
4255945 ACAAATCAA
1 ACAAATCAA
4255954 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:4257360 original size:42 final size:42
Alignment explanation
Indices: 4257293--4257415 Score: 124
Period size: 42 Copynumber: 2.9 Consensus size: 42
4257283 GTGAATCGGG
* * * *
4257293 CTCTAGAATGTTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAATGATGGGAGGGGA-CTCTTGAACGATGACAGGGGC
* ** *
4257335 CTCTTGAATGGTGGGAGGGGACTCTTGAGGGATGATAGGGGC
1 CTCTTGAATGATGGGAGGGGACTCTTGAACGATGACAGGGGC
* *
4257377 CTCTTGAATGATAGGG-GAGGCCTCTTGAACGATGACAGG
1 CTCTTGAATGAT-GGGAGGGGACTCTTGAACGATGACAGG
4257416 TGAGTCAGGC
Statistics
Matches: 66, Mismatches: 13, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
42 59 0.89
43 7 0.11
ACGTcount: A:0.23, C:0.17, G:0.37, T:0.24
Consensus pattern (42 bp):
CTCTTGAATGATGGGAGGGGACTCTTGAACGATGACAGGGGC
Found at i:4257374 original size:21 final size:18
Alignment explanation
Indices: 4257350--4257394 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 18
4257340 GAATGGTGGG
4257350 AGGGGACTCTTGAGGGATGAT
1 AGGGGACTCTTGA---ATGAT
*
4257371 AGGGGCCTCTTGAATGAT
1 AGGGGACTCTTGAATGAT
4257389 AGGGGA
1 AGGGGA
4257395 GGCCTCTTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 10 0.45
21 12 0.55
ACGTcount: A:0.24, C:0.11, G:0.42, T:0.22
Consensus pattern (18 bp):
AGGGGACTCTTGAATGAT
Found at i:4257918 original size:20 final size:20
Alignment explanation
Indices: 4257895--4257936 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
4257885 GAAACTTAAA
4257895 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
4257915 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
4257935 AT
1 AT
4257937 GCGAAATGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.40, C:0.24, G:0.19, T:0.17
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:4258065 original size:20 final size:20
Alignment explanation
Indices: 4258040--4258183 Score: 165
Period size: 20 Copynumber: 7.5 Consensus size: 20
4258030 GATTCTTTCG
**
4258040 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
4258060 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
4258080 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
* *
4258100 TTGTGATAGTCATTTTCACA
1 TTGCGATAGTCATTTTCGCA
* *
4258120 TTGC-A-ATTC--TCTCG--
1 TTGCGATAGTCATTTTCGCA
* **
4258134 TTGCGATAGTCATTTTTGTG
1 TTGCGATAGTCATTTTCGCA
4258154 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
4258174 TTGCGATAGT
1 TTGCGATAGT
4258184 AAACTATTCT
Statistics
Matches: 104, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
14 4 0.04
15 1 0.01
16 6 0.06
18 6 0.06
19 1 0.01
20 86 0.83
ACGTcount: A:0.21, C:0.18, G:0.20, T:0.41
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:4258088 original size:40 final size:40
Alignment explanation
Indices: 4258002--4258183 Score: 165
Period size: 40 Copynumber: 4.9 Consensus size: 40
4257992 AATGAGAGAA
* **
4258002 TCGCAATGCGATTTTCA-TTTCGCATTGCGAT--TC--TT
1 TCGCATTGCGATAGTCATTTTCGCATTGCGATAGTCATTT
**
4258037 TCG--TTGCGATAGTCAAATTCGCATTGCGATAGTCATTT
1 TCGCATTGCGATAGTCATTTTCGCATTGCGATAGTCATTT
*
4258075 TCGCATTGCGATAGTCATTTTCGCATTGTGATAGTCATTT
1 TCGCATTGCGATAGTCATTTTCGCATTGCGATAGTCATTT
* * *
4258115 TCACATTGC-A-ATTC--TCTCG--TTGCGATAGTCATTT
1 TCGCATTGCGATAGTCATTTTCGCATTGCGATAGTCATTT
* **
4258149 TTGTGTTGCGATAGTCATTTTCGCATTGCGATAGT
1 TCGCATTGCGATAGTCATTTTCGCATTGCGATAGT
4258184 AAACTATTCT
Statistics
Matches: 117, Mismatches: 17, Indels: 21
0.75 0.11 0.14
Matches are distributed among these distances:
33 9 0.08
34 32 0.27
35 4 0.03
36 9 0.08
38 12 0.10
39 1 0.01
40 50 0.43
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (40 bp):
TCGCATTGCGATAGTCATTTTCGCATTGCGATAGTCATTT
Found at i:4258576 original size:6 final size:6
Alignment explanation
Indices: 4258565--4258594 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
4258555 AACTCATCCC
4258565 GTGGAG GTGGAG GTGGAG GTGGAG GTGGAG
1 GTGGAG GTGGAG GTGGAG GTGGAG GTGGAG
4258595 AATAGGGAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.67, T:0.17
Consensus pattern (6 bp):
GTGGAG
Found at i:4260120 original size:20 final size:20
Alignment explanation
Indices: 4260075--4260142 Score: 82
Period size: 20 Copynumber: 3.4 Consensus size: 20
4260065 GAAACTTTAA
**
4260075 ATCGCAACACGAAAATGAAA
1 ATCGCAACACGAAAATGACT
*
4260095 AGCGCAACACGAAAATGACT
1 ATCGCAACACGAAAATGACT
* **
4260115 ATCGCAACGCGAATTTGACT
1 ATCGCAACACGAAAATGACT
4260135 ATCGCAAC
1 ATCGCAAC
4260143 GCAAGAATCG
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.43, C:0.25, G:0.18, T:0.15
Consensus pattern (20 bp):
ATCGCAACACGAAAATGACT
Found at i:4260213 original size:20 final size:20
Alignment explanation
Indices: 4260188--4260234 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
4260178 GATTCTCTCC
4260188 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCAAATTCGCA
** *
4260208 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCAAATTCGCA
4260228 TTGCGAT
1 TTGCGAT
4260235 TCACTCGTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.36
Consensus pattern (20 bp):
TTGCGATAGTCAAATTCGCA
Found at i:4260627 original size:22 final size:22
Alignment explanation
Indices: 4260566--4260627 Score: 62
Period size: 18 Copynumber: 3.0 Consensus size: 22
4260556 TGACCGTGAA
* *
4260566 TGATTTCGCCGGAGATGGAGAC
1 TGATTTCGTCGGAGATGGGGAC
4260588 TG-TTATCGTC---G-TGGGGAC
1 TGATT-TCGTCGGAGATGGGGAC
4260606 TGATTTCGTCGGAGATGGGGAC
1 TGATTTCGTCGGAGATGGGGAC
4260628 GGATGTCGCC
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
18 13 0.41
19 3 0.09
21 3 0.09
22 13 0.41
ACGTcount: A:0.18, C:0.16, G:0.39, T:0.27
Consensus pattern (22 bp):
TGATTTCGTCGGAGATGGGGAC
Found at i:4260912 original size:21 final size:21
Alignment explanation
Indices: 4260888--4260933 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
4260878 TATTCGCATT
4260888 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* * *
4260909 GCGAATTTGGGAAATCGCAAT
1 GCGAATTAGGAAAATCGCAAC
4260930 GCGA
1 GCGA
4260934 TAGTCAGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.17, G:0.28, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:4269794 original size:28 final size:28
Alignment explanation
Indices: 4269762--4269816 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
4269752 TACACAAATC
*
4269762 ATAGCAAAACTTCATACTTACGATAATA
1 ATAGCAAAACTTCAAACTTACGATAATA
*
4269790 ATAGCAAAACTTCAAACTTATGATAAT
1 ATAGCAAAACTTCAAACTTACGATAAT
4269817 CTTAACACTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.47, C:0.16, G:0.07, T:0.29
Consensus pattern (28 bp):
ATAGCAAAACTTCAAACTTACGATAATA
Found at i:4270834 original size:37 final size:39
Alignment explanation
Indices: 4270766--4270843 Score: 108
Period size: 38 Copynumber: 2.1 Consensus size: 39
4270756 TAATTTATAC
* *
4270766 ATATATATATTTACTATTATTTTAT-GTTTTTTATTTATT
1 ATATATATATATACTATTATTTTATACTTTTTTA-TTATT
4270805 ATATATATATATA-TATTATTTT-TACTTTTTTATTATT
1 ATATATATATATACTATTATTTTATACTTTTTTATTATT
4270842 AT
1 AT
4270844 TTTATTTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
37 8 0.22
38 16 0.44
39 12 0.33
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (39 bp):
ATATATATATATACTATTATTTTATACTTTTTTATTATT
Found at i:4270848 original size:45 final size:42
Alignment explanation
Indices: 4270702--4270849 Score: 116
Period size: 45 Copynumber: 3.2 Consensus size: 42
4270692 TATATATTTT
* * *
4270702 TTATTTTTTTAGATTATATATATATATATATTATTTTTTTATTA
1 TTATTTTATTA-ATTATATATATATAT-TTTTACTTTTTTATTA
* * * *
4270746 TCAGTTTTATTAATTTATACATATATATATTTACTATTATTTTATGTT
1 TTA-TTTTATTAA-TTATATATATATATTTTTAC--TT-TTTTAT-TA
*
4270794 TTTTATTTATTATATATATATATATATTATTTTTACTTTTTTATTA
1 TTAT-TTTATTA-AT-TATATATATA-TATTTTTACTTTTTTATTA
4270840 TTATTTTATT
1 TTATTTTATT
4270850 TATTTGTTTT
Statistics
Matches: 81, Mismatches: 13, Indels: 19
0.72 0.12 0.17
Matches are distributed among these distances:
44 6 0.07
45 26 0.32
46 6 0.07
47 13 0.16
48 12 0.15
49 10 0.12
50 8 0.10
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.65
Consensus pattern (42 bp):
TTATTTTATTAATTATATATATATATTTTTACTTTTTTATTA
Found at i:4270865 original size:28 final size:28
Alignment explanation
Indices: 4270820--4270926 Score: 76
Period size: 28 Copynumber: 3.8 Consensus size: 28
4270810 TATATATATA
* *
4270820 TTATTTTTACTTT-TTTATTATTATTTT
1 TTATATTTATTTTATTTATTATTATTTT
*
4270847 ATT-TATTTGTTTTATTTA-TATATATTTT
1 -TTATATTTATTTTATTTATTAT-TATTTT
* * * * *
4270875 TTGTTTTTCTTTTTCTTTATTATTTTTTT
1 TTATATTT-ATTTTATTTATTATTATTTT
* *
4270904 TTATATTTATTTTACTTACTATT
1 TTATATTTATTTTATTTATTATT
4270927 TTATCTTTGT
Statistics
Matches: 61, Mismatches: 13, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
27 12 0.20
28 27 0.44
29 19 0.31
30 3 0.05
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.75
Consensus pattern (28 bp):
TTATATTTATTTTATTTATTATTATTTT
Found at i:4270888 original size:53 final size:52
Alignment explanation
Indices: 4270782--4270903 Score: 140
Period size: 53 Copynumber: 2.3 Consensus size: 52
4270772 ATATTTACTA
4270782 TTATT-TTATGTTTTTTATTTATTATATATATATATATATTATTTTTACTTTT
1 TTATTATTAT-TTTTTTATTTATTATATATATATATATATTATTTTTACTTTT
* * * * * *
4270834 TTATTATTATTTTATTTATTTGTTTTATTTATATATATTTTTTGTTTTTCTTTT
1 TTATTATTATTTT-TTTATTTATTATATATATATATATATTAT-TTTTACTTTT
4270888 TCT-TTATTATTTTTTT
1 T-TATTATTATTTTTTT
4270904 TTATATTTAT
Statistics
Matches: 60, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
52 8 0.13
53 31 0.52
54 20 0.33
55 1 0.02
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (52 bp):
TTATTATTATTTTTTTATTTATTATATATATATATATATTATTTTTACTTTT
Found at i:4270898 original size:57 final size:57
Alignment explanation
Indices: 4270775--4270971 Score: 153
Period size: 57 Copynumber: 3.4 Consensus size: 57
4270765 CATATATATA
* * *
4270775 TTTACTATTATTTTATGTT-TTTTATTTATTATATATATATATATATTATTTTTAC--TTT-
1 TTTATTATTATTTTAT-TTATTTT-TTTATT-TATATATAT-TATTTTGTTTTT-CTTTTTC
4270833 TTTATTATTATTTTATTTATTTGTTTTATTTATATATATT-TTTTGTTTTTCTTTTTC
1 TTTATTATTATTTTATTTATTT-TTTTATTTATATATATTATTTTGTTTTTCTTTTTC
* * *
4270890 TTTATTATT-TTTTTTTATATTTATTTTACTTACTAT-T-TTATCTTTG-TTTTCTTTATC
1 TTTATTATTATTTTATT-TATTT-TTTTATTTA-TATATATTAT-TTTGTTTTTCTTTTTC
* *
4270947 -TTATCTTTTATTTAATTTATTTTTT
1 TTTAT-TATTATTTTATTTATTTTTT
4270972 CTTCATTTTA
Statistics
Matches: 118, Mismatches: 10, Indels: 24
0.78 0.07 0.16
Matches are distributed among these distances:
54 1 0.01
55 8 0.07
56 19 0.16
57 53 0.45
58 36 0.31
59 1 0.01
ACGTcount: A:0.21, C:0.05, G:0.02, T:0.72
Consensus pattern (57 bp):
TTTATTATTATTTTATTTATTTTTTTATTTATATATATTATTTTGTTTTTCTTTTTC
Found at i:4270939 original size:23 final size:20
Alignment explanation
Indices: 4270884--4270980 Score: 65
Period size: 20 Copynumber: 4.8 Consensus size: 20
4270874 TTTGTTTTTC
4270884 TTTT-TCTTTATTATT-TTT-
1 TTTTATCTTTATT-TTCTTTA
*
4270902 TTTTATATTTATTTTACTTACTA
1 TTTTATCTTTATTTT-CTT--TA
*
4270925 TTTTATCTTTGTTTTCTTTA
1 TTTTATCTTTATTTTCTTTA
* **
4270945 TCTTATCTTTTATTTAATTTA
1 TTTTATC-TTTATTTTCTTTA
* *
4270966 TTTTTTCTTCATTTT
1 TTTTATCTTTATTTT
4270981 AATTTAATTT
Statistics
Matches: 61, Mismatches: 11, Indels: 12
0.73 0.13 0.14
Matches are distributed among these distances:
18 6 0.10
19 7 0.11
20 16 0.26
21 15 0.25
22 4 0.07
23 13 0.21
ACGTcount: A:0.16, C:0.09, G:0.01, T:0.73
Consensus pattern (20 bp):
TTTTATCTTTATTTTCTTTA
Found at i:4275174 original size:32 final size:32
Alignment explanation
Indices: 4275101--4275189 Score: 126
Period size: 32 Copynumber: 2.8 Consensus size: 32
4275091 GCATCTTTGA
4275101 AGATTCAACATCAAATGTTGGGGC-TTTTTTT
1 AGATTCAACATCAAATGTTGGGGCATTTTTTT
* *
4275132 AGATTTAACATCAAATGTTGTGGCATTTTTTT
1 AGATTCAACATCAAATGTTGGGGCATTTTTTT
* * *
4275164 ATATTCAACATCGAATATTGGGGCAT
1 AGATTCAACATCAAATGTTGGGGCAT
4275190 CTTTGGGAAT
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
31 22 0.44
32 28 0.56
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.40
Consensus pattern (32 bp):
AGATTCAACATCAAATGTTGGGGCATTTTTTT
Found at i:4275914 original size:106 final size:105
Alignment explanation
Indices: 4275785--4276118 Score: 418
Period size: 106 Copynumber: 3.2 Consensus size: 105
4275775 ATGTTGTGCC
* * *
4275785 ACTCTAGACAACAAAAGTTCAACTCCACAACGAAGGGACGACTGGTTGTCAACAAACAATTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACG-CTGGTTGTCAACAAACAATTTCCC
4275850 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
65 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
