Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, 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: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 37 of 160
Found at i:9020561 original size:31 final size:30
Alignment explanation
Indices: 9020513--9020572 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 30
9020503 ATTTTTTAAA
* *
9020513 TAATTTATTTATTAATGAGATGATATCATT
1 TAATTAATTTATTAATGAGATAATATCATT
*
9020543 TAATTAATTTAATTAATGAGTTAATATCAT
1 TAATTAATTT-ATTAATGAGATAATATCAT
9020573 ACAATTTACT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 9 0.35
31 17 0.65
ACGTcount: A:0.40, C:0.03, G:0.08, T:0.48
Consensus pattern (30 bp):
TAATTAATTTATTAATGAGATAATATCATT
Found at i:9025281 original size:3 final size:3
Alignment explanation
Indices: 9025273--9025303 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
9025263 AACCTAAAAC
9025273 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
9025304 GAAGGAGACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:9027047 original size:1 final size:1
Alignment explanation
Indices: 9027041--9027082 Score: 84
Period size: 1 Copynumber: 42.0 Consensus size: 1
9027031 ATTATTTAGG
9027041 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
9027083 CTAAAGATGT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 41 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:9028535 original size:24 final size:24
Alignment explanation
Indices: 9028503--9028549 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
9028493 TTGTATAATA
9028503 GATGAATCATTTGATCATACTTTT
1 GATGAATCATTTGATCATACTTTT
* *
9028527 GATGGATCATTTGATTATACTTT
1 GATGAATCATTTGATCATACTTT
9028550 CCGTTAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.28, C:0.11, G:0.15, T:0.47
Consensus pattern (24 bp):
GATGAATCATTTGATCATACTTTT
Found at i:9029951 original size:10 final size:10
Alignment explanation
Indices: 9029927--9029984 Score: 53
Period size: 10 Copynumber: 5.6 Consensus size: 10
9029917 TATGAAGGAG
*
9029927 AAAAATCAAT
1 AAAAATAAAT
*
9029937 TAAAATAAAT
1 AAAAATAAAT
*
9029947 AAAAATTATCAT
1 AAAAA-TA-AAT
*
9029959 AAAAATCAAT
1 AAAAATAAAT
*
9029969 TAAAATAAAT
1 AAAAATAAAT
9029979 AAAAAT
1 AAAAAT
9029985 TATCATGCAA
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
10 27 0.73
11 3 0.08
12 7 0.19
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (10 bp):
AAAAATAAAT
Found at i:9029960 original size:16 final size:16
Alignment explanation
Indices: 9029941--9029990 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
9029931 ATCAATTAAA
9029941 ATAAATAAAAATTATC
1 ATAAATAAAAATTATC
* **
9029957 ATAAA-AATCAATTAAA
1 ATAAATAA-AAATTATC
9029973 ATAAATAAAAATTATC
1 ATAAATAAAAATTATC
9029989 AT
1 AT
9029991 GCAAATAATA
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
15 2 0.08
16 22 0.85
17 2 0.08
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (16 bp):
ATAAATAAAAATTATC
Found at i:9029968 original size:32 final size:32
Alignment explanation
Indices: 9029927--9029990 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
9029917 TATGAAGGAG
9029927 AAAAATCAATTAAAATAAATAAAAATTATCAT
1 AAAAATCAATTAAAATAAATAAAAATTATCAT
9029959 AAAAATCAATTAAAATAAATAAAAATTATCAT
1 AAAAATCAATTAAAATAAATAAAAATTATCAT
9029991 GCAAATAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (32 bp):
AAAAATCAATTAAAATAAATAAAAATTATCAT
Found at i:9030055 original size:21 final size:20
Alignment explanation
Indices: 9029998--9030088 Score: 98
Period size: 20 Copynumber: 4.5 Consensus size: 20
9029988 CATGCAAATA
* *
9029998 ATATCATGCAAGAATATAAA
1 ATATCATGCAATAATATAAT
*
9030018 ATATCTTGCAATAATATAAT
1 ATATCATGCAATAATATAAT
9030038 ATATCATGCAATTAATATAAGT
1 ATATCATGCAA-TAATATAA-T
9030060 -TATCATGCAATTAAT-TAAT
1 ATATCATGCAA-TAATATAAT
*
9030079 A-ATCACGCAA
1 ATATCATGCAA
9030089 AAAAAATCAT
Statistics
Matches: 63, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
19 9 0.14
20 30 0.48
21 23 0.37
22 1 0.02
ACGTcount: A:0.47, C:0.12, G:0.08, T:0.33
Consensus pattern (20 bp):
ATATCATGCAATAATATAAT
Found at i:9030055 original size:41 final size:40
Alignment explanation
Indices: 9029998--9030088 Score: 105
Period size: 41 Copynumber: 2.3 Consensus size: 40
9029988 CATGCAAATA
*
9029998 ATATCATGCAAGAATATAAAATATCTTGCAA-TAATATAAT
1 ATATCATGCAAGAATATAAAATATCATGCAATTAAT-TAAT
* **
9030038 ATATCATGCAATTAATATAAGTTATCATGCAATTAATTAAT
1 ATATCATGCAA-GAATATAAAATATCATGCAATTAATTAAT
*
9030079 A-ATCACGCAA
1 ATATCATGCAA
9030089 AAAAAATCAT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
40 19 0.43
41 21 0.48
42 4 0.09
ACGTcount: A:0.47, C:0.12, G:0.08, T:0.33
Consensus pattern (40 bp):
ATATCATGCAAGAATATAAAATATCATGCAATTAATTAAT
Found at i:9030635 original size:19 final size:19
Alignment explanation
Indices: 9030616--9030673 Score: 57
Period size: 20 Copynumber: 3.0 Consensus size: 19
9030606 TCAAACTAAA
9030616 TCCAAAAAACCCAAAAAAAT
1 TCCAAAAAA-CCAAAAAAAT
*
9030636 TCCTAAAAACC-AAAAAAT
1 TCCAAAAAACCAAAAAAAT
*
9030654 T-CAATTTAAACCAAAAAAAT
1 TCCAA--AAAACCAAAAAAAT
9030674 ATAAAAAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
17 2 0.06
18 8 0.25
19 7 0.22
20 15 0.47
ACGTcount: A:0.62, C:0.21, G:0.00, T:0.17
Consensus pattern (19 bp):
TCCAAAAAACCAAAAAAAT
Found at i:9031260 original size:16 final size:15
Alignment explanation
Indices: 9031219--9031276 Score: 55
Period size: 16 Copynumber: 3.7 Consensus size: 15
9031209 TAATCTCACA
9031219 TTTTTATTTTTTTGT
1 TTTTTATTTTTTTGT
**
9031234 TTTTCCCTTTTTTTGT
1 TTTT-TATTTTTTTGT
9031250 TTTCTTA-TTTTTTGAT
1 TTT-TTATTTTTTTG-T
*
9031266 TTTTGATTTTT
1 TTTTTATTTTT
9031277 GATTTTTGAC
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
15 13 0.38
16 20 0.59
17 1 0.03
ACGTcount: A:0.07, C:0.07, G:0.07, T:0.79
Consensus pattern (15 bp):
TTTTTATTTTTTTGT
Found at i:9031274 original size:15 final size:15
Alignment explanation
Indices: 9031242--9031290 Score: 57
Period size: 14 Copynumber: 3.3 Consensus size: 15
9031232 GTTTTTCCCT
*
9031242 TTTTTTG-TTTTCTTA
1 TTTTTTGATTTT-TGA
9031257 TTTTTTGATTTTTGA
1 TTTTTTGATTTTTGA
9031272 -TTTTTGATTTTTGA
1 TTTTTTGATTTTTGA
9031286 CTTTT
1 -TTTT
9031291 GACCTTTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
14 14 0.47
15 9 0.30
16 7 0.23
ACGTcount: A:0.10, C:0.04, G:0.10, T:0.76
Consensus pattern (15 bp):
TTTTTTGATTTTTGA
Found at i:9031293 original size:7 final size:7
Alignment explanation
Indices: 9031258--9031292 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
9031248 GTTTTCTTAT
9031258 TTTTTGA
1 TTTTTGA
9031265 TTTTTGA
1 TTTTTGA
9031272 TTTTTGA
1 TTTTTGA
9031279 TTTTTGA
1 TTTTTGA
*
9031286 CTTTTGA
1 TTTTTGA
9031293 CCTTTTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.14, C:0.03, G:0.14, T:0.69
Consensus pattern (7 bp):
TTTTTGA
Found at i:9031372 original size:6 final size:5
Alignment explanation
Indices: 9031335--9031370 Score: 54
Period size: 5 Copynumber: 7.0 Consensus size: 5
9031325 AATTAAACTA
*
9031335 AAAAC AAAAT AAAAT AAAAT AAAAT AAAATT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA-T AAAAT
9031371 TAGAATCAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:9031794 original size:17 final size:17
Alignment explanation
Indices: 9031774--9032016 Score: 139
Period size: 17 Copynumber: 14.5 Consensus size: 17
9031764 TCAGATTCAT
*
9031774 AAGAATTTCAAGTTTGC
1 AAGAATTTCAAGTTCGC
* *
9031791 AAGAATTTCATGTTCGT
1 AAGAATTTCAAGTTCGC
**
9031808 AAGAATTT-AAGATTCAT
1 AAGAATTTCAAG-TTCGC
* *
9031825 AAGAATTT-TAGATTCAC
1 AAGAATTTCAAG-TTCGC
* *
9031842 AAGATTTTC-AGATTCAC
1 AAGAATTTCAAG-TTCGC
* *
9031859 AAGAA-TTCAGGTTTGC
1 AAGAATTTCAAGTTCGC
*
9031875 AAGAATTTCAGGTTCGTC
1 AAGAATTTCAAGTTCG-C
9031893 -AGAATTT-AAGGTTCGC
1 AAGAATTTCAA-GTTCGC
*
9031909 AAGAATTTC-AGATTCAC
1 AAGAATTTCAAG-TTCGC
* *
9031926 AAGATTTTC-AGATTCAC
1 AAGAATTTCAAG-TTCGC
*
9031943 AAGAA-TTCAGGTTCGC
1 AAGAATTTCAAGTTCGC
*
9031959 AAGAATTTCAA-TTTGC
1 AAGAATTTCAAGTTCGC
** *
9031975 AAG-ATTTTTAGATTCGT
1 AAGAATTTCAAG-TTCGC
* *
9031992 AAGAATTTCAGGTTCAC
1 AAGAATTTCAAGTTCGC
9032009 AAGAATTT
1 AAGAATTT
9032017 TAGATTCATA
Statistics
Matches: 182, Mismatches: 30, Indels: 28
0.76 0.12 0.12
Matches are distributed among these distances:
15 5 0.03
16 35 0.19
17 136 0.75
18 6 0.03
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (17 bp):
AAGAATTTCAAGTTCGC
Found at i:9031800 original size:34 final size:34
Alignment explanation
Indices: 9031762--9032016 Score: 168
Period size: 34 Copynumber: 7.6 Consensus size: 34
9031752 TTCGTGATAC
* *
9031762 TTTCAGATTCATAAGAATTTCAAGTTTGCAAGAA
1 TTTCAGATTCACAAGAATTTCAAGTTCGCAAGAA
** **
9031796 TTTCATG-TTCGTAAGAATTT-AAGATTCATAAGAA
1 TTTCA-GATTCACAAGAATTTCAAG-TTCGCAAGAA
* * *
9031830 TTTTAGATTCACAAGATTTTC-AGATTCACAAGAA
1 TTTCAGATTCACAAGAATTTCAAG-TTCGCAAGAA
* ** *
9031864 -TTCAGGTTTGCAAGAATTTCAGGTTCGTC-AGAA
1 TTTCAGATTCACAAGAATTTCAAGTTCG-CAAGAA
* * * * *
9031897 TTTAAGGTTCGCAAGAATTTC-AGATTCACAAGAT
1 TTTCAGATTCACAAGAATTTCAAG-TTCGCAAGAA
*
9031931 TTTCAGATTCACAAGAA-TTCAGGTTCGCAAGAA
1 TTTCAGATTCACAAGAATTTCAAGTTCGCAAGAA
** ** *
9031964 TTTCA-ATTTGCAAG-ATTTTTAGATTCGTAAGAA
1 TTTCAGATTCACAAGAATTTCAAG-TTCGCAAGAA
*
9031997 TTTCAGGTTCACAAGAATTT
1 TTTCAGATTCACAAGAATTT
9032017 TAGATTCATA
Statistics
Matches: 171, Mismatches: 36, Indels: 27
0.73 0.15 0.12
Matches are distributed among these distances:
31 1 0.01
32 10 0.06
33 58 0.34
34 97 0.57
35 5 0.03
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (34 bp):
TTTCAGATTCACAAGAATTTCAAGTTCGCAAGAA
Found at i:9031902 original size:84 final size:83
Alignment explanation
Indices: 9031762--9032049 Score: 355
Period size: 84 Copynumber: 3.4 Consensus size: 83
9031752 TTCGTGATAC
* * * *
9031762 TTTCAGATTCATAAGAATTTCAAGTTTGCAAGAATTTCATGTTCGTAAGAATTTAAGATTCATAA
1 TTTCAGATTCACAAGAA-TTCAAGTTCGCAAGAATTTCA-GTTCGTCAGAATTTAAGATTCGTAA
*
9031827 GAATTTTAGATTCACAAGAT
64 GAATTTCAGATTCACAAGAT
* * * *
9031847 TTTCAGATTCACAAGAATTCAGGTTTGCAAGAATTTCAGGTTCGTCAGAATTTAAGGTTCGCAAG
1 TTTCAGATTCACAAGAATTCAAGTTCGCAAGAATTTCA-GTTCGTCAGAATTTAAGATTCGTAAG
9031912 AATTTCAGATTCACAAGAT
65 AATTTCAGATTCACAAGAT
* * * * *
9031931 TTTCAGATTCACAAGAATTCAGGTTCGCAAGAATTTCAATTTG-CAAGATTTTTAGATTCGTAAG
1 TTTCAGATTCACAAGAATTCAAGTTCGCAAGAATTTCAGTTCGTC-AGAATTTAAGATTCGTAAG
*
9031995 AATTTCAGGTTCACAAGAAT
65 AATTTCAGATTCACAAG-AT
* * *
9032015 TTT-AGATTCATAGGAATTCAAGTTCGTAAGAATTT
1 TTTCAGATTCACAAGAATTCAAGTTCGCAAGAATTT
9032050 TAGATTATCA
Statistics
Matches: 181, Mismatches: 20, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
82 1 0.01
83 62 0.34
84 102 0.56
85 16 0.09
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (83 bp):
TTTCAGATTCACAAGAATTCAAGTTCGCAAGAATTTCAGTTCGTCAGAATTTAAGATTCGTAAGA
ATTTCAGATTCACAAGAT
Found at i:9031912 original size:50 final size:51
Alignment explanation
Indices: 9031792--9032022 Score: 204
Period size: 50 Copynumber: 4.6 Consensus size: 51
9031782 CAAGTTTGCA
* * * *** *
9031792 AGAATTTCATGTTCGTAAGAATTTAAGATTCATAAGAATTTT-AGATTC-AC
1 AGAATTTCAGGTTCGCAAGAATTTCAGATTTGCAAG-ATTTTCAGATTCGTC
* * * * * *
9031842 AAGATTTTCAGATTCACAAGAA-TTCAGGTTTGCAAGAATTTCAGGTTCGTC
1 -AGAATTTCAGGTTCGCAAGAATTTCAGATTTGCAAGATTTTCAGATTCGTC
* ** *
9031893 AGAATTTAAGGTTCGCAAGAATTTCAGATTCACAAGATTTTCAGATTC-AC
1 AGAATTTCAGGTTCGCAAGAATTTCAGATTTGCAAGATTTTCAGATTCGTC
* *
9031943 AAGAA-TTCAGGTTCGCAAGAATTTCA-ATTTGCAAGATTTTTAGATTCGTA
1 -AGAATTTCAGGTTCGCAAGAATTTCAGATTTGCAAGATTTTCAGATTCGTC
* *
9031993 AGAATTTCAGGTTCACAAGAATTTTAGATT
1 AGAATTTCAGGTTCGCAAGAATTTCAGATT
9032023 CATAGGAATT
Statistics
Matches: 142, Mismatches: 31, Indels: 14
0.76 0.17 0.07
Matches are distributed among these distances:
49 26 0.18
50 71 0.50
51 45 0.32
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (51 bp):
AGAATTTCAGGTTCGCAAGAATTTCAGATTTGCAAGATTTTCAGATTCGTC
Found at i:9032018 original size:34 final size:34
