Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr5
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: 43060996
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2186021 characters in sequence are not A, C, G, or T
File 36 of 128
Found at i:11134378 original size:15 final size:15
Alignment explanation
Indices: 11134358--11134388 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
11134348 ATGTATTTAG
11134358 TTAATGTACATGCAT
1 TTAATGTACATGCAT
*
11134373 TTAATGTACATTCAT
1 TTAATGTACATGCAT
11134388 T
1 T
11134389 CATGCACGCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.13, G:0.10, T:0.45
Consensus pattern (15 bp):
TTAATGTACATGCAT
Found at i:11141399 original size:21 final size:21
Alignment explanation
Indices: 11141369--11141409 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
11141359 CGTTACTTTG
*
11141369 GTTTAATGATTTTGA-AAATC
1 GTTTAATGATATTGAGAAATC
11141389 GTTTATATGATATTGAGAAAT
1 GTTTA-ATGATATTGAGAAAT
11141410 GGTCTAATCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.37, C:0.02, G:0.17, T:0.44
Consensus pattern (21 bp):
GTTTAATGATATTGAGAAATC
Found at i:11141515 original size:47 final size:49
Alignment explanation
Indices: 11141448--11141576 Score: 154
Period size: 52 Copynumber: 2.6 Consensus size: 49
11141438 GAGAATTATG
* *
11141448 AATGATATTGAGAAATAGTATAATCTTGATTT-AATGATATTGAGAATT
1 AATGATTTTTAGAAATAGTATAATCTTGATTTAAATGATATTGAGAATT
* * * * *
11141496 -ATGGTTTTTAGAAATAGTATAATCTTGATTTTTAGAATTATGTTGTGATTT
1 AATGATTTTTAGAAATAGTATAATCTTGA--TTTA-AATGATATTGAGAATT
11141547 AATGATTTTTAGAAATAGTATAATCTTGAT
1 AATGATTTTTAGAAATAGTATAATCTTGAT
11141577 ATTGAAAAAT
Statistics
Matches: 68, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
47 25 0.37
49 3 0.04
50 1 0.01
51 12 0.18
52 27 0.40
ACGTcount: A:0.36, C:0.02, G:0.16, T:0.45
Consensus pattern (49 bp):
AATGATTTTTAGAAATAGTATAATCTTGATTTAAATGATATTGAGAATT
Found at i:11144282 original size:6 final size:6
Alignment explanation
Indices: 11144271--11144303 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
11144261 AAAATTTTTA
*
11144271 TTATTT TTATTT TTAATT TTATTT TTATTT TTA
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTA
11144304 ATTTGATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (6 bp):
TTATTT
Found at i:11144292 original size:18 final size:18
Alignment explanation
Indices: 11144271--11144307 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
11144261 AAAATTTTTA
11144271 TTATTTTTATTTTTAATT
1 TTATTTTTATTTTTAATT
11144289 TTATTTTTATTTTTAATT
1 TTATTTTTATTTTTAATT
11144307 T
1 T
11144308 GATAATTATT
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:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (18 bp):
TTATTTTTATTTTTAATT
Found at i:11144316 original size:18 final size:18
Alignment explanation
Indices: 11144277--11144318 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
11144267 TTTATTATTT
* **
11144277 TTATTTTTAATTTTATTT
1 TTATTTTTAATTTGATAA
11144295 TTATTTTTAATTTGATAA
1 TTATTTTTAATTTGATAA
11144313 TTATTT
1 TTATTT
11144319 CTCTAAATTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.71
Consensus pattern (18 bp):
TTATTTTTAATTTGATAA
Found at i:11146198 original size:2 final size:2
Alignment explanation
Indices: 11146191--11146215 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
11146181 ATGTATGGTG
11146191 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 T
11146216 GTCTAGTTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11154567 original size:24 final size:24
Alignment explanation
Indices: 11154534--11154591 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
11154524 AGAAAGTAAT
* *
11154534 AAAACACAAACCCATAAATCAATA
1 AAAACGCAAACCCACAAATCAATA
* *
11154558 AAAATGCAAACTCACAAATCAATA
1 AAAACGCAAACCCACAAATCAATA
*
11154582 GAAACGCAAA
1 AAAACGCAAA
11154592 ATCACAAACC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.60, C:0.22, G:0.05, T:0.12
Consensus pattern (24 bp):
AAAACGCAAACCCACAAATCAATA
Found at i:11154596 original size:24 final size:24
Alignment explanation
Indices: 11154549--11154599 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
11154539 ACAAACCCAT
* *
11154549 AAATCAATAAAAATGCAAACTCAC
1 AAATCAATAAAAACGCAAAATCAC
*
11154573 AAATCAATAGAAACGCAAAATCAC
1 AAATCAATAAAAACGCAAAATCAC
11154597 AAA
1 AAA
11154600 CCTTGAAGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.61, C:0.20, G:0.06, T:0.14
Consensus pattern (24 bp):
AAATCAATAAAAACGCAAAATCAC
Found at i:11157228 original size:24 final size:23
Alignment explanation
Indices: 11157175--11157235 Score: 59
Period size: 25 Copynumber: 2.5 Consensus size: 23
11157165 AATAAATATG
**
11157175 TTATTTTTATATTTTTAATTAGTAT
1 TTATTTTT-TA-TTTTAATTACAAT
*
11157200 ATATTTTTTATTTTAATTAACAAT
1 TTATTTTTTATTTTAATT-ACAAT
11157224 TTATTTATTTAT
1 TTATTT-TTTAT
11157236 ATACATAAGA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
23 8 0.27
24 10 0.33
25 12 0.40
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (23 bp):
TTATTTTTTATTTTAATTACAAT
Found at i:11164147 original size:2 final size:2
Alignment explanation
Indices: 11164140--11164165 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
11164130 GGTTTAAGAA
11164140 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
11164166 TAAGTTTCAA
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:11167538 original size:34 final size:34
Alignment explanation
Indices: 11167500--11167623 Score: 158
Period size: 34 Copynumber: 3.6 Consensus size: 34
11167490 TTCTAATCTG
* *
11167500 ATATGACATTCTGATATGATATATGTTTCTGAAA
1 ATATGACATTCTAATATGATATATGTTTCTGGAA
* * *
11167534 ATATGACATTCTGATCTGGTATATGTTTCTGGAA
1 ATATGACATTCTAATATGATATATGTTTCTGGAA
* * * *
11167568 ATATGACATTCTAATTTAATATATATTTCTGGTA
1 ATATGACATTCTAATATGATATATGTTTCTGGAA
*
11167602 ATGTGACATTCTAATATGATAT
1 ATATGACATTCTAATATGATAT
11167624 TTGTATATGT
Statistics
Matches: 78, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 78 1.00
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.43
Consensus pattern (34 bp):
ATATGACATTCTAATATGATATATGTTTCTGGAA
Found at i:11170143 original size:3 final size:3
Alignment explanation
Indices: 11170124--11170172 Score: 82
Period size: 3 Copynumber: 16.3 Consensus size: 3
11170114 GTGCAATTTG
11170124 TAA TAA -AA TAGA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
11170169 TAA T
1 TAA T
11170173 GAAAAAAACA
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 2 0.05
3 39 0.89
4 3 0.07
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:11171559 original size:18 final size:19
Alignment explanation
Indices: 11171533--11171568 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
11171523 ACATTTGTAC
11171533 TTGGACTATT-TTATTATT
1 TTGGACTATTATTATTATT
*
11171551 TTGGTCTATTATTATTAT
1 TTGGACTATTATTATTAT
11171569 GATGGGCCCG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.22, C:0.06, G:0.11, T:0.61
Consensus pattern (19 bp):
TTGGACTATTATTATTATT
Found at i:11171936 original size:22 final size:22
Alignment explanation
Indices: 11171908--11171952 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
11171898 GCTAAGAATG
*
11171908 GTTTGCATAAAGTCTGAAGCAT
1 GTTTGCACAAAGTCTGAAGCAT
11171930 GTTTGCACAAAGTCTGAAGCAT
1 GTTTGCACAAAGTCTGAAGCAT
11171952 G
1 G
11171953 AGTACCATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (22 bp):
GTTTGCACAAAGTCTGAAGCAT
Found at i:11171964 original size:22 final size:22
Alignment explanation
Indices: 11171916--11171957 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
11171906 TGGTTTGCAT
** *
11171916 AAAGTCTGAAGCATGTTTGCAC
1 AAAGTCTGAAGCATGAGTACAC
11171938 AAAGTCTGAAGCATGAGTAC
1 AAAGTCTGAAGCATGAGTAC
11171958 CATAAGTTGT
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:0.36, C:0.17, G:0.24, T:0.24
Consensus pattern (22 bp):
AAAGTCTGAAGCATGAGTACAC
Found at i:11175244 original size:14 final size:14
Alignment explanation
Indices: 11175225--11175251 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
11175215 GCGACCATTT
11175225 TACTATTATGTTGC
1 TACTATTATGTTGC
11175239 TACTATTATGTTG
1 TACTATTATGTTG
11175252 TTATTGTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.11, G:0.15, T:0.52
Consensus pattern (14 bp):
TACTATTATGTTGC
Found at i:11177062 original size:19 final size:19
Alignment explanation
Indices: 11177038--11177075 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
11177028 TTTTAAAGCT
11177038 TTTGCTGAAATA-AAAAATA
1 TTTGCT-AAATACAAAAATA
*
11177057 TTTGCTTAATACAAAAATA
1 TTTGCTAAATACAAAAATA
11177076 GTAATTAGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.50, C:0.08, G:0.08, T:0.34
Consensus pattern (19 bp):
TTTGCTAAATACAAAAATA
Found at i:11182177 original size:70 final size:70
Alignment explanation
Indices: 11182096--11182237 Score: 268
Period size: 70 Copynumber: 2.0 Consensus size: 70
11182086 ATTTTTGGGA
11182096 AAATTAATTTTGATCATGTAAAATTAATTTAA-TCAAATTAATTAAAATTAATATGATATTTTTA
1 AAATTAATTTTGATCATGTAAAATTAATTTAATTCAAATTAA-TAAAATTAATATGATATTTTTA
11182160 GAAATT
65 GAAATT
11182166 AAATTAATTTTGATCATGTAAAATTAATTTAATTCAAATTAATAAAATTAATATGATATTTTTAG
1 AAATTAATTTTGATCATGTAAAATTAATTTAATTCAAATTAATAAAATTAATATGATATTTTTAG
11182231 AAATT
66 AAATT
11182236 AA
1 AA
11182238 TTTTCAAGGC
Statistics
Matches: 71, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
70 62 0.87
71 9 0.13
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.44
Consensus pattern (70 bp):
AAATTAATTTTGATCATGTAAAATTAATTTAATTCAAATTAATAAAATTAATATGATATTTTTAG
AAATT
Found at i:11182669 original size:17 final size:17
Alignment explanation
Indices: 11182647--11182722 Score: 70
Period size: 17 Copynumber: 4.6 Consensus size: 17
11182637 ATTTTAATAG
11182647 TTTAATATTTAATTTAA
1 TTTAATATTTAATTTAA
*
11182664 TTTAATACTT-ATCTTAA
1 TTTAATATTTAAT-TTAA
* *
11182681 --TAGTATTTTA-TTAA
1 TTTAATATTTAATTTAA
*
11182695 TTTAATATTAAATTTAA
1 TTTAATATTTAATTTAA
*
11182712 TTTAATGTTTA
1 TTTAATATTTA
11182723 TCTTATAGAT
Statistics
Matches: 46, Mismatches: 8, Indels: 10
0.72 0.12 0.16
Matches are distributed among these distances:
14 4 0.09
15 6 0.13
16 10 0.22
17 26 0.57
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (17 bp):
TTTAATATTTAATTTAA
Found at i:11182682 original size:37 final size:36
Alignment explanation
Indices: 11182630--11182705 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
11182620 ATTCCAAAAA
*
11182630 TAATATTATTTTAATAGT-TTAATATTTAATTTAAT-T
1 TAATATTATCTTAATAGTATT-ATA-TTAATTTAATAT
*
11182666 TAATACTTATCTTAATAGTATTTTATTAATTTAATAT
1 TAATA-TTATCTTAATAGTATTATATTAATTTAATAT
11182703 TAA
1 TAA
11182706 ATTTAATTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 15 0.43
37 18 0.51
38 2 0.06
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (36 bp):
TAATATTATCTTAATAGTATTATATTAATTTAATAT
Found at i:11182688 original size:48 final size:48
Alignment explanation
Indices: 11182630--11182727 Score: 142
Period size: 48 Copynumber: 2.0 Consensus size: 48
11182620 ATTCCAAAAA
* * *
11182630 TAATATTATTTTAATAGTTTAATATTTAATTTAATTTAATACTTATCT
1 TAATAGTATTTTAATAATTTAATATTAAATTTAATTTAATACTTATCT
* **
11182678 TAATAGTATTTTATTAATTTAATATTAAATTTAATTTAATGTTTATCT
1 TAATAGTATTTTAATAATTTAATATTAAATTTAATTTAATACTTATCT
11182726 TA
1 TA
11182728 TAGATAAATA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (48 bp):
TAATAGTATTTTAATAATTTAATATTAAATTTAATTTAATACTTATCT
Found at i:11188898 original size:27 final size:28
Alignment explanation
