Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 43 of 253
Found at i:11234133 original size:28 final size:27
Alignment explanation
Indices: 11234060--11234126 Score: 75
Period size: 28 Copynumber: 2.5 Consensus size: 27
11234050 AAGCAACCCA
* *
11234060 ATTT-TTATTTTTATTTTATTTTATTTT
1 ATTTATTATTTTCATATTATTTTA-TTT
* *
11234087 ATTTATTTTTTTCTTATTATTTTA-TT
1 ATTTATTATTTTCATATTATTTTATTT
11234113 ATTTATTATTTTCA
1 ATTTATTATTTTCA
11234127 GATATTAATA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
26 14 0.42
27 4 0.12
28 15 0.45
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (27 bp):
ATTTATTATTTTCATATTATTTTATTT
Found at i:11234796 original size:15 final size:15
Alignment explanation
Indices: 11234776--11234805 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11234766 CATTTCATTT
*
11234776 ATATTAGGATAATTA
1 ATATTAAGATAATTA
11234791 ATATTAAGATAATTA
1 ATATTAAGATAATTA
11234806 TTAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:11234833 original size:27 final size:26
Alignment explanation
Indices: 11234772--11234834 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
11234762 ACTCCATTTC
11234772 ATTTATATTAGGATAATTAATATTAAG
1 ATTT-TATTAGGATAATTAATATTAAG
* * * *
11234799 ATAATTATTAGGATTATTTAATTTTAGG
1 AT-TTTATTAGGA-TAATTAATATTAAG
11234827 ATTTTATT
1 ATTTTATT
11234835 TTAATTATCT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 15 0.52
28 14 0.48
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:11235781 original size:12 final size:12
Alignment explanation
Indices: 11235764--11235797 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
11235754 CCTACTTCCC
11235764 CTTTACTATTAT
1 CTTTACTATTAT
11235776 CTTTACTATTAT
1 CTTTACTATTAT
*
11235788 TTTTACTATT
1 CTTTACTATT
11235798 TTACAGGGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.24, C:0.15, G:0.00, T:0.62
Consensus pattern (12 bp):
CTTTACTATTAT
Found at i:11236984 original size:29 final size:30
Alignment explanation
Indices: 11236937--11237004 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
11236927 TGGCCCAAGA
* * *
11236937 GTAAATACTCAAAATTTGAGGGATTAA-AGT
1 GTAAATA-TCAAAAGTTGAAGGACTAATAGT
*
11236967 GTAAATATGAAAAGTTGAAGGACTAATAGT
1 GTAAATATCAAAAGTTGAAGGACTAATAGT
*
11236997 GCAAATAT
1 GTAAATAT
11237005 TTTAAGGGTG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 15 0.47
30 17 0.53
ACGTcount: A:0.46, C:0.06, G:0.21, T:0.28
Consensus pattern (30 bp):
GTAAATATCAAAAGTTGAAGGACTAATAGT
Found at i:11243588 original size:18 final size:18
Alignment explanation
Indices: 11243565--11243601 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
11243555 TATGTGTTAG
11243565 AGAACAACATACTGGACT
1 AGAACAACATACTGGACT
11243583 AGAACAACATACTGGACT
1 AGAACAACATACTGGACT
11243601 A
1 A
11243602 ACTTGCCATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.46, C:0.22, G:0.16, T:0.16
Consensus pattern (18 bp):
AGAACAACATACTGGACT
Found at i:11244288 original size:17 final size:17
Alignment explanation
Indices: 11244268--11244305 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
11244258 GGAAGATTTT
*
11244268 TATCAA-TGGCGGATAAG
1 TATCAACTGGCAGAT-AG
11244285 TATCAACTGGCAGATAG
1 TATCAACTGGCAGATAG
11244302 TATC
1 TATC
11244306 CCCCAGTGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (17 bp):
TATCAACTGGCAGATAG
Found at i:11246073 original size:20 final size:20
Alignment explanation
Indices: 11246048--11246085 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
11246038 TGCTTTGCTA
11246048 CGATATAACATGATATGATG
1 CGATATAACATGATATGATG
* *
11246068 CGATATGATATGATATGA
1 CGATATAACATGATATGA
11246086 CCTAATATGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.08, G:0.21, T:0.32
Consensus pattern (20 bp):
CGATATAACATGATATGATG
Found at i:11249939 original size:52 final size:50
Alignment explanation
Indices: 11249861--11250049 Score: 162
Period size: 50 Copynumber: 3.7 Consensus size: 50
11249851 GTTGTGAGAA
* **
11249861 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAAATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACAAAATGG--TTAGGT
** * * *
11249913 CATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACAAAATGGTTAGGT
* * ** *** * * *
11249963 CACATGTGTAGTACTAAGTGTAAGCTACTATGCATACCCGATAGCTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACAAAAT-GGTTAGGT
* * *
11250014 CACATGTGTGGTACTAAGTGCAGGCCAATATGTGTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTA
11250050 AGAGATGGTT
Statistics
Matches: 110, Mismatches: 26, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
50 40 0.36
51 34 0.31
52 36 0.33
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.32
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACAAAATGGTTAGGT
Found at i:11249964 original size:50 final size:51
Alignment explanation
Indices: 11249861--11249992 Score: 158
Period size: 52 Copynumber: 2.6 Consensus size: 51
11249851 GTTGTGAGAA
* * **
11249861 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAAATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACAAAATGG-TTTAGGT
** * *
11249913 CATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGG-TTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACAAAATGGTTTAGGT
* *
11249963 CACATGTGTAGTACTAAGTGTAAGCTACTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTA
11249993 TGCATACCCG
Statistics
Matches: 68, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
50 32 0.47
52 36 0.53
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (51 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACAAAATGGTTTAGGT
Found at i:11250066 original size:51 final size:51
Alignment explanation
Indices: 11249861--11250089 Score: 185
Period size: 51 Copynumber: 4.5 Consensus size: 51
11249851 GTTGTGAGAA
* *
11249861 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAA-A-ATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTG--TAACAGATGGTTTT-GAT
** * * * *
11249913 CATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGG-TTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTAACAGATGGTTTTGAT
* * ** * * * * *
11249963 CACATGTGTAGTACTAAGTGTAAGCTACTATGCATACCCGATAGCTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTAACAGATGGTTTTGAT
* * * *
11250014 CACATGTGTGGTACTAAGTGCAGGCCAATATGTGTAAGAGATGGTTTTGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTAACAGATGGTTTTGAT
* * * *
11250065 CACAAGTGTGGTACTATGTGAAGGC
1 CACATGTGTAGTACTAAGTGCAGGC
11250090 CACTTTATGA
Statistics
Matches: 141, Mismatches: 33, Indels: 7
0.78 0.18 0.04
Matches are distributed among these distances:
50 40 0.28
51 67 0.48
52 34 0.24
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (51 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTAACAGATGGTTTTGAT
Found at i:11264385 original size:31 final size:32
Alignment explanation
Indices: 11264330--11264395 Score: 84
Period size: 32 Copynumber: 2.1 Consensus size: 32
11264320 ATAGTCTATA
11264330 TTTTTATAAATTTTAAAGGATT-AAATAAAAT
1 TTTTTATAAATTTTAAAGGATTAAAATAAAAT
*
11264361 TTTTTAT-AATTTTAAGAAGG-TTAAAATATAAT
1 TTTTTATAAATTTT-A-AAGGATTAAAATAAAAT
11264393 TTT
1 TTT
11264396 ATTTTTATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
30 6 0.19
31 10 0.32
32 15 0.48
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (32 bp):
TTTTTATAAATTTTAAAGGATTAAAATAAAAT
Found at i:11269939 original size:5 final size:5
Alignment explanation
Indices: 11269925--11269955 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
11269915 TTTTATTTAG
11269925 ATTAT A-TAT ATTAT ATTAT ATTAT ATTAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
11269956 AATTGATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.16
5 21 0.84
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
ATTAT
Found at i:11269966 original size:20 final size:20
Alignment explanation
Indices: 11269943--11270006 Score: 64
Period size: 20 Copynumber: 3.3 Consensus size: 20
11269933 TATTATATTA
11269943 TATTATATTATATAATTGAT
1 TATTATATTATATAATTGAT
11269963 TATTATAATTAT-TAATTG-T
1 TATTAT-ATTATATAATTGAT
* *
11269982 TA-TAGTTTTATATTATT-AT
1 TATTA-TATTATATAATTGAT
11270001 TATTAT
1 TATTAT
11270007 TAAATAAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 11
0.74 0.04 0.22
Matches are distributed among these distances:
18 6 0.16
19 12 0.32
20 14 0.38
21 5 0.14
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (20 bp):
TATTATATTATATAATTGAT
Found at i:11270000 original size:16 final size:16
Alignment explanation
Indices: 11269948--11270009 Score: 56
Period size: 16 Copynumber: 3.9 Consensus size: 16
11269938 TATTATATTA
* *
11269948 TATTAT-ATAATTGAT
1 TATTATAATTATTAAT
11269963 TATTATAATTATTAAT
1 TATTATAATTATTAAT
* *
11269979 TGTTATAGTT-TTATAT
1 TATTATAATTATTA-AT
*
11269995 TATTATTATTATTAA
1 TATTATAATTATTAA
11270010 ATAAATTAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
15 9 0.24
16 25 0.68
17 3 0.08
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (16 bp):
TATTATAATTATTAAT
Found at i:11270297 original size:32 final size:31
Alignment explanation
Indices: 11270257--11270318 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 31
11270247 ACAATTATAA
*
11270257 TATTTTATT-TAAATT-AGTAGGTATTTATTAT
1 TATTTTATTAT-AATTCAG-AGATATTTATTAT
11270288 TATTATTATTATAATTCAGAGATATTTATTA
1 TATT-TTATTATAATTCAGAGATATTTATTA
11270319 ATTAAATAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
31 4 0.15
32 20 0.74
33 3 0.11
ACGTcount: A:0.35, C:0.02, G:0.08, T:0.55
Consensus pattern (31 bp):
TATTTTATTATAATTCAGAGATATTTATTAT
Found at i:11270468 original size:15 final size:16
Alignment explanation
Indices: 11270441--11270483 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 16
11270431 TATAATTGCT
11270441 ATTAAATATATATTTATTA
1 ATTAAATATA-A--TATTA
*
11270460 ATTAAATATAATATAA
1 ATTAAATATAATATTA
11270476 ATTAAATA
1 ATTAAATA
11270484 AAGTAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 12 0.52
18 1 0.04
19 10 0.43
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
ATTAAATATAATATTA
Found at i:11270479 original size:20 final size:19
Alignment explanation
Indices: 11270441--11270485 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
11270431 TATAATTGCT