** *
4275891 ACTCGAGACAACACAAGTTCAACTTCACAACGAAAAGACGGCTGGTTGTCAACAAAAAATTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGAC-GCTGGTTGTCAACAAACAATTTCCC
* *
4275956 AATTTCAGAGCTAATTTCAACTTCACAGCGAAGGATATTGG
65 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * * * * *
4275997 ACTCGAGACAACACAAGCTCAACTTAACAGCGAAGGGGCTGCTAGCTGTCAACTAACAATTT-CT
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGAC-GCTGGTTGTCAACAAACAATTTCCC
* * * * *
4276061 TAGTTCTAGAGCCAATTTTAACTTCACGACGGAGGATATTGG
65 AATTTC-AGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
4276103 ACTCGAAACAATACAA
1 ACTCGAGACAACACAA
4276119 CTTACTTGGA
Statistics
Matches: 197, Mismatches: 29, Indels: 4
0.86 0.13 0.02
Matches are distributed among these distances:
105 5 0.03
106 191 0.97
107 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.22
Consensus pattern (105 bp):
ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGCTGGTTGTCAACAAACAATTTCCCA
ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
Found at i:4276550 original size:37 final size:37
Alignment explanation
Indices: 4276475--4276561 Score: 95
Period size: 37 Copynumber: 2.4 Consensus size: 37
4276465 ATTAAAAACA
* * * **
4276475 TTTCCCTTGAAA-TAAATTTTATCTCGCTTGGGGTAG
1 TTTCCCTTGAAACAAAATTTTATCTCCCTTGAGACAG
*
4276511 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACAAAATTTTATCTCCCTTGAGACAG
* *
4276548 TTTCTCTTTAAACA
1 TTTCCCTTGAAACA
4276562 TAAACATTGA
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
36 12 0.29
37 30 0.71
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.40
Consensus pattern (37 bp):
TTTCCCTTGAAACAAAATTTTATCTCCCTTGAGACAG
Found at i:4276562 original size:87 final size:87
Alignment explanation
Indices: 4276364--4276542 Score: 295
Period size: 87 Copynumber: 2.1 Consensus size: 87
4276354 GACAGTTTCT
* *
4276364 CTTGAAACATAAACATTGAAAACATTCCCCTTGAAATGAATTTTATCTCGATTGAGATAGTTTCC
1 CTTGAAACATAAACATTAAAAACATTCCCCTTGAAATAAATTTTATCTCGATTGAGATAGTTTCC
*
4276429 CTTGAAACGAAATTTTGTCTCC
66 CTTGAAACAAAATTTTGTCTCC
* * * *
4276451 CTTGAAACATAAACATTAAAAACATTTCCCTTGAAATAAATTTTATCTCGCTTGGGGTAGTTTCC
1 CTTGAAACATAAACATTAAAAACATTCCCCTTGAAATAAATTTTATCTCGATTGAGATAGTTTCC
4276516 CTTGAAACAAAATTTTGTCTCC
66 CTTGAAACAAAATTTTGTCTCC
4276538 CTTGA
1 CTTGA
4276543 GACAGTTTCT
Statistics
Matches: 85, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 85 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (87 bp):
CTTGAAACATAAACATTAAAAACATTCCCCTTGAAATAAATTTTATCTCGATTGAGATAGTTTCC
CTTGAAACAAAATTTTGTCTCC
Found at i:4276773 original size:37 final size:37
Alignment explanation
Indices: 4276718--4276817 Score: 166
Period size: 36 Copynumber: 2.7 Consensus size: 37
4276708 AAAACGAGTT
4276718 TTGAGACAGTTTCCCTTGAAACAAAATATTGTCTCTC
1 TTGAGACAGTTTCCCTTGAAACAAAATATTGTCTCTC
* *
4276755 TTGAAACAGTTTCCCTTGAAAC-AAATTTTGTCTCTC
1 TTGAGACAGTTTCCCTTGAAACAAAATATTGTCTCTC
*
4276791 TTGAGACAGTTTGCCTTGAAACAAAAT
1 TTGAGACAGTTTCCCTTGAAACAAAAT
4276818 CTTTGAATAT
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
36 33 0.57
37 25 0.43
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (37 bp):
TTGAGACAGTTTCCCTTGAAACAAAATATTGTCTCTC
Found at i:4276891 original size:37 final size:36
Alignment explanation
Indices: 4276835--4276951 Score: 155
Period size: 36 Copynumber: 3.2 Consensus size: 36
4276825 TATCTTTTCC
* *
4276835 TTGAAACAAATTTCGTCTCTCTTGAGACAATTTCTT
1 TTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTT
*
4276871 TT-AGAACTAAGTTTTGTCTCTCTTGAGACAGTTTCTT
1 TTGA-AAC-AAATTTTGTCTCTCTTGAGACAGTTTCTT
* *
4276908 TTGAAACAAATTTTGTCCCTCTTGAGACAGTTTCTC
1 TTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTT
*
4276944 TTAAAACA
1 TTGAAACA
4276952 CAAAAAAAAC
Statistics
Matches: 71, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
35 1 0.01
36 38 0.54
37 31 0.44
38 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.41
Consensus pattern (36 bp):
TTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTT
Found at i:4276893 original size:102 final size:102
Alignment explanation
Indices: 4276731--4276917 Score: 256
Period size: 102 Copynumber: 1.8 Consensus size: 102
4276721 AGACAGTTTC
*
4276731 CCTTGAAACAAAATATTGTCTCTCTTGAAACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAG
1 CCTTGAAACAAAATATTGTCTCTCTTGAAACAATTTCCCTTGAAACAAATTTTGTCTCTCTTGAG
4276796 ACAGTTTGC-CTTGAAACAAAATCTTTGAATATCTTTT
66 ACAGTTT-CTCTTGAAACAAAATCTTTGAATATCTTTT
* * * *
4276833 CCTTGAAAC-AAAT-TTCGTCTCTCTTGAGACAATTT-CTTTTAGAACTAAGTTTTGTCTCTCTT
1 CCTTGAAACAAAATATT-GTCTCTCTTGAAACAATTTCCCTTGA-AAC-AAATTTTGTCTCTCTT
*
4276895 GAGACAGTTTCTTTTGAAACAAA
63 GAGACAGTTTCTCTTGAAACAAA
4276918 TTTTGTCCCT
Statistics
Matches: 75, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
100 6 0.08
101 25 0.33
102 44 0.59
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.39
Consensus pattern (102 bp):
CCTTGAAACAAAATATTGTCTCTCTTGAAACAATTTCCCTTGAAACAAATTTTGTCTCTCTTGAG
ACAGTTTCTCTTGAAACAAAATCTTTGAATATCTTTT
Found at i:4277013 original size:39 final size:36
Alignment explanation
Indices: 4276937--4277029 Score: 120
Period size: 39 Copynumber: 2.6 Consensus size: 36
4276927 TCTTGAGACA
*
4276937 GTTTCTCTT-AAA-ACACAAAAAAAACCTCGAAATT
1 GTTTCTCTTGAAACACACAAAAAAAACCTCGAAAAT
*
4276971 GTTTCTCTTGAAACACACACACAAAAAACCTTTGAAAAT
1 GTTTCTCTTGAAACACACA-A-AAAAAACC-TCGAAAAT
4277010 GTTTCTCTTGAAACAC-CAAA
1 GTTTCTCTTGAAACACACAAA
4277030 GTCTCAAGTT
Statistics
Matches: 52, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
34 9 0.17
35 3 0.06
36 6 0.12
37 2 0.04
38 10 0.19
39 22 0.42
ACGTcount: A:0.43, C:0.23, G:0.08, T:0.27
Consensus pattern (36 bp):
GTTTCTCTTGAAACACACAAAAAAAACCTCGAAAAT
Found at i:4278262 original size:30 final size:30
Alignment explanation
Indices: 4278226--4278295 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
4278216 TTTATATATA
4278226 TATATATATTTAAGATTTTTTA-TTTTTTAT
1 TATATATATTTAAGA-TTTTTACTTTTTTAT
* **
4278256 TATATATATATATTATTTTTACTTTTTTAT
1 TATATATATTTAAGATTTTTACTTTTTTAT
4278286 TAT-TAT-TTTA
1 TATATATATTTA
4278296 TTTATTTGTT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
28 3 0.09
29 9 0.26
30 23 0.66
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.67
Consensus pattern (30 bp):
TATATATATTTAAGATTTTTACTTTTTTAT
Found at i:4278283 original size:38 final size:38
Alignment explanation
Indices: 4278176--4278297 Score: 106
Period size: 40 Copynumber: 3.0 Consensus size: 38
4278166 TTTTAGATTA
*
4278176 TATATATATATATTATTTTT-TTTATTATCAGTTTTATTAAT
1 TATATATATATATTATTTTTATTT-TTATTA-TTTT-TT-AT
* *
4278217 T-TATATATATATATATATTTAAGATTTT-TTATTTTTTAT
1 TATATATATATAT-TAT-TTTTA-TTTTTATTATTTTTTAT
4278256 TATATATATATATTATTTTTACTTTTTTATTATTATTTTAT
1 TATATATATATATTATTTTTA--TTTTTATTATT-TTTTAT
4278297 T
1 T
4278298 TATTTGTTTT
Statistics
Matches: 67, Mismatches: 6, Indels: 16
0.75 0.07 0.18
Matches are distributed among these distances:
38 4 0.06
39 10 0.15
40 29 0.43
41 15 0.22
42 5 0.07
43 2 0.03
44 2 0.03
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (38 bp):
TATATATATATATTATTTTTATTTTTATTATTTTTTAT
Found at i:4278292 original size:36 final size:35
Alignment explanation
Indices: 4278151--4278292 Score: 108
Period size: 38 Copynumber: 3.8 Consensus size: 35
4278141 TTTACTTTAG
*
4278151 TATATATTTTTATTTTTTTA-GATTATATATATATA
1 TATATATTTTTATTTTTTTATTATTAT-TATATATA
* *
4278186 TATTATTTTTTTTATTATCAGTTTTATTAAT-TTATATATA
1 TA-TA-TATTTTTATT-T---TTTTATTATTATTATATATA
* * *
4278226 TATATATATTTAAGATTTTTTATTTTTTATTATATATA
1 TATATAT-TTTTA-TTTTTTTA-TTATTATTATATATA
*
4278264 TATATTATTTTTACTTTTTTATTATTATT
1 TATA-TATTTTTATTTTTTTATTATTATT
4278293 TTATTTATTT
Statistics
Matches: 84, Mismatches: 11, Indels: 23
0.71 0.09 0.19
Matches are distributed among these distances:
35 2 0.02
36 14 0.17
37 19 0.23
38 20 0.24
39 10 0.12
40 11 0.13
41 6 0.07
42 2 0.02
ACGTcount: A:0.31, C:0.01, G:0.02, T:0.65
Consensus pattern (35 bp):
TATATATTTTTATTTTTTTATTATTATTATATATA
Found at i:4278298 original size:5 final size:5
Alignment explanation
Indices: 4278280--4278443 Score: 69
Period size: 5 Copynumber: 32.6 Consensus size: 5
4278270 ATTTTTACTT
* *
4278280 TTTTA TTATTA TTTTA -TTTA -TTTG TTTTA TTTATA TATTTG TTTT-
1 TTTTA TT-TTA TTTTA TTTTA TTTTA TTTTA TTT-TA T-TTTA TTTTA
* * *
4278325 CTTTA TTTT- TTTTA TTTT- TTTTA -TTTA TTTTA CTTACTA TTTTA TCTTTG
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA -TT-TTA TTTTA T-TTTA
* * *
4278375 TTTTA -TTTA TCTTATC TTTTA TTTAA TTTGT- TTTTT TTCTTCA TTTTA
1 TTTTA TTTTA T-TT-TA TTTTA TTTTA TTT-TA TTTTA TT-TT-A TTTTA
* *
4278423 ATTTA ATTTA -TTTA -TTTA TTT
1 TTTTA TTTTA TTTTA TTTTA TTT
4278444 CTTACCTTTT
Statistics
Matches: 125, Mismatches: 15, Indels: 38
0.70 0.08 0.21
Matches are distributed among these distances:
4 35 0.28
5 56 0.45
6 26 0.21
7 8 0.06
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.74
Consensus pattern (5 bp):
TTTTA
Found at i:4278300 original size:9 final size:9
Alignment explanation
Indices: 4278288--4278443 Score: 74
Period size: 9 Copynumber: 17.2 Consensus size: 9
4278278 TTTTTTATTA
4278288 TTATTTTAT
1 TTATTTTAT
4278297 TTATTTGT-T
1 TTATTT-TAT
4278306 TTA-TTTAT
1 TTATTTTAT
*
4278314 ATATTTGT-T
1 TTATTT-TAT
*
4278323 TT-CTTTAT
1 TTATTTTAT
*
4278331 TTTTTTTAT
1 TTATTTTAT
*
4278340 TTTTTTTAT
1 TTATTTTAT
4278349 TTATTTTACT
1 TTATTTTA-T
4278359 TACTATTTTATCT
1 T--TATTTTA--T
*
4278372 TTGTTTTAT
1 TTATTTTAT
*
4278381 TTATCTTA-
1 TTATTTTAT
*
4278389 -TCTTTTAT
1 TTATTTTAT
* *
4278397 TTAATTTGT
1 TTATTTTAT
* *
4278406 TTTTTTTCT
1 TTATTTTAT
*
4278415 TCATTTTAAT
1 TTATTTT-AT
*
4278425 TTAATTTAT
1 TTATTTTAT
4278434 TTA-TTTAT
1 TTATTTTAT
4278442 TT
1 TT
4278444 CTTACCTTTT
Statistics
Matches: 113, Mismatches: 21, Indels: 27
0.70 0.13 0.17
Matches are distributed among these distances:
7 7 0.06
8 17 0.15
9 63 0.56
10 10 0.09
11 6 0.05
12 7 0.06
13 3 0.03
ACGTcount: A:0.19, C:0.05, G:0.03, T:0.74
Consensus pattern (9 bp):
TTATTTTAT
Found at i:4278307 original size:13 final size:13
Alignment explanation
Indices: 4278243--4278443 Score: 92
Period size: 13 Copynumber: 14.9 Consensus size: 13
4278233 ATTTAAGATT
4278243 TTTTATTT-TTTA
1 TTTTATTTATTTA
* * *
4278255 TTATATATATATA
1 TTTTATTTATTTA
*
4278268 TTATT-TTTACTT-
1 TT-TTATTTATTTA
4278280 TTTTA-TTA-TTA
1 TTTTATTTATTTA
*
4278291 TTTTATTTATTTG
1 TTTTATTTATTTA
*
4278304 TTTTATTTATATA
1 TTTTATTTATTTA
*
4278317 TTTGT-TTTCTTTA
1 TTT-TATTTATTTA
* *
4278330 TTTTTTTTATTTT
1 TTTTATTTATTTA
4278343 TTTTATTTATTTTA
1 TTTTATTTA-TTTA
* *
4278357 CTTACTATTTTATCTTTG
1 -TT-TTA-TTTA--TTTA
4278375 TTTTATTTATCTTA
1 TTTTATTTAT-TTA
*
4278389 TCTTTTATTTAATTTG
1 --TTTTATTT-ATTTA
* * *
4278405 TTTTTTTTCTTCA
1 TTTTATTTATTTA
4278418 TTTTAATTTAATTTA
1 TTTT-ATTT-ATTTA
4278433 -TTTATTTATTT
1 TTTTATTTATTT
4278444 CTTACCTTTT
Statistics
Matches: 141, Mismatches: 29, Indels: 38
0.68 0.14 0.18
Matches are distributed among these distances:
10 2 0.01
11 10 0.07
12 16 0.11
13 59 0.42
14 20 0.14
15 9 0.06
16 14 0.10
17 8 0.06
18 3 0.02
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.73
Consensus pattern (13 bp):
TTTTATTTATTTA
Found at i:4278318 original size:17 final size:17
Alignment explanation
Indices: 4278292--4278330 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
4278282 TTATTATTAT
*
4278292 TTTATTTATTTGTTTTA
1 TTTATATATTTGTTTTA
*
4278309 TTTATATATTTGTTTTC
1 TTTATATATTTGTTTTA
4278326 TTTAT
1 TTTAT
4278331 TTTTTTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.18, C:0.03, G:0.05, T:0.74
Consensus pattern (17 bp):
TTTATATATTTGTTTTA
Found at i:4278362 original size:84 final size:86
Alignment explanation
Indices: 4278268--4278458 Score: 205
Period size: 84 Copynumber: 2.2 Consensus size: 86
4278258 TATATATATA
*
4278268 TTATTT-TTACTTTTTTAT-TATTATTTTATTTA-TT-TGTTTTATTT-ATATATTTGTTTTCTT
1 TTATTTCTTACTTTTTTATCT-TTATTTTATTTACTTATCTTTTATTTAATATATTTGTTTTCTT
* * * *
4278328 TATTTT-TTTTATTTTTTTTAT
65 CATTTTAATTTAATTTATTTAT
* * * * *
4278349 TTATTTTACTTACTATTTTATCTTTGTTTTATTTATCTTATCTTTTATTTAATTTGTTTTTTTTC
1 TTA-TTT-CTTACTTTTTTATCTTTATTTTATTTA-CTTATCTTTTATTTAATATATTTGTTTTC
4278414 TTCATTTTAATTTAATTTATTTAT
63 TTCATTTTAATTTAATTTATTTAT
*
4278438 TTATTTCTTACCTTTTTATCT
1 TTATTTCTTACTTTTTTATCT
4278459 AACATGGTTT
Statistics
Matches: 89, Mismatches: 12, Indels: 12
0.79 0.11 0.11
Matches are distributed among these distances:
81 3 0.03
82 3 0.03
84 22 0.25