Indices: 11188851--11188911 Score: 81
Period size: 27 Copynumber: 2.2 Consensus size: 28
11188841 TAAATAAAAA
*
11188851 TTCTATTACCATACGAATTATAAC-TATT
1 TTCTTTTACCATACGAATTAT-ACTTATT
*
11188879 TTCTTTTACC-TACGGATTATACTTATT
1 TTCTTTTACCATACGAATTATACTTATT
11188906 TTCTTT
1 TTCTTT
11188912 CTCTTAGTCC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
26 2 0.07
27 19 0.63
28 9 0.30
ACGTcount: A:0.26, C:0.18, G:0.05, T:0.51
Consensus pattern (28 bp):
TTCTTTTACCATACGAATTATACTTATT
Found at i:11196973 original size:11 final size:10
Alignment explanation
Indices: 11196929--11196975 Score: 51
Period size: 11 Copynumber: 4.5 Consensus size: 10
11196919 ATGGAGTTTT
11196929 AAATCTATATA
1 AAAT-TATATA
*
11196940 TAA-TATATA
1 AAATTATATA
11196949 TAAATTATATA
1 -AAATTATATA
11196960 AAATTATACTA
1 AAATTATA-TA
11196971 AAATT
1 AAATT
11196976 TAGCACATGA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
9 6 0.19
10 10 0.32
11 15 0.48
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.40
Consensus pattern (10 bp):
AAATTATATA
Found at i:11198602 original size:18 final size:19
Alignment explanation
Indices: 11198579--11198617 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
11198569 TCTATATATA
*
11198579 TATGT-ATATTTATTTTTT
1 TATGTAATAATTATTTTTT
11198597 TATGTACATAATTATTTTTT
1 TATGTA-ATAATTATTTTTT
11198617 T
1 T
11198618 TAAACTGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
20 13 0.72
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.67
Consensus pattern (19 bp):
TATGTAATAATTATTTTTT
Found at i:11202266 original size:17 final size:15
Alignment explanation
Indices: 11202221--11202267 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
11202211 TCAAGTTCAA
* *
11202221 TTATTAAAATT-ATT
1 TTATTAAATTTAAAT
11202235 TTATTAAATTTAAAT
1 TTATTAAATTTAAAT
11202250 TTATTACAATGTTAAAT
1 TTATTA-AAT-TTAAAT
11202267 T
1 T
11202268 CAATTTTACT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 10 0.36
15 8 0.29
16 3 0.11
17 7 0.25
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (15 bp):
TTATTAAATTTAAAT
Found at i:11202287 original size:23 final size:23
Alignment explanation
Indices: 11202238--11202288 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
11202228 AATTATTTTA
* *
11202238 TTAAATTTAAATTTATTACAATG
1 TTAAATTCAAATTTACTACAATG
* * *
11202261 TTAAATTCAATTTTACTACTATT
1 TTAAATTCAAATTTACTACAATG
11202284 TTAAA
1 TTAAA
11202289 ATATCATACC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.41, C:0.08, G:0.02, T:0.49
Consensus pattern (23 bp):
TTAAATTCAAATTTACTACAATG
Found at i:11211283 original size:18 final size:17
Alignment explanation
Indices: 11211260--11211297 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
11211250 TTTCATAACA
11211260 AAGAATG-GCACGTAATTC
1 AAGAATGCG-ACG-AATTC
11211278 AAGAATGCGACGAATTC
1 AAGAATGCGACGAATTC
11211295 AAG
1 AAG
11211298 GCCTTTGTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.42
18 10 0.53
19 1 0.05
ACGTcount: A:0.42, C:0.16, G:0.24, T:0.18
Consensus pattern (17 bp):
AAGAATGCGACGAATTC
Found at i:11211295 original size:17 final size:18
Alignment explanation
Indices: 11211260--11211297 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
11211250 TTTCATAACA
11211260 AAGAATGGCACGTAATTC
1 AAGAATGGCACGTAATTC
11211278 AAGAAT-GCGACG-AATTC
1 AAGAATGGC-ACGTAATTC
11211295 AAG
1 AAG
11211298 GCCTTTGTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.42, C:0.16, G:0.24, T:0.18
Consensus pattern (18 bp):
AAGAATGGCACGTAATTC
Found at i:11217019 original size:97 final size:97
Alignment explanation
Indices: 11216849--11217029 Score: 222
Period size: 97 Copynumber: 1.9 Consensus size: 97
11216839 GTATCTTAGC
* * *
11216849 AAATTTGCTATCTTGATTGATTCATTCATGTCGAGCTTTGCTCTCAATAAAATTTCCTCTTATCC
1 AAATTTGCTATCTTGATTAATTCATTCATGTCGAGCTTTGCTCTCAACAAAATTTCATCTTATCC
* *
11216914 ATTGTGATAGTATTTTTCATCTTATCTCAGTA
66 ATTATGATAATATTTTTCATCTTATCTCAGTA
* * * * *
11216946 AAATTTGCTATCTTGATTAATTTATTCATTTCGAGCTTAT-TTCTCGACAAAATATT-ATCTTGT
1 AAATTTGCTATCTTGATTAATTCATTCATGTCGAGCTT-TGCTCTCAACAAAAT-TTCATCTTAT
* *
11217009 CTATTATGATAATCTTTTTCA
64 CCATTATGATAATATTTTTCA
11217030 AGCATTTTTT
Statistics
Matches: 70, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
97 67 0.96
98 3 0.04
ACGTcount: A:0.27, C:0.17, G:0.10, T:0.47
Consensus pattern (97 bp):
AAATTTGCTATCTTGATTAATTCATTCATGTCGAGCTTTGCTCTCAACAAAATTTCATCTTATCC
ATTATGATAATATTTTTCATCTTATCTCAGTA
Found at i:11217524 original size:44 final size:44
Alignment explanation
Indices: 11217476--11218190 Score: 350
Period size: 44 Copynumber: 16.5 Consensus size: 44
11217466 CTACTAATCC
** *
11217476 TATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCACAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAGATCT
* * * ***
11217520 TATCTCTCTAAAGTTGCAGTAGAGCAGA-TCGCATC-CAG-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAGATCT
* * ** * *
11217561 TATCTCCCTGAAGTTGTAGTGGAACAGACAAAAGAAGAT-ACAAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAG--ATTA-AA-ATCACAGATCT
* * *
11217608 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACCACAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAGATCT
* * * * *
11217652 TATCTCTCTGAAGTTACAGTAGAGCAGA-TCACATC-CAG-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAGATCT
* ** * *
11217693 TATCTCCCTGAATTTGCAGTGGAGCAGACAGAAGAAAC-CA-ATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAA-AATCACAGATCT
* * *
11217737 TATCTCCTTGAAGTTGCAGTGGAACGGATTAAAATCACAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAGATCT
* * * ***
11217781 TATCTCTCTGAAGTTGTAGTAGAGCAGA-TCGTATC-CAG-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAGATCT
* * ** * *
11217822 TATCTCCCTGAAGTTGCAGGGGAACAGACGAAAGA-AACCA-ATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA-ATCA-CAGATCT
* * *
11217866 TATCTCCCTGAAGTTGCAGTGGAGCGGGTTAAAACCACAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAGATCT
** * ***
11217910 TATCTTTCTGAAGTTGCAGTAGAGCAGA-TCGCATCA-AG-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAGATCT
* * * ** * *
11217951 TATCTCTCT-AAGTTACAAG-GGAACAGACGAAAGA-AACCA-ATCC
1 TATCTCCCTGAAGTTGC-AGTGGAGCAGATTAAA-ATCA-CAGATCT
* * * *
11217994 TATCTCCCTGAAGGTGGAGTGGAGTGGAGCGGGTTAAAACCACAGATCT
1 TATCTCCCTGAA-GT----TGCAGTGGAGCAGATTAAAATCACAGATCT
* * ***
11218043 TATCTCTCTGAAGTTGCAGTAGAGCAGA-TCGCATCA-AG-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAGATCT
* * * ** * *
11218084 TATCTCCCT-AAGTTACAGGGGAACAGACGAAAGA-AACCA-ATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA-ATCA-CAGATCT
* * *
11218127 TATCTCCCTGAAGTTGCAATGGAGCGGATTAAAACCACAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAGATCT
* * *
11218171 TATATCTCTAAAGTTGCAGT
1 TATCTCCCTGAAGTTGCAGT
11218191 AGAATAGATC
Statistics
Matches: 485, Mismatches: 142, Indels: 88
0.68 0.20 0.12
Matches are distributed among these distances:
40 26 0.05
41 104 0.21
42 18 0.04
43 56 0.12
44 217 0.45
45 4 0.01
46 4 0.01
47 25 0.05
48 7 0.01
49 24 0.05
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAGATCT
Found at i:11217713 original size:85 final size:84
Alignment explanation
Indices: 11217608--11218220 Score: 269
Period size: 85 Copynumber: 7.1 Consensus size: 84
11217598 ATACAAATCC
* * *
11217608 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTACAGTA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACC-CAGATCTTATCTCTCTGAAGTTGCAGTA
* *
11217673 GAGCAGATCACATCCAGTCT
65 GAACAGATCAAATCCAGTCT
* ** * *
11217693 TATCTCCCTGAATTTGCAGTGGAGCAGACAGAAGAAACCA-ATCCTATCTC-CTTGAAGTTGCAG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAA-AACCCAGATCTTATCTCTC-TGAAGTTGCAG
* * *
11217756 TGGAACGGATTAAAATCACAGATCT
63 TAGAACAGA-TCAAATC-CAG-TCT
* * * *** * * **
11217781 TATCTCTCTGAAGTTGTAGTAGAGCAGA-TCGTATCCAG-TCTTATCTCCCTGAAGTTGCAGGGG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCCAGATCTTATCTCTCTGAAGTTGCAGTAG
* * *
11217844 AACAGA-CGAAAGAAACCAATCC
66 AACAGATC---A-AATCCAGTCT
* * *
11217866 TATCTCCCTGAAGTTGCAGTGGAGCGGGTTAAAACCACAGATCTTATCTTTCTGAAGTTGCAGTA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACC-CAGATCTTATCTCTCTGAAGTTGCAGTA
* ** *
11217931 GAGCAGATCGCATCAAGTCT
65 GAACAGATCAAATCCAGTCT
* * * ** * * *
11217951 TATCTCTCT-AAGTTACAAG-GGAACAGACGAAAGAAACCA-ATCCTATCTCCCTGAAGGTGGAG
1 TATCTCCCTGAAGTTGC-AGTGGAGCAGA-TTAA-AACCCAGATCTTATCTCTCTGAA-GT----
* * * * * * *
11218013 TGGAGTGGAGCGGGTTAAAACCACAGATCT
58 TGCAGTAGAAC-AGATCAAATC-CAG-TCT
* * *** * * * * **
11218043 TATCTCTCTGAAGTTGCAGTAGAGCAGA-TCGCATCAAG-TCTTATCTCCCT-AAGTTACAGGGG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCCAGATCTTATCTCTCTGAAGTTGCAGTAG
* * *
11218105 AACAGA-CGAAAGAAACCAATCC
66 AACAGATC---A-AATCCAGTCT
* * * *
11218127 TATCTCCCTGAAGTTGCAATGGAGCGGATTAAAACCACAGATCTTATATCTCTAAAGTTGCAGTA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACC-CAGATCTTATCTCTCTGAAGTTGCAGTA
* **
11218192 GAATAGATCGCATCCAGTCT
65 GAACAGATCAAATCCAGTCT
11218212 TATCTCCCT
1 TATCTCCCT
11218221 AAGCAGTAGT
Statistics
Matches: 380, Mismatches: 109, Indels: 78
0.67 0.19 0.14
Matches are distributed among these distances:
83 1 0.00
84 58 0.15
85 147 0.39
86 24 0.06
87 22 0.06
88 69 0.18
89 13 0.03
90 18 0.05
91 2 0.01
92 14 0.04
93 12 0.03
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.25
Consensus pattern (84 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCCAGATCTTATCTCTCTGAAGTTGCAGTAG
AACAGATCAAATCCAGTCT
Found at i:11217792 original size:129 final size:129
Alignment explanation
Indices: 11217448--11218220 Score: 1104
Period size: 129 Copynumber: 5.9 Consensus size: 129
11217438 TCATGTTCCC
* * ** * *
11217448 CAGTGGAGCAGACAAAAGCTACTAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCA
1 CAGTGGAACAGACGAAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCA
*
11217513 CAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTG
66 CAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTG
* * * *
11217577 TAGTGGAACAGACAAAAGAAGATACAAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAA
1 CAGTGGAACAGACGAAAG-A-A-ACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAA
* * *
11217642 CCACAGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCACATCCAGTCTTATCTCCCTGAATT
63 CCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGT
11217707 TG
128 TG
* * * *
11217709 CAGTGGAGCAGAC-AGAAGAAACCAATCCTATCTCCTTGAAGTTGCAGTGGAACGGATTAAAATC
1 CAGTGGAACAGACGA-AAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACC
* *
11217773 ACAGATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATCGTATCCAGTCTTATCTCCCTGAAGTTG
65 ACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTG
* *
11217838 CAGGGGAACAGACGAAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGGTTAAAACCA
1 CAGTGGAACAGACGAAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCA
* * * *
11217903 CAGATCTTATCTTTCTGAAGTTGCAGTAGAGCAGATCGCATCAAGTCTTATCTCTCT-AAGTTA
66 CAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTG
* *
11217966 CAAG-GGAACAGACGAAAGAAACCAATCCTATCTCCCTGAAGGTGGAGTGGAGTGGAGCGGGTTA
1 C-AGTGGAACAGACGAAAGAAACCAATCCTATCTCCCTGAA-GT----TGCAGTGGAGCGGATTA
*
11218030 AAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCAAGTCTTATCTCCCT-A
60 AAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGA
*
11218094 AGTTA
125 AGTTG
* *
11218099 CAGGGGAACAGACGAAAGAAACCAATCCTATCTCCCTGAAGTTGCAATGGAGCGGATTAAAACCA
1 CAGTGGAACAGACGAAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCA
* * **