Alignment explanation
Indices: 9031791--9032055 Score: 216
Period size: 34 Copynumber: 7.9 Consensus size: 34
9031781 TCAAGTTTGC
* * *
9031791 AAGAATTTCATGTTCGTAAGAATTTAAGATTCAT
1 AAGAATTTCAGGTTCGCAAGAATTTTAGATTCAT
* * * *
9031825 AAGAATTTTAGATTCACAAG-ATTTTCAGATTCAC
1 AAGAATTTCAGGTTCGCAAGAATTTT-AGATTCAT
* * * *
9031859 AAGAA-TTCAGGTTTGCAAGAATTTCAGGTTCGT
1 AAGAATTTCAGGTTCGCAAGAATTTTAGATTCAT
* * * *
9031892 CAGAATTTAAGGTTCGCAAGAATTTCAGATTCAC
1 AAGAATTTCAGGTTCGCAAGAATTTTAGATTCAT
* * * * * **
9031926 AAGATTTTCAGATTCACAAGAA-TTCAGGTTCGC
1 AAGAATTTCAGGTTCGCAAGAATTTTAGATTCAT
* * * *
9031959 AAGAATTTCA-ATTTGCAAGATTTTTAGATTCGT
1 AAGAATTTCAGGTTCGCAAGAATTTTAGATTCAT
*
9031992 AAGAATTTCAGGTTCACAAGAATTTTAGATTCAT
1 AAGAATTTCAGGTTCGCAAGAATTTTAGATTCAT
* * *
9032026 AGGAA-TTCAAGTTCGTAAGAATTTTAGATT
1 AAGAATTTCAGGTTCGCAAGAATTTTAGATT
9032056 ATCAAGATTT
Statistics
Matches: 182, Mismatches: 44, Indels: 11
0.77 0.19 0.05
Matches are distributed among these distances:
32 8 0.04
33 81 0.45
34 93 0.51
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.35
Consensus pattern (34 bp):
AAGAATTTCAGGTTCGCAAGAATTTTAGATTCAT
Found at i:9032024 original size:17 final size:17
Alignment explanation
Indices: 9031808--9032068 Score: 151
Period size: 17 Copynumber: 15.6 Consensus size: 17
9031798 TCATGTTCGT
* *
9031808 AAGAATTTAAGATTCAT
1 AAGAATTTTAGATTCAC
9031825 AAGAATTTTAGATTCAC
1 AAGAATTTTAGATTCAC
9031842 AAG-ATTTTCAGATTCAC
1 AAGAATTTT-AGATTCAC
* * **
9031859 AAGAA-TTCAGGTTTGC
1 AAGAATTTTAGATTCAC
* * *
9031875 AAGAATTTCAGGTTCGTC
1 AAGAATTTTAGATTC-AC
* * *
9031893 -AGAATTTAAGGTTCGC
1 AAGAATTTTAGATTCAC
*
9031909 AAGAATTTCAGATTCAC
1 AAGAATTTTAGATTCAC
9031926 AAG-ATTTTCAGATTCAC
1 AAGAATTTT-AGATTCAC
* * *
9031943 AAGAA-TTCAGGTTCGC
1 AAGAATTTTAGATTCAC
* **
9031959 AAGAATTTCA-ATTTGC
1 AAGAATTTTAGATTCAC
* **
9031975 AAGATTTTTAGATTCGT
1 AAGAATTTTAGATTCAC
* *
9031992 AAGAATTTCAGGTTCAC
1 AAGAATTTTAGATTCAC
*
9032009 AAGAATTTTAGATTCAT
1 AAGAATTTTAGATTCAC
* ** **
9032026 AGGAATTCAAG-TTCGT
1 AAGAATTTTAGATTCAC
9032042 AAGAATTTTAGATT-ATC
1 AAGAATTTTAGATTCA-C
*
9032059 AAGATTTTTA
1 AAGAATTTTA
9032069 TATTGGTAAG
Statistics
Matches: 192, Mismatches: 41, Indels: 22
0.75 0.16 0.09
Matches are distributed among these distances:
16 55 0.29
17 134 0.70
18 3 0.02
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.35
Consensus pattern (17 bp):
AAGAATTTTAGATTCAC
Found at i:9032082 original size:50 final size:50
Alignment explanation
Indices: 9031766--9032084 Score: 155
Period size: 50 Copynumber: 6.3 Consensus size: 50
9031756 TGATACTTTC
* * ** *
9031766 AGATTCATAAGAATTTCAAGTTTGCAAGAATTTCATG-TTCGTAAGAATTTA
1 AGATTCATAAGAA-TTCAAGTTCGTAAGAATTTCA-GATTCACAAGAATTTT
** ** * *
9031817 AGATTCATAAGAATTTTAGATTCACAAGATTTTCAGATTCACAAGAA-TTC
1 AGATTCATAAGAATTCAAG-TTCGTAAGAATTTCAGATTCACAAGAATTTT
* *** * * * * * *
9031867 AGGTTTGCAAGAATTTCAGGTTCGTCAGAATTTAAGGTTCGCAAGAATTTC
1 AGATTCATAAGAA-TTCAAGTTCGTAAGAATTTCAGATTCACAAGAATTTT
* * ** * * *
9031918 AGATTCACAAGATTTTC-AGATTCACAAGAA-TTCAGGTTCGCAAGAATTTC
1 AGATTCATAAGA-ATTCAAG-TTCGTAAGAATTTCAGATTCACAAGAATTTT
*** * ** *
9031968 A-ATTTGCAAGATTTTTAGATTCGTAAGAATTTCAGGTTCACAAGAATTTT
1 AGATTCATAAGAATTCAAG-TTCGTAAGAATTTCAGATTCACAAGAATTTT
* * *
9032018 AGATTCATAGGAATTCAAGTTCGTAAGAATTTTAGATT-ATCAAGATTTTT
1 AGATTCATAAGAATTCAAGTTCGTAAGAATTTCAGATTCA-CAAGAATTTT
* **
9032068 ATATTGGTAAGAATTCA
1 AGATTCATAAGAATTCA
9032085 TTATTGTAAA
Statistics
Matches: 206, Mismatches: 52, Indels: 21
0.74 0.19 0.08
Matches are distributed among these distances:
48 3 0.01
49 20 0.10
50 115 0.56
51 68 0.33
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.36
Consensus pattern (50 bp):
AGATTCATAAGAATTCAAGTTCGTAAGAATTTCAGATTCACAAGAATTTT
Found at i:9032144 original size:21 final size:22
Alignment explanation
Indices: 9032118--9032174 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 22
9032108 AATTTTTAGG
* *
9032118 AATTCACATTCAAAATTTC-TA
1 AATTCACATTCAAAAATTCAAA
*
9032139 AATTCACA-TAAAAAATTCAAA
1 AATTCACATTCAAAAATTCAAA
*
9032160 AATTCACGTTCAAAA
1 AATTCACATTCAAAA
9032175 GATTTTTGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
20 8 0.28
21 16 0.55
22 5 0.17
ACGTcount: A:0.51, C:0.18, G:0.02, T:0.30
Consensus pattern (22 bp):
AATTCACATTCAAAAATTCAAA
Found at i:9032403 original size:46 final size:45
Alignment explanation
Indices: 9032350--9032476 Score: 146
Period size: 46 Copynumber: 2.8 Consensus size: 45
9032340 GGATTCACAC
* * *
9032350 CCAAAATTTCAAATATTCACATGTGAAAAATTTTAGTATTTGACAT
1 CCAAAATTTCAAAGATTCACAT-TCAAAAATTTTAGGATTTGACAT
* * * **
9032396 CCAAAATTTCAAAGGTTCTCATTCAAAGAATTTTAGGGTTTTCCAT
1 CCAAAATTTCAAAGATTCACATTCAAA-AATTTTAGGATTTGACAT
*
9032442 CTAAAATTTCAAAGATTCACATTCAATAAATTTTA
1 CCAAAATTTCAAAGATTCACATTCAA-AAATTTTA
9032477 TAGATTCACA
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
45 4 0.06
46 63 0.93
47 1 0.01
ACGTcount: A:0.39, C:0.15, G:0.09, T:0.37
Consensus pattern (45 bp):
CCAAAATTTCAAAGATTCACATTCAAAAATTTTAGGATTTGACAT
Found at i:9032497 original size:22 final size:21
Alignment explanation
Indices: 9032443--9032510 Score: 64
Period size: 24 Copynumber: 3.0 Consensus size: 21
9032433 GTTTTCCATC
*
9032443 TAAAATTTCAAAGATTCACAT
1 TAAAATTTTAAAGATTCACAT
*
9032464 TCAATAAATTTTATAGATTCACAAT
1 T--A-AAATTTTAAAGATTCAC-AT
* *
9032489 TAAAATTTTAAAAATTCTCAT
1 TAAAATTTTAAAGATTCACAT
9032510 T
1 T
9032511 CGAAAAACTT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
21 4 0.11
22 14 0.37
23 2 0.05
24 15 0.39
25 3 0.08
ACGTcount: A:0.46, C:0.12, G:0.03, T:0.40
Consensus pattern (21 bp):
TAAAATTTTAAAGATTCACAT
Found at i:9045237 original size:3 final size:3
Alignment explanation
Indices: 9045229--9045284 Score: 103
Period size: 3 Copynumber: 18.7 Consensus size: 3
9045219 TGCATAAAAT
*
9045229 TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
9045277 TTA TTA TT
1 TTA TTA TT
9045285 GTCGTAACAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:9046877 original size:9 final size:9
Alignment explanation
Indices: 9046863--9046891 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
9046853 AATTCTTCTA
9046863 TTTTATTTT
1 TTTTATTTT
9046872 TTTTA-TTT
1 TTTTATTTT
9046880 TTTTATTTT
1 TTTTATTTT
9046889 TTT
1 TTT
9046892 GTACGGTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.42
9 11 0.58
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (9 bp):
TTTTATTTT
Found at i:9046959 original size:17 final size:18
Alignment explanation
Indices: 9046937--9046983 Score: 53
Period size: 20 Copynumber: 2.6 Consensus size: 18
9046927 CGATTCTCTT
*
9046937 TTTTCTCTTT-TCTATCA
1 TTTTCTCTTTCCCTATCA
9046954 TTTTCTTTCTTTCCCTATCA
1 TTTTC--TCTTTCCCTATCA
9046974 TTTTC-CTTTC
1 TTTTCTCTTTC
9046984 TCTTTTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 10 0.38
19 5 0.19
20 11 0.42
ACGTcount: A:0.09, C:0.28, G:0.00, T:0.64
Consensus pattern (18 bp):
TTTTCTCTTTCCCTATCA
Found at i:9048843 original size:49 final size:48
Alignment explanation
Indices: 9048776--9048877 Score: 132
Period size: 48 Copynumber: 2.1 Consensus size: 48
9048766 GGAACTTAAA
** *
9048776 AAAAATCTTGTTTGAAAATGGCTTCCTTTAAACAGAGGCTTTGAAACTT
1 AAAAATCTTGTTTGAAAATGGC-TCCCCTAAACAGAGGCTTTAAAACTT
* * * *
9048825 TAAAATCTTGTTTTAAAATTGCTCCCCTAAATAGAGGCTTTAAAACTT
1 AAAAATCTTGTTTGAAAATGGCTCCCCTAAACAGAGGCTTTAAAACTT
9048873 AAAAA
1 AAAAA
9048878 AAAATCTTAT
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
48 26 0.58
49 19 0.42
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (48 bp):
AAAAATCTTGTTTGAAAATGGCTCCCCTAAACAGAGGCTTTAAAACTT
Found at i:9049102 original size:55 final size:56
Alignment explanation
Indices: 9048987--9049161 Score: 184
Period size: 51 Copynumber: 3.2 Consensus size: 56
9048977 ATAAATTGCG
* * * *
9048987 GCTTTGAAACTTTTTTTAAAAAAATCTTGTTTGAAAATTGCTCCCCCTAAACAGAG
1 GCTTTGAAACTTTTTTTAAAAAAATCTTGTTTAAAAATGGCTCCCCCTAAACAAAA
* * *
9049043 GCTTTGAAACTTTTTTT-TAAAAATCTTGTTTAAAAATGGCTCTTCCC-AAATAAAA
1 GCTTTGAAACTTTTTTTAAAAAAATCTTGTTTAAAAATGGCTC-CCCCTAAACAAAA
* * * * *
9049098 GCTTTGAAAC----TTT-AAAAAATCTTGTTTGAAAATTGTTCCCCCTAAACAGAG
1 GCTTTGAAACTTTTTTTAAAAAAATCTTGTTTAAAAATGGCTCCCCCTAAACAAAA
9049149 GCTTTGAAACTTT
1 GCTTTGAAACTTT
9049162 GAAATCTTAA
Statistics
Matches: 99, Mismatches: 15, Indels: 12
0.79 0.12 0.10
Matches are distributed among these distances:
50 3 0.03
51 39 0.39
55 37 0.37
56 20 0.20
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.37
Consensus pattern (56 bp):
GCTTTGAAACTTTTTTTAAAAAAATCTTGTTTAAAAATGGCTCCCCCTAAACAAAA
Found at i:9049212 original size:22 final size:22
Alignment explanation
Indices: 9049186--9049239 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
9049176 TTTTACTCGA
*
9049186 AGGTCTTACAGGTTATACCCGG
1 AGGTCTTACAGATTATACCCGG
* * *
9049208 AGGTCTTAAAGATTATGCCTGG
1 AGGTCTTACAGATTATACCCGG
9049230 AGGTCTTACA
1 AGGTCTTACA
9049240 AATCTCAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.30
Consensus pattern (22 bp):
AGGTCTTACAGATTATACCCGG
Found at i:9049336 original size:22 final size:22
Alignment explanation
Indices: 9049305--9049363 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
9049295 TAAAATATTT
* *
9049305 TACCTAGAGGTCTTAAGGATTA
1 TACCTGGAGGTCTTAAAGATTA
* *
9049327 TGCCTGGAGGTTTTAAAGATTA
1 TACCTGGAGGTCTTAAAGATTA
* *
9049349 TATCTGAAGGTCTTA
1 TACCTGGAGGTCTTA
9049364 TTAATCTCAA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.36
Consensus pattern (22 bp):
TACCTGGAGGTCTTAAAGATTA
Found at i:9049437 original size:126 final size:125
Alignment explanation
Indices: 9049144--9049454 Score: 324
Period size: 126 Copynumber: 2.5 Consensus size: 125
9049134 TCCCCCTAAA
* *
9049144 CAGAGGCTTTGAAACTTTGAAATCTTAAAATGTTTTA-CTCGAAGGTCTTACAGG-TTATACCCG
1 CAGAGGCTTTGAAACTTTGAAATTTTAAAATG-TTTACCTAG-AGGTCTTA-AGGATTATACCCG
* * *
9049207 GAGGTCTTAAAGATTATGCCTGGAGGTCTTACAAATCTCAAAATCTTTGAGTGTTCATTATAT
63 GAGGTCTTAAAGATTATACCTGAAGGTCTTACAAATCTCAAAATCTTTGAGTGCTCATTATAT
* * * * * *
9049270 CAAAGGCTTTGAAACTTTAAAAATTTAAAATATTTTACCTAGAGGTCTTAAGGATTATGCCTGGA
1 CAGAGGCTTTGAAACTTTGAAATTTTAAAAT-GTTTACCTAGAGGTCTTAAGGATTATACCCGGA
* * ** * * *
9049335 GGTTTTAAAGATTATATCTGAAGGTCTTATTAATCTCAACATCTTTGAGTGCTCCTTGCT-T
65 GGTCTTAAAGATTATACCTGAAGGTCTTACAAATCTCAAAATCTTTGAGTGCTCATT-ATAT
* * * * *
9049396 CAGAGG-TGTTGAAACTTTGAAATTTTAAAATGCTATGCCTAGAAGTCATAAAGATTATA
1 CAGAGGCT-TTGAAACTTTGAAATTTTAAAATG-TTTACCTAGAGGTCTTAAGGATTATA
9049455 TCATGAGGTT
Statistics
Matches: 151, Mismatches: 28, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
125 4 0.03
126 143 0.95
127 4 0.03
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.36
Consensus pattern (125 bp):
CAGAGGCTTTGAAACTTTGAAATTTTAAAATGTTTACCTAGAGGTCTTAAGGATTATACCCGGAG
GTCTTAAAGATTATACCTGAAGGTCTTACAAATCTCAAAATCTTTGAGTGCTCATTATAT
Found at i:9049588 original size:22 final size:22
Alignment explanation
Indices: 9049537--9049599 Score: 72
Period size: 22 Copynumber: 2.9 Consensus size: 22
9049527 AAATATTTTA
* *
9049537 CTTAGAGGTCTTAAAGATTATG
1 CTTAGAGATCTTAAAAATTATG
* *
9049559 CCTGGAGATCTTAAAAATTATG
1 CTTAGAGATCTTAAAAATTATG
* *
9049581 CTTAGAGATATTACAAATT
1 CTTAGAGATCTTAAAAATT
9049600 TCAAAATCTT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.35
Consensus pattern (22 bp):
CTTAGAGATCTTAAAAATTATG
Found at i:9049631 original size:230 final size:230
Alignment explanation
Indices: 9049229--9049657 Score: 587
Period size: 230 Copynumber: 1.9 Consensus size: 230
9049219 ATTATGCCTG
* *
9049229 GAGGTCTTACAAATCTCAAAATCTTTGAGTGTTCATTATATCAAAGGCTTTGAAACTTTAAAAAT
1 GAGGTCTTACAAATCTCAAAATCTTTGAATGTTCATTATATCAAAGGCATTGAAACTTTAAAAAT
* * * * * *
9049294 TTAAAATATTTTACCTAGAGGTCTTAAGGATTATGCCTGGAGGTTTTAAAGATTATATCTGAAGG
66 TTAAAATATTTTACCTAGAGGTCTTAAAGATTATGCCTGGAGATCTTAAAAATTATAGCTGAAGA
* ** * ** *
