Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 103 of 295
Found at i:33263218 original size:46 final size:48
Alignment explanation
Indices: 33263072--33263385 Score: 253
Period size: 46 Copynumber: 6.7 Consensus size: 48
33263062 TCATTTGTGT
* * *
33263072 GCTAGTGTAAGACATATCTGGGACAT-GCATCAGCCAC-ATTATG-AGA
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCAGCCTCGA-GATGTAGA
* * * * *
33263118 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACG-AGA
1 GCTAGTGTAAGA-CATGTCTGGGACATGGCATCAGCCTCGAGATGTAGA
*
33263166 GCTAGTGTAAGACATGTCTGGAACAT-GCATCAGCCTCGAGATGTA-A
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCAGCCTCGAGATGTAGA
* * * *
33263212 GCTAGTGTAAGACATGTCTGGAACAT-GCATC-GGCTACAAAATGT-G-
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCAGCCT-CGAGATGTAGA
* * *
33263257 TC-AGTGTAAGACCATGTCTGGGACATGGCATCAG-CACGAATATGTGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACATGGCATCAGCCTCG-AGATGT-AGA
* * * *
33263306 GTTAGTGTAAGACAATGTCTGGGACATGGCATCA-ACT--TGATGGATGA
1 GCTAGTGTAAGAC-ATGTCTGGGACATGGCATCAGCCTCGAGATGTA-GA
*
33263353 GCCAGTGTAAGACCATGTCTGGGACATGGCATC
1 GCTAGTGTAAGA-CATGTCTGGGACATGGCATC
33263386 GGCATTATTA
Statistics
Matches: 220, Mismatches: 30, Indels: 35
0.77 0.11 0.12
Matches are distributed among these distances:
44 9 0.04
45 18 0.08
46 74 0.34
47 62 0.28
48 25 0.11
49 2 0.01
50 30 0.14
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (48 bp):
GCTAGTGTAAGACATGTCTGGGACATGGCATCAGCCTCGAGATGTAGA
Found at i:33263402 original size:31 final size:31
Alignment explanation
Indices: 33263364--33263424 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
33263354 CCAGTGTAAG
33263364 ACCATGTCTGGGACATGGCATCGGCATTATT
1 ACCATGTCTGGGACATGGCATCGGCATTATT
*
33263395 ACCATGTCTGGGACATGGCATCTGCATTAT
1 ACCATGTCTGGGACATGGCATCGGCATTAT
33263425 ACCTTGTGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.30
Consensus pattern (31 bp):
ACCATGTCTGGGACATGGCATCGGCATTATT
Found at i:33266742 original size:27 final size:27
Alignment explanation
Indices: 33266701--33266754 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
33266691 TGTCATGTGA
* *
33266701 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
33266728 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
33266755 GGTTGTATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:33267073 original size:49 final size:49
Alignment explanation
Indices: 33267001--33267182 Score: 274
Period size: 49 Copynumber: 3.7 Consensus size: 49
33266991 TCTATTGTGA
*
33267001 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* ** *
33267050 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGATAACTTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA--TT
* * *
33267101 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
33267150 GGTCACATGTGTAGTACTAAGTGCAGGCTACTA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTA
33267183 TGCGTACCAG
Statistics
Matches: 117, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
49 75 0.64
51 42 0.36
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
Found at i:33267176 original size:100 final size:100
Alignment explanation
Indices: 33267003--33267195 Score: 359
Period size: 100 Copynumber: 1.9 Consensus size: 100
33266993 TATTGTGAGG
*
33267003 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATTGGTCACATGTGTAGTACT
*
33267068 AAGTGCAGGCTACTATGCATACCCGATAACTTTGA
66 AAGTGCAGGCTACTATGCATACCAGATAACTTTGA
33267103 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATTGGTCACATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATTGGTCACATGTGTAGTACT
*
33267168 AAGTGCAGGCTACTATGCGTACCAGATA
66 AAGTGCAGGCTACTATGCATACCAGATA
33267196 GCCTTGTCTA
Statistics
Matches: 90, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
100 90 1.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.28
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATTGGTCACATGTGTAGTACT
AAGTGCAGGCTACTATGCATACCAGATAACTTTGA
Found at i:33272923 original size:219 final size:219
Alignment explanation
Indices: 33272544--33272985 Score: 875
Period size: 219 Copynumber: 2.0 Consensus size: 219
33272534 AAAACTACCA
33272544 AATTGATTGCTGGATAGTGCGATAGGTCTCCAATAAGCTTCCAACCAAATAAGCTTCCAATAATC
1 AATTGATTGCTGGATAGTGCGATAGGTCTCCAATAAGCTTCCAACCAAATAAGCTTCCAATAATC
*
33272609 TATAAAACATAAGAAAGAAACTACATAAGCAACGAATGCTTAGTAAGCTCGTGTAAACCAAAACA
66 TATAAAACATAAGAAAGAAACTACATAAGCAACGAATGCTTAGTAAGCTCGTATAAACCAAAACA
33272674 TAACTTACCATTTCAATATTACAATACATAGAATAAATACAATTCAACACCAACGCCATAAGCTT
131 TAACTTACCATTTCAATATTACAATACATAGAATAAATACAATTCAACACCAACGCCATAAGCTT
33272739 TTTCTTACTCGTTGAACTATCTAG
196 TTTCTTACTCGTTGAACTATCTAG
33272763 AATTGATTGCTGGATAGTGCGATAGGTCTCCAATAAGCTTCCAACCAAATAAGCTTCCAATAATC
1 AATTGATTGCTGGATAGTGCGATAGGTCTCCAATAAGCTTCCAACCAAATAAGCTTCCAATAATC
33272828 TATAAAACATAAGAAAGAAACTACATAAGCAACGAATGCTTAGTAAGCTCGTATAAACCAAAACA
66 TATAAAACATAAGAAAGAAACTACATAAGCAACGAATGCTTAGTAAGCTCGTATAAACCAAAACA
33272893 TAACTTACCATTTCAATATTACAATACATAGAATAAATACAATTCAACACCAACGCCATAAGCTT
131 TAACTTACCATTTCAATATTACAATACATAGAATAAATACAATTCAACACCAACGCCATAAGCTT
33272958 TTTCTTACTCGTTGAACTATCTAG
196 TTTCTTACTCGTTGAACTATCTAG
33272982 AATT
1 AATT
33272986 ACTTCAAATA
Statistics
Matches: 222, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
219 222 1.00
ACGTcount: A:0.41, C:0.20, G:0.12, T:0.27
Consensus pattern (219 bp):
AATTGATTGCTGGATAGTGCGATAGGTCTCCAATAAGCTTCCAACCAAATAAGCTTCCAATAATC
TATAAAACATAAGAAAGAAACTACATAAGCAACGAATGCTTAGTAAGCTCGTATAAACCAAAACA
TAACTTACCATTTCAATATTACAATACATAGAATAAATACAATTCAACACCAACGCCATAAGCTT
TTTCTTACTCGTTGAACTATCTAG
Found at i:33277096 original size:18 final size:18
Alignment explanation
Indices: 33277075--33277111 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
33277065 ATATCATCTT
*
33277075 TTTTTATGTTTTATTTAC
1 TTTTTATCTTTTATTTAC
*
33277093 TTTTTTTCTTTTATTTAC
1 TTTTTATCTTTTATTTAC
33277111 T
1 T
33277112 AAATTACCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.14, C:0.08, G:0.03, T:0.76
Consensus pattern (18 bp):
TTTTTATCTTTTATTTAC
Found at i:33284785 original size:20 final size:20
Alignment explanation
Indices: 33284760--33284806 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
33284750 ATTTTGATAT
33284760 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGATATGC
33284780 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
33284800 ACATGAT
1 ACATGAT
33284807 GTATTCATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 24 0.92
21 2 0.08
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:33284928 original size:25 final size:26
Alignment explanation
Indices: 33284856--33284953 Score: 146
Period size: 25 Copynumber: 3.8 Consensus size: 26
33284846 GAGGAAGTAC
*
33284856 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
33284882 AAAAAGGGCTTATGCCCCAGTTTATTG
1 -AAAAGGGCTTATGCCCCAGTTTATTG
**
33284909 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
33284934 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
33284954 ATTAAAGAGG
Statistics
Matches: 68, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
25 33 0.49
26 10 0.15
27 25 0.37
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:33292686 original size:6 final size:6
Alignment explanation
Indices: 33292666--33292751 Score: 93
Period size: 6 Copynumber: 14.5 Consensus size: 6
33292656 TTAAAATAAA
* * * * *
33292666 TTTTA- TTTCAT TTTTAT TTTTAA TTTTAA TTTTAA TTTTAA TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
* * *
33292713 TTTTAT TTTTAT TTTTAT TTCTAC TTTCAT TTTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT
33292752 CCCTCATCTT
Statistics
Matches: 70, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
5 4 0.06
6 66 0.94
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (6 bp):
TTTTAT
Found at i:33293920 original size:6 final size:6
Alignment explanation
Indices: 33293911--33294179 Score: 310
Period size: 6 Copynumber: 45.2 Consensus size: 6
33293901 TTTGTTTTGC
*
33293911 ATCTGT ATCTGT ATCTGT ATCTGT ATCTGT ATATGT ATCTGT ATCTGT
1 ATCTGT ATCTGT ATCTGT ATCTGT ATCTGT ATCTGT ATCTGT ATCTGT
33293959 ATCTGT ATCTGT ATCTGT ATCTGT ATCTGT ATCTGT ATC-GT ATCTGT
1 ATCTGT ATCTGT ATCTGT ATCTGT ATCTGT ATCTGT ATCTGT ATCTGT
* * *
33294006 ATC-GT ATCTGT ATCTGT ATCTGT ATCTGT ACCTGT ACCTGT ACCTGT
1 ATCTGT ATCTGT ATCTGT ATCTGT ATCTGT ATCTGT ATCTGT ATCTGT
* * * * * * *
33294053 ACCTGT ACCTGT ACCTGT ACCTGT ACCTGT ACCTGT A-CTTGT ACCTGT
1 ATCTGT ATCTGT ATCTGT ATCTGT ATCTGT ATCTGT ATC-TGT ATCTGT
* * * * * * * * *
33294101 ACCTGT ACCTGT ACCTAT AGCTGT ACCTGT ATCTGT ATCCGA ATCTAT
1 ATCTGT ATCTGT ATCTGT ATCTGT ATCTGT ATCTGT ATCTGT ATCTGT
* *
33294149 ATCTGT ATCTGT ATTTGT ATCTAT ATCTGT A
1 ATCTGT ATCTGT ATCTGT ATCTGT ATCTGT A
33294180 AAGGACTTAA
Statistics
Matches: 241, Mismatches: 18, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
5 11 0.05
6 229 0.95
7 1 0.00
ACGTcount: A:0.19, C:0.22, G:0.16, T:0.43
Consensus pattern (6 bp):
ATCTGT
Found at i:33298578 original size:15 final size:15
Alignment explanation
Indices: 33298555--33298589 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
33298545 TTATGCATCA
33298555 TATTACTGTATCTGT
1 TATTACTGTATCTGT
*
33298570 TATTTCTGTATCTGT
1 TATTACTGTATCTGT
*
33298585 GATTA
1 TATTA
33298590 GGGGGTATTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.20, C:0.11, G:0.14, T:0.54
Consensus pattern (15 bp):
TATTACTGTATCTGT
Found at i:33298822 original size:6 final size:6
Alignment explanation
Indices: 33298802--33299053 Score: 281
Period size: 6 Copynumber: 42.0 Consensus size: 6
33298792 TCTGCATATT
** *
33298802 TGTATC TGTGCC TGTATC TGTATT TGTATC TGTATC TGTATC TGTATC
1 TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC
* * * *
33298850 TGTATC TGTATC CGTATC CGTATC CGTATC TGTATC CGTATC TGTATC
1 TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC
** * * * *
33298898 TGTATC TGTATC CATATC CGTATC CGTAT- TCGTATC CGTATC CGTATC
1 TGTATC TGTATC TGTATC TGTATC TGTATC T-GTATC TGTATC TGTATC