85 1 0.01
86 2 0.02
87 22 0.25
88 21 0.24
89 15 0.17
ACGTcount: A:0.18, C:0.07, G:0.02, T:0.73
Consensus pattern (86 bp):
TTATTTCTTACTTTTTTATCTTTATTTTATTTACTTATCTTTTATTTAATATATTTGTTTTCTTC
ATTTTAATTTAATTTATTTAT
Found at i:4278398 original size:32 final size:29
Alignment explanation
Indices: 4278330--4278441 Score: 88
Period size: 32 Copynumber: 3.8 Consensus size: 29
4278320 GTTTTCTTTA
*
4278330 TTTT-TTTTATTTTTTTTATTTATTTTAC
1 TTTTATTTTATTTTTTTTATTTATCTTAC
*
4278358 TTACTATTTTATCTTTGTTTTATTTATCTTATC
1 TT-TTATTTTAT-TTT-TTTTATTTATCTTA-C
* *
4278391 TTTTATTTAATTTGTTTT-TTT-TCTT-C
1 TTTTATTTTATTTTTTTTATTTATCTTAC
* * *
4278417 ATTTTAATTTAATTTATTTATTTAT
1 -TTTTATTTTATTTTTTTTATTTAT
4278442 TTCTTACCTT
Statistics
Matches: 66, Mismatches: 10, Indels: 15
0.73 0.11 0.16
Matches are distributed among these distances:
26 1 0.02
27 13 0.20
28 9 0.14
29 5 0.08
30 10 0.15
31 5 0.08
32 20 0.30
33 3 0.05
ACGTcount: A:0.19, C:0.06, G:0.02, T:0.73
Consensus pattern (29 bp):
TTTTATTTTATTTTTTTTATTTATCTTAC
Found at i:4278415 original size:28 final size:30
Alignment explanation
Indices: 4278371--4278441 Score: 87
Period size: 28 Copynumber: 2.5 Consensus size: 30
4278361 CTATTTTATC
*
4278371 TTTGTTTTATTTATCTT-ATCTTTTATTTAA
1 TTTGTTTTATTTATCTTCAT-TTTAATTTAA
4278401 TTTGTTTT-TTT-TCTTCATTTTAATTTAA
1 TTTGTTTTATTTATCTTCATTTTAATTTAA
*
4278429 TTT-ATTTATTTAT
1 TTTGTTTTATTTAT
4278442 TTCTTACCTT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
27 3 0.08
28 19 0.53
29 6 0.17
30 8 0.22
ACGTcount: A:0.20, C:0.06, G:0.03, T:0.72
Consensus pattern (30 bp):
TTTGTTTTATTTATCTTCATTTTAATTTAA
Found at i:4279146 original size:3 final size:3
Alignment explanation
Indices: 4279138--4279182 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
4279128 TTTTTCTGTT
4279138 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
4279183 CTCTAAACTC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:4281842 original size:3 final size:3
Alignment explanation
Indices: 4281827--4281856 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
4281817 GGGGTGTTAC
*
4281827 AAT AAT AAG AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
4281857 TGTTGTTGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:4282421 original size:60 final size:61
Alignment explanation
Indices: 4282348--4282483 Score: 163
Period size: 60 Copynumber: 2.3 Consensus size: 61
4282338 GAAATTGAGT
* ** *
4282348 AAAG-TACACAAATGGTTCCTC-GACTATAGGGTATTGCTTTATTAAGTCAT-TCGACTATTA
1 AAAGTTACA-AAATGGTTCCTCTAACTATAGAATATTACTTTATTAAGT-ATCTCGACTATTA
* *
4282408 AAAGTTACAAAATGG-TCCTCTAACTATAGAATGTTACTTTATTAAGTTTCTCGACTATTA
1 AAAGTTACAAAATGGTTCCTCTAACTATAGAATATTACTTTATTAAGTATCTCGACTATTA
*
4282468 AAAGTTATAAAATGGT
1 AAAGTTACAAAATGGT
4282484 CACCTGACTA
Statistics
Matches: 65, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
59 6 0.09
60 55 0.85
61 4 0.06
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.36
Consensus pattern (61 bp):
AAAGTTACAAAATGGTTCCTCTAACTATAGAATATTACTTTATTAAGTATCTCGACTATTA
Found at i:4303272 original size:42 final size:42
Alignment explanation
Indices: 4303187--4303279 Score: 118
Period size: 41 Copynumber: 2.2 Consensus size: 42
4303177 TTTTTGTCAT
*
4303187 GGCAAAAAA-AATATGCAAGAGTAAACAAATAAATTTGCTAA
1 GGCAAAAAATAATATGCAAGAGTAAACAAATAAAGTTGCTAA
** *
4303228 GGCAAAAAATAAT-TGCAAGAGTAAGTAAATAAAAGTTGTTAA
1 GGCAAAAAATAATATGCAAGAGTAAACAAAT-AAAGTTGCTAA
*
4303270 GGCGAAAAAT
1 GGCAAAAAAT
4303280 GTTTGAGTTC
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
41 24 0.53
42 21 0.47
ACGTcount: A:0.54, C:0.08, G:0.18, T:0.20
Consensus pattern (42 bp):
GGCAAAAAATAATATGCAAGAGTAAACAAATAAAGTTGCTAA
Found at i:4305593 original size:15 final size:16
Alignment explanation
Indices: 4305558--4305608 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
4305548 TGTTTTTGCT
* *
4305558 ATTTTGATCCTTA-AA
1 ATTTTGGTCTTTATAA
* * *
4305573 ATTTTTGTTTTTATAT
1 ATTTTGGTCTTTATAA
4305589 ATTTTGGTCTTTATAA
1 ATTTTGGTCTTTATAA
4305605 ATTT
1 ATTT
4305609 AAATACATAT
Statistics
Matches: 27, Mismatches: 8, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
15 9 0.33
16 18 0.67
ACGTcount: A:0.25, C:0.06, G:0.08, T:0.61
Consensus pattern (16 bp):
ATTTTGGTCTTTATAA
Found at i:4307609 original size:54 final size:53
Alignment explanation
Indices: 4307548--4307691 Score: 187
Period size: 45 Copynumber: 2.8 Consensus size: 53
4307538 CCCTAATTCT
*
4307548 TAATTTTTTAAATTATAAAATATTTCTTATAATCATTATCATCATTGAAATTTA
1 TAATTTTTTAAATTATAAAATATTTCTTAT-ATCATTATCATCATTAAAATTTA
4307602 TAATTTTTTAAATTATAAAATA--T-TTAT-T-A-TA--ATCATTAAAATTTA
1 TAATTTTTTAAATTATAAAATATTTCTTATATCATTATCATCATTAAAATTTA
* *
4307647 TAATTTTTTAAATTATAAAATATTTCTTATCACCATCATCATCAT
1 TAATTTTTTAAATTATAAAATATTTCTTAT-ATCATTATCATCAT
4307692 CATTTTGAAA
Statistics
Matches: 78, Mismatches: 3, Indels: 18
0.79 0.03 0.18
Matches are distributed among these distances:
45 35 0.45
47 3 0.04
48 5 0.06
49 1 0.01
51 5 0.06
52 2 0.03
54 27 0.35
ACGTcount: A:0.42, C:0.08, G:0.01, T:0.49
Consensus pattern (53 bp):
TAATTTTTTAAATTATAAAATATTTCTTATATCATTATCATCATTAAAATTTA
Found at i:4307614 original size:16 final size:15
Alignment explanation
Indices: 4307599--4307664 Score: 55
Period size: 16 Copynumber: 4.4 Consensus size: 15
4307589 TCATTGAAAT
*
4307599 TTATAATTTTTTAAA
1 TTATAATTATTTAAA
*
4307614 TTATAAAATATTT--A
1 TTAT-AATTATTTAAA
* *
4307628 TTATAATCATTAAAA
1 TTATAATTATTTAAA
*
4307643 TTTATAATTTTTTAAA
1 -TTATAATTATTTAAA
4307659 TTATAA
1 TTATAA
4307665 AATATTTCTT
Statistics
Matches: 39, Mismatches: 8, Indels: 8
0.71 0.15 0.15
Matches are distributed among these distances:
13 5 0.13
14 5 0.13
15 11 0.28
16 18 0.46
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (15 bp):
TTATAATTATTTAAA
Found at i:4309890 original size:19 final size:19
Alignment explanation
Indices: 4309866--4309953 Score: 60
Period size: 18 Copynumber: 4.7 Consensus size: 19
4309856 AACAATTATA
4309866 ATATATTAATGTATATATT
1 ATATATTAATGTATATATT
*
4309885 ATATA-TAATATA-ATATGT
1 ATATATTAATGTATATAT-T
* * *
4309903 AT-GATGAATGT-TATGATA
1 ATATATTAATGTATAT-ATT
*
4309921 ATATAATTCATGTATATA-T
1 ATAT-ATTAATGTATATATT
4309940 ATATATTAAATGTA
1 ATATATT-AATGTA
4309954 CATTATACTT
Statistics
Matches: 51, Mismatches: 10, Indels: 16
0.66 0.13 0.21
Matches are distributed among these distances:
17 5 0.10
18 20 0.39
19 16 0.31
20 7 0.14
21 3 0.06
ACGTcount: A:0.44, C:0.01, G:0.09, T:0.45
Consensus pattern (19 bp):
ATATATTAATGTATATATT
Found at i:4310130 original size:2 final size:2
Alignment explanation
Indices: 4310052--4310114 Score: 103
Period size: 2 Copynumber: 32.5 Consensus size: 2
4310042 ATATTTAAGA
*
4310052 AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4310094 AT AT AT AT AT A- AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT A
4310115 ATGTGTAAAA
Statistics
Matches: 57, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
1 2 0.04
2 55 0.96
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4310221 original size:2 final size:2
Alignment explanation
Indices: 4310214--4310247 Score: 59
Period size: 2 Copynumber: 16.5 Consensus size: 2
4310204 TGCATACATC
4310214 AT AT AT AT AT AT AT AT AT AT AT AT AT ACT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT A
4310248 AGTCTATAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 29 0.94
3 2 0.06
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:4310646 original size:2 final size:2
Alignment explanation
Indices: 4310641--4310675 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
4310631 CCACTCACTT
*
4310641 TA TA TA TA TA TA TA TC TA TA TA TA TA T- TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4310676 ATCTCAATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4312182 original size:21 final size:20
Alignment explanation
Indices: 4312131--4312188 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
4312121 CGATATCTCT
*
4312131 ACCGGTTTTGTCAAACTGAA
1 ACCGGTTTTGTCAAACTCAA
*
4312151 ACCGATTTTGTCAAACTCAA
1 ACCGGTTTTGTCAAACTCAA
4312171 ACCGGTTTTTGTCAAACT
1 ACCGG-TTTTGTCAAACT
4312189 TCAACCTGTT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
20 22 0.65
21 12 0.35
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (20 bp):
ACCGGTTTTGTCAAACTCAA
Found at i:4312533 original size:20 final size:20
Alignment explanation
Indices: 4312481--4312538 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
4312471 TCGGTTTTAA
* **
4312481 TCAAACTAAAACATGACTTG
1 TCAAACTGAAACATGTTTTG
4312501 TCAAACTGAAACATGTTTTG
1 TCAAACTGAAACATGTTTTG
**
4312521 TCAAACTTTAACATGTTT
1 TCAAACTGAAACATGTTT
4312539 ATATTTTGTA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.34
Consensus pattern (20 bp):
TCAAACTGAAACATGTTTTG
Found at i:4312595 original size:339 final size:340
Alignment explanation
Indices: 4311937--4312596 Score: 815
Period size: 339 Copynumber: 1.9 Consensus size: 340
4311927 CATACGTATC
* * *
4311937 GCTTTACCGTTTTGTCATGTTGAAACTGTTTTGTCAATTTTAACATTTTATATTGTCATGTATCG
1 GCTTTACCGTTTTGTCATATTGAAACCGTTTTGTCAATTTTAACATTGTATATTGTCATGTATCG
*
4312002 ATACATGTTTAAAGGTATCGATACTTTCAAGGCGCTATTATTGCCAATTATTTTAAATTCCTAAT
66 ATACATGTTTAAAGGTATCGATACTTTCAAGGCGCTATTATTGACAATTATTTTAAATTCCTAAT
* * *
4312067 ACCGATACTTTGGTGCATATACTTAGATAAGTTTCGATACAATTTCAACAATTTCGATATCTCTA
131 ACAGATACTTTGGTGCATATACTTAGAAAAGTATCGATACAATTTCAACAATTTCGATATCTCTA
* * * * *
4312132 CCGGTTTTGTCAAACTGAAACCGATTTTGTCAAACTCAAACCGGTTTTTGTCAAACTTCAACCTG
196 CCGGTTTTATCAAACTAAAACCGATCTTGTCAAACTCAAACAGGTTTTTGTCAAACTTCAACATG
* * * *
4312197 TTATATGTTATGTATCGATACATGTGTGTAAGTATCGATGCCTACCGATAAGCTAAGTTTACCTC
261 TTATATGTTATGTATCGATACATCTATGCAAGTATCGATACCTACCGATAAGCTAAGTTTACCTC
4312262 AGTATATCCGGTAGT
326 AGTATATCCGGTAGT
4312277 GCTTTACCGGTTTTGTCATATTGAAACCGATTTTGTCAAATTTTAACA-TGTATATT-TCATGTA
1 GCTTTACC-GTTTTGTCATATTGAAACCG-TTTTGTC-AATTTTAACATTGTATATTGTCATGTA
* * * * *
4312340 TCGATA-ATGTTTCTAAGGTATCGATACTTTTAA-GTGCTATTATT-ACAA-TCTTTTAAATTCT
63 TCGATACATGTTT-AAAGGTATCGATACTTTCAAGGCGCTATTATTGACAATTATTTTAAATTCC
* * *
4312401 TAAAATATAGATACTTTGGTGTATA-AC-TAGAAAAGTATCGATACAAATTTCAATAATTTC-AG
127 T--AATACAGATACTTTGGTGCATATACTTAGAAAAGTATCGATAC-AATTTCAACAATTTCGA-
* ** * * *
4312463 TATCTTTGTCGGTTTTAATCAAACTAAAACATGA-CTTGTCAAACTGAAACATG-TTTTGTCAAA
188 TATCTCTACCGGTTTT-ATCAAACTAAAAC-CGATCTTGTCAAACTCAAACAGGTTTTTGTCAAA
* * * *
4312526 CTTTAACATGTTTATAT-TT-TGTATCGATACTTCTATGCAAGATATCGATACCTATCGCTAAGC
251 CTTCAACATG-TTATATGTTATGTATCGATACATCTATGCAAG-TATCGATACCTACCGATAAGC
4312589 TAAGTTTA
314 TAAGTTTA
4312597 TCGGTTGTCA
Statistics
Matches: 274, Mismatches: 34, Indels: 25
0.82 0.10 0.08
Matches are distributed among these distances:
338 46 0.17
339 78 0.28
340 75 0.27
341 51 0.19
342 14 0.05
343 10 0.04
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.40
Consensus pattern (340 bp):
GCTTTACCGTTTTGTCATATTGAAACCGTTTTGTCAATTTTAACATTGTATATTGTCATGTATCG
ATACATGTTTAAAGGTATCGATACTTTCAAGGCGCTATTATTGACAATTATTTTAAATTCCTAAT
ACAGATACTTTGGTGCATATACTTAGAAAAGTATCGATACAATTTCAACAATTTCGATATCTCTA
CCGGTTTTATCAAACTAAAACCGATCTTGTCAAACTCAAACAGGTTTTTGTCAAACTTCAACATG
TTATATGTTATGTATCGATACATCTATGCAAGTATCGATACCTACCGATAAGCTAAGTTTACCTC
AGTATATCCGGTAGT
Found at i:4319296 original size:13 final size:14
Alignment explanation
Indices: 4319278--4319309 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
4319268 TGATTAAAAG
4319278 AAAAAAATTGTA-A
1 AAAAAAATTGTAGA
4319291 AAAAAAATTGTAGA
1 AAAAAAATTGTAGA
4319305 AAAAA
1 AAAAA
4319310 TTTAATAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.72, C:0.00, G:0.09, T:0.19
Consensus pattern (14 bp):
AAAAAAATTGTAGA
Found at i:4328102 original size:101 final size:100
Alignment explanation
Indices: 4327966--4328360 Score: 518
Period size: 99 Copynumber: 4.0 Consensus size: 100
4327956 TCCTCTCCTC
* *
4327966 TCAGATGAGTT-TTCTCA-T-T-AACTCTTTCTGGAAATGTTGATGATGATCTATCTCTTTCTGT
1 TCAGATGAGTTCTTCTCATTATGAACAC-TTCTGGAAATGTTGATGCTGATCTATCTCTTT-TGT
4328027 GATAGAATC-ACGCAAAAGGTTGAACAAGTTCTTCTCT
64 GATAGAATCGA-GCAAAAGGTTGAACAAGTTCTTCTCT
* *
4328064 TCAGATGAGTTATTCTCATTATGAACACTTCTGGAAATGTTGATGCTGATCTATCTC-CTTGTGA
1 TCAGATGAGTTCTTCTCATTATGAACACTTCTGGAAATGTTGATGCTGATCTATCTCTTTTGTGA
*
4328128 TAGAATC-ACGCAAAAGGTTGAACAAGTGCTTCTCT
66 TAGAATCGA-GCAAAAGGTTGAACAAGTTCTTCTCT
* * * *
4328163 TCAGATAAGTTCTTCTCATTATGAACTCTTCTGGAAATGTTAATGCTGATCTATCTTCTTGTGTG
1 TCAGATGAGTTCTTCTCATTATGAACACTTCTGGAAATGTTGATGCTGATCTATC-TCTTTTGTG