9049359 TCTTATTAATCTCAACATCTTTGAGTGCTCCTTGCTTCAGAGGTGTTGAAACTTTGAAAT-TTTA
131 TATTACAAATCTCAAAATCTTTGAGTGCTCCTTGCTTCAGAGGCATTAAAACTTT-AAATATTTA
9049423 AAATGCTATGCCTAGAAGTCATAAAGATTATATCAT
195 AAATGCTATGCCTAGAAGTCATAAAGATTATATCAT
* * * * *
9049459 GAGGTTTTACAAATCTCAAAGTCTTTGAATGTTCTTTATATCAAAGGCATTGAAACTTTGAAATT
1 GAGGTCTTACAAATCTCAAAATCTTTGAATGTTCATTATATCAAAGGCATTGAAACTTTAAAAAT
* *
9049524 TTAAAATATTTTACTTAGAGGTCTTAAAGATTATGCCTGGAGATCTTAAAAATTAT-GCTTAGAG
66 TTAAAATATTTTACCTAGAGGTCTTAAAGATTATGCCTGGAGATCTTAAAAATTATAGCTGA-AG
*
9049588 ATATTACAAATTTCAAAATCTTTGAGTGCTCC-T-CATATCAGAGGCATTAAAACTTTAAATATT
130 ATATTACAAATCTCAAAATCTTTGAGTGCTCCTTGC-T-TCAGAGGCATTAAAACTTTAAATATT
9049651 TAAAATG
193 TAAAATG
9049658 TTTTACTTGG
Statistics
Matches: 172, Mismatches: 23, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
228 1 0.01
229 9 0.05
230 162 0.94
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (230 bp):
GAGGTCTTACAAATCTCAAAATCTTTGAATGTTCATTATATCAAAGGCATTGAAACTTTAAAAAT
TTAAAATATTTTACCTAGAGGTCTTAAAGATTATGCCTGGAGATCTTAAAAATTATAGCTGAAGA
TATTACAAATCTCAAAATCTTTGAGTGCTCCTTGCTTCAGAGGCATTAAAACTTTAAATATTTAA
AATGCTATGCCTAGAAGTCATAAAGATTATATCAT
Found at i:9049654 original size:126 final size:126
Alignment explanation
Indices: 9049465--9049788 Score: 422
Period size: 126 Copynumber: 2.6 Consensus size: 126
9049455 TCATGAGGTT
* * * * * *
9049465 TTACAAATCTCAAAGTCTTTGAATGTTCTTTATATCAAAGGCATTGAAACTTTGAAAT-TTTAAA
1 TTACAAATTTCAAAATCTTTGAGTGCTCCTTATATCAGAGGCATTGAAACTTT-AAATATTTAAA
* * * *
9049529 ATATTTTACTTAGAGGTCTTAAAGATTATGC-CTGGA-GATCTTAAAAATTATG-CTTAGAGATA
65 ATGTTTTACTTAGAGATCTTAAAGATTATGCTC-CGATG-TCTTAAAAATTATGCCTGA-AGATA
* *
9049591 TTACAAATTTCAAAATCTTTGAGTGCTCCTCATATCAGAGGCATTAAAACTTTAAATATTTAAAA
1 TTACAAATTTCAAAATCTTTGAGTGCTCCTTATATCAGAGGCATTGAAACTTTAAATATTTAAAA
* * *
9049656 TGTTTTACTTGGAGATCTTAAAGATTATGCTCCGATGTCTTAAAGATTATGCCTGAAGATT
66 TGTTTTACTTAGAGATCTTAAAGATTATGCTCCGATGTCTTAAAAATTATGCCTGAAGATA
* * *
9049717 TTATAAATTTTAAAATCTTTGAGTGCTCCTTATATCAGAGGCATTGAAACTTTAAAAATTTAAAA
1 TTACAAATTTCAAAATCTTTGAGTGCTCCTTATATCAGAGGCATTGAAACTTTAAATATTTAAAA
9049782 TGTTTTA
66 TGTTTTA
9049789 TCCGGAGGTC
Statistics
Matches: 174, Mismatches: 20, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
125 4 0.02
126 165 0.95
127 5 0.03
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.39
Consensus pattern (126 bp):
TTACAAATTTCAAAATCTTTGAGTGCTCCTTATATCAGAGGCATTGAAACTTTAAATATTTAAAA
TGTTTTACTTAGAGATCTTAAAGATTATGCTCCGATGTCTTAAAAATTATGCCTGAAGATA
Found at i:9049680 original size:230 final size:230
Alignment explanation
Indices: 9049199--9049685 Score: 581
Period size: 230 Copynumber: 2.1 Consensus size: 230
9049189 TCTTACAGGT
* * * *
9049199 TATACCCGGAGGTCTTAAAGATTATGCCTGGAGGTCTTACAAATCTCAAAATCTTTGAGTGTTCA
1 TATACCTGGAGATCTTAAAGATTATGCATGGAGGTCTTACAAATCTCAAAATCTTTGAATGTTCA
* *
9049264 TTATATCAAAGGCTTTGAAACTTTAAAAATTTAAAATATTTTACCTAGAGGTCTTAAGGATTATG
66 TTATATCAAAGGCATTGAAACTTTAAAAATTTAAAATATTTTACCTAGAGGTCTTAAAGATTATG
* * * * * * ** *
9049329 CCTGGAGGTTTTAAAGATTATATCTGAAGGTCTTATTAATCTCAACATCTTTGAGTGCTCCTTGC
131 CCTGGAGATCTTAAAAATTATAGCTGAAGATATTACAAATCTCAAAATCTTTGAGTGCTCCTTGC
** *
9049394 TTCAGAGGTGTTGAAACTTTGAAATTTTAAAATGC
196 TTCAGAGGCATTAAAACTTTGAAATTTTAAAATGC
* * * * * *
9049429 TATGCCTAGA-AGTCATAAAGATTATATCAT-GAGGTTTTACAAATCTCAAAGTCTTTGAATGTT
1 TATACCTGGAGA-TCTTAAAGATTAT-GCATGGAGGTCTTACAAATCTCAAAATCTTTGAATGTT
* * * *
9049492 CTTTATATCAAAGGCATTGAAACTTTGAAATTTTAAAATATTTTACTTAGAGGTCTTAAAGATTA
64 CATTATATCAAAGGCATTGAAACTTTAAAAATTTAAAATATTTTACCTAGAGGTCTTAAAGATTA
* *
9049557 TGCCTGGAGATCTTAAAAATTAT-GCTTAGAGATATTACAAATTTCAAAATCTTTGAGTGCTCC-
129 TGCCTGGAGATCTTAAAAATTATAGCTGA-AGATATTACAAATCTCAAAATCTTTGAGTGCTCCT
*
9049620 T-CATATCAGAGGCATTAAAACTTT-AAATATTTAAAATGT
193 TGC-T-TCAGAGGCATTAAAACTTTGAAAT-TTTAAAATGC
* *
9049659 TTTACTTGGAGATCTTAAAGATTATGC
1 TATACCTGGAGATCTTAAAGATTATGC
9049686 TCCGATGTCT
Statistics
Matches: 213, Mismatches: 37, Indels: 15
0.80 0.14 0.06
Matches are distributed among these distances:
228 1 0.00
229 10 0.05
230 199 0.93
231 3 0.01
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (230 bp):
TATACCTGGAGATCTTAAAGATTATGCATGGAGGTCTTACAAATCTCAAAATCTTTGAATGTTCA
TTATATCAAAGGCATTGAAACTTTAAAAATTTAAAATATTTTACCTAGAGGTCTTAAAGATTATG
CCTGGAGATCTTAAAAATTATAGCTGAAGATATTACAAATCTCAAAATCTTTGAGTGCTCCTTGC
TTCAGAGGCATTAAAACTTTGAAATTTTAAAATGC
Found at i:9049869 original size:71 final size:71
Alignment explanation
Indices: 9049729--9049870 Score: 189
Period size: 71 Copynumber: 2.0 Consensus size: 71
9049719 ATAAATTTTA
* * *
9049729 AAATCTTTGAGTGCTCCTTATATCAGAGGCATTGAAACTTTAAAAATTTAAAATGTTTTATCCGG
1 AAATCTTTGAGTGCTCCTTATATCAGAGGCATTAAAACTTTAAAAATTTAAAATATTTTATCCGA
9049794 AGGTCT
66 AGGTCT
* * * *
9049800 AAATCTTTGAGTGCT-CTTCGTATTAGAGGCATTAAAATTTTGAAAATTTAAAATATTTTA-CCT
1 AAATCTTTGAGTGCTCCTT-ATATCAGAGGCATTAAAACTTTAAAAATTTAAAATATTTTATCC-
9049863 GAAGGTCT
64 GAAGGTCT
9049871 TAAAGATTAT
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
70 5 0.08
71 57 0.92
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.38
Consensus pattern (71 bp):
AAATCTTTGAGTGCTCCTTATATCAGAGGCATTAAAACTTTAAAAATTTAAAATATTTTATCCGA
AGGTCT
Found at i:9050856 original size:13 final size:13
Alignment explanation
Indices: 9050838--9050868 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
9050828 TTCTTCACTC
*
9050838 TTTTTTCTTTTAT
1 TTTTTTCTTTAAT
9050851 TTTTTTCTTTAAT
1 TTTTTTCTTTAAT
9050864 TTTTT
1 TTTTT
9050869 ATGAAAACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.10, C:0.06, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTTTCTTTAAT
Found at i:9056143 original size:21 final size:23
Alignment explanation
Indices: 9056119--9056161 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
9056109 CATTCAAAAA
9056119 AGAAAGAAAAA-A-TTTTTTTTG
1 AGAAAGAAAAACACTTTTTTTTG
*
9056140 AGAAGGAAAAACACTTTTTTTT
1 AGAAAGAAAAACACTTTTTTTT
9056162 TTATTACTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 10 0.53
22 1 0.05
23 8 0.42
ACGTcount: A:0.44, C:0.05, G:0.14, T:0.37
Consensus pattern (23 bp):
AGAAAGAAAAACACTTTTTTTTG
Found at i:9058645 original size:22 final size:22
Alignment explanation
Indices: 9058599--9058647 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
9058589 CTTCCTATTA
* *
9058599 TTTTTCTTCTTCTTTCTTTTTC
1 TTTTTATTCTTCTTTCTTTTCC
9058621 TTTTTATTCTTCTTT-TCTTTCC
1 TTTTTATTCTTCTTTCT-TTTCC
9058643 TTTTT
1 TTTTT
9058648 CTTGTTCGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 1 0.04
22 23 0.96
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (22 bp):
TTTTTATTCTTCTTTCTTTTCC
Found at i:9058645 original size:28 final size:28
Alignment explanation
Indices: 9058596--9058650 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
9058586 TTTCTTCCTA
*
9058596 TTATTTTTCTTCTTCTTTCTTTTTCTTT
1 TTATTCTTCTTCTTCTTTCTTTTTCTTT
9058624 TTATTCTTCTT-TTCTTTCCTTTTTCTT
1 TTATTCTTCTTCTTCTTT-CTTTTTCTT
9058651 GTTCGATGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 6 0.24
28 19 0.76
ACGTcount: A:0.04, C:0.20, G:0.00, T:0.76
Consensus pattern (28 bp):
TTATTCTTCTTCTTCTTTCTTTTTCTTT
Found at i:9059638 original size:3 final size:3
Alignment explanation
Indices: 9059630--9059661 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
9059620 AGTTATATAT
9059630 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
9059662 TTTTTGTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:9060188 original size:31 final size:31
Alignment explanation
Indices: 9060153--9060211 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
9060143 ATCCGACGAA
*
9060153 AATTCAGGC-AAAATTTGAATTTTCCGGCAAC
1 AATTCAGGCGAAAA-TTGAAGTTTCCGGCAAC
* *
9060184 AATTCCGGCGAACATTGAAGTTTCCGGC
1 AATTCAGGCGAAAATTGAAGTTTCCGGC
9060212 GACCAATCCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 21 0.88
32 3 0.12
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (31 bp):
AATTCAGGCGAAAATTGAAGTTTCCGGCAAC
Found at i:9060664 original size:8 final size:8
Alignment explanation
Indices: 9060653--9060691 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
9060643 TTTTTATTTC
9060653 TTTGTTTA
1 TTTGTTTA
9060661 TTTGTTTA
1 TTTGTTTA
9060669 --T-TTTA
1 TTTGTTTA
9060674 TTTGTTTA
1 TTTGTTTA
9060682 TTT-TTTA
1 TTTGTTTA
9060689 TTT
1 TTT
9060692 ATTAGATTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
5 4 0.14
6 1 0.04
7 8 0.29
8 15 0.54
ACGTcount: A:0.13, C:0.00, G:0.08, T:0.79
Consensus pattern (8 bp):
TTTGTTTA
Found at i:9060675 original size:13 final size:13
Alignment explanation
Indices: 9060644--9060685 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
9060634 TTTTTTTTTT
*
9060644 TTTTATTTCTTT-
1 TTTTATTTGTTTA
*
9060656 GTTTATTTGTTTA
1 TTTTATTTGTTTA
9060669 TTTTATTTGTTTA
1 TTTTATTTGTTTA
9060682 TTTT
1 TTTT
9060686 TTATTTATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
12 10 0.38
13 16 0.62
ACGTcount: A:0.12, C:0.02, G:0.07, T:0.79
Consensus pattern (13 bp):
TTTTATTTGTTTA
Found at i:9060953 original size:60 final size:59
Alignment explanation
Indices: 9060772--9061295 Score: 715
Period size: 60 Copynumber: 8.7 Consensus size: 59
9060762 AAAAAATTCT
9060772 AAAAAAATATATTTTTA-GGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAA-TTTC
1 AAAAAAA-ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC
* *
9060830 -CAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTTC
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT---AG--AAATAAATTTTC
9060893 AAAATAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC
1 AAAA-AAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC
* *
9060953 --AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAA-TTTC
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC
9061009 AAAAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTA-AGAATAAA-TTTC
1 -AAAAAAA-ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGA-AATAAATTTTC
* *
9061069 CAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC
*
9061128 AAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTCC
1 -AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT---AG--AAATAAATTTTC
* * * *
9061193 AAAAAAAGTATTTTTGGGGAAAAGTTAAAAGTATCAATTTTCCTT-GAAAATCAAAATTTC
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT-AAATTTTC
*
9061253 AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
9061296 NNNNNNNNNN
Statistics
Matches: 425, Mismatches: 18, Indels: 44
0.87 0.04 0.09
Matches are distributed among these distances:
56 12 0.03
57 81 0.19
58 47 0.11
59 21 0.05
60 153 0.36
62 9 0.02
63 6 0.01
64 44 0.10
65 52 0.12
ACGTcount: A:0.46, C:0.08, G:0.12, T:0.34
Consensus pattern (59 bp):
AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC
Found at i:9061134 original size:118 final size:117
Alignment explanation
Indices: 9060772--9061295 Score: 772
Period size: 118 Copynumber: 4.4 Consensus size: 117
9060762 AAAAAATTCT
9060772 AAAAAAATATATTTTTA-GGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAAA
1 AAAAAAA-ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAAA
*
9060836 ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTTC
65 ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT---AG-AAAATAAATTTCC
*
9060893 AAAATAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTCAAAAA
1 AAAA-AAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAAA
* *
9060958 ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAG-AAATAAATTTCA
65 ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAATAAATTTCC
9061010 AAAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTA-AGAATAAATTTCCAAAA
1 AAAAAAA-ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGA-AATAAATTTCC-AAA
*
9061074 AAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAATAAATTTCC
63 AAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAATAAATTTCC
9061128 AAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTCC
1 -AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT---AG--AAATAAATTTCC
*
9061193 AAAAAAAGTATTTTTGGGGAAAAGTTAAAAGTATCAATTTTCCTT-GAAAATCAAAATTT-C
60 -AAAAAA-TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAAT--AAATTTCC
*
9061253 AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
9061296 NNNNNNNNNN
Statistics
Matches: 376, Mismatches: 11, Indels: 29
0.90 0.03 0.07
Matches are distributed among these distances:
116 4 0.01
117 63 0.17
118 92 0.24
119 9 0.02
121 14 0.04
122 86 0.23
123 19 0.05
124 82 0.22
125 1 0.00
126 6 0.02
ACGTcount: A:0.46, C:0.08, G:0.12, T:0.34
Consensus pattern (117 bp):
AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAAAA
TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAATAAATTTCC
Found at i:9064401 original size:12 final size:11
Alignment explanation
Indices: 9064383--9064435 Score: 54
Period size: 11 Copynumber: 4.7 Consensus size: 11
9064373 ACTATGCTTG
9064383 AAAAAAAAAAT
1 AAAAAAAAAAT
9064394 ACAAAAAAAAAT
1 A-AAAAAAAAAT
9064406 AAAAAATAAAA-
1 AAAAAA-AAAAT
**
9064417 AAATGAAAAAT
1 AAAAAAAAAAT
*
9064428 GAAAAAAA
1 AAAAAAAA
9064436 TGGAAAAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
10 4 0.12
11 15 0.44
12 15 0.44
ACGTcount: A:0.85, C:0.02, G:0.04, T:0.09
Consensus pattern (11 bp):
AAAAAAAAAAT
Found at i:9064502 original size:7 final size:8
Alignment explanation
Indices: 9064399--9064509 Score: 111
Period size: 9 Copynumber: 13.2 Consensus size: 8
9064389 AAAATACAAA
9064399 AAAAAAT-
1 AAAAAATG
*
9064406 AAAAAATA
1 AAAAAATG
9064414 AAAAAATG
1 AAAAAATG
9064422 -AAAAATG
1 AAAAAATG
9064429 AAAAAAATGG
1 -AAAAAAT-G
9064439 AAAAAATG
1 AAAAAATG
9064447 -AAAAATG
1 AAAAAATG
9064454 ATGAAAAATG
1 A--AAAAATG
9064464 AAAAAATGG
1 AAAAAAT-G
9064473 AAAAAATGG
1 AAAAAAT-G
9064482 AAAAAATAG
1 AAAAAAT-G
*
9064491 AAAAAAAG
1 AAAAAATG
9064499 AAAAAAGTG
1 AAAAAA-TG
9064508 AA
1 AA
9064510 TGAAAAAGGA
Statistics
Matches: 91, Mismatches: 4, Indels: 16
0.82 0.04 0.14
Matches are distributed among these distances:
7 21 0.23
8 21 0.23
9 40 0.44
10 9 0.10
ACGTcount: A:0.74, C:0.00, G:0.14, T:0.12
Consensus pattern (8 bp):
AAAAAATG
Found at i:9065577 original size:41 final size:40
Alignment explanation
Indices: 9065521--9066419 Score: 1188
Period size: 41 Copynumber: 21.9 Consensus size: 40
9065511 GTCTAGGAGT
9065521 ATTTACTTTTCAAAGTTCGT-TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGTGCCTCTGTTTAGAGGAGCA
9065561 ATTTACTTTTTCAAAGTTCGT-TGCCTCTGTTTAGAGGAGCA
1 ATTTAC-TTTTCAAAG-TCGTGTGCCTCTGTTTAGAGGAGCA
*
9065602 ATTTATTTTTCAAAGTTCCGT-TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-T-CGTGTGCCTCTGTTTAGAGGAGCA
* * *
9065643 ATTTATTTTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCA
1 ATTTACTTTT-CAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
*
9065685 ATTTACTTTTCAAAGTTCGT-TGCCTCTGTTTAGAGGAGAA
1 ATTTACTTTTCAAAG-TCGTGTGCCTCTGTTTAGAGGAGCA
* *
9065725 ATTTACTTTCCAAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTACTTTTC-AAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
*
9065767 ATTTACTTTTCCAAGTTCGT-TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGTGCCTCTGTTTAGAGGAGCA
* *
9065807 ATTTACTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
*
9065848 ATTTACTTTTCCAAGTTCGT-TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGTGCCTCTGTTTAGAGGAGCA
*
9065888 ATTTATTTTTCAAAGTTTCGT-TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG--TCGTGTGCCTCTGTTTAGAGGAGCA
* * *
9065929 ATTTATTTTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCA
1 ATTTACTTTT-CAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
9065971 ATTTACTTTTCAAAGTTCGT-TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGTGCCTCTGTTTAGAGGAGCA
* *
9066011 ATTTACTTTCCAAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTACTTTTC-AAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
*
9066053 ATTTACTTTTCCAAGTTCGT-TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGTGCCTCTGTTTAGAGGAGCA
* * *
9066093 ATTTACTTTCCAAAGTCATGGTACCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
* *
9066134 ATTTACTTTTCCAAGTTCGT-TGCCTCTATTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGTGCCTCTGTTTAGAGGAGCA
* *
9066174 ATTTACTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
9066215 ATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTT-CAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
*
9066257 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCA
1 ATTTACTTTTCAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
9066298 ATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTT-CAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
*
9066340 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCA
1 ATTTACTTTTCAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
*
9066381 ATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGA
1 ATTTACTTTT-CAAAGTCGT-GTGCCTCTGTTTAGAGGA
9066420 ACTTCGGCAA
Statistics
Matches: 778, Mismatches: 51, Indels: 58
0.88 0.06 0.07
Matches are distributed among these distances:
39 11 0.01
40 214 0.28
41 302 0.39
42 251 0.32
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.38
Consensus pattern (40 bp):
ATTTACTTTTCAAAGTCGTGTGCCTCTGTTTAGAGGAGCA
Found at i:9066033 original size:286 final size:286
Alignment explanation
Indices: 9065521--9066419 Score: 1488
Period size: 286 Copynumber: 3.1 Consensus size: 286
9065511 GTCTAGGAGT
* * *
9065521 ATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCAATTTACTTTTTCAAAGTTCGTTG
1 ATTTACTTTCCAAAG-TCGTGGTACCTCTGTTTAGAGGAGCAATTTAC-TTTTCCAAGTTCGTTG
*
9065584 CCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTTCCGTTGCCTCTGTTTAGAGGAGCAATTTAT
64 CCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTTTCGTTGCCTCTGTTTAGAGGAGCAATTTAT
9065649 TTTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGT
129 TTTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGT
*
9065714 TTAGAGGAGAAATTTACTTTCCAAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCC
194 TTAGAGGAGCAATTTACTTTCCAAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCC
9065779 AAGTTCGTTGCCTCTGTTTAGAGGAGCA
259 AAGTTCGTTGCCTCTGTTTAGAGGAGCA
9065807 ATTTACTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCCAAGTTCGTTGCC
1 ATTTACTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCCAAGTTCGTTGCC
9065872 TCTGTTTAGAGGAGCAATTTATTTTTCAAAGTTTCGTTGCCTCTGTTTAGAGGAGCAATTTATTT
66 TCTGTTTAGAGGAGCAATTTATTTTTCAAAGTTTCGTTGCCTCTGTTTAGAGGAGCAATTTATTT
9065937 TTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTT
131 TTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTT
9066002 AGAGGAGCAATTTACTTTCCAAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCCAA
196 AGAGGAGCAATTTACTTTCCAAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCCAA
9066067 GTTCGTTGCCTCTGTTTAGAGGAGCA
261 GTTCGTTGCCTCTGTTTAGAGGAGCA
*
9066093 ATTTACTTTCCAAAGTCATGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCCAAGTTCGTTGCC
1 ATTTACTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCCAAGTTCGTTGCC
* * * * *
9066158 TCTATTTAGAGGAGCAATTTACTTTCCAAAG--TCGTGGTACCTCTGTTTAGAGGAGCAATTTAC
66 TCTGTTTAGAGGAGCAATTTATTTTTCAAAGTTTCGT--TGCCTCTGTTTAGAGGAGCAATTTAT
* *
9066221 TTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAG-TCGTGGTGCCTCT
129 TTTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTTCGT--TGCCTCT
* *
9066285 GTTGAGAGGAGCAATTTACTTTTCC-AAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTT
192 GTTTAGAGGAGCAATTTAC-TTTCCAAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTT
* *
9066349 TCAAAG-TCGTGGTGCCTCTGTTGAGAGGAGCA
256 TCCAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
* *
9066381 ATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGA
1 ATTTA-CTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGA
9066420 ACTTCGGCAA
Statistics
Matches: 583, Mismatches: 20, Indels: 17
0.94 0.03 0.03
Matches are distributed among these distances:
284 4 0.01
285 8 0.01
286 419 0.72
287 93 0.16
288 29 0.05
289 30 0.05
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.38
Consensus pattern (286 bp):
ATTTACTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCCAAGTTCGTTGCC
TCTGTTTAGAGGAGCAATTTATTTTTCAAAGTTTCGTTGCCTCTGTTTAGAGGAGCAATTTATTT
TTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTT
AGAGGAGCAATTTACTTTCCAAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCCAA
GTTCGTTGCCTCTGTTTAGAGGAGCA
Found at i:9066468 original size:28 final size:28
Alignment explanation
Indices: 9066427--9066549 Score: 171
Period size: 28 Copynumber: 4.3 Consensus size: 28
9066417 GGAACTTCGG
9066427 CAAAAAAAA-AAAAAACAAAACAAAAAA
1 CAAAAAAAACAAAAAACAAAACAAAAAA
9066454 CAAAAAAAACAAAAAACAAAACAAAAAA
1 CAAAAAAAACAAAAAACAAAACAAAAAA
*
9066482 CAAAAATAAAAAAAAAACAAAA-AACAAAA
1 CAAAAA-AAACAAAAAACAAAACAA-AAAA
9066511 -AACAAAAAACAAAAAACAAAAAACAAAAAA
1 CAA-AAAAAACAAAAAAC--AAAACAAAAAA
9066541 CAAAAAAAA
1 CAAAAAAAA
9066550 ATTTTAAAAA
Statistics
Matches: 86, Mismatches: 2, Indels: 13
0.85 0.02 0.13
Matches are distributed among these distances:
27 9 0.10
28 38 0.44
29 21 0.24
30 14 0.16
31 4 0.05
ACGTcount: A:0.87, C:0.12, G:0.00, T:0.01
Consensus pattern (28 bp):
CAAAAAAAACAAAAAACAAAACAAAAAA
Found at i:9066565 original size:1 final size:1
Alignment explanation
Indices: 9066428--9066550 Score: 111
Period size: 1 Copynumber: 123.0 Consensus size: 1
9066418 GAACTTCGGC
* * * * * * * *
9066428 AAAAAAAAAAAAAACAAAACAAAAAACAAAAAAAACAAAAAACAAAACAAAAAACAAAAATAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * * *
9066493 AAAAAACAAAAAACAAAAAACAAAAAACAAAAAACAAAAAACAAAAAACAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
9066551 TTTTAAAAAA
Statistics
Matches: 92, Mismatches: 30, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 92 1.00
ACGTcount: A:0.88, C:0.11, G:0.00, T:0.01
Consensus pattern (1 bp):
A
Found at i:9066579 original size:21 final size:20
Alignment explanation
Indices: 9066428--9066550 Score: 150
Period size: 21 Copynumber: 6.2 Consensus size: 20
9066418 GAACTTCGGC
9066428 AAAAAAAA-AAAAAACAAAA
1 AAAAAAAACAAAAAACAAAA
9066447 CAAAAAACAA-AAAAAAC-AAA
1 -AAAAAA-AACAAAAAACAAAA
*
9066467 AAACAAAACAAAAAAC--AA
1 AAAAAAAACAAAAAACAAAA
*
9066485 AAATAAAA-AAAAAACAAAA
1 AAAAAAAACAAAAAACAAAA
9066504 AACAAAAAACAAAAAACAAAA
1 AA-AAAAAACAAAAAACAAAA
9066525 AACAAAAAACAAAAAACAAAA
1 AA-AAAAAACAAAAAACAAAA
9066546 AAAAA
1 AAAAA
9066551 TTTTAAAAAA
Statistics
Matches: 94, Mismatches: 3, Indels: 12
0.86 0.03 0.11
Matches are distributed among these distances:
17 7 0.07
18 11 0.12
19 16 0.17
20 17 0.18
21 43 0.46
ACGTcount: A:0.88, C:0.11, G:0.00, T:0.01
Consensus pattern (20 bp):
AAAAAAAACAAAAAACAAAA
Found at i:9066580 original size:14 final size:13
Alignment explanation
Indices: 9066430--9066579 Score: 149
Period size: 14 Copynumber: 10.8 Consensus size: 13
9066420 ACTTCGGCAA
9066430 AAAAAAAAAAAAC
1 AAAAAAAAAAAAC
9066443 AAAACAAAAAACAA-
1 AAAA-AAAAAA-AAC
9066457 AAAAAACAAAAAAC
1 AAAAAA-AAAAAAC
*
9066471 AAAACAAAAAACAAA
1 AAAA-AAAAAA-AAC
9066486 AATAAAAAAAAAAC
1 AA-AAAAAAAAAAC
9066500 AAAAAACAAAAAAC
1 AAAAAA-AAAAAAC
9066514 AAAAAACAAAAAAC
1 AAAAAA-AAAAAAC
9066528 AAAAAACAAAAAAC
1 AAAAAA-AAAAAAC
****
9066542 AAAAAAAAATTTT
1 AAAAAAAAAAAAC
*
9066555 AAAAAAAAAAATC
1 AAAAAAAAAAAAC
9066568 AAAAAATAAAAA
1 AAAAAA-AAAAA
9066580 TGTTGAGTTG
Statistics
Matches: 119, Mismatches: 9, Indels: 17
0.82 0.06 0.12
Matches are distributed among these distances:
13 31 0.26
14 72 0.61
15 14 0.12
16 2 0.02
ACGTcount: A:0.85, C:0.10, G:0.00, T:0.05
Consensus pattern (13 bp):
AAAAAAAAAAAAC
Found at i:9066784 original size:3 final size:3
Alignment explanation
Indices: 9066763--9066800 Score: 53
Period size: 3 Copynumber: 13.0 Consensus size: 3