* * * * * * *
33298946 CGTATC CGTATC CGTATC CGTATC TATATC CGTATC TGTATT TGTATC
1 TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC
* *
33298994 TGTATC TGTATC TGTATC TATATC TGTATT TGTATC TGTATC TGTATC
1 TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC
*
33299042 TGTAAC TGTATC
1 TGTATC TGTATC
33299054 CGTAAAGGAC
Statistics
Matches: 216, Mismatches: 28, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
6 216 1.00
ACGTcount: A:0.18, C:0.21, G:0.16, T:0.45
Consensus pattern (6 bp):
TGTATC
Found at i:33301137 original size:10 final size:10
Alignment explanation
Indices: 33301118--33301159 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
33301108 TCCTCAATTC
33301118 ATCA-ACCAA
1 ATCATACCAA
33301127 ATCATACCAA
1 ATCATACCAA
*
33301137 ATCTAAACCAAA
1 ATC-ATACC-AA
33301149 ATCATACCAA
1 ATCATACCAA
33301159 A
1 A
33301160 GTATATGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
9 4 0.14
10 11 0.39
11 8 0.29
12 5 0.18
ACGTcount: A:0.55, C:0.29, G:0.00, T:0.17
Consensus pattern (10 bp):
ATCATACCAA
Found at i:33303559 original size:31 final size:31
Alignment explanation
Indices: 33303483--33303559 Score: 127
Period size: 31 Copynumber: 2.5 Consensus size: 31
33303473 TGCTCAAATG
* *
33303483 AATGCTCAATTAAGAACCAAACCTTTTCAAA
1 AATGCTCGATTAAGGACCAAACCTTTTCAAA
*
33303514 AATGCTCGATTAAGGACCAAACCTTTTCGAA
1 AATGCTCGATTAAGGACCAAACCTTTTCAAA
33303545 AATGCTCGATTAAGG
1 AATGCTCGATTAAGG
33303560 GCTTTTCAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.39, C:0.21, G:0.14, T:0.26
Consensus pattern (31 bp):
AATGCTCGATTAAGGACCAAACCTTTTCAAA
Found at i:33304543 original size:19 final size:19
Alignment explanation
Indices: 33304509--33304549 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
33304499 GCAAGGCATT
* * *
33304509 AATAATAAATAGATAAATA
1 AATAATAAAAAAATAAAAA
33304528 AATAATAAAAAAATAAAAA
1 AATAATAAAAAAATAAAAA
33304547 AAT
1 AAT
33304550 CCATGAAAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (19 bp):
AATAATAAAAAAATAAAAA
Found at i:33306286 original size:44 final size:44
Alignment explanation
Indices: 33306219--33306601 Score: 216
Period size: 44 Copynumber: 8.3 Consensus size: 44
33306209 TCATTCTAAC
* * * * *
33306219 CCACTGCAACTTCAAAGG-TATAAGGTTTGTGGCTTCAATCTCCT
1 CCACTGCAACTTC-AGGGAGATAAGATTTGTAGCTTCAATCTGCT
* * * *
33306263 CCACTGCTACTTTAGGGAGATAAGATTCACAACTTGTAGCTTTAATCTGTT
1 CCACTGCAACTTCAGGGAGATAAGA-T------TTGTAGCTTCAATCTGCT
* * * * *
33306314 CCATTGCAACTTCAAGGAAATAAGATTTGTAGCTTAAATCTACT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCT
* *
33306358 CCACTGCAACTTCAGGGAGATAATATTTGTAACTTCAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCT
* * * * * * *
33306402 CCACTGTAACTTTAGGGAGATAAAACTTGTAACTTGTAGTTTTAATTTGTT
1 CCACTGCAACTTCAGGGAGAT--AA---G--ATTTGTAGCTTCAATCTGCT
* * * * *
33306453 CCACTACAACTTCAGGGAAATAAGATTTATAGCTTTAATTTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCT
* ** **
33306497 CCACTGCAACTT-TGGAGAGATAAGATTTGCCACGATAAATTCAATCT-AA
1 CCACTGCAACTTCAGG-GAGATAAGATTT-----G-TAGCTTCAATCTGCT
*
33306546 CCACTGCAACTTCAGGG-GTATAGGATTTGTAGCTTCAATCTGCT
1 CCACTGCAACTTCAGGGAG-ATAAGATTTGTAGCTTCAATCTGCT
*
33306590 CTACTGCAACTT
1 CCACTGCAACTT
33306602 TAGTAAAATA
Statistics
Matches: 256, Mismatches: 58, Indels: 50
0.70 0.16 0.14
Matches are distributed among these distances:
43 15 0.06
44 137 0.54
45 1 0.00
46 3 0.01
48 1 0.00
49 23 0.09
50 11 0.04
51 65 0.25
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (44 bp):
CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCT
Found at i:33306439 original size:95 final size:95
Alignment explanation
Indices: 33306340--33306604 Score: 261
Period size: 95 Copynumber: 2.8 Consensus size: 95
33306330 GAAATAAGAT
* * *
33306340 TTGTAGCTTAAATCTACTCCACTGCAACTTCAGGGAGATAATATTTGTAACTTCAATCTGCTCCA
1 TTGTAGATTAAATCTA-TCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCA
* *
33306405 CTGTAACTTTAGG-GAGATAAAACTTGTAAC
65 CTGCAACTTTAGGAGAGATAAAACTTGCAAC
* * * * * * * * *
33306435 TTGTAGTTTTAATTTGTTCCACTACAACTTCAGGGAAATAAGATTTATAGCTTTAATTTGCTCCA
1 TTGTAGATTAAATCT-ATCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCA
* * *
33306500 CTGCAACTTT-GGAGAGATAAGATTTGCCAC
65 CTGCAACTTTAGGAGAGATAAAACTTGCAAC
* * * * *
33306530 --GATAAATTCAATCTAACCACTGCAACTTCAGGG-GTATAGGATTTGTAGCTTCAATCTGCTCT
1 TTG-TAGATTAAATCTATCCACTGCAACTTCAGGGAG-ATAAGATTTGTAGCTTCAATCTGCTCC
33306592 ACTGCAACTTTAG
64 ACTGCAACTTTAG
33306605 TAAAATAAGA
Statistics
Matches: 136, Mismatches: 29, Indels: 11
0.77 0.16 0.06
Matches are distributed among these distances:
93 50 0.37
94 11 0.08
95 75 0.55
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (95 bp):
TTGTAGATTAAATCTATCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCAC
TGCAACTTTAGGAGAGATAAAACTTGCAAC
Found at i:33306453 original size:139 final size:139
Alignment explanation
Indices: 33306251--33306525 Score: 367
Period size: 139 Copynumber: 2.0 Consensus size: 139
33306241 AGGTTTGTGG
*
33306251 CTTCAATCTCCTCCACTGCTACTTTAGGGAGATAAGATTCACAACTTGTAGCTTTAATCTGTTCC
1 CTTCAATCTCCTCCACTGCTACTTTAGGGAGATAAAATTCACAACTTGTAGCTTTAATCTGTTCC
* * *
33306316 ATTGCAACTTCAAGGAAATAAGATTTGTAGCTTAAATCTACTCCACTGCAACTTCAGG-GAGATA
66 ACTACAACTTCAAGGAAATAAGATTTATAGCTTAAATCTACTCCACTGCAACTT-AGGAGAGATA
*
33306380 ATATTTGTAA
130 AGATTTGTAA
* ** * *
33306390 CTTCAATCTGCTCCACTG-TAACTTTAGGGAGATAAAACTT-GTAACTTGTAGTTTTAATTTGTT
1 CTTCAATCTCCTCCACTGCT-ACTTTAGGGAGATAAAA-TTCACAACTTGTAGCTTTAATCTGTT
* * * * *
33306453 CCACTACAACTTCAGGGAAATAAGATTTATAGCTTTAATTTGCTCCACTGCAACTTTGGAGAGAT
64 CCACTACAACTTCAAGGAAATAAGATTTATAGCTTAAATCTACTCCACTGCAACTTAGGAGAGAT
33306518 AAGATTTG
129 AAGATTTG
33306526 CCACGATAAA
Statistics
Matches: 118, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
138 3 0.03
139 113 0.96
140 2 0.02
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.35
Consensus pattern (139 bp):
CTTCAATCTCCTCCACTGCTACTTTAGGGAGATAAAATTCACAACTTGTAGCTTTAATCTGTTCC
ACTACAACTTCAAGGAAATAAGATTTATAGCTTAAATCTACTCCACTGCAACTTAGGAGAGATAA
GATTTGTAA
Found at i:33306613 original size:93 final size:93
Alignment explanation
Indices: 33306453--33306621 Score: 223
Period size: 93 Copynumber: 1.8 Consensus size: 93
33306443 TTAATTTGTT
* * *
33306453 CCACTACAACTTCAGGGAAATAAGATTTATAGCTTTAATTTGCTCCACTGCAACTTTGGAGAGAT
1 CCACTACAACTTCAGGGAAATAAGATTTATAGCTTCAATCTGCTCCACTGCAACTTTGGAGAAAT
*
33306518 AAGATTTGCCACGATAAATTCAATCTAA
66 AAGATTCGCCACGATAAATTCAATCTAA
* ** * * * *
33306546 CCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCAATCTGCTCTACTGCAACTTTAGTA-AAA
1 CCACTACAACTTCAGGGAAATAAGATTTATAGCTTCAATCTGCTCCACTGCAACTTT-GGAGAAA
33306610 TAAGATTCGCCA
65 TAAGATTCGCCA
33306622 TGATGACTTT
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
93 62 0.97
94 2 0.03
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.30
Consensus pattern (93 bp):
CCACTACAACTTCAGGGAAATAAGATTTATAGCTTCAATCTGCTCCACTGCAACTTTGGAGAAAT
AAGATTCGCCACGATAAATTCAATCTAA
Found at i:33314019 original size:22 final size:23
Alignment explanation
Indices: 33313993--33314038 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
33313983 CAACCAAACC
33313993 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
33314015 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
33314038 A
1 A
33314039 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:33314044 original size:23 final size:23
Alignment explanation
Indices: 33314000--33314044 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
33313990 ACCAATTCAA
*
33314000 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
33314023 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
33314045 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:33324980 original size:27 final size:27
Alignment explanation
Indices: 33324950--33325147 Score: 227
Period size: 27 Copynumber: 7.3 Consensus size: 27
33324940 TACTGAAATG
* *
33324950 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
* *
33324977 CCCTCGATTTATAGAATTATCGTTTCA
1 CCCTCGATTTATAGAATTACCGTTTTA
* * *
33325004 CCTTCGATTTACAAAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
* * *
33325031 TCCTCAATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
33325058 CCCTCGATTTATAGAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
* * * *
33325085 CCCTCTATTTACAAAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
* * *
33325112 CCCTC-AGTTTAGAAAATTATCGTTTTA
1 CCCTCGA-TTTATAGAATTACCGTTTTA
33325139 CCCTCGATT
1 CCCTCGATT
33325148 GTGAAATTAC
Statistics
Matches: 144, Mismatches: 25, Indels: 4
0.83 0.14 0.02
Matches are distributed among these distances:
26 1 0.01
27 142 0.99
28 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.41
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCGTTTTA
Found at i:33325047 original size:81 final size:81
Alignment explanation
Indices: 33324950--33325147 Score: 279
Period size: 81 Copynumber: 2.4 Consensus size: 81
33324940 TACTGAAATG
* * * *
33324950 CCCTCGATTTGTAGAATTACCATTTTACCCTCGATTTATAGAATTATCGTTTCACCTTCGATTTA
1 CCCTCAATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTA
*
33325015 CAAAATTACCGTTTTA
66 CAAAATTACCATTTTA
* * *
33325031 TCCTCAATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCTATTTA
1 CCCTCAATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTA
33325096 CAAAATTACCATTTTA
66 CAAAATTACCATTTTA
* * * * *
33325112 CCCTCAGTTTAGAAAATTATCGTTTTACCCTCGATT
1 CCCTCAATTTATAGAATTACCATTTTACCCTCGATT
33325148 GTGAAATTAC
Statistics
Matches: 103, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 103 1.00
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.41
Consensus pattern (81 bp):
CCCTCAATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTA
CAAAATTACCATTTTA
Found at i:33325166 original size:26 final size:25
Alignment explanation
Indices: 33325137--33325290 Score: 71
Period size: 27 Copynumber: 5.8 Consensus size: 25
33325127 ATTATCGTTT
33325137 TACCCTCGATTGTGAAATTACTGAAA
1 TACCCTCGATTGTGAAATTAC-GAAA