11218164 CAGATCTTATATCTCTAAAGTTGCAGTAGAATAGATCGCATCCAGTCTTATCTCCCT
66 CAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCT
11218221 AAGCAGTAGT
Statistics
Matches: 586, Mismatches: 46, Indels: 25
0.89 0.07 0.04
Matches are distributed among these distances:
128 114 0.19
129 228 0.39
130 2 0.00
131 2 0.00
132 120 0.20
133 120 0.20
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (129 bp):
CAGTGGAACAGACGAAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCA
CAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTG
Found at i:11218161 original size:261 final size:259
Alignment explanation
Indices: 11217448--11218223 Score: 1077
Period size: 261 Copynumber: 3.0 Consensus size: 259
11217438 TCATGTTCCC
* * ** * *
11217448 CAGTGGAGCAGACAAAAGCTACTAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGA---TTAAAA
1 CAGTGGAACAGACAGAAGAAACCAATCCTATCTCCCTGAAGGTG-AGTGGAGTGGACGGTTAAAA
*
11217510 CCACAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGT
65 CCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGT
* * * * *
11217575 TGTAGTGGAACAGACAAAAGAAGATACAAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAA
130 TGCAGGGGAACAGACGAAAG-A-A-ACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAA
* *
11217640 AACCACAGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCACATCCAGTCTTATCTCCCTGAA
192 AACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCT-AA
* *
11217705 TTTG
256 GTTA
* * *
11217709 CAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCTTGAA-GT---TGCAGTGGAACGGATTAAA
1 CAGTGGAACAGACAGAAGAAACCAATCCTATCTCCCTGAAGGTGAGTGGAGTGG-ACGG-TTAAA
* * *
11217770 ATCACAGATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATCGTATCCAGTCTTATCTCCCTGAAG
64 ACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAG
*
11217835 TTGCAGGGGAACAGACGAAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGGTTAAAA
129 TTGCAGGGGAACAGACGAAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAA
* * *
11217900 CCACAGATCTTATCTTTCTGAAGTTGCAGTAGAGCAGATCGCATCAAGTCTTATCTCTCTAAGTT
194 CCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAGTT
11217965 A
259 A
11217966 CAAG-GGAACAGAC-GAAAGAAACCAATCCTATCTCCCTGAAGGTGGAGTGGAGTGGAGCGGGTT
1 C-AGTGGAACAGACAG-AAGAAACCAATCCTATCTCCCTGAAGGT-GAGTGGAGTGGA-C-GGTT
*
11218029 AAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCAAGTCTTATCTCCCT-
61 AAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTG
* *
11218093 AAGTTACAGGGGAACAGACGAAAGAAACCAATCCTATCTCCCTGAAGTTGCAATGGAGCGGATTA
126 AAGTTGCAGGGGAACAGACGAAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTA
* * **
11218158 AAACCACAGATCTTATATCTCTAAAGTTGCAGTAGAATAGATCGCATCCAGTCTTATCTCCCTAA
191 AAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAA
11218223 G
256 G
11218224 CAGTAGTGGA
Statistics
Matches: 460, Mismatches: 41, Indels: 28
0.87 0.08 0.05
Matches are distributed among these distances:
256 8 0.02
257 38 0.08
258 98 0.21
259 1 0.00
260 2 0.00
261 241 0.52
262 70 0.15
263 2 0.00
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (259 bp):
CAGTGGAACAGACAGAAGAAACCAATCCTATCTCCCTGAAGGTGAGTGGAGTGGACGGTTAAAAC
CACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTT
GCAGGGGAACAGACGAAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACC
ACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAGTTA
Found at i:11218209 original size:390 final size:390
Alignment explanation
Indices: 11217471--11218220 Score: 1118
Period size: 390 Copynumber: 1.9 Consensus size: 390
11217461 AAAAGCTACT
*
11217471 AATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCACAGATCTTATCTCTCTAAAGTTG
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTAAAGTTG
* **
11217536 CAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGTAGTGGAACAGACAAAAGAAGATA
66 CAGTAGAGCAGATCGCATCAAGTCTTATCTCCCTGAAGTTCAAGTGGAACAGACAAAAGAAGATA
11217601 CAAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGT
131 CAAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGT
* * * * *
11217666 TACAGTAGAGCAGATCACATCCAGTCTTATCTCCCTGAATTTGCAGTGGAGCAGACAGAAGAAAC
196 TACAGTAGAGCAGATCACATCAAGTCTTATCTCCCTGAAGTTACAGGGGAACAGACAGAAGAAAC
* * * * *
11217731 CAATCCTATCTCCTTGAAGTTGCAGTGGAACGGATTAAAATCACAGATCTTATCTCTCTGAAGTT
261 CAATCCTATCTCCCTGAAGTTGCAATGGAACGGATTAAAACCACAGATCTTATATCTCTAAAGTT
* * *
11217796 GTAGTAGAGCAGATCGTATCCAGTCTTATCTCCCTGAAGTTGCAGGGGAACAGACGAAAGAAACC
326 GCAGTAGAACAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGGGGAACAGACGAAAGAAACC
* * *
11217861 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGGTTAAAACCACAGATCTTATCTTTCTGAAGTTG
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTAAAGTTG
* *
11217926 CAGTAGAGCAGATCGCATCAAGTCTTATCTCTCT-AAGTTACAAG-GGAACAGACGAAAG-A-A-
66 CAGTAGAGCAGATCGCATCAAGTCTTATCTCCCTGAAGTT-CAAGTGGAACAGACAAAAGAAGAT
* ** *
11217986 ACCAATCCTATCTCCCTGAAGGTGGAGTGGAGTGGAGCGGGTTAAAACCACAGATCTTATCTCTC
130 ACAAATCCTATCTCCCTGAA-GT----TACAGTGGAGCGGATTAAAACCACAGATCTTATCTCTC
* *
11218051 TGAAGTTGCAGTAGAGCAGATCGCATCAAGTCTTATCTCCCT-AAGTTACAGGGGAACAGAC-GA
190 TGAAGTTACAGTAGAGCAGATCACATCAAGTCTTATCTCCCTGAAGTTACAGGGGAACAGACAG-
*
11218114 AAGAAACCAATCCTATCTCCCTGAAGTTGCAATGGAGCGGATTAAAACCACAGATCTTATATCTC
254 AAGAAACCAATCCTATCTCCCTGAAGTTGCAATGGAACGGATTAAAACCACAGATCTTATATCTC
*
11218179 TAAAGTTGCAGTAGAATAGATCGCATCCAGTCTTATCTCCCT
319 TAAAGTTGCAGTAGAACAGATCGCATCCAGTCTTATCTCCCT
11218221 AAGCAGTAGT
Statistics
Matches: 323, Mismatches: 30, Indels: 14
0.88 0.08 0.04
Matches are distributed among these distances:
386 19 0.06
387 3 0.01
388 1 0.00
389 19 0.06
390 207 0.64
391 74 0.23
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.25
Consensus pattern (390 bp):
AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTAAAGTTG
CAGTAGAGCAGATCGCATCAAGTCTTATCTCCCTGAAGTTCAAGTGGAACAGACAAAAGAAGATA
CAAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGT
TACAGTAGAGCAGATCACATCAAGTCTTATCTCCCTGAAGTTACAGGGGAACAGACAGAAGAAAC
CAATCCTATCTCCCTGAAGTTGCAATGGAACGGATTAAAACCACAGATCTTATATCTCTAAAGTT
GCAGTAGAACAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGGGGAACAGACGAAAGAAACC
Found at i:11218676 original size:55 final size:55
Alignment explanation
Indices: 11218605--11218771 Score: 325
Period size: 55 Copynumber: 3.0 Consensus size: 55
11218595 AATATATGTA
11218605 AATTAAATTATAGTTATTTTTAAATGTGTCATTATAAAAAATTATATTTTACATT
1 AATTAAATTATAGTTATTTTTAAATGTGTCATTATAAAAAATTATATTTTACATT
11218660 AATTAAATTATAGTTATTTTTAAATGTGTCATTATAAAAAATTATATTTTACATT
1 AATTAAATTATAGTTATTTTTAAATGTGTCATTATAAAAAATTATATTTTACATT
*
11218715 AATTAAATTATAGTTATTTTTAAATGTGTCATTATAAAAAATTACATTTTACATT
1 AATTAAATTATAGTTATTTTTAAATGTGTCATTATAAAAAATTATATTTTACATT
11218770 AA
1 AA
11218772 AATTTTAAAT
Statistics
Matches: 111, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
55 111 1.00
ACGTcount: A:0.43, C:0.04, G:0.05, T:0.48
Consensus pattern (55 bp):
AATTAAATTATAGTTATTTTTAAATGTGTCATTATAAAAAATTATATTTTACATT
Found at i:11218791 original size:14 final size:13
Alignment explanation
Indices: 11218760--11218799 Score: 62
Period size: 14 Copynumber: 3.0 Consensus size: 13
11218750 AAAAAATTAC
*
11218760 ATTTTACATTAAA
1 ATTTTAAATTAAA
11218773 ATTTTAAATTAATA
1 ATTTTAAATTAA-A
11218787 ATTTTAAATTAAA
1 ATTTTAAATTAAA
11218800 TATTATAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 12 0.48
14 13 0.52
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (13 bp):
ATTTTAAATTAAA
Found at i:11220146 original size:80 final size:80
Alignment explanation
Indices: 11220057--11220228 Score: 337
Period size: 79 Copynumber: 2.2 Consensus size: 80
11220047 TAGAGAGACT
11220057 TTAAAAAATATTTTCCATTTTCTGGTGGAGCCACGTTTTCAATGTGATTTTTTTTAAAGTTTTCT
1 TTAAAAAATATTTTCCATTTTCTGGTGGAGCCACGTTTTCAATGTGATTTTTTTTAAAGTTTTCT
11220122 AAAATTTTAAATATA
66 AAAATTTTAAATATA
11220137 TTAAAAAATA-TTTCCATTTTCTGGTGGAGCCACGTTTTCAATGTGATTTTTTTTAAAGTTTTCT
1 TTAAAAAATATTTTCCATTTTCTGGTGGAGCCACGTTTTCAATGTGATTTTTTTTAAAGTTTTCT
11220201 AAAATTTTAAATATA
66 AAAATTTTAAATATA
11220216 TTAAAAAATATTT
1 TTAAAAAATATTT
11220229 AAGTATAATT
Statistics
Matches: 91, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
79 79 0.87
80 12 0.13
ACGTcount: A:0.33, C:0.09, G:0.10, T:0.47
Consensus pattern (80 bp):
TTAAAAAATATTTTCCATTTTCTGGTGGAGCCACGTTTTCAATGTGATTTTTTTTAAAGTTTTCT
AAAATTTTAAATATA
Found at i:11220235 original size:20 final size:20
Alignment explanation
Indices: 11220201--11220240 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
11220191 AAAGTTTTCT
11220201 AAAATTTTAAATAT-ATTAA
1 AAAATTTTAAATATAATTAA
*
11220220 AAAATATTTAAGTATAATTAA
1 AAAAT-TTTAAATATAATTAA
11220241 TTTTAAAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 8 0.44
21 5 0.28
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (20 bp):
AAAATTTTAAATATAATTAA
Found at i:11220264 original size:17 final size:17
Alignment explanation
Indices: 11220242--11220280 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
11220232 TATAATTAAT
11220242 TTTAAAAGTTTAATATA
1 TTTAAAAGTTTAATATA
*
11220259 TTTAAAATTTTAATATA
1 TTTAAAAGTTTAATATA
*
11220276 CTTAA
1 TTTAA
11220281 TATATATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (17 bp):
TTTAAAAGTTTAATATA
Found at i:11222649 original size:6 final size:6
Alignment explanation
Indices: 11222638--11222699 Score: 101
Period size: 6 Copynumber: 10.7 Consensus size: 6
11222628 TGGAGAAAGA
11222638 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATG-
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
*
11222685 -TATGT ACATGT ATAT
1 ATATGT ATATGT ATAT
11222700 ATTTATACTA
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
4 4 0.08
6 48 0.92
ACGTcount: A:0.34, C:0.02, G:0.16, T:0.48
Consensus pattern (6 bp):
ATATGT
Found at i:11232106 original size:11 final size:11
Alignment explanation
Indices: 11232090--11232128 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
11232080 TCGAGTTTTT
*
11232090 TACCAAAACAA
1 TACCAAAAAAA
11232101 TACCAAAAAAA
1 TACCAAAAAAA
11232112 TA--AAAAAAA
1 TACCAAAAAAA
11232121 TACCAAAA
1 TACCAAAA
11232129 TAGTATAACT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 9 0.36
11 16 0.64
ACGTcount: A:0.72, C:0.18, G:0.00, T:0.10
Consensus pattern (11 bp):
TACCAAAAAAA
Found at i:11232167 original size:18 final size:19
Alignment explanation
Indices: 11232144--11232234 Score: 69
Period size: 17 Copynumber: 5.2 Consensus size: 19
11232134 TAACTTTTTT
11232144 GTATAATTATT-TTAGTTA
1 GTATAATTATTGTTAGTTA
11232162 GTATAATTATTGTTAG-T-
1 GTATAATTATTGTTAGTTA
11232179 -TAT--TT-TTGTATAAGTTTA
1 GTATAATTATTGT-T-AG-TTA
11232197 GT-T-ATTATTGTTAGTTA
1 GTATAATTATTGTTAGTTA
*
11232214 --ATAATTATTGTTACTTA
1 GTATAATTATTGTTAGTTA
11232231 GTAT
1 GTAT
11232235 TATTGTTAGT
Statistics
Matches: 59, Mismatches: 1, Indels: 25
0.69 0.01 0.29
Matches are distributed among these distances:
13 4 0.07
14 3 0.05
15 2 0.03
16 4 0.07
17 17 0.29
18 15 0.25
19 10 0.17
20 4 0.07
ACGTcount: A:0.30, C:0.01, G:0.13, T:0.56
Consensus pattern (19 bp):
GTATAATTATTGTTAGTTA
Found at i:11232415 original size:37 final size:35
Alignment explanation
Indices: 11232337--11232426 Score: 94
Period size: 37 Copynumber: 2.5 Consensus size: 35
11232327 TTTTACATTA
* *
11232337 TATTATTGTTAGTTATTATTTTTAGTAAAACCCTAAT
1 TATTATTGTTAGTTATTATTTTTAGTAAAA--CAAAC
11232374 TATTATTGTTAGTTAGTAATATTTTTAGTAAAA-AAAC
1 TATTATTGTTAGTTA-T--TATTTTTAGTAAAACAAAC
*
11232411 TATTATTATTA-TTATT
1 TATTATTGTTAGTTATT
11232427 GTGTTGGTTA
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