9066753 TCCTCTTTTG
9066763 TAT T-T TAT GTAT T-T TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
9066801 GTATATCTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
2 4 0.12
3 25 0.78
4 3 0.09
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:9067428 original size:31 final size:31
Alignment explanation
Indices: 9067379--9067437 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
9067369 ATCCGACGAA
* *
9067379 AATTCAGGCGAAATTTGAATTTTTCGGCAAC
1 AATTCAGGCGAAATTTGAAGTTTCCGGCAAC
*
9067410 AATTCCGGCGAACA-TTGAAGTTTCCGGC
1 AATTCAGGCGAA-ATTTGAAGTTTCCGGC
9067438 GACCAGTCCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 23 0.96
32 1 0.04
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (31 bp):
AATTCAGGCGAAATTTGAAGTTTCCGGCAAC
Found at i:9067889 original size:8 final size:8
Alignment explanation
Indices: 9067878--9067904 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
9067868 TTTTAATTTC
9067878 TTTGTTTA
1 TTTGTTTA
9067886 TTTGTTTA
1 TTTGTTTA
9067894 TTTGTTTA
1 TTTGTTTA
9067902 TTT
1 TTT
9067905 TATTTTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.11, C:0.00, G:0.11, T:0.78
Consensus pattern (8 bp):
TTTGTTTA
Found at i:9067917 original size:16 final size:16
Alignment explanation
Indices: 9067860--9067919 Score: 54
Period size: 16 Copynumber: 3.8 Consensus size: 16
9067850 CCGCTCCAGG
*
9067860 TTTTTT-TTT-TTTAA
1 TTTTTTGTTTATTTTA
9067874 TTTCTTTGTTTATTTGT-
1 TTT-TTTGTTTATTT-TA
*
9067891 TTATTTGTTTATTTTA
1 TTTTTTGTTTATTTTA
*
9067907 TTTTTTATTTATT
1 TTTTTTGTTTATT
9067920 AGATTAGGTT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
14 3 0.08
15 4 0.11
16 25 0.68
17 5 0.14
ACGTcount: A:0.13, C:0.02, G:0.05, T:0.80
Consensus pattern (16 bp):
TTTTTTGTTTATTTTA
Found at i:9068359 original size:59 final size:59
Alignment explanation
Indices: 9067998--9068639 Score: 880
Period size: 60 Copynumber: 10.7 Consensus size: 59
9067988 AAAAAATTCT
9067998 AAAAAAATATATTTTTA-GGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
1 AAAAAAA-ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
* *
9068057 --AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTTC
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT---AG--AAATAAATTTCC
*
9068119 AAAATAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC
1 AAAA-AAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
* * *
9068179 --AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTCA
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
*
9068236 AAAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCGATTTTCCTTA-AGAATAAATTTCC
1 AAAAAAA-ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGA-AATAAATTTCC
9068296 -AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
9068354 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTCC
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT---AG--AAATAAATTTCC
* *
9068418 AAAAAAAGTATTTTTAGGGAAAAGTTAAAAGTATCAATTTTCCTT-GAAAATCAAAATTT-C
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT--AAATTTCC
* *
9068478 AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
9068537 AAAAAAAA-AGGTTTTT-GAGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCGAAATTTCC
1 AAAAAAAATA--TTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT--AAATTTCC
9068599 --AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
9068640 CTACAAAAAA
Statistics
Matches: 533, Mismatches: 18, Indels: 64
0.87 0.03 0.10
Matches are distributed among these distances:
56 8 0.02
57 84 0.16
58 58 0.11
59 104 0.20
60 152 0.29
61 8 0.02
62 22 0.04
64 57 0.11
65 40 0.08
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.34
Consensus pattern (59 bp):
AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
Found at i:9070456 original size:31 final size:31
Alignment explanation
Indices: 9070418--9070482 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
9070408 TAGGCTATTA
*
9070418 AATATGAATGATGAGTCTAGCAATAATGTCT
1 AATATGAATGATGAGTCTAACAATAATGTCT
9070449 AATATGAATGATGAGTCTAACAATAATGTCT
1 AATATGAATGATGAGTCTAACAATAATGTCT
9070480 AAT
1 AAT
9070483 TTTTAGGCTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.42, C:0.09, G:0.17, T:0.32
Consensus pattern (31 bp):
AATATGAATGATGAGTCTAACAATAATGTCT
Found at i:9071719 original size:2 final size:2
Alignment explanation
Indices: 9071712--9071737 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9071702 ATCCAAAAAG
9071712 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
9071738 TTAGCTTCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9072075 original size:12 final size:12
Alignment explanation
Indices: 9072058--9072083 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9072048 TTGCTTTCCT
9072058 TTTTTTTGTTTC
1 TTTTTTTGTTTC
9072070 TTTTTTTGTTTC
1 TTTTTTTGTTTC
9072082 TT
1 TT
9072084 ACTCTTCCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.08, T:0.85
Consensus pattern (12 bp):
TTTTTTTGTTTC
Found at i:9074608 original size:12 final size:11
Alignment explanation
Indices: 9074592--9074665 Score: 55
Period size: 11 Copynumber: 6.5 Consensus size: 11
9074582 TTTTATATTT
9074592 TAAATATAAAA
1 TAAATATAAAA
9074603 TTAAATATATATAA
1 -TAAATATA-A-AA
*
9074617 AAATATATAAAAA
1 TAA-ATAT-AAAA
*
9074630 TAAATATGAAA
1 TAAATATAAAA
9074641 TAAATA-AATAA
1 TAAATATAA-AA
9074652 TAAA-A-AAAA
1 TAAATATAAAA
9074661 TAAAT
1 TAAAT
9074666 TTTTTTATAT
Statistics
Matches: 52, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
9 6 0.12
10 4 0.08
11 15 0.29
12 12 0.23
13 7 0.13
14 7 0.13
15 1 0.02
ACGTcount: A:0.70, C:0.00, G:0.01, T:0.28
Consensus pattern (11 bp):
TAAATATAAAA
Found at i:9074615 original size:27 final size:26
Alignment explanation
Indices: 9074552--9074636 Score: 68
Period size: 26 Copynumber: 3.2 Consensus size: 26
9074542 AAAATTAATA
*
9074552 AAATATTATTTTTTAAAATATAAAAT
1 AAATATTATATTTTAAAATATAAAAT
* *
9074578 ATTATTTTATATTTT-AAATATAAAATT
1 A-AATATTATATTTTAAAATATAAAA-T
**
9074605 AAATA-TATA-TAAAAATATATAAAAAT
1 AAATATTATATTTTAAA-ATAT-AAAAT
9074631 AAATAT
1 AAATAT
9074637 GAAATAAATA
Statistics
Matches: 46, Mismatches: 7, Indels: 11
0.72 0.11 0.17
Matches are distributed among these distances:
24 1 0.02
25 6 0.13
26 23 0.50
27 16 0.35
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (26 bp):
AAATATTATATTTTAAAATATAAAAT
Found at i:9074622 original size:10 final size:10
Alignment explanation
Indices: 9074613--9074665 Score: 63
Period size: 10 Copynumber: 5.2 Consensus size: 10
9074603 TTAAATATAT
*
9074613 ATAAAAATAT
1 ATAAAAATAA
9074623 ATAAAAATAA
1 ATAAAAATAA
*
9074633 ATATGAAATAA
1 ATA-AAAATAA
9074644 ATAAATAATAA
1 ATAAA-AATAA
9074655 A-AAAAATAA
1 ATAAAAATAA
9074664 AT
1 AT
9074666 TTTTTTATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
9 6 0.16
10 16 0.43
11 15 0.41
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.25
Consensus pattern (10 bp):
ATAAAAATAA
Found at i:9074647 original size:15 final size:16
Alignment explanation
Indices: 9074625--9074665 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
9074615 AAAAATATAT
*
9074625 AAAAATAAAT-ATGAA
1 AAAAATAAATAATAAA
*
9074640 ATAAATAAATAATAAA
1 AAAAATAAATAATAAA
9074656 AAAAATAAAT
1 AAAAATAAAT
9074666 TTTTTTATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (16 bp):
AAAAATAAATAATAAA
Found at i:9082774 original size:2 final size:2
Alignment explanation
Indices: 9082767--9082801 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
9082757 TAAATCCCTT
9082767 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9082802 GAATGGTTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9084103 original size:296 final size:290
Alignment explanation
Indices: 9083575--9084160 Score: 1091
Period size: 296 Copynumber: 2.0 Consensus size: 290
9083565 AGACTAAAAA
9083575 ATAAAAGTTTTATGAAAAATGTTAATGAAAATATGATGACAAAATAACTCATATCCAATGAATTT
1 ATAAAAGTTTTATGAAAAATGTTAATGAAAATATGATGACAAAATAACTCATATCCAATGAATTT
9083640 TAATTTGTCAATATTCACTTGATTTTTTTTTTTTAATTTGGATTCGAATAAGGTTTTTTTCTCAA
66 TAATTTGTCAATATTCACTTGATTTTTTTTTTTTAATTTGGATTCGAATAAGGTTTTTTTCTCAA
9083705 AAATTGGAGTGAGGTTGTATGAAGCTTTATGGTATTTCACCCCATCCAGTATATATAAATATATG
131 AAATTGGAGTGAGGTTGTATGAAGCTTTATGGTATTTCACCCCATCCAGTATATATAAATATATG
9083770 TTTTATTATTTATTTAAAGTTATATTTATATATGTATTATATTAATAAAATTATTATTTAATATC
196 TTTTATTATTTATTTAAAGTTATATTTATATATGTATTATATTAATAAAATTATTATTTAATATC
9083835 TTAATTTAATAATCCATGTGCTATCCTCAT
261 TTAATTTAATAATCCATGTGCTATCCTCAT
9083865 ATAAAAGTTTTATGAAAAATGTTAATGAAAATATGATGACAAAATAACTCATATCCAATGAATTT
1 ATAAAAGTTTTATGAAAAATGTTAATGAAAATATGATGACAAAATAACTCATATCCAATGAATTT
*
9083930 TAATTTGTCAATATTCACTTGATGTTTTTTTTTTTTTTTTAATTTGGATTCGAATCAGGTTTTTT
66 TAATTTGTCAATATTCACTTGA------TTTTTTTTTTTTAATTTGGATTCGAATAAGGTTTTTT
* *
9083995 TCTCAAAAATTGGAGTGAGGTTGTATGAAGGTTTATGGTATTTCACCCCATCCAGTATATATAAC
125 TCTCAAAAATTGGAGTGAGGTTGTATGAAGCTTTATGGTATTTCACCCCATCCAGTATATATAAA
9084060 TATATGTTTTATTATTTATTTAAAGTTATATTTATATATGTATTATATTAATAAAATTATTATTT
190 TATATGTTTTATTATTTATTTAAAGTTATATTTATATATGTATTATATTAATAAAATTATTATTT
9084125 AATATCTTAATTTAATAATCCATGTGCTATCCTCAT
255 AATATCTTAATTTAATAATCCATGTGCTATCCTCAT
9084161 TTGGCTAATA
Statistics
Matches: 287, Mismatches: 3, Indels: 6
0.97 0.01 0.02
Matches are distributed among these distances:
290 87 0.30
296 200 0.70
ACGTcount: A:0.35, C:0.09, G:0.11, T:0.45
Consensus pattern (290 bp):
ATAAAAGTTTTATGAAAAATGTTAATGAAAATATGATGACAAAATAACTCATATCCAATGAATTT
TAATTTGTCAATATTCACTTGATTTTTTTTTTTTAATTTGGATTCGAATAAGGTTTTTTTCTCAA
AAATTGGAGTGAGGTTGTATGAAGCTTTATGGTATTTCACCCCATCCAGTATATATAAATATATG
TTTTATTATTTATTTAAAGTTATATTTATATATGTATTATATTAATAAAATTATTATTTAATATC
TTAATTTAATAATCCATGTGCTATCCTCAT
Found at i:9084211 original size:18 final size:18
Alignment explanation
Indices: 9084166--9084225 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
9084156 CTCATTTGGC
*
9084166 TAATATTTTCTTTTTTTTT
1 TAATATTTT-ATTTTTTTT
**
9084185 TCGTCATTTTATTTTTTTT
1 TAAT-ATTTTATTTTTTTT
* *
9084204 TAATATTTTAATATTTTT
1 TAATATTTTATTTTTTTT
9084222 TAAT
1 TAAT
9084226 TAGATAAATT
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
18 16 0.48
19 12 0.36
20 5 0.15
ACGTcount: A:0.22, C:0.05, G:0.02, T:0.72
Consensus pattern (18 bp):
TAATATTTTATTTTTTTT
Found at i:9085226 original size:12 final size:12
Alignment explanation
Indices: 9085209--9085235 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
9085199 AATTGTTTGC
9085209 TTTTTGTCTTTT
1 TTTTTGTCTTTT
9085221 TTTTTGTCTTTT
1 TTTTTGTCTTTT
9085233 TTT
1 TTT
9085236 AATTAAATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.00, C:0.07, G:0.07, T:0.85
Consensus pattern (12 bp):
TTTTTGTCTTTT
Found at i:9087446 original size:2 final size:2
Alignment explanation
Indices: 9087439--9087473 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
9087429 CTATCTTTGG
*
9087439 AT AT AT AT AT AT AT AT AT AT AT AA AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9087474 AAAGAGGTAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:9096410 original size:38 final size:38
Alignment explanation
Indices: 9096366--9096481 Score: 223
Period size: 38 Copynumber: 3.1 Consensus size: 38
9096356 ATTTCTCAAG
9096366 TAAAATTTATGCTTTGCGTTTTGCTTTATAATATGATT
1 TAAAATTTATGCTTTGCGTTTTGCTTTATAATATGATT
9096404 TAAAATTTATGCTTTGCGTTTTGCTTTATAATATGATT
1 TAAAATTTATGCTTTGCGTTTTGCTTTATAATATGATT
*
9096442 TAAAATTTATGCTTTGCTTTTTGCTTTATAATATGATT
1 TAAAATTTATGCTTTGCGTTTTGCTTTATAATATGATT
9096480 TA
1 TA
9096482 TCAGTTTCGA
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
38 77 1.00
ACGTcount: A:0.27, C:0.08, G:0.12, T:0.53
Consensus pattern (38 bp):
TAAAATTTATGCTTTGCGTTTTGCTTTATAATATGATT
Found at i:9096847 original size:2 final size:2
Alignment explanation
Indices: 9096840--9096877 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
9096830 CATGTATTAG