* * *
33325163 TACCC-CTATAG-GATAGAATTACAAAA
1 TACCCTCGATTGTG--A-AATTACGAAA
* * * *
33325189 TACCCCTAGTTTGTAAAATTACCAACA
1 TA-CCCTCGATTGTGAAATTACGAA-A
* *
33325216 TACCCCTAGTTTGT-AAATTACCGAAA
1 TA-CCCTCGATTGTGAAATTA-CGAAA
* *
33325242 TACCACTGGTTTGTGAAATTACCGAAA
1 TACC-CTCGATTGTGAAATTA-CGAAA
* *
33325269 TACCCTCAATTTGTAAAATTAC
1 TACCCTCGA-TTGTGAAATTAC
33325291 CAAAATACTC
Statistics
Matches: 102, Mismatches: 15, Indels: 22
0.73 0.11 0.16
Matches are distributed among these distances:
24 1 0.01
25 6 0.06
26 39 0.38
27 54 0.53
28 2 0.02
ACGTcount: A:0.37, C:0.21, G:0.12, T:0.30
Consensus pattern (25 bp):
TACCCTCGATTGTGAAATTACGAAA
Found at i:33325169 original size:27 final size:26
Alignment explanation
Indices: 33325139--33325273 Score: 96
Period size: 27 Copynumber: 5.1 Consensus size: 26
33325129 TATCGTTTTA
*
33325139 CCCTCGATTGTGAAATTACTGAAATAC
1 CCCTAGATTGTGAAATTAC-GAAATAC
* * *
33325166 CCCTATA-GGAT-AGAATTACAAAATAC
1 CCCTAGATTG-TGA-AATTACGAAATAC
* * *
33325192 CCCTAGTTTGTAAAATTACCAACATAC
1 CCCTAGATTGTGAAATTACGAA-ATAC
*
33325219 CCCTAGTTTGT-AAATTACCGAAATAC
1 CCCTAGATTGTGAAATTA-CGAAATAC
* * *
33325245 CACTGGTTTGTGAAATTACCGAAATAC
1 CCCTAGATTGTGAAATTA-CGAAATAC
33325272 CC
1 CC
33325274 TCAATTTGTA
Statistics
Matches: 89, Mismatches: 12, Indels: 14
0.77 0.10 0.12
Matches are distributed among these distances:
26 41 0.46
27 48 0.54
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.28
Consensus pattern (26 bp):
CCCTAGATTGTGAAATTACGAAATAC
Found at i:33325281 original size:27 final size:27
Alignment explanation
Indices: 33325186--33325298 Score: 119
Period size: 27 Copynumber: 4.2 Consensus size: 27
33325176 TAGAATTACA
33325186 AAATACCC-CTAGTTTGTAAAATTACC-
1 AAATACCCTC-AGTTTGTAAAATTACCG
33325212 AACATACCC-CTAGTTTGT-AAATTACCG
1 AA-ATACCCTC-AGTTTGTAAAATTACCG
* *
33325239 AAATACCACT-GGTTTGTGAAATTACCG
1 AAATACC-CTCAGTTTGTAAAATTACCG
* *
33325266 AAATACCCTCAATTTGTAAAATTACCA
1 AAATACCCTCAGTTTGTAAAATTACCG
33325293 AAATAC
1 AAATAC
33325299 TCCTGATTTA
Statistics
Matches: 76, Mismatches: 5, Indels: 11
0.83 0.05 0.12
Matches are distributed among these distances:
26 23 0.30
27 53 0.70
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.29
Consensus pattern (27 bp):
AAATACCCTCAGTTTGTAAAATTACCG
Found at i:33325282 original size:53 final size:52
Alignment explanation
Indices: 33325146--33325298 Score: 157
Period size: 53 Copynumber: 2.9 Consensus size: 52
33325136 TTACCCTCGA
* * ** *
33325146 TTGTGAAATTACTGAAATACCCCTATAGGATAGAATTA-CAAAATACCCCTAGT
1 TTGTGAAATTACCGAAATACCCCAATTTG-TA-AATTACCAAAATACCACTAGT
* * * *
33325199 TTGTAAAATTACC-AACATACCCCTAGTTTGTAAATTACCGAAATACCACTGGT
1 TTGTGAAATTACCGAA-ATACCCC-AATTTGTAAATTACCAAAATACCACTAGT
33325252 TTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATAC
1 TTGTGAAATTACCGAAATACCC-CAATTTGT-AAATTACCAAAATAC
33325299 TCCTGATTTA
Statistics
Matches: 82, Mismatches: 12, Indels: 11
0.78 0.11 0.10
Matches are distributed among these distances:
52 7 0.09
53 56 0.68
54 19 0.23
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.29
Consensus pattern (52 bp):
TTGTGAAATTACCGAAATACCCCAATTTGTAAATTACCAAAATACCACTAGT
Found at i:33325307 original size:27 final size:25
Alignment explanation
Indices: 33325179--33325316 Score: 109
Period size: 27 Copynumber: 5.2 Consensus size: 25
33325169 TATAGGATAG
33325179 AATTA-CAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATA-CCCTA-TTTGTAA
*
33325205 AATTACCAACATACCCCTAGTTTGT-A
1 AATTACCAAAATA-CCCTA-TTTGTAA
* * *
33325231 AATTACCGAAATACCACTGGTTTGTGA
1 AATTACCAAAATACC-CT-ATTTGTAA
*
33325258 AATTACCGAAATACCCTCAATTTGTAA
1 AATTACCAAAATACCCT--ATTTGTAA
**
33325285 AATTACCAAAATACTCCTGATTTACAA
1 AATTACCAAAATAC-CCT-ATTTGTAA
33325312 AATTA
1 AATTA
33325317 TAGAAATACC
Statistics
Matches: 95, Mismatches: 11, Indels: 11
0.81 0.09 0.09
Matches are distributed among these distances:
25 2 0.02
26 26 0.27
27 64 0.67
28 3 0.03
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (25 bp):
AATTACCAAAATACCCTATTTGTAA
Found at i:33325323 original size:27 final size:27
Alignment explanation
Indices: 33325302--33325382 Score: 110
Period size: 29 Copynumber: 2.9 Consensus size: 27
33325292 AAAATACTCC
33325302 TGATTTACAAAATTATAGAAATACCAT
1 TGATTTACAAAATTATAGAAATACCAT
33325329 TGACTTT-CTAAAAATTATAGAAATACCAT
1 TGA-TTTAC--AAAATTATAGAAATACCAT
* *
33325358 TGGTTTACAAAATTATTGAAATACC
1 TGATTTACAAAATTATAGAAATACC
33325383 CTTGGTTTGT
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
27 20 0.42
28 6 0.12
29 22 0.46
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.35
Consensus pattern (27 bp):
TGATTTACAAAATTATAGAAATACCAT
Found at i:33325387 original size:27 final size:27
Alignment explanation
Indices: 33325305--33325390 Score: 111
Period size: 27 Copynumber: 3.1 Consensus size: 27
33325295 ATACTCCTGA
*
33325305 TTTACAAAATTATAGAAATACCATTGAC
1 TTTACAAAATTATAGAAATACCATTG-G
33325333 TTT-CTAAAAATTATAGAAATACCATTGG
1 TTTAC--AAAATTATAGAAATACCATTGG
* *
33325361 TTTACAAAATTATTGAAATACCCTTGG
1 TTTACAAAATTATAGAAATACCATTGG
33325388 TTT
1 TTT
33325391 GTAGATTTAC
Statistics
Matches: 52, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
27 24 0.46
28 6 0.12
29 22 0.42
ACGTcount: A:0.41, C:0.13, G:0.09, T:0.37
Consensus pattern (27 bp):
TTTACAAAATTATAGAAATACCATTGG
Found at i:33326399 original size:24 final size:24
Alignment explanation
Indices: 33326316--33326399 Score: 107
Period size: 25 Copynumber: 3.4 Consensus size: 24
33326306 GAGGAAGTGC
*
33326316 TAAAAGGGCTCTGCCCCAGTTTACT
1 TAAAAGGGCTTTGCCCCAGTTTA-T
*
33326341 GAAAAGGGCTTTGCCCCAGTTTAT
1 TAAAAGGGCTTTGCCCCAGTTTAT
*
33326365 CAGAAAGGGCTTTGCCCCAG-TTAT
1 TA-AAAGGGCTTTGCCCCAGTTTAT
33326389 TAAAAGAGGCT
1 TAAAAG-GGCT
33326400 AGGCCTCCAG
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
23 4 0.08
24 11 0.21
25 38 0.72
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (24 bp):
TAAAAGGGCTTTGCCCCAGTTTAT
Found at i:33326593 original size:42 final size:42
Alignment explanation
Indices: 33326534--33326667 Score: 250
Period size: 42 Copynumber: 3.2 Consensus size: 42
33326524 TAGTCTCCCC
33326534 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
33326576 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
* *
33326618 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTA
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
33326660 AAATGGGC
1 AAATGGGC
33326668 CTAAGGGCCA
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 90 1.00
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
Found at i:33326726 original size:31 final size:31
Alignment explanation
Indices: 33326691--33326798 Score: 180
Period size: 31 Copynumber: 3.5 Consensus size: 31
33326681 CGTTTACAGT
*
33326691 AAAGGCTTTGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
33326722 AAAGGCTTCGGCCCAGTGATATAATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
33326753 AAAGGCTTCGGCCCAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
33326784 AAAGGCTTTGGCCCA
1 AAAGGCTTCGGCCCA
33326799 TTATATGTCA
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 72 1.00
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:33331950 original size:25 final size:26
Alignment explanation
Indices: 33331922--33331977 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 26
33331912 GTAATGAAAG
33331922 GAAAAGAAAAGAAAGAA-AAAA-AATA
1 GAAAAGAAAAG-AAGAACAAAACAATA
*
33331947 GAAAAGGAAAGAAGAACAAAACAATA
1 GAAAAGAAAAGAAGAACAAAACAATA
*
33331973 AAAAA
1 GAAAA
33331978 ATGTTAAACA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 5 0.19
25 14 0.52
26 8 0.30
ACGTcount: A:0.77, C:0.04, G:0.16, T:0.04
Consensus pattern (26 bp):
GAAAAGAAAAGAAGAACAAAACAATA
Found at i:33342895 original size:139 final size:139
Alignment explanation
Indices: 33342639--33342917 Score: 418
Period size: 139 Copynumber: 2.0 Consensus size: 139
33342629 GGAGAGCAAT
* * * * * * *
33342639 AGGCTATAAGTGGATTTTTAAGCTAAAACATAATGCTGATGGGACTATATTCAGATATAAAGCCA
1 AGGCTAAAAGTGGATTTTTAAGCTAAAAAAGAATGATGATGGGAATATACTCAGATACAAAGCCA
* * *
33342704 AACTGGTGGTCAAAGGGTATCTCCGATAAGCTGGTATTGATTTCCAGAAAACTTTTAGCCCTTTG
66 AACTGGTGGTCAAAGGGTATCTCCAATAAGCTGGTATTGATTTCCAGAAAACTGTTAGCCCTCTG
33342769 GTCAAACCA
131 GTCAAACCA
*
33342778 AGGCTAAAAGTGGATTTTTAAGCTAAAAAAGAATGATGATGGGAATATAGCT-AGATACAAGGCC
1 AGGCTAAAAGTGGATTTTTAAGCTAAAAAAGAATGATGATGGGAATATA-CTCAGATACAAAGCC
*
33342842 AAACTGGTGGTCAAAGGGTATCTCCAATAAGCTGGTATTGATTTCCA-AGAAACTGTTAGTCCTC
65 AAACTGGTGGTCAAAGGGTATCTCCAATAAGCTGGTATTGATTTCCAGA-AAACTGTTAGCCCTC
33342906 TGGTCAAACCA
129 TGGTCAAACCA
33342917 A
1 A
33342918 CTACTATCTA
Statistics
Matches: 126, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
138 1 0.01
139 124 0.98
140 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.28
Consensus pattern (139 bp):
AGGCTAAAAGTGGATTTTTAAGCTAAAAAAGAATGATGATGGGAATATACTCAGATACAAAGCCA
AACTGGTGGTCAAAGGGTATCTCCAATAAGCTGGTATTGATTTCCAGAAAACTGTTAGCCCTCTG
GTCAAACCA
Found at i:33343362 original size:28 final size:28
Alignment explanation
Indices: 33343330--33343383 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
33343320 GACTTGGTGA
33343330 AGATACATTTTTTCCTAGACATGGAGGT
1 AGATACATTTTTTCCTAGACATGGAGGT
33343358 AGATACATTTTTTCCTAGACATGGAG
1 AGATACATTTTTTCCTAGACATGGAG
33343384 ACGTCTTACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (28 bp):
AGATACATTTTTTCCTAGACATGGAGGT
Found at i:33346991 original size:15 final size:15
Alignment explanation
Indices: 33346968--33347060 Score: 66
Period size: 15 Copynumber: 6.2 Consensus size: 15
33346958 TTTGTTGAAT
*
33346968 TTAATATATATTATA
1 TTAAAATATATTATA
* *
33346983 TTAAAATATCTTTTA
1 TTAAAATATATTATA
*
33346998 CTTAACATATA--AGTA
1 -TTAAAATATATTA-TA
33347013 -TAAATATATATTATA
1 TTAAA-ATATATTATA
* *
33347028 TTATATTATATTATA
1 TTAAAATATATTATA
* *
33347043 TTATATTATATTATA
1 TTAAAATATATTATA
33347058 TTA
1 TTA
33347061 TATAAAATAA
Statistics
Matches: 63, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