**
11270441 ATTAAATATATATTTATTA
1 ATTAAATATATATAAATTA
11270460 ATTAAATATAATATAAATTA
1 ATTAAATAT-ATATAAATTA
*
11270480 AATAAA
1 ATTAAA
11270486 GTAAAAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
ATTAAATATATATAAATTA
Found at i:11271654 original size:45 final size:45
Alignment explanation
Indices: 11271582--11271682 Score: 159
Period size: 45 Copynumber: 2.2 Consensus size: 45
11271572 ATGTGCCGAC
* *
11271582 TACCATTACTGTTACCGATTCGACACTTTGTGTGTCGAATACTGT
1 TACCGTTACTGTTACAGATTCGACACTTTGTGTGTCGAATACTGT
*
11271627 TACCGTTACTGTTACAGATTC-AGCACTTTGTGTGTTGAATACTGT
1 TACCGTTACTGTTACAGATTCGA-CACTTTGTGTGTCGAATACTGT
11271672 TACCGTTACTG
1 TACCGTTACTG
11271683 CTACTGCTAC
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
44 1 0.02
45 51 0.98
ACGTcount: A:0.22, C:0.21, G:0.19, T:0.39
Consensus pattern (45 bp):
TACCGTTACTGTTACAGATTCGACACTTTGTGTGTCGAATACTGT
Found at i:11271693 original size:18 final size:18
Alignment explanation
Indices: 11271666--11271700 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
11271656 GTGTGTTGAA
*
11271666 TACTGTTACCGTTACTGC
1 TACTGCTACCGTTACTGC
11271684 TACTGCTACCGTTACTG
1 TACTGCTACCGTTACTG
11271701 ATTACTGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.29, G:0.17, T:0.37
Consensus pattern (18 bp):
TACTGCTACCGTTACTGC
Found at i:11274595 original size:25 final size:25
Alignment explanation
Indices: 11274523--11274586 Score: 101
Period size: 25 Copynumber: 2.6 Consensus size: 25
11274513 TATATATTTG
* *
11274523 CACACATAGTGCCATAAAATTTCCA
1 CACACTTAGTGCCATACAATTTCCA
*
11274548 CACACTTAGTGCCATACAATTTCCG
1 CACACTTAGTGCCATACAATTTCCA
11274573 CACACTTAGTGCCA
1 CACACTTAGTGCCA
11274587 AGTCATTTCG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.33, C:0.31, G:0.11, T:0.25
Consensus pattern (25 bp):
CACACTTAGTGCCATACAATTTCCA
Found at i:11281888 original size:25 final size:25
Alignment explanation
Indices: 11281762--11281879 Score: 175
Period size: 25 Copynumber: 4.8 Consensus size: 25
11281752 GCCATATATA
* * *
11281762 TTCC-CACACATAGTGCTATAAAAT
1 TTCCGCACACTTAGTGCCATACAAT
*
11281786 ATCCGCACACTTAGTGCCATACAAT
1 TTCCGCACACTTAGTGCCATACAAT
11281811 TTCCGCACACTTAGTGCCATACAAT
1 TTCCGCACACTTAGTGCCATACAAT
* *
11281836 TTCCGCACACATAGTGCCATATAAT
1 TTCCGCACACTTAGTGCCATACAAT
11281861 TTCCGCACACTTAGTGCCA
1 TTCCGCACACTTAGTGCCA
11281880 AGTCATTTCG
Statistics
Matches: 85, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
24 3 0.04
25 82 0.96
ACGTcount: A:0.31, C:0.31, G:0.12, T:0.27
Consensus pattern (25 bp):
TTCCGCACACTTAGTGCCATACAAT
Found at i:11282932 original size:13 final size:13
Alignment explanation
Indices: 11282914--11282941 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
11282904 TTTGTCACTA
11282914 AATAAAGAAAATC
1 AATAAAGAAAATC
11282927 AATAAAGAAAATC
1 AATAAAGAAAATC
11282940 AA
1 AA
11282942 CATATGGGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.71, C:0.07, G:0.07, T:0.14
Consensus pattern (13 bp):
AATAAAGAAAATC
Found at i:11287578 original size:5 final size:5
Alignment explanation
Indices: 11287564--11287594 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
11287554 TTTTATTTAG
11287564 ATTAT A-TAT ATTAT ATTAT ATTAT ATTAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
11287595 AATTGATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.16
5 21 0.84
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
ATTAT
Found at i:11287615 original size:3 final size:3
Alignment explanation
Indices: 11287572--11287662 Score: 77
Period size: 3 Copynumber: 31.7 Consensus size: 3
11287562 AGATTATATA
* *
11287572 TAT TA- TAT TA- TAT TA- TAT TA- TAT AAT TGAT TAT TAT AAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT
* **
11287614 TAAT TGT TAT GGT T-T TA- TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
11287658 TAT TA
1 TAT TA
11287663 AATAAATTAA
Statistics
Matches: 71, Mismatches: 9, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
2 12 0.17
3 53 0.75
4 6 0.08
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:11287956 original size:32 final size:31
Alignment explanation
Indices: 11287916--11287977 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 31
11287906 ACAATTATAA
11287916 TATTTTATT-TAAATT-AGTAGATATTTATTAT
1 TATTTTATTAT-AATTAAG-AGATATTTATTAT
*
11287947 TATTATTATTATTATTAAGAGATATTTATTA
1 TATT-TTATTATAATTAAGAGATATTTATTA
11287978 ATTAAATAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
31 4 0.15
32 20 0.74
33 3 0.11
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.56
Consensus pattern (31 bp):
TATTTTATTATAATTAAGAGATATTTATTAT
Found at i:11289307 original size:45 final size:45
Alignment explanation
Indices: 11289240--11289334 Score: 147
Period size: 45 Copynumber: 2.1 Consensus size: 45
11289230 CCGACTATCA
* *
11289240 TTACTGTTACCGATTCGACACTTTGTGTGTCGAATACTGTTACCG
1 TTACTATTACAGATTCGACACTTTGTGTGTCGAATACTGTTACCG
*
11289285 TTACTATTACAGATTC-AGCACTTTGTGTGTTGAATACTGTTACCG
1 TTACTATTACAGATTCGA-CACTTTGTGTGTCGAATACTGTTACCG
11289330 TTACT
1 TTACT
11289335 GCTACTGCTA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 1 0.02
45 45 0.98
ACGTcount: A:0.22, C:0.20, G:0.18, T:0.40
Consensus pattern (45 bp):
TTACTATTACAGATTCGACACTTTGTGTGTCGAATACTGTTACCG
Found at i:11289346 original size:18 final size:18
Alignment explanation
Indices: 11289319--11289353 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
11289309 GTGTGTTGAA
*
11289319 TACTGTTACCGTTACTGC
1 TACTGCTACCGTTACTGC
11289337 TACTGCTACCGTTACTG
1 TACTGCTACCGTTACTG
11289354 ATTACTGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.29, G:0.17, T:0.37
Consensus pattern (18 bp):
TACTGCTACCGTTACTGC
Found at i:11292003 original size:40 final size:40
Alignment explanation
Indices: 11291948--11292027 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
11291938 CCTTGACATA
11291948 TGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAAT
1 TGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAAT
11291988 TGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAAT
1 TGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAAT
11292028 GACATCCGTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.20, C:0.25, G:0.30, T:0.25
Consensus pattern (40 bp):
TGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAAT
Found at i:11292053 original size:39 final size:40
Alignment explanation
Indices: 11291951--11292054 Score: 149
Period size: 40 Copynumber: 2.6 Consensus size: 40
11291941 TGACATATGT
*
11291951 ATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTGT
1 ATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTGC
11291991 ATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAA-TGAC
1 ATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTG-C
* * *
11292031 ATCCGTG-TTAAAAACCTGCAGGCT
1 ATCCGGGCTTAAAGACCCGCAGGCT
11292055 GTGCTAGATA
Statistics
Matches: 59, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
39 17 0.29
40 42 0.71
ACGTcount: A:0.23, C:0.26, G:0.28, T:0.23
Consensus pattern (40 bp):
ATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTGC
Found at i:11298888 original size:11 final size:11
Alignment explanation
Indices: 11298874--11298900 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
11298864 AATATTAAAA
11298874 ATATATAGAAC
1 ATATATAGAAC
11298885 ATATATAGAAC
1 ATATATAGAAC
11298896 ATATA
1 ATATA
11298901 CAATACGTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.30
Consensus pattern (11 bp):
ATATATAGAAC
Found at i:11299361 original size:127 final size:129
Alignment explanation
Indices: 11299182--11299432 Score: 332
Period size: 127 Copynumber: 2.0 Consensus size: 129
11299172 AAAAAGTAAA
* * * * *
11299182 TATAATAAAATGATATTAAAATAAAGTCATTAAAAACAGTAATATATGTATATATACAT-CTAAT
1 TATAATAAAATAATATTAAAATAAAGTCAATAAAAACAGTAATACATATATATATATATAC--AT
* * * *
11299246 -AAGAATATATAGTAATGT-TAATGATAATAATAAAAATAATAATAATATTGAAATACAAAAGCT
64 GAAG-ATATACACTAATGTACAATAATAATAATAAAAATAATAATAATATTGAAATACAAAAGCT
11299309 AT
128 AT
* *
11299311 TATAATAAAA-AATATTAAAATAAAGT-AATAAAAACATTACTACATATATATATATATACATGA
1 TATAATAAAATAATATTAAAATAAAGTCAATAAAAACAGTAATACATATATATATATATACATGA
*
11299374 AGATATACACTAATGTACAATAATAATAATAATAATAATAATAATATTGAAATACAAAA
66 AGATATACACTAATGTACAATAATAATAATAAAAATAATAATAATATTGAAATACAAAA
11299433 AATGTAATAT
Statistics
Matches: 107, Mismatches: 12, Indels: 8
0.84 0.09 0.06
Matches are distributed among these distances:
126 14 0.13
127 67 0.63
128 16 0.15
129 10 0.09
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.31
Consensus pattern (129 bp):
TATAATAAAATAATATTAAAATAAAGTCAATAAAAACAGTAATACATATATATATATATACATGA
AGATATACACTAATGTACAATAATAATAATAAAAATAATAATAATATTGAAATACAAAAGCTAT
Found at i:11299400 original size:3 final size:3
Alignment explanation
Indices: 11299392--11299419 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
11299382 ACTAATGTAC
11299392 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
11299420 TTGAAATACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:11299943 original size:11 final size:11
Alignment explanation
Indices: 11299900--11299934 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
11299890 AAAAAAAAAA
*
11299900 AGAGAGAAGGA
1 AGAGAGAAGGG
11299911 AGAGAGAAGGG
1 AGAGAGAAGGG
11299922 AGAGAGAAGGG
1 AGAGAGAAGGG
11299933 AG
1 AG
11299935 GGGGAAGGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (11 bp):
AGAGAGAAGGG
Found at i:11300050 original size:15 final size:16
Alignment explanation
Indices: 11300030--11300059 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
11300020 TAAAAATTTA
11300030 TATTTTTT-TATTTTT
1 TATTTTTTGTATTTTT
11300045 TATTTTTTGTATTTT
1 TATTTTTTGTATTTT
11300060 CTTTTATGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.13, C:0.00, G:0.03, T:0.83
Consensus pattern (16 bp):
TATTTTTTGTATTTTT
Found at i:11300759 original size:13 final size:13
Alignment explanation
Indices: 11300743--11300768 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11300733 TTTATTTGGT
11300743 TTATTGGGTTTTG
1 TTATTGGGTTTTG
11300756 TTATTGGGTTTTG
1 TTATTGGGTTTTG
11300769 GTGGTGGCCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.00, G:0.31, T:0.62