9096840 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9096878 ATTTTTAACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9097371 original size:1 final size:1
Alignment explanation
Indices: 9097365--9097393 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
9097355 CCCTTCCCAA
9097365 CCCCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCC
9097394 AACCCTTTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:9101436 original size:21 final size:20
Alignment explanation
Indices: 9101406--9101444 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
9101396 TGATATTAAT
*
9101406 AAAATAATTTATCAATTATG
1 AAAATAATTTATAAATTATG
9101426 AAAATTAATTTATAAATTA
1 AAAA-TAATTTATAAATTA
9101445 CATAATACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (20 bp):
AAAATAATTTATAAATTATG
Found at i:9104621 original size:21 final size:20
Alignment explanation
Indices: 9104578--9104641 Score: 69
Period size: 21 Copynumber: 3.2 Consensus size: 20
9104568 TTATTTCTCT
*
9104578 AAAAT-CCTTAATCCAAAATG
1 AAAATCCCTTAA-CTAAAATG
*
9104598 AAAATCCCTTAACTGAAATCG
1 AAAATCCCTTAACTAAAAT-G
*
9104619 AAAATCCTTTAACTAAAAT-
1 AAAATCCCTTAACTAAAATG
9104638 AAAA
1 AAAA
9104642 AATCTCTTAC
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
19 4 0.11
20 10 0.26
21 24 0.63
ACGTcount: A:0.52, C:0.19, G:0.05, T:0.25
Consensus pattern (20 bp):
AAAATCCCTTAACTAAAATG
Found at i:9104643 original size:21 final size:21
Alignment explanation
Indices: 9104598--9104650 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
9104588 ATCCAAAATG
* **
9104598 AAAATCCCTTAACTGAAATCG
1 AAAATCCCTTAACTAAAATAA
*
9104619 AAAATCCTTTAACTAAAATAA
1 AAAATCCCTTAACTAAAATAA
*
9104640 AAAATCTCTTA
1 AAAATCCCTTA
9104651 CTCTCGATCA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.49, C:0.19, G:0.04, T:0.28
Consensus pattern (21 bp):
AAAATCCCTTAACTAAAATAA
Found at i:9105463 original size:15 final size:15
Alignment explanation
Indices: 9105423--9105464 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
9105413 TTATTAACAA
9105423 TTTTGTATTAATTTT
1 TTTTGTATTAATTTT
* *
9105438 TGTTGGA-TAATTTT
1 TTTTGTATTAATTTT
*
9105452 TTTTTTATTAATT
1 TTTTGTATTAATT
9105465 AATTATGATT
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
14 11 0.52
15 10 0.48
ACGTcount: A:0.21, C:0.00, G:0.10, T:0.69
Consensus pattern (15 bp):
TTTTGTATTAATTTT
Found at i:9105562 original size:29 final size:29
Alignment explanation
Indices: 9105445--9105567 Score: 88
Period size: 29 Copynumber: 4.1 Consensus size: 29
9105435 TTTTGTTGGA
* *
9105445 TAATTTTTTTTTTATTAATTAATTATGAT
1 TAATTATTTTTTTATTAATTAATTATTAT
* *
9105474 TAATT-TTGTTTTAATTAATTACTT-TTAT
1 TAATTATT-TTTTTATTAATTAATTATTAT
** ** * * *
9105502 TAATTAATAATTTTAGGGAAATGAGTTAATTAA
1 TAATT-ATTTTTTTA--TTAATTAATT-ATTAT
9105535 TAATTATTTTTTTATTAATTAATTATTAT
1 TAATTATTTTTTTATTAATTAATTATTAT
9105564 TAAT
1 TAAT
9105568 ATTATTTGTA
Statistics
Matches: 69, Mismatches: 18, Indels: 14
0.68 0.18 0.14
Matches are distributed among these distances:
28 10 0.14
29 31 0.45
30 7 0.10
31 6 0.09
32 7 0.10
33 8 0.12
ACGTcount: A:0.36, C:0.01, G:0.06, T:0.58
Consensus pattern (29 bp):
TAATTATTTTTTTATTAATTAATTATTAT
Found at i:9109485 original size:144 final size:144
Alignment explanation
Indices: 9109248--9109599 Score: 422
Period size: 144 Copynumber: 2.5 Consensus size: 144
9109238 CCTAAGCTTA
**
9109248 GATTTTCATGAAACTTTTCAGAT-TTAATTTCATAATATTTTATGATTTTTTGTGCATTTGAAAT
1 GATTTTCATGAAACTTTTCAGATCTTAATTTCATAATATTTTATGATTTTTTAAGCATTTGAAAT
* * * * * * * * *
9109312 TATAGCATTACCTCGAGAACTGTGAAATTACCAAAATGCCATTTAGGGGTAATTTCGTAATTTAT
66 CATAGCAGTACCCCAAAAACTATGAAATTACCAAAATACCATTTAGGGGTAATTTCATAATTTAC
9109377 CCTTCTTGAGCTCG
131 CCTTCTTGAGCTCG
* * * *
9109391 GATTTTCATGAAACTATCCAGATCATAATTTCATAATATTTCATGATTTTTTAAGCATTTGAAAT
1 GATTTTCATGAAACTTTTCAGATCTTAATTTCATAATATTTTATGATTTTTTAAGCATTTGAAAT
* * * * *
9109456 CATAGCAGTACCCCAAAAAGTATGAAATTACCAAAATACCCTTTAGGGGTATTTTTATAATTTGC
66 CATAGCAGTACCCCAAAAACTATGAAATTACCAAAATACCATTTAGGGGTAATTTCATAATTTAC
* * *
9109521 CCTTTTTGAGTTTG
131 CCTTCTTGAGCTCG
* * * * *
9109535 GATTTTCATGAAATTTTTTAGA-CTTGAATTTTATAATATTTTATGATTTTTGAAGC-TTTAAAA
1 GATTTTCATGAAACTTTTCAGATCTT-AATTTCATAATATTTTATGATTTTTTAAGCATTTGAAA
9109598 TC
65 TC
9109600 TCAAAAATGA
Statistics
Matches: 175, Mismatches: 32, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
143 31 0.18
144 144 0.82
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (144 bp):
GATTTTCATGAAACTTTTCAGATCTTAATTTCATAATATTTTATGATTTTTTAAGCATTTGAAAT
CATAGCAGTACCCCAAAAACTATGAAATTACCAAAATACCATTTAGGGGTAATTTCATAATTTAC
CCTTCTTGAGCTCG
Found at i:9110233 original size:16 final size:17
Alignment explanation
Indices: 9110214--9110254 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
9110204 AGAAATAGAG
9110214 AAAAAAATGAAAG-CTA
1 AAAAAAATGAAAGACTA
9110230 AAAAAGAA-GAAAGACTA
1 AAAAA-AATGAAAGACTA
9110247 AAAAAAAT
1 AAAAAAAT
9110255 AACAAGAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 12 0.55
17 10 0.45
ACGTcount: A:0.73, C:0.05, G:0.12, T:0.10
Consensus pattern (17 bp):
AAAAAAATGAAAGACTA
Found at i:9111877 original size:3 final size:3
Alignment explanation
Indices: 9111869--9111905 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
9111859 TGCAATAAAC
9111869 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
9111906 TATGCAATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:9115212 original size:59 final size:58
Alignment explanation
Indices: 9115138--9115356 Score: 302
Period size: 59 Copynumber: 3.7 Consensus size: 58
9115128 TTTTTTGTAG
*
9115138 GGAAAATTGATACTTTCAACTTTTCCCCAAAAA-TATTTTTTGGAAATTTCGATTT-TCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAACTATTTTTTGAAAATTT--ATTTCT-AA
*
9115197 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCT-TTTTTTGAAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAA--CTATTTTTTGAAAATTTATTTCTAA
* * *
9115256 AGAAAATTGATACTTTCAACTTTTCCTCAAAAAACCTTTTTTTTGAAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCC-CCAAAAA-CTATTTTTTGAAAATTTATTTCTAA
9115316 GGAAAATTGATACTTTCAACTTTTCCCCAAAAA-TATTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAACTATTTTTT
9115357 TTTGGAAATT
Statistics
Matches: 146, Mismatches: 8, Indels: 14
0.87 0.05 0.08
Matches are distributed among these distances:
57 7 0.05
59 72 0.49
60 53 0.36
61 13 0.09
62 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.07, T:0.42
Consensus pattern (58 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAACTATTTTTTGAAAATTTATTTCTAA
Found at i:9115321 original size:60 final size:59
Alignment explanation
Indices: 9115138--9115373 Score: 316
Period size: 60 Copynumber: 3.9 Consensus size: 59
9115128 TTTTTTGTAG
* * *
9115138 GGAAAATTGATACTTTCAACTTTTCC-CCAAAAA-TATTTTTTGGAAATTTCGATTT-TCAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAACTTTTTTTTGAAAATTT--ATTTCT-AA
* *
9115197 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTGAAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAACTTTTTTTTGAAAATTTATTTCTAA
*
9115256 AGAAAATTGATACTTTCAACTTTTCCTCAAAAAACCTTTTTTTTGAAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAA-CTTTTTTTTGAAAATTTATTTCTAA
* * *
9115316 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGGAAATTTACTTTC
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAA-ACTTTTTTTTGAAAATTTA-TTTC
9115374 AACTTTTTCC
Statistics
Matches: 159, Mismatches: 12, Indels: 10
0.88 0.07 0.06
Matches are distributed among these distances:
59 64 0.40
60 77 0.48
61 18 0.11
ACGTcount: A:0.34, C:0.16, G:0.08, T:0.43
Consensus pattern (59 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAAACTTTTTTTTGAAAATTTATTTCTAA
Found at i:9115407 original size:39 final size:40
Alignment explanation
Indices: 9115317--9115411 Score: 131
Period size: 41 Copynumber: 2.4 Consensus size: 40
9115307 TATTTCTAAG
9115317 GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTT
1 GAAAATT--TACTTTCAACTTTTCCCCAAAAATA-TTTTTTTT
* *
9115360 GGAAATTTACTTTCAACTTTTTCCCAAAAATA-TTTTTTT
1 GAAAATTTACTTTCAACTTTTCCCCAAAAATATTTTTTTT
9115399 GAAAATTTA-TTTC
1 GAAAATTTACTTTC
9115412 TAAGGAGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
38 4 0.08
39 15 0.31
41 24 0.49
43 6 0.12
ACGTcount: A:0.33, C:0.15, G:0.05, T:0.47
Consensus pattern (40 bp):
GAAAATTTACTTTCAACTTTTCCCCAAAAATATTTTTTTT
Found at i:9115417 original size:99 final size:99
Alignment explanation
Indices: 9115257--9115471 Score: 301
Period size: 99 Copynumber: 2.1 Consensus size: 99
9115247 TATTTCTAAA
9115257 GAAAATTGATACTTTCAACTTTTCCTCAAAAAACCTTTTTTTTGAAAATTTATTTCTAAGGAAAA
1 GAAAATT--TACTTTCAACTTTTCCTCAAAAAA-C-TTTTTTTGAAAATTTATTTCTAAGGAAAA
* *
9115322 TTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTT
62 TTGATACTTTCAACTTTTCCCCAAAAACACTTTTTTTT
* *
9115360 GGAAATTTACTTTCAACTTTTTCC-CAAAAATA-TTTTTTTGAAAATTTATTTCTAAGGAGAATT
1 GAAAATTTACTTTCAAC-TTTTCCTCAAAAA-ACTTTTTTTGAAAATTTATTTCTAAGGAAAATT
* *
9115423 GATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTT
64 GATACTTTCAACTTTTCCCCAAAAACACTTTTTTTT
9115459 GAAAATTTA-TTTC
1 GAAAATTTACTTTC
9115472 TAAGGAAAAT
Statistics
Matches: 103, Mismatches: 7, Indels: 9
0.87 0.06 0.08
Matches are distributed among these distances:
98 4 0.04
99 70 0.68
101 16 0.16
102 7 0.07
103 6 0.06
ACGTcount: A:0.33, C:0.15, G:0.07, T:0.45
Consensus pattern (99 bp):
GAAAATTTACTTTCAACTTTTCCTCAAAAAACTTTTTTTGAAAATTTATTTCTAAGGAAAATTGA
TACTTTCAACTTTTCCCCAAAAACACTTTTTTTT
Found at i:9115543 original size:59 final size:59
Alignment explanation
Indices: 9115367--9115642 Score: 349
Period size: 60 Copynumber: 4.6 Consensus size: 59
9115357 TTTGGAAATT
* * *
9115367 TACTTTCAACTTTTTCCCAAAAATA-TTTTTTTGAAAATTTATTTCTAAGGAGAATTGA
1 TACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAATTTATTTCTAAGGAAAATTGA
* ** *
9115425 TACTTTCAACTTTTCCTCAAAAACCCTTTTTTTTGAAAATTTATTTCTAAGGAAAATTGA
1 TACTTTCAACTTTTCCCCAAAAA-TATTTTTTTTGGAAATTTATTTCTAAGGAAAATTGA
*
9115485 TACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAATTTATTTTTAAGGAAAATTGA
1 TACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAATTTATTTCTAAGGAAAATTGA
* ** * *
9115544 TACTTTCAACTTTTCCTCAAAAACCCTTTTTTTT-GAAACTTTGATTTCCAAGAAAAATTGA
1 TACTTTCAACTTTTCCCCAAAAA-TATTTTTTTTGGAAA-TTT-ATTTCTAAGGAAAATTGA
* * *
9115605 TACGTTCAAATTTTCCCTAAAAATATTTTTTTTTGGAA
1 TACTTTCAACTTTTCCCCAAAAATA-TTTTTTTTGGAA
9115643 TTTTTTATTT
Statistics
Matches: 189, Mismatches: 22, Indels: 10
0.86 0.10 0.05
Matches are distributed among these distances:
58 21 0.11
59 58 0.31
60 65 0.34
61 42 0.22
62 3 0.02
ACGTcount: A:0.33, C:0.15, G:0.08, T:0.44
Consensus pattern (59 bp):
TACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAATTTATTTCTAAGGAAAATTGA
Found at i:9115544 original size:119 final size:120
Alignment explanation
Indices: 9115367--9115642 Score: 439
Period size: 119 Copynumber: 2.3 Consensus size: 120
9115357 TTTGGAAATT
* * *
9115367 TACTTTCAACTTTTTCCCAAAAATA-TTTTTTTGAAAATTTATTTCTAAGGAGAATTGATACTTT
1 TACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAATTTATTTCTAAGGAAAATTGATACTTT
* *
9115431 CAACTTTTCCTCAAAAACCCTTTTTTTTGAAAATTT-ATTTCTAAGGAAAATTGA
66 CAACTTTTCCTCAAAAACCCTTTTTTTTGAAAATTTGATTTCCAAGAAAAATTGA
*
9115485 TACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAATTTATTTTTAAGGAAAATTGATACTTT
1 TACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAATTTATTTCTAAGGAAAATTGATACTTT
*
9115550 CAACTTTTCCTCAAAAACCCTTTTTTTTGAAACTTTGATTTCCAAGAAAAATTGA
66 CAACTTTTCCTCAAAAACCCTTTTTTTTGAAAATTTGATTTCCAAGAAAAATTGA
* * *
9115605 TACGTTCAAATTTTCCCTAAAAATATTTTTTTTTGGAA
1 TACTTTCAACTTTTCCCCAAAAATA-TTTTTTTTGGAA
9115643 TTTTTTATTT
Statistics
Matches: 145, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
118 24 0.17
119 71 0.49
120 38 0.26
121 12 0.08
ACGTcount: A:0.33, C:0.15, G:0.08, T:0.44