13 3 0.05
14 5 0.08
15 43 0.68
16 12 0.19
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.52
Consensus pattern (15 bp):
TTAAAATATATTATA
Found at i:33347029 original size:5 final size:5
Alignment explanation
Indices: 33347019--33347063 Score: 90
Period size: 5 Copynumber: 9.0 Consensus size: 5
33347009 AGTATAAATA
33347019 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
33347064 AAAATAAATA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 40 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:33349706 original size:12 final size:12
Alignment explanation
Indices: 33349691--33349719 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
33349681 AATATTTATA
33349691 TTTTAAAAATAT
1 TTTTAAAAATAT
33349703 TTTTAAAAATAT
1 TTTTAAAAATAT
33349715 TTTTA
1 TTTTA
33349720 TTTAAATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
TTTTAAAAATAT
Found at i:33367328 original size:25 final size:25
Alignment explanation
Indices: 33367294--33367343 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
33367284 GGTTACTTGC
* *
33367294 CCATGCCTGACGGCTTGCTCGAAAT
1 CCATGCCTGACGGCTCGCCCGAAAT
* *
33367319 CCATGTCTGATGGCTCGCCCGAAAT
1 CCATGCCTGACGGCTCGCCCGAAAT
33367344 TTGAGAAAGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.20, C:0.32, G:0.24, T:0.24
Consensus pattern (25 bp):
CCATGCCTGACGGCTCGCCCGAAAT
Found at i:33372630 original size:29 final size:29
Alignment explanation
Indices: 33372574--33372636 Score: 101
Period size: 29 Copynumber: 2.2 Consensus size: 29
33372564 ACTATGTGAA
33372574 ACACACAGCCGTGTCGCAGATCGTGTGGG
1 ACACACAGCCGTGTCGCAGATCGTGTGGG
*
33372603 ACACACGGCCGTGTCGCAG-TCCGTGTGGG
1 ACACACAGCCGTGTCGCAGAT-CGTGTGGG
33372632 ACACA
1 ACACA
33372637 TGGCTATGTG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 1 0.03
29 31 0.97
ACGTcount: A:0.21, C:0.30, G:0.33, T:0.16
Consensus pattern (29 bp):
ACACACAGCCGTGTCGCAGATCGTGTGGG
Found at i:33375498 original size:49 final size:49
Alignment explanation
Indices: 33375390--33375681 Score: 470
Period size: 49 Copynumber: 6.1 Consensus size: 49
33375380 GAAATGATAG
33375390 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
33375437 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
33375486 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
33375533 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
33375582 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* * * * * * *
33375631 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
33375678 TAAG
1 TAAG
33375682 TCCCGAAGGG
Statistics
Matches: 232, Mismatches: 9, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
47 91 0.39
48 1 0.00
49 140 0.60
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (49 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
Found at i:33375554 original size:96 final size:96
Alignment explanation
Indices: 33375390--33375681 Score: 480
Period size: 96 Copynumber: 3.0 Consensus size: 96
33375380 GAAATGATAG
33375390 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
33375455 GTGATGAATGTGAAAGTGTATATATATGTGA
66 GTGATGAATGTGAAAGTGTATATATATGTGA
33375486 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
33375551 GTGATGAATGTGAAAGTGTATATATATGTGA
66 GTGATGAATGTGAAAGTGTATATATATGTGA
* * * * * *
33375582 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGACAGGGCCGAGTGGCCA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
* *
33375647 ACGTGATGGATGTGAAAGTGTATA-A-ATGTGA
64 ATGTGATGAATGTGAAAGTGTATATATATGTGA
33375678 TAAG
1 TAAG
33375682 TCCCGAAGGG
Statistics
Matches: 185, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
96 140 0.76
97 1 0.01
98 44 0.24
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (96 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGTATATATATGTGA
Found at i:33375856 original size:37 final size:37
Alignment explanation
Indices: 33375800--33375878 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
33375790 CCGAGCTCTA
* * *
33375800 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
33375837 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
33375874 AAGAC
1 AAGAC
33375879 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:33379321 original size:35 final size:35
Alignment explanation
Indices: 33379275--33379345 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
33379265 GTTTGACAGT
*
33379275 AAAGATGCCATAGATGAAAACACTATCGAGTACCA
1 AAAGATGCCATAGACGAAAACACTATCGAGTACCA
33379310 AAAGATGCCATAGACGAAAACACTATCGAGTACCA
1 AAAGATGCCATAGACGAAAACACTATCGAGTACCA
33379345 A
1 A
33379346 CCTTACGAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.46, C:0.21, G:0.17, T:0.15
Consensus pattern (35 bp):
AAAGATGCCATAGACGAAAACACTATCGAGTACCA
Found at i:33386395 original size:47 final size:47
Alignment explanation
Indices: 33386326--33386528 Score: 286
Period size: 47 Copynumber: 4.3 Consensus size: 47
33386316 AGCTTAAGAT
33386326 CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
1 CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
33386373 CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
1 CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
* ** *
33386420 CAAATGGCCAATGTGATGAATGTGAAAGTGCATACATGTGATAAGGC
1 CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
** * *
33386467 CGAATGGTTAATGTGAT-ATATGTGTAA--GTGAATATGTGATAAGGC
1 CGAATGGCCAATGTGATGA-ATGTGAAAGTGTGTATATGTGATAAGGC
*
33386512 CGAATGACCAATTGTGA
1 CGAATGGCCAA-TGTGA
33386529 AAAGTGTGCA
Statistics
Matches: 139, Mismatches: 15, Indels: 5
0.87 0.09 0.03
Matches are distributed among these distances:
45 22 0.16
46 6 0.04
47 111 0.80
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
Found at i:33386436 original size:22 final size:22
Alignment explanation
Indices: 33386361--33386436 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
33386351 AAGTGTGTAT
*
33386361 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCAAATGGCCA
* ** *
33386383 ATGTGATGAATGTGAAAGTGTG-TA
1 ATGTGAT-AAGGCCAAA-TG-GCCA
33386407 TATGTGATAAGGCCAAATGGCCA
1 -ATGTGATAAGGCCAAATGGCCA
33386430 ATGTGAT
1 ATGTGAT
33386437 GAATGTGAAA
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
22 15 0.38
23 8 0.20
24 9 0.22
25 8 0.20
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.26
Consensus pattern (22 bp):
ATGTGATAAGGCCAAATGGCCA
Found at i:33386682 original size:40 final size:39
Alignment explanation
Indices: 33386599--33386683 Score: 98
Period size: 40 Copynumber: 2.2 Consensus size: 39
33386589 AAATGAATTG
* * * *
33386599 TGCTGAGATTGTATCCGAGTTAGAGACCCACTGGCTTCA
1 TGCTGGGATTGTATCCGAGTTAAAGACCCACAGGCTTAA
* * *
33386638 TGCTGGGATTGTATCCGGGTTTAAAGTCCCGCAGGCTTAA
1 TGCTGGGATTGTATCCGAG-TTAAAGACCCACAGGCTTAA
33386678 TGCTGG
1 TGCTGG
33386684 TGAATTAAGT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
39 17 0.45
40 21 0.55
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.29
Consensus pattern (39 bp):
TGCTGGGATTGTATCCGAGTTAAAGACCCACAGGCTTAA
Found at i:33388773 original size:25 final size:25
Alignment explanation
Indices: 33388739--33388789 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
33388729 TAGATGTCAC
33388739 CTCTAAAATCATGACTTATTCTCTG
1 CTCTAAAATCATGACTTATTCTCTG
*
33388764 CTCTAAAATCATGGCTTATTCTCTG
1 CTCTAAAATCATGACTTATTCTCTG
33388789 C
1 C
33388790 ATCTTAGATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.25, C:0.25, G:0.10, T:0.39
Consensus pattern (25 bp):
CTCTAAAATCATGACTTATTCTCTG
Found at i:33393175 original size:8 final size:8
Alignment explanation
Indices: 33393159--33393193 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
33393149 GTCTAGATAA
*
33393159 GATATTGT
1 GATAGTGT
33393167 GATAGTGT
1 GATAGTGT
33393175 GATAGTGT
1 GATAGTGT
*
33393183 GATAGTAT
1 GATAGTGT
33393191 GAT
1 GAT
33393194 GCCTCCTTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.29, C:0.00, G:0.31, T:0.40
Consensus pattern (8 bp):
GATAGTGT
Found at i:33397977 original size:17 final size:17
Alignment explanation
Indices: 33397955--33397987 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
33397945 TTATTTTATT
33397955 TAATTA-ATTTTACTAAA
1 TAATTATATTTT-CTAAA
33397972 TAATTATATTTTCTAA
1 TAATTATATTTTCTAA
33397988 TGTTGCATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (17 bp):
TAATTATATTTTCTAAA
Found at i:33399161 original size:30 final size:28
Alignment explanation
Indices: 33399112--33399173 Score: 72
Period size: 31 Copynumber: 2.1 Consensus size: 28
33399102 AAAATATTAA
* *
33399112 TTTTTACTTTTCTTTGTTTAATTTTTGTATT
1 TTTTTACCTTTCTTAGTTT-A-TTTT-TATT
33399143 TTTTTACCTTT-TTAGTTTATTTTTATT
1 TTTTTACCTTTCTTAGTTTATTTTTATT
33399170 TTTT
1 TTTT
33399174 CCCCAAATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 8 0.28
28 4 0.14
29 1 0.03
30 6 0.21
31 10 0.34
ACGTcount: A:0.13, C:0.06, G:0.05, T:0.76
Consensus pattern (28 bp):
TTTTTACCTTTCTTAGTTTATTTTTATT
Found at i:33403712 original size:2 final size:2
Alignment explanation
Indices: 33403705--33403733 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
33403695 AGCAGAAAGC
33403705 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
33403734 ACAGTTTCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:33406107 original size:50 final size:48
Alignment explanation
Indices: 33406000--33406180 Score: 165
Period size: 49 Copynumber: 3.8 Consensus size: 48
33405990 TCATTTGTGC
* * *
33406000 GCTAATGTAAGA-CATGTCTGGGACATG-CACCGGCCACATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGACATCGGCCAGATTATGAGA
* * * *
33406046 GCCATTGTAAGACCATGTCTAGGACATGACATCGGCACAGATATGTGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGACATCGGC-CAGAT-TATGAGA
* * * * *
33406096 GCTAGTGTAAGACCATATCCT-GGACAT-AGCGTCGGCCTCGATTTTGATA
1 GCTAGTGTAAGACCATGT-CTGGGACATGA-CATCGGCC-AGATTATGAGA
33406145 G-TCAGTGTAAGACCATGTCTGGGACATGACATCGGC
1 GCT-AGTGTAAGACCATGTCTGGGACATGACATCGGC
33406181 ATTATACCTT
Statistics
Matches: 110, Mismatches: 15, Indels: 17
0.77 0.11 0.12
Matches are distributed among these distances:
46 10 0.09
47 14 0.13
48 9 0.08
49 38 0.35
50 37 0.34
51 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.24
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTGGGACATGACATCGGCCAGATTATGAGA
Found at i:33417066 original size:21 final size:21
Alignment explanation
Indices: 33417042--33417083 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
33417032 TCATCAGATC
*
33417042 TACACCTTGAGGCATCGGGGG
1 TACACCTTGAGGAATCGGGGG
**
33417063 TACAGGTTGAGGAATCGGGGG
1 TACACCTTGAGGAATCGGGGG
33417084 AGGTGGGGGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.21, C:0.17, G:0.43, T:0.19
Consensus pattern (21 bp):
TACACCTTGAGGAATCGGGGG
Found at i:33429436 original size:37 final size:37
Alignment explanation
Indices: 33429330--33429438 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
33429320 AGCTCAGACG
* * *
33429330 AAATCTCCACACGAAGTTATCGGGTCTTACCCAGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
33429367 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
33429404 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
33429439 ATATATTTCC
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:33429639 original size:48 final size:48
Alignment explanation
Indices: 33429585--33429719 Score: 216
Period size: 48 Copynumber: 2.8 Consensus size: 48
33429575 GCACATCGCC
33429585 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATACCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATACCTCA
* *
33429633 TACATATTTCGCACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATACCTCA
* * * *
33429681 TACATATTTCACATTGGCCATTCGGCCTTATCACATATA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATA
33429720 TGCATGTTCA
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 80 1.00
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (48 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATACCTCA
Found at i:33429754 original size:47 final size:47
Alignment explanation
Indices: 33429689--33429882 Score: 334
Period size: 47 Copynumber: 4.1 Consensus size: 47
33429679 CATACATATT
* * *
33429689 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
*
33429736 TCATATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
33429783 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
* *
33429830 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
33429877 TCACAT
1 TCACAT
33429883 AAAATCCTAA
Statistics
Matches: 140, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 140 1.00
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
Found at i:33429786 original size:25 final size:25
Alignment explanation
Indices: 33429757--33429834 Score: 69
Period size: 23 Copynumber: 3.2 Consensus size: 25
33429747 ATTCGGCCTT
33429757 ATCACACATATGCATGCTCACATTC
1 ATCACACATATGCATGCTCACATTC
* *
33429782 AT--CACAT-TGGCCAT--TCGGCCTT-
1 ATCACACATAT-G-CATGCTC-ACATTC
33429804 ATCACACATATGCATGCTCACATTC
1 ATCACACATATGCATGCTCACATTC
33429829 ATCACA
1 ATCACA
33429835 TTGGCCATTC
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 5 0.12
23 12 0.30
24 12 0.30
25 11 0.28
ACGTcount: A:0.29, C:0.32, G:0.10, T:0.28
Consensus pattern (25 bp):
ATCACACATATGCATGCTCACATTC
Found at i:33429809 original size:22 final size:22
Alignment explanation
Indices: 33429782--33429857 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
33429772 GCTCACATTC
33429782 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* *
33429804 ATCACACATAT-G-CATGCTC-ACATT
1 AT--CACAT-TGGCCAT--TCGGCCTT
33429828 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
33429851 ATCACAT
1 ATCACAT
33429858 ATATGCATGT
Statistics
Matches: 41, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 12 0.29
23 12 0.29
24 12 0.29
25 5 0.12
ACGTcount: A:0.25, C:0.32, G:0.13, T:0.30
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:33432221 original size:25 final size:25
Alignment explanation
Indices: 33432193--33432244 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
33432183 AACTTTTAAT
*
33432193 TCTGTTTTTATTTTATTTTTCCAGA
1 TCTGTTTTTATTTTATGTTTCCAGA
33432218 TCTGTTTTTATTTTATGTTTCCAGA
1 TCTGTTTTTATTTTATGTTTCCAGA
33432243 TC
1 TC
33432245 AAAATTTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.15, C:0.13, G:0.10, T:0.62
Consensus pattern (25 bp):
TCTGTTTTTATTTTATGTTTCCAGA
Found at i:33434006 original size:17 final size:17
Alignment explanation
Indices: 33433969--33434007 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
33433959 TTTGATAGAA
33433969 TTATGTTAAGATATGAGT
1 TTATGTTAAGATA-GAGT
33433987 TTATGTTAAGAGTA-AGT
1 TTATGTTAAGA-TAGAGT
33434004 TTAT
1 TTAT
33434008 ATCCTTTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 11 0.55
19 2 0.10
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TTATGTTAAGATAGAGT
Found at i:33442316 original size:13 final size:13
Alignment explanation
Indices: 33442298--33442323 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
33442288 TGAATTAGTA
33442298 TGTGTGAAAATTT
1 TGTGTGAAAATTT
33442311 TGTGTGAAAATTT
1 TGTGTGAAAATTT
33442324 AATCATTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (13 bp):
TGTGTGAAAATTT
Found at i:33446529 original size:44 final size:44
Alignment explanation
Indices: 33446466--33446595 Score: 153
Period size: 42 Copynumber: 3.0 Consensus size: 44
33446456 GGGGTGTTGC
* *
33446466 ACCACGTCTGAGACGTTGGCATTGACTA-ATGATTTACATGTAAG
1 ACCACGTCTGAGACATTGGCATTGA-TATTTGATTTACATGTAAG
* *
33446510 ACCACGTCTGAGACATTGGCATCG-TATTTGATTT-CATGTAAT
1 ACCACGTCTGAGACATTGGCATTGATATTTGATTTACATGTAAG
* *
33446552 ACC-CTGTCTGGGACAATGGCATTGATATTTG-TTTACATGTAAG
1 ACCAC-GTCTGAGACATTGGCATTGATATTTGATTTACATGTAAG
33446595 A
1 A
33446596 TTACGTCTAG
Statistics
Matches: 74, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
41 1 0.01
42 31 0.42
43 20 0.27
44 22 0.30
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.33
Consensus pattern (44 bp):
ACCACGTCTGAGACATTGGCATTGATATTTGATTTACATGTAAG
Found at i:33457130 original size:94 final size:94
Alignment explanation
Indices: 33456965--33457145 Score: 283
Period size: 94 Copynumber: 1.9 Consensus size: 94
33456955 AACACTGGCG
*
33456965 TGTCACACAGTCGTGTCCATTTGGCAGGATTGAAGCACGACTTACATCGGTAGACTACACGCCCG
1 TGTCACACAGTCGTGTCCATTTGGCAAGATTGAAGCACGACTTACATCGGTAGACTACACGCCCG
33457030 TACCTATTCAACAGCCTTGACCGTGGGCA
66 TACCTATTCAACAGCCTTGACCGTGGGCA
* * * * *
33457059 TGTCACACGGTCGTGTCCATTTGGTAAGATTGAAGCACGACTTACA-CGGGTAGAGTACATGCCG
1 TGTCACACAGTCGTGTCCATTTGGCAAGATTGAAGCACGACTTACATC-GGTAGACTACACGCCC
*
33457123 GTGCCTATTCAACAGCCTTGACC
65 GTACCTATTCAACAGCCTTGACC
33457146 ACAGGCGTGT
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
93 1 0.01
94 78 0.99
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (94 bp):
TGTCACACAGTCGTGTCCATTTGGCAAGATTGAAGCACGACTTACATCGGTAGACTACACGCCCG
TACCTATTCAACAGCCTTGACCGTGGGCA
Found at i:33460743 original size:13 final size:13
Alignment explanation
Indices: 33460725--33460749 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33460715 GAATTAGTAT
33460725 GTGTGAAAATTTC
1 GTGTGAAAATTTC
33460738 GTGTGAAAATTT
1 GTGTGAAAATTT
33460750 AATCGTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:33462118 original size:27 final size:27
Alignment explanation
Indices: 33462087--33462141 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
33462077 TACGTTTGAA
33462087 TTGTATACCATGTTTGAGATTGAAAGG
1 TTGTATACCATGTTTGAGATTGAAAGG
*
33462114 TTGTATACCTTGTTTGAGATTGAAAGG
1 TTGTATACCATGTTTGAGATTGAAAGG
33462141 T
1 T
33462142 AAGTATATGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.27, C:0.07, G:0.25, T:0.40
Consensus pattern (27 bp):
TTGTATACCATGTTTGAGATTGAAAGG
Found at i:33463734 original size:30 final size:30
Alignment explanation
Indices: 33463700--33463762 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
33463690 GGATTAGGAG
33463700 CATCGAATTCACTTAAAACCAAGGAAAAAT
1 CATCGAATTCACTTAAAACCAAGGAAAAAT
33463730 CATCGAATTCACTTAAAACCAAGGAAAAAT
1 CATCGAATTCACTTAAAACCAAGGAAAAAT
33463760 CAT
1 CAT
33463763 TCATAAATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.49, C:0.21, G:0.10, T:0.21
Consensus pattern (30 bp):
CATCGAATTCACTTAAAACCAAGGAAAAAT
Found at i:33464302 original size:27 final size:27
Alignment explanation
Indices: 33464264--33464320 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
33464254 GGATAAAGGC
33464264 TAAAAAAGAAACGGTTAGAATCGAGAT
1 TAAAAAAGAAACGGTTAGAATCGAGAT
33464291 TAAAAAAGAAACGGTTAGAATCGAGAT
1 TAAAAAAGAAACGGTTAGAATCGAGAT
33464318 TAA
1 TAA
33464321 CTTGATAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.53, C:0.07, G:0.21, T:0.19
Consensus pattern (27 bp):
TAAAAAAGAAACGGTTAGAATCGAGAT
Found at i:33465482 original size:18 final size:18
Alignment explanation
Indices: 33465456--33465500 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
33465446 AAAATTTAAA
* *
33465456 TAAATATAAATATAAAAG
1 TAAAAATAAAAATAAAAG
*
33465474 TAAAAATAAAAATAATAG
1 TAAAAATAAAAATAAAAG
33465492 T-AAAATAAA
1 TAAAAATAAA
33465501 GGGACCCAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 8 0.33
18 16 0.67
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.24
Consensus pattern (18 bp):
TAAAAATAAAAATAAAAG
Found at i:33467033 original size:17 final size:17
Alignment explanation
Indices: 33467006--33467063 Score: 55
Period size: 17 Copynumber: 3.2 Consensus size: 17
33466996 AAATACTAAC
33467006 ATAATAAAATAAGATAAA
1 ATAA-AAAATAAGATAAA
*
33467024 ATAAAAAATAAAAATAAA
1 ATAAAAAAT-AAGATAAA
*
33467042 A-ATAAAATAATGATAATA
1 ATAAAAAATAA-GATAA-A
33467060 ATAA
1 ATAA
33467064 CTAAACTACT
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
16 2 0.06
17 15 0.47
18 14 0.44
19 1 0.03
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.22
Consensus pattern (17 bp):
ATAAAAAATAAGATAAA
Found at i:33467036 original size:12 final size:12
Alignment explanation
Indices: 33467019--33467051 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
33467009 ATAAAATAAG
33467019 ATAAAATAAAAA
1 ATAAAATAAAAA
33467031 ATAAAA-ATAAAA
1 ATAAAATA-AAAA