Consensus pattern (13 bp):
TTATTGGGTTTTG
Found at i:11302018 original size:72 final size:72
Alignment explanation
Indices: 11301735--11302349 Score: 946
Period size: 72 Copynumber: 8.5 Consensus size: 72
11301725 TCAACCCACC
* ** * * ** * **
11301735 TCTCGCAATATGAGTTGATTTTTTTGAAAGTAGAATTTGAAAATACCTCGGCGTGCCCCGAGGCT
1 TCTCGCAATATGAGTTGA--ATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCT
**
11301800 CAACTCACC
64 CAACTCATT
* *
11301809 TCTCGCAATATGAGTTG-ATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCA
1 TCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCA
**
11301873 ACTCACC
66 ACTCATT
* * * *
11301880 TCTCGCAATATGAGTTGATTTTTGAAAAGCAAAAATTGAAAATACCTCAATGTGTCTTGAGGCTC
1 TCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTC
11301945 AACTCATT
65 AACTCATT
* *
11301953 TCTCGCAATATGAATTGAATTTTGAAAACAAAAATTGAAATTACCTCAACGTGTCTTGAGGCTCA
1 TCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCA
11302018 ACTCATT
66 ACTCATT
*
11302025 TCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTC
1 TCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTC
11302090 AACTCATT
65 AACTCATT
11302098 TCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCA
1 TCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCA
11302163 ACTCATT
66 ACTCATT
*
11302170 TCTCGCAATATGAGTTGAATTTTGAAAACAAAAATTGAAATTACCTCAACGTGTCTTGAGGCTCA
1 TCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCA
11302235 ACTCATT
66 ACTCATT
11302242 TCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTC
1 TCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTC
11302307 AACTCATT
65 AACTCATT
11302315 TCTCGCAATATGAGTTGAATTTTTG-AAACAGAAAT
1 TCTCGCAATATGAGTTGAA-TTTTGAAAACAGAAAT
11302350 AAAAGCATCA
Statistics
Matches: 510, Mismatches: 26, Indels: 12
0.93 0.05 0.02
Matches are distributed among these distances:
71 63 0.12
72 227 0.45
73 198 0.39
74 22 0.04
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (72 bp):
TCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCA
ACTCATT
Found at i:11302190 original size:217 final size:217
Alignment explanation
Indices: 11301735--11302349 Score: 966
Period size: 217 Copynumber: 2.8 Consensus size: 217
11301725 TCAACCCACC
* ** * * * ** * **
11301735 TCTCGCAATATGAGTTGATTTTTTTGAAAGTAGAATTTGAAAATACCTCGGCGTGCCCCGAGGCT
1 TCTCGCAATATGAGTTGA--ATTTTGAAAACAAAAATTGAAATTACCTCAACGTGTCTTGAGGCT
** *
11301800 CAACTCACCTCTCGCAATATGAGTTG-ATTTTGAAAA-CAGAAATTGAAATTACCTCAGCGTGTC
64 CAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAATTACCTCAACGTGTC
* ** * *
11301863 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGCAAAAATTGAAAATACCTC
129 TTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAAATACCTC
*
11301928 AATGTGTCTTGAGGCTCAACTCATT
193 AACGTGTCTTGAGGCTCAACTCATT
*
11301953 TCTCGCAATATGAATTGAATTTTGAAAACAAAAATTGAAATTACCTCAACGTGTCTTGAGGCTCA
1 TCTCGCAATATGAGTTGAATTTTGAAAACAAAAATTGAAATTACCTCAACGTGTCTTGAGGCTCA
*
11302018 ACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTT
66 ACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAATTACCTCAACGTGTCTT
*
11302083 GAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAAC
131 GAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAAC
11302148 GTGTCTTGAGGCTCAACTCATT
196 GTGTCTTGAGGCTCAACTCATT
11302170 TCTCGCAATATGAGTTGAATTTTGAAAACAAAAATTGAAATTACCTCAACGTGTCTTGAGGCTCA
1 TCTCGCAATATGAGTTGAATTTTGAAAACAAAAATTGAAATTACCTCAACGTGTCTTGAGGCTCA
11302235 ACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAATTACCTCAACGTGTCTT
66 ACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAATTACCTCAACGTGTCTT
11302300 GAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTTG-AAACAGAAAT
131 GAGGCTCAACTCATTTCTCGCAATATGAGTTGAA-TTTTGAAAACAGAAAT
11302350 AAAAGCATCA
Statistics
Matches: 369, Mismatches: 25, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
216 58 0.16
217 223 0.60
218 88 0.24
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (217 bp):
TCTCGCAATATGAGTTGAATTTTGAAAACAAAAATTGAAATTACCTCAACGTGTCTTGAGGCTCA
ACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAATTACCTCAACGTGTCTT
GAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAAC
GTGTCTTGAGGCTCAACTCATT
Found at i:11302344 original size:145 final size:146
Alignment explanation
Indices: 11301735--11302349 Score: 976
Period size: 145 Copynumber: 4.3 Consensus size: 146
11301725 TCAACCCACC
* * * ** * **
11301735 TCTCGCAATATGAGTTGATTTTTTTG-AAAGTAGAATTTGAAAATACCTCGGCGTGCCCCGAGGC
1 TCTCGCAATATGAGTTGA-ATTTTTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGC
** *
11301799 TCAACTCACCTCTCGCAATATGAGTTG-ATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTC
65 TCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTC
* **
11301863 CTGAGGCTCAACTCACC
130 TTGAGGCTCAACTCATT
* *
11301880 TCTCGCAATATGAGTTG-ATTTTTGAAAAGCAAAAATTGAAAATACCTCAATGTGTCTTGAGGCT
1 TCTCGCAATATGAGTTGAATTTTTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCT
* *
11301944 CAACTCATTTCTCGCAATATGAATTGAATTTTGAAAACAAAAATTGAAATTACCTCAACGTGTCT
66 CAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCT
11302009 TGAGGCTCAACTCATT
131 TGAGGCTCAACTCATT
11302025 TCTCGCAATATGAGTTGAA-TTTTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCT
1 TCTCGCAATATGAGTTGAATTTTTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCT
11302089 CAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCT
66 CAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCT
11302154 TGAGGCTCAACTCATT
131 TGAGGCTCAACTCATT
* *
11302170 TCTCGCAATATGAGTTGAA-TTTTGAAAA-CAAAAATTGAAATTACCTCAACGTGTCTTGAGGCT
1 TCTCGCAATATGAGTTGAATTTTTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCT
11302233 CAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAATTACCTCAACGTGTC
66 CAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAATTACCTCAACGTGTC
11302298 TTGAGGCTCAACTCATT
130 TTGAGGCTCAACTCATT
11302315 TCTCGCAATATGAGTTGAATTTTTG-AAA-CAGAAAT
1 TCTCGCAATATGAGTTGAATTTTTGAAAAGCAGAAAT
11302350 AAAAGCATCA
Statistics
Matches: 440, Mismatches: 25, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
143 6 0.01
144 123 0.28
145 305 0.69
146 6 0.01
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (146 bp):
TCTCGCAATATGAGTTGAATTTTTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCT
CAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCT
TGAGGCTCAACTCATT
Found at i:11304565 original size:25 final size:23
Alignment explanation
Indices: 11304525--11304591 Score: 64
Period size: 25 Copynumber: 2.8 Consensus size: 23
11304515 TGGCATTTGA
11304525 TTTTTT-TTTGTTTTTTTCTTGTCC
1 TTTTTTCTTT-TTTTTTTCTTGT-C
* *
11304549 TTTTTTCTTTTTGTTTTTTTTGTT
1 TTTTTTCTTTTT-TTTTTCTTGTC
*
11304573 TTGTTTTCTTTTTCTTTTC
1 TT-TTTTCTTTTTTTTTTC
11304592 ATGACTGTTG
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
24 14 0.39
25 22 0.61
ACGTcount: A:0.00, C:0.10, G:0.07, T:0.82
Consensus pattern (23 bp):
TTTTTTCTTTTTTTTTTCTTGTC
Found at i:11311767 original size:16 final size:17
Alignment explanation
Indices: 11311746--11311777 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
11311736 TAAAAATTTA
11311746 TATTTTTTT-TATTTTT
1 TATTTTTTTGTATTTTT
11311762 TATTTTTTTGTATTTT
1 TATTTTTTTGTATTTT
11311778 CTTTTATGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.12, C:0.00, G:0.03, T:0.84
Consensus pattern (17 bp):
TATTTTTTTGTATTTTT
Found at i:11312482 original size:13 final size:13
Alignment explanation
Indices: 11312466--11312491 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11312456 TTTATTTGGT
11312466 TTATTGGGTTTTG
1 TTATTGGGTTTTG
11312479 TTATTGGGTTTTG
1 TTATTGGGTTTTG
11312492 GGGGTGGCCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.00, G:0.31, T:0.62
Consensus pattern (13 bp):
TTATTGGGTTTTG
Found at i:11316149 original size:40 final size:40
Alignment explanation
Indices: 11316104--11316269 Score: 305
Period size: 40 Copynumber: 4.2 Consensus size: 40
11316094 TTATTTGATG
11316104 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
11316144 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
* *
11316184 TGGAATTGTATCCGGGCTTAAAGACCCGCAGACTTCGTGA
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
*
11316224 TGGAATTGTATTCGGGCTTAAAGACCCGCAGGCTTCGTGC
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
11316264 TGGAAT
1 TGGAAT
11316270 GACATCCGTG
Statistics
Matches: 121, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 121 1.00
ACGTcount: A:0.22, C:0.23, G:0.30, T:0.26
Consensus pattern (40 bp):
TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
Found at i:11322992 original size:6 final size:6
Alignment explanation
Indices: 11322957--11323013 Score: 53
Period size: 6 Copynumber: 9.3 Consensus size: 6
11322947 TTTGAGTCCA
*** *
11322957 TTTATTT TTTATCT TTTATT TTTCGC TTTATT TTTATT TTTA-T TTTATG
1 TTTA-TT TTTAT-T TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
11323006 TTTATT TT
1 TTTATT TT
11323014 AAAAGACTTG
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
5 5 0.12
6 25 0.62
7 10 0.25
ACGTcount: A:0.14, C:0.05, G:0.04, T:0.77
Consensus pattern (6 bp):
TTTATT
Found at i:11327912 original size:31 final size:28
Alignment explanation
Indices: 11327877--11328015 Score: 93
Period size: 31 Copynumber: 4.7 Consensus size: 28
11327867 TTAATATAAT
11327877 ATTTGGTACCTAAATTTGATAATTTTTCCTA
1 ATTTGGTACCTAAATTT-AT--TTTTTCCTA
* **
11327908 ATTTGGAACCTAAATTT-TTTTTGGCTCA
1 ATTTGGTACCTAAATTTATTTTTTCCT-A
* * *
11327936 ATTTGGTACTTGAACTTAATTTTTTTTCCTA
1 ATTTGGTACCT-AAATT--TATTTTTTCCTA
*** *
11327967 ATTTGGTACCTAAACTTT-TTTGGGGCCCA
1 ATTTGGTACCTAAA-TTTATTT-TTTCCTA
11327996 ATTTGGTACCTAAATTTATT
1 ATTTGGTACCTAAATTTATT
11328016 AAACGTTATA
Statistics
Matches: 86, Mismatches: 14, Indels: 18
0.73 0.12 0.15
Matches are distributed among these distances:
27 6 0.07
28 16 0.19
29 25 0.29
30 2 0.02
31 30 0.35
32 7 0.08
ACGTcount: A:0.25, C:0.14, G:0.13, T:0.47
Consensus pattern (28 bp):
ATTTGGTACCTAAATTTATTTTTTCCTA
Found at i:11328458 original size:57 final size:57
Alignment explanation
Indices: 11328374--11328481 Score: 144
Period size: 57 Copynumber: 1.9 Consensus size: 57
11328364 GAATCAAACA
* * *