Consensus pattern (120 bp):
TACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAATTTATTTCTAAGGAAAATTGATACTTT
CAACTTTTCCTCAAAAACCCTTTTTTTTGAAAATTTGATTTCCAAGAAAAATTGA
Found at i:9115576 original size:218 final size:217
Alignment explanation
Indices: 9115148--9115578 Score: 688
Period size: 218 Copynumber: 2.0 Consensus size: 217
9115138 GGAAAATTGA
*
9115148 TACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTCGATTTTCAAGGAAAATTGATACTTT
1 TACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTC-ATTTTCAAGGAAAATTGATACTTT
9115213 CAACTTTTCCTCAAAAACCCTTTTTTTGAAAATTTATTTCTAAAGAAAATTGATACTTTCAACTT
65 CAACTTTTCCTCAAAAACCCTTTTTTTGAAAATTTATTTCTAAAGAAAATTGATACTTTCAACTT
*
9115278 TTCCTCAAAAAACCTTTTTTTTGAAAATTTATTTCTAAGGAAAATTGATACTTTCAACTTTTCCC
130 TTCCCCAAAAAA-CTTTTTTTTGAAAATTTATTTCTAAGGAAAATTGATACTTTCAACTTTTCCC
* *
9115343 CAAAAATATTTTTTTTTGGAAATT
194 CAAAAACACTTTTTTTTGGAAATT
* *
9115367 TACTTTCAACTTTTTCCCAAAAATATTTTTTTGAAAATTT-A-TTTCTAAGGAGAATTGATACTT
1 TACTTTCAACTTTTCCCCAAAAATA-TTTTTTGAAAATTTCATTTTC-AAGGAAAATTGATACTT
*
9115430 TCAACTTTTCCTCAAAAACCCTTTTTTTTGAAAATTTATTTCTAAGGAAAATTGATACTTTCAAC
64 TCAACTTTTCCTCAAAAACCC-TTTTTTTGAAAATTTATTTCTAAAGAAAATTGATACTTTCAAC
* *
9115495 TTTTCCCCAAAAATA-TTTTTTTTGGAAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTC
128 TTTTCCCCAAAAA-ACTTTTTTTTGAAAATTTATTTCTAAGGAAAATTGATACTTTCAACTTTTC
* *
9115559 CTCAAAAACCCTTTTTTTTG
192 CCCAAAAACACTTTTTTTTG
9115579 AAACTTTGAT
Statistics
Matches: 197, Mismatches: 11, Indels: 9
0.91 0.05 0.04
Matches are distributed among these distances:
217 4 0.02
218 101 0.51
219 78 0.40
220 14 0.07
ACGTcount: A:0.33, C:0.16, G:0.07, T:0.44
Consensus pattern (217 bp):
TACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTCATTTTCAAGGAAAATTGATACTTTC
AACTTTTCCTCAAAAACCCTTTTTTTGAAAATTTATTTCTAAAGAAAATTGATACTTTCAACTTT
TCCCCAAAAAACTTTTTTTTGAAAATTTATTTCTAAGGAAAATTGATACTTTCAACTTTTCCCCA
AAAACACTTTTTTTTGGAAATT
Found at i:9115691 original size:6 final size:6
Alignment explanation
Indices: 9115663--9115745 Score: 64
Period size: 6 Copynumber: 13.5 Consensus size: 6
9115653 TTATTTAAAG
*
9115663 AAAATA GAATAATA AAAAGA AAAATA AAAATA AAAATA AATAA-A AAAAGT-
1 AAAATA -AA-AATA AAAATA AAAATA AAAATA AAAATA AA-AATA AAAA-TA
* * *
9115713 AAAACA GAAATA AAAA-A TAAAATA AAGATA AAA
1 AAAATA AAAATA AAAATA -AAAATA AAAATA AAA
9115746 TGAATATTAG
Statistics
Matches: 61, Mismatches: 8, Indels: 15
0.73 0.10 0.18
Matches are distributed among these distances:
5 3 0.05
6 47 0.77
7 7 0.11
8 4 0.07
ACGTcount: A:0.78, C:0.01, G:0.06, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:9115729 original size:31 final size:30
Alignment explanation
Indices: 9115663--9115738 Score: 89
Period size: 30 Copynumber: 2.4 Consensus size: 30
9115653 TTATTTAAAG
*
9115663 AAAATAGAATAATAAAAAGAAAAATAAAAATA
1 AAAATA-AATAA-AAAAAGAAAAACAAAAATA
* *
9115695 AAAATAAATAAAAAAAGTAAAACAGAAATAA
1 AAAATAAATAAAAAAAGAAAAACAAAAAT-A
9115726 AAAATAAAATAAA
1 AAAAT-AAATAAA
9115739 GATAAAATGA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
30 15 0.38
31 11 0.28
32 13 0.33
ACGTcount: A:0.79, C:0.01, G:0.05, T:0.14
Consensus pattern (30 bp):
AAAATAAATAAAAAAAGAAAAACAAAAATA
Found at i:9115778 original size:4 final size:4
Alignment explanation
Indices: 9115769--9115802 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
9115759 AACCTAATCT
9115769 AATA AATA AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AATA AA
9115803 AAAAAACCTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:9116668 original size:18 final size:18
Alignment explanation
Indices: 9116642--9116681 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
9116632 ATTAGAAAAA
9116642 ATAAGAAAAAAAAATCAG
1 ATAAGAAAAAAAAATCAG
* **
9116660 ATAATAAAAAAGGATCAG
1 ATAAGAAAAAAAAATCAG
9116678 ATAA
1 ATAA
9116682 AATTAACAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.68, C:0.05, G:0.12, T:0.15
Consensus pattern (18 bp):
ATAAGAAAAAAAAATCAG
Found at i:9117113 original size:8 final size:8
Alignment explanation
Indices: 9117101--9117141 Score: 55
Period size: 8 Copynumber: 4.9 Consensus size: 8
9117091 CATTTTTTAT
9117101 TTTTTGTTG
1 TTTTT-TTG
9117110 TTTTTTTG
1 TTTTTTTG
9117118 TTTTTTTG
1 TTTTTTTG
*
9117126 TTTTTATTA
1 TTTTT-TTG
9117135 TTTTTTT
1 TTTTTTT
9117142 TTGGTTTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
8 18 0.60
9 12 0.40
ACGTcount: A:0.05, C:0.00, G:0.10, T:0.85
Consensus pattern (8 bp):
TTTTTTTG
Found at i:9117122 original size:19 final size:19
Alignment explanation
Indices: 9117093--9117150 Score: 61
Period size: 17 Copynumber: 3.2 Consensus size: 19
9117083 AACATTGTCA
*
9117093 TTTT-TTATTTTTTGTTG-
1 TTTTATTATTTTTTTTTGT
*
9117110 TTTT-TT-TGTTTTTTTGT
1 TTTTATTATTTTTTTTTGT
9117127 TTTTATTATTTTTTTTTGGT
1 TTTTATTATTTTTTTTT-GT
9117147 TTTT
1 TTTT
9117151 TAACCAAAGC
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
16 8 0.24
17 10 0.29
18 2 0.06
19 8 0.24
20 6 0.18
ACGTcount: A:0.05, C:0.00, G:0.10, T:0.84
Consensus pattern (19 bp):
TTTTATTATTTTTTTTTGT
Found at i:9117129 original size:25 final size:25
Alignment explanation
Indices: 9117093--9117141 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
9117083 AACATTGTCA
* *
9117093 TTTTTTATTTTTTGTTGTTTTTTTG
1 TTTTTTATTTTTTATTATTTTTTTG
9117118 TTTTTT-TGTTTTTATTATTTTTTT
1 TTTTTTAT-TTTTTATTATTTTTTT
9117142 TTGGTTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 1 0.05
25 20 0.95
ACGTcount: A:0.06, C:0.00, G:0.08, T:0.86
Consensus pattern (25 bp):
TTTTTTATTTTTTATTATTTTTTTG
Found at i:9117138 original size:16 final size:15
Alignment explanation
Indices: 9117094--9117140 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 15
9117084 ACATTGTCAT
9117094 TTTTTATTTTTTGTTG
1 TTTTTATTTTTT-TTG
*
9117110 TTTTTTTGTTTTTTTG
1 TTTTTAT-TTTTTTTG
9117126 TTTTTATTATTTTTT
1 TTTTTATT-TTTTTT
9117141 TTTGGTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 1 0.04
16 21 0.78
17 5 0.19
ACGTcount: A:0.06, C:0.00, G:0.09, T:0.85
Consensus pattern (15 bp):
TTTTTATTTTTTTTG
Found at i:9117294 original size:81 final size:81
Alignment explanation
Indices: 9117162--9117713 Score: 922
Period size: 81 Copynumber: 6.8 Consensus size: 81
9117152 AACCAAAGCT
*
9117162 AGAGGCACCACGACTTTGG-AACTAAATTGCTCCTCTAAACAGAGGCAACGAAC-TTGGAAAGTA
1 AGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGGAAAGTA
*
9117225 AATTGCTCCTCTAAAT
66 AATTGCTCCTCTAAAC
* * *
9117241 AGAGGTACCACGACTTTAGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGT
1 AGAGGCACCACGACTTT-GGAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGGAAAGT
9117306 AAATTGCTCCTCTAAAC
65 AAATTGCTCCTCTAAAC
* *
9117323 AGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACAACG-ACTTTGAAAAG
1 AGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGG--CAACGAACTTTGGAAAG
9117387 TAAATTGCTCCTCTAAAC
64 TAAATTGCTCCTCTAAAC
9117405 AGAGGCACCACGACTTT-GAAAGTAAATTGCTCCTCTAAACAGAGGCAACG-ACTTTGGAAAAGT
1 AGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGG-AAAGT
9117468 AAATTGCTCCTCTAAAC
65 AAATTGCTCCTCTAAAC
*
9117485 AGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTA
1 AGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGGAAAGTA
9117550 AATTGCTCCTCTAAAC
66 AATTGCTCCTCTAAAC
9117566 AGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCAACG-ACTTTGGAAAGTA
1 AGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGGAAAGTA
9117630 AATTGCTCCTCTAAAC
66 AATTGCTCCTCTAAAC
9117646 AGAGGCA--ACGAACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGGAAAAG
1 AGAGGCACCACG-ACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGG-AAAG
9117709 TAAAT
64 TAAAT
9117714 ACTCCTAGAC
Statistics
Matches: 452, Mismatches: 10, Indels: 20
0.94 0.02 0.04
Matches are distributed among these distances:
78 3 0.01
79 66 0.15
80 82 0.18
81 204 0.45
82 92 0.20
83 5 0.01
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (81 bp):
AGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGGAAAGTA
AATTGCTCCTCTAAAC
Found at i:9117314 original size:40 final size:39
Alignment explanation
Indices: 9117162--9117713 Score: 804
Period size: 40 Copynumber: 13.7 Consensus size: 39
9117152 AACCAAAGCT
* *
9117162 AGAGGCACCACGACTTTG-GAACTAAATTGCTCCTCTAAAC
1 AGAGGCA--ACGACTTTGAAAAGTAAATTGCTCCTCTAAAC
* *
9117202 AGAGGCAACGAAC-TTGGAAAGTAAATTGCTCCTCTAAAT
1 AGAGGCAACG-ACTTTGAAAAGTAAATTGCTCCTCTAAAC
*
9117241 AGAGGTACCACGACTTTAGAAAAGTAAATTGCTCCTCTAAAC
1 AGAGG--CAACGACTTT-GAAAAGTAAATTGCTCCTCTAAAC
9117283 AGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAAC
1 AGAGGCAACG-ACTTTGAAAAGTAAATTGCTCCTCTAAAC
9117323 AGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAAC
1 AGAGGCA--ACGACTTTGAAAAGTAAATTGCTCCTCTAAAC
9117364 AGAGGCACAACGACTTTGAAAAGTAAATTGCTCCTCTAAAC
1 AGAGG--CAACGACTTTGAAAAGTAAATTGCTCCTCTAAAC
9117405 AGAGGCACCACGACTTTG-AAAGTAAATTGCTCCTCTAAAC
1 AGAGGCA--ACGACTTTGAAAAGTAAATTGCTCCTCTAAAC
9117445 AGAGGCAACGACTTTGGAAAAGTAAATTGCTCCTCTAAAC
1 AGAGGCAACGACTTT-GAAAAGTAAATTGCTCCTCTAAAC
*
9117485 AGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTAAAC
1 AGAGGCA--ACGACTTTGAAAAGTAAATTGCTCCTCTAAAC
9117526 AGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAAC
1 AGAGGCAACG-ACTTTGAAAAGTAAATTGCTCCTCTAAAC
*
9117566 AGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTAAAC
1 AGAGGCA--ACGACTTTGAAAAGTAAATTGCTCCTCTAAAC
*
9117607 AGAGGCAACGACTTTGGAAAGTAAATTGCTCCTCTAAAC
1 AGAGGCAACGACTTTGAAAAGTAAATTGCTCCTCTAAAC
*
9117646 AGAGGCAACGAACTTTGGAAAGTAAATTGCTCCTCTAAAC
1 AGAGGCAACG-ACTTTGAAAAGTAAATTGCTCCTCTAAAC
9117686 AGAGGCAACGAACTTTGGAAAAGTAAAT
1 AGAGGCAACG-ACTTT-GAAAAGTAAAT
9117714 ACTCCTAGAC
Statistics
Matches: 479, Mismatches: 11, Indels: 43
0.90 0.02 0.08
Matches are distributed among these distances:
38 14 0.03
39 74 0.15
40 182 0.38
41 166 0.35
42 41 0.09
43 2 0.00
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (39 bp):
AGAGGCAACGACTTTGAAAAGTAAATTGCTCCTCTAAAC
Found at i:9122986 original size:60 final size:59
Alignment explanation
Indices: 9122858--9123489 Score: 831
Period size: 60 Copynumber: 10.7 Consensus size: 59
9122848 TTTTTTGTAG
*
9122858 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTTGGAAATTTCGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTT--ATTTTCAA
*
9122917 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTT-ATTTTCAA
** **
9122977 GGAAAATTGATACTTTCAACTTTTCCTTAAAAACCCTTTTTTTTGAAAATTTA-TTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAA-TATTTTTTTTGAAAATTTATTTTC-AA
* *
9123037 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGGAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTTGAAAATTTATTTTCAA
9123097 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTGAAAATTTA-TTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTATTTTC-AA
* **
9123155 GGAAAATTGATAATTTCAACTTTTCCCCAAAAACCCTTTTTTTTGAAAATTTA-TTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAA-TATTTTTTTTGAAAATTTATTTTC-AA
* *
9123215 -GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTATTTTCAA
*
9123273 GGAAAAATGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTGAAAATTTA-TTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTATTTTC-AA
* ** * *
9123331 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTTGAAACTTTGATTTCCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAA-TATTTTTTTTGAAAATTT-ATTTTCAA
* * ****
9123392 GGAAAATTGATACTTTCAACTTTTTCTC-AAAA-ACCCGTTTTG-AAATTTATTTT-AA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTATTTTCAA
*
9123447 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTT
9123490 TGGAATTTTT
Statistics
Matches: 508, Mismatches: 47, Indels: 38
0.86 0.08 0.06
Matches are distributed among these distances:
55 27 0.05
56 8 0.02
57 16 0.03
58 120 0.24
59 106 0.21
60 168 0.33
61 60 0.12
62 3 0.01
ACGTcount: A:0.34, C:0.15, G:0.08, T:0.44