33467043 ATAAAATAA
1 ATAAAATAA
33467052 TGATAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 1 0.05
12 17 0.89
13 1 0.05
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (12 bp):
ATAAAATAAAAA
Found at i:33468419 original size:24 final size:25
Alignment explanation
Indices: 33468392--33468440 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
33468382 GCTTATTTAT
*
33468392 TAAATAAAAAAC-TTTAAAATATAA
1 TAAATAAAAAACATTTAAAACATAA
* *
33468416 TAAATCAAATACATTTAAAACATAA
1 TAAATAAAAAACATTTAAAACATAA
33468441 AAACAAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (25 bp):
TAAATAAAAAACATTTAAAACATAA
Found at i:33468433 original size:25 final size:23
Alignment explanation
Indices: 33468404--33468468 Score: 66
Period size: 25 Copynumber: 2.9 Consensus size: 23
33468394 AATAAAAAAC
*
33468404 TTTAAAATATAATAAATCAAATACA
1 TTTAAAACATAA-AAA-CAAATACA
33468429 TTTAAAACATAAAAACAAAT--A
1 TTTAAAACATAAAAACAAATACA
*
33468450 -TTAAAACA-AAAAATAAATA
1 TTTAAAACATAAAAACAAATA
33468469 AATAATGGGA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
19 9 0.24
20 8 0.22
21 1 0.03
23 5 0.14
24 3 0.08
25 11 0.30
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (23 bp):
TTTAAAACATAAAAACAAATACA
Found at i:33468467 original size:19 final size:20
Alignment explanation
Indices: 33468430--33468468 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
33468420 TCAAATACAT
33468430 TTAAAACATAAAAACAAATA
1 TTAAAACATAAAAACAAATA
*
33468450 TTAAAACA-AAAAATAAATA
1 TTAAAACATAAAAACAAATA
33468469 AATAATGGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.21
Consensus pattern (20 bp):
TTAAAACATAAAAACAAATA
Found at i:33473352 original size:16 final size:16
Alignment explanation
Indices: 33473333--33473363 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
33473323 CTTCTTCACT
33473333 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
33473349 TACTTACTTACTTAA
1 TACTCACTTACTTAA
33473364 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:33473369 original size:20 final size:20
Alignment explanation
Indices: 33473330--33473369 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
33473320 AAACTTCTTC
* *
33473330 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
33473350 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
33473370 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:33473484 original size:23 final size:24
Alignment explanation
Indices: 33473442--33473486 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
33473432 TTTGCTCTTC
* *
33473442 TAGCATGAACTTGTCTTACCTTTT
1 TAGCATGAACTAGTCATACCTTTT
33473466 TAGCAT-AACTAGTCATACCTT
1 TAGCATGAACTAGTCATACCTT
33473487 ACCTTATCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.27, C:0.22, G:0.11, T:0.40
Consensus pattern (24 bp):
TAGCATGAACTAGTCATACCTTTT
Found at i:33473741 original size:55 final size:54
Alignment explanation
Indices: 33473555--33473809 Score: 237
Period size: 55 Copynumber: 4.8 Consensus size: 54
33473545 ACACGGGTAC
* * * *
33473555 CTTACCATTGCCATGACTTGTCATGGTCTTACGTG-GTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGAGTATCCTTGCCTTATG-AA
* *
33473604 CTTACCATTGCCATGTCTTGACATTGTCTTACATG-GTATCCTTGCCTTATGAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGAGTATCCTTGCCTTATGAA
* * *
33473657 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGAG-A-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGAGTATCC-TTGCCTTAT-G-AA
* *
33473712 CTTATCAATGCCATGTCTTGACATGGTCTTACATGA-TTTCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGAGTATCCTTGCCTTATG-AA
* * *
33473765 CCTTACGAATTGCCATGCCTTGGCATGGTCTTACATG-GTATCCTT
1 -CTTACCAA-TGCCATGTCTTGACATGGTCTTACATGAGTATCCTT
33473810 AAACCCTAAT
Statistics
Matches: 172, Mismatches: 20, Indels: 22
0.80 0.09 0.10
Matches are distributed among these distances:
49 37 0.22
50 1 0.01
52 2 0.01
53 47 0.27
54 10 0.06
55 73 0.42
56 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (54 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGAGTATCCTTGCCTTATGAA
Found at i:33473746 original size:108 final size:110
Alignment explanation
Indices: 33473602--33473801 Score: 307
Period size: 108 Copynumber: 1.8 Consensus size: 110
33473592 ATCCTTTTGA
* * *
33473602 AACTTACCATTGCCATGTCTTGACATTGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACCAA
33473665 -TGCCATGCCTTGGCATGGTCTTACATGAGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGAGACCTTTGCCTTATAGT
* * * *
33473710 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACGAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
33473775 TGCCATGCCTTGGCATGGTCTTACATG
66 TGCCATGCCTTGGCATGGTCTTACATG
33473802 GTATCCTTAA
Statistics
Matches: 82, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
107 1 0.01
108 48 0.59
109 6 0.07
110 27 0.33
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGAGACCTTTGCCTTATAGT
Found at i:33477645 original size:46 final size:46
Alignment explanation
Indices: 33477575--33477750 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
33477565 TGTAACCCGC
* * *
33477575 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCACAT
* *
33477621 CCATAAGTGAACTCGGACTGAACTCAACGAGCTCAGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-G--GAC--GTTCACAT
* * * *
33477671 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCACAT
*
33477714 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
33477751 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 3 0.03
45 2 0.02
46 62 0.57
47 25 0.23
48 2 0.02
49 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.31, C:0.29, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCACAT
Found at i:33477696 original size:93 final size:93
Alignment explanation
Indices: 33477583--33477753 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
33477573 GCCCATAAGT
* * * *
33477583 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTGAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
33477648 CGAGCTCAGATGCCTAGTTACATCTCAC
66 CGAGCTCAGATGCCTAGTTACATCTCAC
* *
33477676 GAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
* *
33477741 CGAGTTCGGATGC
66 CGAGCTCAGATGC
33477754 TCAACCATCC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.20
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCAGATGCCTAGTTACATCTCAC
Found at i:33479915 original size:10 final size:10
Alignment explanation
Indices: 33479900--33479932 Score: 66
Period size: 10 Copynumber: 3.3 Consensus size: 10
33479890 TGGATGCCCA
33479900 ATTGGAAGCT
1 ATTGGAAGCT
33479910 ATTGGAAGCT
1 ATTGGAAGCT
33479920 ATTGGAAGCT
1 ATTGGAAGCT
33479930 ATT
1 ATT
33479933 ATTGTAGGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.30, C:0.09, G:0.27, T:0.33
Consensus pattern (10 bp):
ATTGGAAGCT
Found at i:33490706 original size:40 final size:40
Alignment explanation
Indices: 33490649--33490734 Score: 154
Period size: 40 Copynumber: 2.1 Consensus size: 40
33490639 TTATTTGATG
33490649 TGGAATTGTATCCGGGCTTAAAGACCCGCAAGCTTCGTGC
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAAGCTTCGTGC
* *
33490689 TGGAATTGTATCTGGGCTTAAAGACCCGCAGGCTTCGTGC
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAAGCTTCGTGC
33490729 TGGAAT
1 TGGAAT
33490735 GACATCCGGG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (40 bp):
TGGAATTGTATCCGGGCTTAAAGACCCGCAAGCTTCGTGC
Found at i:33490760 original size:39 final size:40
Alignment explanation
Indices: 33490649--33490761 Score: 149
Period size: 40 Copynumber: 2.9 Consensus size: 40
33490639 TTATTTGATG
* *
33490649 TGGAATTGTATCCGGGCTTAAAGACCCGCAAGCTTCGTGC
1 TGGAATTGCATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
* *
33490689 TGGAATTGTATCTGGGCTTAAAGACCCGCAGGCTTCGTGC
1 TGGAATTGCATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
* *
33490729 TGGAA-TGACATCCGGG-TTAAAAACCTGCAGGCT
1 TGGAATTG-CATCCGGGCTTAAAGACCCGCAGGCT
33490762 GTGCTAGATA
Statistics
Matches: 66, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
39 17 0.26
40 49 0.74
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TGGAATTGCATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
Found at i:33506826 original size:28 final size:28
Alignment explanation
Indices: 33506789--33506884 Score: 122
Period size: 29 Copynumber: 3.4 Consensus size: 28
33506779 AAGTCCACAA
* *
33506789 ACATACATATGGCCCACTAGGCCC-AAT
1 ACATTCATATGGCCCATTAGGCCCAAAT
33506816 ATCATTCATATGGCCCATTAGGCCCAAAT
1 A-CATTCATATGGCCCATTAGGCCCAAAT
**
33506845 CACATTCATACAGCCCATTAGGCCCAAAT
1 -ACATTCATATGGCCCATTAGGCCCAAAT
33506874 CACATTCATAT
1 -ACATTCATAT
33506885 ACATACTTTC
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
27 1 0.02
28 21 0.34
29 38 0.62
30 1 0.02
ACGTcount: A:0.33, C:0.31, G:0.11, T:0.24
Consensus pattern (28 bp):
ACATTCATATGGCCCATTAGGCCCAAAT
Found at i:33507545 original size:29 final size:29
Alignment explanation
Indices: 33507503--33507598 Score: 124
Period size: 29 Copynumber: 3.3 Consensus size: 29
33507493 GAAAGCATGT
*
33507503 ATATGAATTTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
33507532 ATATGAATGTGATTTGGGACTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
33507561 ATATGAA--TAATATTGGGCCTAGTGGGCC
1 ATATGAATGTGAT-TTGGGCCTAATGGGCC
*
33507589 ATATGCATGT
1 ATATGAATGT
33507599 TTGTAGACTT
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
27 3 0.05
28 20 0.34
29 34 0.59
30 1 0.02
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.32
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:33511792 original size:16 final size:16
Alignment explanation
Indices: 33511773--33511803 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
33511763 CGAAATGTCG
33511773 AAATGCTAAAAAGCTT
1 AAATGCTAAAAAGCTT
*
33511789 AAATGCTGAAAAGCT
1 AAATGCTAAAAAGCT
33511804 GAAAGTTTGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.13, G:0.16, T:0.23
Consensus pattern (16 bp):
AAATGCTAAAAAGCTT
Found at i:33512060 original size:29 final size:29
Alignment explanation
Indices: 33512016--33512141 Score: 175
Period size: 29 Copynumber: 4.4 Consensus size: 29