** * * *
4328228 ATAGCGTCTAGCAAAAAGTTGAACAAGTTCTTCTAT
65 ATAGAATCGAGCAAAAGGTTGAACAAGTTCTTCTCT
* * *
4328264 TCAGA-GAGTTCTTCTCATTATGAACACTTCTGAAAATGTTGATGCTGATCTATCTCCTTAGTGA
1 TCAGATGAGTTCTTCTCATTATGAACACTTCTGGAAATGTTGATGCTGATCTATCTCTTTTGTGA
**
4328328 TAGCGTCGAGCAAAAGGTTGAACAAGTTCTTCT
66 TAGAATCGAGCAAAAGGTTGAACAAGTTCTTCT
4328361 ATTATGAACT
Statistics
Matches: 266, Mismatches: 24, Indels: 13
0.88 0.08 0.04
Matches are distributed among these distances:
98 11 0.04
99 134 0.50
100 49 0.18
101 67 0.25
102 5 0.02
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (100 bp):
TCAGATGAGTTCTTCTCATTATGAACACTTCTGGAAATGTTGATGCTGATCTATCTCTTTTGTGA
TAGAATCGAGCAAAAGGTTGAACAAGTTCTTCTCT
Found at i:4328343 original size:200 final size:197
Alignment explanation
Indices: 4327966--4328360 Score: 566
Period size: 200 Copynumber: 2.0 Consensus size: 197
4327956 TCCTCTCCTC
* *
4327966 TCAGATGAGTTTTCTCATTAACTCTTTCTGGAAATGTTGATGATGATCTATCTCTTTCTGTGATA
1 TCAGATAAGTTTTCTCATTAACTCTTTCTGGAAATGTTAATGATGATCTATCTCTTTCTGTGATA
* *
4328031 GAATCACGCAAAAGGTTGAACAAGTTCTTCTCTTCAGATGAGTTATTCTCATTATGAACACTTCT
66 GAATCACGCAAAAAGTTGAACAAGTTCTTCTATTCAGATGAGTTATTCTCATTATGAACACTTCT
*
4328096 GGAAATGTTGATGCTGATCTATCTCCTTGTGATAGAATCACGCAAAAGGTTGAACAAGTGCTTCT
131 GAAAATGTTGATGCTGATCTATCTCCTTGTGATAGAATCACGCAAAAGGTTGAACAAGTGCTTCT
4328161 CT
196 CT
* *
4328163 TCAGATAAGTTCTTCTCATTATGAACTC-TTCTGGAAATGTTAATGCTGATCTATCT-TCTTGTG
1 TCAGATAAGTT-TTCTCA-T-T-AACTCTTTCTGGAAATGTTAATGATGATCTATCTCT-TTCTG
** *
4328226 TGATAGCGTCTA-GCAAAAAGTTGAACAAGTTCTTCTATTCAGA-GAGTTCTTCTCATTATGAAC
61 TGATAGAATC-ACGCAAAAAGTTGAACAAGTTCTTCTATTCAGATGAGTTATTCTCATTATGAAC
**
4328289 ACTTCTGAAAATGTTGATGCTGATCTATCTCCTTAGTGATAGCGTCGA-GCAAAAGGTTGAACAA
125 ACTTCTGAAAATGTTGATGCTGATCTATCTCCTT-GTGATAGAATC-ACGCAAAAGGTTGAACAA
*
4328353 GTTCTTCT
188 GTGCTTCT
4328361 ATTATGAACT
Statistics
Matches: 177, Mismatches: 13, Indels: 13
0.87 0.06 0.06
Matches are distributed among these distances:
197 10 0.06
198 6 0.03
199 54 0.31
200 100 0.56
201 7 0.04
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (197 bp):
TCAGATAAGTTTTCTCATTAACTCTTTCTGGAAATGTTAATGATGATCTATCTCTTTCTGTGATA
GAATCACGCAAAAAGTTGAACAAGTTCTTCTATTCAGATGAGTTATTCTCATTATGAACACTTCT
GAAAATGTTGATGCTGATCTATCTCCTTGTGATAGAATCACGCAAAAGGTTGAACAAGTGCTTCT
CT
Found at i:4328407 original size:38 final size:37
Alignment explanation
Indices: 4328352--4328446 Score: 133
Period size: 38 Copynumber: 2.6 Consensus size: 37
4328342 AGGTTGAACA
4328352 AGTTCTTCT-ATTATGAACTCTTCTCATTCTGCAGACG
1 AGTTCTTCTCATTATGAACTCTTCTCATTCT-CAGACG
* *
4328389 AGTTCTTCTCATTATGAACTTCTTCTCCTTCTCAGATG
1 AGTTCTTCTCATTATGAAC-TCTTCTCATTCTCAGACG
4328427 AGTTC-T-TCATTATGAACTCT
1 AGTTCTTCTCATTATGAACTCT
4328447 ACTGGCAATG
Statistics
Matches: 54, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
35 3 0.06
36 11 0.20
37 10 0.19
38 19 0.35
39 11 0.20
ACGTcount: A:0.21, C:0.24, G:0.12, T:0.43
Consensus pattern (37 bp):
AGTTCTTCTCATTATGAACTCTTCTCATTCTCAGACG
Found at i:4328685 original size:71 final size:72
Alignment explanation
Indices: 4328570--4328718 Score: 266
Period size: 71 Copynumber: 2.1 Consensus size: 72
4328560 CTGGCAATGC
*
4328570 TTTAAG-AAAATAATCTCAAATGAGATAAATGGATATTTCAAGTGAAACTTTCTCTAGAGAGAAT
1 TTTAAGAAAAACAATCTCAAATGAGATAAATGGATATTTCAAGTGAAACTTTCTCTAGAGAGAAT
4328634 AG-TTGT
66 AGTTTGT
*
4328640 TTTAAGAAAAACAATCTCAAGTGAGATAAATGGATATTTCAAGTGAAACTTTCTCTAGAGAGAAT
1 TTTAAGAAAAACAATCTCAAATGAGATAAATGGATATTTCAAGTGAAACTTTCTCTAGAGAGAAT
4328705 AGTTTGT
66 AGTTTGT
4328712 TTTAAGA
1 TTTAAGA
4328719 TTCAATTGAA
Statistics
Matches: 75, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
70 6 0.08
71 58 0.77
72 11 0.15
ACGTcount: A:0.41, C:0.09, G:0.17, T:0.33
Consensus pattern (72 bp):
TTTAAGAAAAACAATCTCAAATGAGATAAATGGATATTTCAAGTGAAACTTTCTCTAGAGAGAAT
AGTTTGT
Found at i:4329514 original size:21 final size:22
Alignment explanation
Indices: 4329470--4329543 Score: 105
Period size: 22 Copynumber: 3.4 Consensus size: 22
4329460 TAAAGTTTTT
*
4329470 ATCTTTGAAAAGAGAATATATC
1 ATCTTTGAAGAGAGAATATATC
* *
4329492 ATTTTTGAAGAGAG-ATCTATC
1 ATCTTTGAAGAGAGAATATATC
*
4329513 ATCTTTGAAGATAGAATATATC
1 ATCTTTGAAGAGAGAATATATC
4329535 ATCTTTGAA
1 ATCTTTGAA
4329544 ATATGTAGAT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
21 18 0.40
22 27 0.60
ACGTcount: A:0.39, C:0.09, G:0.15, T:0.36
Consensus pattern (22 bp):
ATCTTTGAAGAGAGAATATATC
Found at i:4334213 original size:12 final size:10
Alignment explanation
Indices: 4334194--4334241 Score: 55
Period size: 9 Copynumber: 4.8 Consensus size: 10
4334184 CCCCTTTTTC
4334194 TTTTTTTCTT
1 TTTTTTTCTT
4334204 GTTCTTTTTC-T
1 -TT-TTTTTCTT
4334215 TTTTTTTCTT
1 TTTTTTTCTT
4334225 TTTTTTT-TT
1 TTTTTTTCTT
*
4334234 GTTTTTTC
1 TTTTTTTC
4334242 CTGATGAATG
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
9 14 0.42
10 10 0.30
11 3 0.09
12 6 0.18
ACGTcount: A:0.00, C:0.10, G:0.04, T:0.85
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:4334218 original size:21 final size:21
Alignment explanation
Indices: 4334187--4334240 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
4334177 AATTTCCCCC
4334187 CTTTTTC-TTTTTTTCTTGTT
1 CTTTTTCTTTTTTTTCTTGTT
*
4334207 CTTTTTCTTTTTTTTCTTTTT
1 CTTTTTCTTTTTTTTCTTGTT
* *
4334228 TTTTTTGTTTTTT
1 CTTTTTCTTTTTT
4334241 CCTGATGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 7 0.23
21 23 0.77
ACGTcount: A:0.00, C:0.11, G:0.04, T:0.85
Consensus pattern (21 bp):
CTTTTTCTTTTTTTTCTTGTT
Found at i:4337450 original size:20 final size:19
Alignment explanation
Indices: 4337413--4337461 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 19
4337403 CACAAATGCA
*
4337413 AAAAATGT-AAATGTAAAT
1 AAAAATGTAAAATGCAAAT
4337431 AAAAATGTAAAGATGCAAAT
1 AAAAATGTAAA-ATGCAAAT
**
4337451 GCAAATGTAAA
1 AAAAATGTAAA
4337462 TACAAAGATG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 8 0.31
19 2 0.08
20 16 0.62
ACGTcount: A:0.59, C:0.04, G:0.14, T:0.22
Consensus pattern (19 bp):
AAAAATGTAAAATGCAAAT
Found at i:4337527 original size:7 final size:7
Alignment explanation
Indices: 4337517--4337557 Score: 59
Period size: 6 Copynumber: 6.0 Consensus size: 7
4337507 AGCAAACAAC
4337517 AAATGCA
1 AAATGCA
4337524 AAATG-A
1 AAATGCA
4337530 AAATGCA
1 AAATGCA
4337537 AAGATGCA
1 AA-ATGCA
4337545 AAATGC-
1 AAATGCA
4337551 AAATGCA
1 AAATGCA
4337558 TGTATGAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
6 12 0.39
7 12 0.39
8 7 0.23
ACGTcount: A:0.56, C:0.12, G:0.17, T:0.15
Consensus pattern (7 bp):
AAATGCA
Found at i:4337770 original size:26 final size:27
Alignment explanation
Indices: 4337741--4337795 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
4337731 TGAAAATGAA
4337741 ATAAAATATTA-AAAAATAATATA-CAT
1 ATAAAATATTATAAAAATAATA-AGCAT
*
4337767 AT-AAATATTATGAAAATAATAAGCAT
1 ATAAAATATTATAAAAATAATAAGCAT
4337793 ATA
1 ATA
4337796 TAAAAATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
25 9 0.36
26 16 0.64
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.31
Consensus pattern (27 bp):
ATAAAATATTATAAAAATAATAAGCAT
Found at i:4342399 original size:36 final size:36
Alignment explanation
Indices: 4342359--4342458 Score: 146
Period size: 36 Copynumber: 2.8 Consensus size: 36
4342349 AATGGTGCTG
* * *
4342359 AACATTGGTACACGAATGTACCAAAGCTGATATGAT
1 AACATTGATACACAAATGTATCAAAGCTGATATGAT
* *
4342395 AACATTTATACACTAATGTATCAAAGCTGATATGAT
1 AACATTGATACACAAATGTATCAAAGCTGATATGAT
*
4342431 AACATTGACACACAAATGTATCAAAGCT
1 AACATTGATACACAAATGTATCAAAGCT
4342459 AATAATGGAT
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 57 1.00
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.27
Consensus pattern (36 bp):
AACATTGATACACAAATGTATCAAAGCTGATATGAT
Found at i:4344457 original size:29 final size:29
Alignment explanation
Indices: 4344376--4344463 Score: 70
Period size: 29 Copynumber: 3.0 Consensus size: 29
4344366 TAAAATATAT
* *
4344376 AACTTTTAAAAATTACAATTTTGATCC-CTA
1 AACTTTCAAAAATTAC-ATTTT-AGCCACTA
** * *
4344406 AACTTTTCAAAGTTTATACTTTAGCCACTA
1 AAC-TTTCAAAAATTACATTTTAGCCACTA
* *
4344436 AACTTTCAAAACTTACATTTTAGTCACT
1 AACTTTCAAAAATTACATTTTAGCCACT
4344464 GGTCAAAATT
Statistics
Matches: 45, Mismatches: 11, Indels: 5
0.74 0.18 0.08
Matches are distributed among these distances:
29 23 0.51
30 13 0.29
31 9 0.20
ACGTcount: A:0.36, C:0.19, G:0.05, T:0.40
Consensus pattern (29 bp):
AACTTTCAAAAATTACATTTTAGCCACTA
Found at i:4363130 original size:36 final size:36
Alignment explanation
Indices: 4363055--4363157 Score: 163
Period size: 36 Copynumber: 2.9 Consensus size: 36
4363045 AACGGTGCTG
* * *
4363055 AACATTGGTACATGAATGTACCAAAGCT-ATATGAT
1 AACATTGATACACGAATGTATCAAAGCTGATATGAT
*
4363090 AACATTGATACACGAATGCATCAAAGCTGATATGAT
1 AACATTGATACACGAATGTATCAAAGCTGATATGAT
4363126 AACATTGATACACGAATGTATCAAAGCTGATA
1 AACATTGATACACGAATGTATCAAAGCTGATA
4363158 ATGGATAAAT
Statistics
Matches: 62, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
35 24 0.39
36 38 0.61
ACGTcount: A:0.42, C:0.16, G:0.17, T:0.26
Consensus pattern (36 bp):
AACATTGATACACGAATGTATCAAAGCTGATATGAT
Found at i:4368194 original size:20 final size:20
Alignment explanation
Indices: 4368169--4368243 Score: 80
Period size: 24 Copynumber: 3.6 Consensus size: 20
4368159 AGGAGTCAAC
*
4368169 GGTATCGCTACCATAAGAGG
1 GGTATCGATACCATAAGAGG
4368189 GGTATCGATACCACTATATAGAGG
1 GGTATCGATA-C-C-ATA-AGAGG
*
4368213 GGTATCGATACCATATGA-G
1 GGTATCGATACCATAAGAGG
*
4368232 GGTATCAATACC
1 GGTATCGATACC
4368244 CTATTTCGAT
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
19 12 0.25
20 11 0.23
21 4 0.08
22 2 0.04
23 4 0.08
24 15 0.31
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (20 bp):
GGTATCGATACCATAAGAGG
Found at i:4368787 original size:20 final size:20
Alignment explanation
Indices: 4368762--4368805 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
4368752 TTTTGAATTA
4368762 AATAGAAGAACTTTTTGTCC
1 AATAGAAGAACTTTTTGTCC
4368782 AATAGAAGAACTTTTTGTCC
1 AATAGAAGAACTTTTTGTCC
4368802 AATA
1 AATA
4368806 TAAAAGATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.34
Consensus pattern (20 bp):
AATAGAAGAACTTTTTGTCC
Found at i:4375760 original size:47 final size:48
Alignment explanation
Indices: 4375662--4375837 Score: 248
Period size: 47 Copynumber: 3.7 Consensus size: 48
4375652 ATCATAGATG
*
4375662 AACCCTGCTGTGCTGCTGCTGATCCACCAGCGGCTGTAGGTAATGTAA
1 AACCCTGCTGTGCTGCTGCTGATCCACCAGCGGCTGTAGGTAATGAAA
*
4375710 AACCCTGCTGTGCTGCTGCTGATGCACC-GCGGCTGTAGGTAATGAAA
1 AACCCTGCTGTGCTGCTGCTGATCCACCAGCGGCTGTAGGTAATGAAA
* * * * *
4375757 AACCCTGTTGTGCTGTTGCTGATCCA-CAGCAGCTGTAGGTGATGAAG
1 AACCCTGCTGTGCTGCTGCTGATCCACCAGCGGCTGTAGGTAATGAAA
* * *
4375804 AACTCTGTTGTGCTACTGCTGATCCACCAGCGGC
1 AACCCTGCTGTGCTGCTGCTGATCCACCAGCGGC
4375838 AGGATGTGCC
Statistics
Matches: 114, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
46 1 0.01
47 80 0.70
48 33 0.29
ACGTcount: A:0.20, C:0.26, G:0.28, T:0.26
Consensus pattern (48 bp):
AACCCTGCTGTGCTGCTGCTGATCCACCAGCGGCTGTAGGTAATGAAA
Found at i:4380061 original size:24 final size:24
Alignment explanation
Indices: 4380029--4380142 Score: 108
Period size: 23 Copynumber: 4.9 Consensus size: 24
4380019 CACCGAAGTG
* *
4380029 CCACTTAGAATTTATCCTGAAAGA
1 CCACATAGAATTTATCCCGAAAGA
* * * *
4380053 CCGCGTAGAATTTGTCCCGAATGA
1 CCACATAGAATTTATCCCGAAAGA
* *
4380077 CCACATAGAA-TTGTCCCGAAGGA
1 CCACATAGAATTTATCCCGAAAGA
* *
4380100 CCACATAGAA-TTGTCCCGAATGA
1 CCACATAGAATTTATCCCGAAAGA
*
4380123 CCACATAG-ATTTGTCCCGAA
1 CCACATAGAATTTATCCCGAA
4380143 GGATTGCGTA
Statistics
Matches: 80, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
22 1 0.01
23 52 0.65
24 27 0.34
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.24
Consensus pattern (24 bp):
CCACATAGAATTTATCCCGAAAGA
Found at i:4380094 original size:23 final size:23
Alignment explanation
Indices: 4380058--4380142 Score: 143
Period size: 23 Copynumber: 3.7 Consensus size: 23
4380048 AAAGACCGCG
4380058 TAGAATTTGTCCCGAATGACCACA
1 TAGAA-TTGTCCCGAATGACCACA
*
4380082 TAGAATTGTCCCGAAGGACCACA
1 TAGAATTGTCCCGAATGACCACA
4380105 TAGAATTGTCCCGAATGACCACA
1 TAGAATTGTCCCGAATGACCACA
*
4380128 TAGATTTGTCCCGAA
1 TAGAATTGTCCCGAA
4380143 GGATTGCGTA
Statistics
Matches: 58, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
23 53 0.91
24 5 0.09
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.24
Consensus pattern (23 bp):
TAGAATTGTCCCGAATGACCACA