Consensus pattern (59 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTATTTTCAA
Found at i:9123174 original size:118 final size:117
Alignment explanation
Indices: 9122845--9123488 Score: 835
Period size: 118 Copynumber: 5.5 Consensus size: 117
9122835 GGAAAGAATG
* *
9122845 AATTT-TTTTGTAGGGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTGGAAATTTC
1 AATTTATTTT-TAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTT-
9122908 GATTT-TCAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTT-GA
64 -ATTTCT-AAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGA
* **
9122962 AATTTTGATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTTAAAAACCCT-TTTTTTTGAAAA
1 AA-TTT-ATTTTTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAA---TATTTTTTTGAAAA
9123026 TTTATTTCTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGGA
61 TTTATTTCTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTTGGA
9123084 AATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTAT
1 AATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTAT
* ** *
9123149 TTCTAAGGAAAATTGATAATTTCAACTTTTCCCCAAAAACCCTTTTTTTTGAA
66 TTCTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAA-TATTTTTTTTGGA
* *
9123202 AATTTATTTCTAA-GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAATTTA
1 AATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTGAAAATTTA
* * *
9123266 TTTTTAAGGAAAAATGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTGAA
65 TTTCTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGA
* * *
9123318 AATTTATTTCTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCT-TTTTTTTGAAACTT
1 AATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAA---TATTTTTTTGAAAATT
* * * ****
9123382 TGATTTCCAAGGAAAATTGATACTTTCAACTTTTTCTC-AAAA-ACCCGTTTT-GA
63 T-ATTTCTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGA
*
9123435 AATTTA-TTTTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTT
1 AATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTT
9123489 TTGGAATTTT
Statistics
Matches: 473, Mismatches: 34, Indels: 43
0.86 0.06 0.08
Matches are distributed among these distances:
113 1 0.00
114 7 0.01
116 59 0.12
117 76 0.16
118 153 0.32
119 63 0.13
120 84 0.18
121 12 0.03
122 18 0.04
ACGTcount: A:0.34, C:0.14, G:0.08, T:0.44
Consensus pattern (117 bp):
AATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTAT
TTCTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGA
Found at i:9123555 original size:16 final size:15
Alignment explanation
Indices: 9123515--9123562 Score: 60
Period size: 16 Copynumber: 3.1 Consensus size: 15
9123505 TTATTTAAAG
*
9123515 AAAATAGAATAATAAA
1 AAAATA-AATAAAAAA
*
9123531 AAGATAAATAAAAACA
1 AAAATAAATAAAAA-A
9123547 AAAATAAATAAAAAA
1 AAAATAAATAAAAAA
9123562 A
1 A
9123563 GTAAAACAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 9 0.32
16 19 0.68
ACGTcount: A:0.79, C:0.02, G:0.04, T:0.15
Consensus pattern (15 bp):
AAAATAAATAAAAAA
Found at i:9123598 original size:12 final size:11
Alignment explanation
Indices: 9123525--9123590 Score: 69
Period size: 12 Copynumber: 5.5 Consensus size: 11
9123515 AAAATAGAAT
*
9123525 AATAAAAAGATA
1 AATAAAAA-AAA
9123537 AATAAAAACAAA
1 AATAAAAA-AAA
9123549 AATAAATAAAAA
1 AATAAA-AAAAA
*
9123561 AAGTAAAACAAA
1 AA-TAAAAAAAA
9123573 AATAAAAAATAA
1 AATAAAAAA-AA
9123585 AATAAA
1 AATAAA
9123591 GATAAAAAGA
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
11 6 0.13
12 35 0.74
13 6 0.13
ACGTcount: A:0.80, C:0.03, G:0.03, T:0.14
Consensus pattern (11 bp):
AATAAAAAAAA
Found at i:9123598 original size:24 final size:23
Alignment explanation
Indices: 9123525--9123590 Score: 82
Period size: 24 Copynumber: 2.8 Consensus size: 23
9123515 AAAATAGAAT
9123525 AATAAAAAGAT-AAATAAAAACAAA
1 AATAAAAA-ATAAAAT-AAAACAAA
9123549 AATAAATAAA-AAAAGTAAAACAAA
1 AATAAA-AAATAAAA-TAAAACAAA
9123573 AATAAAAAATAAAATAAA
1 AATAAAAAATAAAATAAA
9123591 GATAAAAAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
23 7 0.18
24 28 0.74
25 3 0.08
ACGTcount: A:0.80, C:0.03, G:0.03, T:0.14
Consensus pattern (23 bp):
AATAAAAAATAAAATAAAACAAA
Found at i:9123630 original size:4 final size:4
Alignment explanation
Indices: 9123621--9123654 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
9123611 AACCTAATCT
9123621 AATA AATA AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AATA AA
9123655 CCTGGAGCGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:9124156 original size:11 final size:11
Alignment explanation
Indices: 9124140--9124191 Score: 52
Period size: 11 Copynumber: 4.5 Consensus size: 11
9124130 CGGAATCTGG
9124140 AAATTTCCCAA
1 AAATTTCCCAA
*
9124151 AAATTTCCAAA
1 AAATTTCCCAA
9124162 AAATTTTTCGCCAA
1 AAA--TTTC-CCAA
*
9124176 AAATTT-CTAA
1 AAATTTCCCAA
9124186 AAATTT
1 AAATTT
9124192 TTTCTCACTC
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
10 9 0.26
11 13 0.37
12 3 0.09
13 4 0.11
14 6 0.17
ACGTcount: A:0.46, C:0.17, G:0.02, T:0.35
Consensus pattern (11 bp):
AAATTTCCCAA
Found at i:9124179 original size:25 final size:24
Alignment explanation
Indices: 9124143--9124195 Score: 79
Period size: 25 Copynumber: 2.2 Consensus size: 24
9124133 AATCTGGAAA
9124143 TTTCCCAAAAATTTCCAAAAAATT
1 TTTCCCAAAAATTTCCAAAAAATT
* *
9124167 TTTCGCCAAAAATTTCTAAAAATTT
1 TTTC-CCAAAAATTTCCAAAAAATT
9124192 TTTC
1 TTTC
9124196 TCACTCCCAG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 4 0.15
25 22 0.85
ACGTcount: A:0.40, C:0.19, G:0.02, T:0.40
Consensus pattern (24 bp):
TTTCCCAAAAATTTCCAAAAAATT
Found at i:9124620 original size:23 final size:24
Alignment explanation
Indices: 9124590--9124642 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 24
9124580 AAAAAAAAAA
9124590 ATAATATA-ATAAT-AA-TACATAT
1 ATAATATATA-AATAAATTACATAT
9124612 ATAACTATATAAATAAATTACATAT
1 ATAA-TATATAAATAAATTACATAT
9124637 A-AATAT
1 ATAATAT
9124643 TAACAAAACA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
22 4 0.15
23 10 0.37
24 5 0.19
25 8 0.30
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (24 bp):
ATAATATATAAATAAATTACATAT
Found at i:9124827 original size:20 final size:21
Alignment explanation
Indices: 9124802--9124842 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
9124792 GCTTACCCCC
9124802 TTTGGGCCAGG-CCCAATTGG
1 TTTGGGCCAGGACCCAATTGG
*
9124822 TTTGGGCCTGGACCCAATTGG
1 TTTGGGCCAGGACCCAATTGG
9124843 GTGTCTACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.15, C:0.24, G:0.34, T:0.27
Consensus pattern (21 bp):
TTTGGGCCAGGACCCAATTGG
Found at i:9127351 original size:16 final size:15
Alignment explanation
Indices: 9127326--9127363 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
9127316 AAGATCCTAA
9127326 TTTT-TTTATTATACT
1 TTTTATTTATTA-ACT
9127341 TTTTATTTATTAACT
1 TTTTATTTATTAACT
9127356 TTATTATT
1 TT-TTATT
9127364 AATGCGAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 9 0.43
16 12 0.57
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTTATTTATTAACT
Found at i:9127518 original size:17 final size:16
Alignment explanation
Indices: 9127493--9127587 Score: 75
Period size: 16 Copynumber: 5.8 Consensus size: 16
9127483 GGATTTTGGA
*
9127493 TTTTAGATTTTAAGGGG
1 TTTTGGATTTT-AGGGG
9127510 TTTTGGATTTTAGGGG
1 TTTTGGATTTTAGGGG
* *
9127526 ATTCT-GATTTTTGGGG
1 -TTTTGGATTTTAGGGG
* * * *
9127542 ATTTGGATTTAAGAGA
1 TTTTGGATTTTAGGGG
9127558 TTTTGGATTTTTAGGGG
1 TTTTGGA-TTTTAGGGG
* *
9127575 TTTCGAATTTTAG
1 TTTTGGATTTTAG
9127588 CAGTTTTAAA
Statistics
Matches: 60, Mismatches: 15, Indels: 7
0.73 0.18 0.09
Matches are distributed among these distances:
15 2 0.03
16 34 0.57
17 24 0.40
ACGTcount: A:0.20, C:0.02, G:0.29, T:0.48
Consensus pattern (16 bp):
TTTTGGATTTTAGGGG
Found at i:9129053 original size:13 final size:13
Alignment explanation
Indices: 9129031--9129073 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
9129021 GCCACCCTAC
*
9129031 TTTCTGTTTCTTT
1 TTTCTCTTTCTTT
*
9129044 TTTCTTTTTCTTAT
1 TTTCTCTTTCTT-T
9129058 TTTCTCTTTCTTT
1 TTTCTCTTTCTTT
9129071 TTT
1 TTT
9129074 TTAATAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
13 15 0.56
14 12 0.44
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.79
Consensus pattern (13 bp):
TTTCTCTTTCTTT
Found at i:9129074 original size:14 final size:14
Alignment explanation
Indices: 9129031--9129074 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
9129021 GCCACCCTAC
*
9129031 TTTCTGTTTC-TTT
1 TTTCTCTTTCTTTT
* *
9129044 TTTCTTTTTCTTAT
1 TTTCTCTTTCTTTT
9129058 TTTCTCTTTCTTTT
1 TTTCTCTTTCTTTT
9129072 TTT
1 TTT
9129075 TAATAATAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
13 9 0.35
14 17 0.65
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.80
Consensus pattern (14 bp):
TTTCTCTTTCTTTT
Found at i:9129136 original size:14 final size:15
Alignment explanation
Indices: 9129112--9129143 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
9129102 TTTAAATATA
9129112 TATACTTATTATTAT
1 TATACTTATTATTAT
9129127 TATA-TTATTATTAT
1 TATACTTATTATTAT
9129141 TAT
1 TAT
9129144 TAATGTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (15 bp):
TATACTTATTATTAT
Found at i:9129159 original size:15 final size:15
Alignment explanation
Indices: 9129139--9129167 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
9129129 TATTATTATT
9129139 ATTATTAATGTTAAA
1 ATTATTAATGTTAAA
9129154 ATTATTAATGTTAA
1 ATTATTAATGTTAA
9129168 TATGAAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (15 bp):
ATTATTAATGTTAAA
Found at i:9129160 original size:3 final size:3
Alignment explanation
Indices: 9129117--9129145 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
9129107 ATATATATAC
9129117 TTA TTA TTA TTA -TA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
9129146 ATGTTAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:9131502 original size:20 final size:22
Alignment explanation
Indices: 9131477--9131518 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
9131467 TCTACATGCT
*
9131477 ACCAAAA-AAAATAA-AAAAAA
1 ACCAAAACAAAAGAATAAAAAA
9131497 ACCAAAACAAAAGAATAAAAAA
1 ACCAAAACAAAAGAATAAAAAA
9131519 GGAAATTCAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 7 0.37
21 6 0.32
22 6 0.32
ACGTcount: A:0.81, C:0.12, G:0.02, T:0.05
Consensus pattern (22 bp):
ACCAAAACAAAAGAATAAAAAA
Found at i:9131654 original size:73 final size:71
Alignment explanation
Indices: 9131538--9131749 Score: 198
Period size: 70 Copynumber: 3.0 Consensus size: 71
9131528 CATTTGCATC
* *
9131538 ACTTGCAT-TGTATCATGAAAAAAACA-TTGGA-TCTACATGCTACAAATAAAAAAAAGAGACAT
1 ACTTGCATATGTATCATGAAAAAGACATTTGCATTC-ACAT-CTAC-AATAAAAAAAA-AGACAT
* *
9131600 TCGTATTCAT
62 TCGCATTCAG
* * * * * *
9131610 ACTTTCGTGTGTATCATGAAAAAGACATTTGCATTCACATCTAC-ATCACAAAAAAGACGTTCGC
1 ACTTGCATATGTATCATGAAAAAGACATTTGCATTCACATCTACAATAAAAAAAAAGACATTCGC
9131674 ATTCAG
66 ATTCAG
* * * * * * *
9131680 ACTTGCATATGCATTATTAGAAAGACATTTGCATTCATATCTATATATAAAAAAAAAGACATTCA
1 ACTTGCATATGTATCATGAAAAAGACATTTGCATTCACATCTACA-ATAAAAAAAAAGACATTCG
9131745 CATTC
65 CATTC
9131750 TCATCACTTA
Statistics
Matches: 113, Mismatches: 22, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
70 48 0.42
71 8 0.07
72 26 0.23
73 21 0.19
74 8 0.07
75 2 0.02
ACGTcount: A:0.41, C:0.17, G:0.12, T:0.30
Consensus pattern (71 bp):
ACTTGCATATGTATCATGAAAAAGACATTTGCATTCACATCTACAATAAAAAAAAAGACATTCGC
ATTCAG
Found at i:9132450 original size:9 final size:9
Alignment explanation
Indices: 9132436--9132476 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
9132426 TAAATATTAG
9132436 AAAAAAGAA
1 AAAAAAGAA
*
9132445 AAAAAACAA
1 AAAAAAGAA
9132454 AACAAAAGAA
1 AA-AAAAGAA
*
9132464 AAAGAAGAA
1 AAAAAAGAA
9132473 AAAA
1 AAAA
9132477 TGGACAAAGA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
9 19 0.70
10 8 0.30
ACGTcount: A:0.85, C:0.05, G:0.10, T:0.00
Consensus pattern (9 bp):
AAAAAAGAA
Done.