33 1 0.02
35 1 0.02
36 3 0.06
37 27 0.57
38 1 0.02
40 14 0.30
ACGTcount: A:0.36, C:0.04, G:0.08, T:0.52
Consensus pattern (35 bp):
TATTATTGTTAGTTATTATTTTTAGTAAAACAAAC
Found at i:11238175 original size:160 final size:159
Alignment explanation
Indices: 11237588--11238316 Score: 1136
Period size: 160 Copynumber: 4.6 Consensus size: 159
11237578 ACTTCAAAAG
* * * *
11237588 AAATTTAGTAAAAAACCCTTATTTTGGCCATTTGTTTGTATTTTTCTTTTTTCTCGAATTTTATT
1 AAATTTAGTAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTCTTTTTTCCCGAATTTTATT
* *
11237653 ACTTTCCAAAAATATACTATTTTCATATTTTATTATTTTATATTATTTT-TTACATTATGTTTGA
66 ACTTTCAAAAAATATACTATTTTCATATTTTATTATTTTATATTATTTTACTACATTATGTTTGA
11237717 AATGTATACATTTAGTGTG-TTTTTAAAT
131 AATGTATACATTTAGTGTGTTTTTTAAAT
* * * *
11237745 AAATTTAGTAAAAAACTCTTATTTCTGCCATTTGTTCGTATTTTTCTTTTTTCCCGGATTTTATT
1 AAATTTAGTAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTCTTTTTTCCCGAATTTTATT
*
11237810 AC-TT-AAAAAAAATACTATTTTCATATTTTCA-TATTTTATATTATTTTACTACATTATGTTTG
66 ACTTTCAAAAAATATACTATTTTCATATTTT-ATTATTTTATATTATTTTACTACATTATGTTTG
11237872 AAATGTATACATTTAGTGTGTTTTTTAAAT
130 AAATGTATACATTTAGTGTGTTTTTTAAAT
*
11237902 AAATTTAGTAAAAAACCCTTATTTCAGCCCTTTGTTCGTATTTTTCTTTTTTCCCGAATTTTATT
1 AAATTTAGTAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTCTTTTTTCCCGAATTTTATT
* ** *
11237967 ACTTTCAAAAAATAAACTATTTTTGTATTTTATTATTTTATATTATTTTATTACATTATGTTTGA
66 ACTTTCAAAAAATATACTATTTTCATATTTTATTATTTTATATTATTTTACTACATTATGTTTGA
*
11238032 AATGTATACATATAGTGTGTTTTTTAAAT
131 AATGTATACATTTAGTGTGTTTTTTAAAT
* *
11238061 AAATTTAATAAAAAAACCTTTATTTCGGCCCTTTGTTCGTATTTTTCTTTTTTCCCGAATTTTTA
1 AAATTTAGT-AAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTCTTTTTTCCCGAA-TTTTA
* *
11238126 TTACTTT-AAAAAATATATTATTTTCATATTTTATTAATTTATATTATTTTACTACATTATGTTT
64 TTACTTTCAAAAAATATACTATTTTCATATTTTATTATTTTATATTATTTTACTACATTATGTTT
11238190 GAAATGTATACATTTAGTGTGTTTTTTTAAAT
129 GAAATGTATACATTTAGTGTG-TTTTTTAAAT
* * *
11238222 AAATTTAGTAAAAAACCCTTATTTTGGCCC----TTCGTATTTTTCTTTTTTCCCGGATTTTTTT
1 AAATTTAGTAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTCTTTTTTCCCGAATTTTATT
11238283 ACTTTCAAAAAATATACTATTTTCATATTTTATT
66 ACTTTCAAAAAATATACTATTTTCATATTTTATT
11238317 TCTTTTCATA
Statistics
Matches: 527, Mismatches: 35, Indels: 21
0.90 0.06 0.04
Matches are distributed among these distances:
155 50 0.09
156 86 0.16
157 133 0.25
158 3 0.01
159 88 0.17
160 137 0.26
161 30 0.06
ACGTcount: A:0.29, C:0.11, G:0.07, T:0.52
Consensus pattern (159 bp):
AAATTTAGTAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTCTTTTTTCCCGAATTTTATT
ACTTTCAAAAAATATACTATTTTCATATTTTATTATTTTATATTATTTTACTACATTATGTTTGA
AATGTATACATTTAGTGTGTTTTTTAAAT
Found at i:11238365 original size:16 final size:15
Alignment explanation
Indices: 11238302--11238368 Score: 80
Period size: 16 Copynumber: 4.2 Consensus size: 15
11238292 AAATATACTA
11238302 TTTTCATATTTTATTT
1 TTTTCATATTTTA-TT
11238318 CTTTTCATATTTTATT
1 -TTTTCATATTTTATT
* *
11238334 TTTTCATAAATATATT
1 TTTTCAT-ATTTTATT
11238350 TTTTCAGTATTTTATT
1 TTTTCA-TATTTTATT
11238366 TTT
1 TTT
11238369 AATGCTATTT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
15 7 0.16
16 23 0.52
17 14 0.32
ACGTcount: A:0.22, C:0.07, G:0.01, T:0.69
Consensus pattern (15 bp):
TTTTCATATTTTATT
Found at i:11238368 original size:17 final size:16
Alignment explanation
Indices: 11238302--11238368 Score: 75
Period size: 17 Copynumber: 4.1 Consensus size: 16
11238292 AAATATACTA
11238302 TTTTCATATTTTATTT
1 TTTTCATATTTTATTT
11238318 CTTTTCATATTTTA-TT
1 -TTTTCATATTTTATTT
**
11238334 TTTTCATA-AATATATT
1 TTTTCATATTTTAT-TT
11238350 TTTTCAGTATTTTATTT
1 TTTTCA-TATTTTATTT
11238367 TT
1 TT
11238369 AATGCTATTT
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
14 2 0.05
15 8 0.19
16 10 0.24
17 19 0.45
18 3 0.07
ACGTcount: A:0.22, C:0.07, G:0.01, T:0.69
Consensus pattern (16 bp):
TTTTCATATTTTATTT
Found at i:11238608 original size:12 final size:11
Alignment explanation
Indices: 11238586--11238615 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
11238576 AAAAAAATTA
11238586 TCTTTTTTCTT
1 TCTTTTTTCTT
11238597 TCTTTCTTTCTT
1 TCTTT-TTTCTT
11238609 TCTTTTT
1 TCTTTTT
11238616 CCTTCCCTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (11 bp):
TCTTTTTTCTT
Found at i:11238687 original size:43 final size:41
Alignment explanation
Indices: 11238596--11238698 Score: 102
Period size: 43 Copynumber: 2.4 Consensus size: 41
11238586 TCTTTTTTCT
* *
11238596 TTCTT-TCTTTCTTTCTTTTTCCTTCCCTCCCTCTTCTTATTC
1 TTCTTCTCTTTC--TCTTTTTCCTGCCCTCCCTCTTCCTATTC
* * *
11238638 TCCTTCTCTTTCTCTTTTTCCTGCGCCTCCTTCCTTCCTCTTC
1 TTCTTCTCTTTCTCTTTTTCCTGC-CCTCCCT-CTTCCTATTC
11238681 TTCTTCTCCTTTC-CTTTT
1 TTCTTCT-CTTTCTCTTTT
11238699 CTTTATTTTT
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
41 11 0.22
42 10 0.20
43 25 0.49
44 5 0.10
ACGTcount: A:0.01, C:0.39, G:0.02, T:0.58
Consensus pattern (41 bp):
TTCTTCTCTTTCTCTTTTTCCTGCCCTCCCTCTTCCTATTC
Found at i:11240105 original size:69 final size:69
Alignment explanation
Indices: 11239981--11240111 Score: 174
Period size: 69 Copynumber: 1.9 Consensus size: 69
11239971 AGAGGTTTAG
* * *
11239981 GGTGTAAGACTACAGTTTGGCTATGGAAACCAATAGAGTCCGCCGAGACAATAAACATGAGAATT
1 GGTGTAAGACTACAGCTCGGCTATGGAAACCAATAGAGTCCGCCAAGACAATAAACATGAGAATT
11240046 ACGA
66 ACGA
* * * * *
11240050 GGTGTAAGACTATAGCTCGGCTAT-GACAACCAATGGAGTCTGCCAATACATTAAACATGAGA
1 GGTGTAAGACTACAGCTCGGCTATGGA-AACCAATAGAGTCCGCCAAGACAATAAACATGAGA
11240112 CCTGATGGGT
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
68 2 0.04
69 51 0.96
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.21
Consensus pattern (69 bp):
GGTGTAAGACTACAGCTCGGCTATGGAAACCAATAGAGTCCGCCAAGACAATAAACATGAGAATT
ACGA
Found at i:11242541 original size:25 final size:26
Alignment explanation
Indices: 11242485--11242543 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
11242475 ATTTTACCAA
*
11242485 TGGTAAAA-TGTCAAAATGTTATTAG
1 TGGTAAAATTATCAAAATGTTATTAG
*
11242510 -GGATAAAATTATCAAAATTTTATT-G
1 TGG-TAAAATTATCAAAATGTTATTAG
11242535 TGGTAAAAT
1 TGGTAAAAT
11242544 AGGGATAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
24 2 0.07
25 12 0.41
26 15 0.52
ACGTcount: A:0.42, C:0.03, G:0.17, T:0.37
Consensus pattern (26 bp):
TGGTAAAATTATCAAAATGTTATTAG
Found at i:11244519 original size:41 final size:39
Alignment explanation
Indices: 11244457--11244589 Score: 198
Period size: 41 Copynumber: 3.3 Consensus size: 39
11244447 ATTTTTATTA
*
11244457 TTTTTT-ATTTTTTAATTTTAAAATACTTTTAAAATACTT
1 TTTTTTAATTTTTTAATTTTAAAATATTTTTAAAATAC-T
11244496 TTTTTTAATTTTTTAAATTTTAAAATATTTTTAAAATAC-
1 TTTTTTAATTTTTT-AATTTTAAAATATTTTTAAAATACT
11244535 TTTTTTAAGTTTTTTTAATTTTAAAAATATTTTTAAAATACT
1 TTTTTTAA--TTTTTTAATTTT-AAAATATTTTTAAAATACT
11244577 TTTTTTAATTTTT
1 TTTTTTAATTTTT
11244590 GTTTTAATTT
Statistics
Matches: 87, Mismatches: 1, Indels: 11
0.88 0.01 0.11
Matches are distributed among these distances:
39 14 0.16
40 18 0.21
41 47 0.54
42 8 0.09
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (39 bp):
TTTTTTAATTTTTTAATTTTAAAATATTTTTAAAATACT
Found at i:11244579 original size:12 final size:11
Alignment explanation
Indices: 11244472--11244580 Score: 56
Period size: 11 Copynumber: 10.4 Consensus size: 11
11244462 TATTTTTTAA
*
11244472 TTTTAAAATAC
1 TTTTAAAATAT
11244483 TTTTAAAATACTT
1 TTTTAAAATA--T
**
11244496 TTTTTTAAT-T
1 TTTTAAAATAT
11244506 TTTT--AA-A-
1 TTTTAAAATAT
11244513 TTTTAAAATAT
1 TTTTAAAATAT
11244524 TTTTAAAATACT
1 TTTTAAAATA-T
* *
11244536 TTTTTAAGT-T
1 TTTTAAAATAT
*
11244546 TTTT--TA-AT
1 TTTTAAAATAT
*
11244554 TTTAAAAATAT
1 TTTTAAAATAT
11244565 TTTTAAAATACT
1 TTTTAAAATA-T
11244577 TTTT
1 TTTT
11244581 TTAATTTTTG
Statistics
Matches: 75, Mismatches: 10, Indels: 25
0.68 0.09 0.23
Matches are distributed among these distances:
7 4 0.05
8 6 0.08
9 2 0.03
10 12 0.16
11 31 0.41
12 13 0.17
13 7 0.09
ACGTcount: A:0.37, C:0.04, G:0.01, T:0.59
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:11246634 original size:106 final size:108
Alignment explanation
Indices: 11246408--11246660 Score: 330
Period size: 106 Copynumber: 2.3 Consensus size: 108
11246398 GAAGAATTAA
* * *
11246408 CAGTTCATCTGTAACGACTAGTGGTTCATCCACAACGTACTAGCAGCTTGTCTGCAAACTTCTTT
1 CAGTTCATCTGCAACGACTAATGGTTTATCCACAACGTACTAGCAGCTTGTCTGCAAA--TC-TT
* * *
11246473 TTTTATCTAAAAATTTTGGTGGTTCATCCATAATTTTTATTACTGG
63 TTTTATCTAAAAATTCTAGTGGTTCATCCACAATTTTTATTACTGG
* * * * *
11246519 CAGTTCATCTGCAACGACTAATGGTTTATCCATAACGTATTGGCAGCTTGTTTGTAAA-C-TTTT
1 CAGTTCATCTGCAACGACTAATGGTTTATCCACAACGTACTAGCAGCTTGTCTGCAAATCTTTTT
* *
11246582 TATTTGAAAATTCTAGTGGTTCATCCACAATTTTTATTACTGG
66 TATCTAAAAATTCTAGTGGTTCATCCACAATTTTTATTACTGG
**
11246625 CAGTTCATCTGCAATTACTAATGGTTTATCCACAAC
1 CAGTTCATCTGCAACGACTAATGGTTTATCCACAAC
11246661 ACAGTGTGTA
Statistics
Matches: 126, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
106 75 0.60
108 1 0.01
111 50 0.40
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.39
Consensus pattern (108 bp):
CAGTTCATCTGCAACGACTAATGGTTTATCCACAACGTACTAGCAGCTTGTCTGCAAATCTTTTT
TATCTAAAAATTCTAGTGGTTCATCCACAATTTTTATTACTGG
Found at i:11253418 original size:13 final size:14
Alignment explanation
Indices: 11253397--11253433 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
11253387 TCCAAGTGAG
11253397 ATAAAATAATTAAA
1 ATAAAATAATTAAA
*
11253411 AT-AAATAACTAAA
1 ATAAAATAATTAAA
11253424 ATAAAATAAT
1 ATAAAATAAT
11253434 AAATCAAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (14 bp):
ATAAAATAATTAAA
Found at i:11264989 original size:42 final size:43
Alignment explanation
Indices: 11264942--11265025 Score: 134
Period size: 42 Copynumber: 2.0 Consensus size: 43
11264932 TTTTTATAAT
* *
11264942 AAACGCCGCTATAGACCATGGTCTTTCGCGGC-CTTACCCAAC
1 AAACGCCGCTATAGACCATGGTCTTTAGCGACGCTTACCCAAC
*
11264984 AAACGCCGCTATAGGCCATGGTCTTTAGCGACGCTTACCCAA
1 AAACGCCGCTATAGACCATGGTCTTTAGCGACGCTTACCCAA
11265026 TAAATGCTGC
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
42 29 0.76
43 9 0.24
ACGTcount: A:0.25, C:0.33, G:0.20, T:0.21
Consensus pattern (43 bp):
AAACGCCGCTATAGACCATGGTCTTTAGCGACGCTTACCCAAC
Found at i:11265451 original size:21 final size:21
Alignment explanation
Indices: 11265425--11265478 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
11265415 AGCTGTTCTG
11265425 CTTCCCTCGCTGCAACCTCTA
1 CTTCCCTCGCTGCAACCTCTA
* * *
11265446 CTTCCCTCGCTGCAGCCTTTG
1 CTTCCCTCGCTGCAACCTCTA
*
11265467 CTTCTCTCGCTG
1 CTTCCCTCGCTG
11265479 TCGCATCTGC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.07, C:0.44, G:0.15, T:0.33
Consensus pattern (21 bp):
CTTCCCTCGCTGCAACCTCTA
Found at i:11265551 original size:21 final size:21
Alignment explanation
Indices: 11265527--11265566 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
11265517 TTTCGTTGAA
*
11265527 CCTCAGCTTCTCTCGCTGCTG
1 CCTCAGCTTCTCTCACTGCTG
*
11265548 CCTCTGCTTCTCTCACTGC
1 CCTCAGCTTCTCTCACTGC
11265567 CGCATCTGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.05, C:0.45, G:0.15, T:0.35
Consensus pattern (21 bp):
CCTCAGCTTCTCTCACTGCTG
Found at i:11265571 original size:87 final size:87
Alignment explanation
Indices: 11265438--11265643 Score: 256
Period size: 87 Copynumber: 2.4 Consensus size: 87
11265428 CCCTCGCTGC
* * * * *
11265438 AACCTCTA-CTTCCCTCGCTGCAGCCTTTGCTTCTCTCGCTGTCGCATCTGCTTTAAGATGCT-G
1 AACCTC-AGCTTCTCTCGCTGCTGCCTCTGCTTCTCTCACTGCCGCATCTGCTTTAAGATG-TAG