11328374 AAAAAATTAGGTACCAAATTAGGAAAAAGAGTCAAGTTCAGGTACCAAATTGGCCCT
1 AAAAAATTAAGTACCAAATTAAGAAAAAGAGTCAAGTTCAGATACCAAATTGGCCCT
* * * * *
11328431 AAAAGATTAAGTACCAACTTAAGAAAAAGTGTTAAGTTTAGATACCAAATT
1 AAAAAATTAAGTACCAAATTAAGAAAAAGAGTCAAGTTCAGATACCAAATT
11328482 AGGAAAAAGT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
57 43 1.00
ACGTcount: A:0.46, C:0.13, G:0.17, T:0.24
Consensus pattern (57 bp):
AAAAAATTAAGTACCAAATTAAGAAAAAGAGTCAAGTTCAGATACCAAATTGGCCCT
Found at i:11330307 original size:42 final size:45
Alignment explanation
Indices: 11330230--11330329 Score: 116
Period size: 42 Copynumber: 2.3 Consensus size: 45
11330220 GAAGCTGTAT
*
11330230 CACACTAAGTGCCAATATATATATAGCCGAAGCTATCTCGATCTCG
1 CACACTAAGTG-CAATATATATATAGCCAAAGCTATCTCGATCTCG
* * * *
11330276 CACACTAAGTGC-A-A-ATATATAGCTAAAGCTATCTTGATTTTG
1 CACACTAAGTGCAATATATATATAGCCAAAGCTATCTCGATCTCG
*
11330318 CACATTAAGTGC
1 CACACTAAGTGC
11330330 CCATAATTAG
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
42 34 0.71
43 1 0.02
44 1 0.02
45 1 0.02
46 11 0.23
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (45 bp):
CACACTAAGTGCAATATATATATAGCCAAAGCTATCTCGATCTCG
Found at i:11334961 original size:40 final size:40
Alignment explanation
Indices: 11334917--11334996 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
11334907 GAAATGAGGG
11334917 AAAAGGAAATAACAAAAATTAAATACATTATCAATATACA
1 AAAAGGAAATAACAAAAATTAAATACATTATCAATATACA
*
11334957 AAAAGGAAATAACAAAAATTGAATACATTATCAATATACA
1 AAAAGGAAATAACAAAAATTAAATACATTATCAATATACA
11334997 TGTTTAGAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.61, C:0.10, G:0.06, T:0.23
Consensus pattern (40 bp):
AAAAGGAAATAACAAAAATTAAATACATTATCAATATACA
Found at i:11335453 original size:31 final size:31
Alignment explanation
Indices: 11335397--11335462 Score: 82
Period size: 31 Copynumber: 2.1 Consensus size: 31
11335387 AAAAAACAAT
*
11335397 AATTTAACTCTTTTTGAATAGTTGATGATCA
1 AATTTAACTCTTTTTGAATAGTTGATGACCA
*
11335428 AATTTGACTCTTTTT--ATAAGATTGATGACCA
1 AATTTAACTCTTTTTGAAT-AG-TTGATGACCA
11335459 AATT
1 AATT
11335463 GACAAGATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 2 0.06
30 2 0.06
31 27 0.87
ACGTcount: A:0.33, C:0.11, G:0.12, T:0.44
Consensus pattern (31 bp):
AATTTAACTCTTTTTGAATAGTTGATGACCA
Found at i:11335922 original size:38 final size:38
Alignment explanation
Indices: 11335871--11335945 Score: 150
Period size: 38 Copynumber: 2.0 Consensus size: 38
11335861 ATATATGGAC
11335871 TCGATCAATGGAAATTGCTCTTCTTGCCAAAAACAAAG
1 TCGATCAATGGAAATTGCTCTTCTTGCCAAAAACAAAG
11335909 TCGATCAATGGAAATTGCTCTTCTTGCCAAAAACAAA
1 TCGATCAATGGAAATTGCTCTTCTTGCCAAAAACAAA
11335946 CTTGGATTTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.27
Consensus pattern (38 bp):
TCGATCAATGGAAATTGCTCTTCTTGCCAAAAACAAAG
Found at i:11337837 original size:21 final size:21
Alignment explanation
Indices: 11337813--11337855 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
11337803 TTTTAGGGAG
11337813 AATGTGTACTAATAGCTTGCT
1 AATGTGTACTAATAGCTTGCT
11337834 AATGTGTACTAATAGCTTGCT
1 AATGTGTACTAATAGCTTGCT
11337855 A
1 A
11337856 CATTATCAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.37
Consensus pattern (21 bp):
AATGTGTACTAATAGCTTGCT
Found at i:11339356 original size:13 final size:13
Alignment explanation
Indices: 11339338--11339367 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
11339328 ACATTGCAGT
11339338 TGAAAAATGATGG
1 TGAAAAATGATGG
11339351 TGAAAAATGATGG
1 TGAAAAATGATGG
11339364 TGAA
1 TGAA
11339368 GTTTTAGCAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.30, T:0.23
Consensus pattern (13 bp):
TGAAAAATGATGG
Found at i:11340304 original size:3 final size:3
Alignment explanation
Indices: 11340291--11340321 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
11340281 TCCCCTTTCC
*
11340291 ATA AAA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
11340322 ACCTTCAAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:11340713 original size:31 final size:31
Alignment explanation
Indices: 11340648--11340714 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
11340638 TTAATCTATA
* * * *
11340648 AAATTTGACTCTTTTTGAATAGTTGATGATC
1 AAATTTGACTCTTTTTGAAAAATTAATGACC
11340679 AAATTTGACTCTTTTT-ATAAAATTAATGACC
1 AAATTTGACTCTTTTTGA-AAAATTAATGACC
11340710 AAATT
1 AAATT
11340715 AACAAGAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 1 0.03
31 30 0.97
ACGTcount: A:0.36, C:0.10, G:0.10, T:0.43
Consensus pattern (31 bp):
AAATTTGACTCTTTTTGAAAAATTAATGACC
Found at i:11341622 original size:2 final size:2
Alignment explanation
Indices: 11341615--11341645 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
11341605 GAATTGTGTT
11341615 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 T
11341646 TTCTTGATCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11349980 original size:35 final size:35
Alignment explanation
Indices: 11349915--11350004 Score: 99
Period size: 35 Copynumber: 2.6 Consensus size: 35
11349905 GTTAAAGGTG
* * *
11349915 ACTTTAAAAAGGTTGGGATAGATCCATCTAAAACA
1 ACTTTTAAAAGGTTGAGATAGACCCATCTAAAACA
* * ***
11349950 ACTTTTAAAAGGTTGAGATATACCCGTCTAAGGTA
1 ACTTTTAAAAGGTTGAGATAGACCCATCTAAAACA
*
11349985 ACCTTTAAAAGGTTGAGATA
1 ACTTTTAAAAGGTTGAGATA
11350005 AACATGCCTA
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 46 1.00
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.29
Consensus pattern (35 bp):
ACTTTTAAAAGGTTGAGATAGACCCATCTAAAACA
Found at i:11350016 original size:35 final size:35
Alignment explanation
Indices: 11349948--11350088 Score: 113
Period size: 35 Copynumber: 4.0 Consensus size: 35
11349938 CCATCTAAAA
* * * *
11349948 CAACTTTTAAAAGGTTGAGATATACCCGTCTAAGG
1 CAACCTTTAAAAGGTTGAGATAAACACGCCTAAGG
* *
11349983 TAACCTTTAAAAGGTTGAGATAAACATGCCTAAGG
1 CAACCTTTAAAAGGTTGAGATAAACACGCCTAAGG
* * * * *
11350018 CAACC-TTATATAGGTTGAGATAAATAGGTCTAAGT
1 CAACCTTTA-AAAGGTTGAGATAAACACGCCTAAGG
* * * * **
11350053 CAACCTTAAAAATGTTGGGATAGACACATCTAAGG
1 CAACCTTTAAAAGGTTGAGATAAACACGCCTAAGG
11350088 C
1 C
11350089 TATTTTTTTA
Statistics
Matches: 83, Mismatches: 21, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
34 3 0.04
35 78 0.94
36 2 0.02
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.27
Consensus pattern (35 bp):
CAACCTTTAAAAGGTTGAGATAAACACGCCTAAGG
Found at i:11350086 original size:70 final size:70
Alignment explanation
Indices: 11349909--11350088 Score: 163
Period size: 70 Copynumber: 2.6 Consensus size: 70
11349899 GTCCATGTTA
* * ** * *
11349909 AAGGTGACTTTAAAAAGGTTGGGATAGATC-CATCTAAAACAACTTTTAAAAGGTTGAGATATAC
1 AAGGTAACCTTAAAAAGGTTGGGATAGA-CACATCTAAGGCAACTTATAAAAGGTTGAGATAAAC
*
11349973 CCGTCT
65 ACGTCT
* * *
11349979 AAGGTAACCTTTAAAAGGTTGAGATA-A-ACATGCCTAAGGCAACCTTAT-ATAGGTTGAGATAA
1 AAGGTAACCTTAAAAAGGTTGGGATAGACACAT--CTAAGGCAA-CTTATAAAAGGTTGAGATAA
* *
11350041 ATAGGTCT
63 ACACGTCT
*
11350049 AA-GTCAACCTTAAAAATGTTGGGATAGACACATCTAAGGC
1 AAGGT-AACCTTAAAAAGGTTGGGATAGACACATCTAAGGC
11350089 TATTTTTTTA
Statistics
Matches: 88, Mismatches: 15, Indels: 14
0.75 0.13 0.12
Matches are distributed among these distances:
68 3 0.03
69 3 0.03
70 73 0.83
71 5 0.06
72 4 0.05
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.27
Consensus pattern (70 bp):
AAGGTAACCTTAAAAAGGTTGGGATAGACACATCTAAGGCAACTTATAAAAGGTTGAGATAAACA
CGTCT
Found at i:11359224 original size:5 final size:5
Alignment explanation
Indices: 11359207--11359262 Score: 53
Period size: 5 Copynumber: 11.4 Consensus size: 5
11359197 TAAAAAAATT
* * * *
11359207 ATAAA ATATA ATACA ATAAA AT-AA A-AAC ATAAA CTAATA ATAAA ATAAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAA-A ATAAA ATAAA
11359256 ATAAA AT
1 ATAAA AT
11359263 TGGGCCCCTT
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
4 5 0.12
5 32 0.78
6 4 0.10
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.23
Consensus pattern (5 bp):
ATAAA
Found at i:11360033 original size:24 final size:25
Alignment explanation
Indices: 11359978--11360033 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 25
11359968 CCCAATTGAT
*
11359978 GTGGAC-ATGTTATTTAATTGGCAT
1 GTGGACAATGTTATTTAATTGGCAC
* *
11360002 GTGGACAAT-TTATTTTATTGTCAC
1 GTGGACAATGTTATTTAATTGGCAC
11360026 GTGGACAA
1 GTGGACAA
11360034 CTCTGTATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 26 0.93
25 2 0.07
ACGTcount: A:0.27, C:0.11, G:0.23, T:0.39
Consensus pattern (25 bp):
GTGGACAATGTTATTTAATTGGCAC
Found at i:11360733 original size:21 final size:21
Alignment explanation
Indices: 11360707--11360759 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
11360697 AATAGGGCTC
11360707 ACACGCCCGTGTGACCCTAGG
1 ACACGCCCGTGTGACCCTAGG
* **
11360728 ACACGCCCGTGTGACCTTTTG
1 ACACGCCCGTGTGACCCTAGG
11360749 ACACGCCCGTG
1 ACACGCCCGTG
11360760 CTTCAGACAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.17, C:0.38, G:0.26, T:0.19
Consensus pattern (21 bp):
ACACGCCCGTGTGACCCTAGG
Found at i:11375614 original size:7 final size:7
Alignment explanation
Indices: 11375602--11375626 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
11375592 ATATGACAAC
11375602 CATACAT
1 CATACAT
11375609 CATACAT
1 CATACAT
11375616 CATACAT
1 CATACAT
11375623 CATA
1 CATA
11375627 AGGCTATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.28, G:0.00, T:0.28
Consensus pattern (7 bp):
CATACAT
Found at i:11376298 original size:25 final size:25
Alignment explanation
Indices: 11376265--11376335 Score: 72
Period size: 25 Copynumber: 2.8 Consensus size: 25
11376255 ACGAGAGTTA
* *
11376265 ATCGATAAGCTCATCTGAGCTAAAT
1 ATCGGTAAGCTCATCCGAGCTAAAT
* * * *
11376290 TTCGGTAAGCTCTTCCGAGCTGAGT
1 ATCGGTAAGCTCATCCGAGCTAAAT
11376315 ATCGGTAAGCTC-TCACGAGCT
1 ATCGGTAAGCTCATC-CGAGCT
11376336 GCAAATCAGT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
24 2 0.05
25 36 0.95
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.28
Consensus pattern (25 bp):
ATCGGTAAGCTCATCCGAGCTAAAT
Found at i:11376347 original size:25 final size:26
Alignment explanation
Indices: 11376294--11376361 Score: 63
Period size: 25 Copynumber: 2.7 Consensus size: 26
11376284 CTAAATTTCG
* * *
11376294 GTAAGCTCTTC-CGAGCTGAGTATCG
1 GTAAGCTCATCACGAGCTGAGAATCA