Found at i:4389183 original size:22 final size:23
Alignment explanation
Indices: 4389144--4389186 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
4389134 AGTATCGATA
4389144 CTCTTCCTATAGTACCGATACTT
1 CTCTTCCTATAGTACCGATACTT
*
4389167 CTCTTCC-ATGGTACCGATAC
1 CTCTTCCTATAGTACCGATAC
4389187 CCACTTCAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.21, C:0.33, G:0.12, T:0.35
Consensus pattern (23 bp):
CTCTTCCTATAGTACCGATACTT
Found at i:4389284 original size:20 final size:21
Alignment explanation
Indices: 4389261--4389309 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
4389251 TTCCTCTTGT
4389261 TATCGATACCTCTAC-ATCAG
1 TATCGATACCTCTACAATCAG
* * *
4389281 TATCAATACTTCTTCAATCAG
1 TATCGATACCTCTACAATCAG
*
4389302 TACCGATA
1 TATCGATA
4389310 TTGTTCATCA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.33, C:0.27, G:0.08, T:0.33
Consensus pattern (21 bp):
TATCGATACCTCTACAATCAG
Found at i:4394756 original size:85 final size:84
Alignment explanation
Indices: 4394611--4394947 Score: 317
Period size: 83 Copynumber: 4.0 Consensus size: 84
4394601 TACCATGCGG
* * * * * * * *
4394611 TTGATATGCCTATGAACTAAATGAAATCGAACTCGAAGGTCTTTGATGACAGATAGCCCTTCTCG
1 TTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAG
*
4394676 CCTTGAGCTATACTGTAAA
66 CCTTAAGCTATACTGTAAA
* *
4394695 TTTGATATGCCTTTGAGTTGAGTGTAATCAAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTA
1 -TTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTA
*
4394760 GCCTTGAG-T-TA-TGCTACAA
65 GCCTTAAGCTATACTG-TA-AA
* * * * * * *
4394779 TTGATATGCCTTTGAGCTGAGTGTAATCGAACTCAAAGGTTTTTTTTCGACATATAGCCCTTATT
1 TTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTT-GACAGATAACCCTTCTA
* *
4394844 GCCTAAAGCTAT-CTGCAAA
65 GCCTTAAGCTATACTGTAAA
* * * * **
4394863 TT-ATGTGTCTTGGAGCTGAGCGTTGTCGAACTCGAAGGTCTTTTGTCTGA-AGATAACCCTTCT
1 TTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTC-TTTGT-TGACAGATAACCCTTCT
* *
4394926 AGCCTTAAGTTATGCTGTAAA
64 AGCCTTAAGCTATACTGTAAA
4394947 T
1 T
4394948 GATGTATATT
Statistics
Matches: 205, Mismatches: 38, Indels: 19
0.78 0.15 0.07
Matches are distributed among these distances:
82 2 0.01
83 96 0.47
84 39 0.19
85 65 0.32
86 3 0.01
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (84 bp):
TTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAG
CCTTAAGCTATACTGTAAA
Found at i:4394981 original size:83 final size:84
Alignment explanation
Indices: 4394639--4394987 Score: 264
Period size: 83 Copynumber: 4.2 Consensus size: 84
4394629 AAATGAAATC
* * * * * * * *
4394639 GAACTCGAAGGTC-TTTG-ATGACAGATAGCCCTTCTCGCCTTGAGCTATACTGTAAATTTGATA
1 GAACTCGAAGGTCTTTTGTCTGACAGATAACCCTTCTAGCCTTAAGTTATGCTGCAAA--TGATG
* * * * *
4394702 TGCCTTTGAGTTGAGTGTAATC
64 TGTCTTGGAGCTGAGCGT-ATT
* * * * *
4394724 AAACTCGAAGGTC-TTTGT-TGACAGATAACCCTTCTAGCCTTGAGTTATGCTACAATTGATATG
1 GAACTCGAAGGTCTTTTGTCTGACAGATAACCCTTCTAGCCTTAAGTTATGCTGCAAATGATGTG
* * * *
4394787 CCTTTGAGCTGAGTGTAATC
66 TCTTGGAGCTGAGCGT-ATT
* * * * * * * * * *
4394807 GAACTCAAAGGTTTTTTTTC-GACATATAGCCCTTATTGCCTAAAGCTAT-CTGCAAATTATGTG
1 GAACTCGAAGGTCTTTTGTCTGACAGATAACCCTTCTAGCCTTAAGTTATGCTGCAAATGATGTG
4394870 TCTTGGAGCTGAGCGT-TGT
66 TCTTGGAGCTGAGCGTAT-T
*
4394889 CGAACTCGAAGGTCTTTTGTCTGA-AGATAACCCTTCTAGCCTTAAGTTATGCTGTAAATGATGT
1 -GAACTCGAAGGTCTTTTGTCTGACAGATAACCCTTCTAGCCTTAAGTTATGCTGCAAATGATGT
* *
4394953 ATATTGGAGCTGAGCGTATT
65 GTCTTGGAGCTGAGCGTATT
*
4394973 GAAATCGAAGGTCTT
1 GAACTCGAAGGTCTT
4394988 GGTTGGCAAA
Statistics
Matches: 214, Mismatches: 42, Indels: 18
0.78 0.15 0.07
Matches are distributed among these distances:
81 1 0.00
83 110 0.51
84 55 0.26
85 48 0.22
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (84 bp):
GAACTCGAAGGTCTTTTGTCTGACAGATAACCCTTCTAGCCTTAAGTTATGCTGCAAATGATGTG
TCTTGGAGCTGAGCGTATT
Found at i:4395274 original size:84 final size:83
Alignment explanation
Indices: 4395010--4395562 Score: 457
Period size: 84 Copynumber: 6.7 Consensus size: 83
4395000 ATCCTTATTG
* * * * * *
4395010 ATGATCTGCCTTGGAGCTGAATGTAATCGAACTCGAAGGTC---T-TTGGCAGATAGCCATTCTT
1 ATGATATGCCTTAGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGAAGATAACC-TTCTA
* *
4395071 GGCTTGAGTTATACTA-AA
65 GCCTTGAGTTATGCTACAA
* * * * * * *
4395089 ATGATGTGTCTTTGAGCTGAATGTAATCGAACTCAAAGGTATTTTGTTGGCAGATAACCTTCTAG
1 ATGATATGCCTTAGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGAAGATAACCTTCTAG
*
4395154 CCTTGAGTTATGCTGCAA
66 CCTTGAGTTATGCTACAA
* * * *
4395172 ATGATATGCCTTAGAGCTGAGTGTAATCGAACCCGAAGGTCTTTTGTTGGAAAATATCCTTTCTT
1 ATGATATGCCTTAGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGAAGATAACC-TTCTA
* *
4395237 GCCTTGAGCTATGTTACAA
65 GCCTTGAGTTATGCTACAA
* * * *
4395256 ATGATATGCCTTAGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTCGTT-GACAGATAACCCTTCT
1 ATGATATGCCTTAGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGA-AGATAA-CCTTCT
* **
4395320 AACCTTGAGTTATGCTGTAA
64 AGCCTTGAGTTATGCTACAA
* * * * *
4395340 ATTATATGCCTTTGAGCTGAGTGTAATCGAGCTCGAAGGTC---T-TTGGCAGATAAACCTTCTT
1 ATGATATGCCTTAGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGAAGAT-AACCTTCTA
* *
4395401 GCCTTGAGTTATACTGCAA
65 GCCTTGAGTTATGCTACAA
* * * * *
4395420 ATGACAGTGCCTTTA-AGCTTG-GTATAATCAAACTCGAAGGTCTTTGGTTGGCAGATAACCCTT
1 ATGATA-TGCC-TTAGAGC-TGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGAAGATAA-CCTT
* * * *
4395483 CTCGACTTAAGTTATGCTGCAA
62 CTAGCCTTGAGTTATGCTACAA
* * * * ** * *
4395505 ATGATGTGCCTTGGAGTTGAGCGTAATTAAACTCGAAGGTC-TTGGTTGGAAAATAACC
1 ATGATATGCCTTAGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGAAGATAACC
4395563 CTTATTGATA
Statistics
Matches: 385, Mismatches: 69, Indels: 37
0.78 0.14 0.08
Matches are distributed among these distances:
79 36 0.09
80 32 0.08
81 28 0.07
82 24 0.06
83 82 0.21
84 146 0.38
85 37 0.10
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.33
Consensus pattern (83 bp):
ATGATATGCCTTAGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGAAGATAACCTTCTAG
CCTTGAGTTATGCTACAA
Found at i:4395542 original size:165 final size:163
Alignment explanation
Indices: 4395010--4395547 Score: 566
Period size: 165 Copynumber: 3.3 Consensus size: 163
4395000 ATCCTTATTG
* * * *
4395010 ATGATCTGCCTTGGAGCTGAATGTAATCGAACTCGAAGGTCTTTGGCAGAT-AGCCATTCTTGGC
1 ATGATATGCCTTGGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAAACCATTCTTGCC
* * * * * * * * *
4395074 TTGAGTTATACTAAAATGATGTGTCTTTGAGCTGAATGTAATCGAACTCAAAGGTATTTTGTTGG
66 TTGAGTTATACTCAAATGAAGTGCCTTTAAGCTGAGTGTAATCAAACTCGAAGGTCTTTCGTTGG
*
4395139 CAGATAA-CCTTCTAGCCTTGAGTTATGCTGCAA
131 CAGATAACCCTTCT-GACTTGAGTTATGCTGCAA
* * *** * *
4395172 ATGATATGCCTTAGAGCTGAGTGTAATCGAACCCGAAGGTCTTTTGTTGGAAAATATCCTTTCTT
1 ATGATATGCCTTGGAGCTGAGTGTAATCGAACTCGAAGGTC-TTTGGCAGATAA-A-CCATTCTT
* ** * *
4395237 GCCTTGAGCTATGTTACAAATGATA-TGCC-TTAGAGCTGAGCGTAGTCAAACTCGAAGGTCTTT
63 GCCTTGAGTTATACT-CAAATGA-AGTGCCTTTA-AGCTGAGTGTAATCAAACTCGAAGGTCTTT
* * *
4395300 CGTTGACAGATAACCCTTCTAACCTTGAGTTATGCTGTAA
125 CGTTGGCAGATAACCCTTCTGA-CTTGAGTTATGCTGCAA
* * *
4395340 ATTATATGCCTTTGAGCTGAGTGTAATCGAGCTCGAAGGTCTTTGGCAGATAAACC-TTCTTGCC
1 ATGATATGCCTTGGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAAACCATTCTTGCC
* *
4395404 TTGAGTTATACTGCAAATGACAGTGCCTTTAAGCTTG-GTATAATCAAACTCGAAGGTCTTTGGT
66 TTGAGTTATACT-CAAATGA-AGTGCCTTTAAGC-TGAGTGTAATCAAACTCGAAGGTCTTTCGT
*
4395468 TGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAA
128 TGGCAGATAACCCTTCT-GACTTGAGTTATGCTGCAA
* * * **
4395505 ATGATGTGCCTTGGAGTTGAGCGTAATTAAACTCGAAGGTCTT
1 ATGATATGCCTTGGAGCTGAGTGTAATCGAACTCGAAGGTCTT
4395548 GGTTGGAAAA
Statistics
Matches: 305, Mismatches: 58, Indels: 23
0.79 0.15 0.06
Matches are distributed among these distances:
162 37 0.12
163 6 0.02
164 26 0.09
165 98 0.32
166 27 0.09
167 52 0.17
168 59 0.19
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (163 bp):
ATGATATGCCTTGGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAAACCATTCTTGCC
TTGAGTTATACTCAAATGAAGTGCCTTTAAGCTGAGTGTAATCAAACTCGAAGGTCTTTCGTTGG
CAGATAACCCTTCTGACTTGAGTTATGCTGCAA
Found at i:4395791 original size:230 final size:230
Alignment explanation
Indices: 4395346--4395792 Score: 617
Period size: 229 Copynumber: 1.9 Consensus size: 230
4395336 GTAAATTATA
* * *
4395346 TGCCTTTGAGCTGAGTGTAATCGAGCTCGAAGGTCTTTGGCAGATAAACCTTCTTGCCTTGAGTT
1 TGCCTTGGAGCTGAATGTAATCGAACTCGAAGGTCTTTGGCAGATAAACCTTCTTGCCTTGAGTT
* *** *
4395411 ATACTGCAAATGACAGTGCCTTTAAGCTTGGTATAATCAAACTCGAAGGTCTTTGGTTGGCAGAT
66 ATACTACAAATGACAGTGCCTTTAAGCTAAATATAATCAAACTCAAAGGTCTTTGGTTGGCAGAT
* * * * * *
4395476 AACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGTTGAGCGTAATTAAACTCGA
131 AACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCTTAGAGCTGAGCGTAATCAAACCCGA
4395541 AGGTCTTGGTTGGAAAATAACCCTTATTGATAATG
196 AGGTCTTGGTTGGAAAATAACCCTTATTGATAATG
**
4395576 TGCCTTGGAGCTGAATGTAATCGAACTCGAAGGTCTTTGGCAGATATCCCTTCTTGCCTTGAGTT
1 TGCCTTGGAGCTGAATGTAATCGAACTCGAAGGTCTTTGGCAGATAAACCTTCTTGCCTTGAGTT
* * * * * *
4395641 ATACTACAAATGA-TGTGTCTTTGAGCTAAATGTAATCGAACTCAAAGGTCTTTTGTTGGCAGAT
66 ATACTACAAATGACAGTGCCTTTAAGCTAAATATAATCAAACTCAAAGGTCTTTGGTTGGCAGAT
* * * * *
4395705 AACCCTTCTAGCCTTGAGTTATGCTGCAAATGATATGCCTTAGAGCTGAGTGTAATCGAGCCCGA
131 AACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCTTAGAGCTGAGCGTAATCAAACCCGA
* *
4395770 AGGTCTTTTGTTGGCAAATAACC
196 AGGTC-TTGGTTGGAAAATAACC
4395793 TTTCTTGCCT
Statistics
Matches: 187, Mismatches: 29, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
229 100 0.53
230 87 0.47
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (230 bp):
TGCCTTGGAGCTGAATGTAATCGAACTCGAAGGTCTTTGGCAGATAAACCTTCTTGCCTTGAGTT
ATACTACAAATGACAGTGCCTTTAAGCTAAATATAATCAAACTCAAAGGTCTTTGGTTGGCAGAT
AACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCTTAGAGCTGAGCGTAATCAAACCCGA
AGGTCTTGGTTGGAAAATAACCCTTATTGATAATG
Found at i:4395837 original size:562 final size:555
Alignment explanation
Indices: 4394635--4396108 Score: 2010
Period size: 561 Copynumber: 2.6 Consensus size: 555
4394625 AACTAAATGA
* * * * * * * ** *
4394635 AATCGAACTCGAAGGTC-TTTGATGACAGATAGCCCTTCTCGCCTTGAGCTATACTGTAAATTTG
1 AATCGAACCCGAAGGTCTTTTGTTGGCAAATAACCTTTCTTGCCTTGAGCTATGTTGCAAA--TG
* * *
4394699 ATATGCCTTTGAGTTGAGTGTAATCAAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCT
64 ATATGCCTTTGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCT
* * *
4394764 TGAGTTATGC--TACAATTGATATGCCTTTGAGCTGAGTGTAATCGAACTCAAAGGTTTTTTTTC
129 TGAGTTATGCTGTA-AATT-ATATGCCTTTGAGCTGAGTGTAATCGAGCTCGAAGG---TCTTT-
* * * ** * * * * ** *
4394827 GACATATAGCCCTTATTGCCTAAAGCTATCTGCAAATTATGTGTCTTGGAGCTGAGCGTT-GTCG
188 GGCA-ATAACCCTTCTTGCCTTGAGTTATCTGCAAATGAAGTGCCTTTAAGCT-AG-GTTAATCG
* * * * *
4394891 AACTCGAAGGTCTTTTGTCT-GAAGATAACCCTTCTAGCCTTAAGTTATGCTGTAAATGATGTAT
250 AACTCGAAGGTCTTTGGT-TGGAAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTAC
* * * *
4394955 ATTGGAGCTGAGCGT-ATTGAAA-TCGAAGGTCTTGGTTGGCAAATAATCCTTATTGATGATCTG
314 CTTGGAGCTGAGCGTAATT-AAACTCGAAGGTCTTGGTTGGAAAATAACCCTTATTGATAATCTG
*
4395018 CCTTGGAGCTGAATGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCATTCTTGGCTTGAGTTAT
378 CCTTGGAGCTGAATGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCATTCTTGCCTTGAGTTAT
*
4395083 ACTAAAATGATGTGTCTTTGAGCTGAATGTAATCGAACTCAAAGGTATTTTGTTGGCAGATAACC
443 ACTAAAATGATGTGTCTTTGAGCTAAATGTAATCGAACTCAAAGGTATTTTGTTGGCAGATAACC
4395148 TTCTAGCCTTGAGTTATGCTGCAAATGATATGCCTTAGAGCTGAGTGT
508 TTCTAGCCTTGAGTTATGCTGCAAATGATATGCCTTAGAGCTGAGTGT
* * *
4395196 AATCGAACCCGAAGGTCTTTTGTTGGAAAATATCCTTTCTTGCCTTGAGCTATGTTACAAATGAT
1 AATCGAACCCGAAGGTCTTTTGTTGGCAAATAACCTTTCTTGCCTTGAGCTATGTTGCAAATGAT
* *
4395261 ATGCCTTAGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTCGTTGACAGATAACCCTTCTAACCTT
66 ATGCCTTTGAGCTGAGCGTAGTCAAACTCGAAGGTCTTT-GTTGACAGATAACCCTTCTAGCCTT
4395326 GAGTTATGCTGTAAATTATATGCCTTTGAGCTGAGTGTAATCGAGCTCGAAGGTCTTTGGCAGAT
130 GAGTTATGCTGTAAATTATATGCCTTTGAGCTGAGTGTAATCGAGCTCGAAGGTCTTTGGCA-AT
* * *
4395391 AAACCTTCTTGCCTTGAGTTATACTGCAAATGACAGTGCCTTTAAGCTTGGTATAATCAAACTCG
194 AACCCTTCTTGCCTTGAGTTAT-CTGCAAATGA-AGTGCCTTTAAGCTAGGT-TAATCGAACTCG
* *
4395456 AAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAG
256 AAGGTCTTTGGTTGGAAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTACCTTGGAG
* *
4395521 TTGAGCGTAATTAAACTCGAAGGTCTTGGTTGGAAAATAACCCTTATTGATAATGTGCCTTGGAG
321 CTGAGCGTAATTAAACTCGAAGGTCTTGGTTGGAAAATAACCCTTATTGATAATCTGCCTTGGAG
* *