11265501 CTGGAGTTCTTCA-TACTTTCGTTG
64 CTGGAGTTCTTCATTACTTT-GTTG
* *
11265525 AACCTCAGCTTCTCTCGCTGCTGCCTCTGCTTCTCTCACTGCCGCATCTGTTTTAAGTTGTAGCT
1 AACCTCAGCTTCTCTCGCTGCTGCCTCTGCTTCTCTCACTGCCGCATCTGCTTTAAGATGTAGCT
* *
11265590 GGAGTTCTTCATTTCTTTTTTG
66 GGAGTTCTTCATTACTTTGTTG
* * *
11265612 AACCTCAGCTTCTCTCGATGTTGCCTCCGCTT
1 AACCTCAGCTTCTCTCGCTGCTGCCTCTGCTT
11265644 TAAGTTGTGT
Statistics
Matches: 104, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
86 2 0.02
87 97 0.93
88 5 0.05
ACGTcount: A:0.12, C:0.31, G:0.17, T:0.39
Consensus pattern (87 bp):
AACCTCAGCTTCTCTCGCTGCTGCCTCTGCTTCTCTCACTGCCGCATCTGCTTTAAGATGTAGCT
GGAGTTCTTCATTACTTTGTTG
Found at i:11265574 original size:21 final size:21
Alignment explanation
Indices: 11265532--11265574 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
11265522 TTGAACCTCA
* * *
11265532 GCTTCTCTCGCTGCTGCCTCT
1 GCTTCTCTCACTGCCGCATCT
11265553 GCTTCTCTCACTGCCGCATCT
1 GCTTCTCTCACTGCCGCATCT
11265574 G
1 G
11265575 TTTTAAGTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.05, C:0.42, G:0.19, T:0.35
Consensus pattern (21 bp):
GCTTCTCTCACTGCCGCATCT
Found at i:11267515 original size:15 final size:15
Alignment explanation
Indices: 11267487--11267522 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
11267477 TTAATAAAAG
*
11267487 GAAAA-AGTAGAAAT
1 GAAAACAGTACAAAT
11267501 GAAAACAGTACAAAT
1 GAAAACAGTACAAAT
11267516 GAAAACA
1 GAAAACA
11267523 AATTGGTGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 5 0.25
15 15 0.75
ACGTcount: A:0.64, C:0.08, G:0.17, T:0.11
Consensus pattern (15 bp):
GAAAACAGTACAAAT
Found at i:11271554 original size:73 final size:74
Alignment explanation
Indices: 11271319--11271567 Score: 419
Period size: 74 Copynumber: 3.4 Consensus size: 74
11271309 ATAACTATCA
11271319 TTTGCGGCGTTTGTACCAGAAACGCCGCTAATACCAATAAACAGTATAAAAAACGAAGTCGTTTT
1 TTTGCGGCGTTTGTACCAGAAACGCCGCTAATACCAATAAACAGTATAAAAAACGAAGTCGTTTT
*
11271384 GGTTAAAAT
66 GGTTAAACT
*
11271393 TTTGTGGCGTTTGTACCAGAAACGCCGCTAATACCAATAAACAGTATAAAAAACGAAGTCGTTTT
1 TTTGCGGCGTTTGTACCAGAAACGCCGCTAATACCAATAAACAGTATAAAAAACGAAGTCGTTTT
11271458 GGTTAAACT
66 GGTTAAACT
* *
11271467 TTTGCGGCGTTTTTACCAGAAACGCCGCTAATACCAATAAACAGTAT-AAAAACGAAGTCCTTTT
1 TTTGCGGCGTTTGTACCAGAAACGCCGCTAATACCAATAAACAGTATAAAAAACGAAGTCGTTTT
11271531 GGTTAAACT
66 GGTTAAACT
* * * *
11271540 TTTGTGGCGTTTTTACAATAAACGCCGC
1 TTTGCGGCGTTTGTACCAGAAACGCCGC
11271568 AAATTCGTGC
Statistics
Matches: 167, Mismatches: 8, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
73 50 0.30
74 117 0.70
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (74 bp):
TTTGCGGCGTTTGTACCAGAAACGCCGCTAATACCAATAAACAGTATAAAAAACGAAGTCGTTTT
GGTTAAACT
Found at i:11272727 original size:41 final size:41
Alignment explanation
Indices: 11272635--11272728 Score: 109
Period size: 41 Copynumber: 2.3 Consensus size: 41
11272625 GCTAGCTACA
*
11272635 AAACGCCGCTAATGCTCCGGTCTTCAGCGGCGTTTTATAAT
1 AAACGCCGCTAATGCTCCGGTCTTCAGCGGCGTTTTATAAG
* * * * *
11272676 ATATGCCGCTAATGCTGCGGTTTTTAGCGGCGCTTTT-TAAG
1 AAACGCCGCTAATGCTCCGGTCTTCAGCGGCG-TTTTATAAG
*
11272717 AAACGTCGCTAA
1 AAACGCCGCTAA
11272729 AGACCTAAGC
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
41 39 0.91
42 4 0.09
ACGTcount: A:0.22, C:0.23, G:0.23, T:0.31
Consensus pattern (41 bp):
AAACGCCGCTAATGCTCCGGTCTTCAGCGGCGTTTTATAAG
Found at i:11272744 original size:41 final size:41
Alignment explanation
Indices: 11272699--11272892 Score: 234
Period size: 41 Copynumber: 4.7 Consensus size: 41
11272689 GCTGCGGTTT
* * *
11272699 TTAGCGGCGCTTTTTAAGAAACGTCGCTAAAGACC-TAAGCA
1 TTAGCGGCGCTTTGTAAAAAACGCCGCTAAAGACCGT-AGCA
11272740 TTAGCGGCGCTTTGTAAAAAACGCCGCTAAAGACCGTAGCA
1 TTAGCGGCGCTTTGTAAAAAACGCCGCTAAAGACCGTAGCA
*
11272781 TTAGCGGCGCGTTGTAAAAAACGCCGCTAAAGACC-TGAGCA
1 TTAGCGGCGCTTTGTAAAAAACGCCGCTAAAGACCGT-AGCA
* * * *
11272822 TTAGCGGCGCATAT-TAGAAAACGCTGCGAAAGACCGTAGCA
1 TTAGCGGCGC-TTTGTAAAAAACGCCGCTAAAGACCGTAGCA
* *
11272863 TTAGCGGCGATTATGT-AAAAGCGCCGCTAA
1 TTAGCGGCGCTT-TGTAAAAAACGCCGCTAA
11272893 GGGCCCCAAA
Statistics
Matches: 132, Mismatches: 15, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
40 2 0.02
41 126 0.95
42 4 0.03
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.20
Consensus pattern (41 bp):
TTAGCGGCGCTTTGTAAAAAACGCCGCTAAAGACCGTAGCA
Found at i:11273070 original size:41 final size:40
Alignment explanation
Indices: 11272996--11273086 Score: 96
Period size: 41 Copynumber: 2.2 Consensus size: 40
11272986 TTACGAATAT
*
11272996 CGCCGCTAATGCTCTTATCTTTGGCGGCGTTTTTCGT-AAA
1 CGCCGCTAATGCTCTGATCTTTGGCGGCGTTTTT-GTCAAA
* * *
11273036 GCGCCGCTAATGCTC-GATTTTTTGTGGCGTTTTTTGTCCAAA
1 -CGCCGCTAATGCTCTGATCTTTGGCGGCG-TTTTTGT-CAAA
11273078 CGCCGCTAA
1 CGCCGCTAA
11273087 AAGCCTGTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
40 12 0.28
41 28 0.65
42 3 0.07
ACGTcount: A:0.15, C:0.25, G:0.23, T:0.36
Consensus pattern (40 bp):
CGCCGCTAATGCTCTGATCTTTGGCGGCGTTTTTGTCAAA
Found at i:11275373 original size:18 final size:17
Alignment explanation
Indices: 11275331--11275420 Score: 76
Period size: 18 Copynumber: 5.1 Consensus size: 17
11275321 GAACTTTCAA
11275331 TTTTAAAAATTATT-TT
1 TTTTAAAAATTATTATT
*
11275347 TTTTCAAAATATAATTATT
1 TTTT-AAAA-ATTATTATT
11275366 TTTTAAAAAATTATTATT
1 TTTT-AAAAATTATTATT
** * *
11275384 TTGTTTCAATTTAATT-TC
1 TT-TTAAAAATT-ATTATT
11275402 TTTTAAAAATTATTATT
1 TTTTAAAAATTATTATT
11275419 TT
1 TT
11275421 AAGAAAATTA
Statistics
Matches: 57, Mismatches: 11, Indels: 11
0.72 0.14 0.14
Matches are distributed among these distances:
16 7 0.12
17 13 0.23
18 22 0.39
19 15 0.26
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (17 bp):
TTTTAAAAATTATTATT
Found at i:11275374 original size:35 final size:32
Alignment explanation
Indices: 11275331--11275420 Score: 90
Period size: 36 Copynumber: 2.6 Consensus size: 32
11275321 GAACTTTCAA
*
11275331 TTTTAAAAATTATTTTTTTTCAAAATATAATTATT
1 TTTTAAAAATTATTTTTTTTC--AATATAATT-TC
*
11275366 TTTTAAAAAATTATTATTTTGTTTCAATTTAATTTC
1 TTTT-AAAAATTA-T-TTTT-TTTCAATATAATTTC
*
11275402 TTTTAAAAATTATTATTTT
1 TTTTAAAAATTATTTTTTT
11275421 AAGAAAATTA
Statistics
Matches: 48, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
32 2 0.04
33 3 0.06
34 1 0.02
35 12 0.25
36 13 0.27
37 9 0.19
38 4 0.08
39 4 0.08
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (32 bp):
TTTTAAAAATTATTTTTTTTCAATATAATTTC
Found at i:11275385 original size:17 final size:17
Alignment explanation
Indices: 11275331--11275432 Score: 59
Period size: 18 Copynumber: 5.9 Consensus size: 17
11275321 GAACTTTCAA
*
11275331 TTTT-AAAAATTATTTT
1 TTTTAAAAAATTATTAT
* *
11275347 TTTTCAAAATATAATTATT
1 TTTT-AAAAAATTATTA-T
11275366 TTTTAAAAAATTATTAT
1 TTTTAAAAAATTATTAT
*** *
11275383 TTTGTTTCAATTTAATT-T
1 TTT-TAAAAAATT-ATTAT
11275401 CTTTT-AAAAATTATTA-
1 -TTTTAAAAAATTATTAT
11275417 TTTTAAGAAAATTATT
1 TTTTAA-AAAATTATT
11275433 TTCCACTCAT
Statistics
Matches: 65, Mismatches: 12, Indels: 17
0.69 0.13 0.18
Matches are distributed among these distances:
15 4 0.06
16 8 0.12
17 17 0.26
18 25 0.38
19 11 0.17
ACGTcount: A:0.39, C:0.03, G:0.02, T:0.56
Consensus pattern (17 bp):
TTTTAAAAAATTATTAT
Found at i:11276274 original size:31 final size:29
Alignment explanation
Indices: 11276214--11276279 Score: 87
Period size: 31 Copynumber: 2.2 Consensus size: 29
11276204 AAGTTGTGGA
* *
11276214 TTTAGTCATTATACTTTGATTTGATTAAT
1 TTTAGTCATTATACTTTGAATTGAGTAAT
*
11276243 TTTAGTCATTATACTTTTTGAATTGGGTAAT
1 TTTAGTCATTATAC--TTTGAATTGAGTAAT
11276274 TTTAGT
1 TTTAGT
11276280 TTTTGTAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
29 14 0.44
31 18 0.56
ACGTcount: A:0.26, C:0.06, G:0.14, T:0.55
Consensus pattern (29 bp):
TTTAGTCATTATACTTTGAATTGAGTAAT
Found at i:11278506 original size:6 final size:6
Alignment explanation
Indices: 11278495--11278522 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
11278485 AAAATTAATT
11278495 AAAAAC AAAAAC AAAAAC AAAAAC AAAA
1 AAAAAC AAAAAC AAAAAC AAAAAC AAAA
11278523 GCTACAGCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAAAC
Found at i:11285224 original size:34 final size:34
Alignment explanation
Indices: 11285113--11285224 Score: 147
Period size: 34 Copynumber: 3.3 Consensus size: 34
11285103 TTAATACTCA
11285113 ATAAGCATGACTT-TTGCTACCGTATTGATATGTT
1 ATAAGCATG-CTTATTGCTACCGTATTGATATGTT
* * * *
11285147 ATAAGCAT-ATCTACTGCTACCGTATTGATCTATT
1 ATAAGCATGCT-TATTGCTACCGTATTGATATGTT
*
11285181 ATAAGCATGCTTATTGCTACTGTATTGATATGTT
1 ATAAGCATGCTTATTGCTACCGTATTGATATGTT
11285215 ATAAGCATGC
1 ATAAGCATGC
11285225 CATATTGCAC
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
32 1 0.02
33 1 0.02
34 63 0.95
35 1 0.02
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (34 bp):
ATAAGCATGCTTATTGCTACCGTATTGATATGTT
Found at i:11285349 original size:45 final size:45
Alignment explanation
Indices: 11285299--11285403 Score: 140
Period size: 45 Copynumber: 2.3 Consensus size: 45
11285289 TGTTTACATC
* * *
11285299 GATTAGTGGTTTATCCACAA-CATATTAGCATCTTTTATCTGTATT
1 GATTAGTGGTTTATCCA-AACCATATTAGCAACTTTTATCTGCACT
* *
11285344 GATTAGTAGTTTATCCAAACCGTATTAGCAACTTTTATCTGCACT
1 GATTAGTGGTTTATCCAAACCATATTAGCAACTTTTATCTGCACT
*
11285389 GATTACTGGTTTATC
1 GATTAGTGGTTTATC
11285404 ACTACACCAA
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
44 2 0.04
45 50 0.96
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (45 bp):
GATTAGTGGTTTATCCAAACCATATTAGCAACTTTTATCTGCACT
Found at i:11285438 original size:12 final size:12
Alignment explanation
Indices: 11285421--11285446 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11285411 CAAAACAGGC
11285421 TTTTAGCGGCGT
1 TTTTAGCGGCGT
11285433 TTTTAGCGGCGT
1 TTTTAGCGGCGT
11285445 TT
1 TT
11285447 GGATAAAAAA
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:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:11285663 original size:41 final size:41
Alignment explanation
Indices: 11285605--11285735 Score: 217
Period size: 41 Copynumber: 3.2 Consensus size: 41
11285595 TGAGCTTTCG
11285605 GGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCA
* *
11285646 GGGCTTTAGCGGTGTTTTTGAGATAGCGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCA
* *
11285687 GGGCTTTAGCGGCGTTTTTTAGAAAACGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCA
*
11285728 GGGATTTA
1 GGGCTTTA
11285736 AAATAATTTA
Statistics
Matches: 83, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 83 1.00
ACGTcount: A:0.20, C:0.20, G:0.31, T:0.30
Consensus pattern (41 bp):
GGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCA
Found at i:11286036 original size:50 final size:49
Alignment explanation
Indices: 11285967--11286082 Score: 124
Period size: 50 Copynumber: 2.3 Consensus size: 49
11285957 GTGTTACCAT
* * * *
11285967 TTTAAGGCTTATGGATTATGGGTTTAGGGGTTATGGTTTAAAGGTTGGGG
1 TTTAAGGTTTA-GGGTTATGGGTTAAGGGGTTATGGTTTAAAGGTTGAGG
* * * * *
11286017 TTTAAGGTTTAGAGGTTATGTGTTAAGGGTTTATGGTTTTAGGGTTTAGG
1 TTTAAGGTTTAG-GGTTATGGGTTAAGGGGTTATGGTTTAAAGGTTGAGG
*
11286067 TTTATGGTTTAGGGTT
1 TTTAAGGTTTAGGGTT
11286083 TAGATTAACT
Statistics
Matches: 55, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
49 5 0.09
50 50 0.91
ACGTcount: A:0.19, C:0.01, G:0.35, T:0.45
Consensus pattern (49 bp):
TTTAAGGTTTAGGGTTATGGGTTAAGGGGTTATGGTTTAAAGGTTGAGG
Found at i:11286068 original size:21 final size:20
Alignment explanation
Indices: 11286044--11286085 Score: 75