11376319 GTAAGCTC-TCACGAGCTGCA-AATCA
1 GTAAGCTCATCACGAGCTG-AGAATCA
*
11376344 GTAATCTCAT-ACGAGCTG
1 GTAAGCTCATCACGAGCTG
11376362 TGGTGAGTCC
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
24 2 0.05
25 33 0.89
26 2 0.05
ACGTcount: A:0.26, C:0.25, G:0.24, T:0.25
Consensus pattern (26 bp):
GTAAGCTCATCACGAGCTGAGAATCA
Found at i:11378712 original size:51 final size:51
Alignment explanation
Indices: 11378636--11378755 Score: 159
Period size: 51 Copynumber: 2.4 Consensus size: 51
11378626 CTCAAACTTA
* * * *
11378636 CTTCATACTTCATTCGGAATTATTACCTTGTTGCTCTAACTTCAACAAGAG
1 CTTCATATTTCATCCGGAATAATTACCTTGCTGCTCTAACTTCAACAAGAG
* * * *
11378687 CTTCATATTTCATCCGGAATAATTACTTTGCTGCTTTAGCTTTAACAAGAG
1 CTTCATATTTCATCCGGAATAATTACCTTGCTGCTCTAACTTCAACAAGAG
*
11378738 CTTCATATTTTATCCGGA
1 CTTCATATTTCATCCGGA
11378756 TAACTTAGTT
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.27, C:0.22, G:0.12, T:0.39
Consensus pattern (51 bp):
CTTCATATTTCATCCGGAATAATTACCTTGCTGCTCTAACTTCAACAAGAG
Found at i:11382519 original size:22 final size:22
Alignment explanation
Indices: 11382494--11382535 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
11382484 TGGGTAGGAA
*
11382494 GTTTTCTAAAAATCTGCATTTT
1 GTTTTCGAAAAATCTGCATTTT
* *
11382516 GTTTTCGAAAATTTTGCATT
1 GTTTTCGAAAAATCTGCATT
11382536 GACAGCAATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.26, C:0.12, G:0.12, T:0.50
Consensus pattern (22 bp):
GTTTTCGAAAAATCTGCATTTT
Found at i:11384148 original size:27 final size:26
Alignment explanation
Indices: 11384103--11384153 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 26
11384093 TAAGGTTGAG
11384103 TTGATATTAAGTTATGAAATGTCATT
1 TTGATATTAAGTTATGAAATGTCATT
11384129 TTGATATTTAAGTT-TGGAAATGTCA
1 TTGATA-TTAAGTTAT-GAAATGTCA
11384154 CACTTGAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.33, C:0.04, G:0.18, T:0.45
Consensus pattern (26 bp):
TTGATATTAAGTTATGAAATGTCATT
Found at i:11384620 original size:49 final size:49
Alignment explanation
Indices: 11384548--11384644 Score: 176
Period size: 49 Copynumber: 2.0 Consensus size: 49
11384538 AAGATAGTTC
*
11384548 TTCAGAAGTTGAACCCTAGCCTGAAGAAAATACATAAGAATTTATGATT
1 TTCAGAAGTTGAACCCTAGCCTGAAGAAAATACACAAGAATTTATGATT
*
11384597 TTCAGAAGTTGAACCCTAGCCTGAAGAAAATACACAAGAGTTTATGAT
1 TTCAGAAGTTGAACCCTAGCCTGAAGAAAATACACAAGAATTTATGAT
11384645 GGTTCTTACT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.40, C:0.15, G:0.18, T:0.27
Consensus pattern (49 bp):
TTCAGAAGTTGAACCCTAGCCTGAAGAAAATACACAAGAATTTATGATT
Found at i:11386984 original size:7 final size:7
Alignment explanation
Indices: 11386970--11387080 Score: 95
Period size: 7 Copynumber: 16.4 Consensus size: 7
11386960 TTCAAAGTTC
11386970 AAGGTTT
1 AAGGTTT
*
11386977 AAGATTT
1 AAGGTTT
*
11386984 ATGGTTT
1 AAGGTTT
*
11386991 GA-GTTT
1 AAGGTTT
11386997 AA-GTTT
1 AAGGTTT
11387003 AAGGTTT
1 AAGGTTT
11387010 AAGGTTT
1 AAGGTTT
11387017 AAGGTTT
1 AAGGTTT
*
11387024 AAGATTT
1 AAGGTTT
*
11387031 AAGGTGT
1 AAGGTTT
* *
11387038 GAGGTTC
1 AAGGTTT
**
11387045 GTGGTTT
1 AAGGTTT
11387052 AAGGTTT
1 AAGGTTT
*
11387059 -AGGGTT
1 AAGGTTT
*
11387065 CAGGTTT
1 AAGGTTT
11387072 -AGGTTT
1 AAGGTTT
11387078 AAG
1 AAG
11387081 TAGGTTTGGG
Statistics
Matches: 83, Mismatches: 18, Indels: 6
0.78 0.17 0.06
Matches are distributed among these distances:
6 22 0.27
7 61 0.73
ACGTcount: A:0.25, C:0.02, G:0.31, T:0.42
Consensus pattern (7 bp):
AAGGTTT
Found at i:11387007 original size:33 final size:34
Alignment explanation
Indices: 11386964--11387033 Score: 97
Period size: 33 Copynumber: 2.1 Consensus size: 34
11386954 TTGGGGTTCA
* *
11386964 AAGTTCAAGGTTTAAGATTTATGGTTTGAG-TTT
1 AAGTTCAAGGTTTAAGATTTAAGGTTTAAGATTT
* *
11386997 AAGTTTAAGGTTTAAGGTTTAAGGTTTAAGATTT
1 AAGTTCAAGGTTTAAGATTTAAGGTTTAAGATTT
11387031 AAG
1 AAG
11387034 GTGTGAGGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
33 26 0.81
34 6 0.19
ACGTcount: A:0.31, C:0.01, G:0.24, T:0.43
Consensus pattern (34 bp):
AAGTTCAAGGTTTAAGATTTAAGGTTTAAGATTT
Found at i:11389580 original size:46 final size:45
Alignment explanation
Indices: 11389508--11389631 Score: 149
Period size: 45 Copynumber: 2.7 Consensus size: 45
11389498 ATTGTCAAAG
** * * **
11389508 GATGCCATAACGTCTTTCAAATATGGTCTTAGTCCCTATTTACCAT
1 GATGCCATAACGTCTTTCAGCTATGGTCTTACTCACT-TCCACCAT
* * *
11389554 GATGCCATAAAGTCTTTCAGCCATGGTCTTACTCACTTCCATCAT
1 GATGCCATAACGTCTTTCAGCTATGGTCTTACTCACTTCCACCAT
*
11389599 GATGCCATAGCGTCTTTCAGCTATGGTCTTACT
1 GATGCCATAACGTCTTTCAGCTATGGTCTTACT
11389632 AATTTTATCC
Statistics
Matches: 66, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
45 35 0.53
46 31 0.47
ACGTcount: A:0.23, C:0.26, G:0.15, T:0.35
Consensus pattern (45 bp):
GATGCCATAACGTCTTTCAGCTATGGTCTTACTCACTTCCACCAT
Found at i:11389614 original size:45 final size:44
Alignment explanation
Indices: 11389508--11389734 Score: 195
Period size: 44 Copynumber: 5.1 Consensus size: 44
11389498 ATTGTCAAAG
* * ** * * *
11389508 GATGCCATAACGTCTTTCAAATATGGTCTTAGTCCCTATTTACCAT
1 GATGCCATAGCATCTTTCAGCTATGGTCTTACT-CAT-TTTATCAT
* * **
11389554 GATGCCATA-AAGTCTTTCAGCCATGGTCTTACTCACTTCCATCAT
1 GATGCCATAGCA-TCTTTCAGCTATGGTCTTACTCA-TTTTATCAT
* * *
11389599 GATGCCATAGCGTCTTTCAGCTATGGTCTTACTAATTTTATCCT
1 GATGCCATAGCATCTTTCAGCTATGGTCTTACTCATTTTATCAT
* * * *
11389643 GATGTCATAGCATTTTTCAGCTATGGACTTACTCATTTTATCTT
1 GATGCCATAGCATCTTTCAGCTATGGTCTTACTCATTTTATCAT
* ** * *
11389687 GATTCCATAGCATCTTTCAAATATGGTCTTACTCGTTTGAATCAT
1 GATGCCATAGCATCTTTCAGCTATGGTCTTACTCATTT-TATCAT
11389732 GAT
1 GAT
11389735 TAACCTACTC
Statistics
Matches: 145, Mismatches: 32, Indels: 9
0.78 0.17 0.05
Matches are distributed among these distances:
44 75 0.52
45 43 0.30
46 27 0.19
ACGTcount: A:0.24, C:0.22, G:0.14, T:0.39
Consensus pattern (44 bp):
GATGCCATAGCATCTTTCAGCTATGGTCTTACTCATTTTATCAT
Found at i:11392584 original size:24 final size:23
Alignment explanation
Indices: 11392545--11392591 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
11392535 AAAAAAGAAG
*
11392545 AAGAAAGAAGTAACTTGGACAAA
1 AAGAAAGAAGTAACTTAGACAAA
*
11392568 AAGAAACGAAGTGACTTAGACAAA
1 AAGAAA-GAAGTAACTTAGACAAA
11392592 TCTTTTTTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 6 0.29
24 15 0.71
ACGTcount: A:0.55, C:0.11, G:0.21, T:0.13
Consensus pattern (23 bp):
AAGAAAGAAGTAACTTAGACAAA
Found at i:11393527 original size:39 final size:39
Alignment explanation
Indices: 11393473--11393552 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
11393463 GAAGATCATT
11393473 TTTCGAAGGGTTTCATAAGTTATTTTTATTGAAACTTTG
1 TTTCGAAGGGTTTCATAAGTTATTTTTATTGAAACTTTG
*
11393512 TTTCGAAGGGTTTCATAAGTTGTTTTTATTGAAACTTTG
1 TTTCGAAGGGTTTCATAAGTTATTTTTATTGAAACTTTG
11393551 TT
1 TT
11393553 CTTAAAAGGG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.24, C:0.07, G:0.19, T:0.50
Consensus pattern (39 bp):
TTTCGAAGGGTTTCATAAGTTATTTTTATTGAAACTTTG
Found at i:11398972 original size:9 final size:9
Alignment explanation
Indices: 11398953--11398982 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
11398943 CGTCCCATCG
11398953 CTGCT-CAC
1 CTGCTCCAC
11398961 CTGCTCCAC
1 CTGCTCCAC
11398970 CTGCTCCAC
1 CTGCTCCAC
11398979 CTGC
1 CTGC
11398983 AAAGAGAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 5 0.24
9 16 0.76
ACGTcount: A:0.10, C:0.53, G:0.13, T:0.23
Consensus pattern (9 bp):
CTGCTCCAC
Found at i:11405166 original size:9 final size:9
Alignment explanation
Indices: 11405152--11405180 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
11405142 TCATGAATTC
11405152 AAAAAATCA
1 AAAAAATCA
11405161 AAAAAATCA
1 AAAAAATCA
11405170 AAAAAATCA
1 AAAAAATCA
11405179 AA
1 AA
11405181 GTCAAAATAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.79, C:0.10, G:0.00, T:0.10
Consensus pattern (9 bp):
AAAAAATCA
Found at i:11407371 original size:44 final size:44
Alignment explanation
Indices: 11407322--11407548 Score: 169
Period size: 44 Copynumber: 5.2 Consensus size: 44
11407312 AGTTAAAGAT
11407322 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
1 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
* * * ** * * * * *
11407366 CTTGCC-TCTTTCGGTTGTGATG-G-AGCTGGTTGAAGACAAAAGAT
1 CTTGCCTTCCTGC-ATTGACA-GCGAAGCAGATCGAAGACACAA-AC
*
11407410 CTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
1 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
* * * ** * * * *
11407454 CTTGCC-TCTTTCGGTTGTGATG-G-AGCTGGTCGAAGACAAAAGAT
1 CTTGCCTTCCTGC-ATTGACA-GCGAAGCAGATCGAAGACACAA-AC
*
11407498 CTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
1 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
11407542 CTTGCCT
1 CTTGCCT
11407549 CTTTCGGTTG
Statistics
Matches: 130, Mismatches: 41, Indels: 24
0.67 0.21 0.12
Matches are distributed among these distances:
43 38 0.29
44 55 0.42
45 37 0.28
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (44 bp):
CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
Found at i:11407465 original size:88 final size:88
Alignment explanation
Indices: 11407316--11407708 Score: 589
Period size: 88 Copynumber: 4.5 Consensus size: 88
11407306 CAATGAAGTT
11407316 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
11407381 TGTGATGGAGCTGGTTGAAGACA
66 TGTGATGGAGCTGGTTGAAGACA
*
11407404 AAAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
*
11407469 TGTGATGGAGCTGGTCGAAGACA
66 TGTGATGGAGCTGGTTGAAGACA
*
11407492 AAAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
11407557 TGTGATGGAGCTGGTTGAAGACA
66 TGTGATGGAGCTGGTTGAAGACA
* * **
11407580 AAAGATCTTGCCTTCCTACATTAACAGCGAAGCAGATCGAA-A-ACAAAGCCTTGCAC-CCATCG
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAA-CCTTGC-CTCTTTCG
* * * *
11407642 ATTG-CAGTGGAGCTAGTTAAAGA-A
64 GTTGTGA-TGGAGCTGGTTGAAGACA
** * *
11407666 GTAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCAAAGA
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGA
11407709 TAGTAATCCT
Statistics
Matches: 285, Mismatches: 16, Indels: 9
0.92 0.05 0.03
Matches are distributed among these distances:
86 44 0.15
87 29 0.10
88 212 0.74
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.24
Consensus pattern (88 bp):
AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
TGTGATGGAGCTGGTTGAAGACA
Found at i:11407590 original size:44 final size:44
Alignment explanation
Indices: 11407352--11407592 Score: 185
Period size: 43 Copynumber: 5.5 Consensus size: 44
11407342 GCGAAGCAGA
* *
11407352 TCGAAGACACAA-ACCTTGCCTCTTTCGGTTGTGATGGAGCTGG
1 TCGAAGACAAAAGATCTTGCCTCTTTCGGTTGTGATGGAGCTGG
* ** * * *
11407395 TTGAAGACAAAAGATCTTG-C-CTTTCTGCAT-TGACAGCGAAGCAGA
1 TCGAAGACAAAAGATCTTGCCTCTTTC-GGTTGTGA-TG-G-AGCTGG
* *
11407440 TCGAAGACACAA-ACCTTGCCTCTTTCGGTTGTGATGGAGCTGG
1 TCGAAGACAAAAGATCTTGCCTCTTTCGGTTGTGATGGAGCTGG
** * * *
11407483 TCGAAGACAAAAGATCTTG-C-CTTTCTGCAT-TGACAGCGAAGCAGA
1 TCGAAGACAAAAGATCTTGCCTCTTTC-GGTTGTGA-TG-G-AGCTGG
* *
11407528 TCGAAGACACAA-ACCTTGCCTCTTTCGGTTGTGATGGAGCTGG
1 TCGAAGACAAAAGATCTTGCCTCTTTCGGTTGTGATGGAGCTGG
*
11407571 TTGAAGACAAAAGATCTTGCCT
1 TCGAAGACAAAAGATCTTGCCT
11407593 TCCTACATTA
Statistics
Matches: 148, Mismatches: 33, Indels: 33
0.69 0.15 0.15
Matches are distributed among these distances:
42 16 0.11
43 47 0.32
44 32 0.22
45 37 0.25
46 16 0.11
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (44 bp):
TCGAAGACAAAAGATCTTGCCTCTTTCGGTTGTGATGGAGCTGG
Found at i:11407853 original size:46 final size:44
Alignment explanation
Indices: 11407789--11408301 Score: 255
Period size: 46 Copynumber: 11.7 Consensus size: 44
11407779 AGAAGATCAC
* *
11407789 ATCAGGTCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAGA
1 ATCAGATCTTATCTCCCTGAGATTACAGTGGAACAGATCGAAGA
* * * *
11407833 ATCGCAGATCTTGTCTCCCTGAGGTTACAGCGGAGCAGATCGAAGA
1 AT--CAGATCTTATCTCCCTGAGATTACAGTGGAACAGATCGAAGA
* * * *
11407879 TAT-A-ATCCTATCTCCCTGA-AGTTACAGTGGAGCGGAT-TAA-A
1 -ATCAGATCTTATCTCCCTGAGA-TTACAGTGGAACAGATCGAAGA
* * * *
11407920 ATAAAGGATCTTATCTCTCTGA-AGTTACAGTAGAGA-AGATC--A-C
1 AT-CA-GATCTTATCTCCCTGAGA-TTACAGTGGA-ACAGATCGAAGA
* *
11407963 ATCAGGTCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAGA
1 ATCAGATCTTATCTCCCTGAGATTACAGTGGAACAGATCGAAGA
* * * *
11408007 ATCGCAGATCTTGTCTCCCTGAGGTTACAGCGGAGCAGATCGAAGA
1 AT--CAGATCTTATCTCCCTGAGATTACAGTGGAACAGATCGAAGA
* * * *
11408053 TAT-A-ATCCTATCTCCCTGA-AGTTACAGTGGAGCGGAT-TAA-A
1 -ATCAGATCTTATCTCCCTGAGA-TTACAGTGGAACAGATCGAAGA
* * * ** *
11408094 ATAAAGGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATC---GC
1 AT-CA-GATCTTATCTCCCTGAGA-TTACAGTGGAACAGATCGAAGA
* * * ** *
11408137 ATCAGGTCTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAAGA
1 ATCAGATCTTATCTCCCTGAGATTACAGTGGAACAGATCGAAGA
* * * *
11408181 ATTGCAGATCTTATCCCCCTGA-AGTTACAGTGGAGCAGATTGAAGCC
1 A-T-CAGATCTTATCTCCCTGAGA-TTACAGTGGAACAGATCGAAG-A
* * * *
11408228 A-GAGATCTTATCTCCCCGAGATTACAGCGGAGCAGATCGAAG-
1 ATCAGATCTTATCTCCCTGAGATTACAGTGGAACAGATCGAAGA
* *
11408270 A-CACTATCCTATCTCCCTGA-AGTTACAGTGGA
1 ATCA-GATCTTATCTCCCTGAGA-TTACAGTGGA
11408302 GTGGGTTAAA
Statistics
Matches: 367, Mismatches: 66, Indels: 73
0.73 0.13 0.14
Matches are distributed among these distances:
40 5 0.01
41 59 0.16
42 12 0.03
43 82 0.22
44 97 0.26
45 2 0.01
46 105 0.29
47 5 0.01
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.25
Consensus pattern (44 bp):
ATCAGATCTTATCTCCCTGAGATTACAGTGGAACAGATCGAAGA
Found at i:11408208 original size:87 final size:87
Alignment explanation
Indices: 11407752--11408298 Score: 407
Period size: 87 Copynumber: 6.3 Consensus size: 87
11407742 CGGATTAAAG
* * * *
11407752 GATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTTATCTCCCTGAGATTACAG
1 GATCTTATCTCCCTGAAGTTACAGTAGAGCAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAG
* *
11407817 TGGAACAGACCGAAGAATCGCA
66 TGGAGCAGACCGAAGAATTGCA
* * ** * ** * *
11407839 GATCTTGTCTCCCTGAGGTTACAGCGGAGCAGATCGAAGAT-ATAATCCTATCTCCCTGAAGTTA
1 GATCTTATCTCCCTGAAGTTACAGTAGAGCAGATCG--CATCA-GGTCTTATCTCCCTGAGGTTA
* ** **
11407903 CAGTGGAGCGGA-TTAA-AA-TAAA
63 CAGTGGAGCAGACCGAAGAATTGCA
* * * *
11407925 GGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTTATCTCCCTGAGATTACA
1 -GATCTTATCTCCCTGAAGTTACAGTAGAGCAGATCGCATCAGGTCTTATCTCCCTGAGGTTACA
* *
11407990 GTGGAACAGACCGAAGAATCGCA
65 GTGGAGCAGACCGAAGAATTGCA
* * ** * ** * *
11408013 GATCTTGTCTCCCTGAGGTTACAGCGGAGCAGATCGAAGAT-ATAATCCTATCTCCCTGAAGTTA
1 GATCTTATCTCCCTGAAGTTACAGTAGAGCAGATCG--CATCA-GGTCTTATCTCCCTGAGGTTA
* ** **
11408077 CAGTGGAGCGGA-TTAA-AA-TAAA
63 CAGTGGAGCAGACCGAAGAATTGCA
* * *
11408099 GGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCTCTGAGGTTACA
1 -GATCTTATCTCCCTGAAGTTACAGTAGAGCAGATCGCATCAGGTCTTATCTCCCTGAGGTTACA
*
11408164 GTGGAGTAGACCGAAGAATTGCA
65 GTGGAGCAGACCGAAGAATTGCA
* * * * * * *
11408187 GATCTTATCCCCCTGAAGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCCGAGATTA
1 GATCTTATCTCCCTGAAGTTACAGTAGAGCAGATCGCA-TCAG-G-TCTTATCTCCCTGAGGTTA
* *
11408252 CAGCGGAGCAGATCGAAG-A---CA
63 CAGTGGAGCAGACCGAAGAATTGCA
* *
11408273 CTATCCTATCTCCCTGAAGTTACAGT
1 -GATCTTATCTCCCTGAAGTTACAGT
11408299 GGAGTGGGTT
Statistics
Matches: 346, Mismatches: 94, Indels: 40
0.72 0.20 0.08
Matches are distributed among these distances:
85 56 0.16
86 10 0.03
87 179 0.52
88 12 0.03
89 58 0.17
90 31 0.09
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.26
Consensus pattern (87 bp):
GATCTTATCTCCCTGAAGTTACAGTAGAGCAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAG
TGGAGCAGACCGAAGAATTGCA
Found at i:11408298 original size:174 final size:174
Alignment explanation
Indices: 11407689--11408225 Score: 870
Period size: 174 Copynumber: 3.1 Consensus size: 174
11407679 TCCTGCATTA
* * * *
11407689 ACAGCGAAGCAGATCAAAGATAGTAATCCTATCTCCTTG-AGATTACAATGGAGCGGA-T----T
1 ACAGCGGAGCAGATCGAAGATA-TAATCCTATCTCCCTGAAG-TTACAGTGGAGCGGATTAAAAT
11407748 AAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTTATCTCCCTGAGATT
64 AAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTTATCTCCCTGAGATT
11407813 ACAGTGGAACAGACCGAAGAATCGCAGATCTTGTCTCCCTGAGGTT
129 ACAGTGGAACAGACCGAAGAATCGCAGATCTTGTCTCCCTGAGGTT
11407859 ACAGCGGAGCAGATCGAAGATATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAA
1 ACAGCGGAGCAGATCGAAGATATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAA
11407924 AGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTTATCTCCCTGAGATTAC
66 AGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTTATCTCCCTGAGATTAC
11407989 AGTGGAACAGACCGAAGAATCGCAGATCTTGTCTCCCTGAGGTT
131 AGTGGAACAGACCGAAGAATCGCAGATCTTGTCTCCCTGAGGTT
11408033 ACAGCGGAGCAGATCGAAGATATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAA
1 ACAGCGGAGCAGATCGAAGATATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAA
* * * *
11408098 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCTCTGAGGTTAC
66 AGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTTATCTCCCTGAGATTAC
** * * * *
11408163 AGTGGAGTAGACCGAAGAATTGCAGATCTTATCCCCCTGAAGTT
131 AGTGGAACAGACCGAAGAATCGCAGATCTTGTCTCCCTGAGGTT
* *
11408207 ACAGTGGAGCAGATTGAAG
1 ACAGCGGAGCAGATCGAAG
11408226 CCAGAGATCT
Statistics
Matches: 345, Mismatches: 16, Indels: 8
0.93 0.04 0.02
Matches are distributed among these distances:
169 29 0.08
170 23 0.07
174 293 0.85
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (174 bp):
ACAGCGGAGCAGATCGAAGATATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAA
AGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTTATCTCCCTGAGATTAC
AGTGGAACAGACCGAAGAATCGCAGATCTTGTCTCCCTGAGGTT
Found at i:11408752 original size:9 final size:9
Alignment explanation
Indices: 11408733--11408762 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
11408723 CGTCCCATCG
11408733 CTGCT-CAC
1 CTGCTCCAC
11408741 CTGCTCCAC
1 CTGCTCCAC
11408750 CTGCTCCAC
1 CTGCTCCAC
11408759 CTGC
1 CTGC
11408763 AAAGAGAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 5 0.24
9 16 0.76
ACGTcount: A:0.10, C:0.53, G:0.13, T:0.23
Consensus pattern (9 bp):
CTGCTCCAC
Found at i:11416902 original size:17 final size:19
Alignment explanation
Indices: 11416880--11416916 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
11416870 AAATTAAATT
11416880 ATAAT-ATTCTTT-ATACA
1 ATAATAATTCTTTGATACA
*
11416897 ATAATAATTTTTTGATACA
1 ATAATAATTCTTTGATACA
11416916 A
1 A
11416917 AATTCTAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 5 0.29
18 6 0.35
19 6 0.35
ACGTcount: A:0.43, C:0.08, G:0.03, T:0.46
Consensus pattern (19 bp):
ATAATAATTCTTTGATACA
Found at i:11417477 original size:17 final size:17
Alignment explanation
Indices: 11417455--11417488 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
11417445 ATCCACTAAT
*
11417455 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
11417472 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
11417489 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:11422116 original size:17 final size:17
Alignment explanation
Indices: 11422094--11422127 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
11422084 ATCCACTAAT
*
11422094 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
11422111 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
11422128 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:11428935 original size:76 final size:76
Alignment explanation
Indices: 11428799--11428952 Score: 229
Period size: 76 Copynumber: 2.0 Consensus size: 76
11428789 TTCTCAGAAC
* * * *
11428799 CAGGATCTTCGTTGAACCTAAATTAACATAATCCATATTAAAGGTAACTACTAAATCTGCTAGTA
1 CAGGATCTTCATTGAACCTAAATTAACATAATCCATATTAAAGGTAAATACTAAACCTGCTAATA
11428864 GGTAAATTACA
66 GGTAAATTACA
* * *
11428875 CAGGCTCTTCATTGAACCTTAATTAACATAATCCATATTAAAGG-AATATATTAAACCTGCTAAT
1 CAGGATCTTCATTGAACCTAAATTAACATAATCCATATTAAAGGTAA-ATACTAAACCTGCTAAT
11428939 AGGTAAATTACA
65 AGGTAAATTACA
11428951 CA
1 CA
11428953 CCCAAAATAA
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
75 2 0.03
76 68 0.97
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.31
Consensus pattern (76 bp):
CAGGATCTTCATTGAACCTAAATTAACATAATCCATATTAAAGGTAAATACTAAACCTGCTAATA
GGTAAATTACA
Found at i:11430761 original size:18 final size:18
Alignment explanation
Indices: 11430751--11430795 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
11430741 CTATCTTTTC
11430751 CCTTCTCTCTATCTCTAT
1 CCTTCTCTCTATCTCTAT
* *
11430769 CCTTCTCTCCT-TCCCTCT
1 CCTTCTCT-CTATCTCTAT
11430787 CCTTCTCTC
1 CCTTCTCTC