4395586 CTGAATGTAATCGAACTCGAAGGTCTTTGGCAGATATCCCTTCTTGCCTTGAGTTATACTACAAA
386 CTGAATGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCATTCTTGCCTTGAGTTATACTA-AAA
*
4395651 TGATGTGTCTTTGAGCTAAATGTAATCGAACTCAAAGGTCTTTTGTTGGCAGATAACCCTTCTAG
450 TGATGTGTCTTTGAGCTAAATGTAATCGAACTCAAAGGTATTTTGTTGGCAGATAA-CCTTCTAG
4395716 CCTTGAGTTATGCTGCAAATGATATGCCTTAGAGCTGAGTGT
514 CCTTGAGTTATGCTGCAAATGATATGCCTTAGAGCTGAGTGT
*
4395758 AATCGAGCCCGAAGGTCTTTTGTTGGCAAATAACCTTTCTTGCCTTGAGCTATGTTGCAAATGAT
1 AATCGAACCCGAAGGTCTTTTGTTGGCAAATAACCTTTCTTGCCTTGAGCTATGTTGCAAATGAT
* * *
4395823 ATGCCTTTGAGCTGAGCGTAGTCAAAATCGAACGTCTTTTGTTGACAGATAACCCTTCTAGGCTT
66 ATGCCTTTGAGCTGAGCGTAGTCAAACTCGAAGGTC-TTTGTTGACAGATAACCCTTCTAGCCTT
* *
4395888 GAGTTATGCTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAGCTCGAAGGTCTTTGGCAATA
130 GAGTTATGCTGTAAATTATATGCCTTTGAGCTGAGTGTAATCGAGCTCGAAGGTCTTTGGCAATA
* * * * *
4395953 ACCCTTCTTGCCATGAGTTATGCTACAAATGATGGTTCCTTTAAGCTGGGTGTAATCGAACTCGA
195 ACCCTTCTTGCCTTGAGTTAT-CTGCAAATGA-AGTGCCTTTAAGCTAGGT-TAATCGAACTCGA
* * * *
4396018 AGGTATTTGATT-GATAGATAACCCTTCTCGACTTAAGTTATGCTACAAATGATGTACCTTTGAG
257 AGGTCTTTGGTTGGA-AGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTACCTTGGAG
* * **
4396082 GTGAGTGTAATCGAACTCGAAGGTCTT
321 CTGAGCGTAATTAAACTCGAAGGTCTT
4396109 TTTTTGATAG
Statistics
Matches: 813, Mismatches: 85, Indels: 30
0.88 0.09 0.03
Matches are distributed among these distances:
557 23 0.03
558 16 0.02
559 83 0.10
560 146 0.18
561 277 0.34
562 263 0.32
563 5 0.01
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.33
Consensus pattern (555 bp):
AATCGAACCCGAAGGTCTTTTGTTGGCAAATAACCTTTCTTGCCTTGAGCTATGTTGCAAATGAT
ATGCCTTTGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTG
AGTTATGCTGTAAATTATATGCCTTTGAGCTGAGTGTAATCGAGCTCGAAGGTCTTTGGCAATAA
CCCTTCTTGCCTTGAGTTATCTGCAAATGAAGTGCCTTTAAGCTAGGTTAATCGAACTCGAAGGT
CTTTGGTTGGAAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTACCTTGGAGCTGAG
CGTAATTAAACTCGAAGGTCTTGGTTGGAAAATAACCCTTATTGATAATCTGCCTTGGAGCTGAA
TGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCATTCTTGCCTTGAGTTATACTAAAATGATGT
GTCTTTGAGCTAAATGTAATCGAACTCAAAGGTATTTTGTTGGCAGATAACCTTCTAGCCTTGAG
TTATGCTGCAAATGATATGCCTTAGAGCTGAGTGT
Found at i:4396121 original size:84 final size:84
Alignment explanation
Indices: 4395573--4396110 Score: 601
Period size: 84 Copynumber: 6.5 Consensus size: 84
4395563 CTTATTGATA
* * *
4395573 ATGTGCCTTGGAGCTGAATGTAATCGAACTCGAAGGTC---T-TTGGCAGATATCCCTTCTTGCC
1 ATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTTGCC
*
4395634 TTGAGTTATACTACAAATG
66 TTGAGTTATGCTACAAATG
* * * * *
4395653 ATGTGTCTTTGAGCTAAATGTAATCGAACTCAAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCC
1 ATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTTGCC
*
4395718 TTGAGTTATGCTGCAAATG
66 TTGAGTTATGCTACAAATG
* * * * * *
4395737 ATATGCCTTAGAGCTGAGTGTAATCGAGCCCGAAGGTCTTTTGTTGGCAAATAACCTTTCTTGCC
1 ATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTTGCC
* * *
4395802 TTGAGCTATGTTGCAAATG
66 TTGAGTTATGCTACAAATG
* * * * * * * * *
4395821 ATATGCCTTTGAGCTGAGCGTAGTCAAAATCGAACGTCTTTTGTTGACAGATAACCCTTCTAGGC
1 ATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTTGCC
**
4395886 TTGAGTTATGCTGTAAATG
66 TTGAGTTATGCTACAAATG
*
4395905 ATGTGCCTTTGAGCTGAGTGTAATCGAGCTCGAAGGTC---T-TTGGCA-ATAACCCTTCTTGCC
1 ATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTTGCC
*
4395965 ATGAGTTATGCTACAAATG
66 TTGAGTTATGCTACAAATG
* * * * ** *
4395984 ATGGTTCCTTTAAGCTGGGTGTAATCGAACTCGAAGGT-ATTTGATTGATAGATAACCCTTCTCG
1 AT-GTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTG-TTGGCAGATAACCCTTCTTG
* *
4396048 ACTTAAGTTATGCTACAAATG
64 CCTTGAGTTATGCTACAAATG
* *
4396069 ATGTACCTTTGAGGTGAGTGTAATCGAACTCGAAGGTCTTTT
1 ATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTT
4396111 TTTGATAGAT
Statistics
Matches: 381, Mismatches: 65, Indels: 19
0.82 0.14 0.04
Matches are distributed among these distances:
79 31 0.08
80 70 0.18
81 1 0.00
82 1 0.00
83 1 0.00
84 242 0.64
85 35 0.09
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.33
Consensus pattern (84 bp):
ATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTTGCC
TTGAGTTATGCTACAAATG
Found at i:4396691 original size:165 final size:163
Alignment explanation
Indices: 4396436--4397915 Score: 909
Period size: 165 Copynumber: 9.1 Consensus size: 163
4396426 TCTGTCAACA
* * * * *
4396436 AAAGACCTTCGAGTTCGATTACAGTCATCTCAAAGGCACATCATTTGCAGCATAACAT-AAGTCG
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAACATAAC-TCAAGGCT
* * * *
4396500 AGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTAGATTACACCCAGCTTAAATGCACTATCAT
65 AGAAGGGTTATCTGCCAA-AAAAGACCTTCGAGTTCGATTACACTCAGCTCAAA-GCACTATCAT
* *
4396565 TTGCAGCATAACTCAAGGCAAGAAGGGTTATCTGCC
128 TTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCC
* * *
4396601 AAAGACCTTCGAGCTCGATTACACTCAGCTCAAAAGCACATCATTTACAACATAACTCAAGGCTA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAACATAACTCAAGGCTA
* * * * * *
4396666 CAAGTGTTATCTGTCAATAAAAGACCTTCGAGTTCGACTACGCTCAGCTCGAAG-ACATATCATT
66 GAAGGGTTATCTGCCAA-AAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGCAC-TATCATT
* * * *
4396730 TGCATCATAGCTCAAGACAAGAAAGGCTATTTGCCAAC
129 TGCAGCATAGCTCAAGGCAAGAAGGGCTATCTG-C--C
* * * *
4396768 AATAGACCTTCGGGTTCGATTACACTCAGCTCTAAGGCATATCATTTGTAACATAACTCAAGGCT
1 AA-AGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAACATAACTCAAGGCT
* * *
4396833 AGAAGGGTTATATGCCAAAAAATACC-TCTGAGTTCGATTACATTCAGCTCAAAGACAC-ATCAT
65 AGAAGGGTTATCTGCCAAAAAAGACCTTC-GAGTTCGATTACACTCAGCTCAAAG-CACTATCAT
* * *
4396896 TTGTAGTATAGCTCAAGGCAAGAAGGGCTATCTACC
128 TTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCC
* * *
4396932 AAATACCTTCGAGTTCGATTACATTCAGCTCCAAGG--CA-CA--T----C---A-TCAA---T-
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAACATAACTCAAGGCTA
* ** * * * * *
4396980 -AAGGGTTATTTGCCAACCAAGACCTTCGAGTTCAATTACGCTCAACTCCAAGGCA-AATCATTT
66 GAAGGGTTATCTGCCAAAAAAGACCTTCGAGTTCGATTACACTCAGCT-CAAAGCACTATCATTT
* * * *** *
4397043 ACAGCATAACTTAAGTTGAGAAGGGTTATCTGCCAACC
130 GCAGCATAGCTCAAGGCAAGAAGGGCTATCTG----CC
* * * * *
4397081 AAAGACCTTCGAGTTCGATTACACCCAGCTTAAAGGAACTATCATTTGCAGCATAACTCAAGGCG
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCAC-ATCATTTGCAACATAACTCAAGGCT
* * *
4397146 AGAAGGGTTATCTGCC---AAAGACCTTCAAGCTCGATTACACTCAGCTCAAAGGTAC-ATCATT
65 AGAAGGGTTATCTGCCAAAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAA-GCACTATCATT
* * ** *
4397207 TACAGCATAACTCAAGGTTAGAAGGGTTATCTGTCAAC
129 TGCAGCATAGCTCAAGGCAAGAAGGGCTATCTG-C--C
* * * * * * * * *
4397245 AAAAGACCTTCGAGTTTGACTACGCTTAGCTCTAAGGCATATCATTTGCAATATAGCTCAAGGAA
1 -AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAACATAACTCAAGG-C
* * * * * * * *
4397310 AAAAAAGGTTATTTTCCAACAAAAGACCTTCGGGTTCTATTACACTCAGCTCTAAGGCA-TATCA
64 TAGAAGGGTTATCTGCCAA-AAAAGACCTTCGAGTTCGATTACACTCAGCTC-AAAGCACTATCA
* * * * * * *
4397374 TTTACAGAATAACTCAAGGCTAGAAGGGTTATCTACTAATA
127 TTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGC----C
* * * * * ** * *
4397415 AAAGACCTTTGAGTTCGATTACATTCAGCTAAAAGACACATCATTTGTAGTATAGCTCAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAACATAACTCAAGGCTA
** * * * *
4397480 GAAGGACTATCTGCC---AAAGACCTTCGAGTTTGATTACATTCACCTCCAAGGCAC---C---T
66 GAAGGGTTATCTGCCAAAAAAGACCTTCGAGTTCGATTACACTCAGCT-CAAAGCACTATCATTT
* ** *** **
4397536 -CATCA-A--T-AAGG-ATTATTTGC---CAACC
130 GCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCC
* ** * * * * * *
4397561 -AAGACCTTCGAGTTCAATTATGCTCAGCTCCAATGTATATCATTTGCAGCATAACTTAAGGCTA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAACATAACTCAAGGCTA
* * * * * * * *
4397625 GAAGGGTTATCT-TCAGACAAAAGACCTTCAAGTTTGACTGCGCTCAACTCCAAGGCAC-ATCAT
66 GAAGGGTTATCTGCCA-A-AAAAGACCTTCGAGTTCGATTACACTCAGCT-CAAAGCACTATCAT
** *
4397688 TTGCAGCATAGCTTTAGGCAATAAGGGCTATCTGTCGAC
128 TTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTG-C--C
* * * * *
4397727 AAAAGACCTTTGAGTTCGACTACACTCAGCTCAAAGGCATATCAATTGCAGCATAACTCAAGGCT
1 -AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAACATAACTCAAGGCT
* * * *
4397792 AGAAGGGTTTTCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGCTAAAAGGCA-TATCAAA
65 AGAAGGGTTATCTGCCAAAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAA-GCACTATC--A
* * * *
4397856 TTTACAGTATAGCTCAAGGCGAGAAGGGTTATCTGTCATC
127 TTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTG-C--C
*
4397896 AAAGATCTTCGAGTTCGATT
1 AAAGACCTTCGAGTTCGATT
4397916 TCATTTAGCT
Statistics
Matches: 1015, Mismatches: 220, Indels: 157
0.73 0.16 0.11
Matches are distributed among these distances:
144 1 0.00
145 125 0.12
146 6 0.01
147 1 0.00
149 66 0.07
150 7 0.01
151 3 0.00
152 1 0.00
153 4 0.00
154 6 0.01
155 6 0.01
156 1 0.00
157 1 0.00
158 5 0.00
159 5 0.00
160 7 0.01
161 1 0.00
162 3 0.00
163 37 0.04
164 95 0.09
165 203 0.20
166 6 0.01
167 93 0.09
168 177 0.17
169 152 0.15
170 3 0.00
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.26
Consensus pattern (163 bp):
AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAACATAACTCAAGGCTA
GAAGGGTTATCTGCCAAAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGCACTATCATTTG
CAGCATAGCTCAAGGCAAGAAGGGCTATCTGCC
Found at i:4396728 original size:84 final size:84
Alignment explanation
Indices: 4396415--4396975 Score: 529
Period size: 84 Copynumber: 6.8 Consensus size: 84
4396405 ATCTAACTCA
* * * *
4396415 AAGAAGGAG-TATCTGTCAACAAAAGACCTTCGAGTTCGATTACAGTCATCTCAAAGGCACATCA
1 AAGAAGG-GTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGACACATCA
* *
4396479 TTTGCAGCATAACAT-AAGTC
65 TTTGCAACATAAC-TCAAGGC
* * * * *
4396499 GAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTAGATTACACCCAGCTTAAATG-CACTATC
1 AAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAA-GACAC-ATC
*
4396563 ATTTGCAGCATAACTCAAGGC
64 ATTTGCAACATAACTCAAGGC
*
4396584 AAGAAGGGTTATCTG-C--C-AAAGACCTTCGAGCTCGATTACACTCAGCTCAAA-AGCACATCA
1 AAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGA-CACATCA
*
4396644 TTTACAACATAACTCAAGGC
65 TTTGCAACATAACTCAAGGC
* * * * * * * * *
4396664 TACAAGTGTTATCTGTCAATAAAAGACCTTCGAGTTCGACTACGCTCAGCTCGAAGACATATCAT
1 AAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGACACATCAT
* * *
4396729 TTGCATCATAGCTCAAGAC
66 TTGCAACATAACTCAAGGC
* * * * * * * *
4396748 AAGAAAGGCTATTTGCCAACAATAGACCTTCGGGTTCGATTACACTCAGCTCTAAGGCATATCAT
1 AAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGACACATCAT
*
4396813 TTGTAACATAACTCAAGGC
66 TTGCAACATAACTCAAGGC
* * * *
4396832 TAGAAGGGTTATATGCCAA-AAAATACC-TCTGAGTTCGATTACATTCAGCTCAAAGACACATCA
1 AAGAAGGGTTATCTGCCAACAAAAGACCTTC-GAGTTCGATTACACTCAGCTCAAAGACACATCA
* ** *
4396895 TTTGTAGTATAGCTCAAGGC
65 TTTGCAACATAACTCAAGGC
* * * * * *
4396915 AAGAAGGGCTATCT----ACCAAATACCTTCGAGTTCGATTACATTCAGCTCCAAGGCACATCAT
1 AAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGACACATCAT
4396976 CAATAAGGGT
Statistics
Matches: 396, Mismatches: 67, Indels: 32
0.80 0.14 0.06
Matches are distributed among these distances:
79 1 0.00
80 73 0.18
81 36 0.09
82 3 0.01
83 63 0.16
84 183 0.46
85 37 0.09
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.25
Consensus pattern (84 bp):
AAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGACACATCAT
TTGCAACATAACTCAAGGC
Found at i:4397192 original size:230 final size:229
Alignment explanation
Indices: 4396757--4397205 Score: 555
Period size: 230 Copynumber: 2.0 Consensus size: 229
4396747 CAAGAAAGGC
* * * * * **
4396757 TATTTGCCAACAATAGACCTTCGGGTTCGATTACACTCAGCTCTAAGGCATATCATTTGTAACAT
1 TATTTGCCAACAATAGACCTTCGAGTTCAATTACACTCAACTCCAAGGCAAATCATTTACAACAT
* **
4396822 AACTCAAGGCTAGAAGGGTTATATGCCAAAAAATACCTCTGAGTTCGATTACATTCAGCTCAAAG
66 AACTCAAGGCTAGAAGGGTTATATGCCAAAAAAGACCTCTGAGTTCGATTACACCCAGCTCAAAG
* * * * * *
4396887 ACACATCATTTGTAGTATAGCTCAAGGCAAGAAGGGCTATCTACCAAATACCTTCGAGTTCGATT
131 ACACATCATTTGCAGCATAACTCAAGGCAAGAAGGGCTATCTACCAAAGACCTTCAAGCTCGATT
* *
4396952 ACATTCAGCTCCAAGGCACATCATCAATAAGGGT
196 ACACTCAGCTCAAAGGCACATCATCAATAAGGGT
* * *
4396986 TATTTGCCAACCA-AGACCTTCGAGTTCAATTACGCTCAACTCCAAGGCAAATCATTTACAGCAT
1 TATTTGCCAACAATAGACCTTCGAGTTCAATTACACTCAACTCCAAGGCAAATCATTTACAACAT
* * * * *
4397050 AACTTAA-GTTGAGAAGGGTTATCTGCCAACCAAAGACCT-TCGAGTTCGATTACACCCAGCTTA
66 AACTCAAGGCT-AGAAGGGTTATATGCCAA-AAAAGACCTCT-GAGTTCGATTACACCCAGCTCA
* * *
4397113 AAGGA-ACTATCATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGCCAAAGACCTTCAAGCT
128 AA-GACAC-ATCATTTGCAGCATAACTCAAGGCAAGAAGGGCTATCTACCAAAGACCTTCAAGCT
*
4397177 CGATTACACTCAGCTCAAAGGTACATCAT
191 CGATTACACTCAGCTCAAAGGCACATCAT
4397206 TTACAGCATA
Statistics
Matches: 185, Mismatches: 30, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
227 2 0.01
228 66 0.36
229 42 0.23
230 75 0.41
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (229 bp):
TATTTGCCAACAATAGACCTTCGAGTTCAATTACACTCAACTCCAAGGCAAATCATTTACAACAT
AACTCAAGGCTAGAAGGGTTATATGCCAAAAAAGACCTCTGAGTTCGATTACACCCAGCTCAAAG
ACACATCATTTGCAGCATAACTCAAGGCAAGAAGGGCTATCTACCAAAGACCTTCAAGCTCGATT
ACACTCAGCTCAAAGGCACATCATCAATAAGGGT
Found at i:4397305 original size:84 final size:82
Alignment explanation
Indices: 4396980--4397532 Score: 452
Period size: 84 Copynumber: 6.7 Consensus size: 82
4396970 CATCATCAAT
* * * * * * *
4396980 AAGGGTTATTTGCCAACCAAGACCTTCGAGTTCAATTACGCTCAACTCCAAGGCAAATCATTTAC
1 AAGGGTTATCTG-CAACAAAGACCTTCGAGTTCGATTACACTCAGCTCTAAGGCATATCATTTAC
* *
4397045 AGCATAACTTAA-GTTGAG
65 AGCATAACTCAAGGCT-AG
* *
4397063 AAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGATTACACCCAGCT-TAAAGGAACTATCATT
1 AAGGGTTATCTG-CAA-CAAAGACCTTCGAGTTCGATTACACTCAGCTCT-AAGGCA-TATCATT
* *
4397127 TGCAGCATAACTCAAGGCGAG
62 TACAGCATAACTCAAGGCTAG
* * * * *
4397148 AAGGGTTATCTGC--CAAAGACCTTCAAGCTCGATTACACTCAGCTCAAAGGTACATCATTTACA
1 AAGGGTTATCTGCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCTAAGGCATATCATTTACA
*
4397211 GCATAACTCAAGGTTAG
66 GCATAACTCAAGGCTAG
* * * * *
4397228 AAGGGTTATCTGTCAACAAAAGACCTTCGAGTTTGACTACGCTTAGCTCTAAGGCATATCATTTG
1 AAGGGTTATCTG-CAAC-AAAGACCTTCGAGTTCGATTACACTCAGCTCTAAGGCATATCATTTA
** * ** *
4397293 CAATATAGCTCAAGGAAAAA
64 CAGCATAACTCAAGG-CTAG
* * * * *
4397313 AAAGGTTATTTTCCAACAAAAGACCTTCGGGTTCTATTACACTCAGCTCTAAGGCATATCATTTA
1 AAGGGTTA-TCTGCAAC-AAAGACCTTCGAGTTCGATTACACTCAGCTCTAAGGCATATCATTTA
*
4397378 CAGAATAACTCAAGGCTAG
64 CAGCATAACTCAAGGCTAG
* * * * ** * * *
4397397 AAGGGTTATCTACTAATAAAAGACCTTTGAGTTCGATTACATTCAGCTAAAAGACACATCATTTG
1 AAGGGTTATCTGC-AA-CAAAGACCTTCGAGTTCGATTACACTCAGCTCTAAGGCATATCATTTA
* * * *
4397462 TAGTATAGCTCAAGGCAAG
64 CAGCATAACTCAAGGCTAG
** * * * *
4397481 AAGGACTATCTGC--CAAAGACCTTCGAGTTTGATTACATTCACCTCCAAGGCA
1 AAGGGTTATCTGCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCTAAGGCA
4397533 CCTCATCAAT
Statistics
Matches: 376, Mismatches: 81, Indels: 29
0.77 0.17 0.06
Matches are distributed among these distances:
80 68 0.18
81 34 0.09
83 19 0.05
84 154 0.41
85 98 0.26
86 3 0.01
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (82 bp):
AAGGGTTATCTGCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCTAAGGCATATCATTTACA
GCATAACTCAAGGCTAG
Found at i:4397460 original size:169 final size:166
Alignment explanation
Indices: 4396983--4397476 Score: 487
Period size: 169 Copynumber: 3.0 Consensus size: 166
4396973 CATCAATAAG
* * * * *
4396983 GGTTATTTGCCAACCAAGACCTTCGAGTTCAATTACGCTCAACTCCAAGGCAAATCATTTACAGC
1 GGTTATTTTCCAACAAAGACCTTCGAGTTCAATTACACTCAGCTCAAAGGCAAATCATTTACAGC
* * * **
4397048 ATAACTTAA-GTTGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGATTACACCCAGCTT
66 ATAACTCAAGGTT-AGAAGGGTTATCT-CTAACAAAAGACCTTCGAGTTCGATTACATTCAGC-T
* * * ** * *
4397112 AAAGGA-ACTATCATTTGCAGCATAACTCAAGGCGAGAAG
128 AAAAGACAC-ATCATTTGCAGTATAGCTCAAGGAAAAAAA
* * * * * * *
4397151 GGTTA-TCTGC--CAAAGACCTTCAAGCTCGATTACACTCAGCTCAAAGGTACATCATTTACAGC
1 GGTTATTTTCCAACAAAGACCTTCGAGTTCAATTACACTCAGCTCAAAGGCAAATCATTTACAGC
* * * * *
4397213 ATAACTCAAGGTTAGAAGGGTTATCTGTCAACAAAAGACCTTCGAGTTTGACTACGCTT-AGCTC
66 ATAACTCAAGGTTAGAAGGGTTATCTCT-AACAAAAGACCTTCGAGTTCGATTAC-ATTCAGCTA
* * * *
4397277 TAAGGCATATCATTTGCAATATAGCTCAAGGAAAAAAAA
129 AAAGACACATCATTTGCAGTATAGCTCAAGG-AAAAAAA
* * * *
4397316 GGTTATTTTCCAACAAAAGACCTTCGGGTTCTATTACACTCAGCTCTAAGGCATATCATTTACAG
1 GGTTATTTTCCAAC-AAAGACCTTCGAGTTCAATTACACTCAGCTCAAAGGCAAATCATTTACAG
* * * *
4397381 AATAACTCAAGGCTAGAAGGGTTATCTACTAATAAAAGACCTTTGAGTTCGATTACATTCAGCTA
65 CATAACTCAAGGTTAGAAGGGTTATCT-CTAACAAAAGACCTTCGAGTTCGATTACATTCAGCTA
*
4397446 AAAGACACATCATTTGTAGTATAGCTCAAGG
129 AAAGACACATCATTTGCAGTATAGCTCAAGG
4397477 CAAGAAGGAC
Statistics
Matches: 259, Mismatches: 56, Indels: 21
0.77 0.17 0.06
Matches are distributed among these distances:
164 23 0.09
165 99 0.38
166 6 0.02
167 2 0.01
168 8 0.03
169 120 0.46
170 1 0.00
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (166 bp):
GGTTATTTTCCAACAAAGACCTTCGAGTTCAATTACACTCAGCTCAAAGGCAAATCATTTACAGC
ATAACTCAAGGTTAGAAGGGTTATCTCTAACAAAAGACCTTCGAGTTCGATTACATTCAGCTAAA
AGACACATCATTTGCAGTATAGCTCAAGGAAAAAAA
Found at i:4397714 original size:84 final size:85
Alignment explanation
Indices: 4397599--4397913 Score: 327
Period size: 84 Copynumber: 3.8 Consensus size: 85
4397589 TCCAATGTAT
* *
4397599 ATCATTTGCAGCATAACTTAAGGCTAGAAGGGTTATCT-TCAGACAAAAGACCTTCAAGTTTGAC
1 ATCATTTGCAGCATAACTTAAGGCTAGAAGGGTTATCTGTCAGACAAAAGACCTTCGAGTTCGAC
* * *
4397663 TGCGCTCAACTCCAAGGCAC
66 TACACTCAACTCAAAGGCAC
* * * * * *
4397683 ATCATTTGCAGCATAGCTTTAGGCAATAAGGGCTATCTGTC-GACAAAAGACCTTTGAGTTCGAC
1 ATCATTTGCAGCATAACTTAAGGCTAGAAGGGTTATCTGTCAGACAAAAGACCTTCGAGTTCGAC
* *
4397747 TACACTCAGCTCAAAGGCAT
66 TACACTCAACTCAAAGGCAC
* * * *
4397767 ATCAATTGCAGCATAACTCAAGGCTAGAAGGGTTTTCTGTCA-AC-AAAGACCTTCGAGTTCGAT
1 ATCATTTGCAGCATAACTTAAGGCTAGAAGGGTTATCTGTCAGACAAAAGACCTTCGAGTTCGAC
* * *
4397830 TACACTCAGCTAAAAGGCAT
66 TACACTCAACTCAAAGGCAC
* * * * * * *
4397850 ATCAAATTTACAGTATAGCTCAAGGCGAGAAGGGTTATCTGTCA-TC-AAAGATCTTCGAGTTCG
1 ATC--ATTTGCAGCATAACTTAAGGCTAGAAGGGTTATCTGTCAGACAAAAGACCTTCGAGTTCG
4397913 A
64 A
4397914 TTTCATTTAG
Statistics
Matches: 195, Mismatches: 32, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
83 39 0.20
84 103 0.53
85 53 0.27
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (85 bp):
ATCATTTGCAGCATAACTTAAGGCTAGAAGGGTTATCTGTCAGACAAAAGACCTTCGAGTTCGAC
TACACTCAACTCAAAGGCAC
Found at i:4397906 original size:85 final size:82
Alignment explanation
Indices: 4397561--4397915 Score: 289
Period size: 84 Copynumber: 4.2 Consensus size: 82
4397551 TTTGCCAACC
* ** ** * * * * * *
4397561 AAGACCTTCGAGTTCAATTATGCTCAGCTCCAATGTATATCATTTGCAGCATAACTTAAGGCTAG
1 AAGACCTTCGAGTTCGATTACACTCAGCTAAAAGGCATATCAATTACAGCATAACTCAAGGCGAG
4397626 AAGGGTTATCT-TCAGACAA
66 AAGGGTTATCTGTC--AC-A
* * * * * * ** * * * * ** * *
4397645 AAGACCTTCAAGTTTGACTGCGCTCAACTCCAAGGCACATCATTTGCAGCATAGCTTTAGGCAAT
1 AAGACCTTCGAGTTCGATTACACTCAGCTAAAAGGCATATCAATTACAGCATAACTCAAGGCGAG
*
4397710 AAGGGCTATCTGTCGACAA
66 AAGGGTTATCTGTC-AC-A
* * * * *
4397729 AAGACCTTTGAGTTCGACTACACTCAGCTCAAAGGCATATCAATTGCAGCATAACTCAAGGCTAG
1 AAGACCTTCGAGTTCGATTACACTCAGCTAAAAGGCATATCAATTACAGCATAACTCAAGGCGAG
*
4397794 AAGGGTTTTCTGTCAACA
66 AAGGGTTATCTGTC-ACA
* *
4397812 AAGACCTTCGAGTTCGATTACACTCAGCTAAAAGGCATATCAAATTTACAGTATAGCTCAAGGCG
1 AAGACCTTCGAGTTCGATTACACTCAGCTAAAAGGCATATC-AA-TTACAGCATAACTCAAGGCG
4397877 AGAAGGGTTATCTGTCATCA
64 AGAAGGGTTATCTGTCA-CA
*
4397897 AAGATCTTCGAGTTCGATT
1 AAGACCTTCGAGTTCGATT
4397916 TCATTTAGCT
Statistics
Matches: 226, Mismatches: 41, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
83 39 0.17
84 134 0.59
85 53 0.23
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (82 bp):
AAGACCTTCGAGTTCGATTACACTCAGCTAAAAGGCATATCAATTACAGCATAACTCAAGGCGAG
AAGGGTTATCTGTCACA
Found at i:4397939 original size:168 final size:168
Alignment explanation
Indices: 4397561--4397939 Score: 397
Period size: 168 Copynumber: 2.3 Consensus size: 168
4397551 TTTGCCAACC
* * ** * * * *
4397561 AAGACCTTCGAGTTCAATTATGCTCAGCTCCAATGTATATCATTTGCAGCATAACTTAAGGCTAG
1 AAGACCTTCGAGTTCGACTACACTCAGCTCAAAGGTATATCAATTGCAGCATAACTCAAGGCTAG
* * * ** *
4397626 AAGGGTTATCTTCAGACAAAAGACCTTCAAGTTTGACTGCGCTCAACTCCAAGGCACATCATTTG
66 AAGGGTTATCTTCAGACAAAAGACCTTCAAGTTCGACTACACTCAACTAAAAGGCACATCATTTA
** *
4397691 CAGCATAGCTTTAGGCAATAAGGGCTATCTGTCGACAA
131 CAGCATAGCTCAAGGCAAGAAGGGCTATCTGTCGACAA
* *
4397729 AAGACCTTTGAGTTCGACTACACTCAGCTCAAAGGCATATCAATTGCAGCATAACTCAAGGCTAG
1 AAGACCTTCGAGTTCGACTACACTCAGCTCAAAGGTATATCAATTGCAGCATAACTCAAGGCTAG
* * * * *
4397794 AAGGGTTTTCTGTCA-AC-AAAGACCTTCGAGTTCGATTACACTCAGCTAAAAGGCATATCAAAT
66 AAGGGTTATCT-TCAGACAAAAGACCTTCAAGTTCGACTACACTCAACTAAAAGGCACATC--AT
* * *
4397857 TTACAGTATAGCTCAAGGCGAGAAGGGTTATCTGTC-ATC-A
128 TTACAGCATAGCTCAAGGCAAGAAGGGCTATCTGTCGA-CAA
* * * * * *
4397897 AAGATCTTCGAGTTCGATTTCATTTAGCTCATAGGTATATCAA
1 AAGACCTTCGAGTTCGACTACACTCAGCTCAAAGGTATATCAA
4397940 CCGCATGGTA
Statistics
Matches: 172, Mismatches: 35, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
167 33 0.19
168 104 0.60
169 35 0.20
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (168 bp):
AAGACCTTCGAGTTCGACTACACTCAGCTCAAAGGTATATCAATTGCAGCATAACTCAAGGCTAG
AAGGGTTATCTTCAGACAAAAGACCTTCAAGTTCGACTACACTCAACTAAAAGGCACATCATTTA
CAGCATAGCTCAAGGCAAGAAGGGCTATCTGTCGACAA
Found at i:4402460 original size:32 final size:32
Alignment explanation
Indices: 4402400--4402487 Score: 117
Period size: 31 Copynumber: 2.8 Consensus size: 32
4402390 GCATATTAAA
* *
4402400 AGATTCAACATCAAATG-TAGGGCATTTTTTG
1 AGATTTAACATCAAATGTTGGGGCATTTTTTG
*
4402431 AGATTTAACAACAAATGTTGGGGCATTTTTTG
1 AGATTTAACATCAAATGTTGGGGCATTTTTTG
* *
4402463 AGA-TTAACATCGAATATTGGGGCAT
1 AGATTTAACATCAAATGTTGGGGCAT
4402488 CTTTAGGAAT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
31 34 0.68
32 16 0.32
ACGTcount: A:0.33, C:0.11, G:0.22, T:0.34
Consensus pattern (32 bp):
AGATTTAACATCAAATGTTGGGGCATTTTTTG
Found at i:4403713 original size:28 final size:28
Alignment explanation
Indices: 4403673--4403751 Score: 140
Period size: 28 Copynumber: 2.8 Consensus size: 28
4403663 GTGCTAACCA
* *
4403673 TTGTCTCTCTTGAGATAGTTTCCATGTT
1 TTGTCTCTCTTGAGACAGTTTCCAAGTT
4403701 TTGTCTCTCTTGAGACAGTTTCCAAGTT
1 TTGTCTCTCTTGAGACAGTTTCCAAGTT
4403729 TTGTCTCTCTTGAGACAGTTTCC
1 TTGTCTCTCTTGAGACAGTTTCC
4403752 CTTGAAACAA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 49 1.00
ACGTcount: A:0.15, C:0.22, G:0.18, T:0.46
Consensus pattern (28 bp):
TTGTCTCTCTTGAGACAGTTTCCAAGTT
Found at i:4403779 original size:37 final size:37
Alignment explanation
Indices: 4403729--4403840 Score: 190
Period size: 37 Copynumber: 3.1 Consensus size: 37
4403719 TTTCCAAGTT
4403729 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATC
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATC
*
4403766 TTGTCTCTCTTGAGACAGTTTCCCTTGAAAC-AAATT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATC
* *
4403802 TTGTCTCTCTTGGGACAGTTTCCTTTGAAACAAAATC
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATC
4403839 TT
1 TT
4403841 TGAATATCTT
Statistics
Matches: 70, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
36 33 0.47
37 37 0.53
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.38
Consensus pattern (37 bp):
TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATC
Found at i:4403813 original size:36 final size:36
Alignment explanation
Indices: 4403727--4403835 Score: 182
Period size: 36 Copynumber: 3.0 Consensus size: 36
4403717 AGTTTCCAAG
4403727 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAC-AAA
*
4403764 TCTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
* *
4403800 TTTTGTCTCTCTTGGGACAGTTTCCTTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
4403836 ATCTTTGAAT
Statistics
Matches: 68, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
36 36 0.53
37 32 0.47
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.39
Consensus pattern (36 bp):
TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
Found at i:4403945 original size:29 final size:28
Alignment explanation
Indices: 4403900--4403960 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 28
4403890 CTTGAAACAC
*
4403900 AAAAAAAAACCTCGAAATTGTTTCTCTT
1 AAAAAAAAACCTCGAAAATGTTTCTCTT
* *
4403928 GAAAAAAAAACTTTGAAAATGTTTCTCTT
1 -AAAAAAAAACCTCGAAAATGTTTCTCTT
4403957 AAAA
1 AAAA
4403961 CACAAAGCCT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 4 0.14
29 25 0.86
ACGTcount: A:0.48, C:0.13, G:0.08, T:0.31
Consensus pattern (28 bp):
AAAAAAAAACCTCGAAAATGTTTCTCTT
Found at i:4404101 original size:83 final size:84
Alignment explanation
Indices: 4403962--4404147 Score: 277
Period size: 83 Copynumber: 2.2 Consensus size: 84
4403952 CTCTTAAAAC
* * *
4403962 ACAAAG-CCTTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTCAAGG
1 ACAAAGACCTTCGAGTTCGACTACACTCAGCTTCCAAGGCACATCATTTGCAGCATAACTCAAGG
* *
4404026 CTAGAAGGGTTATCTGTCA
66 CAAGAAGGGTTATCAGTCA
* * *