Period size: 20 Copynumber: 2.0 Consensus size: 20
11286034 ATGTGTTAAG
11286044 GGTTTATGGTTTTAGGGTTTA
1 GGTTTATGG-TTTAGGGTTTA
11286065 GGTTTATGGTTTAGGGTTTA
1 GGTTTATGGTTTAGGGTTTA
11286085 G
1 G
11286086 ATTAACTAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.14, C:0.00, G:0.36, T:0.50
Consensus pattern (20 bp):
GGTTTATGGTTTAGGGTTTA
Found at i:11286083 original size:14 final size:14
Alignment explanation
Indices: 11285909--11286085 Score: 76
Period size: 14 Copynumber: 12.4 Consensus size: 14
11285899 TATCACTATA
* *
11285909 GTTTAGGATTTTTG
1 GTTTAGGGTTTATG
*
11285923 GTTTAGGGTATATG
1 GTTTAGGGTTTATG
* * *
11285937 GTTTAGAGTGTAAG
1 GTTTAGGGTTTATG
*
11285951 GTTTAGGTGTTACCAT-
1 GTTTAGG-GTT--TATG
* *
11285967 -TTTAAGGCTTATG
1 GTTTAGGGTTTATG
* *
11285980 GATTATGGGTTTAGG
1 GTTTA-GGGTTTATG
* * *
11285995 GGTTATGGTTTAAAG
1 GTTTAGGGTTT-ATG
* *
11286010 G-TTGGGGTTTAAG
1 GTTTAGGGTTTATG
11286023 GTTTAGAGG-TTATG
1 GTTTAG-GGTTTATG
*
11286037 TGTTAAGGGTTTATG
1 -GTTTAGGGTTTATG
11286052 GTTTTAGGGTTTA-G
1 G-TTTAGGGTTTATG
* *
11286066 GTTTATGGTTTAGG
1 GTTTAGGGTTTATG
11286080 GTTTAG
1 GTTTAG
11286086 ATTAACTAGT
Statistics
Matches: 122, Mismatches: 28, Indels: 26
0.69 0.16 0.15
Matches are distributed among these distances:
12 2 0.02
13 14 0.11
14 63 0.52
15 42 0.34
17 1 0.01
ACGTcount: A:0.20, C:0.02, G:0.34, T:0.45
Consensus pattern (14 bp):
GTTTAGGGTTTATG
Found at i:11286085 original size:7 final size:7
Alignment explanation
Indices: 11285986--11286085 Score: 62
Period size: 7 Copynumber: 14.1 Consensus size: 7
11285976 TATGGATTAT
11285986 GGGTTTA
1 GGGTTTA
*
11285993 GGGGTTA
1 GGGTTTA
*
11286000 TGGTTTAA
1 GGGTTT-A
* *
11286008 AGG-TTG
1 GGGTTTA
11286014 GGGTTTA
1 GGGTTTA
*
11286021 AGGTTTA
1 GGGTTTA
11286028 GAGG-TTA
1 G-GGTTTA
* *
11286035 TGTGTTAA
1 -GGGTTTA
11286043 GGGTTTA
1 GGGTTTA
*
11286050 TGGTTTTA
1 -GGGTTTA
11286058 GGGTTTA
1 GGGTTTA
11286065 -GGTTTA
1 GGGTTTA
*
11286071 TGGTTTA
1 GGGTTTA
11286078 GGGTTTA
1 GGGTTTA
11286085 G
1 G
11286086 ATTAACTAGT
Statistics
Matches: 70, Mismatches: 16, Indels: 14
0.70 0.16 0.14
Matches are distributed among these distances:
6 8 0.11
7 48 0.69
8 14 0.20
ACGTcount: A:0.18, C:0.00, G:0.38, T:0.44
Consensus pattern (7 bp):
GGGTTTA
Found at i:11286289 original size:14 final size:15
Alignment explanation
Indices: 11286260--11286297 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
11286250 AATAATTATA
11286260 TATGGATTTAGAGAT
1 TATGGATTTAGAGAT
*
11286275 TATGGA-TTAGGGAT
1 TATGGATTTAGAGAT
11286289 TATGG-TTTA
1 TATGGATTTA
11286298 AGGGTTGGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (15 bp):
TATGGATTTAGAGAT
Found at i:11286318 original size:21 final size:21
Alignment explanation
Indices: 11286284--11286362 Score: 72
Period size: 21 Copynumber: 3.7 Consensus size: 21
11286274 TTATGGATTA
*
11286284 GGGA-TTATGGTTTAAGGGTT
1 GGGATTTAAGGTTTAAGGGTT
11286304 GGGATTTAAGGTTTAAGGGTT
1 GGGATTTAAGGTTTAAGGGTT
* * *
11286325 AGGAGTTAGAGG-TTAAGAGTT
1 GGGATTTA-AGGTTTAAGGGTT
*
11286346 AGGGATTTCAGGGTTTA
1 -GGGATTT-AAGGTTTA
11286363 GGATTTAGGG
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
20 4 0.09
21 29 0.62
22 10 0.21
23 4 0.09
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.35
Consensus pattern (21 bp):
GGGATTTAAGGTTTAAGGGTT
Found at i:11293014 original size:42 final size:43
Alignment explanation
Indices: 11292937--11293037 Score: 143
Period size: 42 Copynumber: 2.4 Consensus size: 43
11292927 NNNNNNNNNN
**
11292937 CTATAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGG-CCTTGAT
1 CTATAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCC-CAAT
*
11292980 CTATAGCGGCGTTTGT-GCAAAAGCGCCGCTAAAGGTCCCAAT
1 CTATAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCCCAAT
*
11293022 CTATAGCGGCTTTTGT
1 CTATAGCGGCGTTTGT
11293038 AGCGGCGTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
42 35 0.66
43 18 0.34
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (43 bp):
CTATAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCCCAAT
Found at i:11293066 original size:55 final size:54
Alignment explanation
Indices: 11292983--11293086 Score: 172
Period size: 55 Copynumber: 1.9 Consensus size: 54
11292973 CCTTGATCTA
*
11292983 TAGCGGCGTTTGTGCAAAAGCGCCGCTAAAGGTCCCAATCTATAGCGGCTTTTG
1 TAGCGGCGTTTCTGCAAAAGCGCCGCTAAAGGTCCCAATCTATAGCGGCTTTTG
* *
11293037 TAGCGGCGTTTCTGGGAAAAGCGCCGCTAAAGGTCCCAATCTCTAGCGGC
1 TAGCGGCGTTTCT-GCAAAAGCGCCGCTAAAGGTCCCAATCTATAGCGGC
11293087 GTTTATTTCT
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
54 12 0.26
55 34 0.74
ACGTcount: A:0.22, C:0.26, G:0.29, T:0.23
Consensus pattern (54 bp):
TAGCGGCGTTTCTGCAAAAGCGCCGCTAAAGGTCCCAATCTATAGCGGCTTTTG
Found at i:11293222 original size:43 final size:43
Alignment explanation
Indices: 11293174--11293792 Score: 450
Period size: 43 Copynumber: 14.3 Consensus size: 43
11293164 CAAATACTTT
* *
11293174 TAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCTTGAGCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTA
* * *
11293217 TAGCGGCTTTTGTGGGAAAAGCGCTGCTAAAGGCCTTGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTA
* **
11293260 TAGCGGCGTTTGTGGGAAAAGCGCCACTAAAGACCTTGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTA
* * ***
11293303 TAGCGGCGTTTGT-GCAAAAGCGCTGCTAAAGGTCCCAATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTA
* * *
11293345 TAGCGGCGTTTGT-GGAACATGCGCCGCTGAAGGTCCTGATCTA
1 TAGCGGCGTTTGTGGGAA-AAGCGCCGCTAAAGGTCTTGATCTA
* *
11293388 TGGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTC-CGAATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTG-ATCTA
* *** * * * * **
11293431 TAGCGGCGTTTATTTCTAAAAACGCCACAAAAGTTTGCGGCGTTGA-AAA
1 TAGCGGCGTTT-GTGGGAAAAGCGCCGCTAAA----G-GTC-TTGATCTA
* * * * ** * *** *
11293480 CAGCGGCACTTTTTGCG----GCG-CTTTAAAAAATGTCGCAAATACTTT
1 TAGCGGC-GTTTGTGGGAAAAGCGCCGCT---AAAGGTC-TTGAT-C-TA
* * *
11293525 TAGCAGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCTTGAGCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTA
* *
11293568 TAGCGGCTTTTGTGGGAAAAGCGCCGCTAAAGGCCTTGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTA
* *
11293611 TAGCGGCGTTTGTGGGAAAAGCGCCACTAAAGGCCTTGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTA
* * * ***
11293654 TAGTGACGTTTGT-GCAAAAGCGCCGCTAAAGGTCCCAATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTA
* * * * *
11293696 TAGCGGCGTTTG-AGGAACAGGCACCGCTAAAGATCCTGATCTA
1 TAGCGGCGTTTGTGGGAA-AAGCGCCGCTAAAGGTCTTGATCTA
* * * *
11293739 TAGCGGCATTTGTGGGAAAAGCACCGTTAAAGGTCATGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTA
*
11293782 TAGCGACGTTT
1 TAGCGGCGTTT
11293793 ATTTCTAAAA
Statistics
Matches: 451, Mismatches: 99, Indels: 52
0.75 0.16 0.09
Matches are distributed among these distances:
42 78 0.17
43 304 0.67
44 29 0.06
45 8 0.02
46 6 0.01
47 3 0.01
48 4 0.01
49 14 0.03
50 4 0.01
51 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (43 bp):
TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTA
Found at i:11293418 original size:128 final size:129
Alignment explanation
Indices: 11293174--11293441 Score: 341
Period size: 128 Copynumber: 2.1 Consensus size: 129
11293164 CAAATACTTT
* *** *
11293174 TAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCTTGAGCTATAGCGGCTTTTGTGGGAAAAGC
1 TAGCGGCGTTTGTGGCAAAAGCGTCGCTAAAGGTCCCAAGCTATAGCGGCGTTTGTGGGAAAAGC
*
11293239 GCTGCTAAAGGCCTTGATCTATAGCGGCGTTTGTGGGAAAAGCGCCACTAAA-GACCTTG-ATCT
66 GCCGCTAAAGGCCTTGATCTATAGCGGCGTTTGTGGGAAAAGCGCCACTAAAGGACC--GAATCT
11293302 A
129 A
* *
11293303 TAGCGGCGTTTGT-GCAAAAGCG-CTGCTAAAGGTCCCAATCTATAGCGGCGTTTGT-GGAACAT
1 TAGCGGCGTTTGTGGCAAAAGCGTC-GCTAAAGGTCCCAAGCTATAGCGGCGTTTGTGGGAA-AA
* * * *
11293365 GCGCCGCTGAAGGTCC-TGATCTATGGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCGAATC
64 GCGCCGCTAAAGG-CCTTGATCTATAGCGGCGTTTGTGGGAAAAGCGCCACTAAAGGACCGAATC
11293429 TA
128 TA
11293431 TAGCGGCGTTT
1 TAGCGGCGTTT
11293442 ATTTCTAAAA
Statistics
Matches: 122, Mismatches: 12, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
127 6 0.05
128 98 0.80
129 18 0.15
ACGTcount: A:0.23, C:0.21, G:0.31, T:0.25
Consensus pattern (129 bp):
TAGCGGCGTTTGTGGCAAAAGCGTCGCTAAAGGTCCCAAGCTATAGCGGCGTTTGTGGGAAAAGC
GCCGCTAAAGGCCTTGATCTATAGCGGCGTTTGTGGGAAAAGCGCCACTAAAGGACCGAATCTA
Found at i:11293684 original size:351 final size:351
Alignment explanation
Indices: 11293037--11293816 Score: 1301
Period size: 351 Copynumber: 2.2 Consensus size: 351
11293027 GCGGCTTTTG
* * *
11293037 TAGCGGCGTTTCTGGGAAAAGCGCCGCTAAAGGTCCCAATCTCTAGCGGCGTTTATTTCTAAAAA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCGAATCTATAGCGGCGTTTATTTCTAAAAA
* * *
11293102 CGCCGTAAAAGTTTGTGGCGTTGAAAACAGCGGCACTTTTTGCGGCGCTTTCAAAAACGCCGCAA
66 CGCCGCAAAAGTTTGCGGCGTTGAAAACAGCGGCACTTTTTGCGGCGCTTTAAAAAACGCCGCAA
*
11293167 ATACTTTTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCTTGAGCTATAGCGGCTTTTGTGG
131 ATACTTTTAGCAGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCTTGAGCTATAGCGGCTTTTGTGG
*
11293232 GAAAAGCGCTGCTAAAGGCCTTGATCTATAGCGGCGTTTGTGGGAAAAGCGCCACTAAAGACCTT
196 GAAAAGCGCCGCTAAAGGCCTTGATCTATAGCGGCGTTTGTGGGAAAAGCGCCACTAAAGACCTT
* * *
11293297 GATCTATAGCGGCGTTTGTGCAAAAGCGCTGCTAAAGGTCCCAATCTATAGCGGCGTTTGTGGAA
261 GATCTATAGCGACGTTTGTGCAAAAGCGCCGCTAAAGGTCCCAATCTATAGCGGCGTTTGAGGAA
* * * *
11293362 CATGCGCCGCTGAAGGTCCTGATCTA
326 CAGGCACCGCTAAAGATCCTGATCTA
*
11293388 TGGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCGAATCTATAGCGGCGTTTATTTCTAAAAA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCGAATCTATAGCGGCGTTTATTTCTAAAAA
* * *
11293453 CGCCACAAAAGTTTGCGGCGTTGAAAACAGCGGCACTTTTTGCGGCGCTTTAAAAAATGTCGCAA
66 CGCCGCAAAAGTTTGCGGCGTTGAAAACAGCGGCACTTTTTGCGGCGCTTTAAAAAACGCCGCAA
11293518 ATACTTTTAGCAGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCTTGAGCTATAGCGGCTTTTGTGG
131 ATACTTTTAGCAGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCTTGAGCTATAGCGGCTTTTGTGG
*
11293583 GAAAAGCGCCGCTAAAGGCCTTGATCTATAGCGGCGTTTGTGGGAAAAGCGCCACTAAAGGCCTT
196 GAAAAGCGCCGCTAAAGGCCTTGATCTATAGCGGCGTTTGTGGGAAAAGCGCCACTAAAGACCTT
*
11293648 GATCTATAGTGACGTTTGTGCAAAAGCGCCGCTAAAGGTCCCAATCTATAGCGGCGTTTGAGGAA
261 GATCTATAGCGACGTTTGTGCAAAAGCGCCGCTAAAGGTCCCAATCTATAGCGGCGTTTGAGGAA
11293713 CAGGCACCGCTAAAGATCCTGATCTA
326 CAGGCACCGCTAAAGATCCTGATCTA
* * * * *
11293739 TAGCGGCATTTGTGGGAAAAGCACCGTTAAAGGTCATG-ATCTATAGCGACGTTTATTTCTAAAA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTC-CGAATCTATAGCGGCGTTTATTTCTAAAA
*
11293803 ATGCCGCAAAAGTT
65 ACGCCGCAAAAGTT
11293817 GAAAATAGCG
Statistics
Matches: 399, Mismatches: 29, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
351 398 1.00
352 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (351 bp):
TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCGAATCTATAGCGGCGTTTATTTCTAAAAA
CGCCGCAAAAGTTTGCGGCGTTGAAAACAGCGGCACTTTTTGCGGCGCTTTAAAAAACGCCGCAA
ATACTTTTAGCAGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCTTGAGCTATAGCGGCTTTTGTGG
GAAAAGCGCCGCTAAAGGCCTTGATCTATAGCGGCGTTTGTGGGAAAAGCGCCACTAAAGACCTT
GATCTATAGCGACGTTTGTGCAAAAGCGCCGCTAAAGGTCCCAATCTATAGCGGCGTTTGAGGAA
CAGGCACCGCTAAAGATCCTGATCTA
Found at i:11293770 original size:128 final size:129
Alignment explanation
Indices: 11293531--11293792 Score: 323
Period size: 128 Copynumber: 2.0 Consensus size: 129
11293521 CTTTTAGCAG
* * *** * * *
11293531 CGTTTGTGGGAAAAGCGTCGCTAAAGGTCTTGAGCTATAGCGGCTTTTGTGGGAAAAGCGCCGCT