33512006 TGAAAGCATG
33512016 CATATGAATGTGATTTGGGCCTAATGGGC
1 CATATGAATGTGATTTGGGCCTAATGGGC
*
33512045 CTTATGAATGTGATTTGGGCCTAATGGGC
1 CATATGAATGTGATTTGGGCCTAATGGGC
*
33512074 CATATGAATGTGATTTGGGACTAATGGGC
1 CATATGAATGTGATTTGGGCCTAATGGGC
* * *
33512103 CATATGAA--TAATATTGCGCCTAGTGGGC
1 CATATGAATGTGAT-TTGGGCCTAATGGGC
*
33512131 CATATGCATGT
1 CATATGAATGT
33512142 TTGTAGACTT
Statistics
Matches: 86, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
27 3 0.03
28 19 0.22
29 63 0.73
30 1 0.01
ACGTcount: A:0.25, C:0.14, G:0.29, T:0.32
Consensus pattern (29 bp):
CATATGAATGTGATTTGGGCCTAATGGGC
Found at i:33513478 original size:19 final size:19
Alignment explanation
Indices: 33513454--33513500 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
33513444 ACAGTGTGGT
33513454 AGGTCATGTGGTGAGGTTC
1 AGGTCATGTGGTGAGGTTC
*
33513473 AGGTCATATGGTGAGGTTC
1 AGGTCATGTGGTGAGGTTC
33513492 AGGTCATGT
1 AGGTCATGT
33513501 AAGAAGTGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.19, C:0.11, G:0.38, T:0.32
Consensus pattern (19 bp):
AGGTCATGTGGTGAGGTTC
Found at i:33518805 original size:48 final size:47
Alignment explanation
Indices: 33518730--33518832 Score: 125
Period size: 48 Copynumber: 2.2 Consensus size: 47
33518720 TGTGTGTTAA
* * * *
33518730 TGTAAGACCGTGTTAGAATATGGCATCGACCACATTATGAGAGCTAG
1 TGTAAGACCATGTTAGAACATGGCATCGACAACATTATGAGAGCCAG
* **
33518777 TGTAAGACCATGTTTGAAACATGGCATCGACAATGTTATGAGAGCCAG
1 TGTAAGACCATGTTAG-AACATGGCATCGACAACATTATGAGAGCCAG
*
33518825 AGTAAGAC
1 TGTAAGAC
33518833 TCCGTCCAGG
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
47 14 0.30
48 33 0.70
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.24
Consensus pattern (47 bp):
TGTAAGACCATGTTAGAACATGGCATCGACAACATTATGAGAGCCAG
Found at i:33528461 original size:48 final size:48
Alignment explanation
Indices: 33528390--33528914 Score: 893
Period size: 48 Copynumber: 11.0 Consensus size: 48
33528380 CAAGATAAAT
*
33528390 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATAGGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
33528438 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATGAG
33528488 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
33528536 ATATGTATATGTGGTAAAGCCGAATGGCTACTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
33528584 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
33528632 ATATGTATATGTGGTAAAGCCGAATGGCTACTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
33528680 ATATGTATATGTGGTAAAGCCTAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
33528728 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
33528776 ATATGTATATGTGGT-------AATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
33528817 ATATGTATATGTGGTAAAGTCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
33528865 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
33528913 AT
1 AT
33528915 GTGTGTATAT
Statistics
Matches: 454, Mismatches: 14, Indels: 18
0.93 0.03 0.04
Matches are distributed among these distances:
41 40 0.09
48 366 0.81
49 4 0.01
50 44 0.10
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.32
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:33528798 original size:41 final size:41
Alignment explanation
Indices: 33528750--33528881 Score: 183
Period size: 41 Copynumber: 3.0 Consensus size: 41
33528740 GGTAAAGCCG
33528750 AATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
1 AATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
*
33528791 AATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGT
1 AATGGCTAATGTGAAATATGTATGAGATATGTATATGT-G----GT
*
33528837 CGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGT
1 --AATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
33528880 AA
1 AA
33528882 AGCCGAATGG
Statistics
Matches: 81, Mismatches: 3, Indels: 14
0.83 0.03 0.14
Matches are distributed among these distances:
41 39 0.48
42 1 0.01
43 2 0.02
46 2 0.02
47 1 0.01
48 36 0.44
ACGTcount: A:0.36, C:0.03, G:0.27, T:0.35
Consensus pattern (41 bp):
AATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
Found at i:33528805 original size:89 final size:89
Alignment explanation
Indices: 33528701--33528881 Score: 335
Period size: 89 Copynumber: 2.0 Consensus size: 89
33528691 TGGTAAAGCC
*
33528701 TAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAA
1 TAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAA
33528766 TATGTATGAGATATGTATATGTGG
66 TATGTATGAGATATGTATATGTGG
* *
33528790 TAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGTCGAATGGCTAGTGTGAAA
1 TAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAA
33528855 TATGTATGAGATATGTATATGTGG
66 TATGTATGAGATATGTATATGTGG
33528879 TAA
1 TAA
33528882 AGCCGAATGG
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
89 89 1.00
ACGTcount: A:0.35, C:0.04, G:0.27, T:0.34
Consensus pattern (89 bp):
TAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAA
TATGTATGAGATATGTATATGTGG
Found at i:33529163 original size:37 final size:37
Alignment explanation
Indices: 33529055--33529163 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
33529045 GGAAATATAT
* *
33529055 TCCGGGTAAGACCCAATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
33529092 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
33529129 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
33529164 CATCTGAGCT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:33537539 original size:47 final size:48
Alignment explanation
Indices: 33537459--33537732 Score: 272
Period size: 48 Copynumber: 5.8 Consensus size: 48
33537449 TGATATGTGT
* * * *
33537459 GCTAGTGTAAAACCATGT-TGGAACATGGAATCGGTCATATTATAAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGTCATATTATGAGA
* * *
33537506 GCTAGTGT-AGACCATGTCTGGGACAAGGCATCGGCCACATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGTCATATTATGAGA
* * * * * *
33537553 GCCAGTGTAAGACCATATTTGGAACATGGCATCAGTAATATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGTCATATTATGAGA
* * *
33537601 GCCAGAGTAAGACCATGTCTGGGACATGGCATCGG-CAT-TGAGATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGTCATAT--TATGAGA
* * * *
33537649 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTC-GA-CATGTGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATC-G-GTCATATTATGAGA
* *
33537697 GCCAGTGTAAGACCATGTCTGGGACATGGAATCGGT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGT
33537733 AATTTACCAT
Statistics
Matches: 187, Mismatches: 32, Indels: 17
0.79 0.14 0.07
Matches are distributed among these distances:
46 10 0.05
47 41 0.22
48 134 0.72
49 1 0.01
51 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.23
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGTCATATTATGAGA
Found at i:33545927 original size:46 final size:46
Alignment explanation
Indices: 33545877--33546052 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
33545867 TGGTTGAGCA
33545877 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
33545923 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
33545968 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
33546016 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
33546053 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:33546033 original size:93 final size:93
Alignment explanation
Indices: 33545874--33546045 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
33545864 GGATGGTTGA
* *
33545874 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
33545939 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
33545967 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
33546032 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
33546046 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:33554224 original size:9 final size:9
Alignment explanation
Indices: 33554210--33554283 Score: 73
Period size: 9 Copynumber: 8.4 Consensus size: 9
33554200 TTTGGTTAAA
33554210 AATTAACCG
1 AATTAACCG
*
33554219 AATTAAACG
1 AATTAACCG
*
33554228 AATTACCCG
1 AATTAACCG
33554237 AATTAACCG
1 AATTAACCG
*
33554246 -ATT-ACCTA
1 AATTAACC-G
33554254 AATTAACCG
1 AATTAACCG
*
33554263 -ATTATCCG
1 AATTAACCG
*
33554271 AATTACCCG
1 AATTAACCG
33554280 AATT
1 AATT
33554284 GAATCACTAC
Statistics
Matches: 53, Mismatches: 8, Indels: 8
0.77 0.12 0.12
Matches are distributed among these distances:
7 3 0.06
8 10 0.19
9 37 0.70
10 3 0.06
ACGTcount: A:0.41, C:0.23, G:0.09, T:0.27
Consensus pattern (9 bp):
AATTAACCG
Found at i:33554251 original size:17 final size:17
Alignment explanation
Indices: 33554211--33554280 Score: 77
Period size: 17 Copynumber: 4.1 Consensus size: 17
33554201 TTGGTTAAAA
* *
33554211 ATTAACCGAATTAAACG
1 ATTACCCGAATTAACCG
33554228 AATTACCCGAATTAACCG
1 -ATTACCCGAATTAACCG
**
33554246 ATTACCTAAATTAACCG
1 ATTACCCGAATTAACCG
* *
33554263 ATTATCCGAATTACCCG
1 ATTACCCGAATTAACCG
33554280 A
1 A
33554281 ATTGAATCAC
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
17 29 0.66
18 15 0.34
ACGTcount: A:0.40, C:0.24, G:0.10, T:0.26
Consensus pattern (17 bp):
ATTACCCGAATTAACCG
Found at i:33554313 original size:17 final size:17
Alignment explanation
Indices: 33554291--33554388 Score: 61
Period size: 17 Copynumber: 5.4 Consensus size: 17
33554281 ATTGAATCAC
33554291 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
** * *
33554308 TACATAAGTCTTTGAATCAC
1 TACATAA---TTAAAAACAT
* *
33554328 TGCATAATTAAAAATAT
1 TACATAATTAAAAACAT
* * *
33554345 TACATAAGTCTATGAATCAC
1 TACATAA-T-TA-AAAACAT
33554365 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
33554382 TACATAA
1 TACATAA
33554389 GTCTTGAAAT
Statistics
Matches: 57, Mismatches: 18, Indels: 12
0.66 0.21 0.14
Matches are distributed among these distances:
17 29 0.51
18 3 0.05
19 3 0.05
20 22 0.39
ACGTcount: A:0.49, C:0.14, G:0.05, T:0.32
Consensus pattern (17 bp):
TACATAATTAAAAACAT
Found at i:33554323 original size:37 final size:37
Alignment explanation
Indices: 33554282--33554393 Score: 197
Period size: 37 Copynumber: 3.0 Consensus size: 37