11430796 GATCCTTAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 1 0.04
18 21 0.88
19 2 0.08
ACGTcount: A:0.04, C:0.49, G:0.00, T:0.47
Consensus pattern (18 bp):
CCTTCTCTCTATCTCTAT
Found at i:11430861 original size:18 final size:18
Alignment explanation
Indices: 11430816--11430862 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
11430806 TTTGTCTCTC
*
11430816 TCCTTTTCCCTTTCCTTG
1 TCCTTTTCTCTTTCCTTG
* * *
11430834 GCCTTGTCTCTTTCCTTT
1 TCCTTTTCTCTTTCCTTG
11430852 TCCTTTTCTCT
1 TCCTTTTCTCT
11430863 GTCCCTATCT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.00, C:0.36, G:0.06, T:0.57
Consensus pattern (18 bp):
TCCTTTTCTCTTTCCTTG
Found at i:11432856 original size:17 final size:17
Alignment explanation
Indices: 11432836--11432889 Score: 74
Period size: 17 Copynumber: 3.1 Consensus size: 17
11432826 ATATATAAAA
11432836 TCTAAAACAATTATATT
1 TCTAAAACAATTATATT
11432853 TCTAAAACAATTATAAATT
1 TCTAAAACAATTAT--ATT
*
11432872 TATAAAA-AATTATATT
1 TCTAAAACAATTATATT
11432888 TC
1 TC
11432890 ACATCAAGAC
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
16 4 0.12
17 14 0.42
18 6 0.18
19 9 0.27
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (17 bp):
TCTAAAACAATTATATT
Found at i:11442182 original size:2 final size:2
Alignment explanation
Indices: 11442175--11442212 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
11442165 ATTATTTTTC
* *
11442175 AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT TT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11442213 GATACACTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (2 bp):
AT
Found at i:11451956 original size:49 final size:49
Alignment explanation
Indices: 11451707--11452017 Score: 225
Period size: 48 Copynumber: 6.5 Consensus size: 49
11451697 TTTGTGTGCT
* * *
11451707 AGTGTAAGACATGTCTGGGACAT-GCATCGACCACAAT--ATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCAATAGATGAAAGCC
* * * * * * ** *
11451753 AGTGTAAGACATGTATGGGACATGTG--TCGGCCTCGAGATATTTAAGCT
1 AGTGTAAGACCTGTCTGGGACATG-GCATCGACCTCAATAGATGAAAGCC
* * ** * *
11451801 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCACGATAT-ACAAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCAATAGATGA-AAGCC
* * ** * * *
11451849 AGTGTAAGACCTATCTGGGACATGGCATC-AGCT-TGT-TATG--TGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCAATAGATGAAAGCC
11451893 AGTGTAAGACCTGTCTGGGACATGGCATCGACAC-CAATAGATGAAAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCAATAGATGAAAGCC
* * * * *
11451942 AGTGTAAGACCTGTCTAGGACATGACATCTACCTCACTATATGAAAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCAATAGATGAAAGCC
11451991 AGTGTAAGACCATGTCTGGGACATGGC
1 AGTGTAAGACC-TGTCTGGGACATGGC
11452018 GTTGGCATTT
Statistics
Matches: 211, Mismatches: 37, Indels: 30
0.76 0.13 0.11
Matches are distributed among these distances:
44 29 0.14
45 1 0.00
46 35 0.17
47 3 0.01
48 70 0.33
49 60 0.28
50 13 0.06
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCAATAGATGAAAGCC
Found at i:11451963 original size:93 final size:92
Alignment explanation
Indices: 11451801--11451970 Score: 218
Period size: 93 Copynumber: 1.8 Consensus size: 92
11451791 TATTTAAGCT
* * * * *
11451801 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCACGATATACAAGCTAGTGTAAGACCTATCTG
1 AGTGTAAGACATGTCTGGGACATGCATCGACCTCAAGAGATACAAGCCAGTGTAAGACCTATCTA
*
11451866 GGACATGGCATCAGCTTGTTATGTGTC
66 GGACATGACATCAGCTTGTTATGTGTC
* * *
11451893 AGTGTAAGACCTGTCTGGGACATGGCATCGACAC-CAATAGATGA-AAGCCAGTGTAAGACCTGT
1 AGTGTAAGACATGTCTGGGACAT-GCATCGAC-CTCAAGAGAT-ACAAGCCAGTGTAAGACCTAT
11451956 CTAGGACATGACATC
63 CTAGGACATGACATC
11451971 TACCTCACTA
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
92 22 0.33
93 42 0.64
94 2 0.03
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (92 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACCTCAAGAGATACAAGCCAGTGTAAGACCTATCTA
GGACATGACATCAGCTTGTTATGTGTC
Found at i:11455045 original size:19 final size:17
Alignment explanation
Indices: 11455021--11455066 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 17
11455011 CAAAGCCCGG
11455021 TAAATGATAATGCCTACAA
1 TAAATGATAATGCC--CAA
* *
11455040 TAAATGATATTGCCCGA
1 TAAATGATAATGCCCAA
11455057 TAAATGATAA
1 TAAATGATAA
11455067 ATTATAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 11 0.46
19 13 0.54
ACGTcount: A:0.46, C:0.13, G:0.13, T:0.28
Consensus pattern (17 bp):
TAAATGATAATGCCCAA
Found at i:11455061 original size:17 final size:17
Alignment explanation
Indices: 11455015--11455066 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
11455005 ATTCGACAAA
*
11455015 GCCCGGTAAATGATAAT
1 GCCCGATAAATGATAAT
* *
11455032 GCCTACAATAAATGATATT
1 GCC--CGATAAATGATAAT
11455051 GCCCGATAAATGATAA
1 GCCCGATAAATGATAA
11455067 ATTATAAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
17 14 0.50
19 14 0.50
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.25
Consensus pattern (17 bp):
GCCCGATAAATGATAAT
Found at i:11458308 original size:27 final size:28
Alignment explanation
Indices: 11458277--11458335 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
11458267 TCAATTTCCA
11458277 AAAATA-GTA-AAGAATTTTCCTCAACAG
1 AAAATATGTAGAA-AATTTTCCTCAACAG
* *
11458304 AAAATATTTAGAAAATTTTCCTCAACCG
1 AAAATATGTAGAAAATTTTCCTCAACAG
11458332 AAAA
1 AAAA
11458336 ATATTCTAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 6 0.21
28 20 0.71
29 2 0.07
ACGTcount: A:0.49, C:0.15, G:0.08, T:0.27
Consensus pattern (28 bp):
AAAATATGTAGAAAATTTTCCTCAACAG
Found at i:11458320 original size:28 final size:30
Alignment explanation
Indices: 11458289--11458346 Score: 93
Period size: 28 Copynumber: 2.0 Consensus size: 30
11458279 AATAGTAAAG
11458289 AATTTTCCTCAACAG-AAAATATT-TAGAA
1 AATTTTCCTCAACAGAAAAATATTCTAGAA
*
11458317 AATTTTCCTCAACCGAAAAATATTCTAGAA
1 AATTTTCCTCAACAGAAAAATATTCTAGAA
11458347 TAGAAAATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 14 0.52
29 8 0.30
30 5 0.19
ACGTcount: A:0.45, C:0.17, G:0.07, T:0.31
Consensus pattern (30 bp):
AATTTTCCTCAACAGAAAAATATTCTAGAA
Found at i:11472548 original size:17 final size:17
Alignment explanation
Indices: 11472526--11472575 Score: 100
Period size: 17 Copynumber: 2.9 Consensus size: 17
11472516 TCGGGTAGGA
11472526 CCCTGGCAAAAGAAGTG
1 CCCTGGCAAAAGAAGTG
11472543 CCCTGGCAAAAGAAGTG
1 CCCTGGCAAAAGAAGTG
11472560 CCCTGGCAAAAGAAGT
1 CCCTGGCAAAAGAAGT
11472576 CTTACCCGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 33 1.00
ACGTcount: A:0.36, C:0.24, G:0.28, T:0.12
Consensus pattern (17 bp):
CCCTGGCAAAAGAAGTG
Found at i:11472689 original size:45 final size:45
Alignment explanation
Indices: 11472634--11472723 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 45
11472624 CAAGTCTATT
* *
11472634 TTTTGAACCTATATTTTTGTCCAAACCTTCTCACCCCCATAGATA
1 TTTTAAACCTATATTTTTGTCCAAACCTTCCCACCCCCATAGATA
11472679 TTTTAAACCTATATTTTTGTCCAAACCTTCCCACCCCCATAGATA
1 TTTTAAACCTATATTTTTGTCCAAACCTTCCCACCCCCATAGATA
11472724 GTTCTAAATA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.28, C:0.30, G:0.06, T:0.37
Consensus pattern (45 bp):
TTTTAAACCTATATTTTTGTCCAAACCTTCCCACCCCCATAGATA
Found at i:11472836 original size:19 final size:20
Alignment explanation
Indices: 11472792--11472857 Score: 54
Period size: 19 Copynumber: 3.6 Consensus size: 20
11472782 TACATATCTC
* *
11472792 ATTATATATA-TTTAATAAT
1 ATTATTTATATTTTAACAAT
*
11472811 ATAATTTATATTTTAACAA-
1 ATTATTTATATTTTAACAAT
*
11472830 ATTATTTA-ATATTAA-AAT
1 ATTATTTATATTTTAACAAT
11472848 -TTATTT-TATT
1 ATTATTTATATT
11472858 AAATAAAATT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
17 10 0.26
18 6 0.16
19 15 0.39
20 7 0.18
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (20 bp):
ATTATTTATATTTTAACAAT
Found at i:11475093 original size:27 final size:26
Alignment explanation
Indices: 11475019--11475112 Score: 98
Period size: 26 Copynumber: 3.6 Consensus size: 26
11475009 TATGTAATTC
* * * *
11475019 TTTAATTTGCTTTGTGTATTATTGAT
1 TTTAAATTGTTTTATGTATTATTCAT
* * ** *
11475045 TTTAAAATGCTTTATACATTATTTAT
1 TTTAAATTGTTTTATGTATTATTCAT
11475071 TTTAAACTTGTTTTATGTATTATTCAT
1 TTTAAA-TTGTTTTATGTATTATTCAT
11475098 TTTAAATTGTTTTAT
1 TTTAAATTGTTTTAT
11475113 TGTTTACTTT
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
26 35 0.62
27 21 0.38
ACGTcount: A:0.27, C:0.05, G:0.09, T:0.60
Consensus pattern (26 bp):
TTTAAATTGTTTTATGTATTATTCAT
Found at i:11479657 original size:28 final size:28
Alignment explanation
Indices: 11479597--11479649 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
11479587 GAAATCAAAC
*
11479597 AAATTATCCAAATTTATTTTTGATATGG
1 AAATTATCCAAATTTATTTTTGAAATGG
*
11479625 AAATTATCCCAATTTATTTTT-AAAT
1 AAATTATCCAAATTTATTTTTGAAAT
11479650 TTATAATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 3 0.13
28 20 0.87
ACGTcount: A:0.38, C:0.09, G:0.06, T:0.47
Consensus pattern (28 bp):
AAATTATCCAAATTTATTTTTGAAATGG
Found at i:11480307 original size:19 final size:19
Alignment explanation
Indices: 11480283--11480327 Score: 74
Period size: 18 Copynumber: 2.4 Consensus size: 19
11480273 AATGAACAGT
11480283 AAAAAAATGTTGAAAAAGA
1 AAAAAAATGTTGAAAAAGA
*
11480302 AAAAAAA-GTTGAAAACGA
1 AAAAAAATGTTGAAAAAGA
11480320 AAAAAAAT
1 AAAAAAAT
11480328 AAAAAAATAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 17 0.71
19 7 0.29
ACGTcount: A:0.71, C:0.02, G:0.13, T:0.13
Consensus pattern (19 bp):
AAAAAAATGTTGAAAAAGA
Found at i:11480515 original size:22 final size:25
Alignment explanation
Indices: 11480471--11480531 Score: 68
Period size: 27 Copynumber: 2.4 Consensus size: 25
11480461 GAAGCAGAGC
*
11480471 AAGGAGAAGAAAATAGAGGGAAAGA
1 AAGGAGAAGAAAATAGAGAGAAAGA
* *
11480496 AAGGAGAAGAAAAAAAGAAAGAAAAGA
1 AAGGAGAAG-AAAATAGAGAG-AAAGA
*
11480523 AAAGAGAAG
1 AAGGAGAAG
11480532 GTATGATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 9 0.30
26 8 0.27
27 13 0.43
ACGTcount: A:0.67, C:0.00, G:0.31, T:0.02
Consensus pattern (25 bp):
AAGGAGAAGAAAATAGAGAGAAAGA
Found at i:11480524 original size:17 final size:18
Alignment explanation
Indices: 11480491--11480525 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
11480481 AAATAGAGGG
*
11480491 AAAGAAAGGAGAAGAAAA
1 AAAGAAAGGAAAAGAAAA