1 CGTTTGTGGCAAAAGCGCCGCTAAAGGTCCCAAGCTATAGCGGCGTTTGTAGGAAAAGCACCGCT
* * * *
11293596 AAAGGCCTTGATCTATAGCGGCGTTTGTGGGAAAAGCGCCACTAAAGGCCTTGATCTATAGTGA
66 AAAGGCCTTGATCTATAGCGGCATTTGTGGGAAAAGCACCACTAAAGGCCATGATCTATAGCGA
* *
11293660 CGTTTGT-GCAAAAGCGCCGCTAAAGGTCCCAATCTATAGCGGCGTTTG-AGGAACAGGCACCGC
1 CGTTTGTGGCAAAAGCGCCGCTAAAGGTCCCAAGCTATAGCGGCGTTTGTAGGAA-AAGCACCGC
* ** *
11293723 TAAAGATCC-TGATCTATAGCGGCATTTGTGGGAAAAGCACCGTTAAAGGTCATGATCTATAGCG
65 TAAAG-GCCTTGATCTATAGCGGCATTTGTGGGAAAAGCACCACTAAAGGCCATGATCTATAGCG
11293787 A
129 A
11293788 CGTTT
1 CGTTT
11293793 ATTTCTAAAA
Statistics
Matches: 113, Mismatches: 18, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
127 4 0.04
128 100 0.88
129 9 0.08
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (129 bp):
CGTTTGTGGCAAAAGCGCCGCTAAAGGTCCCAAGCTATAGCGGCGTTTGTAGGAAAAGCACCGCT
AAAGGCCTTGATCTATAGCGGCATTTGTGGGAAAAGCACCACTAAAGGCCATGATCTATAGCGA
Found at i:11298290 original size:18 final size:18
Alignment explanation
Indices: 11298267--11298303 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
11298257 GTATATGCAA
*
11298267 AACACTCGATACATATAC
1 AACACTCAATACATATAC
11298285 AACACTCAATACATATAC
1 AACACTCAATACATATAC
11298303 A
1 A
11298304 TATATTGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.49, C:0.27, G:0.03, T:0.22
Consensus pattern (18 bp):
AACACTCAATACATATAC
Found at i:11330522 original size:8 final size:8
Alignment explanation
Indices: 11330504--11330546 Score: 68
Period size: 8 Copynumber: 5.1 Consensus size: 8
11330494 ATGAGATGCT
11330504 ATGGACTAA
1 ATGG-CTAA
11330513 ATGGCTAA
1 ATGGCTAA
11330521 ATGGCTAA
1 ATGGCTAA
11330529 ATGGCTAA
1 ATGGCTAA
11330537 ATGGACTAA
1 ATGG-CTAA
11330546 A
1 A
11330547 ATAAACCATA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
8 24 0.73
9 9 0.27
ACGTcount: A:0.42, C:0.12, G:0.23, T:0.23
Consensus pattern (8 bp):
ATGGCTAA
Found at i:11330530 original size:16 final size:17
Alignment explanation
Indices: 11330504--11330546 Score: 79
Period size: 16 Copynumber: 2.6 Consensus size: 17
11330494 ATGAGATGCT
11330504 ATGGACTAAATGGCTAA
1 ATGGACTAAATGGCTAA
11330521 ATGG-CTAAATGGCTAA
1 ATGGACTAAATGGCTAA
11330537 ATGGACTAAA
1 ATGGACTAAA
11330547 ATAAACCATA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 16 0.64
17 9 0.36
ACGTcount: A:0.42, C:0.12, G:0.23, T:0.23
Consensus pattern (17 bp):
ATGGACTAAATGGCTAA
Found at i:11336905 original size:26 final size:26
Alignment explanation
Indices: 11336869--11336918 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
11336859 CTGATCAAAA
11336869 AGGGGTTGCTAAGTGCGGATTCCCTT
1 AGGGGTTGCTAAGTGCGGATTCCCTT
*
11336895 AGGGGTTGCTAAGTGCTGATTCCC
1 AGGGGTTGCTAAGTGCGGATTCCC
11336919 CGAATTATTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.16, C:0.20, G:0.34, T:0.30
Consensus pattern (26 bp):
AGGGGTTGCTAAGTGCGGATTCCCTT
Found at i:11336938 original size:67 final size:68
Alignment explanation
Indices: 11336828--11336959 Score: 187
Period size: 67 Copynumber: 2.0 Consensus size: 68
11336818 ATTGAATGTA
*
11336828 AGGGGTTGCTAAGTGCAGATTCCCCGAATCACTGATCAAAAAGG-GGTTGCTAAGTGCGGATTCC
1 AGGGGTTGCTAAGTGCAGATTCCCCGAATCACTGATCAAAAAGGTGGTTGCGAAGTGCGGATTCC
11336892 CTT
66 CTT
* * * * *
11336895 AGGGGTTGCTAAGTGCTGATTCCCCGAATTATTGATTC-TAAAGGTGGTTGCGAAGTGCTGATTC
1 AGGGGTTGCTAAGTGCAGATTCCCCGAATCACTGA-TCAAAAAGGTGGTTGCGAAGTGCGGATTC
11336959 C
65 C
11336960 ATCGTATCCT
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
67 37 0.65
68 20 0.35
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (68 bp):
AGGGGTTGCTAAGTGCAGATTCCCCGAATCACTGATCAAAAAGGTGGTTGCGAAGTGCGGATTCC
CTT
Found at i:11336945 original size:42 final size:43
Alignment explanation
Indices: 11336898--11337048 Score: 139
Period size: 42 Copynumber: 3.6 Consensus size: 43
11336888 TTCCCTTAGG
* *
11336898 GGTTGCTAAGTGCTGATTCC-CCGAATTATTGATTCTAAAGGT
1 GGTTGCTAAGTGCTGATTCCACCGAATCATTGATTATAAAGGT
* * * * *
11336940 GGTTGCGAAGTGCTGATTCCATCGTATCCTTGATTGTGAAAGG-
1 GGTTGCTAAGTGCTGATTCCACCGAATCATTGATTAT-AAAGGT
* * * * * *
11336983 GGTTGCTATGTGTTGATTCC-CCGTATCACTGAATAT-AAGTT
1 GGTTGCTAAGTGCTGATTCCACCGAATCATTGATTATAAAGGT
*
11337024 GGTTGCTATGTGCTGATTCCACCGA
1 GGTTGCTAAGTGCTGATTCCACCGA
11337049 GTAATGGTTA
Statistics
Matches: 88, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
40 3 0.03
41 19 0.22
42 33 0.38
43 28 0.32
44 5 0.06
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.35
Consensus pattern (43 bp):
GGTTGCTAAGTGCTGATTCCACCGAATCATTGATTATAAAGGT
Found at i:11342869 original size:19 final size:20
Alignment explanation
Indices: 11342821--11342869 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
11342811 ATCTCTAATC
11342821 CTTATTCTCTCAAACTTATCA
1 CTTATTCTCTCAAACTTAT-A
*
11342842 CTT-TTCTCTCAAATTTAT-
1 CTTATTCTCTCAAACTTATA
11342860 CTTATTCTCT
1 CTTATTCTCT
11342870 TACACTCCCT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 3 0.12
19 6 0.23
20 14 0.54
21 3 0.12
ACGTcount: A:0.22, C:0.27, G:0.00, T:0.51
Consensus pattern (20 bp):
CTTATTCTCTCAAACTTATA
Found at i:11344549 original size:42 final size:42
Alignment explanation
Indices: 11344470--11344697 Score: 167
Period size: 42 Copynumber: 5.4 Consensus size: 42
11344460 TTTAGTCGAC
* * * * * *
11344470 GATGCACTTATGTGCCAGTGTATTTTCTTTGGTTCATCTGAT
1 GATGCACTTACGTGCCAGTATATTTGCTTCGGCTCATCCGAT
* *
11344512 GATGCACTTACGTGCCAGTATATTTGCTTCGGCTCATCCAAA
1 GATGCACTTACGTGCCAGTATATTTGCTTCGGCTCATCCGAT
* * * * * * *
11344554 GATGCATTTACATGTCATTATATTTGCTTCAGTTCATTCGAT
1 GATGCACTTACGTGCCAGTATATTTGCTTCGGCTCATCCGAT
* * * * *
11344596 GATGCACCTTATGTGCCATTATAATTGCTTTGGC-C-TGCCAAT
1 GATGCA-CTTACGTGCCAGTATATTTGCTTCGGCTCAT-CCGAT
* *
11344638 AATGCAC-TACGTGTGCCAGTATATTTCCTTCGGC-CTATCCGAT
1 GATGCACTTAC--GTGCCAGTATATTTGCTTCGGCTC-ATCCGAT
* *
11344681 GATGCACTAAGGTGCCA
1 GATGCACTTACGTGCCA
11344698 AATTGATATG
Statistics
Matches: 142, Mismatches: 37, Indels: 14
0.74 0.19 0.07
Matches are distributed among these distances:
40 2 0.01
41 2 0.01
42 107 0.75
43 29 0.20
44 2 0.01
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.36
Consensus pattern (42 bp):
GATGCACTTACGTGCCAGTATATTTGCTTCGGCTCATCCGAT
Found at i:11346199 original size:21 final size:20
Alignment explanation
Indices: 11346162--11346209 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
11346152 AAAATTTATT
11346162 AAAAATTAAAAAGATTACAA
1 AAAAATTAAAAAGATTACAA
* * *
11346182 AAAATATTTAAAATATTATAA
1 AAAA-ATTAAAAAGATTACAA
11346203 AAAAATT
1 AAAAATT
11346210 CAAAGAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 7 0.29
21 17 0.71
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (20 bp):
AAAAATTAAAAAGATTACAA
Found at i:11352146 original size:44 final size:44
Alignment explanation
Indices: 11352069--11352175 Score: 171
Period size: 44 Copynumber: 2.4 Consensus size: 44
11352059 ACATCACTTG
*
11352069 TCACCTGTTACTGATCAGATAAGTGTACATAAAGCTACCACCTA
1 TCACTTGTTACTGATCAGATAAGTGTACATAAAGCTACCACCTA
* *
11352113 TCACTTGTCACTGATCAGATAAGTGTAGC-TAAAGCTACCACTTA
1 TCACTTGTTACTGATCAGATAAGTGTA-CATAAAGCTACCACCTA
11352157 TCACTTGTTACTGATCAGA
1 TCACTTGTTACTGATCAGA
11352176 AGTACTCAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
44 57 0.98
45 1 0.02
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (44 bp):
TCACTTGTTACTGATCAGATAAGTGTACATAAAGCTACCACCTA
Found at i:11355400 original size:24 final size:27
Alignment explanation
Indices: 11355359--11355407 Score: 68
Period size: 24 Copynumber: 1.9 Consensus size: 27
11355349 ATACTAGGTT
11355359 TTTTCTCCTAGTTAAACTCT-ATTATC
1 TTTTCTCCTAGTTAAACTCTGATTATC
*
11355385 TTTTC-CC-AGTTGAACTCTGATTA
1 TTTTCTCCTAGTTAAACTCTGATTA
11355408 ATGTAGGATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 10 0.48
25 6 0.29
26 5 0.24
ACGTcount: A:0.22, C:0.22, G:0.08, T:0.47
Consensus pattern (27 bp):
TTTTCTCCTAGTTAAACTCTGATTATC
Found at i:11359871 original size:92 final size:91
Alignment explanation
Indices: 11359714--11359901 Score: 243
Period size: 92 Copynumber: 2.1 Consensus size: 91
11359704 GACAGTGTGT
* ** * * *
11359714 TGGGCCGTGTGCTCGGCCACGTGAGATATACGGGCGTATGAGCCACACAGTCTAGTTGAGGTAGG
1 TGGGCCGTATGCTCAACCACGTGAGACACACAGGCGTATGAGCCACACAGTCTAGTTGAGGTAGG
* * *
11359779 GTATGTGGGCCATACATTTTTGCCTGG
66 G-ATGTGGGCCACACATTTTGGCCTAG
* * *
11359806 TGGGCCGTATGCTCAACCATGTGAGACACACAGGCGTGTGAGCCACACGGTCTAGTT-ATGGTAG
1 TGGGCCGTATGCTCAACCACGTGAGACACACAGGCGTATGAGCCACACAGTCTAGTTGA-GGTAG
11359870 GGATGTGGGCCACACATTTTGGCCTAG
65 GGATGTGGGCCACACATTTTGGCCTAG
11359897 TGGGC
1 TGGGC
11359902 TGTGTGGGTC
Statistics
Matches: 83, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
91 28 0.34
92 55 0.66
ACGTcount: A:0.20, C:0.22, G:0.34, T:0.24
Consensus pattern (91 bp):
TGGGCCGTATGCTCAACCACGTGAGACACACAGGCGTATGAGCCACACAGTCTAGTTGAGGTAGG
GATGTGGGCCACACATTTTGGCCTAG
Found at i:11366563 original size:25 final size:24
Alignment explanation
Indices: 11366521--11366569 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 24
11366511 GTCATTAGGG
*
11366521 TTACCGATTCCAGCTCGTATGAGC
1 TTACCGATACCAGCTCGTATGAGC
11366545 TTACCGATACTCAGCTCGTATGAGC
1 TTACCGATAC-CAGCTCGTATGAGC
11366570 ATACATGTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 9 0.39
25 14 0.61
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (24 bp):
TTACCGATACCAGCTCGTATGAGC
Found at i:11374485 original size:44 final size:45
Alignment explanation
Indices: 11374430--11374526 Score: 142
Period size: 44 Copynumber: 2.2 Consensus size: 45
11374420 CTATTACACA
* * *
11374430 TCTATTCCATTCAACCAAACACAAGAATACC-ATTATGCCTCTAT
1 TCTATTACATTCAACCAAACAAAAGAATACCTATTACGCCTCTAT
*
11374474 TCTATTACATTCAACCAAACAAAAGATTACCTATTACGCCTCTAT
1 TCTATTACATTCAACCAAACAAAAGAATACCTATTACGCCTCTAT
*
11374519 TCCATTAC
1 TCTATTAC
11374527 GCATCTATTC
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
44 28 0.60
45 19 0.40
ACGTcount: A:0.36, C:0.29, G:0.04, T:0.31
Consensus pattern (45 bp):
TCTATTACATTCAACCAAACAAAAGAATACCTATTACGCCTCTAT
Found at i:11374527 original size:16 final size:16
Alignment explanation
Indices: 11374506--11374558 Score: 97
Period size: 16 Copynumber: 3.3 Consensus size: 16
11374496 AAGATTACCT
11374506 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
11374522 ATTACGCATCTATTCC
1 ATTACGCCTCTATTCC
11374538 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
11374554 ATTAC
1 ATTAC
11374559 AGCCAACCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.23, C:0.34, G:0.06, T:0.38
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:11377114 original size:18 final size:18
Alignment explanation
Indices: 11377091--11377153 Score: 56
Period size: 18 Copynumber: 3.3 Consensus size: 18
11377081 TTATATATAA
11377091 TTTTATGTAATTTAAATT
1 TTTTATGTAATTTAAATT
**
11377109 TTTTATGTTTTTCTAAATT
1 TTTTATGTAATT-TAAATT
*
11377128 TTTT-TATATATTTAATTATT
1 TTTTATGTA-ATTTAA--ATT
11377148 TTTTAT
1 TTTTAT
11377154 ATATCTTTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
18 15 0.43
19 12 0.34
20 7 0.20
21 1 0.03
ACGTcount: A:0.27, C:0.02, G:0.03, T:0.68
Consensus pattern (18 bp):
TTTTATGTAATTTAAATT
Found at i:11378441 original size:16 final size:16
Alignment explanation
Indices: 11378416--11378458 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
11378406 ATAATTTACC
* * *
11378416 TTAATTATTTTTATTT
1 TTAATAATTTTAAATT
11378432 TTAATAATTTTAAATT
1 TTAATAATTTTAAATT
11378448 TTAATTAATTT
1 TTAA-TAATTT
11378459 ATGGATGGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 17 0.74
17 6 0.26