4404045 ACAAAGACCTTTGAGTTTGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAACTCAAGG
1 ACAAAGACCTTCGAGTTCGACTACACTCAGCTTCCAAGGCACATCATTTGCAGCATAACTCAAGG
4404109 CAAGAAGGGTTATCAGTCA
66 CAAGAAGGGTTATCAGTCA
*
4404128 TCAAAGACCTTCGAGTTCGA
1 ACAAAGACCTTCGAGTTCGA
4404148 TTATATTAAA
Statistics
Matches: 91, Mismatches: 11, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
83 71 0.78
84 20 0.22
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (84 bp):
ACAAAGACCTTCGAGTTCGACTACACTCAGCTTCCAAGGCACATCATTTGCAGCATAACTCAAGG
CAAGAAGGGTTATCAGTCA
Found at i:4404202 original size:85 final size:83
Alignment explanation
Indices: 4403962--4404217 Score: 237
Period size: 83 Copynumber: 3.1 Consensus size: 83
4403952 CTCTTAAAAC
* * * * * * *
4403962 ACAAAG-CCTTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTCAAGG
1 ACAAAGACCTTCGAGTTCGACTACACTAAAC-TCCAAGGAAAATCATTTGCAGCATAACTCAAGG
* *
4404026 CTAGAAGGGTTATCTGTCA
65 CAAGAAGGGTTATCAGTCA
* * * * * * *
4404045 ACAAAGACCTTTGAGTTTGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTCAAGGC
1 ACAAAGACCTTCGAGTTCGACTACACTAAACTCCAAGGAAAATCATTTGCAGCATAACTCAAGGC
4404110 AAGAAGGGTTATCAGTCA
66 AAGAAGGGTTATCAGTCA
* * * * *
4404128 TCAAAGACCTTCGAGTTCGATTATATTAAACT-CAGAGGAAAATCAAATTTGCAGCATAGCTCAA
1 ACAAAGACCTTCGAGTTCGACTACACTAAACTCCA-AGGAAAATC--ATTTGCAGCATAACTCAA
* * * *
4404192 GGAAAGAAGGGCTATCTGCCA
63 GGCAAGAAGGGTTATCAGTCA
4404213 ACAAA
1 ACAAA
4404218 ATTGTCGAGT
Statistics
Matches: 144, Mismatches: 25, Indels: 6
0.82 0.14 0.03
Matches are distributed among these distances:
82 2 0.01
83 84 0.58
84 20 0.14
85 38 0.26
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.23
Consensus pattern (83 bp):
ACAAAGACCTTCGAGTTCGACTACACTAAACTCCAAGGAAAATCATTTGCAGCATAACTCAAGGC
AAGAAGGGTTATCAGTCA
Found at i:4404745 original size:37 final size:37
Alignment explanation
Indices: 4404704--4404815 Score: 188
Period size: 37 Copynumber: 3.0 Consensus size: 37
4404694 AACATAGCGT
4404704 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATAGGA
1 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATAGGA
*
4404741 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATATGA
1 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATAGGA
* * *
4404778 TAGAGTTCTATTATGATTCAAACTCCTAAAAATAGGA
1 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATAGGA
4404815 T
1 T
4404816 CCAGAAGCAT
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 70 1.00
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.32
Consensus pattern (37 bp):
TAGAGTTTTACTAGGATTCAAACTCCTAAAAATAGGA
Found at i:4404828 original size:37 final size:35
Alignment explanation
Indices: 4404718--4404829 Score: 118
Period size: 37 Copynumber: 3.0 Consensus size: 35
4404708 GTTTTACTAG
**
4404718 GATTCAAACTCCTAAAAATAGGATAGAGTTTTACTA
1 GATTCAAACTCCTAAAAATAGGATAGAGCATTA-TA
*
4404754 GGATTCAAACTCCTAAAAATATGATAGAGTTCTATTAT-
1 -GATTCAAACTCCTAAAAATAGGATAGAG--C-ATTATA
4404792 GATTCAAACTCCTAAAAATAGGATCCAGAAGCATTATA
1 GATTCAAACTCCTAAAAATAGGAT--AG-AGCATTATA
4404830 AATAGCCATT
Statistics
Matches: 64, Mismatches: 4, Indels: 13
0.79 0.05 0.16
Matches are distributed among these distances:
37 55 0.86
38 1 0.02
39 3 0.05
40 5 0.08
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.29
Consensus pattern (35 bp):
GATTCAAACTCCTAAAAATAGGATAGAGCATTATA
Found at i:4405282 original size:16 final size:16
Alignment explanation
Indices: 4405261--4405318 Score: 63
Period size: 14 Copynumber: 3.9 Consensus size: 16
4405251 ATTCCAACAG
4405261 TATATTTATTATTATA
1 TATATTTATTATTATA
*
4405277 TATATTTA--ATCATA
1 TATATTTATTATTATA
*
4405291 TATTTTTATTA-TATA
1 TATATTTATTATTATA
4405306 T-TATTT-TTATTAT
1 TATATTTATTATTAT
4405319 TTTTTTACTT
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
13 3 0.09
14 19 0.54
15 4 0.11
16 9 0.26
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (16 bp):
TATATTTATTATTATA
Found at i:4405432 original size:19 final size:18
Alignment explanation
Indices: 4405382--4405432 Score: 61
Period size: 17 Copynumber: 2.8 Consensus size: 18
4405372 TATATATACA
*
4405382 ATCACTATTATATATTTT
1 ATCACTATTACATATTTT
4405400 AT-A-TATTACTATATTTT
1 ATCACTATTAC-ATATTTT
4405417 ATCACTATGTACATAT
1 ATCACTAT-TACATAT
4405433 ACTTTTGATA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
16 5 0.18
17 10 0.36
18 3 0.11
19 7 0.25
20 3 0.11
ACGTcount: A:0.35, C:0.12, G:0.02, T:0.51
Consensus pattern (18 bp):
ATCACTATTACATATTTT
Found at i:4405546 original size:16 final size:17
Alignment explanation
Indices: 4405510--4405549 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
4405500 TTTTTCTTTT
4405510 CTTT-TTTCCTTTTCTA
1 CTTTATTTCCTTTTCTA
4405526 CTTTATTTCCATTTT-TA
1 CTTTATTTCC-TTTTCTA
4405543 -TTTATTT
1 CTTTATTT
4405550 TATATTTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 11 0.50
17 7 0.32
18 4 0.18
ACGTcount: A:0.12, C:0.17, G:0.00, T:0.70
Consensus pattern (17 bp):
CTTTATTTCCTTTTCTA
Found at i:4405739 original size:30 final size:30
Alignment explanation
Indices: 4405682--4405739 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
4405672 TGAATCCCTA
* **
4405682 TTTCCTTTTTTCTCTCTCAATTGTATTTGT
1 TTTCATTTTTTCTCTCTCAATCATATTTGT
4405712 TTTCATTTTTTCTCTCTCTAA-CATATTT
1 TTTCATTTTTTCTCTCTC-AATCATATTT
4405740 CTTGACTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 22 0.92
31 2 0.08
ACGTcount: A:0.14, C:0.21, G:0.03, T:0.62
Consensus pattern (30 bp):
TTTCATTTTTTCTCTCTCAATCATATTTGT
Found at i:4406221 original size:16 final size:18
Alignment explanation
Indices: 4406202--4406234 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
4406192 AGAAAATATA
4406202 AAATAAA-TA-AAAATGG
1 AAATAAAGTAGAAAATGG
4406218 AAATAAAGTAGAAAATG
1 AAATAAAGTAGAAAATG
4406235 AAAAAAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 2 0.13
18 6 0.40
ACGTcount: A:0.67, C:0.00, G:0.15, T:0.18
Consensus pattern (18 bp):
AAATAAAGTAGAAAATGG
Found at i:4406378 original size:35 final size:32
Alignment explanation
Indices: 4406329--4406395 Score: 89
Period size: 35 Copynumber: 2.0 Consensus size: 32
4406319 TATATATACT
4406329 TAGTGATAAAATATAGTAATATATAAAATATATTA
1 TAGTGATAAAATATA-T-ATATAT-AAATATATTA
* *
4406364 TAGTGATAATATATATATATATATATATATTA
1 TAGTGATAAAATATATATATATAAATATATTA
4406396 AAATGACGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
32 9 0.30
33 6 0.20
34 1 0.03
35 14 0.47
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (32 bp):
TAGTGATAAAATATATATATATAAATATATTA
Found at i:4406425 original size:12 final size:12
Alignment explanation
Indices: 4406408--4406493 Score: 59
Period size: 12 Copynumber: 6.7 Consensus size: 12
4406398 ATGACGAAAG
4406408 AATAAATAATAA
1 AATAAATAATAA
4406420 AATAAAGTAA-AA
1 AATAAA-TAATAA
4406432 AATATAATAATAAA
1 AATA-AATAAT-AA
4406446 AATAATAGATAATAAA
1 AAT-A-A-ATAAT-AA
* *
4406462 AATATATAATTA
1 AATAAATAATAA
*
4406474 AATATAT-ATAA
1 AATAAATAATAA
4406485 TAATAAATA
1 -AATAAATA
4406494 TACTATTGGA
Statistics
Matches: 62, Mismatches: 4, Indels: 15
0.77 0.05 0.19
Matches are distributed among these distances:
11 3 0.05
12 29 0.47
13 10 0.16
14 5 0.08
15 4 0.06
16 11 0.18
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (12 bp):
AATAAATAATAA
Found at i:4406459 original size:41 final size:44
Alignment explanation
Indices: 4406408--4406493 Score: 108
Period size: 42 Copynumber: 2.0 Consensus size: 44
4406398 ATGACGAAAG
4406408 AATAAATAAT-AAAATAAAGTAA-AAAATATA-ATAATAA-AAAT
1 AATAAATAATAAAAATAAA-TAATAAAATATATATAATAATAAAT
* * *
4406449 AATAGATAATAAAAATATATAATTAAATATATATAATAATAAAT
1 AATAAATAATAAAAATAAATAATAAAATATATATAATAATAAAT
4406493 A
1 A
4406494 TACTATTGGA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
41 12 0.32
42 14 0.37
43 7 0.18
44 5 0.13
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (44 bp):
AATAAATAATAAAAATAAATAATAAAATATATATAATAATAAAT
Found at i:4406465 original size:30 final size:29
Alignment explanation
Indices: 4406408--4406495 Score: 91
Period size: 27 Copynumber: 3.2 Consensus size: 29
4406398 ATGACGAAAG
4406408 AATA-AATAATAAAATAA-AG-T-A-AAA
1 AATATAATAATAAAATAATAGATAATAAA
4406432 AATATAATAATAAAAATAATAGATAATAAA
1 AATATAATAAT-AAAATAATAGATAATAAA
* *
4406462 AATAT-ATAATTAAAT-ATATATAATAATA
1 AATATAATAATAAAATAATAGATAATAA-A
4406490 AATATA
1 AATATA
4406496 CTATTGGAAT
Statistics
Matches: 54, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
24 4 0.07
25 6 0.11
26 7 0.13
27 12 0.22
28 11 0.20
29 6 0.11
30 8 0.15
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (29 bp):
AATATAATAATAAAATAATAGATAATAAA
Found at i:4406495 original size:16 final size:16
Alignment explanation
Indices: 4406427--4406491 Score: 84
Period size: 16 Copynumber: 4.2 Consensus size: 16
4406417 TAAAATAAAG
4406427 TAAAAA-ATATAATAA
1 TAAAAATATATAATAA
4406442 TAAAAATA-ATAGATAA
1 TAAAAATATATA-ATAA
4406458 TAAAAATATATAAT--
1 TAAAAATATATAATAA
*
4406472 TAAATATATATAATAA
1 TAAAAATATATAATAA
4406488 TAAA
1 TAAA
4406492 TATACTATTG
Statistics
Matches: 44, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
14 13 0.30
15 9 0.20
16 19 0.43
17 3 0.07
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.31
Consensus pattern (16 bp):
TAAAAATATATAATAA
Found at i:4406992 original size:37 final size:37
Alignment explanation
Indices: 4406939--4407050 Score: 197
Period size: 37 Copynumber: 3.0 Consensus size: 37
4406929 ATGTTTATGG
* *
4406939 ATCCTATTTTTAGGAGTTTGAATCATAGTATAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAAAACTCT
*
4406976 ATTCTATTTTTAGGAGTTTGAATCCTAGTAAAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAAAACTCT
4407013 ATCCTATTTTTAGGAGTTTGAATCCTAGTAAAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAAAACTCT
4407050 A
1 A
4407051 ACGCTATGTT
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 71 1.00
ACGTcount: A:0.30, C:0.14, G:0.13, T:0.42
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGTAAAACTCT
Found at i:4411243 original size:99 final size:99
Alignment explanation
Indices: 4411072--4411253 Score: 303
Period size: 99 Copynumber: 1.8 Consensus size: 99
4411062 GCTCTAAATG
*
4411072 AAGGCATTAGTTTTACAAATGCTACAAACCTTTGTATAGAATGGTTTGTGCATTGTCGTACACCT
1 AAGGCATTAGTTTTACAAATACTACAAACCTTTGTATAGAATGGTTTGTGCATTGTCGTACACCT
4411137 ATTCTCTTTGCAATAGGTAAATCATCAGTATTCA
66 ATTCTCTTTGCAATAGGTAAATCATCAGTATTCA
* * *
4411171 AAGGCATTAGTTTT-CTATATACTACAAACCTTTGTATAGGATGGTTTGTGCATTGTCTTACACC
1 AAGGCATTAGTTTTAC-AAATACTACAAACCTTTGTATAGAATGGTTTGTGCATTGTCGTACACC
*
4411235 TTTTCTCTTTGCAATAGGT
65 TATTCTCTTTGCAATAGGT
4411254 TTGTGCATTG
Statistics
Matches: 77, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
98 1 0.01
99 76 0.99
ACGTcount: A:0.27, C:0.17, G:0.16, T:0.39
Consensus pattern (99 bp):
AAGGCATTAGTTTTACAAATACTACAAACCTTTGTATAGAATGGTTTGTGCATTGTCGTACACCT
ATTCTCTTTGCAATAGGTAAATCATCAGTATTCA
Found at i:4416213 original size:38 final size:37
Alignment explanation
Indices: 4416132--4416251 Score: 167
Period size: 33 Copynumber: 3.3 Consensus size: 37
4416122 CCCAAACTCG
*
4416132 AACCCGACCTGACCCGACCCGAATATCACACTTAAAA
1 AACCCGACCCGACCCGACCCGAATATCACACTTAAAA
* *
4416169 TA----ACCCGACCCGACCTGAATATCACACTTAAAAA
1 AACCCGACCCGACCCGACCCGAATATCACACTT-AAAA
*
4416203 AACCCGACCCGACTCGACCCGAATATCACACTTAAAA
1 AACCCGACCCGACCCGACCCGAATATCACACTTAAAA
4416240 AACCCGACCCGA
1 AACCCGACCCGA
4416252 ACAAAATAAA
Statistics
Matches: 72, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
33 25 0.35
34 5 0.07
37 17 0.24
38 25 0.35
ACGTcount: A:0.38, C:0.38, G:0.11, T:0.13
Consensus pattern (37 bp):
AACCCGACCCGACCCGACCCGAATATCACACTTAAAA
Found at i:4421939 original size:72 final size:72
Alignment explanation
Indices: 4421817--4421980 Score: 238
Period size: 72 Copynumber: 2.3 Consensus size: 72
4421807 TTAAATGACT
* * *
4421817 AAGGGTATCGATACCTCTAGGGGGTATCGGTACCCATTGGGCATTCTGTTTTTCTCGGATCAAAA
1 AAGGGTATCGGTACCTAT-GGGGGTATCGGTACCCATTGGGCATTCTGTTTTTCTCGGAGCAAAA
*
4421882 ATTAACAC
65 ATCAACAC
* * * *
4421890 AAGGGTATCGGTACCTATGGGGGTATCGGTACCCGTTTGGCATTTTGTTTTTCTCGGAGCCAAAA
1 AAGGGTATCGGTACCTATGGGGGTATCGGTACCCATTGGGCATTCTGTTTTTCTCGGAGCAAAAA
*
4421955 TCAACAT
66 TCAACAC
4421962 AAGGGTATCGGTACCTATG
1 AAGGGTATCGGTACCTATG
4421981 ACTTAGGTAT
Statistics
Matches: 82, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
72 66 0.80
73 16 0.20
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (72 bp):
AAGGGTATCGGTACCTATGGGGGTATCGGTACCCATTGGGCATTCTGTTTTTCTCGGAGCAAAAA
TCAACAC
Done.