11480509 AAAGAAA-GAAAAGAAAA
1 AAAGAAAGGAAAAGAAAA
11480526 GAGAAGGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (18 bp):
AAAGAAAGGAAAAGAAAA
Found at i:11480625 original size:20 final size:19
Alignment explanation
Indices: 11480574--11480629 Score: 64
Period size: 17 Copynumber: 3.1 Consensus size: 19
11480564 TGTTATTGTG
11480574 TTTTTGTTGTTATTATTA-
1 TTTTTGTTGTTATTATTAT
* *
11480592 TTGTTGAT-TT-TTATTAT
1 TTTTTGTTGTTATTATTAT
11480609 TTTTTGTTGTTAGTTATTAT
1 TTTTTGTTGTTA-TTATTAT
11480629 T
1 T
11480630 ATTGTTAGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
16 6 0.20
17 8 0.27
18 8 0.27
20 8 0.27
ACGTcount: A:0.16, C:0.00, G:0.12, T:0.71
Consensus pattern (19 bp):
TTTTTGTTGTTATTATTAT
Found at i:11486781 original size:17 final size:17
Alignment explanation
Indices: 11486759--11486797 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
11486749 CGGTAATAGT
11486759 ATGTTCCAATTTA-ATTA
1 ATGTTCCAA-TTAGATTA
11486776 ATGTTCCAATTAGATTA
1 ATGTTCCAATTAGATTA
11486793 ATGTT
1 ATGTT
11486798 GTAATGTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 3 0.14
17 18 0.86
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.46
Consensus pattern (17 bp):
ATGTTCCAATTAGATTA
Found at i:11487452 original size:72 final size:72
Alignment explanation
Indices: 11487335--11487472 Score: 206
Period size: 72 Copynumber: 1.9 Consensus size: 72
11487325 GCCCCCTGAC
* * *
11487335 GAGCCCGATAAATAGTTATTACCCAGAAAATCCGGATGATAAGAAGTATCAGCCGAATGTGAATG
1 GAGCCCGAGAAATAGTCATTACCCAGAAAATCCGAATGATAAGAAGTATCAGCCGAATGTGAATG
11487400 CGATGAT
66 CGATGAT
* * *
11487407 GAGCCCGGGAAATAGTCATTACCC-GCCAAATCCGAATGATAAGAAGTATCAGTCGAATGTGAAT
1 GAGCCCGAGAAATAGTCATTACCCAG-AAAATCCGAATGATAAGAAGTATCAGCCGAATGTGAAT
11487471 GC
65 GC
11487473 AATCGCTCAG
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
71 1 0.02
72 58 0.98
ACGTcount: A:0.36, C:0.19, G:0.24, T:0.21
Consensus pattern (72 bp):
GAGCCCGAGAAATAGTCATTACCCAGAAAATCCGAATGATAAGAAGTATCAGCCGAATGTGAATG
CGATGAT
Found at i:11489502 original size:151 final size:149
Alignment explanation
Indices: 11489347--11489868 Score: 776
Period size: 151 Copynumber: 3.5 Consensus size: 149
11489337 ATAAGTAAAA
*
11489347 TATTTTCGTATCTTATTTTTTAAAATATATTTTTTTCGTATTTTATTTTTTTATATTATTTTAGC
1 TATTTTCGTATCTTATTTTTTAAAATATATTATTTTCGTATTTTA-TTTTTTATATTATTTTAGC
*
11489412 AAAAAATGTTTCAAATGTATTATTTAAGTATTTTTTTATATTAATTTAATAAATAACCTTGATTT
65 AAAAAATGTTTCAAATGTATTATTTAAGT-TTTTTTTATATTAATTTAATAAATAACCCTGATTT
*
11489477 TGGCACTTTCTTCGTATTTTT
129 TGGCACTTTATTCGTATTTTT
*
11489498 TATTTTCGTATCTTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGT
1 TATTTTCGTATCTTATTTTTTAAAATATATTATTTTCGTATTTTATTT-TTTATATTATTTTAGC
* * **
11489563 ACATAATGTTTCAAATGTATTATTTAAGTGTTTTTTTATATTTTTTTAATAAATAACCCTGATTT
65 AAAAAATGTTTCAAATGTATTATTTAAGT-TTTTTTTATATTAATTTAATAAATAACCCTGATTT
* *
11489628 TAGCACTTTATTCGTGTTTTT
129 TGGCACTTTATTCGTATTTTT
* * *
11489649 TATTTTCATATATTATTTTTTAAAATATATTATTTTCGTATTTTATTGTTTATATTATTTTAGCA
1 TATTTTCGTATCTTATTTTTTAAAATATATTATTTTCGTATTTTATTTTTTATATTATTTTAGCA
* * *
11489714 AAAAATGTTTCAAATGTATTATTTAAGTTTTTTTTATAGTAATTGAATAAATAACCCTGACTTTG
66 AAAAATGTTTCAAATGTATTATTTAAGTTTTTTTTATATTAATTTAATAAATAACCCTGATTTTG
* *
11489779 GTACTTTGTTCGTATTTTTT
131 GCACTTTATTCGTA-TTTTT
* * * *
11489799 TATTTTCAG-ATTTTATTTTTTTAAATATACTATTTTCATATTTTATTTTTTATATTATTTTAGC
1 TATTTTC-GTATCTTATTTTTTAAAATATATTATTTTCGTATTTTATTTTTTATATTATTTTAGC
*
11489863 AGAAAA
65 AAAAAA
11489869 CTTGTCAACA
Statistics
Matches: 335, Mismatches: 33, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
149 42 0.13
150 112 0.33
151 181 0.54
ACGTcount: A:0.29, C:0.07, G:0.07, T:0.57
Consensus pattern (149 bp):
TATTTTCGTATCTTATTTTTTAAAATATATTATTTTCGTATTTTATTTTTTATATTATTTTAGCA
AAAAATGTTTCAAATGTATTATTTAAGTTTTTTTTATATTAATTTAATAAATAACCCTGATTTTG
GCACTTTATTCGTATTTTT
Found at i:11490456 original size:3 final size:3
Alignment explanation
Indices: 11490450--11490506 Score: 57
Period size: 3 Copynumber: 20.0 Consensus size: 3
11490440 CCTCCTCCTC
* * *
11490450 CTT CTT CTT C-T CTT CTT -TC CTT CTT CTC CTT CTT -TT CTT TTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
*
11490495 CTT CTC CTT CTT
1 CTT CTT CTT CTT
11490507 TGTTCTCGAA
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
2 5 0.12
3 38 0.88
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:11490470 original size:22 final size:22
Alignment explanation
Indices: 11490445--11490505 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
11490435 CTCCTCCTCC
*
11490445 TCCTCCTTCTTCTTCTCTTCTT
1 TCCTCCTTCTCCTTCTCTTCTT
* *
11490467 TCCTTCTTCTCCTTCTTTTCTTT
1 TCCTCCTTCTCCTTCTCTTC-TT
* *
11490490 TTCTTCTTCTCCTTCT
1 TCCTCCTTCTCCTTCT
11490506 TTGTTCTCGA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 17 0.50
23 17 0.50
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (22 bp):
TCCTCCTTCTCCTTCTCTTCTT
Found at i:11490843 original size:23 final size:23
Alignment explanation
Indices: 11490817--11490864 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
11490807 AAAACCCTTA
11490817 ATATCTC-ATTTGA-AAAATAAATT
1 ATATCTCAATTT-ATAAAA-AAATT
*
11490840 ATATTTCAATTTATAAAAAAATT
1 ATATCTCAATTTATAAAAAAATT
11490863 AT
1 AT
11490865 TTCTAGAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (23 bp):
ATATCTCAATTTATAAAAAAATT
Found at i:11492867 original size:45 final size:45
Alignment explanation
Indices: 11492816--11492951 Score: 254
Period size: 45 Copynumber: 3.0 Consensus size: 45
11492806 TAATAGTTAA
* *
11492816 AATTATTTTGATTCACATAATTCTCATTTTAAAATTTGTCACTAT
1 AATTATTTTGATTCACATAGTTTTCATTTTAAAATTTGTCACTAT
11492861 AATTATTTTGATTCACATAGTTTTCATTTTAAAATTTGTCACTAT
1 AATTATTTTGATTCACATAGTTTTCATTTTAAAATTTGTCACTAT
11492906 AATTATTTTGATTCACATAGTTTTCATTTTAAAATTTGTCACTAT
1 AATTATTTTGATTCACATAGTTTTCATTTTAAAATTTGTCACTAT
11492951 A
1 A
11492952 GTTACCACTA
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 89 1.00
ACGTcount: A:0.32, C:0.12, G:0.06, T:0.50
Consensus pattern (45 bp):
AATTATTTTGATTCACATAGTTTTCATTTTAAAATTTGTCACTAT
Found at i:11493462 original size:15 final size:16
Alignment explanation
Indices: 11493436--11493465 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
11493426 TAATATATTC
11493436 ATTATAATTTTTAATA
1 ATTATAATTTTTAATA
11493452 ATTAT-ATTTTTAAT
1 ATTATAATTTTTAAT
11493466 TTCTAAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
ATTATAATTTTTAATA
Found at i:11503925 original size:4 final size:4
Alignment explanation
Indices: 11503916--11503951 Score: 58
Period size: 4 Copynumber: 9.5 Consensus size: 4
11503906 AACAGGGGAA
11503916 AAAG AAAG AAAG AAA- AAA- AAAG AAAG AAAG AAAG AA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AA
11503952 GGAGAAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 6 0.19
4 25 0.81
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:11503932 original size:14 final size:14
Alignment explanation
Indices: 11503913--11503944 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
11503903 TGAAACAGGG
*
11503913 GAAAAAGAAAGAAA
1 GAAAAAAAAAGAAA
11503927 GAAAAAAAAAGAAA
1 GAAAAAAAAAGAAA
11503941 GAAA
1 GAAA
11503945 GAAAGAAGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (14 bp):
GAAAAAAAAAGAAA
Found at i:11503958 original size:18 final size:18
Alignment explanation
Indices: 11503914--11503948 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
11503904 GAAACAGGGG
11503914 AAAAAGAAAGAAAGAAAA
1 AAAAAGAAAGAAAGAAAA
11503932 AAAAAGAAAGAAAGAAA
1 AAAAAGAAAGAAAGAAA
11503949 GAAGGAGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (18 bp):
AAAAAGAAAGAAAGAAAA
Found at i:11504652 original size:26 final size:29
Alignment explanation
Indices: 11504631--11504691 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 29
11504621 TAAATTCATG
11504631 AGTATATGTGATTATTTGAATTGAATTGTGT
1 AGTATATGTGATTATTTGAATTGAA-T-TGT
*
11504662 AGTATATGTGATTATTTGAATTGAAATGT
1 AGTATATGTGATTATTTGAATTGAATTGT
11504691 A
1 A
11504692 TATTGGTTGA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 4 0.14
31 25 0.86
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (29 bp):
AGTATATGTGATTATTTGAATTGAATTGT
Found at i:11506291 original size:14 final size:15
Alignment explanation
Indices: 11506267--11506301 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
11506257 TATATATATT
11506267 ACCATATAAATACTA
1 ACCATATAAATACTA
11506282 ACCATA-AAATACTA
1 ACCATATAAATACTA
11506296 ATCCAT
1 A-CCAT
11506302 GATTAAAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (15 bp):
ACCATATAAATACTA
Found at i:11507000 original size:41 final size:41
Alignment explanation
Indices: 11506969--11507332 Score: 525
Period size: 41 Copynumber: 8.9 Consensus size: 41
11506959 CTATATAAAA
* ** * * * *
11506969 CACCGGCATAAAGCCTGCTAGGCACAAAGCCCG-ATTCATTT
1 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAAT-AATC
* * * * * *
11507010 CACCGGCA-CAAAGCCTGCTAGACATAAAGTCGGAATTAATT
1 CACCGGCATC-AAGCCTGCTAGGCATTAAGCCTGAAATAATC
* * * * *
11507051 CACCGGCATCAAGCCTGCTAGACATAAAGTCTAAAATAATT
1 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATC
*
11507092 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATT
1 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATC
11507133 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATC
1 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATC
11507174 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATC
1 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATC
11507215 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATC
1 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATC
11507256 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATC
1 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATC
11507297 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAA
1 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAA
11507333 ATCTCATATA
Statistics
Matches: 306, Mismatches: 14, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
41 302 0.99
42 4 0.01
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.20
Consensus pattern (41 bp):
CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATC
Done.