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TTAATAATTTTAAATT
Found at i:11378812 original size:31 final size:32
Alignment explanation
Indices: 11378777--11378836 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 32
11378767 AAAATTTCTA
* * *
11378777 TATTATATAAATATATAATAT-AATATGCAAT
1 TATTATATAAAAACATAAAATAAATATGCAAT
11378808 TATTATATAAAAACATAAAATAAATATGC
1 TATTATATAAAAACATAAAATAAATATGC
11378837 GTACATTTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 18 0.72
32 7 0.28
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.37
Consensus pattern (32 bp):
TATTATATAAAAACATAAAATAAATATGCAAT
Found at i:11380159 original size:18 final size:17
Alignment explanation
Indices: 11380114--11380161 Score: 60
Period size: 18 Copynumber: 2.8 Consensus size: 17
11380104 GAAAAGGCAC
*
11380114 GAAAAAGAAGAAAGAAG
1 GAAAAAGAAAAAAGAAG
**
11380131 GAAAATTAAAACAAGAAG
1 GAAAAAGAAAA-AAGAAG
11380149 GAAAAAGAAAAAA
1 GAAAAAGAAAAAA
11380162 AAACAGACAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
17 10 0.40
18 15 0.60
ACGTcount: A:0.73, C:0.02, G:0.21, T:0.04
Consensus pattern (17 bp):
GAAAAAGAAAAAAGAAG
Found at i:11383640 original size:40 final size:40
Alignment explanation
Indices: 11383584--11383736 Score: 216
Period size: 40 Copynumber: 3.8 Consensus size: 40
11383574 ATTATATACT
* * *
11383584 GAAATGTATGCACTTTCGATCCATACATACTGAATCTACT
1 GAAATGTATGCACTTTCGAGCCATACCTACTGAATCTACC
* *
11383624 GAAATGTATGCGCTTTCGAGCTATACCTACTGAATCTACC
1 GAAATGTATGCACTTTCGAGCCATACCTACTGAATCTACC
* *
11383664 GAAATGTATGCTCTTTCGAGCCATACCTATTGAATCTACC
1 GAAATGTATGCACTTTCGAGCCATACCTACTGAATCTACC
* * *
11383704 AAAAAGCATGCACTTTCGAGCCATACCTACTGA
1 GAAATGTATGCACTTTCGAGCCATACCTACTGA
11383737 TTATATTGAA
Statistics
Matches: 100, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 100 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (40 bp):
GAAATGTATGCACTTTCGAGCCATACCTACTGAATCTACC
Found at i:11383748 original size:80 final size:80
Alignment explanation
Indices: 11383577--11383748 Score: 218
Period size: 80 Copynumber: 2.1 Consensus size: 80
11383567 ATGTTGTATT
* ** * * *
11383577 ATATACTGAAATGTATGCACTTTCGATCCATACATACTGAATCTACTGAAATGTATGCGCTTTCG
1 ATATACTGAAATGTATGCACTTTCGAGCCATACATACTGAATCTACCAAAAAGCATGCACTTTCG
*
11383642 AGCTATACCTACTGA
66 AGCCATACCTACTGA
* * * * *
11383657 ATCTACCGAAATGTATGCTCTTTCGAGCCATACCTATTGAATCTACCAAAAAGCATGCACTTTCG
1 ATATACTGAAATGTATGCACTTTCGAGCCATACATACTGAATCTACCAAAAAGCATGCACTTTCG
11383722 AGCCATACCTACTGA
66 AGCCATACCTACTGA
* *
11383737 TTATATTGAAAT
1 ATATACTGAAAT
11383749 ATTGTACAGA
Statistics
Matches: 76, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
80 76 1.00
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.31
Consensus pattern (80 bp):
ATATACTGAAATGTATGCACTTTCGAGCCATACATACTGAATCTACCAAAAAGCATGCACTTTCG
AGCCATACCTACTGA
Found at i:11393649 original size:15 final size:16
Alignment explanation
Indices: 11393624--11393658 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
11393614 AACAAATAAA
*
11393624 AAAAATCAAAAATTTT
1 AAAAATCAAAAATATT
11393640 AAAAAT-AAAAATATT
1 AAAAATCAAAAATATT
11393655 AAAA
1 AAAA
11393659 GGAATATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (16 bp):
AAAAATCAAAAATATT
Found at i:11394255 original size:21 final size:22
Alignment explanation
Indices: 11394213--11394268 Score: 55
Period size: 20 Copynumber: 2.7 Consensus size: 22
11394203 TATTAATTTT
* *
11394213 TATTTTT-TAAACTTTATTTAA
1 TATTTTTATAAATTTTATATAA
11394234 TATTTTTATAAATTTTA-ATAA
1 TATTTTTATAAATTTTATATAA
* *
11394255 T-GTTTTACAAATTT
1 TATTTTTATAAATTT
11394269 ACAAATTTCT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 11 0.37
21 11 0.37
22 8 0.27
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.59
Consensus pattern (22 bp):
TATTTTTATAAATTTTATATAA
Found at i:11401583 original size:12 final size:12
Alignment explanation
Indices: 11401557--11401595 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
11401547 TTTGTGTTTG
11401557 TATATATATTAAT
1 TATATATA-TAAT
11401570 TATATATATAAT
1 TATATATATAAT
* *
11401582 TATAAATTTAAT
1 TATATATATAAT
11401594 TA
1 TA
11401596 CTTTTGGCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 16 0.67
13 8 0.33
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (12 bp):
TATATATATAAT
Found at i:11407846 original size:25 final size:25
Alignment explanation
Indices: 11407799--11407858 Score: 70
Period size: 25 Copynumber: 2.3 Consensus size: 25
11407789 CTAGGCACCC
11407799 ATTTTATTATTCATATAATATAACAAT
1 ATTTTATTATT-ATATAATATAA-AAT
11407826 ATTTTATTATT-TATACA-ATAAAAT
1 ATTTTATTATTATATA-ATATAAAAT
11407850 ATGTTTATT
1 AT-TTTATT
11407859 GGTGACTTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
24 5 0.16
25 14 0.45
26 1 0.03
27 11 0.35
ACGTcount: A:0.42, C:0.05, G:0.02, T:0.52
Consensus pattern (25 bp):
ATTTTATTATTATATAATATAAAAT
Found at i:11420689 original size:44 final size:44
Alignment explanation
Indices: 11420639--11420726 Score: 133
Period size: 44 Copynumber: 2.0 Consensus size: 44
11420629 CAAGCCGCAA
*
11420639 TCTATCGAGA-CTCCGACCTCTACGTAATCCACCCAGTTGACTAC
1 TCTATCGAGATCTCAG-CCTCTACGTAATCCACCCAGTTGACTAC
* *
11420683 TCTATCGTGATCTCAGCCTCTATGTAATCCACCCAGTTGACTAC
1 TCTATCGAGATCTCAGCCTCTACGTAATCCACCCAGTTGACTAC
11420727 AAACGAAAGA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
44 36 0.90
45 4 0.10
ACGTcount: A:0.24, C:0.34, G:0.14, T:0.28
Consensus pattern (44 bp):
TCTATCGAGATCTCAGCCTCTACGTAATCCACCCAGTTGACTAC
Found at i:11424678 original size:14 final size:14
Alignment explanation
Indices: 11424659--11424685 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
11424649 ACGTGTTCTG
11424659 TTTGTTTTTAATTA
1 TTTGTTTTTAATTA
11424673 TTTGTTTTTAATT
1 TTTGTTTTTAATT
11424686 TTTAAATCCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.19, C:0.00, G:0.07, T:0.74
Consensus pattern (14 bp):
TTTGTTTTTAATTA
Found at i:11425026 original size:100 final size:100
Alignment explanation
Indices: 11424848--11425029 Score: 292
Period size: 100 Copynumber: 1.8 Consensus size: 100
11424838 TTTTTAAACT
* * *
11424848 TTGTATTTTCTATTATTTTTAATGGTGTTTAGTTAATTTCTAGCACTAACTTCTTAAAAGTATAA
1 TTGTATTTTCTATTATTTTTAATGGTGTTTAGTTAAATTCTAACACTAACTTCTTAAAAATATAA
*
11424913 ACAAAAAGGGTTATGTATTGAACTGGATAATAAAA
66 ACAAAAAAGGTTATGTATTGAACTGGATAATAAAA
* *
11424948 TTGTATTTTCTATTATTTTTAATGTTGTTTAGTTAAATTCTAACATTAACTTCTTAAAAATATAA
1 TTGTATTTTCTATTATTTTTAATGGTGTTTAGTTAAATTCTAACACTAACTTCTTAAAAATATAA
* *
11425013 ATAAAAAATGTTATGTA
66 ACAAAAAAGGTTATGTA
11425030 CCAAATTGGA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
100 74 1.00
ACGTcount: A:0.37, C:0.07, G:0.11, T:0.45
Consensus pattern (100 bp):
TTGTATTTTCTATTATTTTTAATGGTGTTTAGTTAAATTCTAACACTAACTTCTTAAAAATATAA
ACAAAAAAGGTTATGTATTGAACTGGATAATAAAA
Found at i:11426645 original size:17 final size:19
Alignment explanation
Indices: 11426625--11426665 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 19
11426615 ATAACTTTAA
*
11426625 AAAATATA-TAATA-CATC
1 AAAATATACTAAAATCATC
11426642 AAAA-ATACTAAAATCATC
1 AAAATATACTAAAATCATC
11426660 AAAATA
1 AAAATA
11426666 AATATTTTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
16 3 0.15
17 8 0.40
18 8 0.40
19 1 0.05
ACGTcount: A:0.63, C:0.12, G:0.00, T:0.24
Consensus pattern (19 bp):
AAAATATACTAAAATCATC
Found at i:11426647 original size:18 final size:18
Alignment explanation
Indices: 11426624--11426663 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
11426614 TATAACTTTA
*
11426624 AAAAATA-TATAATACATC
1 AAAAATACTAAAAT-CATC
11426642 AAAAATACTAAAATCATC
1 AAAAATACTAAAATCATC
11426660 AAAA
1 AAAA
11426664 TAAATATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.65, C:0.12, G:0.00, T:0.23
Consensus pattern (18 bp):
AAAAATACTAAAATCATC
Found at i:11429149 original size:19 final size:19
Alignment explanation
Indices: 11429125--11429244 Score: 150
Period size: 19 Copynumber: 6.0 Consensus size: 19
11429115 AATCTTCAAG
11429125 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
11429144 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
11429163 GATATATGCAATCTTGGATAT
1 G--ATATGCAATCTTAGATAT
*
11429184 GATATGCAATCTTGGATAT
1 GATATGCAATCTTAGATAT
11429203 GATATGCAATCTTGGAAGATAT
1 GATATGCAATCTT---AGATAT
* *
11429225 GATTTTGTAATCTTAGATAT
1 GA-TATGCAATCTTAGATAT
11429245 TTAATTTGTA
Statistics
Matches: 91, Mismatches: 4, Indels: 11
0.86 0.04 0.10
Matches are distributed among these distances:
19 51 0.56
20 6 0.07
21 18 0.20
22 7 0.08
23 9 0.10
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:11429171 original size:40 final size:38
Alignment explanation
Indices: 11429125--11429244 Score: 150
Period size: 40 Copynumber: 3.0 Consensus size: 38
11429115 AATCTTCAAG
11429125 GATATGCAATCTTAGATATGATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGCAATCTTAGATAT
* *
11429163 GATATATGCAATCTTGGATATGATATGCAATCTTGGATAT
1 G--ATATGCAATCTTAGATATGATATGCAATCTTAGATAT
* *
11429203 GATATGCAATCTTGGAAGATATGATTTTGTAATCTTAGATAT
1 GATATGCAATCTT---AGATATGA-TATGCAATCTTAGATAT
11429245 TTAATTTGTA
Statistics
Matches: 70, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
38 13 0.19
40 36 0.51
41 7 0.10
42 14 0.20
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.38
Consensus pattern (38 bp):
GATATGCAATCTTAGATATGATATGCAATCTTAGATAT
Found at i:11431347 original size:45 final size:45
Alignment explanation
Indices: 11431293--11431431 Score: 120
Period size: 44 Copynumber: 3.1 Consensus size: 45
11431283 CCTGGGTTAT
* *
11431293 AGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCATCGAC
1 AGCGAAGCAGGTTAAAGATAGCAGATCTTGCCTTCCTGCATCGAC
* * * * ** * *
11431338 AGCGAAGCAGATCAAAGATACCAG-TCTTGCCTCCCTGGGTTG-T
1 AGCGAAGCAGGTTAAAGATAGCAGATCTTGCCTTCCTGCATCGAC
* * * * * *
11431381 AGTGGAGCAGGTTGAAGATAGTAGATCTTGCCTTCCTGTACCGAC
1 AGCGAAGCAGGTTAAAGATAGCAGATCTTGCCTTCCTGCATCGAC
11431426 AGCGAA
1 AGCGAA
11431432 ACAGATCGAA
Statistics
Matches: 67, Mismatches: 25, Indels: 4
0.70 0.26 0.04
Matches are distributed among these distances:
43 17 0.25
44 27 0.40
45 23 0.34
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (45 bp):
AGCGAAGCAGGTTAAAGATAGCAGATCTTGCCTTCCTGCATCGAC
Found at i:11431378 original size:88 final size:88
Alignment explanation
Indices: 11431229--11431526 Score: 398
Period size: 88 Copynumber: 3.4 Consensus size: 88
11431219 AAGATAACGA
* * * * * * *
11431229 ATCTTGTCTTCATGCACCGACAGCGAAGTAGATCGAAGACACCAACCTTGCTTCCCTGGGTTATA
1 ATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTTGTA
* *
11431294 GCGGAGCAGGTTAAAAATAGCAG
66 GTGGAGCAGGTTGAAAATAGCAG
* * *
11431317 ATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCAAAGATACCAGTCTTGCCTCCCTGGGTTGTA
1 ATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTTGTA
* *
11431382 GTGGAGCAGGTTGAAGATAGTAG
66 GTGGAGCAGGTTGAAAATAGCAG
* * * *
11431405 ATCTTGCCTTCCTGTACCGACAGCGAAACAGATCGAAGATACCAGCCTTACCTCCCTGGGTCGTA
1 ATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTTGTA
* *
11431470 GTGGATCAGGTTGAAAATAACAG
66 GTGGAGCAGGTTGAAAATAGCAG
* *
11431493 ATCTTGCCTTCCTGTACCGACAGTGAAGCAGATC
1 ATCTTGCCTTCCTGCACCGACAGCGAAGCAGATC
11431527 NNNNNNNNNN
Statistics
Matches: 183, Mismatches: 27, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
88 183 1.00
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.24
Consensus pattern (88 bp):
ATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTTGTA
GTGGAGCAGGTTGAAAATAGCAG
Done.