33554272 ATTACCCGAA
33554282 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
* *
33554319 TTGAATCACTGCATAATTAAAAATATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
*
33554356 ATGAATCACTACATAATTAAAAACATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
33554393 T
1 T
33554394 GAAATTAACA
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.46, C:0.15, G:0.06, T:0.33
Consensus pattern (37 bp):
TTGAATCACTACATAATTAAAAACATTACATAAGTCT
Found at i:33554370 original size:20 final size:18
Alignment explanation
Indices: 33554283--33554374 Score: 62
Period size: 17 Copynumber: 5.0 Consensus size: 18
33554273 TTACCCGAAT
33554283 TGAATCACTACATAATTA
1 TGAATCACTACATAATTA
* * * *
33554301 -AAAACATTACATAAGTCTT
1 TGAATCACTACATAA-T-TA
*
33554320 TGAATCACTGCATAATTA
1 TGAATCACTACATAATTA
** *
33554338 AAAAT-ATTACATAAGTCTA
1 TGAATCACTACATAA-T-TA
33554357 TGAATCACTACATAATTA
1 TGAATCACTACATAATTA
33554375 AAAACATTAC
Statistics
Matches: 52, Mismatches: 16, Indels: 12
0.65 0.20 0.15
Matches are distributed among these distances:
17 18 0.35
18 8 0.15
19 8 0.15
20 18 0.35
ACGTcount: A:0.46, C:0.15, G:0.07, T:0.33
Consensus pattern (18 bp):
TGAATCACTACATAATTA
Found at i:33556840 original size:21 final size:21
Alignment explanation
Indices: 33556811--33556869 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 21
33556801 GCAAGAAAAA
33556811 AATTATATAATAAATTAAAATAC
1 AATT-TATAAT-AATTAAAATAC
33556834 -ATTTATAAT-ATTAAAATAC
1 AATTTATAATAATTAAAATAC
33556853 ATATTTATAAT-ATTAAA
1 A-ATTTATAATAATTAAA
33556870 CAATTTTCAT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
19 10 0.29
21 21 0.62
22 3 0.09
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (21 bp):
AATTTATAATAATTAAAATAC
Found at i:33556846 original size:19 final size:20
Alignment explanation
Indices: 33556820--33556869 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 20
33556810 AAATTATATA
33556820 ATAA-ATTAAAATAC-ATTT
1 ATAATATTAAAATACAATTT
33556838 ATAATATTAAAATACATATTT
1 ATAATATTAAAATACA-ATTT
33556859 ATAATATTAAA
1 ATAATATTAAA
33556870 CAATTTTCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
18 4 0.14
19 10 0.34
21 15 0.52
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (20 bp):
ATAATATTAAAATACAATTT
Found at i:33556937 original size:12 final size:11
Alignment explanation
Indices: 33556917--33556950 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
33556907 AGAATACTTG
33556917 TTAAATAAAAT
1 TTAAATAAAAT
*
33556928 TTATAATAAAAA
1 TTA-AATAAAAT
33556940 TTAAATAAAAT
1 TTAAATAAAAT
33556951 ATTGGTACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
TTAAATAAAAT
Found at i:33561278 original size:47 final size:47
Alignment explanation
Indices: 33561226--33561392 Score: 228
Period size: 47 Copynumber: 3.6 Consensus size: 47
33561216 GATAATTGTG
* *
33561226 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
33561273 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * *
33561320 ATGTGAAAGTGTATATATGTGA-CAGAGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAG-GCCTAATGGCCGATGTGATGA
*
33561367 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
33561393 TCCCAAAGGG
Statistics
Matches: 107, Mismatches: 11, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
46 2 0.02
47 103 0.96
48 2 0.02
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:33565556 original size:30 final size:30
Alignment explanation
Indices: 33565520--33565576 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
33565510 TATTAGGAAG
*
33565520 AGAGAATTTTTATTTTCACCCCAAAAGAAA
1 AGAGAATTTTTATTTTCAACCCAAAAGAAA
*
33565550 AGAGAATTTTTGTTTTCAACCCAAAAG
1 AGAGAATTTTTATTTTCAACCCAAAAG
33565577 GAGAGAAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (30 bp):
AGAGAATTTTTATTTTCAACCCAAAAGAAA
Found at i:33567870 original size:30 final size:30
Alignment explanation
Indices: 33567836--33567895 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
33567826 GGGAAAGTGC
33567836 GCTAAGAAAGACAAGGCTAAGGTTTTGGGT
1 GCTAAGAAAGACAAGGCTAAGGTTTTGGGT
33567866 GCTAAGAAAGACAAGGCTAAGGTTTTGGGT
1 GCTAAGAAAGACAAGGCTAAGGTTTTGGGT
33567896 CACCACAAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.33, C:0.10, G:0.33, T:0.23
Consensus pattern (30 bp):
GCTAAGAAAGACAAGGCTAAGGTTTTGGGT
Found at i:33571063 original size:17 final size:18
Alignment explanation
Indices: 33571034--33571069 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
33571024 GGGCAAAATG
33571034 GCTTGGTATTAGTGCTAT
1 GCTTGGTATTAGTGCTAT
33571052 GCTTGG-ATTAGTGCTAT
1 GCTTGGTATTAGTGCTAT
33571069 G
1 G
33571070 ACGAGTTCGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.17, C:0.11, G:0.31, T:0.42
Consensus pattern (18 bp):
GCTTGGTATTAGTGCTAT
Found at i:33577763 original size:12 final size:12
Alignment explanation
Indices: 33577746--33577774 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
33577736 TTAAATTATA
33577746 CAATTTCTAATT
1 CAATTTCTAATT
33577758 CAATTTCTAATT
1 CAATTTCTAATT
33577770 CAATT
1 CAATT
33577775 ATTATACATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.34, C:0.17, G:0.00, T:0.48
Consensus pattern (12 bp):
CAATTTCTAATT
Found at i:33578569 original size:25 final size:25
Alignment explanation
Indices: 33578535--33578584 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
33578525 ATCTAGTTTC
33578535 TTTTTATAATATCTATTTATTTCTA
1 TTTTTATAATATCTATTTATTTCTA
33578560 TTTTTATAATATCTATTTATTTCTA
1 TTTTTATAATATCTATTTATTTCTA
33578585 ATAAATATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (25 bp):
TTTTTATAATATCTATTTATTTCTA
Found at i:33578576 original size:15 final size:15
Alignment explanation
Indices: 33578535--33578577 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
33578525 ATCTAGTTTC
33578535 TTTTTATAATATCTA
1 TTTTTATAATATCTA
33578550 --TTTAT--T-TCTA
1 TTTTTATAATATCTA
33578560 TTTTTATAATATCTA
1 TTTTTATAATATCTA
33578575 TTT
1 TTT
33578578 ATTTCTAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 10
0.70 0.00 0.30
Matches are distributed among these distances:
10 4 0.17
11 1 0.04
12 5 0.22
13 5 0.22
14 1 0.04
15 7 0.30
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (15 bp):
TTTTTATAATATCTA
Found at i:33578591 original size:21 final size:23
Alignment explanation
Indices: 33578539--33578592 Score: 67
Period size: 25 Copynumber: 2.3 Consensus size: 23
33578529 AGTTTCTTTT
*
33578539 TATAATATCTATTTATTTCTATTTT
1 TATAATATCTATTTATTTCTA--TA
33578564 TATAATATCTATTTATTTCTA-A
1 TATAATATCTATTTATTTCTATA
33578586 TA-AATAT
1 TATAATAT
33578593 TTATATAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 5 0.18
22 2 0.07
25 21 0.75
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.57
Consensus pattern (23 bp):
TATAATATCTATTTATTTCTATA
Found at i:33585576 original size:45 final size:47
Alignment explanation
Indices: 33585527--33585630 Score: 115
Period size: 45 Copynumber: 2.3 Consensus size: 47
33585517 ATGCTATCCG
* * *
33585527 GAGCTCCCTGATAAT-AACTCTTCGGAGTTACCTGTTAAGCTC-AAT
1 GAGCTTCCTGATAATAAACTCTTAGGAGTTACCTGTTAAGCCCGAAT
* * * *
33585572 GAGCTTCCTG-TTATAAACTCTTATGAGTTTCCTGTTTAGCCCGAAT
1 GAGCTTCCTGATAATAAACTCTTAGGAGTTACCTGTTAAGCCCGAAT
*
33585618 AAGCTTCCTGATA
1 GAGCTTCCTGATA
33585631 CATGGCTCAC
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
44 3 0.06
45 31 0.66
46 12 0.26
47 1 0.02
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (47 bp):
GAGCTTCCTGATAATAAACTCTTAGGAGTTACCTGTTAAGCCCGAAT
Found at i:33588458 original size:50 final size:49
Alignment explanation
Indices: 33588337--33588462 Score: 164
Period size: 50 Copynumber: 2.6 Consensus size: 49
33588327 TTGGTACGCA
* * ** *
33588337 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATAGTCTGGTATACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCTAATACACG
* *
33588386 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCA-TCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-C-CAACAGTCTAATACACG
33588436 TAGTAGCCTGCACTTAGTACTACACAC
1 TAGTAGCCTGCACTTAGTACTACACAC
33588463 TTGATCACAG
Statistics
Matches: 68, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
49 29 0.43
50 36 0.53
51 3 0.04
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCTAATACACG
Found at i:33590709 original size:15 final size:15
Alignment explanation
Indices: 33590653--33590717 Score: 73
Period size: 15 Copynumber: 4.4 Consensus size: 15
33590643 TAAAGATAAC
*
33590653 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
33590667 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
*
33590682 GAA-AAACCCAGAATA
1 -AAGAAATCCAGAATA
33590697 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
33590712 AAGAAA
1 AAGAAA
33590718 CCCAAGATAC
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
14 11 0.26
15 29 0.67
16 3 0.07
ACGTcount: A:0.63, C:0.14, G:0.14, T:0.09
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:33590719 original size:30 final size:31
Alignment explanation
Indices: 33590653--33590721 Score: 92
Period size: 30 Copynumber: 2.3 Consensus size: 31
33590643 TAAAGATAAC
*
33590653 AAGAAAACC-GAATAAAGAAATCCAAGATAG
1 AAGAAACCCAGAATAAAGAAATCCAAGATAG
33590683 AA-AAACCCAGAATAAAGAAATCC-AGAATA-
1 AAGAAACCCAGAATAAAGAAATCCAAG-ATAG
33590712 AAGAAACCCA
1 AAGAAACCCA
33590722 AGATACGATA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
29 9 0.26
30 26 0.74
ACGTcount: A:0.61, C:0.17, G:0.13, T:0.09
Consensus pattern (31 bp):
AAGAAACCCAGAATAAAGAAATCCAAGATAG
Found at i:33593174 original size:23 final size:22
Alignment explanation
Indices: 33593121--33593176 Score: 58
Period size: 23 Copynumber: 2.5 Consensus size: 22
33593111 ATATATGCTC
* * *
33593121 ATAAGAGCTTACTATTCAGCTCG
1 ATAA-AGCTTACCATTCAACTCA
*
33593144 ATAGAGCTTACCATTTCAACTCA
1 ATAAAGCTTACCA-TTCAACTCA
33593167 ATAAAGCTTA
1 ATAAAGCTTA
33593177 TTGTTCATCA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
22 8 0.30
23 19 0.70
ACGTcount: A:0.36, C:0.21, G:0.12, T:0.30
Consensus pattern (22 bp):
ATAAAGCTTACCATTCAACTCA
Done.